RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddB 
           21,608 sequences; 5,994,473 total letters

Searching..................................................done

Query= 537021.9.peg.1074_1
         (169 letters)



>gnl|CDD|183986 PRK13342, PRK13342, recombination factor protein RarA; Reviewed.
          Length = 413

 Score = 28.5 bits (65), Expect = 0.99
 Identities = 8/31 (25%), Positives = 15/31 (48%), Gaps = 2/31 (6%)

Query: 18 ESLSDVV--SRITPEDTPIYSMIKKGTTHSI 46
          ++L +VV    +     P+  MI+ G   S+
Sbjct: 9  KTLDEVVGQEHLLGPGKPLRRMIEAGRLSSM 39


>gnl|CDD|178364 PLN02764, PLN02764, glycosyltransferase family protein.
          Length = 453

 Score = 28.1 bits (62), Expect = 1.1
 Identities = 16/44 (36%), Positives = 26/44 (59%), Gaps = 6/44 (13%)

Query: 16  NKESLSDVVSRITPEDTPIYSMIKKGTTHSIHPEWVVDDLASPG 59
           +KESL D ++ +   D+ I +++KK      H +W  + LASPG
Sbjct: 393 SKESLRDAINSVMKRDSEIGNLVKKN-----HTKW-RETLASPG 430


>gnl|CDD|130625 TIGR01562, FdhE, formate dehydrogenase accessory protein FdhE.  The
           only sequence scoring between trusted and noise is that
           from Aquifex aeolicus, which shows certain structural
           differences from the proteobacterial forms in the
           alignment. However it is notable that A. aeolicus also
           has a sequence scoring above trusted to the alpha
           subunit of formate dehydrogenase (TIGR01553).
          Length = 305

 Score = 27.6 bits (61), Expect = 1.7
 Identities = 10/29 (34%), Positives = 16/29 (55%)

Query: 47  HPEWVVDDLASPGPNAQLEGDEYSFKTIN 75
           H + V DDLAS   + ++  D Y  ++ N
Sbjct: 272 HADAVADDLASLALDMRMAEDGYLRRSPN 300


>gnl|CDD|178689 PLN03144, PLN03144, Carbon catabolite repressor protein 4 homolog;
           Provisional.
          Length = 606

 Score = 27.0 bits (60), Expect = 2.6
 Identities = 12/39 (30%), Positives = 20/39 (51%), Gaps = 4/39 (10%)

Query: 75  NTPERMGNYTQIMRKSWILSGTQEA----VDDVGYILKY 109
             P  +   TQ+  ++WI  G  +      DDVG++LK+
Sbjct: 158 LYPSGIEQKTQVGGETWIEVGRSKTYTPTADDVGHVLKF 196


>gnl|CDD|182635 PRK10671, copA, copper exporting ATPase; Provisional.
          Length = 834

 Score = 25.9 bits (57), Expect = 4.9
 Identities = 15/39 (38%), Positives = 21/39 (53%)

Query: 112 QKLKKALEIRKDVEFALVSSQGSEKTSPRKMAALSSWIK 150
           +++K++LE R DVE A VS   +  T      AL   IK
Sbjct: 19  KRVKESLEQRPDVEQADVSITEAHVTGTASAEALIETIK 57


>gnl|CDD|130022 TIGR00947, 2A73, probable bicarbonate transporter, IctB family.
           This family of proteins is suggested to transport
           inorganic carbon (HCO3-), based on the phenotype of a
           mutant of IctB in Synechococcus sp. strain PCC 7942.
           Bicarbonate uptake is used by many photosynthetic
           organisms including cyanobacteria. These organisms are
           able to concentrate CO2/HCO3- against a greater than
           ten-fold concentration gradient. Cyanobacteria may have
           several such carriers operating with different
           efficiencies. Note that homology to various O-antigen
           ligases, with possible implications for mutant cell
           envelope structure, might allow alternatives to the
           interpretation of IctB as a bicarbonate transport
           protein.
          Length = 425

 Score = 25.8 bits (57), Expect = 5.6
 Identities = 6/13 (46%), Positives = 7/13 (53%)

