BLASTP 2.2.25+


Reference:
Stephen F. Altschul, Thomas L. Madden, Alejandro A. Schäffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database
search programs", Nucleic Acids Res. 25:3389-3402.



Reference for composition-based statistics:
Alejandro A. Schäffer, L. Aravind, Thomas L. Madden, Sergei
Shavirin, John L. Spouge, Yuri I. Wolf, Eugene V. Koonin, and
Stephen F. Altschul (2001), "Improving the accuracy of PSI-BLAST
protein database searches with composition-based statistics and
other refinements", Nucleic Acids Res. 29:2994-3005.



Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF
excluding environmental samples from WGS projects
           15,229,318 sequences; 5,219,829,388 total letters



Query= Rv3183

Length=109
                                                                      Score     E
Sequences producing significant alignments:                          (Bits)  Value

gi|15610319|ref|NP_217699.1|  transcriptional regulatory protein ...   213    8e-54
gi|308372449|ref|ZP_07428736.2|  transcriptional regulator [Mycob...   208    2e-52
gi|254552276|ref|ZP_05142723.1|  transcriptional regulator [Mycob...   181    4e-44
gi|240169974|ref|ZP_04748633.1|  putative transcriptional regulat...   173    9e-42
gi|311899627|dbj|BAJ32035.1|  putative transcriptional regulator ...  90.1    9e-17
gi|271968265|ref|YP_003342461.1|  XRE family transcriptional regu...  83.2    1e-14
gi|300790532|ref|YP_003770823.1|  XRE family transcriptional regu...  77.0    8e-13
gi|271968262|ref|YP_003342458.1|  XRE family transcriptional regu...  76.3    1e-12
gi|290960636|ref|YP_003491818.1|  DNA-binding protein [Streptomyc...  73.6    9e-12
gi|290956142|ref|YP_003487324.1|  transcriptional regulator [Stre...  70.5    7e-11
gi|302550878|ref|ZP_07303220.1|  predicted protein [Streptomyces ...  69.7    1e-10
gi|158317564|ref|YP_001510072.1|  XRE family transcriptional regu...  67.8    5e-10
gi|86741569|ref|YP_481969.1|  XRE family transcriptional regulato...  67.4    6e-10
gi|288919655|ref|ZP_06413983.1|  transcriptional regulator, XRE f...  67.4    7e-10
gi|302559948|ref|ZP_07312290.1|  xre family toxin-antitoxin syste...  67.0    9e-10
gi|255327117|ref|ZP_05368192.1|  transcriptional regulator [Rothi...  67.0    9e-10
gi|297159044|gb|ADI08756.1|  putative transcriptional regulator [...  66.6    1e-09
gi|86739106|ref|YP_479506.1|  XRE family transcriptional regulato...  64.7    5e-09
gi|15609158|ref|NP_216537.1|  transcriptional regulatory protein ...  63.9    8e-09
gi|331695181|ref|YP_004331420.1|  helix-turn-helix domain-contain...  63.5    1e-08
gi|336176261|ref|YP_004581636.1|  helix-turn-helix domain-contain...  63.2    1e-08
gi|139439319|ref|ZP_01772761.1|  Hypothetical protein COLAER_0177...  63.2    1e-08
gi|288917052|ref|ZP_06411423.1|  transcriptional regulator, XRE f...  62.4    2e-08
gi|271963921|ref|YP_003338117.1|  XRE family transcriptional regu...  62.4    2e-08
gi|271969745|ref|YP_003343941.1|  XRE family transcriptional regu...  62.0    3e-08
gi|340627032|ref|YP_004745484.1|  putative transcriptional regula...  62.0    3e-08
gi|83956372|ref|ZP_00964797.1|  possible transcriptional regulato...  60.8    6e-08
gi|295105862|emb|CBL03405.1|  Helix-turn-helix. [Gordonibacter pa...  60.1    1e-07
gi|288920055|ref|ZP_06414374.1|  transcriptional regulator, XRE f...  59.7    1e-07
gi|302865475|ref|YP_003834112.1|  helix-turn-helix domain-contain...  59.7    1e-07
gi|339445401|ref|YP_004711405.1|  hypothetical protein EGYY_18710...  59.3    2e-07
gi|302865402|ref|YP_003834039.1|  helix-turn-helix domain-contain...  58.9    3e-07
gi|312195719|ref|YP_004015780.1|  hypothetical protein FraEuI1c_1...  58.5    3e-07
gi|320010824|gb|ADW05674.1|  helix-turn-helix domain protein [Str...  57.4    7e-07
gi|302560054|ref|ZP_07312396.1|  helix-turn-helix domain-containi...  57.4    8e-07
gi|291298156|ref|YP_003509434.1|  XRE family transcriptional regu...  57.4    8e-07
gi|229492897|ref|ZP_04386693.1|  transcriptional regulator, XRE f...  57.0    8e-07
gi|271967923|ref|YP_003342119.1|  helix-turn-helix domain-contain...  57.0    8e-07
gi|315501167|ref|YP_004080054.1|  helix-turn-helix domain-contain...  56.2    1e-06
gi|213692218|ref|YP_002322804.1|  transcriptional regulator, XRE ...  55.1    3e-06
gi|257791669|ref|YP_003182275.1|  XRE family transcriptional regu...  54.3    5e-06
gi|336176640|ref|YP_004582015.1|  helix-turn-helix domain-contain...  54.3    6e-06
gi|297563266|ref|YP_003682240.1|  XRE family transcriptional regu...  53.5    9e-06
gi|41410366|ref|NP_963202.1|  hypothetical protein MAP4268c [Myco...  53.5    1e-05
gi|17228099|ref|NP_484647.1|  hypothetical protein all0603 [Nosto...  51.6    4e-05
gi|302559460|ref|ZP_07311802.1|  xre family toxin-antitoxin syste...  51.2    4e-05
gi|239906136|ref|YP_002952875.1|  Xre family DNA-binding protein ...  51.2    5e-05
gi|333911975|ref|YP_004485707.1|  helix-turn-helix domain-contain...  50.8    6e-05
gi|260775777|ref|ZP_05884673.1|  transcriptional regulator XRE fa...  50.8    6e-05
gi|340776371|ref|ZP_08696314.1|  putative transcriptional regulat...  50.4    9e-05


>gi|15610319|ref|NP_217699.1| transcriptional regulatory protein [Mycobacterium tuberculosis 
H37Rv]
 gi|15842764|ref|NP_337801.1| hypothetical protein MT3275 [Mycobacterium tuberculosis CDC1551]
 gi|31794361|ref|NP_856854.1| transcriptional regulatory protein [Mycobacterium bovis AF2122/97]
 61 more sequence titles
 Length=109

 Score =  213 bits (542),  Expect = 8e-54, Method: Compositional matrix adjust.
 Identities = 109/109 (100%), Positives = 109/109 (100%), Gaps = 0/109 (0%)

Query  1    MTMARNWRDIRADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAALM  60
            MTMARNWRDIRADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAALM
Sbjct  1    MTMARNWRDIRADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAALM  60

Query  61   GVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGENTVELTA  109
            GVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGENTVELTA
Sbjct  61   GVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGENTVELTA  109


>gi|308372449|ref|ZP_07428736.2| transcriptional regulator [Mycobacterium tuberculosis SUMu004]
 gi|308374797|ref|ZP_07437440.2| transcriptional regulator [Mycobacterium tuberculosis SUMu006]
 gi|308376015|ref|ZP_07445835.2| transcriptional regulator [Mycobacterium tuberculosis SUMu007]
 15 more sequence titles
 Length=107

