RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy4920
         (111 letters)



>3fcp_A L-Ala-D/L-Glu epimerase, A muconate lactonizing enzyme;
          structural genomics, nysgrc,target 9450E, PSI-2; 1.80A
          {Klebsiella pneumoniae subsp}
          Length = 381

 Score = 29.9 bits (68), Expect = 0.13
 Identities = 8/64 (12%), Positives = 21/64 (32%), Gaps = 10/64 (15%)

Query: 1  MCMVMEISALHALHLTLDHATPLRNEYSESIGCQIIKQDDV-----TQEGLSGLKSCPPD 55
          M +   +  + +  + +    P    +  S+   +  Q  V       +G+ G+      
Sbjct: 1  MSLTATVEQIESWIVDV----PTIRPHKLSMT-TMGCQSLVIVRLTRSDGICGIGEATTI 55

Query: 56 GLVW 59
          G + 
Sbjct: 56 GGLS 59


>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 = 27.5 bits (60), Expect = 0.95
 Identities = 7/53 (13%), Positives = 20/53 (37%), Gaps = 21/53 (39%)

Query: 34  QIIKQDDVT--------QEGLSGLKSCPPDGLVWRLAICSSHALYSMGGA-KS 77
           Q+  + +V+        ++ L  L+  P   ++          +  + G+ K+
Sbjct: 124 QVFAKYNVSRLQPYLKLRQALLELR--PAKNVL----------IDGVLGSGKT 164


>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 = 0.98
 Identities = 18/89 (20%), Positives = 31/89 (34%), Gaps = 15/89 (16%)

Query: 10  LHAL--HLTLDHATPLRNEYSESIGCQIIKQ-DDVTQEGLSGLKSCPPDGLVWRLAICSS 66
           +HAL   L  ++ T L          ++IK                    L +R     +
Sbjct: 101 IHALAAKLLQENDTTLVKTK------ELIKNYITARIMAKRPFDKKSNSAL-FRAVGEGN 153

Query: 67  HALYSM-GGAKSFAHVWFEFVQELRYRWE 94
             L ++ GG +     +FE   ELR  ++
Sbjct: 154 AQLVAIFGG-QGNTDDYFE---ELRDLYQ 178



 Score = 27.3 bits (60), Expect = 1.1
 Identities = 14/50 (28%), Positives = 19/50 (38%), Gaps = 13/50 (26%)

Query: 49   LKSCPPDGLVWRLAICSSH------ALYSMGGAKSFAHVWFEFVQELRYR 92
            LKS    GL+   A  + H      AL S+    S        V+ + YR
Sbjct: 1747 LKS---KGLIPADATFAGHSLGEYAALASLADVMSIE----SLVEVVFYR 1789


>1u5l_A Prion protein; pRNP, PRP, TSE, membrane protein; NMR {Trachemys
           scripta} SCOP: d.6.1.1
          Length = 108

 Score = 24.6 bits (53), Expect = 6.0
 Identities = 11/31 (35%), Positives = 18/31 (58%)

Query: 70  YSMGGAKSFAHVWFEFVQELRYRWENSLRIP 100
           Y++G A S   + F+  +E ++  ENS R P
Sbjct: 10  YALGSAMSGMRMNFDRPEERQWWNENSNRYP 40


>1v9f_A Ribosomal large subunit pseudouridine synthase D; RNA binding,
           lyase; 1.70A {Escherichia coli} SCOP: d.265.1.3 PDB:
           2ist_A 1qyu_A 1prz_A
          Length = 325

 Score = 24.8 bits (55), Expect = 8.3
 Identities = 8/19 (42%), Positives = 9/19 (47%), Gaps = 2/19 (10%)

Query: 9   ALHALHLTLDHATPLRNEY 27
           ALHA  L L H  P+    
Sbjct: 277 ALHATMLRLYH--PISGIE 293


  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    0.135    0.424 

Gapped
Lambda     K      H
   0.267   0.0447    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,665,800
Number of extensions: 83441
Number of successful extensions: 118
Number of sequences better than 10.0: 1
Number of HSP's gapped: 118
Number of HSP's successfully gapped: 12
Length of query: 111
Length of database: 6,701,793
Length adjustment: 75
Effective length of query: 36
Effective length of database: 4,607,718
Effective search space: 165877848
Effective search space used: 165877848
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 (24.1 bits)