RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy3819
         (122 letters)



>1j0g_A Hypothetical protein 1810045K17; ubiquitin-like fold, structural
           genomics, riken structural genomics/proteomics
           initiative, RSGI, unknown function; NMR {Mus musculus}
           SCOP: d.15.1.6 PDB: 1wxs_A 1l7y_A
          Length = 92

 Score = 82.5 bits (203), Expect = 4e-22
 Identities = 34/42 (80%), Positives = 37/42 (88%)

Query: 80  PLVTSAIITDDGIGINPQQTAGTVFMKHGCELRLIPRDRVGS 121
           P  TSAIIT+DGIGINP QTAG VF+KHG ELR+IPRDRVGS
Sbjct: 50  PAATSAIITNDGIGINPAQTAGNVFLKHGSELRIIPRDRVGS 91


>3h4l_A DNA mismatch repair protein PMS1; ATP binding, DNA repair, DNA
           damage, nucleus, phosphop DNA binding protein, protein
           binding; HET: DNA ANP; 2.50A {Saccharomyces cerevisiae}
          Length = 367

 Score = 28.3 bits (64), Expect = 0.54
 Identities = 7/21 (33%), Positives = 12/21 (57%), Gaps = 1/21 (4%)

Query: 87  ITDDGIGINPQQTAGTVFMKH 107
            +D+G GI+P      + +KH
Sbjct: 59  CSDNGDGIDPSN-YEFLALKH 78


>1h7s_A PMS1 protein homolog 2; DNA repair, GHL ATPase, mismatch repair,
           HNPCC; 1.95A {Homo sapiens} SCOP: d.14.1.3 d.122.1.2
           PDB: 1h7u_A* 1ea6_A*
          Length = 365

 Score = 27.9 bits (63), Expect = 0.72
 Identities = 5/21 (23%), Positives = 12/21 (57%), Gaps = 1/21 (4%)

Query: 87  ITDDGIGINPQQTAGTVFMKH 107
           ++D+G G+  +     + +KH
Sbjct: 68  VSDNGCGVEEEN-FEGLTLKH 87


>3p0k_A Sulfhydryl oxidase; 4-helix bundle, 5-helix bundle, flavin adenine
           dinucleotide, oxidoreductase, viral protein; HET: FAD;
           1.47A {Autographa californica nucleopolyhedro} PDB:
           3qzy_A*
          Length = 266

 Score = 26.9 bits (59), Expect = 1.9
 Identities = 4/37 (10%), Positives = 11/37 (29%), Gaps = 1/37 (2%)

Query: 73  RVGLGECPLVTSAIITDDGIGINPQQTAGTVFMKHGC 109
           +   G   +        +  G +    +  + MK+  
Sbjct: 183 KEKYGT-DITFVDSYQQETAGADVAVVSNNMLMKNLM 218


>2a0u_A Initiation factor 2B; SGPP, structural genomics, PSI, protein
           structure initiative eukaryotic initiation factor; 2.10A
           {Leishmania major} SCOP: c.124.1.5
          Length = 383

 Score = 26.4 bits (59), Expect = 3.0
 Identities = 6/12 (50%), Positives = 9/12 (75%)

Query: 81  LVTSAIITDDGI 92
           L+T  IIT+ G+
Sbjct: 353 LITGGIITEKGV 364


>3na3_A DNA mismatch repair protein MLH1; MUTL protein homolog 1, DNA damag
           repair, structural genomics consortium, SGC, protein
           bindin; HET: DNA ATP; 2.50A {Homo sapiens}
          Length = 348

 Score = 25.9 bits (58), Expect = 4.0
 Identities = 6/21 (28%), Positives = 9/21 (42%), Gaps = 1/21 (4%)

Query: 87  ITDDGIGINPQQTAGTVFMKH 107
           I D+G GI  +     V  + 
Sbjct: 62  IQDNGTGIRKED-LDIVCERF 81


>3luc_A Protein argonaute-2; MID domain, ribonucleoprotein, RNA-binding,
           RNA-mediated GEN silencing, translation regulation, RNA
           binding protein; 1.69A {Homo sapiens} PDB: 3lud_A*
           3lug_A 3luh_A 3luj_A* 3luk_A 3qx8_A* 3qx9_A*
          Length = 138

 Score = 24.6 bits (53), Expect = 7.8
 Identities = 12/47 (25%), Positives = 19/47 (40%), Gaps = 1/47 (2%)

Query: 60  ILPNRSEEDCECPRVGLGECPLVTSAIITDDGIGINPQQTAGTVFMK 106
           ILP ++    E  RVG     + T  +   +     P QT   + +K
Sbjct: 84  ILPGKTPVYAEVKRVGDTVLGMATQCVQMKNVQRTTP-QTLSNLCLK 129


  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
   0.322    0.144    0.473 

Gapped
Lambda     K      H
   0.267   0.0784    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,878,957
Number of extensions: 98536
Number of successful extensions: 177
Number of sequences better than 10.0: 1
Number of HSP's gapped: 176
Number of HSP's successfully gapped: 13
Length of query: 122
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 40
Effective length of database: 4,412,271
Effective search space: 176490840
Effective search space used: 176490840
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 (23.3 bits)