 Score =  208 bits (529),  Expect = 2e-52, Method: Compositional matrix adjust.
 Identities = 107/107 (100%), Positives = 107/107 (100%), Gaps = 0/107 (0%)

Query  3    MARNWRDIRADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAALMGV  62
            MARNWRDIRADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAALMGV
Sbjct  1    MARNWRDIRADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAALMGV  60

Query  63   SQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGENTVELTA  109
            SQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGENTVELTA
Sbjct  61   SQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGENTVELTA  107


>gi|254552276|ref|ZP_05142723.1| transcriptional regulator [Mycobacterium tuberculosis '98-R604 
INH-RIF-EM']
Length=98

 Score =  181 bits (459),  Expect = 4e-44, Method: Compositional matrix adjust.
 Identities = 93/93 (100%), Positives = 93/93 (100%), Gaps = 0/93 (0%)

Query  1   MTMARNWRDIRADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAALM  60
           MTMARNWRDIRADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAALM
Sbjct  1   MTMARNWRDIRADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAALM  60

Query  61  GVSQARVSKLESGDLSHTELGTLQAYVAALGGH  93
           GVSQARVSKLESGDLSHTELGTLQAYVAALGGH
Sbjct  61  GVSQARVSKLESGDLSHTELGTLQAYVAALGGH  93


>gi|240169974|ref|ZP_04748633.1| putative transcriptional regulatory protein [Mycobacterium kansasii 
ATCC 12478]
Length=109

 Score =  173 bits (438),  Expect = 9e-42, Method: Compositional matrix adjust.
 Identities = 89/109 (82%), Positives = 100/109 (92%), Gaps = 0/109 (0%)

Query  1    MTMARNWRDIRADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAALM  60
            M +ARNWR+IRA+AVAQGR+D  RA  AR+EM DAV A RLA+IRKA GHARQADVAALM
Sbjct  1    MIVARNWREIRAEAVAQGRLDPARADAARKEMHDAVQAQRLADIRKAHGHARQADVAALM  60

Query  61   GVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGENTVELTA  109
            GVSQARVSKLESGDLSHTELGTLQ+YVAALGG+LRIVA+FGE++VELTA
Sbjct  61   GVSQARVSKLESGDLSHTELGTLQSYVAALGGNLRIVADFGESSVELTA  109


>gi|311899627|dbj|BAJ32035.1| putative transcriptional regulator [Kitasatospora setae KM-6054]
Length=103

 Score = 90.1 bits (222),  Expect = 9e-17, Method: Compositional matrix adjust.
 Identities = 51/102 (50%), Positives = 67/102 (66%), Gaps = 5/102 (4%)

Query  1    MTMARNWRDIRADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAALM  60
            MTMAR+W+D+R + V     D +R A  R  +   V A+RLAEIR+      Q +VA L+
Sbjct  1    MTMARSWKDVRTEVVT----DEERVAAHRTRLDAEVRAYRLAEIRREQDLT-QTEVAELI  55

Query  61   GVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGE  102
            GV+Q  VS+LE GDL  T LGTL+ YV ALGG L +VA+FG+
Sbjct  56   GVTQPNVSRLERGDLEGTSLGTLREYVEALGGRLHLVADFGD  97


>gi|271968265|ref|YP_003342461.1| XRE family transcriptional regulator [Streptosporangium roseum 
DSM 43021]
 gi|270511440|gb|ACZ89718.1| putative transcriptional regulator, XRE family [Streptosporangium 
roseum DSM 43021]
Length=109

 Score = 83.2 bits (204),  Expect = 1e-14, Method: Compositional matrix adjust.
 Identities = 47/109 (44%), Positives = 72/109 (67%), Gaps = 3/109 (2%)

Query  1    MTMARNWRDIRADA--VAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAA  58
            M+ AR W++++A+A  +       +R A A  E+   V  + L E+RK+LG   QADVAA
Sbjct  1    MSPARRWQEVKAEAHRLHPELAAPERQAAAEAELDAYVAGYHLKELRKSLGKT-QADVAA  59

Query  59   LMGVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGENTVEL  107
             +G+SQ+RVS++E+GDL   EL TL+AY AALGGH+ +    G ++V++
Sbjct  60   ALGISQSRVSQIENGDLDAMELETLRAYAAALGGHVDVTISVGPHSVKV  108


>gi|300790532|ref|YP_003770823.1| XRE family transcriptional regulator [Amycolatopsis mediterranei 
U32]
 gi|299800046|gb|ADJ50421.1| XRE family transcriptional regulator [Amycolatopsis mediterranei 
U32]
 gi|340532217|gb|AEK47422.1| XRE family transcriptional regulator [Amycolatopsis mediterranei 
S699]
Length=121

 Score = 77.0 bits (188),  Expect = 8e-13, Method: Compositional matrix adjust.
 Identities = 47/112 (42%), Positives = 70/112 (63%), Gaps = 7/112 (6%)

Query  3    MARNWRDIRADAVAQGR-----VDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVA  57
            M R+W++++A+ +A  R     VD  R A ARE     VL  RLA++R+  G + Q ++A
Sbjct  2    MTRSWKEVKAEKLAIDREAGRDVDAARIA-AREATEAYVLGFRLAQLREDAGVS-QTELA  59

Query  58   ALMGVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGENTVELTA  109
              MGVSQ R+S+LE GD     L TL+ Y+ ALGG +R+VA+F +  V ++A
Sbjct  60   RSMGVSQPRISQLEQGDPGQMALDTLRRYITALGGRMRVVADFDDRDVTVSA  111


>gi|271968262|ref|YP_003342458.1| XRE family transcriptional regulator [Streptosporangium roseum 
DSM 43021]
 gi|270511437|gb|ACZ89715.1| putative transcriptional regulator, XRE family [Streptosporangium 
roseum DSM 43021]
Length=112

 Score = 76.3 bits (186),  Expect = 1e-12, Method: Compositional matrix adjust.
 Identities = 50/108 (47%), Positives = 71/108 (66%), Gaps = 13/108 (12%)

Query  4    ARNWRDIRADAVAQGRVDLQRAAVAREEMRDAVLA----HRLAEIRKALGHARQADVAAL  59
            A  W ++RA+ V     D Q  A    ++RD ++A    ++LAE R+ LG  RQ DVA  
Sbjct  5    AVTWEELRAELVQPS--DEQEVA----QLRDGLVARQRAYQLAEARRKLGL-RQEDVAQA  57

Query  60   MGVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGENTVEL  107
            MGVSQAR+S++ESG +S  E+ TL AYV ALGG L++VA+FG++ + L
Sbjct  58   MGVSQARISQIESGVIS--EVATLAAYVTALGGQLKVVADFGDSVMVL  103


>gi|290960636|ref|YP_003491818.1| DNA-binding protein [Streptomyces scabiei 87.22]
 gi|260650162|emb|CBG73278.1| putative DNA-binding protein [Streptomyces scabiei 87.22]
Length=112

 Score = 73.6 bits (179),  Expect = 9e-12, Method: Compositional matrix adjust.
 Identities = 39/69 (57%), Positives = 49/69 (72%), Gaps = 1/69 (1%)

Query  39   HRLAEIRKALGHARQADVAALMGVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVA  98
            HRLAE+RK   H  Q  VA  MGV+QARVS++E G L  +E+ TL AYV ALGG L+IVA
Sbjct  44   HRLAELRKRQ-HTTQVQVAEAMGVTQARVSRIEKGQLERSEVDTLAAYVKALGGKLKIVA  102

