RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy3643
         (153 letters)



>1x2i_A HEF helicase/nuclease; alpha helix, helix-hairpin-helix DNA
          binding domain, homodimer, hydrolase; 1.45A {Pyrococcus
          furiosus} SCOP: a.60.2.5
          Length = 75

 Score = 28.0 bits (63), Expect = 0.34
 Identities = 6/25 (24%), Positives = 13/25 (52%)

Query: 75 ELSHLPGIRATMCRKIRQKVHGEWR 99
          EL  + GI   + ++IR+ +   + 
Sbjct: 47 ELMKVEGIGEKIAKEIRRVITAPYI 71


>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 = 28.9 bits (64), Expect = 0.70
 Identities = 17/98 (17%), Positives = 27/98 (27%), Gaps = 32/98 (32%)

Query: 75  ELSHL-----PGIR-------ATMCRKIRQKVHGEWRYYRGC---AWLGEPGIGGDERY- 118
           EL  L       +         T+   IR  +  E  + +G     WL  P    D+ Y 
Sbjct: 172 ELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYL 231

Query: 119 ----------CLMRTGTYNVFMEYCTCMSKDGCNTASL 146
                      +++   Y V       +   G     L
Sbjct: 232 LSIPISCPLIGVIQLAHYVVT---AKLL---GFTPGEL 263


>3fpc_A NADP-dependent alcohol dehydrogenase; oxydoreductase, bacterial
           alcohol dehydrogenase, domain exchange, chimera,
           metal-binding; 1.40A {Thermoanaerobacter brockii} PDB:
           2nvb_A* 1ykf_A* 1bxz_A* 3ftn_A 3fsr_A 1y9a_A* 2oui_A*
           3fpl_A* 1jqb_A 1kev_A* 1ped_A 2b83_A
          Length = 352

 Score = 27.5 bits (62), Expect = 2.0
 Identities = 3/27 (11%), Positives = 7/27 (25%), Gaps = 1/27 (3%)

Query: 35  VVISAV-SCIKCWNCRSDSDPKCADPF 60
           VV+ A+    +    +           
Sbjct: 81  VVVPAITPDWRTSEVQRGYHQHSGGML 107


>1kol_A Formaldehyde dehydrogenase; oxidoreductase; HET: NAD; 1.65A
           {Pseudomonas putida} SCOP: b.35.1.2 c.2.1.1
          Length = 398

 Score = 26.1 bits (58), Expect = 5.2
 Identities = 6/23 (26%), Positives = 11/23 (47%), Gaps = 1/23 (4%)

Query: 35  VVIS-AVSCIKCWNCRSDSDPKC 56
           V +   V+C +C +C+      C
Sbjct: 89  VSVPFNVACGRCRSCKEMHTGVC 111


>3vu7_H DNA repair protein REV1; DNA replication, translesion DNA
          synthesis, damage tolerance, DNA repair, replication;
          HET: DNA; 2.80A {Homo sapiens} PDB: 2lsj_A*
          Length = 124

 Score = 25.5 bits (55), Expect = 5.2
 Identities = 13/59 (22%), Positives = 22/59 (37%), Gaps = 6/59 (10%)

Query: 43 IKCWNCRSDSDPKCADPFDNSSIPINDCKV--EPELSHLPGIRATMCRKIRQKVHGEWR 99
          ++ W   + SDP      D   +      +  E +L  L  +   M R ++Q V   W 
Sbjct: 45 LREW-ITTISDPM---EEDILQVVKYCTDLIEEKDLEKLDLVIKYMKRLMQQSVESVWN 99


>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 = 26.4 bits (57), Expect = 5.3
 Identities = 5/21 (23%), Positives = 9/21 (42%), Gaps = 6/21 (28%)

Query: 52  SDPKCADPFDNSSIPINDCKV 72
            + K  + F+ S      CK+
Sbjct: 254 QNAKAWNAFNLS------CKI 268


>2dph_A Formaldehyde dismutase; dismutation of aldehydes, oxidoreductase;
           HET: NAD; 2.27A {Pseudomonas putida}
          Length = 398

 Score = 26.1 bits (58), Expect = 5.6
 Identities = 7/23 (30%), Positives = 11/23 (47%), Gaps = 1/23 (4%)

Query: 35  VVIS-AVSCIKCWNCRSDSDPKC 56
           V +   V+C +C NC+      C
Sbjct: 88  VSVPFNVACGRCRNCKEARSDVC 110


>2gbs_A Hypothetical protein RPA0253; alpha-beta, RPR3, NESG, structural
           genomics, COG294 protein structure initiative; NMR
           {Rhodopseudomonas palustris} SCOP: b.122.1.8
          Length = 145

 Score = 25.6 bits (56), Expect = 6.2
 Identities = 9/53 (16%), Positives = 19/53 (35%), Gaps = 2/53 (3%)

Query: 32  IFTVVISAVSCIKCWNCRSDS-DPKCADPFDNSSIPINDCKVEPELSHLPGIR 83
           I  ++  A       + +    D K   P     + +   K EP L+ +  ++
Sbjct: 63  IAEIIREAYPDPTDASGKFVCVDIKADKPLKTP-VTLAAVKAEPRLADMALMK 114


  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
   0.324    0.137    0.474 

Gapped
Lambda     K      H
   0.267   0.0518    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,392,440
Number of extensions: 130417
Number of successful extensions: 385
Number of sequences better than 10.0: 1
Number of HSP's gapped: 385
Number of HSP's successfully gapped: 22
Length of query: 153
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 68
Effective length of database: 4,328,508
Effective search space: 294338544
Effective search space used: 294338544
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 (21.5 bits)
S2: 53 (24.7 bits)