RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy3738
         (136 letters)



>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 = 35.6 bits (81), Expect = 0.003
 Identities = 23/133 (17%), Positives = 38/133 (28%), Gaps = 43/133 (32%)

Query: 16  TAEATTTFLLSCLTPSCPFVFPDQDSLKEALLETSPYLLAATVIVSILHSVFELLAFKND 75
           T +   + LL  L   C         L   +L T+P  L+  +I   +            
Sbjct: 299 TPDEVKSLLLKYL--DCRP-----QDLPREVLTTNPRRLS--IIAESIRD------GLAT 343

Query: 76  IQFWNNRQ----------SLEGLS---VRSVF--FNVFQ-------SVVVLL------YV 107
              W +            SL  L     R +F   +VF         ++ L+        
Sbjct: 344 WDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSD 403

Query: 108 LDNDANTLIRISC 120
           +    N L + S 
Sbjct: 404 VMVVVNKLHKYSL 416



 Score = 31.4 bits (70), Expect = 0.073
 Identities = 23/108 (21%), Positives = 37/108 (34%), Gaps = 31/108 (28%)

Query: 40  DSLKEALLETSP--YL------------LAATVIVSILHSVFELLAFKNDIQFW---NNR 82
             L++ALLE  P   +            +A  V +S  + V         I FW    N 
Sbjct: 138 LKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLS--YKV--QCKMDFKI-FWLNLKNC 192

Query: 83  QSLEGLSVRSVFFNVFQSVVVLLYVLDNDANTLIRISCFVSVGIELWK 130
            S E +        + Q    LLY +D +  +    S  + + I   +
Sbjct: 193 NSPETV------LEMLQK---LLYQIDPNWTSRSDHSSNIKLRIHSIQ 231



 Score = 28.3 bits (62), Expect = 0.87
 Identities = 17/94 (18%), Positives = 27/94 (28%), Gaps = 14/94 (14%)

Query: 1   MNNKWKNVLFVISSATAEATTTFLLSCLTP--------SCPFVFPDQDSLKEALLETSPY 52
               W N   V          + L + L P            VFP    +   LL     
Sbjct: 340 GLATWDNWKHVNCDKLTTIIESSL-NVLEPAEYRKMFDRL-SVFPPSAHIPTILLS---- 393

Query: 53  LLAATVIVSILHSVFELLAFKNDIQFWNNRQSLE 86
           L+   VI S +  V   L   + ++      ++ 
Sbjct: 394 LIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTIS 427


>3k2v_A Putative D-arabinose 5-phosphate isomerase; KPSF-like protein,
          CBS domain, structural genomics, PSI-2, P structure
          initiative; HET: MSE CMK; 1.95A {Klebsiella pneumoniae
          subsp} PDB: 3fna_A*
          Length = 149

 Score = 25.5 bits (57), Expect = 4.9
 Identities = 10/28 (35%), Positives = 14/28 (50%), Gaps = 1/28 (3%)

Query: 33 PFVFPDQDSLKEALLETSPYLLAATVIV 60
          P V     +L++ALLE +   L  T I 
Sbjct: 41 PHVGLQ-ATLRDALLEITRKNLGMTAIC 67


>3a1b_A DNA (cytosine-5)-methyltransferase 3A, histone H3; zinc-finger,
           histone binding, chromosomal protein, DNA damag repair,
           DNA-binding, methylation; HET: DNA; 2.29A {Homo sapiens}
           PDB: 3a1a_A*
          Length = 159

 Score = 24.7 bits (53), Expect = 9.6
 Identities = 4/13 (30%), Positives = 6/13 (46%)

Query: 24  LLSCLTPSCPFVF 36
           +L C   +C   F
Sbjct: 91  VLMCGNNNCCRCF 103


  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    0.136    0.404 

Gapped
Lambda     K      H
   0.267   0.0537    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,910,032
Number of extensions: 94541
Number of successful extensions: 206
Number of sequences better than 10.0: 1
Number of HSP's gapped: 206
Number of HSP's successfully gapped: 7
Length of query: 136
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 52
Effective length of database: 4,356,429
Effective search space: 226534308
Effective search space used: 226534308
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: 52 (24.3 bits)