Query  99   EFGENTVEL  107
            +FG+ +  L
Sbjct  103  DFGDESYVL  111


>gi|290956142|ref|YP_003487324.1| transcriptional regulator [Streptomyces scabiei 87.22]
 gi|260645668|emb|CBG68759.1| putative transcriptional regulatory protein [Streptomyces scabiei 
87.22]
Length=111

 Score = 70.5 bits (171),  Expect = 7e-11, Method: Compositional matrix adjust.
 Identities = 38/72 (53%), Positives = 52/72 (73%), Gaps = 1/72 (1%)

Query  36   VLAHRLAEIRKALGHARQADVAALMGVSQARVSKLESGDLSHTELGTLQAYVAALGGHLR  95
            V A+RLAE+RK   H  Q  VA ++GV+Q RVS +E G LS +E+ TL AYV ALGG L+
Sbjct  40   VRAYRLAEVRKR-QHMTQTAVAKILGVTQGRVSAIEKGALSRSEVDTLAAYVEALGGKLK  98

Query  96   IVAEFGENTVEL  107
            +VA+FG+ ++ L
Sbjct  99   LVADFGDESLVL  110


>gi|302550878|ref|ZP_07303220.1| predicted protein [Streptomyces viridochromogenes DSM 40736]
 gi|302468496|gb|EFL31589.1| predicted protein [Streptomyces viridochromogenes DSM 40736]
Length=117

 Score = 69.7 bits (169),  Expect = 1e-10, Method: Compositional matrix adjust.
 Identities = 36/66 (55%), Positives = 49/66 (75%), Gaps = 1/66 (1%)

Query  37   LAHRLAEIRKALGHARQADVAALMGVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRI  96
            L H LAE+R+  G   QA+VA  MGVSQ RVS +E+GD+   ++ ++ AY+AALGGHLR+
Sbjct  39   LGHHLAELRRQRG-LTQAEVAEKMGVSQVRVSHMENGDIDRMQVESIAAYIAALGGHLRL  97

Query  97   VAEFGE  102
            VA+ GE
Sbjct  98   VADIGE  103


>gi|158317564|ref|YP_001510072.1| XRE family transcriptional regulator [Frankia sp. EAN1pec]
 gi|158112969|gb|ABW15166.1| transcriptional regulator, XRE family [Frankia sp. EAN1pec]
Length=104

 Score = 67.8 bits (164),  Expect = 5e-10, Method: Compositional matrix adjust.
 Identities = 46/103 (45%), Positives = 59/103 (58%), Gaps = 4/103 (3%)

Query  1    MTMARNWRDIRADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAALM  60
            MT   +W DIRAD +  G  D +  A  R      + A  LAE RK LG   Q +VA LM
Sbjct  1    MTEFHDWDDIRAD-LHDG--DDEALAAERGRTEAWISAFHLAEERKRLGLT-QREVAELM  56

Query  61   GVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGEN  103
            GVS  RVS++E+GDL   E+ TL  Y  ALG  LRI+ ++G +
Sbjct  57   GVSPGRVSQIENGDLDANEVATLSRYARALGARLRIIFDYGND  99


>gi|86741569|ref|YP_481969.1| XRE family transcriptional regulator [Frankia sp. CcI3]
 gi|86568431|gb|ABD12240.1| transcriptional regulator, XRE family [Frankia sp. CcI3]
Length=109

 Score = 67.4 bits (163),  Expect = 6e-10, Method: Compositional matrix adjust.
 Identities = 43/103 (42%), Positives = 61/103 (60%), Gaps = 6/103 (5%)

Query  1    MTMARNWRDIRADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAALM  60
            MT    W D+RAD +A     L  A   R   +  +  HRLAE R+ LG   Q +VA  M
Sbjct  1    MTRFPRWNDVRADLIADAEETLTEA---RRRNQAYIDGHRLAERRRLLGLT-QTEVAEHM  56

Query  61   GVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGEN  103
            GVS++RVS++E GD+S  ++  +  YV ALGG ++I A FG++
Sbjct  57   GVSKSRVSQIERGDVSTVDV--IARYVQALGGQIQITAVFGDD  97


>gi|288919655|ref|ZP_06413983.1| transcriptional regulator, XRE family [Frankia sp. EUN1f]
 gi|288348944|gb|EFC83193.1| transcriptional regulator, XRE family [Frankia sp. EUN1f]
Length=104

 Score = 67.4 bits (163),  Expect = 7e-10, Method: Compositional matrix adjust.
 Identities = 45/103 (44%), Positives = 58/103 (57%), Gaps = 4/103 (3%)

Query  1    MTMARNWRDIRADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAALM  60
            MT   +W DIRA+   Q   D +  A  R      + A  LAE RK LG   Q +VA LM
Sbjct  1    MTEFHDWDDIRAE---QHDGDDEALAAERGRTEAWISAFHLAEERKRLGLT-QREVAELM  56

Query  61   GVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGEN  103
            GVS  RVS++E+GDL   E+ TL  Y  ALG  LRI+ ++G +
Sbjct  57   GVSPGRVSQIENGDLDANEVATLSRYARALGARLRIIFDYGND  99


>gi|302559948|ref|ZP_07312290.1| xre family toxin-antitoxin system, antitoxin component [Streptomyces 
griseoflavus Tu4000]
 gi|302477566|gb|EFL40659.1| xre family toxin-antitoxin system, antitoxin component [Streptomyces 
griseoflavus Tu4000]
Length=112

 Score = 67.0 bits (162),  Expect = 9e-10, Method: Compositional matrix adjust.
 Identities = 37/67 (56%), Positives = 47/67 (71%), Gaps = 1/67 (1%)

Query  36   VLAHRLAEIRKALGHARQADVAALMGVSQARVSKLESGDLSHTELGTLQAYVAALGGHLR  95
            V AH+LAE+R+      Q  VAA MGVS  RVS +E G+L   E+ TL+AYV ALGG LR
Sbjct  41   VRAHKLAEVRREQALT-QRQVAASMGVSAPRVSAIEHGELDRAEVATLRAYVEALGGRLR  99

Query  96   IVAEFGE  102
            +VA+FG+
Sbjct  100  VVADFGD  106


>gi|255327117|ref|ZP_05368192.1| transcriptional regulator [Rothia mucilaginosa ATCC 25296]
 gi|255295735|gb|EET75077.1| transcriptional regulator [Rothia mucilaginosa ATCC 25296]
Length=102

 Score = 67.0 bits (162),  Expect = 9e-10, Method: Compositional matrix adjust.
 Identities = 37/78 (48%), Positives = 49/78 (63%), Gaps = 1/78 (1%)

Query  30   EEMRDAVLAHRLAEIRKALGHARQADVAALMGVSQARVSKLESGDLSHTELGTLQAYVAA  89
            EEM   V A+RL E+R+      Q ++AA + VSQ  VSKLE GDL  T++ TL+ Y+ A
Sbjct  25   EEMIAEVRAYRLRELREQ-AQMTQQNIAAELNVSQNSVSKLERGDLDKTQISTLKRYIEA  83

Query  90   LGGHLRIVAEFGENTVEL  107
            LGG L I A FG+ +  L
Sbjct  84   LGGKLSIEANFGDTSYRL  101


>gi|297159044|gb|ADI08756.1| putative transcriptional regulator [Streptomyces bingchenggensis 
BCW-1]
Length=112

