RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy10421
         (120 letters)



>gnl|CDD|218493 pfam05199, GMC_oxred_C, GMC oxidoreductase.  This domain found
           associated with pfam00732.
          Length = 139

 Score =  113 bits (286), Expect = 8e-34
 Identities = 29/94 (30%), Positives = 46/94 (48%), Gaps = 1/94 (1%)

Query: 9   SIGSKLVDRPIPGCKHLPFGSDEYWVCCVKHLTMQTHHQCGTCKMGPATDRTAVVDPRLR 68
           +   +L   P+         SD+  +  ++   + + H  GTC+MG       VVDP LR
Sbjct: 47  AALVELTPGPVEVVPGAAEASDDEILEYIRAAAVTSWHPMGTCRMGAD-PDDGVVDPDLR 105

Query: 69  VYGIQGLRVIDASIMPVLPGGHTVAPTYMIGEKG 102
           V+G+  LRV+DAS+ P  P G+     Y + E+ 
Sbjct: 106 VHGVDNLRVVDASVFPSSPSGNPTLTIYALAERA 139


>gnl|CDD|235000 PRK02106, PRK02106, choline dehydrogenase; Validated.
          Length = 560

 Score =  104 bits (261), Expect = 3e-27
 Identities = 37/63 (58%), Positives = 46/63 (73%), Gaps = 2/63 (3%)

Query: 45  HHQCGTCKMGPATDRTAVVDPRLRVYGIQGLRVIDASIMPVLPGGHTVAPTYMIGEKGAD 104
           +H   TCKMG  TD  AVVDP  RV+G++GLRV+DASIMP +  G+  APT MI EK AD
Sbjct: 472 YHPSCTCKMG--TDPMAVVDPEGRVHGVEGLRVVDASIMPTITNGNLNAPTIMIAEKAAD 529

Query: 105 MIK 107
           +I+
Sbjct: 530 LIR 532


>gnl|CDD|225186 COG2303, BetA, Choline dehydrogenase and related flavoproteins
           [Amino acid transport and metabolism].
          Length = 542

 Score = 92.5 bits (230), Expect = 4e-23
 Identities = 27/66 (40%), Positives = 38/66 (57%), Gaps = 1/66 (1%)

Query: 44  THHQCGTCKMGPATDRTAVVDPRLRVYGIQGLRVIDASIMPVLPGGHTVAPTYMIGEKGA 103
            +H  GTC+MG +     V DP LRV+G++ LRV+DAS+MP   G +       + E+ A
Sbjct: 472 AYHPMGTCRMG-SDPAAVVDDPYLRVHGLENLRVVDASVMPTSTGVNPNLTIIALAERAA 530

Query: 104 DMIKED 109
           D I  D
Sbjct: 531 DHILGD 536


>gnl|CDD|233581 TIGR01810, betA, choline dehydrogenase.  Choline dehydrogenase
           catalyzes the conversion of exogenously supplied choline
           into the intermediate glycine betaine aldehyde, as part
           of a two-step oxidative reaction leading to the
           formation of osmoprotectant betaine. This enzymatic
           system can be found in both gram-positive and
           gram-negative bacteria. As in Escherichia coli ,
           Staphylococcus xylosus , and Sinorhizobium meliloti,
           this enzyme is found associated in a transciptionally
           co-induced gene cluster with betaine aldehyde
           dehydrogenase, the second catalytic enzyme in this
           reaction. Other gram-positive organisms have been shown
           to employ a different enzymatic system, utlizing a
           soluable choline oxidase or type III alcohol
           dehydrogenase instead of choline dehydrogenase. This
           enzyme is a member of the GMC oxidoreductase family
           (pfam00732 and pfam05199), sharing a common
           evoluntionary origin and enzymatic reaction with alcohol
           dehydrogenase. Outgrouping from this model, Caulobacter
           crescentus shares sequence homology with choline
           dehydrogenase, yet other genes participating in this
           enzymatic reaction have not currently been identified
           [Cellular processes, Adaptations to atypical
           conditions].
          Length = 532

 Score = 89.2 bits (221), Expect = 6e-22
 Identities = 38/62 (61%), Positives = 49/62 (79%)

