RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy17939
         (81 letters)



>2vgl_B AP-2 complex subunit beta-1; cytoplasmic vesicle, alternative
          splicing, endocytosis, lipid-binding, golgi apparatus,
          adaptor, membrane, transport; HET: IHP; 2.59A {Homo
          sapiens} SCOP: i.23.1.1 PDB: 2jkt_B 2jkr_B* 2xa7_B
          1w63_B
          Length = 591

 Score = 54.8 bits (132), Expect = 9e-11
 Identities = 13/61 (21%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 10 EKGDTKIKIEALKKVIQMIANGERLPGILMIIIRFVLPMQDHMIKKLLLIFWEIVPKTTP 69
               + + EA+KKVI  +  G+ +  +   ++   +   +  +KKL+ ++     K+ P
Sbjct: 23 NNEKKEKRKEAVKKVIAAMTVGKDVSSLFPDVVN-CMQTDNLELKKLVYLYLMNYAKSQP 81

Query: 70 D 70
          D
Sbjct: 82 D 82


>3tjz_B Coatomer subunit gamma; protein trafficking, golgi membrane,
           protein transport-prote binding complex; HET: GNP; 2.90A
           {Bos taurus}
          Length = 355

 Score = 43.1 bits (101), Expect = 1e-06
 Identities = 9/62 (14%), Positives = 22/62 (35%), Gaps = 4/62 (6%)

Query: 13  DTKIKIEALKKVIQMIANGERLPGILMIIIRF----VLPMQDHMIKKLLLIFWEIVPKTT 68
           + +     L K++ +I  GE L         F    +    D  ++++  +  + +    
Sbjct: 40  NPRKCAHILTKILYLINQGEHLGTTEATEAFFAMTKLFQSNDPTLRRMCYLTIKEMSCIA 99

Query: 69  PD 70
            D
Sbjct: 100 ED 101


>2hh7_A Hypothetical protein CSOR; 4-helix bundle, unknown function;
          2.55A {Mycobacterium tuberculosis}
          Length = 119

 Score = 25.6 bits (56), Expect = 1.3
 Identities = 6/25 (24%), Positives = 10/25 (40%)

Query: 4  CVSHHIEKGDTKIKIEALKKVIQMI 28
          C S  +  G  +  IE L   ++  
Sbjct: 65 CFSTAVLDGHGQAAIEELIDAVKFT 89


>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 = 25.7 bits (55), Expect = 1.6
 Identities = 5/24 (20%), Positives = 10/24 (41%), Gaps = 6/24 (25%)

Query: 49 QDHMIKKL---LLIFWEIVPKTTP 69
          +   +KKL   L ++      + P
Sbjct: 18 EKQALKKLQASLKLY---ADDSAP 38


>3aai_A Copper homeostasis operon regulatory protein; all alpha proteins,
          4-helix bundle, transcription; 2.10A {Thermus
          thermophilus}
          Length = 94

 Score = 24.8 bits (54), Expect = 2.6
 Identities = 6/23 (26%), Positives = 13/23 (56%)

Query: 4  CVSHHIEKGDTKIKIEALKKVIQ 26
           V+   E+GD +  +E L + ++
Sbjct: 70 HVATAHERGDVEEIVEELMEALK 92


>3l2p_A DNA ligase 3; DNA ligase, DNA repair, ATP-binding, cell cycle,
          cell divisi damage; HET: DNA AMP; 3.00A {Homo sapiens}
          Length = 579

 Score = 24.7 bits (54), Expect = 4.1
 Identities = 5/37 (13%), Positives = 17/37 (45%)

Query: 14 TKIKIEALKKVIQMIANGERLPGILMIIIRFVLPMQD 50
             K + ++  ++  + G+   G + + ++ +LP   
Sbjct: 25 YNTKTQIIQDFLRKGSAGDGFHGDVYLTVKLLLPGVI 61


>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 = 24.0 bits (51), Expect = 7.3
 Identities = 13/63 (20%), Positives = 19/63 (30%), Gaps = 13/63 (20%)

Query: 15  KIKIEALKKVIQMIANGERLPGILMIIIR------FVLPMQDHMIK-KLLLIFWEIVPKT 67
            +  + L  +I+   N   L        R       V P     I   LL + W  V K+
Sbjct: 349 HVNCDKLTTIIESSLN--VLEPAEY---RKMFDRLSVFP-PSAHIPTILLSLIWFDVIKS 402

Query: 68  TPD 70
              
Sbjct: 403 DVM 405


>1h7b_A Anaerobic ribonucleotide-triphosphate reductase large chain;
           oxidoreductase, allosteric regulation, substrate
           specificity; 2.45A {Bacteriophage T4} SCOP: c.7.1.3 PDB:
           1h79_A* 1h7a_A* 1h78_A 1hk8_A*
          Length = 605

 Score = 23.8 bits (51), Expect = 7.7
 Identities = 6/25 (24%), Positives = 11/25 (44%)

Query: 7   HHIEKGDTKIKIEALKKVIQMIANG 31
            ++E  D K  ++ L+ V    A  
Sbjct: 506 SYVELPDMKNNLKGLEAVWDYAAQH 530


>2rnn_A E3 SUMO-protein ligase SIZ1; SUMO ligase, DNA binding, sumoylation,
           metal-binding, nucLeu phosphoprotein, UBL conjugation
           pathway; NMR {Saccharomyces cerevisiae}
          Length = 114

 Score = 23.6 bits (50), Expect = 9.1
 Identities = 7/21 (33%), Positives = 13/21 (61%)

Query: 15  KIKIEALKKVIQMIANGERLP 35
             +++A+K +I+ I   E LP
Sbjct: 82  PYRVQAVKFLIERIRKNEPLP 102


  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
   0.327    0.143    0.431 

Gapped
Lambda     K      H
   0.267   0.0531    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,294,458
Number of extensions: 65654
Number of successful extensions: 232
Number of sequences better than 10.0: 1
Number of HSP's gapped: 231
Number of HSP's successfully gapped: 12
Length of query: 81
Length of database: 6,701,793
Length adjustment: 50
Effective length of query: 31
Effective length of database: 5,305,743
Effective search space: 164478033
Effective search space used: 164478033
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 51 (23.9 bits)