 Score = 66.6 bits (161),  Expect = 1e-09, Method: Compositional matrix adjust.
 Identities = 36/67 (54%), Positives = 47/67 (71%), Gaps = 1/67 (1%)

Query  36   VLAHRLAEIRKALGHARQADVAALMGVSQARVSKLESGDLSHTELGTLQAYVAALGGHLR  95
            V AH+LAE+R+      Q  VAA MGVS  RVS +E G+L   EL T+++YV ALGG LR
Sbjct  41   VRAHKLAEVRREQALT-QRQVAASMGVSAPRVSAIEHGELDRAELATIRSYVEALGGRLR  99

Query  96   IVAEFGE  102
            +VA+FG+
Sbjct  100  VVADFGD  106


>gi|86739106|ref|YP_479506.1| XRE family transcriptional regulator [Frankia sp. CcI3]
 gi|86565968|gb|ABD09777.1| transcriptional regulator, XRE family [Frankia sp. CcI3]
Length=104

 Score = 64.7 bits (156),  Expect = 5e-09, Method: Compositional matrix adjust.
 Identities = 45/105 (43%), Positives = 59/105 (57%), Gaps = 8/105 (7%)

Query  1    MTMARNWRDIRADAVAQGRVDLQRAAVAREEMRDAVLA--HRLAEIRKALGHARQADVAA  58
            MT   +W DIRA+       D   AA+A E  R    A  + LAE RK LG   Q  VA 
Sbjct  1    MTEFHDWEDIRAELH-----DGDDAALAVERARTEAWASAYHLAEERKRLGLT-QRQVAD  54

Query  59   LMGVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGEN  103
            LMGVS  R+S++E+GDL   E+ TL  Y  ALG  +RI+ ++G +
Sbjct  55   LMGVSPGRISQIENGDLDVNEVATLSRYARALGARMRIIFDYGND  99


>gi|15609158|ref|NP_216537.1| transcriptional regulatory protein [Mycobacterium tuberculosis 
H37Rv]
 gi|15841504|ref|NP_336541.1| DNA-binding protein, putative [Mycobacterium tuberculosis CDC1551]
 gi|31793201|ref|NP_855694.1| hypothetical protein Mb2044c [Mycobacterium bovis AF2122/97]
 75 more sequence titles
 Length=101

 Score = 63.9 bits (154),  Expect = 8e-09, Method: Compositional matrix adjust.
 Identities = 46/107 (43%), Positives = 60/107 (57%), Gaps = 9/107 (8%)

Query  3    MARNWRDIRADAVAQGRVDLQRAAVAREE--MRDAVLAHRLAEIRKALGHARQADVAALM  60
            MA   RD+  DAV      + R AV R +  MRD V A RL E+R A     Q  VAAL 
Sbjct  1    MAMTLRDM--DAVRP----VNREAVDRHKARMRDEVRAFRLRELRAAQSLT-QVQVAALA  53

Query  61   GVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGENTVEL  107
             + Q+RVS +E+GD+   ++ TL+ YV+ALGG L I    G+ T  L
Sbjct  54   HIRQSRVSSIENGDIGSAQVNTLRKYVSALGGELDITVRLGDETFTL  100


>gi|331695181|ref|YP_004331420.1| helix-turn-helix domain-containing protein [Pseudonocardia dioxanivorans 
CB1190]
 gi|326949870|gb|AEA23567.1| helix-turn-helix domain protein [Pseudonocardia dioxanivorans 
CB1190]
Length=102

 Score = 63.5 bits (153),  Expect = 1e-08, Method: Compositional matrix adjust.
 Identities = 42/101 (42%), Positives = 60/101 (60%), Gaps = 5/101 (4%)

Query  7    WRDIRADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAALMGVSQAR  66
            W +IR + VA      +R    +  +   V AHRLAE RK  G   Q  VA  MGV+  R
Sbjct  6    WSEIRGEHVAA--AGEERVEQGKTRLLGQVRAHRLAETRKRRGLT-QRQVAQAMGVTVGR  62

Query  67   VSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGENTVEL  107
            VS++E+G+L+  ++  L  YV ALGGHL+IVA FG+  +++
Sbjct  63   VSQIENGELAGIDV--LDRYVHALGGHLQIVANFGDEQIKV  101


>gi|336176261|ref|YP_004581636.1| helix-turn-helix domain-containing protein [Frankia symbiont 
of Datisca glomerata]
 gi|334857241|gb|AEH07715.1| helix-turn-helix domain protein [Frankia symbiont of Datisca 
glomerata]
Length=104

 Score = 63.2 bits (152),  Expect = 1e-08, Method: Compositional matrix adjust.
 Identities = 44/103 (43%), Positives = 58/103 (57%), Gaps = 4/103 (3%)

Query  1    MTMARNWRDIRADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAALM  60
            MT   +W DIRA+ +  G  D +  A  R      V A  LAE R+ LG   Q  VA LM
Sbjct  1    MTEFHDWDDIRAE-LHDG--DGEALAAERARTEAWVSAFHLAEERRRLGLT-QRQVAELM  56

Query  61   GVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGEN  103
            GVS  RVS++E+GDL   E+ TL  Y  ALG  +RI+ ++G +
Sbjct  57   GVSPGRVSQIENGDLDANEVATLSRYARALGARMRIIFDYGND  99


>gi|139439319|ref|ZP_01772761.1| Hypothetical protein COLAER_01777 [Collinsella aerofaciens ATCC 
25986]
 gi|133775343|gb|EBA39163.1| Hypothetical protein COLAER_01777 [Collinsella aerofaciens ATCC 
25986]
Length=100

 Score = 63.2 bits (152),  Expect = 1e-08, Method: Compositional matrix adjust.
 Identities = 38/78 (49%), Positives = 47/78 (61%), Gaps = 1/78 (1%)

Query  30   EEMRDAVLAHRLAEIRKALGHARQADVAALMGVSQARVSKLESGDLSHTELGTLQAYVAA  89
            E  RD + A++LA+IR+ L    QA VA  MGVSQ RVS+LE G+L    L TL  Y  +
Sbjct  22   ERTRDRIEAYKLAQIRR-LKDLTQASVAQSMGVSQKRVSELERGELGSMRLDTLSRYAES  80

Query  90   LGGHLRIVAEFGENTVEL  107
            LGG L    EF + TV L
Sbjct  81   LGGKLVASIEFPDRTVTL  98


>gi|288917052|ref|ZP_06411423.1| transcriptional regulator, XRE family [Frankia sp. EUN1f]
 gi|288351592|gb|EFC85798.1| transcriptional regulator, XRE family [Frankia sp. EUN1f]
Length=108

 Score = 62.4 bits (150),  Expect = 2e-08, Method: Compositional matrix adjust.
 Identities = 36/64 (57%), Positives = 45/64 (71%), Gaps = 1/64 (1%)

Query  38   AHRLAEIRKALGHARQADVAALMGVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIV  97
            AHRLAE+R+ LG   QA+VA  M V Q RVS +E  ++  +EL TL AYV ALGG L I+
Sbjct  39   AHRLAEMRRRLG-LTQAEVADRMHVRQERVSAIERANIDASELRTLAAYVKALGGQLEII  97

Query  98   AEFG  101
            A+FG
Sbjct  98   ADFG  101


>gi|271963921|ref|YP_003338117.1| XRE family transcriptional regulator [Streptosporangium roseum 
DSM 43021]
 gi|270507096|gb|ACZ85374.1| putative transcriptional regulator, XRE family [Streptosporangium 
roseum DSM 43021]
Length=110

