RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy12393
         (155 letters)



>gnl|CDD|222324 pfam13695, zf-3CxxC, Zinc-binding domain.  This is a family with
           several pairs of CxxC motifs possibly representing a
           multiple zinc-binding region. Only one pair of cysteines
           is associated with a highly conserved histidine residue.
          Length = 96

 Score = 62.8 bits (153), Expect = 7e-14
 Identities = 21/96 (21%), Positives = 24/96 (25%), Gaps = 27/96 (28%)

Query: 72  RCFGEYKCSKCKRKWMSGNSWAN-------------MGQECIKCNINVYPHKQRPL---- 114
             FG + CS C R W SGN W                 Q C KC     P+         
Sbjct: 1   NIFGRFTCSNCSRGWSSGNVWITFRMYPGGKYNARVYKQRCKKCQRLERPYLDENYVERI 60

Query: 115 ----------EKPDGLDVSDQSKVHPMYLCEKCKQL 140
                                   H   LCE C+  
Sbjct: 61  AYRCYKWAGISVEKPPHSGKSKGPHNRELCEACRAG 96


>gnl|CDD|205872 pfam13696, zf-CCHC_2, Zinc knuckle.  This is a zinc-binding
          domain of the form CxxCxxxGHxxxxC from a variety of
          different species.
          Length = 32

 Score = 39.8 bits (93), Expect = 1e-05
 Identities = 17/23 (73%), Positives = 18/23 (78%)

Query: 17 KQPPSAYLCHLCFVGGHYITDCP 39
          K PP  YLCHLCF  GHYI+DCP
Sbjct: 3  KAPPPNYLCHLCFQKGHYISDCP 25


>gnl|CDD|227547 COG5222, COG5222, Uncharacterized conserved protein, contains RING
           Zn-finger [General function prediction only].
          Length = 427

 Score = 31.6 bits (71), Expect = 0.15
 Identities = 11/23 (47%), Positives = 15/23 (65%)

Query: 17  KQPPSAYLCHLCFVGGHYITDCP 39
           K PP  Y+C+ C   GH+I +CP
Sbjct: 171 KPPPPGYVCYRCGQKGHWIQNCP 193


>gnl|CDD|236291 PRK08565, PRK08565, DNA-directed RNA polymerase subunit B;
            Provisional.
          Length = 1103

 Score = 28.8 bits (65), Expect = 1.4
 Identities = 10/27 (37%), Positives = 17/27 (62%), Gaps = 3/27 (11%)

Query: 120  LDVSDQSKVHPMYLCEKCKQLGYYCRK 146
            LD SD++    +Y+CE C  + +Y R+
Sbjct: 1034 LDSSDKTT---IYVCELCGHIAWYDRR 1057


>gnl|CDD|118874 pfam10353, DUF2430, Protein of unknown function (DUF2430).  This
          is a family of short, 111 residue, proteins found in S.
          pombe. The function is not known.
          Length = 107

 Score = 27.2 bits (60), Expect = 1.8
 Identities = 11/27 (40%), Positives = 15/27 (55%), Gaps = 2/27 (7%)

Query: 22 AYLCHLCFVGGHYITDCPLFNMSPFSK 48
          AYLC L  + G Y TDC +F+ +    
Sbjct: 75 AYLCQL--LTGQYTTDCYIFDDNSDDG 99


>gnl|CDD|178773 PLN03234, PLN03234, cytochrome P450 83B1; Provisional.
          Length = 499

 Score = 26.6 bits (58), Expect = 6.2
 Identities = 12/25 (48%), Positives = 16/25 (64%), Gaps = 2/25 (8%)

Query: 55  FQARP--KGEGLTPYQGKKRCFGEY 77
           F ARP  KG+    YQG++  FG+Y
Sbjct: 94  FTARPLLKGQQTMSYQGRELGFGQY 118


>gnl|CDD|132709 TIGR03670, rpoB_arch, DNA-directed RNA polymerase subunit B.  This
           model represents the archaeal version of DNA-directed
           RNA polymerase subunit B (rpoB) and is observed in all
           archaeal genomes.
          Length = 599

 Score = 26.5 bits (59), Expect = 7.1
 Identities = 10/33 (30%), Positives = 17/33 (51%), Gaps = 7/33 (21%)

Query: 120 LDVSDQSKVHPMYLCEKCKQLGYYCRK----YC 148
           LD SD+     +Y+CE C  + +  ++    YC
Sbjct: 530 LDESDKYV---VYVCENCGHIAWEDKRKGTAYC 559


  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
   0.324    0.140    0.479 

Gapped
Lambda     K      H
   0.267   0.0869    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,545,697
Number of extensions: 623450
Number of successful extensions: 506
Number of sequences better than 10.0: 1
Number of HSP's gapped: 502
Number of HSP's successfully gapped: 18
Length of query: 155
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 66
Effective length of database: 6,990,096
Effective search space: 461346336
Effective search space used: 461346336
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 55 (24.7 bits)