RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy15773
         (73 letters)



>3i9v_5 NADH-quinone oxidoreductase subunit 5; electron transport,
           respiratory chain, cell flavoprotein, FMN, iron,
           iron-sulfur, membrane; HET: FMN; 3.10A {Thermus
           thermophilus} PDB: 2ybb_5* 2fug_5* 3iam_5* 3ias_5*
           3m9s_5*
          Length = 207

 Score = 41.2 bits (97), Expect = 3e-06
 Identities = 8/57 (14%), Positives = 15/57 (26%), Gaps = 6/57 (10%)

Query: 5   PVQDLYTGLK-VRYDDEKKRVVV-----EPLELAQEFRKFQLETPWEQFPNFRNTPG 55
           P+ +  T  +  RY    +           L   +   +    + W      R   G
Sbjct: 151 PLGETPTLFREGRYIIPAEFRAALTGKDPGLTFYKGGSRKGYRSLWADLKKAREVKG 207


>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 = 28.5 bits (63), Expect = 0.15
 Identities = 13/71 (18%), Positives = 20/71 (28%), Gaps = 26/71 (36%)

Query: 4   GPVQDLY------------TGL---KVRYDDEKKRVVVE------P-----LELAQEFRK 37
           GP Q LY            +GL   ++ + + K +          P     L  A +   
Sbjct: 381 GPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLIN 440

Query: 38  FQLETPWEQFP 48
             L      F 
Sbjct: 441 KDLVKNNVSFN 451


>2qgh_A Diaminopimelate decarboxylase; lyase; HET: PLP LYS; 2.30A
           {Helicobacter pylori} PDB: 3c5q_A*
          Length = 425

 Score = 23.6 bits (52), Expect = 6.3
 Identities = 6/27 (22%), Positives = 13/27 (48%), Gaps = 3/27 (11%)

Query: 12  GLKVRYDDEKKRVVVEPLELAQEFRKF 38
           G+ V Y++E+    ++  + AQ     
Sbjct: 245 GIGVSYENEET---IKLYDYAQGILNA 268


>2ygr_A Uvrabc system protein A; hydrolase, nucleotide excision repair;
           3.40A {Mycobacterium tuberculosis} PDB: 3zqj_A
          Length = 993

 Score = 23.6 bits (52), Expect = 6.4
 Identities = 6/18 (33%), Positives = 10/18 (55%), Gaps = 1/18 (5%)

Query: 31  LAQEFRKFQLETPWEQFP 48
           L +    F ++TPW + P
Sbjct: 352 LGEAL-GFDVDTPWRKLP 368


>2r6f_A Excinuclease ABC subunit A; UVRA, nucleotide excision repair, DNA
           repair, ABC ATPase, at cassette, DNA damage, DNA
           excision; HET: ADP; 3.20A {Geobacillus
           stearothermophilus} PDB: 3uwx_A
          Length = 972

 Score = 23.6 bits (52), Expect = 8.0
 Identities = 2/18 (11%), Positives = 8/18 (44%), Gaps = 1/18 (5%)

Query: 31  LAQEFRKFQLETPWEQFP 48
           + + +    ++ P +  P
Sbjct: 342 VCRHY-GIPMDVPVKDLP 358


>3pih_A Uvrabc system protein A; hydrolase, ABC ATPase, DNA repair,
           nucleotide excision repai hydrolase-DNA complex; HET:
           DNA; 2.90A {Thermotoga maritima}
          Length = 916

 Score = 23.6 bits (52), Expect = 9.0
 Identities = 2/18 (11%), Positives = 6/18 (33%), Gaps = 1/18 (5%)

Query: 31  LAQEFRKFQLETPWEQFP 48
             ++        P++  P
Sbjct: 321 EIEKR-GVSPHLPFKDLP 337


  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
   0.309    0.132    0.378 

Gapped
Lambda     K      H
   0.267   0.0593    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,143,913
Number of extensions: 54474
Number of successful extensions: 80
Number of sequences better than 10.0: 1
Number of HSP's gapped: 80
Number of HSP's successfully gapped: 8
Length of query: 73
Length of database: 6,701,793
Length adjustment: 43
Effective length of query: 30
Effective length of database: 5,501,190
Effective search space: 165035700
Effective search space used: 165035700
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 51 (23.7 bits)