RPS-BLAST 2.2.26 [Sep-21-2011]

Database: CDD.v3.10 
           44,354 sequences; 10,937,602 total letters

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

Query= psy4860
         (182 letters)



>gnl|CDD|218841 pfam05986, ADAM_spacer1, ADAM-TS Spacer 1.  This family represents
           the Spacer-1 region from the ADAM-TS family of
           metalloproteinases.
          Length = 114

 Score =  134 bits (339), Expect = 4e-41
 Identities = 53/112 (47%), Positives = 75/112 (66%), Gaps = 2/112 (1%)

Query: 34  RLVSGLFTRPLLPGGYNLITQIPRGACNLTVSEMKHTTNFLALRYRNGSYILNGDWAINW 93
           + V G FT+ LL  GYN +  IP GA ++ + E+K + N+LAL+  +G Y LNG+W I+W
Sbjct: 1   KTVKGTFTKALLSHGYNDVVTIPAGATHILIRELKASGNYLALKNSDGEYYLNGNWTISW 60

Query: 94  SGDYEGAGTKFTYRRGSNNVGQYLSSPGPLTEPLDLMVVFQQ-TNPGIKYEY 144
           SG +E AGT F Y R S++  + L++ GP  EPL + V+ Q  TNPGI+YEY
Sbjct: 61  SGTFELAGTVFEYSR-SDDAPERLTATGPTNEPLTVQVLSQGATNPGIRYEY 111


>gnl|CDD|165344 PHA03051, PHA03051, Hypothetical protein; Provisional.
          Length = 88

 Score = 29.7 bits (66), Expect = 0.24
 Identities = 16/58 (27%), Positives = 24/58 (41%), Gaps = 1/58 (1%)

Query: 28 GDNSSCRLVSGLFTRPLLPGGYNLITQIPRGAC-NLTVSEMKHTTNFLALRYRNGSYI 84
          G+NS C L   L ++ L+   YN+   +    C N+        +    LR  N  YI
Sbjct: 31 GNNSRCPLFKSLISKALMSAPYNICVYVTSNKCINIGGHHFTSRSLIYYLRILNKIYI 88


>gnl|CDD|224035 COG1110, COG1110, Reverse gyrase [DNA replication, recombination,
          and repair].
          Length = 1187

 Score = 30.4 bits (69), Expect = 0.56
 Identities = 13/24 (54%), Positives = 13/24 (54%)

Query: 23 CGVCGGDNSSCRLVSGLFTRPLLP 46
          C  CGGD SS RL  GL     LP
Sbjct: 11 CPNCGGDISSERLEKGLPCERCLP 34


>gnl|CDD|233251 TIGR01054, rgy, reverse gyrase.  This model describes reverse
          gyrase, found in both archaeal and bacterial
          thermophiles. This enzyme, a fusion of a type I
          topoisomerase domain and a helicase domain, introduces
          positive supercoiling to increase the melting
          temperature of DNA double strands. Generally, these
          gyrases are encoded as a single polypeptide. An
          exception was found in Methanopyrus kandleri, where
          enzyme is split within the topoisomerase domain,
          yielding a heterodimer of gene products designated RgyB
          and RgyA [DNA metabolism, DNA replication,
          recombination, and repair].
          Length = 1171

 Score = 29.0 bits (65), Expect = 1.7
 Identities = 12/24 (50%), Positives = 13/24 (54%)

Query: 23 CGVCGGDNSSCRLVSGLFTRPLLP 46
          C  CGG+ SS RL  GL     LP
Sbjct: 10 CPNCGGEISSERLEKGLPCARCLP 33


>gnl|CDD|185292 PRK15394, PRK15394,
           4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol
           deformylase ArnD; Provisional.
          Length = 296

 Score = 27.2 bits (61), Expect = 4.5
 Identities = 14/27 (51%), Positives = 15/27 (55%), Gaps = 2/27 (7%)

Query: 30  NSSCRLVSGLFTRPLLPGGYNLITQIP 56
           NS CR  +  F RPLLP G     QIP
Sbjct: 170 NSDCR-GTHPF-RPLLPDGSLGTVQIP 194


>gnl|CDD|131928 TIGR02882, QoxB, cytochrome aa3 quinol oxidase, subunit I.  This
           family (QoxB) encodes subunit I of the aa3-type quinone
           oxidase, one of several bacterial terminal oxidases.
           This complex couples oxidation of reduced quinones with
           the reduction of molecular oxygen to water and the
           pumping of protons to form a proton gradient utilized
           for ATP production. aa3-type oxidases contain two heme a
           cofactors as well as copper atoms in the active site
           [Energy metabolism, Electron transport].
          Length = 643

 Score = 27.1 bits (60), Expect = 5.5
 Identities = 16/66 (24%), Positives = 29/66 (43%), Gaps = 3/66 (4%)

Query: 80  NGSYILNGDWAINWSGDYEGAGTKFTYRRGSN--NVGQYLSSPGPLTEPLDLMV-VFQQT 136
           N S+++ G     W+     AG +F+   G N   +   +S  G L   ++  V + +  
Sbjct: 150 NISFVIGGSPDAGWTNYAPLAGPEFSPGVGVNYYLIALQISGIGTLMTGINFFVTILKMR 209

Query: 137 NPGIKY 142
            PG+K 
Sbjct: 210 APGMKL 215


>gnl|CDD|224852 COG1941, FrhG, Coenzyme F420-reducing hydrogenase, gamma subunit
           [Energy production and conversion].
          Length = 247

 Score = 26.6 bits (59), Expect = 8.0
 Identities = 8/26 (30%), Positives = 13/26 (50%)

Query: 1   MTCPVQQVGCDGVVGSEKSLDRCGVC 26
            +CP + + C G  G+     +CG C
Sbjct: 200 ASCPSRAIPCRGCRGNIPRCIKCGAC 225


>gnl|CDD|236498 PRK09401, PRK09401, reverse gyrase; Reviewed.
          Length = 1176

 Score = 26.8 bits (60), Expect = 8.8
 Identities = 10/17 (58%), Positives = 10/17 (58%)

Query: 23 CGVCGGDNSSCRLVSGL 39
          C  CGGD S  RL  GL
Sbjct: 10 CPNCGGDISDERLEKGL 26


  Database: CDD.v3.10
    Posted date:  Mar 20, 2013  7:55 AM
  Number of letters in database: 10,937,602
  Number of sequences in database:  44,354
  
Lambda     K      H
   0.317    0.137    0.426 

Gapped
Lambda     K      H
   0.267   0.0774    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,086,608
Number of extensions: 810654
Number of successful extensions: 549
Number of sequences better than 10.0: 1
Number of HSP's gapped: 547
Number of HSP's successfully gapped: 9
Length of query: 182
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 91
Effective length of database: 6,901,388
Effective search space: 628026308
Effective search space used: 628026308
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 56 (25.3 bits)