 Score = 62.4 bits (150),  Expect = 2e-08, Method: Compositional matrix adjust.
 Identities = 42/103 (41%), Positives = 64/103 (63%), Gaps = 7/103 (6%)

Query  6    NWRDIRADAVA-QGRVDLQRAA---VAREEMRDAVLAHRLAEIRKALGHARQADVAALMG  61
             W D++A A A   R D +RA     AR+     V  ++LAE+RKA G   Q ++A  +G
Sbjct  7    KWTDVKAKARALDPRSDAERAVGQEAARQRREAYVRGYQLAEMRKAAGIT-QVELAEALG  65

Query  62   VSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGENT  104
            V+QAR+SK+E+G++S  ++  ++AYV ALGG + +VA  G  T
Sbjct  66   VTQARISKIENGEVSGIDV--VRAYVTALGGTVDLVATLGNRT  106


>gi|271969745|ref|YP_003343941.1| XRE family transcriptional regulator [Streptosporangium roseum 
DSM 43021]
 gi|270512920|gb|ACZ91198.1| putative transcriptional regulator, XRE family [Streptosporangium 
roseum DSM 43021]
Length=106

 Score = 62.0 bits (149),  Expect = 3e-08, Method: Compositional matrix adjust.
 Identities = 46/112 (42%), Positives = 65/112 (59%), Gaps = 10/112 (8%)

Query  1    MTMARNWRDI----RADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADV  56
            MT  R WR+     RA   A G   ++R       +R+   A RLAE+RK  G   Q  V
Sbjct  1    MTGHRKWRESGHLERAIETAGG---VERFEAETLHLREEAQAWRLAEMRKRRGLT-QNQV  56

Query  57   AALMGVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGENTVELT  108
            A  MGVS  RVS++E GD+S  E+  L  YVAALGG L+++A+FG+  ++++
Sbjct  57   AENMGVSVGRVSQIEKGDVSTREV--LDRYVAALGGTLKLIADFGDEQLKVS  106


>gi|340627032|ref|YP_004745484.1| putative transcriptional regulatory protein [Mycobacterium canettii 
CIPT 140010059]
 gi|340005222|emb|CCC44376.1| putative transcriptional regulatory protein [Mycobacterium canettii 
CIPT 140010059]
Length=101

 Score = 62.0 bits (149),  Expect = 3e-08, Method: Compositional matrix adjust.
 Identities = 45/107 (43%), Positives = 59/107 (56%), Gaps = 9/107 (8%)

Query  3    MARNWRDIRADAVAQGRVDLQRAAVAREE--MRDAVLAHRLAEIRKALGHARQADVAALM  60
            MA   RD+  DAV      + R AV R +  MRD V A RL E+R A     Q  VA L 
Sbjct  1    MAMTLRDM--DAVRP----VNREAVDRHKARMRDEVRAFRLRELRAAQSLT-QVQVAELA  53

Query  61   GVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGENTVEL  107
             + Q+RVS +E+GD+   ++ TL+ YV+ALGG L I    G+ T  L
Sbjct  54   HIRQSRVSSIENGDIGTAQVNTLRKYVSALGGELDITVRLGDETFTL  100


>gi|83956372|ref|ZP_00964797.1| possible transcriptional regulatory protein [Sulfitobacter sp. 
NAS-14.1]
 gi|83839420|gb|EAP78603.1| possible transcriptional regulatory protein [Sulfitobacter sp. 
NAS-14.1]
Length=131

 Score = 60.8 bits (146),  Expect = 6e-08, Method: Compositional matrix adjust.
 Identities = 31/65 (48%), Positives = 46/65 (71%), Gaps = 1/65 (1%)

Query  41   LAEIRKALGHARQADVAALMGVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEF  100
            L EIRKAL    QA++A  +G++Q  +S+ E  +L+ T+L TL+ YV  +GG+LRIVA+F
Sbjct  40   LTEIRKALS-VTQAELAKKVGMAQGDISRFEKAELAGTKLSTLERYVRGMGGNLRIVADF  98

Query  101  GENTV  105
             + TV
Sbjct  99   PDGTV  103


>gi|295105862|emb|CBL03405.1| Helix-turn-helix. [Gordonibacter pamelaeae 7-10-1-b]
Length=100

 Score = 60.1 bits (144),  Expect = 1e-07, Method: Compositional matrix adjust.
 Identities = 42/100 (42%), Positives = 58/100 (58%), Gaps = 12/100 (12%)

Query  20   VDLQRAAVAR---EEMRD--------AVLAHRLAEIRKALGHARQADVAALMGVSQARVS  68
            +D+   A+ R   EEMRD         V A+ LA+ RK      Q +VAA MGVSQ RVS
Sbjct  1    MDIHEYAIKRGVTEEMRDQARRITQAKVDAYDLAQARKERDLT-QREVAAKMGVSQCRVS  59

Query  69   KLESGDLSHTELGTLQAYVAALGGHLRIVAEFGENTVELT  108
            +LE+G L+   + TL  Y+A+LG  L + AE+ + T+ LT
Sbjct  60   ELEAGRLATMRVDTLSRYIASLGRKLVLSAEWPDKTIPLT  99


>gi|288920055|ref|ZP_06414374.1| transcriptional regulator, XRE family [Frankia sp. EUN1f]
 gi|288348538|gb|EFC82796.1| transcriptional regulator, XRE family [Frankia sp. EUN1f]
Length=109

 Score = 59.7 bits (143),  Expect = 1e-07, Method: Compositional matrix adjust.
 Identities = 39/102 (39%), Positives = 58/102 (57%), Gaps = 8/102 (7%)

Query  6    NWRDIR-----ADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAALM  60
            NWR+++     AD        ++R A  R +M  +V   +LAEIR+ LG   Q  +A   
Sbjct  5    NWREVKSKARAADPTWDNAERVERRAEMRAQMLASVSGAQLAEIRRQLG-VTQTQLAEAT  63

Query  61   GVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGE  102
            G++QAR+S++E+G      L TL+AY+  LGGHL +VA  G 
Sbjct  64   GLTQARISQIENG--GAMGLDTLRAYITGLGGHLDVVARIGN  103


>gi|302865475|ref|YP_003834112.1| helix-turn-helix domain-containing protein [Micromonospora aurantiaca 
ATCC 27029]
 gi|315502022|ref|YP_004080909.1| helix-turn-helix domain-containing protein [Micromonospora sp. 
L5]
 gi|302568334|gb|ADL44536.1| helix-turn-helix domain protein [Micromonospora aurantiaca ATCC 
27029]
 gi|315408641|gb|ADU06758.1| helix-turn-helix domain protein [Micromonospora sp. L5]
Length=103

 Score = 59.7 bits (143),  Expect = 1e-07, Method: Compositional matrix adjust.
 Identities = 42/103 (41%), Positives = 59/103 (58%), Gaps = 5/103 (4%)

Query  1    MTMARNWRDIRADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAALM  60
            MT   +W ++RA+    G  +   A  AR +    V A  LAE RK LG   Q  VA +M
Sbjct  1    MTEFYHWDEVRAEL--GGDDEAYEAERARTDA--WVSAFHLAEERKRLGLT-QRQVAEIM  55

Query  61   GVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGEN  103
            GV+  RVS++E+GDL   E+ TL  Y  ALG  LRI+ ++G++
Sbjct  56   GVTPGRVSQIENGDLDVNEVATLSRYANALGARLRIIFDYGDD  98


