RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy8504
         (150 letters)



>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 = 31.6 bits (71), Expect = 0.093
 Identities = 26/136 (19%), Positives = 43/136 (31%), Gaps = 43/136 (31%)

Query: 32   LGFCSILGIPFNASTTQIVPFLALG---LSVDDMFLITKTF--AKYTSKNQF---DSECT 83
             GF SIL I  N      + F       +  +   +I +T    K  ++  F   +   T
Sbjct: 1657 YGF-SILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHST 1715

Query: 84   GI-------VLRKTGLS---IILSSVCKSVAFF----SASLIPIP------------AL- 116
                     +L  T  +   + L       A F    S  LIP              AL 
Sbjct: 1716 SYTFRSEKGLLSATQFTQPALTLM----EKAAFEDLKSKGLIPADATFAGHSLGEYAALA 1771

Query: 117  ---RVFNLQLAILILF 129
                V +++  + ++F
Sbjct: 1772 SLADVMSIESLVEVVF 1787


>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 = 2.4
 Identities = 24/145 (16%), Positives = 46/145 (31%), Gaps = 46/145 (31%)

Query: 10  VKSQAGV---GILGC---CLI-----SFSILAGLGFCSILGIPF-------NASTTQIVP 51
           ++    V   G+LG     +      S+ +   + F     I F       N+  T +  
Sbjct: 147 LRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDF----KI-FWLNLKNCNSPETVLEM 201

Query: 52  FLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLR--------KTGLSIILSSVCKSV 103
              L   +D  +    + + ++S  +         LR        +  L ++L +V    
Sbjct: 202 LQKLLYQIDPNW---TSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL-LVLLNVQ--- 254

Query: 104 AFFSASLIPIPALRVFNLQLAILIL 128
              +A          FNL   IL+ 
Sbjct: 255 ---NAKAW-----NAFNLSCKILLT 271


>3eo8_A BLUB-like flavoprotein; YP_001089088.1, structural genomics, center
           for structural genomics, JCSG, protein structure INI
           PSI-2; HET: FMN; 1.74A {Clostridium difficile 630}
          Length = 219

 Score = 26.7 bits (59), Expect = 2.7
 Identities = 8/40 (20%), Positives = 13/40 (32%), Gaps = 2/40 (5%)

Query: 19  LGCCLISFSILAGLGFCSILGIPFNASTTQIVPF--LALG 56
            G C ++    A     ++L         +      LALG
Sbjct: 158 YGSCWLTSQNYAADEIEAVLEAETGFEKGEYFLGAMLALG 197


>3gfa_A Putative nitroreductase; structural genomics, joint center for
           structural genomics, J protein structure initiative,
           PSI-2; HET: MSE FMN GOL; 1.35A {Clostridium difficile
           630}
          Length = 198

 Score = 26.2 bits (58), Expect = 3.7
 Identities = 10/38 (26%), Positives = 13/38 (34%), Gaps = 5/38 (13%)

Query: 19  LGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALG 56
           LG   I     A    C  L         Q+V  ++LG
Sbjct: 145 LGSLWICDVYFAYRELCEWLNTDS-----QLVAAISLG 177


>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics,
          NPPSFA, national project on protein structural and
          functional analyses; NMR {Homo sapiens}
          Length = 109

 Score = 25.5 bits (56), Expect = 5.3
 Identities = 10/28 (35%), Positives = 15/28 (53%), Gaps = 1/28 (3%)

Query: 39 GIPFNASTTQIVPFLALGLSVDDMFLIT 66
          G+PF+A    +  F   GL VD + L+ 
Sbjct: 23 GMPFSAMENDVRDFFH-GLRVDAVHLLK 49


  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
   0.331    0.144    0.426 

Gapped
Lambda     K      H
   0.267   0.0616    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,139,916
Number of extensions: 112643
Number of successful extensions: 204
Number of sequences better than 10.0: 1
Number of HSP's gapped: 204
Number of HSP's successfully gapped: 10
Length of query: 150
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 65
Effective length of database: 4,328,508
Effective search space: 281353020
Effective search space used: 281353020
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 53 (24.4 bits)