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= Rv0298

Length=75
                                                                      Score     E
Sequences producing significant alignments:                          (Bits)  Value

gi|15607439|ref|NP_214812.1|  hypothetical protein Rv0298 [Mycoba...   148    3e-34
gi|296164017|ref|ZP_06846641.1|  conserved hypothetical protein [...  99.0    2e-19
gi|108802484|ref|YP_642680.1|  CopG-like DNA-binding protein [Myc...  95.9    2e-18
gi|315037978|ref|YP_004031546.1|  hypothetical protein LA2_03890 ...  35.8    2.3  
gi|218203957|ref|YP_002364810.1|  hypothetical protein PCC8801_45...  33.5    9.5  


>gi|15607439|ref|NP_214812.1| hypothetical protein Rv0298 [Mycobacterium tuberculosis H37Rv]
 gi|15839684|ref|NP_334721.1| CopG family DNA-binding protein [Mycobacterium tuberculosis CDC1551]
 gi|31791477|ref|NP_853970.1| hypothetical protein Mb0306 [Mycobacterium bovis AF2122/97]
 75 more sequence titles
 Length=75

 Score =  148 bits (373),  Expect = 3e-34, Method: Compositional matrix adjust.
 Identities = 75/75 (100%), Positives = 75/75 (100%), Gaps = 0/75 (0%)

Query  1   MTKEKISVTVDAAVLAAIDADARAAGLNRSEMIEQALRNEHLRVALRDYTAKTVPALDID  60
           MTKEKISVTVDAAVLAAIDADARAAGLNRSEMIEQALRNEHLRVALRDYTAKTVPALDID
Sbjct  1   MTKEKISVTVDAAVLAAIDADARAAGLNRSEMIEQALRNEHLRVALRDYTAKTVPALDID  60

Query  61  AYAQRVYQANRAAGS  75
           AYAQRVYQANRAAGS
Sbjct  61  AYAQRVYQANRAAGS  75


>gi|296164017|ref|ZP_06846641.1| conserved hypothetical protein [Mycobacterium parascrofulaceum 
ATCC BAA-614]
 gi|295900641|gb|EFG80023.1| conserved hypothetical protein [Mycobacterium parascrofulaceum 
ATCC BAA-614]
Length=75

 Score = 99.0 bits (245),  Expect = 2e-19, Method: Compositional matrix adjust.
 Identities = 54/74 (73%), Positives = 64/74 (87%), Gaps = 0/74 (0%)

Query  1   MTKEKISVTVDAAVLAAIDADARAAGLNRSEMIEQALRNEHLRVALRDYTAKTVPALDID  60
           M K K+SV ++ AVLAA DADA+AAGLNRSEMIE+AL NEHLR++L +YT  TVP LDID
Sbjct  1   MAKAKVSVMIEEAVLAAADADAQAAGLNRSEMIERALHNEHLRISLENYTTHTVPTLDID  60

Query  61  AYAQRVYQANRAAG  74
           AYA++VYQANRAAG
Sbjct  61  AYAEKVYQANRAAG  74


>gi|108802484|ref|YP_642680.1| CopG-like DNA-binding protein [Mycobacterium sp. MCS]
 gi|119855312|ref|YP_935915.1| CopG/DNA-binding domain-containing protein [Mycobacterium sp. 
KMS]
 gi|108772903|gb|ABG11624.1| CopG-like DNA-binding protein [Mycobacterium sp. MCS]
 gi|119698029|gb|ABL95100.1| CopG domain protein DNA-binding domain protein [Mycobacterium 
sp. KMS]
Length=75

 Score = 95.9 bits (237),  Expect = 2e-18, Method: Compositional matrix adjust.
 Identities = 53/74 (72%), Positives = 65/74 (88%), Gaps = 0/74 (0%)

Query  1   MTKEKISVTVDAAVLAAIDADARAAGLNRSEMIEQALRNEHLRVALRDYTAKTVPALDID  60
           M K+K+SVTVD  VLAA DADA+A G+NRSE+IEQALR+EHLR+AL++YTA TVPAL+ID
Sbjct  1   MAKDKVSVTVDTDVLAAADADAKAIGMNRSELIEQALRHEHLRLALQNYTAHTVPALNID  60

Query  61  AYAQRVYQANRAAG  74
            YA ++YQANRAA 
Sbjct  61  DYAAKIYQANRAAN  74


>gi|315037978|ref|YP_004031546.1| hypothetical protein LA2_03890 [Lactobacillus amylovorus GRL 
1112]
 gi|312276111|gb|ADQ58751.1| hypothetical protein LA2_03890 [Lactobacillus amylovorus GRL 
1112]
Length=109

 Score = 35.8 bits (81),  Expect = 2.3, Method: Compositional matrix adjust.
 Identities = 19/65 (30%), Positives = 33/65 (51%), Gaps = 11/65 (16%)

Query  1   MTKEKISVTVDAAVLAAIDADARAAGLNRSEMIEQALR-----------NEHLRVALRDY  49
           MT  KI++ +DA +   I A+A+   LN++EM+E  ++           N  L+  +R+Y
Sbjct  1   MTTSKIAIKIDAEIYERISAEAKKNNLNKTEMLEFIVKDYFHNQTIEEGNTELKSIIRNY  60

Query  50  TAKTV  54
               V
Sbjct  61  NENLV  65


>gi|218203957|ref|YP_002364810.1| hypothetical protein PCC8801_4534 [Cyanothece sp. PCC 8801]
 gi|218169708|gb|ACK68443.1| conserved hypothetical protein [Cyanothece sp. PCC 8801]
Length=78

 Score = 33.5 bits (75),  Expect = 9.5, Method: Compositional matrix adjust.
 Identities = 22/74 (30%), Positives = 36/74 (49%), Gaps = 3/74 (4%)

Query  1   MTKEKISVTVDAAVLAAIDADARAAGLNRSEMIEQALRNEHLRVALRDYTAKTVPALDID  60
           M K+KI+VT+D  ++  +D   + AG NRSE + + L     +V      A     L+  
Sbjct  1   MGKQKIAVTLDKTLVGFLD---QVAGGNRSEYLNKLLIEHREKVLKAQLIAALAEELEDP  57

Query  61  AYAQRVYQANRAAG  74
            Y Q + + +  AG
Sbjct  58  GYPQELLEWDLVAG  71



Lambda     K      H
   0.316    0.125    0.325 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 

Effective search space used: 131059142040




  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