RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy8441
         (234 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 = 35.0 bits (80), Expect = 0.020
 Identities = 25/184 (13%), Positives = 53/184 (28%), Gaps = 73/184 (39%)

Query: 45  IRSFVSKSSLQFHPKPIKSFVMVRKTSCSTSSDTNHYRDYGTLKTGLPEENGSKLLPKID 104
           I +  +K   +     +K+  +++          N+       K    +++ S L   + 
Sbjct: 101 IHALAAKLLQENDTTLVKTKELIK----------NYITARIMAKRPFDKKSNSALFRAVG 150

Query: 105 W----IFPI-------------LQEKSSSYFWYIASTITVAAVGI---------VSKWF- 137
                +  I             L++   +Y   +   I  +A  +           K F 
Sbjct: 151 EGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFT 210

Query: 138 -----LTWFNKVHCHNAKQLQSAFDSRPP-----HVPLLTVSNHDSCFDDPGLWVLLKNR 187
                L W           L++   + P       +P+       SC   P + V+    
Sbjct: 211 QGLNILEW-----------LENP-SNTPDKDYLLSIPI-------SC---PLIGVI---- 244

Query: 188 QLCN 191
           QL +
Sbjct: 245 QLAH 248



 Score = 28.5 bits (63), Expect = 2.7
 Identities = 18/141 (12%), Positives = 28/141 (19%), Gaps = 52/141 (36%)

Query: 137 FLTWFNKVHC-HNAKQLQSAFDSRPP-------------HVPLLTVSNHDSCFDDPGLWV 182
                 K        Q +  F  R               H  LL  ++     D     V
Sbjct: 389 LNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNV 448

Query: 183 LLKNRQL-------CNNSKMR--------------------WSMAAHDICFTQTSHSYFF 215
               + +        + S +R                    W          + +H   F
Sbjct: 449 SFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQ----FKATHILDF 504

Query: 216 ------MLGKCVP-VVRGAGI 229
                  LG        G G+
Sbjct: 505 GPGGASGLGVLTHRNKDGTGV 525


>3oc9_A UDP-N-acetylglucosamine pyrophosphorylase; structural genomics,
           seattle structural genomics center for infectious
           disease, ssgcid; 1.80A {Entamoeba histolytica}
          Length = 405

 Score = 31.3 bits (70), Expect = 0.24
 Identities = 22/100 (22%), Positives = 38/100 (38%), Gaps = 10/100 (10%)

Query: 26  CVPVVRGAGIYQPCGQRLMIRSFVSKSSLQFHPKPIKSFVMVRKTSCSTSSDTNHY-RDY 84
            +P      I+Q   +RL+    ++          I  F+M   T+  T  + N+Y +++
Sbjct: 59  VLPFEIPKSIFQMTSERLLRLQELASEYSHQKNVMIHWFLM---TNEETIEEINNYFKEH 115

Query: 85  GTLKTGLPEENGSKL----LPKIDWIFPILQEKSSSYFWY 120
                GL  E         LP +D+   IL EK    +  
Sbjct: 116 QYF--GLSSEQIHCFPQGMLPVVDFNGKILYEKKDKPYMA 153


>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
           photosynthetic reaction center, peripheral antenna; HET:
           CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
          Length = 154

 Score = 28.0 bits (61), Expect = 1.9
 Identities = 7/31 (22%), Positives = 11/31 (35%), Gaps = 13/31 (41%)

Query: 150 KQLQSAFDSRPPHVPLLTVSNHDSCFDDPGL 180
           K+LQ++      +         DS    P L
Sbjct: 23  KKLQASLK---LYAD-------DSA---PAL 40


>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 = 28.3 bits (62), Expect = 2.4
 Identities = 12/88 (13%), Positives = 27/88 (30%), Gaps = 21/88 (23%)

Query: 42  RLMIRSFVSKSSLQFHPKPIKSFVM--VRKTSCSTSSDTNHYR----DYGTLKTGLPEEN 95
            +++      S ++  PK     +     +      ++   +R     Y   KT    ++
Sbjct: 405 MVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKT---FDS 461

Query: 96  GSKLLPKIDWIFPILQEKSSSYF-WYIA 122
              + P +D            YF  +I 
Sbjct: 462 DDLIPPYLD-----------QYFYSHIG 478


>3gz5_A MUTT/nudix family protein; DNA binding protein, nudix domain, WHTH
           domain; 2.20A {Shewanella oneidensis} PDB: 3gz6_A*
           3gz8_A*
          Length = 240

 Score = 26.2 bits (57), Expect = 8.4
 Identities = 11/40 (27%), Positives = 16/40 (40%)

Query: 148 NAKQLQSAFDSRPPHVPLLTVSNHDSCFDDPGLWVLLKNR 187
              +  + +D +     LLTV      + D  L VLL  R
Sbjct: 5   TEAEYLANYDPKAFKAQLLTVDAVLFTYHDQQLKVLLVQR 44


  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
   0.325    0.136    0.452 

Gapped
Lambda     K      H
   0.267   0.0500    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,567,873
Number of extensions: 189298
Number of successful extensions: 351
Number of sequences better than 10.0: 1
Number of HSP's gapped: 350
Number of HSP's successfully gapped: 8
Length of query: 234
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 143
Effective length of database: 4,160,982
Effective search space: 595020426
Effective search space used: 595020426
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 (21.7 bits)
S2: 56 (25.9 bits)