RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy13712
         (63 letters)



>gnl|CDD|235399 PRK05303, flgI, flagellar basal body P-ring protein; Provisional.
          Length = 367

 Score = 27.4 bits (62), Expect = 0.33
 Identities = 11/48 (22%), Positives = 20/48 (41%), Gaps = 12/48 (25%)

Query: 14  SYGNLQI------------PLANGNIMKIPVTSINISEEVNKTGIWKQ 49
           S+GNL +            P + G  +  P T I++ EE  +  +  +
Sbjct: 279 SHGNLTVTITEQPQVSQPNPFSGGQTVVTPQTQIDVEEEGGRLFVVPE 326


>gnl|CDD|237118 PRK12496, PRK12496, hypothetical protein; Provisional.
          Length = 164

 Score = 25.7 bits (57), Expect = 1.3
 Identities = 10/36 (27%), Positives = 16/36 (44%), Gaps = 1/36 (2%)

Query: 27  IMKIPVTSINISEEVNKTGIWKQVNKGDKKVPPSKP 62
            + I   +I   + + K   W++V KG KK  P   
Sbjct: 107 KLNIKFENIKT-KGIKKVIKWRKVCKGCKKKYPEDY 141


>gnl|CDD|216884 pfam02119, FlgI, Flagellar P-ring protein. 
          Length = 342

 Score = 25.9 bits (58), Expect = 1.4
 Identities = 11/47 (23%), Positives = 20/47 (42%), Gaps = 12/47 (25%)

Query: 14  SYGNLQI------------PLANGNIMKIPVTSINISEEVNKTGIWK 48
           S+GNL +            P + G  + +P T I++ EE  +  +  
Sbjct: 254 SHGNLTVTITETPQVSQPNPFSGGQTVVVPRTDIDVEEEGGRLFVLP 300


>gnl|CDD|235708 PRK06131, PRK06131, dihydroxy-acid dehydratase; Validated.
          Length = 571

 Score = 25.5 bits (57), Expect = 2.0
 Identities = 7/12 (58%), Positives = 8/12 (66%)

Query: 10  PGFPSYGNLQIP 21
           PG P  GN+ IP
Sbjct: 441 PGMPEVGNMPIP 452


>gnl|CDD|183434 PRK12318, PRK12318, methionine aminopeptidase; Provisional.
          Length = 291

 Score = 25.2 bits (55), Expect = 2.1
 Identities = 10/16 (62%), Positives = 12/16 (75%)

Query: 20  IPLANGNIMKIPVTSI 35
           IPL NG+IM I V+ I
Sbjct: 124 IPLKNGDIMNIDVSCI 139


>gnl|CDD|237271 PRK13016, PRK13016, dihydroxy-acid dehydratase; Provisional.
          Length = 577

 Score = 25.1 bits (55), Expect = 2.8
 Identities = 7/14 (50%), Positives = 8/14 (57%)

Query: 10  PGFPSYGNLQIPLA 23
           PG P +G L IP  
Sbjct: 446 PGMPEWGMLPIPKK 459


>gnl|CDD|143497 cd06824, PLPDE_III_Yggs_like, Pyridoxal 5-phosphate (PLP)-binding
           TIM barrel domain of Type III PLP-Dependent Enzymes,
           Yggs-like proteins.  This subfamily contains mainly
           uncharacterized proteobacterial proteins with similarity
           to the hypothetical Escherichia coli protein YggS, a
           homolog of yeast YBL036c, which is homologous to a
           Pseudomonas aeruginosa gene that is co-transcribed with
           a known proline biosynthetic gene. Like yeast YBL036c,
           Yggs is a single domain monomeric protein with a typical
           TIM-barrel fold. Its structure, which shows a
           covalently-bound PLP cofactor, is similar to the
           N-terminal domain of the fold type III PLP-dependent
           enzymes, bacterial alanine racemase and eukaryotic
           ornithine decarboxylase, which are two-domain dimeric
           proteins. YggS has not been characterized extensively
           and its biological function is still unkonwn.
          Length = 224

 Score = 24.5 bits (54), Expect = 4.2
 Identities = 6/12 (50%), Positives = 10/12 (83%)

Query: 35  INISEEVNKTGI 46
           +NIS E +K+G+
Sbjct: 125 VNISGEDSKSGV 136


  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
   0.308    0.130    0.385 

Gapped
Lambda     K      H
   0.267   0.0841    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,065,023
Number of extensions: 199119
Number of successful extensions: 114
Number of sequences better than 10.0: 1
Number of HSP's gapped: 114
Number of HSP's successfully gapped: 8
Length of query: 63
Length of database: 10,937,602
Length adjustment: 34
Effective length of query: 29
Effective length of database: 9,429,566
Effective search space: 273457414
Effective search space used: 273457414
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 53 (24.0 bits)