RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy12389
         (104 letters)



>3mwp_A Nucleoprotein; structural genomics, scottish structural PROT
           facility, SSPF, nuclear protein; 1.79A {Lassa virus
           josiah} PDB: 3mwt_A 3mx2_A* 3mx5_A* 3r3l_A 3t5q_A 3t5n_A
          Length = 577

 Score = 30.3 bits (68), Expect = 0.078
 Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 14/61 (22%)

Query: 55  TRKEPADSDLPLSKVSAPHPIINIVTQPQS--------YSISGSLDPGAPPQDG----ET 102
           T K P  SDL   +++  HPI+N++   +S        +S+  ++  GA   DG    ET
Sbjct: 218 TAKYPNTSDL--DRLTQSHPILNMIDTKKSSLNISGYNFSLGAAVKAGACMLDGGNMLET 275

Query: 103 I 103
           I
Sbjct: 276 I 276


>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 = 29.8 bits (66), Expect = 0.13
 Identities = 17/106 (16%), Positives = 33/106 (31%), Gaps = 17/106 (16%)

Query: 3   FELLLDLMHTLHIRTAQIYRWWADENPETEM--------SSLWSQGWCPLLQGIARLCCD 54
           F+ L     + HI T  +   W D      M         SL  +        I  +  +
Sbjct: 375 FDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLE 434

Query: 55  TRKEPADSDLPLSKVSAPHPIINIVTQPQSYSISGSLDPGAPPQDG 100
            +    +++  L +      I++    P+++      D   P  D 
Sbjct: 435 LKV-KLENEYALHRS-----IVDHYNIPKTFDSD---DLIPPYLDQ 471


>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
           acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
           synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
          Length = 2006

 Score = 27.7 bits (61), Expect = 0.69
 Identities = 20/87 (22%), Positives = 27/87 (31%), Gaps = 32/87 (36%)

Query: 45  LQGIARLCCDTRKEPADSDL-----PLSK-----------VSAP-H--------PIINIV 79
           L G   L    RK  A S L     P S+           V++P H         +IN  
Sbjct: 386 LYG---LNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKD 442

Query: 80  TQPQSYSISGSLDPGAP---PQDGETI 103
               + S +   D   P     DG  +
Sbjct: 443 LVKNNVSFNAK-DIQIPVYDTFDGSDL 468


>3bvr_A NOTI restriction endonuclease; protein-DNA complex; HET: DNA;
          2.50A {Nocardia otitidiscaviarum} PDB: 3bvq_A* 3c25_A*
          Length = 383

 Score = 24.7 bits (52), Expect = 8.3
 Identities = 10/64 (15%), Positives = 23/64 (35%), Gaps = 4/64 (6%)

Query: 21 YRWWADENPETEMSSLWSQGWCPLLQGIARLCCDTRKEPADSDLPLSKV--SAPHPIINI 78
          +R + +        +  + G CP L   A    +T    A++   +  V  +  +   + 
Sbjct: 21 HRVYPEVVSTEAARNDQATGTCPFLT--AAKLVETSCVKAETSRGVCVVNTAVDNERYDW 78

Query: 79 VTQP 82
          +  P
Sbjct: 79 LVCP 82


  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
   0.318    0.134    0.436 

Gapped
Lambda     K      H
   0.267   0.0571    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,589,597
Number of extensions: 75366
Number of successful extensions: 136
Number of sequences better than 10.0: 1
Number of HSP's gapped: 135
Number of HSP's successfully gapped: 8
Length of query: 104
Length of database: 6,701,793
Length adjustment: 69
Effective length of query: 35
Effective length of database: 4,775,244
Effective search space: 167133540
Effective search space used: 167133540
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (23.8 bits)