RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy5385
         (180 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 = 47.2 bits (111), Expect = 9e-07
 Identities = 40/208 (19%), Positives = 65/208 (31%), Gaps = 60/208 (28%)

Query: 18  RPKTQETLR-YL----HAPSVVL----------LTIRIARRYTILSPQSSNL--MNL--C 58
           R +    LR  L     A +V++          + + +   Y +       +  +NL  C
Sbjct: 133 RLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNC 192

Query: 59  RTQTECLIVLVPNGNKLKSIKPNIEKWP--SSNRKNRLEEVVLTRMRIGHTRLTHSYLFT 116
            +    L +L      L  I PN       SSN K R+  +           L    L  
Sbjct: 193 NSPETVLEMLQ---KLLYQIDPNWTSRSDHSSNIKLRIHSI--------QAEL--RRLLK 239

Query: 117 RSPQPTC------------------RCGDILTTVKHILTCPLDIQLRSSLP---NPPSLT 155
             P   C                   C  +LTT    +T  L     + +    +  +LT
Sbjct: 240 SKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLT 299

Query: 156 -DETTGVDAKF---KPNEEPARTTCTKH 179
            DE   +  K+   +P + P R   T +
Sbjct: 300 PDEVKSLLLKYLDCRPQDLP-REVLTTN 326


>2z1d_A Hydrogenase expression/formation protein HYPD; [NIFE] hydrogenase
           maturation, [4Fe-4S] cluster, thiol redox binding
           protein; HET: CSW; 2.07A {Thermococcus kodakarensis}
          Length = 372

 Score = 28.9 bits (65), Expect = 1.1
 Identities = 8/20 (40%), Positives = 10/20 (50%)

Query: 121 PTCRCGDILTTVKHILTCPL 140
             CRCG +L  +     CPL
Sbjct: 321 KGCRCGAVLRGLALPTDCPL 340


>4fk8_A Ferredoxin--NADP reductase; ssgcid, NIH, niaid, structural
           genomics, national institute allergy and infectious
           diseases; HET: FAD; 2.10A {Burkholderia thailandensis}
           PDB: 4f7d_A*
          Length = 271

 Score = 28.6 bits (64), Expect = 1.1
 Identities = 11/45 (24%), Positives = 20/45 (44%), Gaps = 10/45 (22%)

Query: 39  RIARRYTILSPQSSNLMNLCRTQTECLIVLVPNG---NKLKSIKP 80
            + R Y+I+SP     +       E   + V NG   ++L+ +K 
Sbjct: 63  PLTRAYSIVSPNYEEHL-------EFFSIKVQNGPLTSRLQHLKV 100


>3pu5_A Extracellular solute-binding protein; structural genomics, PSI-2,
           protein structure initiative; 2.05A {Bordetella
           parapertussis}
          Length = 333

 Score = 27.0 bits (60), Expect = 3.7
 Identities = 5/17 (29%), Positives = 11/17 (64%)

Query: 73  NKLKSIKPNIEKWPSSN 89
             L+ +KP+I K+ ++ 
Sbjct: 179 ATLERMKPHIFKFFTAF 195


>3bg2_A DGTP triphosphohydrolase; structural genomics, NYSGXRC, target
           10395N, triphosphohydro PSI-2, protein structure
           initiative; 1.95A {Leeuwenhoekiella blandensis}
          Length = 444

 Score = 26.6 bits (59), Expect = 5.5
 Identities = 7/7 (100%), Positives = 7/7 (100%)

Query: 106 HTRLTHS 112
           HTRLTHS
Sbjct: 63  HTRLTHS 69


>2pgs_A Putative deoxyguanosinetriphosphate triphosphohyd;
           deoxyguanosinetriphosphate triphsphohydrolase,
           pseudomonas S PV. phaseolicola 1448A; 2.35A {Pseudomonas
           syringae PV}
          Length = 451

 Score = 26.6 bits (59), Expect = 5.6
 Identities = 7/7 (100%), Positives = 7/7 (100%)

Query: 106 HTRLTHS 112
           HTRLTHS
Sbjct: 61  HTRLTHS 67


  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    0.131    0.395 

Gapped
Lambda     K      H
   0.267   0.0645    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,509,892
Number of extensions: 131594
Number of successful extensions: 186
Number of sequences better than 10.0: 1
Number of HSP's gapped: 186
Number of HSP's successfully gapped: 17
Length of query: 180
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 92
Effective length of database: 4,244,745
Effective search space: 390516540
Effective search space used: 390516540
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: 54 (24.8 bits)