RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy4122
         (162 letters)



>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 = 33.0 bits (74), Expect = 0.020
 Identities = 8/29 (27%), Positives = 15/29 (51%), Gaps = 5/29 (17%)

Query: 87  KQR-REIVNGTAIYYDQSA----VRAAIE 110
           KQ  +++     +Y D SA    ++A +E
Sbjct: 19  KQALKKLQASLKLYADDSAPALAIKATME 47


>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 = 32.1 bits (72), Expect = 0.082
 Identities = 21/133 (15%), Positives = 46/133 (34%), Gaps = 33/133 (24%)

Query: 1   MTIAINSQEYVRFTLIYLFSVNTDALTQDWLSHLRWILQKDNMSQDVFLIGKPGSLRRSL 60
           +    + +    F +++L     D          R++ QK  +  D       GS+  +L
Sbjct: 481 LKNIEHPERMTLFRMVFL-----D---------FRFLEQK--IRHDSTAWNASGSILNTL 524

Query: 61  AMSYLELTQREVEYICLSRDTTEADIKQRREIVN-----GTAIYYDQSA--VRAAI--EG 111
                +L   +  YIC +    E  +     I++        +   +    +R A+  E 
Sbjct: 525 ----QQLKFYK-PYICDNDPKYERLVN---AILDFLPKIEENLICSKYTDLLRIALMAED 576

Query: 112 RVLILEGIEKAER 124
             +  E  ++ +R
Sbjct: 577 EAIFEEAHKQVQR 589



 Score = 31.0 bits (69), Expect = 0.19
 Identities = 26/145 (17%), Positives = 59/145 (40%), Gaps = 32/145 (22%)

Query: 34  LRWILQKDNMSQDVFLIGKPGSLRRSLAMSYL---ELTQR---EVEYICLSR-DTTEADI 86
           LR  L +   +++V + G  GS +  +A+      ++  +   ++ ++ L   ++ E  +
Sbjct: 140 LRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVL 199

Query: 87  KQ-----RREIVNGTA-------IYYDQSAVRAAIEGRVLILEGIEKAERNVLPVLNNLL 134
           +       +   N T+       I     +++A +  R L+     K   N L VL N +
Sbjct: 200 EMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAEL--RRLLK---SKPYENCLLVLLN-V 253

Query: 135 ENREMHLE--DG--RFLVSASTYDK 155
           +N +      +   + L+  +T  K
Sbjct: 254 QNAK-AWNAFNLSCKILL--TTRFK 275


>4dqv_A Probable peptide synthetase NRP (peptide synthase; GXXGXXG motif,
           rossmann fold, short chain dehydrogenase/REDU family,
           reductase; 2.30A {Mycobacterium tuberculosis}
          Length = 478

 Score = 29.5 bits (66), Expect = 0.53
 Identities = 17/74 (22%), Positives = 29/74 (39%)

Query: 45  QDVFLIGKPGSLRRSLAMSYLELTQREVEYICLSRDTTEADIKQRREIVNGTAIYYDQSA 104
           + V L G  G L R L +  L     +   ICL R  ++ D ++R E    +        
Sbjct: 74  RTVLLTGATGFLGRYLVLELLRRLDVDGRLICLVRAESDEDARRRLEKTFDSGDPELLRH 133

Query: 105 VRAAIEGRVLILEG 118
            +     R+ ++ G
Sbjct: 134 FKELAADRLEVVAG 147


>2j63_A AP-endonuclease; base excision repair, lyase; 2.48A {Leishmania
           major}
          Length = 467

 Score = 26.9 bits (59), Expect = 4.0
 Identities = 11/66 (16%), Positives = 18/66 (27%), Gaps = 1/66 (1%)

Query: 95  GTAIYYDQSAVRAAIEGRVLILEGIEKAERNVLPVLNNLLENREMHLEDGRFLVSASTYD 154
           GT  Y   S     +  R      +    +      + +L       E GR L +  + D
Sbjct: 222 GTRTYMKNSTTVKGLHARCTRGFALPSEPQADAAAGSRVLVEGAGDEE-GRVLTTFLSPD 280

Query: 155 KLLQVE 160
                 
Sbjct: 281 PDSASS 286


>2pm7_B Protein transport protein SEC13, protein transport protein SEC31;
           beta propeller, alpha solenoid; 2.35A {Saccharomyces
           cerevisiae} PDB: 2pm9_B 2pm6_B 3iko_A 3mzk_A 3mzl_A
          Length = 297

 Score = 26.4 bits (59), Expect = 4.3
 Identities = 7/16 (43%), Positives = 8/16 (50%), Gaps = 1/16 (6%)

Query: 140 HLEDGRFLVSASTYDK 155
           H + G  L S S YD 
Sbjct: 63  HPKFGTILASCS-YDG 77


>3jro_A Fusion protein of protein transport protein SEC13 and nucleoporin
           NUP145; protein complex, cytoplasmic vesicle,
           endoplasmic reticulum, ER-golgi transport, membrane,
           mRNA transport; 4.00A {Saccharomyces cerevisiae}
          Length = 753

 Score = 25.7 bits (56), Expect = 9.3
 Identities = 7/16 (43%), Positives = 8/16 (50%), Gaps = 1/16 (6%)

Query: 140 HLEDGRFLVSASTYDK 155
           H + G  L S S YD 
Sbjct: 63  HPKFGTILASCS-YDG 77


  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
   0.320    0.135    0.375 

Gapped
Lambda     K      H
   0.267   0.0591    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,409,100
Number of extensions: 137060
Number of successful extensions: 510
Number of sequences better than 10.0: 1
Number of HSP's gapped: 509
Number of HSP's successfully gapped: 17
Length of query: 162
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 76
Effective length of database: 4,300,587
Effective search space: 326844612
Effective search space used: 326844612
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 (21.8 bits)
S2: 53 (24.5 bits)