>gi|339445401|ref|YP_004711405.1| hypothetical protein EGYY_18710 [Eggerthella sp. YY7918]
 gi|338905153|dbj|BAK45004.1| hypothetical protein EGYY_18710 [Eggerthella sp. YY7918]
Length=111

 Score = 59.3 bits (142),  Expect = 2e-07, Method: Compositional matrix adjust.
 Identities = 31/73 (43%), Positives = 47/73 (65%), Gaps = 1/73 (1%)

Query  36   VLAHRLAEIRKALGHARQADVAALMGVSQARVSKLESGDLSHTELGTLQAYVAALGGHLR  95
            +  + L + RKA  H  Q ++AA MGVSQ R+S LE+G +   ++ TL+ Y+A LGG L 
Sbjct  33   IKGYELQQARKAC-HITQKELAAQMGVSQKRISDLENGSIDVMQVDTLRRYIAGLGGTLE  91

Query  96   IVAEFGENTVELT  108
            I A+  + T++LT
Sbjct  92   INAKLPQGTIQLT  104


>gi|302865402|ref|YP_003834039.1| helix-turn-helix domain-containing protein [Micromonospora aurantiaca 
ATCC 27029]
 gi|315501947|ref|YP_004080834.1| helix-turn-helix domain-containing protein [Micromonospora sp. 
L5]
 gi|302568261|gb|ADL44463.1| helix-turn-helix domain protein [Micromonospora aurantiaca ATCC 
27029]
 gi|315408566|gb|ADU06683.1| helix-turn-helix domain protein [Micromonospora sp. L5]
Length=105

 Score = 58.9 bits (141),  Expect = 3e-07, Method: Compositional matrix adjust.
 Identities = 43/106 (41%), Positives = 63/106 (60%), Gaps = 6/106 (5%)

Query  1    MTMARNWRDIRADAVAQGRVDLQRAAVA-REEMRDAVLAHRLAEIRKALGHARQADVAAL  59
            M+    W+DIRAD VA  RV  + A  A ++E+   V+ HRLAE+R+A G  +Q  VA  
Sbjct  1    MSDYSRWQDIRADHVA--RVGGEDAVDAGKQELLAEVIGHRLAEVRRARGLTQQ-QVADR  57

Query  60   MGVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGENTV  105
            MGV++ RVS++E G +S  E+  +  + AALGG L     F +  +
Sbjct  58   MGVTKGRVSQIEQGKISGQEV--VARFAAALGGRLHQAIYFDDGDI  101


>gi|312195719|ref|YP_004015780.1| hypothetical protein FraEuI1c_1854 [Frankia sp. EuI1c]
 gi|311227055|gb|ADP79910.1| helix-turn-helix domain protein [Frankia sp. EuI1c]
Length=104

 Score = 58.5 bits (140),  Expect = 3e-07, Method: Compositional matrix adjust.
 Identities = 43/101 (43%), Positives = 56/101 (56%), Gaps = 4/101 (3%)

Query  1    MTMARNWRDIRADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAALM  60
            MT   +W D+RA+ +  G  +   A  AR E    + A  LAE R  LG   Q  VA  M
Sbjct  1    MTEFYDWDDLRAE-LHDGDDEALAAERARTEA--WISAFHLAEERTRLGLT-QRQVAESM  56

Query  61   GVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFG  101
            GVS  RVS++E+GDL   E+ TL  Y  ALG  LRI+ ++G
Sbjct  57   GVSPGRVSQIENGDLDANEVATLSRYARALGARLRIIFDYG  97


>gi|320010824|gb|ADW05674.1| helix-turn-helix domain protein [Streptomyces flavogriseus ATCC 
33331]
Length=101

 Score = 57.4 bits (137),  Expect = 7e-07, Method: Compositional matrix adjust.
 Identities = 39/99 (40%), Positives = 55/99 (56%), Gaps = 5/99 (5%)

Query  9    DIRADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAALMGVSQARVS  68
            D+ AD   + R    R    + EM DA   H LA +RKA G   Q  VA  MGV+Q R+S
Sbjct  8    DLAADITPEKRA---RIDAIKSEMVDAERGHELASLRKAQGMT-QVQVAKAMGVTQGRIS  63

Query  69   KLESGDLSHTELGTLQAYVAALGGHLRIVAEFGENTVEL  107
            ++E G +   +  T+ AY+ A+GG L I+A  G  +V+L
Sbjct  64   QIERGGV-RLDTSTMSAYLHAIGGELTILATVGNVSVKL  101


>gi|302560054|ref|ZP_07312396.1| helix-turn-helix domain-containing protein [Streptomyces griseoflavus 
Tu4000]
 gi|302477672|gb|EFL40765.1| helix-turn-helix domain-containing protein [Streptomyces griseoflavus 
Tu4000]
Length=101

 Score = 57.4 bits (137),  Expect = 8e-07, Method: Compositional matrix adjust.
 Identities = 40/99 (41%), Positives = 54/99 (55%), Gaps = 5/99 (5%)

Query  9    DIRADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAALMGVSQARVS  68
            D+ AD   + R   +R    + EM DA   H LA +RKA G   Q  VA  MGV+Q RVS
Sbjct  8    DLTADITPEKR---ERIDAIKAEMIDAERGHELATLRKAQGFT-QVQVAKAMGVTQGRVS  63

Query  69   KLESGDLSHTELGTLQAYVAALGGHLRIVAEFGENTVEL  107
            ++E G  +  +  T+ AY+ A+GG L I A  G  +V L
Sbjct  64   QIERG-TARLDTSTMAAYLHAIGGELTITATVGNLSVRL  101


>gi|291298156|ref|YP_003509434.1| XRE family transcriptional regulator [Stackebrandtia nassauensis 
DSM 44728]
 gi|290567376|gb|ADD40341.1| transcriptional regulator, XRE family [Stackebrandtia nassauensis 
DSM 44728]
Length=101

 Score = 57.4 bits (137),  Expect = 8e-07, Method: Compositional matrix adjust.
 Identities = 37/87 (43%), Positives = 54/87 (63%), Gaps = 4/87 (4%)

Query  23   QRAAV--AREEMRDAVLAHRLAEIRKALGHARQADVAALMGVSQARVSKLESGDLSHTEL  80
            QRA +   ++EM DA   H LA +RKA G   Q+ VA  MGV+Q R+S++ESG  +  + 
Sbjct  17   QRARIDAIKQEMIDAERGHELASLRKAQGLT-QSQVAEAMGVTQGRISQIESGK-TRLDT  74

Query  81   GTLQAYVAALGGHLRIVAEFGENTVEL  107
             T+ AY+ A+GG L I A  G  +++L
Sbjct  75   ETMAAYLHAIGGELTITATVGRLSIQL  101


>gi|229492897|ref|ZP_04386693.1| transcriptional regulator, XRE family [Rhodococcus erythropolis 
SK121]
 gi|229320171|gb|EEN85996.1| transcriptional regulator, XRE family [Rhodococcus erythropolis 
SK121]
Length=104

 Score = 57.0 bits (136),  Expect = 8e-07, Method: Compositional matrix adjust.
 Identities = 30/68 (45%), Positives = 44/68 (65%), Gaps = 1/68 (1%)

Query  36   VLAHRLAEIRKALGHARQADVAALMGVSQARVSKLESGDLSHTELGTLQAYVAALGGHLR  95
            V A+RL E+RK      Q +VA  +GV Q R+S +E GDL+  ++ TL+ YV A+GG LR
Sbjct  33   VRAYRLKELRKNAALT-QGEVADRLGVGQNRISNIERGDLARIQIDTLRRYVEAVGGSLR  91

