RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy12287
         (76 letters)



>2jgp_A Tyrocidine synthetase 3; multifunctional enzyme, antibiotic
           biosynthesis, condensatio domain, peptide bond
           formation, ligase; 1.85A {Brevibacillus brevis}
          Length = 520

 Score = 34.1 bits (79), Expect = 0.002
 Identities = 9/25 (36%), Positives = 10/25 (40%)

Query: 29  RVTFTIPKEAAVRLRQLAQQGNATL 53
           + T    K     L QLAQ    TL
Sbjct: 305 QCTIGAGKALTEGLHQLAQATGTTL 329


>1l5a_A Amide synthase, VIBH; nonribosomal peptide synthetase, NRPS
           condensation domain, vibriobactin, biosynthetic protein;
           2.55A {Vibrio cholerae} SCOP: c.43.1.2 c.43.1.2
          Length = 436

 Score = 32.2 bits (74), Expect = 0.007
 Identities = 5/27 (18%), Positives = 12/27 (44%)

Query: 27  SVRVTFTIPKEAAVRLRQLAQQGNATL 53
           +V +++T+  +    L +LA       
Sbjct: 208 AVSLSYTLNSQLNHLLLKLANANQIGW 234


>2vsq_A Surfactin synthetase subunit 3; ligase, peptidyl carrier protein,
           ligase phosphoprotein, TER module, phosphopantetheine;
           2.60A {Bacillus subtilis}
          Length = 1304

 Score = 31.1 bits (71), Expect = 0.022
 Identities = 5/25 (20%), Positives = 11/25 (44%)

Query: 29  RVTFTIPKEAAVRLRQLAQQGNATL 53
            + F+  +       +LA+  + TL
Sbjct: 230 ELLFSPSEAETKAFTELAKSQHTTL 254


>1q9j_A PAPA5, polyketide synthase associated protein 5; conjugating enzyme
           PAPA5, structural genomics, PSI protein structure
           initiative; 2.75A {Mycobacterium tuberculosis} SCOP:
           c.43.1.2 c.43.1.2
          Length = 422

 Score = 29.8 bits (67), Expect = 0.060
 Identities = 3/25 (12%), Positives = 8/25 (32%)

Query: 29  RVTFTIPKEAAVRLRQLAQQGNATL 53
                + K+    L    ++   +L
Sbjct: 213 VTRLWLSKQQTSDLMAFGREHRLSL 237


>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 = 0.12
 Identities = 9/43 (20%), Positives = 15/43 (34%), Gaps = 7/43 (16%)

Query: 15 EGINLRKVEPWN----SVRVTFTIPKEAAVRLRQLAQQGNATL 53
          +  + R   P      S+     +P  +     QL +Q N  L
Sbjct: 2  DAYSTR---PLTLSHGSLEHVLLVPTASFFIASQLQEQFNKIL 41


>1vf7_A Multidrug resistance protein MEXA; alpha hairpin, beta barrel,
           membrane protein; 2.40A {Pseudomonas aeruginosa} SCOP:
           f.46.1.1 PDB: 2v4d_A 1t5e_A
          Length = 369

 Score = 24.9 bits (55), Expect = 2.4
 Identities = 9/36 (25%), Positives = 13/36 (36%)

Query: 28  VRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQV 63
           + V  T P  A +RLR+    G           V +
Sbjct: 176 IYVDVTQPSTALLRLRRELASGQLERAGDNAAKVSL 211


>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural
          genomics, joint center FO structural genomics, JCSG;
          HET: MSE; 1.65A {Klebsiella pneumoniae subsp}
          Length = 212

 Score = 24.9 bits (55), Expect = 2.5
 Identities = 5/25 (20%), Positives = 9/25 (36%), Gaps = 1/25 (4%)

Query: 36 KEAAVRLRQLAQQGNAT-LLQLGIL 59
           E   + +Q A+ G+      L   
Sbjct: 3  TEPGSQYQQQAEAGDRRAQYYLADT 27


>2p4g_A Hypothetical protein; pyrimidine reductase-like protein, structural
           genomics, JOIN for structural genomics, JCSG; 2.30A
           {Corynebacterium diphtheriae}
          Length = 270

 Score = 24.8 bits (54), Expect = 3.6
 Identities = 10/67 (14%), Positives = 21/67 (31%), Gaps = 18/67 (26%)

Query: 20  RKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEG-------------- 65
           ++++    V V   +   +   L+         L    +  + +EG              
Sbjct: 154 QRLQKLIDVGVEVIVAPTSTNPLKIAFDA----LHARRLKKISIEGGPSVYRQALSLGIV 209

Query: 66  DELILTL 72
           D L LT+
Sbjct: 210 DRLHLTI 216


>2gmh_A Electron transfer flavoprotein-ubiquinone oxidoreductase; HET:
          BHG FAD UQ5; 2.50A {Sus scrofa} SCOP: c.3.1.2 d.16.1.8
          d.58.1.6 PDB: 2gmj_A*
          Length = 584

 Score = 24.4 bits (53), Expect = 4.0
 Identities = 9/16 (56%), Positives = 10/16 (62%)

Query: 38 AAVRLRQLAQQGNATL 53
          AA RL+QLA Q    L
Sbjct: 50 AATRLKQLAAQHEKDL 65


>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown
          function, SEL1-like repeats; 1.68A {Escherichia coli}
          Length = 490

 Score = 24.2 bits (53), Expect = 6.2
 Identities = 8/26 (30%), Positives = 12/26 (46%), Gaps = 1/26 (3%)

Query: 35 PKEAAVRLRQLAQQGNAT-LLQLGIL 59
                +L+Q A+ G A   L+LG  
Sbjct: 23 GNVNLEQLKQKAESGEAKAQLELGYR 48


  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
   0.322    0.138    0.396 

Gapped
Lambda     K      H
   0.267   0.0770    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,119,839
Number of extensions: 52740
Number of successful extensions: 150
Number of sequences better than 10.0: 1
Number of HSP's gapped: 150
Number of HSP's successfully gapped: 10
Length of query: 76
Length of database: 6,701,793
Length adjustment: 45
Effective length of query: 31
Effective length of database: 5,445,348
Effective search space: 168805788
Effective search space used: 168805788
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (23.3 bits)