Query: 46  HQCGTCKMGPATDRTAVVDPRLRVYGIQGLRVIDASIMPVLPGGHTVAPTYMIGEKGADM 105
           H CGTCKMGPA+D  +VVDP  RV+G++GLRV+DASIMP +  G+  AP  M+GEK AD+
Sbjct: 466 HPCGTCKMGPASDEMSVVDPETRVHGMEGLRVVDASIMPRITNGNLNAPVIMMGEKAADI 525

Query: 106 IK 107
           I+
Sbjct: 526 IR 527


>gnl|CDD|234421 TIGR03970, Rv0697, dehydrogenase, Rv0697 family.  This model
           describes a set of dehydrogenases belonging to the
           glucose-methanol-choline oxidoreductase (GMC
           oxidoreductase) family. Members of the present family
           are restricted to Actinobacterial genome contexts
           containing also members of families TIGR03962 and
           TIGR03969 (the mycofactocin system), and are proposed to
           be uniform in function.
          Length = 487

 Score = 68.3 bits (167), Expect = 1e-14
 Identities = 28/61 (45%), Positives = 39/61 (63%)

Query: 46  HQCGTCKMGPATDRTAVVDPRLRVYGIQGLRVIDASIMPVLPGGHTVAPTYMIGEKGADM 105
           H CG+C+MG   D  AVVD R RV G++GL V+D SI+PV+P     A   M+ E+ A+ 
Sbjct: 426 HLCGSCRMGGRDDPGAVVDARCRVRGVEGLWVVDGSILPVIPSRGPHATAVMVAERAAEF 485

Query: 106 I 106
           +
Sbjct: 486 L 486


>gnl|CDD|215420 PLN02785, PLN02785, Protein HOTHEAD.
          Length = 587

 Score = 39.8 bits (93), Expect = 1e-04
 Identities = 20/54 (37%), Positives = 25/54 (46%), Gaps = 6/54 (11%)

Query: 46  HQCGTCKMGPATDRTAVVDPRLRVYGIQGLRVIDASIMPVLPGGHTVAPTYMIG 99
           H  G C +G       VVD   +V G+  LRVID S     PG +  A   M+G
Sbjct: 522 HYHGGCHVG------KVVDQNYKVLGVSRLRVIDGSTFDESPGTNPQATVMMMG 569


>gnl|CDD|238623 cd01298, ATZ_TRZ_like, TRZ/ATZ family contains enzymes from the
           atrazine degradation pathway and related hydrolases.
           Atrazine, a chlorinated herbizide, can be catabolized by
           a variety of different bacteria. The first three steps
           of the atrazine dehalogenation pathway are catalyzed by
           atrazine chlorohydrolase (AtzA), hydroxyatrazine
           ethylaminohydrolase (AtzB), and N-isopropylammelide
           N-isopropylaminohydrolase (AtzC). All three enzymes
           belong to the superfamily of metal dependent hydrolases.
           AtzA and AtzB, beside other related enzymes are
           represented in this CD.
          Length = 411

 Score = 29.9 bits (68), Expect = 0.27
 Identities = 18/67 (26%), Positives = 24/67 (35%), Gaps = 7/67 (10%)

Query: 58  DRTAVVDPRLRVYGIQGLRVIDASIMPVLPG---GHTVAPTYMIGEKG--ADMIKEDWLP 112
            R   V P L +       VIDA    V+PG    HT     M   +G   D+   +WL 
Sbjct: 27  GRIVAVGPALPLPAYPADEVIDAKGKVVMPGLVNTHT--HLAMTLLRGLADDLPLMEWLK 84

Query: 113 GYTPTFD 119
                 +
Sbjct: 85  DLIWPLE 91


>gnl|CDD|223479 COG0402, SsnA, Cytosine deaminase and related metal-dependent
           hydrolases [Nucleotide transport and metabolism /
           General function prediction only].
          Length = 421

 Score = 28.6 bits (64), Expect = 0.86
 Identities = 14/45 (31%), Positives = 18/45 (40%), Gaps = 3/45 (6%)

Query: 74  GLRVIDASIMPVLPG---GHTVAPTYMIGEKGADMIKEDWLPGYT 115
              VIDA    VLPG    HT     ++     D+   +WL  Y 
Sbjct: 44  DEEVIDAKGKLVLPGFVNAHTHLDQTLLRGLADDLPLLEWLERYV 88