Query  96   IVAEFGEN  103
            +  E G++
Sbjct  92   VEVELGDD  99


>gi|271967923|ref|YP_003342119.1| helix-turn-helix domain-containing protein [Streptosporangium 
roseum DSM 43021]
 gi|270511098|gb|ACZ89376.1| helix-turn-helix domain protein [Streptosporangium roseum DSM 
43021]
Length=102

 Score = 57.0 bits (136),  Expect = 8e-07, Method: Compositional matrix adjust.
 Identities = 45/98 (46%), Positives = 55/98 (57%), Gaps = 6/98 (6%)

Query  1   MTMARNWRDIRADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAALM  60
           MT    W D+R +   +   DL  AA+ R    + V A RLA +RK LG  RQ DVA  M
Sbjct  1   MTTFHRWDDVRHEVFDEE--DL--AAIDRGAA-ETVAAVRLAAMRKQLG-LRQVDVAERM  54

Query  61  GVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVA  98
            V Q RVS +E G+ +   L TL AYV ALGG L +VA
Sbjct  55  HVRQERVSAIERGEPTSATLSTLIAYVRALGGQLEVVA  92


>gi|315501167|ref|YP_004080054.1| helix-turn-helix domain-containing protein [Micromonospora sp. 
L5]
 gi|315407786|gb|ADU05903.1| helix-turn-helix domain protein [Micromonospora sp. L5]
Length=106

 Score = 56.2 bits (134),  Expect = 1e-06, Method: Compositional matrix adjust.
 Identities = 33/77 (43%), Positives = 51/77 (67%), Gaps = 3/77 (3%)

Query  31   EMRDAVLAHRLAEIRKALGHARQADVAALMGVSQARVSKLESGDLSHTELGTLQAYVAAL  90
            EM D     RLAE+RK      Q  VA+ MGVS ARVS++E+G+++  E+  L  Y+ AL
Sbjct  32   EMLDQARGWRLAELRKRR-EMTQEQVASRMGVSVARVSQIEAGNVATQEV--LARYIGAL  88

Query  91   GGHLRIVAEFGENTVEL  107
            GG L+++A+FG+  +++
Sbjct  89   GGTLKLIADFGDEQLKV  105


>gi|213692218|ref|YP_002322804.1| transcriptional regulator, XRE family [Bifidobacterium longum 
subsp. infantis ATCC 15697]
 gi|213523679|gb|ACJ52426.1| putative transcriptional regulator, XRE family [Bifidobacterium 
longum subsp. infantis ATCC 15697]
 gi|320458344|dbj|BAJ68965.1| conserved hypothetical protein [Bifidobacterium longum subsp. 
infantis ATCC 15697]
Length=102

 Score = 55.1 bits (131),  Expect = 3e-06, Method: Compositional matrix adjust.
 Identities = 36/81 (45%), Positives = 49/81 (61%), Gaps = 8/81 (9%)

Query  25  AAVAREEMRDAVLAHRLAEIR-KALGHAR------QADVAALMGVSQARVSKLESGDLSH  77
           + ++REE+ DA     L E+R   L  AR      Q  +A  MGVSQ RVS LESGD+  
Sbjct  12  SGISREEI-DAAKNRLLEEVRLYELKEARKRQDVTQKQLAERMGVSQKRVSSLESGDVDK  70

Query  78  TELGTLQAYVAALGGHLRIVA  98
           TE+ TL+ Y+ A+GG L++ A
Sbjct  71  TEIRTLRRYLDAIGGKLQVNA  91


>gi|257791669|ref|YP_003182275.1| XRE family transcriptional regulator [Eggerthella lenta DSM 2243]
 gi|317487865|ref|ZP_07946457.1| hypothetical protein HMPREF1023_00155 [Eggerthella sp. 1_3_56FAA]
 gi|325830628|ref|ZP_08164049.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
 gi|257475566|gb|ACV55886.1| transcriptional regulator, XRE family [Eggerthella lenta DSM 
2243]
 gi|316912991|gb|EFV34508.1| hypothetical protein HMPREF1023_00155 [Eggerthella sp. 1_3_56FAA]
 gi|325487374|gb|EGC89816.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
Length=123

 Score = 54.3 bits (129),  Expect = 5e-06, Method: Compositional matrix adjust.
 Identities = 37/99 (38%), Positives = 56/99 (57%), Gaps = 11/99 (11%)

Query  9    DIRADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAALMGVSQARVS  68
            DI  + + +GR+ L  A +   E++ A         RKA G   Q +VAA MGVSQ R+S
Sbjct  16   DITPEMLEEGRL-LVEAKIKGYELQQA---------RKACGMT-QKEVAAKMGVSQKRIS  64

Query  69   KLESGDLSHTELGTLQAYVAALGGHLRIVAEFGENTVEL  107
             LE+G +   ++ TL+ Y+ +LGG L I A+    ++EL
Sbjct  65   DLENGSIDVMQVETLRRYITSLGGTLEITAKLPGVSLEL  103


>gi|336176640|ref|YP_004582015.1| helix-turn-helix domain-containing protein [Frankia symbiont 
of Datisca glomerata]
 gi|334857620|gb|AEH08094.1| helix-turn-helix domain protein [Frankia symbiont of Datisca 
glomerata]
Length=105

 Score = 54.3 bits (129),  Expect = 6e-06, Method: Compositional matrix adjust.
 Identities = 37/105 (36%), Positives = 60/105 (58%), Gaps = 4/105 (3%)

Query  1    MTMARNWRDIRADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAALM  60
            M+    W D+RA+ VA+   + +  A  ++E+    + HRLAE+R+A G  +Q  VA  M
Sbjct  1    MSGYVRWADVRAEQVARAGGE-EAVAAGKQELLAVAVGHRLAEVRRARGLTQQ-QVAERM  58

Query  61   GVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGENTV  105
            GV++ R+S++E G LS  ++  +  Y AALGG L     F +  +
Sbjct  59   GVTKGRISQIEQGSLSGQDV--VARYAAALGGRLHQAIYFDDGDI  101


>gi|297563266|ref|YP_003682240.1| XRE family transcriptional regulator [Nocardiopsis dassonvillei 
subsp. dassonvillei DSM 43111]
 gi|296847714|gb|ADH69734.1| transcriptional regulator, XRE family [Nocardiopsis dassonvillei 
subsp. dassonvillei DSM 43111]
Length=135

 Score = 53.5 bits (127),  Expect = 9e-06, Method: Compositional matrix adjust.
 Identities = 40/112 (36%), Positives = 65/112 (59%), Gaps = 14/112 (12%)

Query  4    ARNWRDIRADAVAQGRVDLQRAAVAREEMRDAVLA--------HRLAEIRKALGHARQAD  55
            AR+WR+I+A++  Q   D   A+   + + DA  A        + L+ +RK  G   Q +
Sbjct  3    ARSWREIQAESEKQ---DPWFASEEAQAVFDAETARIEAERQGYALSSLRKESGRT-QKE  58

Query  56   VAALMGVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGENTVEL  107
            VA +MGVSQAR+S++E G +   EL  L++Y++A+GG L +  + G  +V L
Sbjct  59   VAQIMGVSQARISQIEHGRIDSLEL--LRSYISAIGGELHLRVDQGPLSVTL  108


