RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy6598
         (154 letters)



>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain. 
          Length = 26

 Score = 33.5 bits (77), Expect = 0.002
 Identities = 15/27 (55%), Positives = 18/27 (66%), Gaps = 2/27 (7%)

Query: 20 NYKNHMRIHSGEKPYVCQVRDCQKRFT 46
          N + HMR H+GEKPY C V  C K F+
Sbjct: 1  NLRRHMRTHTGEKPYKCPV--CGKSFS 25



 Score = 24.3 bits (53), Expect = 6.1
 Identities = 7/26 (26%), Positives = 14/26 (53%)

Query: 50 SLYKHTLVHSDIRPFICDRCPRSYRQ 75
          +L +H   H+  +P+ C  C +S+  
Sbjct: 1  NLRRHMRTHTGEKPYKCPVCGKSFSS 26


>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
           transition [Transcription / Cell division and chromosome
           partitioning].
          Length = 423

 Score = 31.2 bits (70), Expect = 0.17
 Identities = 20/87 (22%), Positives = 33/87 (37%), Gaps = 19/87 (21%)

Query: 20  NYKNHMRIHSGEKPYVCQVRDCQKRFTEYSSLYKHTL-------------------VHSD 60
           +  + M      KPY C V  C K++   + L  H L                     + 
Sbjct: 336 DTPSRMLKVKDGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAK 395

Query: 61  IRPFICDRCPRSYRQLCTLNVHKKTNH 87
            +P+ C+ C + Y+ L  L  H+K +H
Sbjct: 396 DKPYRCEVCDKRYKNLNGLKYHRKHSH 422


>gnl|CDD|217373 pfam03115, Astro_capsid, Astrovirus capsid protein precursor.  This
           product is encoded by astrovirus ORF2, one of the three
           astrovirus ORFs (1a, 1b, 2). The 87kD precursor protein
           undergoes an intracellular cleavage to form a 79kD
           protein. Subsequently, extracellular trypsin cleavage
           yields the three proteins forming the infectious virion.
          Length = 787

 Score = 28.2 bits (63), Expect = 1.8
 Identities = 10/30 (33%), Positives = 16/30 (53%), Gaps = 2/30 (6%)

Query: 78  TLNVHKKTNHRESKNKKPSNR--NNIVKQE 105
           T+N   K   +  +NK  SN+   NIV ++
Sbjct: 39  TVNSRNKGRRQNGRNKYQSNQRVRNIVNKQ 68


>gnl|CDD|200998 pfam00096, zf-C2H2, Zinc finger, C2H2 type.  The C2H2 zinc finger
          is the classical zinc finger domain. The two conserved
          cysteines and histidines co-ordinate a zinc ion. The
          following pattern describes the zinc finger.
          #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C] Where X can
          be any amino acid, and numbers in brackets indicate the
          number of residues. The positions marked # are those
          that are important for the stable fold of the zinc
          finger. The final position can be either his or cys.
          The C2H2 zinc finger is composed of two short beta
          strands followed by an alpha helix. The amino terminal
          part of the helix binds the major groove in DNA binding
          zinc fingers. The accepted consensus binding sequence
          for Sp1 is usually defined by the asymmetric
          hexanucleotide core GGGCGG but this sequence does not
          include, among others, the GAG (=CTC) repeat that
          constitutes a high-affinity site for Sp1 binding to the
          wt1 promoter.
          Length = 22

 Score = 25.0 bits (55), Expect = 2.8
 Identities = 9/19 (47%), Positives = 12/19 (63%)

Query: 10 DCKISFASATNYKNHMRIH 28
          DC  SF+  +N K H+R H
Sbjct: 4  DCGKSFSRKSNLKRHLRTH 22


>gnl|CDD|215527 PLN02976, PLN02976, amine oxidase.
          Length = 1713

 Score = 26.8 bits (59), Expect = 6.1
 Identities = 13/49 (26%), Positives = 27/49 (55%), Gaps = 1/49 (2%)

Query: 89   ESKNKKPSNRNNIVKQECVQKINS-NPTTKLLNNNSIAILDTSGSSNNN 136
            ES  +K  +   + +Q+C+ +I+S N   +  ++ +   LD+S  S +N
Sbjct: 1482 ESDLRKKWSGGVLGRQDCISEIDSRNCKVRDWSDAACVDLDSSRISVDN 1530


>gnl|CDD|221264 pfam11849, DUF3369, Domain of unknown function (DUF3369).  This
          domain is functionally uncharacterized. This domain is
          found in bacteria. This presumed domain is about 170
          amino acids in length. The domain appears to be related
          to the GAF domain.
          Length = 173

 Score = 26.0 bits (58), Expect = 6.7
 Identities = 6/14 (42%), Positives = 10/14 (71%)

Query: 71 RSYRQLCTLNVHKK 84
          RSYR +CT+   ++
Sbjct: 6  RSYRDICTIEKSRR 19


>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger. 
          Length = 23

 Score = 24.0 bits (52), Expect = 8.0
 Identities = 9/25 (36%), Positives = 11/25 (44%), Gaps = 2/25 (8%)

Query: 34 YVCQVRDCQKRFTEYSSLYKHTLVH 58
          Y C    C K F   S+L +H   H
Sbjct: 1  YRCPE--CGKVFKSKSALREHMRTH 23



 Score = 23.6 bits (51), Expect = 9.9
 Identities = 7/18 (38%), Positives = 9/18 (50%)

Query: 11 CKISFASATNYKNHMRIH 28
          C   F S +  + HMR H
Sbjct: 6  CGKVFKSKSALREHMRTH 23


>gnl|CDD|184438 PRK13985, ureB, urease subunit beta; Provisional.
          Length = 568

 Score = 26.4 bits (58), Expect = 8.1
 Identities = 13/55 (23%), Positives = 25/55 (45%), Gaps = 1/55 (1%)

Query: 9   WDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRP 63
           +D  I+F S   Y   ++   G +  V  V++C +  T+    +  T  H ++ P
Sbjct: 486 YDANITFVSQAAYDKGIKEELGLERQVLPVKNC-RNITKKDMQFNDTTAHIEVNP 539


  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
   0.318    0.131    0.402 

Gapped
Lambda     K      H
   0.267   0.0655    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,082,751
Number of extensions: 563307
Number of successful extensions: 514
Number of sequences better than 10.0: 1
Number of HSP's gapped: 513
Number of HSP's successfully gapped: 33
Length of query: 154
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 65
Effective length of database: 6,990,096
Effective search space: 454356240
Effective search space used: 454356240
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 (21.7 bits)
S2: 55 (25.1 bits)