Query: 138 SPRKMAALSSWIK 150
           SP   AAL   +K
Sbjct: 86  SPVPAAALKGLLK 98


>gnl|CDD|139538 PRK13390, PRK13390, acyl-CoA synthetase; Provisional.
          Length = 501

 Score = 25.7 bits (56), Expect = 5.8
 Identities = 12/43 (27%), Positives = 18/43 (41%)

Query: 64  LEGDEYSFKTINTPERMGNYTQIMRKSWILSGTQEAVDDVGYI 106
            E D   F+ +N PE+           W   G   +VD+ GY+
Sbjct: 353 FERDRLPFRYLNDPEKTAAAQHPAHPFWTTVGDLGSVDEDGYL 395


>gnl|CDD|180729 PRK06850, PRK06850, hypothetical protein; Provisional.
          Length = 507

 Score = 25.7 bits (57), Expect = 5.9
 Identities = 11/20 (55%), Positives = 16/20 (80%)

Query: 105 YILKYKEQKLKKALEIRKDV 124
           Y LKY+E+ L+K LE ++DV
Sbjct: 334 YTLKYREEWLRKLLEAQRDV 353


>gnl|CDD|185460 PTZ00123, PTZ00123, phosphoglycerate mutase like-protein;
           Provisional.
          Length = 236

 Score = 25.8 bits (57), Expect = 6.6
 Identities = 13/35 (37%), Positives = 15/35 (42%), Gaps = 3/35 (8%)

Query: 9   ITSSSTTNKESLSDVVSRITP--EDTPIYSMIKKG 41
           I   +  N E L D V R+ P  ED  I   I  G
Sbjct: 128 IPKDALPNTECLKDTVERVLPYWEDH-IAPDILAG 161


>gnl|CDD|184273 PRK13721, PRK13721, conjugal transfer ATP-binding protein TraC;
           Provisional.
          Length = 844

 Score = 25.5 bits (56), Expect = 6.7
 Identities = 12/47 (25%), Positives = 24/47 (51%), Gaps = 8/47 (17%)

Query: 109 YKEQKLKKALEIRKDV-EFALVSSQGSEKTSPRKMAALSSWIKKNAS 154
           + +QK K+ L I + V + A        K    +MA+L +W++++  
Sbjct: 801 FVQQKRKEGLSIHEAVWQLA-------WKKFGPEMASLEAWLEEHEK 840


>gnl|CDD|116380 pfam07766, LETM1, LETM1-like protein.  Members of this family are
           inner mitochondrial membrane proteins which play a role
           in potassium and hydrogen ion exchange. Deletion of
           LETM1 is thought to be involved in the development of
           Wolf-Hirschhorn syndrome in humans.
          Length = 268

 Score = 25.3 bits (56), Expect = 8.3
 Identities = 19/65 (29%), Positives = 33/65 (50%), Gaps = 7/65 (10%)

Query: 110 KEQKLKKALEIRKDVEFALVSSQGSEKTSPRKMAALSSWIKKNAS-----RGTGGVLEDM 164
           +E+KLKK L++RK+V   L  +   ++ +     ++S   KK AS     R  G    + 
Sbjct: 97  REEKLKKLLKVRKEVAKFLQETL--KEMALHNKNSISQAEKKFASFFQKVRSGGEPSNEE 154

Query: 165 ILSLA 169
           IL ++
Sbjct: 155 ILDVS 159


  Database: CddB
    Posted date:  Feb 4, 2011  9:54 PM
  Number of letters in database: 5,994,473
  Number of sequences in database:  21,608
  
Lambda     K      H
   0.310    0.126    0.351 

Gapped
Lambda     K      H
   0.267   0.0697    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 2,666,152
Number of extensions: 156082
Number of successful extensions: 230
Number of sequences better than 10.0: 1
Number of HSP's gapped: 230
Number of HSP's successfully gapped: 19
Length of query: 169
Length of database: 5,994,473
Length adjustment: 87
Effective length of query: 82
Effective length of database: 4,114,577
Effective search space: 337395314
Effective search space used: 337395314
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 53 (24.3 bits)