>gi|41410366|ref|NP_963202.1| hypothetical protein MAP4268c [Mycobacterium avium subsp. paratuberculosis 
K-10]
 gi|41399200|gb|AAS06818.1| hypothetical protein MAP_4268c [Mycobacterium avium subsp. paratuberculosis 
K-10]
 gi|336460763|gb|EGO39650.1| Helix-turn-helix protein [Mycobacterium avium subsp. paratuberculosis 
S397]
Length=102

 Score = 53.5 bits (127),  Expect = 1e-05, Method: Compositional matrix adjust.
 Identities = 30/66 (46%), Positives = 42/66 (64%), Gaps = 1/66 (1%)

Query  31  EMRDAVLAHRLAEIRKALGHARQADVAALMGVSQARVSKLESGDLSHTELGTLQAYVAAL  90
           EM   V  +RL E+R+A G+  Q  +AA +GV Q RVS++E GDL  + + TL+ YV A 
Sbjct  24  EMDREVAQYRLRELREAAGYT-QTTLAAAIGVGQNRVSQMEHGDLGTSRVDTLRKYVEAT  82

Query  91  GGHLRI  96
           GG L +
Sbjct  83  GGELEV  88


>gi|17228099|ref|NP_484647.1| hypothetical protein all0603 [Nostoc sp. PCC 7120]
 gi|6996281|emb|CAB75424.1| unnamed protein product [Nostoc sp. PCC 7120]
 gi|17129949|dbj|BAB72561.1| all0603 [Nostoc sp. PCC 7120]
Length=101

 Score = 51.6 bits (122),  Expect = 4e-05, Method: Compositional matrix adjust.
 Identities = 29/70 (42%), Positives = 43/70 (62%), Gaps = 3/70 (4%)

Query  36   VLAHRLAEIRKALGHARQADVAALMGVSQARVSKLESGDLSHTELGTLQAYVAALGGHLR  95
            +L   L+E+R++LG   Q DVA  MGV Q+ +SK+E  D    ++ TL  Y+ +LGG L 
Sbjct  29   LLKLTLSELRESLGQT-QGDVAKNMGVVQSALSKIEHQD--DIQISTLSRYIKSLGGSLT  85

Query  96   IVAEFGENTV  105
            I+A F +  V
Sbjct  86   IIACFPDQEV  95


>gi|302559460|ref|ZP_07311802.1| xre family toxin-antitoxin system, antitoxin component [Streptomyces 
griseoflavus Tu4000]
 gi|302477078|gb|EFL40171.1| xre family toxin-antitoxin system, antitoxin component [Streptomyces 
griseoflavus Tu4000]
Length=110

 Score = 51.2 bits (121),  Expect = 4e-05, Method: Compositional matrix adjust.
 Identities = 29/66 (44%), Positives = 43/66 (66%), Gaps = 3/66 (4%)

Query  36   VLAHRLAEIRKALGHARQADVAALMGVSQARVSKLESGDLSHTELGTLQAYVAALGGHLR  95
            V+ H L EIR+  G   Q  VAA +G+SQARVS++E G++ + E  T++AY  ALG  + 
Sbjct  41   VVGHHLREIREEQGLT-QGQVAASVGISQARVSQIERGEIHNLE--TMRAYAEALGARIT  97

Query  96   IVAEFG  101
            +  E+G
Sbjct  98   VTIEYG  103


>gi|239906136|ref|YP_002952875.1| Xre family DNA-binding protein [Desulfovibrio magneticus RS-1]
 gi|239796000|dbj|BAH74989.1| Xre family DNA-binding protein [Desulfovibrio magneticus RS-1]
Length=107

 Score = 51.2 bits (121),  Expect = 5e-05, Method: Compositional matrix adjust.
 Identities = 27/50 (54%), Positives = 34/50 (68%), Gaps = 2/50 (4%)

Query  53   QADVAALMGVSQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGE  102
            QADVA  MGVSQ RV+++ESG   +  L TL+ Y  A GG L+IV E G+
Sbjct  52   QADVAKAMGVSQPRVARIESG--KNVSLETLRRYAKATGGRLKIVIEPGK  99


>gi|333911975|ref|YP_004485707.1| helix-turn-helix domain-containing protein [Delftia sp. Cs1-4]
 gi|333742175|gb|AEF87352.1| helix-turn-helix domain protein [Delftia sp. Cs1-4]
Length=103

 Score = 50.8 bits (120),  Expect = 6e-05, Method: Compositional matrix adjust.
 Identities = 39/105 (38%), Positives = 60/105 (58%), Gaps = 9/105 (8%)

Query  3    MARNWRDIRADAVAQGRVDLQRAAVAREEMRDAVLAHRLAEIRKALGHARQADVAALMGV  62
            MAR + ++RA    + +    RAA   E M   ++  +L E+RKA  +  Q +VA  M V
Sbjct  1    MARKFSELRARMSPEAQ---SRAAARAEAM---LVEMQLQELRKA-RNVTQVEVARAMNV  53

Query  63   SQARVSKLESGDLSHTELGTLQAYVAALGGHLRIVAEFGENTVEL  107
             QA +SKLE  +  +  + TL+ YV ALGG LR+VA F +  +++
Sbjct  54   EQASISKLERREDMY--VSTLREYVRALGGELRLVASFPDADIQV  96


>gi|260775777|ref|ZP_05884673.1| transcriptional regulator XRE family [Vibrio coralliilyticus 
ATCC BAA-450]
 gi|260608193|gb|EEX34362.1| transcriptional regulator XRE family [Vibrio coralliilyticus 
ATCC BAA-450]
Length=104

 Score = 50.8 bits (120),  Expect = 6e-05, Method: Compositional matrix adjust.
 Identities = 27/68 (40%), Positives = 47/68 (70%), Gaps = 2/68 (2%)

Query  26  AVAREEMRDAVLAHRLAEIRKALGHARQADVAALMGVSQARVSKLESGDLSHTELGTLQA  85
           A A+   +D +L  +LA++R++LG   Q+DVA +MG++Q  +S +ES  L + ++ T++ 
Sbjct  21  AKAKHRAKDMLLGMQLAQLRESLG-LTQSDVAKIMGLTQPTISSMESNGL-NLKVETVER  78

Query  86  YVAALGGH  93
           Y+AA GGH
Sbjct  79  YIAACGGH  86


>gi|340776371|ref|ZP_08696314.1| putative transcriptional regulator [Acetobacter aceti NBRC 14818]
Length=113

 Score = 50.4 bits (119),  Expect = 9e-05, Method: Compositional matrix adjust.
 Identities = 35/89 (40%), Positives = 56/89 (63%), Gaps = 8/89 (8%)

Query  20   VDLQRAAVAREEMRDAVLAHRLAEIRKALGHA-RQADVAALMGVSQARVSKLESGDLSHT  78
            V  +RAA+  + M DA+    LAE+R+A  H   Q  +A L+GV+QA V+K+E    +  
Sbjct  17   VSRKRAAMKAQAMADAM---DLAELRRA--HVMSQKQIAELLGVNQASVAKMEK--RTDM  69

Query  79   ELGTLQAYVAALGGHLRIVAEFGENTVEL  107
             + TL++Y+ A+GG L+IVA+F  + V +
Sbjct  70   YISTLRSYIEAMGGELQIVAKFPGHAVPI  98



Lambda     K      H
   0.320    0.129    0.352 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 

Effective search space used: 129509500864


  Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF
excluding environmental samples from WGS projects
    Posted date:  Sep 5, 2011  4:36 AM
  Number of letters in database: 5,219,829,388
  Number of sequences in database:  15,229,318



Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Neighboring words threshold: 11
Window for multiple hits: 40