RPS-BLAST 2.2.26 [Sep-21-2011]

Database: pdb70 
           27,921 sequences; 6,701,793 total letters

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

Query= psy4297
         (69 letters)



>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A
          {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A
          Length = 240

 Score = 29.0 bits (64), Expect = 0.070
 Identities = 6/33 (18%), Positives = 10/33 (30%)

Query: 32 GMDKSMTAVCEFYVRGECNKDTMCPLRPGLATP 64
          G +      C F+ +G C     C     +   
Sbjct: 64 GDNDGQLFFCLFFAKGMCCLGPKCEYLHHIPDE 96


>2cqe_A KIAA1064 protein; CCCH zinc-finger, structural genomics, NPPSFA,
          national project on protein structural and functional
          analyses; NMR {Homo sapiens} SCOP: g.66.1.1 g.66.1.1
          Length = 98

 Score = 27.7 bits (61), Expect = 0.14
 Identities = 8/26 (30%), Positives = 12/26 (46%)

Query: 31 PGMDKSMTAVCEFYVRGECNKDTMCP 56
           G       +C+FY+ G C +   CP
Sbjct: 6  SGELPKKRELCKFYITGFCARAENCP 31


>2d9n_A Cleavage and polyadenylation specificity factor, 30 kDa subunit;
          CCCH zinc-finger, structural genomics, NPPSFA; NMR
          {Homo sapiens}
          Length = 77

 Score = 27.2 bits (60), Expect = 0.16
 Identities = 9/29 (31%), Positives = 12/29 (41%)

Query: 31 PGMDKSMTAVCEFYVRGECNKDTMCPLRP 59
           G     T VC+ ++RG C K   C    
Sbjct: 3  SGSSGEKTVVCKHWLRGLCKKGDQCEFLH 31


>2rhk_C Cleavage and polyadenylation specificity factor subunit 4;
          influenza A, nonstructural protein, viral protein: HOST
          complex, Zn finger; 1.95A {Homo sapiens}
          Length = 72

 Score = 27.1 bits (60), Expect = 0.20
 Identities = 9/30 (30%), Positives = 12/30 (40%)

Query: 28 SPFPGMDKSMTAVCEFYVRGECNKDTMCPL 57
               M    T VC+ ++RG C K   C  
Sbjct: 6  HHHSHMSGEKTVVCKHWLRGLCKKGDQCEF 35


>2rpp_A Muscleblind-like protein 2; zinc finger domain, C3H, alternative
          splicing, cytoplasm, metal-binding, nucleus,
          RNA-binding, zinc, zinc-finger; NMR {Homo sapiens}
          Length = 89

 Score = 25.9 bits (56), Expect = 0.69
 Identities = 8/31 (25%), Positives = 11/31 (35%), Gaps = 1/31 (3%)

Query: 27 PSPFPGMDKSMTAVCEFYVRGECNK-DTMCP 56
            P          VC  + RG C++ D  C 
Sbjct: 6  SGPVRDTKWLTLEVCRQFQRGTCSRSDEECK 36


>2e5s_A Otthump00000018578; ZF-CCCHX2 domain, muscleblind-like 2, isoform
          1, structural genomics, NPPSFA; NMR {Homo sapiens}
          Length = 98

 Score = 25.6 bits (55), Expect = 0.82
 Identities = 7/32 (21%), Positives = 12/32 (37%), Gaps = 1/32 (3%)

Query: 27 PSPFPGMDKSMTAVCEFYVRGECNK-DTMCPL 57
           +    +      VC  + RG C + +T C  
Sbjct: 9  TATQKLLRTDKLEVCREFQRGNCARGETDCRF 40


>3f79_A Probable two-component response regulator; adaptor, signaling
          protein; 2.80A {Pseudomonas aeruginosa} PDB: 3es2_A
          Length = 255

 Score = 24.2 bits (53), Expect = 3.4
 Identities = 6/31 (19%), Positives = 15/31 (48%)

Query: 4  LVANVENIKFDIEIALENQHDILPSPFPGMD 34
          L A++  ++ D     + Q ++LP     ++
Sbjct: 6  LQASLNLLQEDQNAGRQVQMNMLPVTPWSIE 36


>3u9g_A Zinc finger CCCH-type antiviral protein 1; zinc finger protein;
           1.80A {Rattus norvegicus}
          Length = 229

 Score = 23.6 bits (50), Expect = 6.6
 Identities = 7/25 (28%), Positives = 10/25 (40%), Gaps = 1/25 (4%)

Query: 40  VCEFYVRGECNKDTMCPLRPGLATP 64
           +CE + RG C+    C     L   
Sbjct: 177 ICEHFTRGNCSYLN-CLRSHNLMDR 200


  Database: pdb70
    Posted date:  Sep 4, 2012  3:40 AM
  Number of letters in database: 6,701,793
  Number of sequences in database:  27,921
  
Lambda     K      H
   0.321    0.138    0.430 

Gapped
Lambda     K      H
   0.267   0.0502    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,031,650
Number of extensions: 45603
Number of successful extensions: 55
Number of sequences better than 10.0: 1
Number of HSP's gapped: 55
Number of HSP's successfully gapped: 13
Length of query: 69
Length of database: 6,701,793
Length adjustment: 39
Effective length of query: 30
Effective length of database: 5,612,874
Effective search space: 168386220
Effective search space used: 168386220
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: 51 (24.0 bits)