>gnl|CDD|235625 PRK05852, PRK05852, acyl-CoA synthetase; Validated.
          Length = 534

 Score = 27.2 bits (60), Expect = 2.6
 Identities = 21/81 (25%), Positives = 30/81 (37%), Gaps = 9/81 (11%)

Query: 14  LVDRPIPGCKHLPFGSDEYWVCCVKHLTMQTHHQCGTCKMGPATDRTAVVDPRLRVYGIQ 73
           L+D   P  +  P  +  +W   V  +   +    GT     +    A  +P       +
Sbjct: 120 LIDADGPHDRAEP--TTRWWPLTVN-VGGDSGPSGGT----LSVHLDAATEPTPATSTPE 172

Query: 74  GLRVIDASIMPVLPGGHTVAP 94
           GLR  DA IM    GG T  P
Sbjct: 173 GLRPDDAMIM--FTGGTTGLP 191


>gnl|CDD|178530 PLN02942, PLN02942, dihydropyrimidinase.
          Length = 486

 Score = 26.3 bits (58), Expect = 4.0
 Identities = 15/36 (41%), Positives = 19/36 (52%), Gaps = 5/36 (13%)

Query: 59 RTAVVDPRLRVYGIQGLRVIDASIMPVLPGG---HT 91
              V P L+V     +RVIDA+   V+PGG   HT
Sbjct: 31 IIVAVAPNLKV--PDDVRVIDATGKFVMPGGIDPHT 64


>gnl|CDD|181288 PRK08204, PRK08204, hypothetical protein; Provisional.
          Length = 449

 Score = 26.1 bits (58), Expect = 5.3
 Identities = 12/31 (38%), Positives = 16/31 (51%), Gaps = 3/31 (9%)

Query: 58 DRTAVVDPRLRVYGIQGLRVIDASIMPVLPG 88
          DR A V P +     +   V+DA  M V+PG
Sbjct: 31 DRIAAVAPSIEAPDAE---VVDARGMIVMPG 58


>gnl|CDD|233369 TIGR01351, adk, adenylate kinase.  Adenylate kinase (EC 2.7.4.3)
           converts ATP + AMP to ADP + ADP, that is, uses ATP as a
           phosphate donor for AMP. Most members of this family are
           known or believed to be adenylate kinase. However, some
           members accept other nucleotide triphosphates as donors,
           may be unable to use ATP, and may fail to complement
           adenylate kinase mutants. An example of a
           nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10)
           is a GTP:AMP phosphotransferase. This family is
           designated subfamily rather than equivalog for this
           reason [Purines, pyrimidines, nucleosides, and
           nucleotides, Nucleotide and nucleoside
           interconversions].
          Length = 210

 Score = 25.7 bits (57), Expect = 7.5
 Identities = 12/39 (30%), Positives = 13/39 (33%), Gaps = 4/39 (10%)

Query: 45  HHQCGTCKMGP----ATDRTAVVDPRLRVYGIQGLRVID 79
              C  C          D   VV  RL VY  Q   +ID
Sbjct: 143 VPGCDDCTGELLIQREDDTEEVVKKRLEVYKEQTEPLID 181


>gnl|CDD|236240 PRK08323, PRK08323, phenylhydantoinase; Validated.
          Length = 459

 Score = 25.5 bits (57), Expect = 8.9
 Identities = 11/22 (50%), Positives = 13/22 (59%), Gaps = 3/22 (13%)

Query: 73 QGLRVIDASIMPVLPGG---HT 91
           G  VIDA+   V+PGG   HT
Sbjct: 35 LGDEVIDATGKYVMPGGIDPHT 56


  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
   0.323    0.141    0.468 

Gapped
Lambda     K      H
   0.267   0.0706    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,091,492
Number of extensions: 494900
Number of successful extensions: 426
Number of sequences better than 10.0: 1
Number of HSP's gapped: 423
Number of HSP's successfully gapped: 19
Length of query: 120
Length of database: 10,937,602
Length adjustment: 83
Effective length of query: 37
Effective length of database: 7,256,220
Effective search space: 268480140
Effective search space used: 268480140
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (24.2 bits)