RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy12609
         (93 letters)



>1v9m_A V-type ATP synthase subunit C; VOV1-ATPase, V-type ATPase, the C
           subunit, thermus thermophi riken structural
           genomics/proteomics initiative; 1.85A {Thermus
           thermophilus} SCOP: f.40.1.1 PDB: 1r5z_A 3j0j_M*
          Length = 323

 Score = 57.0 bits (137), Expect = 2e-11
 Identities = 10/65 (15%), Positives = 19/65 (29%)

Query: 17  SALFEGAGNDPGDKTLEDKFFEHEVRLNVYAFLQQFHFGVFYSYLKLKEQECRNIVWISE 76
              F G       K LE       ++            G+  +Y+K +E E   +  ++ 
Sbjct: 246 GTPFSGLSGVRDLKALERGLRCVLLKEAKKGVQDPLGVGLVLAYVKEREWEAVRLRLLAR 305

Query: 77  CVAQK 81
                
Sbjct: 306 RAYFG 310


>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 = 0.11
 Identities = 19/105 (18%), Positives = 37/105 (35%), Gaps = 22/105 (20%)

Query: 1   MLNTIEIPFNIF-PQEYSALFEGAGNDPGD-----KTLEDKFFEHEVRLNVYAFLQQFHF 54
           +   IE   N+  P EY  +F+     P         L    +   ++ +V   + + H 
Sbjct: 355 LTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLS-LIWFDVIKSDVMVVVNKLH- 412

Query: 55  GVFYSYLKLKEQECRNIVWI----------SECVAQKHRTKIDNY 89
                Y  +++Q   + + I           E     HR+ +D+Y
Sbjct: 413 ----KYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHY 453



 Score = 24.4 bits (52), Expect = 8.6
 Identities = 6/26 (23%), Positives = 9/26 (34%), Gaps = 2/26 (7%)

Query: 43  LNVYAFLQQFHFGVFYSYLKLKEQEC 68
              Y    +  F +F  +L LK    
Sbjct: 171 CLSYKVQCKMDFKIF--WLNLKNCNS 194


>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 = 27.3 bits (60), Expect = 0.65
 Identities = 8/33 (24%), Positives = 12/33 (36%), Gaps = 10/33 (30%)

Query: 15   EYSALFEGAGNDPGDKTLEDKFFEHEVRLNVYA 47
            EY+AL   A        +     E  V + V+ 
Sbjct: 1766 EYAALASLAD------VMS---IESLVEV-VFY 1788



 Score = 24.2 bits (52), Expect = 8.8
 Identities = 16/71 (22%), Positives = 22/71 (30%), Gaps = 25/71 (35%)

Query: 2   LNTIEIPFNIFPQEYSALFEGAGNDPGDKTLEDKFFEHEVRLNVYA-FLQQFHFGVFYSY 60
               + PF+      SALF   G             E   +L   A F  Q   G    Y
Sbjct: 130 RIMAKRPFDKKSN--SALFRAVG-------------EGNAQL--VAIFGGQ---GNTDDY 169

Query: 61  LKLKEQECRNI 71
            +    E R++
Sbjct: 170 FE----ELRDL 176


>2ebw_A DNA repair protein REV1; A/B/A 3 layers, parallel beta-sheet, DNA
          replication, translession synthesis, TLS, DNA
          polymerase zeta, PCNA; HET: DNA; NMR {Homo sapiens}
          Length = 97

 Score = 25.6 bits (56), Expect = 1.5
 Identities = 7/34 (20%), Positives = 12/34 (35%), Gaps = 3/34 (8%)

Query: 59 SYLKLKEQECRNIV---WISECVAQKHRTKIDNY 89
             K+KE +   ++   WI E +          Y
Sbjct: 60 PNAKIKELKGEKVIRPEWIVESIKAGRLLSYIPY 93


  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
   0.326    0.143    0.446 

Gapped
Lambda     K      H
   0.267   0.0522    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,438,290
Number of extensions: 70527
Number of successful extensions: 160
Number of sequences better than 10.0: 1
Number of HSP's gapped: 160
Number of HSP's successfully gapped: 10
Length of query: 93
Length of database: 6,701,793
Length adjustment: 60
Effective length of query: 33
Effective length of database: 5,026,533
Effective search space: 165875589
Effective search space used: 165875589
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: 51 (23.9 bits)