RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy12650
         (90 letters)



>2og4_A PRE-mRNA-splicing factor 8; isopeptidase, JAB1/MPN domain,
           protein-PR interaction, PRP8P, pseudoenzyme, spliceosome
           activation; 2.00A {Saccharomyces cerevisiae}
          Length = 254

 Score = 53.4 bits (128), Expect = 3e-10
 Identities = 14/68 (20%), Positives = 23/68 (33%)

Query: 6   HITHLLIPKQAGTADSCITHHEEEIFACQDKYNLITLGWIHWQLHITHLLIPKQAGTADS 65
            I  +++  Q G   S    +  +I    D   L  LGWIH Q      +   +  T   
Sbjct: 77  EIKTVVLVPQLGHVGSVQISNIPDIGDLPDTEGLELLGWIHTQTEELKFMAASEVATHSK 136

Query: 66  CITHHEEE 73
                + +
Sbjct: 137 LFADKKRD 144



 Score = 51.5 bits (123), Expect = 1e-09
 Identities = 12/41 (29%), Positives = 17/41 (41%)

Query: 50  HITHLLIPKQAGTADSCITHHEEEIFACQDKYNLITLGWIH 90
            I  +++  Q G   S    +  +I    D   L  LGWIH
Sbjct: 77  EIKTVVLVPQLGHVGSVQISNIPDIGDLPDTEGLELLGWIH 117


>3sbg_A PRE-mRNA-splicing factor 8; PRP8P, rnaseh domain, JAB1/MPN domain;
           3.28A {Saccharomyces cerevisiae}
          Length = 565

 Score = 48.6 bits (115), Expect = 2e-08
 Identities = 14/67 (20%), Positives = 23/67 (34%)

Query: 7   ITHLLIPKQAGTADSCITHHEEEIFACQDKYNLITLGWIHWQLHITHLLIPKQAGTADSC 66
           I  +++  Q G   S    +  +I    D   L  LGWIH Q      +   +  T    
Sbjct: 389 IKTVVLVPQLGHVGSVQISNIPDIGDLPDTEGLELLGWIHTQTEELKFMAASEVATHSKL 448

Query: 67  ITHHEEE 73
               + +
Sbjct: 449 FADKKRD 455



 Score = 47.1 bits (111), Expect = 7e-08
 Identities = 12/40 (30%), Positives = 17/40 (42%)

Query: 51  ITHLLIPKQAGTADSCITHHEEEIFACQDKYNLITLGWIH 90
           I  +++  Q G   S    +  +I    D   L  LGWIH
Sbjct: 389 IKTVVLVPQLGHVGSVQISNIPDIGDLPDTEGLELLGWIH 428


>3rzv_A STAM-binding protein; ubiquitin hydrolase, endosome-associated
           deubiquitinat enzyme, hydrolase; 1.67A {Homo sapiens}
           PDB: 3rzu_A
          Length = 211

 Score = 46.6 bits (110), Expect = 8e-08
 Identities = 26/46 (56%), Positives = 35/46 (76%)

Query: 1   VQSELHITHLLIPKQAGTADSCITHHEEEIFACQDKYNLITLGWIH 46
           +++E  ITH+LIPKQ+  +D C T +EEE+F  QD+  LITLGWIH
Sbjct: 77  MRNEFTITHVLIPKQSAGSDYCNTENEEELFLIQDQQGLITLGWIH 122



 Score = 45.4 bits (107), Expect = 2e-07
 Identities = 25/47 (53%), Positives = 33/47 (70%)

Query: 44  WIHWQLHITHLLIPKQAGTADSCITHHEEEIFACQDKYNLITLGWIH 90
            +  +  ITH+LIPKQ+  +D C T +EEE+F  QD+  LITLGWIH
Sbjct: 76  LMRNEFTITHVLIPKQSAGSDYCNTENEEELFLIQDQQGLITLGWIH 122


>2znr_A AMSH-like protease; metal binding protein, alternative splicing,
          hydrolase, metal-binding, metalloprotease, UBL
          conjugation pathway, zinc; 1.20A {Homo sapiens} PDB:
          2znv_A
          Length = 178

 Score = 41.6 bits (97), Expect = 4e-06
 Identities = 21/46 (45%), Positives = 32/46 (69%)

Query: 1  VQSELHITHLLIPKQAGTADSCITHHEEEIFACQDKYNLITLGWIH 46
            +E  ITH+++PKQ+   D C   + EE+F  QD+++L+TLGWIH
Sbjct: 44 THNEFTITHVIVPKQSAGPDYCDMENVEELFNVQDQHDLLTLGWIH 89



 Score = 40.8 bits (95), Expect = 9e-06
 Identities = 21/47 (44%), Positives = 32/47 (68%)

Query: 44 WIHWQLHITHLLIPKQAGTADSCITHHEEEIFACQDKYNLITLGWIH 90
            H +  ITH+++PKQ+   D C   + EE+F  QD+++L+TLGWIH
Sbjct: 43 LTHNEFTITHVIVPKQSAGPDYCDMENVEELFNVQDQHDLLTLGWIH 89


>2p8r_A PRP8, PRE-mRNA-splicing factor PRP8; alpha-beta, translation; 2.10A
           {Caenorhabditis elegans} PDB: 2p87_A
          Length = 273

 Score = 39.9 bits (93), Expect = 2e-05
 Identities = 8/43 (18%), Positives = 16/43 (37%), Gaps = 2/43 (4%)

Query: 6   HITHLLIPKQAGTADSCITHHEEEIFACQDKYNLITLGWIHWQ 48
            I  +++  Q G+        +      +   +   LGW+H Q
Sbjct: 78  EIRCIVLVPQTGSHQQVNLPTQLPDH--ELLRDFEPLGWMHTQ 118



 Score = 39.5 bits (92), Expect = 3e-05
 Identities = 7/41 (17%), Positives = 15/41 (36%), Gaps = 2/41 (4%)

Query: 50  HITHLLIPKQAGTADSCITHHEEEIFACQDKYNLITLGWIH 90
            I  +++  Q G+        +      +   +   LGW+H
Sbjct: 78  EIRCIVLVPQTGSHQQVNLPTQLPDH--ELLRDFEPLGWMH 116


  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
   0.324    0.137    0.460 

Gapped
Lambda     K      H
   0.267   0.0503    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,437,501
Number of extensions: 65730
Number of successful extensions: 93
Number of sequences better than 10.0: 1
Number of HSP's gapped: 91
Number of HSP's successfully gapped: 14
Length of query: 90
Length of database: 6,701,793
Length adjustment: 57
Effective length of query: 33
Effective length of database: 5,110,296
Effective search space: 168639768
Effective search space used: 168639768
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: 40 (21.6 bits)
S2: 51 (24.0 bits)