RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy1957
         (149 letters)



>3rbn_A DNA mismatch repair protein MLH1; structural genomics, structural
           genomics consortium, SGC, DN mismatch repair,
           endonucleases, protein binding; HET: DNA; 2.16A {Homo
           sapiens}
          Length = 284

 Score =  177 bits (449), Expect = 2e-56
 Identities = 69/146 (47%), Positives = 95/146 (65%)

Query: 4   RREIKLSSVRDLRGEIEKQKSSQLCEVFRKLSFVGCATPCMCLIQHETKLYIVNVTYVLE 63
           RR I L+SV  L+ EI +Q    L E+    SFVGC  P   L QH+TKLY++N T + E
Sbjct: 31  RRIINLTSVLSLQEEINEQGHEVLREMLHNHSFVGCVNPQWALAQHQTKLYLLNTTKLSE 90

Query: 64  ELFYQLMLHDFGNFGVFRFENPVSIKELLLISLDLPDSGWDPSNGSKSEVAESASQFLLS 123
           ELFYQ++++DF NFGV R   P  + +L +++LD P+SGW   +G K  +AE   +FL  
Sbjct: 91  ELFYQILIYDFANFGVLRLSEPAPLFDLAMLALDSPESGWTEEDGPKEGLAEYIVEFLKK 150

Query: 124 RADMLTDYFSMEIDTQARLRTLPLLV 149
           +A+ML DYFS+EID +  L  LPLL+
Sbjct: 151 KAEMLADYFSLEIDEEGNLIGLPLLI 176


>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
           programmed cell death; HET: DTP; 6.90A {Drosophila
           melanogaster} PDB: 3iz8_A*
          Length = 1221

 Score = 30.6 bits (68), Expect = 0.20
 Identities = 16/93 (17%), Positives = 31/93 (33%), Gaps = 16/93 (17%)

Query: 62  LEELFYQLMLHDFGNFGVFRFENPVSIKELLLISLDLPDSGWDPSNGSKSEVAESASQF- 120
           L  L        F    VF   +   I  +LL  +      W   +  KS+V    ++  
Sbjct: 363 LNVLEPAEYRKMFDRLSVFP-PS-AHIPTILLSLI------W--FDVIKSDVMVVVNKLH 412

Query: 121 ---LLSR--ADMLTDYFSMEIDTQARLRTLPLL 148
              L+ +   +      S+ ++ + +L     L
Sbjct: 413 KYSLVEKQPKESTISIPSIYLELKVKLENEYAL 445


>1wln_A Afadin; beta sandwich, FHA domain, structural genomics, NPPSFA,
           national project on protein structural and functional
           analyses; NMR {Mus musculus} SCOP: b.26.1.2
          Length = 120

 Score = 26.8 bits (59), Expect = 1.7
 Identities = 14/61 (22%), Positives = 21/61 (34%), Gaps = 12/61 (19%)

Query: 42  PCMCLIQHETKLYIV------NVTYVLEELFYQ-LMLHD-----FGNFGVFRFENPVSIK 89
           P  C + +   +  V        TYV  +   +  ML       FG   VF+F +P    
Sbjct: 59  PHHCDLTNMDGVVTVTPRSMDAETYVDGQRISETTMLQSGMRLQFGTSHVFKFVDPSGPS 118

Query: 90  E 90
            
Sbjct: 119 S 119


>1w36_B RECB, exodeoxyribonuclease V beta chain; recombination, helicase,
          hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia
          coli} SCOP: c.37.1.19 c.37.1.19 c.52.1.24 PDB: 3k70_B*
          Length = 1180

 Score = 27.2 bits (60), Expect = 2.7
 Identities = 11/36 (30%), Positives = 22/36 (61%), Gaps = 3/36 (8%)

Query: 59 TYVLEELFYQLMLHDFGNFGVFRFENPVSIKELLLI 94
          T+ +  L+ +L+L   G  G   F  P++++ELL++
Sbjct: 30 TFTIAALYLRLLL---GLGGSAAFPRPLTVEELLVV 62


>3c4h_A Poly(ADP-ribose) polymerase 3; enzyme-inhibitor complex, catalytic
           fragment, structural GEN structural genomics consortium,
           SGC; HET: DRL; 2.10A {Homo sapiens} PDB: 3c49_A* 2pa9_A*
           3ce0_A* 3fhb_A*
          Length = 357

 Score = 26.3 bits (57), Expect = 5.3
 Identities = 9/35 (25%), Positives = 17/35 (48%)

Query: 66  FYQLMLHDFGNFGVFRFENPVSIKELLLISLDLPD 100
           FY ++ H+FG+       +P  ++    + L L D
Sbjct: 82  FYTVIPHNFGHSQPPPINSPELLQAKKDMLLVLAD 116


>3owa_A Acyl-COA dehydrogenase; structural genomics, center for structural
           genomics of infec diseases, csgid, alpha-structure,
           beta-barrel; HET: MSE FAD 1PE; 1.97A {Bacillus
           anthracis}
          Length = 597

 Score = 25.8 bits (57), Expect = 7.3
 Identities = 10/27 (37%), Positives = 17/27 (62%), Gaps = 4/27 (14%)

Query: 119 QFLLSR-ADMLTDYFSMEIDTQARLRT 144
           Q +L   AD++++ ++ME    A LRT
Sbjct: 490 QEILVNIADIVSNLYAME---SAVLRT 513


>2uxw_A VERY-long-chain specific acyl-COA dehydrogenase; fatty acid
           metabolism, transit peptide, disease mutation, LI
           metabolism, coenzyme A dehydrogenase; HET: FAD TH3;
           1.45A {Homo sapiens} PDB: 3b96_A*
          Length = 607

 Score = 25.8 bits (57), Expect = 7.7
 Identities = 9/18 (50%), Positives = 11/18 (61%), Gaps = 1/18 (5%)

Query: 119 QFLLSR-ADMLTDYFSME 135
           QFLL R AD   D ++M 
Sbjct: 514 QFLLQRLADGAIDLYAMV 531


>2z1q_A Acyl-COA dehydrogenase; FAD, structural genomics, NPPSFA, Na
           project on protein structural and functional analyses;
           HET: FAD; 2.30A {Thermus thermophilus}
          Length = 577

 Score = 25.4 bits (56), Expect = 9.5
 Identities = 7/18 (38%), Positives = 11/18 (61%), Gaps = 1/18 (5%)

Query: 119 QFLLSR-ADMLTDYFSME 135
           Q +L   AD+L D ++ E
Sbjct: 476 QEVLGAVADILIDAYAAE 493


  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
   0.323    0.138    0.400 

Gapped
Lambda     K      H
   0.267   0.0549    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,164,914
Number of extensions: 114060
Number of successful extensions: 139
Number of sequences better than 10.0: 1
Number of HSP's gapped: 139
Number of HSP's successfully gapped: 10
Length of query: 149
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 64
Effective length of database: 4,328,508
Effective search space: 277024512
Effective search space used: 277024512
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (24.6 bits)