RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy9699
         (123 letters)



>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 = 27.1 bits (59), Expect = 1.6
 Identities = 21/99 (21%), Positives = 38/99 (38%), Gaps = 24/99 (24%)

Query: 42  GIFAVAKKDHIV-WEASSYLKKYD-DMYNLVLQ--YKDTKTGVTRSEQFNK-SVANYFDE 96
            I A + +D +  W+     K  + D    +++      +    R + F++ SV   F  
Sbjct: 331 SIIAESIRDGLATWD---NWKHVNCDKLTTIIESSLNVLEPAEYR-KMFDRLSV---FPP 383

Query: 97  -----TGLL-------LPDLVENDVSRLHNSILAEKKKE 123
                T LL       +   V   V++LH   L EK+ +
Sbjct: 384 SAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPK 422


>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller,
            endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP:
            i.23.1.1 PDB: 1xi5_A 3iyv_A
          Length = 1630

 Score = 26.5 bits (58), Expect = 2.6
 Identities = 24/101 (23%), Positives = 40/101 (39%), Gaps = 18/101 (17%)

Query: 28   MMGILTLYTTYK--EKGIFAVAKKDHIVWEASSYL-KKYDDMYNLVL------------- 71
            M   L L+ +     K + A  +     W    +L  KY++  N ++             
Sbjct: 1332 MREHLELFWSRVNIPKVLRAAEQAHL--WAELVFLYDKYEEYDNAIITMMNHPTDAWKEG 1389

Query: 72   QYKDTKTGVTRSEQFNKSVANYFDETGLLLPDLVENDVSRL 112
            Q+KD  T V   E + +++  Y +   LLL DL+     RL
Sbjct: 1390 QFKDIITKVANVELYYRAIQFYLEFKPLLLNDLLMVLSPRL 1430


>3gmx_B BLP; 2-layer alpha/beta sandwich, protein binding; 1.05A
          {Streptomyces clavuligerus} PDB: 3gmy_A
          Length = 154

 Score = 26.0 bits (56), Expect = 3.0
 Identities = 10/47 (21%), Positives = 19/47 (40%)

Query: 38 YKEKGIFAVAKKDHIVWEASSYLKKYDDMYNLVLQYKDTKTGVTRSE 84
          Y  +G F     D ++ +    L         +  Y  T+TG+T ++
Sbjct: 47 YGPQGHFFFNAADKLIHKRQMELFPAPKPTMRLATYNKTQTGMTEAQ 93


>3f2b_A DNA-directed DNA polymerase III alpha chain; DNA polymerase C, DNA
           polymerase III; HET: DGT; 2.39A {Geobacillus
           kaustophilus} PDB: 3f2c_A* 3f2d_A*
          Length = 1041

 Score = 26.1 bits (58), Expect = 3.5
 Identities = 15/88 (17%), Positives = 26/88 (29%), Gaps = 14/88 (15%)

Query: 34  LYTTYKEKGIFAVAKKDHIVWEASSYLKKYDDMYNLVLQYKD-TKTGVTRSEQFNKSVAN 92
           L    K+ G  A+A  DH V            + +    Y    K G+        ++ +
Sbjct: 137 LIEQAKKWGHPAIAVTDHAV------------VQSFPEAYSAAKKHGMKVIYGLEANIVD 184

Query: 93  YFDETGLLLPDLVENDVSRL-HNSILAE 119
                            S   H ++LA+
Sbjct: 185 DGVPIAYNETHRRLGSGSGPFHVTLLAQ 212


>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic
           vesicle, membrane, Ca structural protein; 7.94A {Bos
           taurus} PDB: 3lvh_A
          Length = 624

 Score = 25.7 bits (56), Expect = 5.6
 Identities = 24/101 (23%), Positives = 40/101 (39%), Gaps = 18/101 (17%)

Query: 28  MMGILTLYTTYK--EKGIFAVAKKDHIVWEASSYL-KKYDDMYNLVL------------- 71
           M   L L+ +     K + A  +     W    +L  KY++  N ++             
Sbjct: 281 MREHLELFWSRVNIPKVLRAAEQAHL--WAELVFLYDKYEEYDNAIITMMNHPTDAWKEG 338

Query: 72  QYKDTKTGVTRSEQFNKSVANYFDETGLLLPDLVENDVSRL 112
           Q+KD  T V   E + +++  Y +   LLL DL+     RL
Sbjct: 339 QFKDIITKVANVELYYRAIQFYLEFKPLLLNDLLMVLSPRL 379


>3h4u_A Amidohydrolase; signature of Zn ligands, structural genomics,
           NYSGXRC, target 9236E, PSI-2, protein structure
           initiative; 2.20A {Unidentified} PDB: 3hpa_A
          Length = 479

 Score = 25.3 bits (56), Expect = 7.2
 Identities = 6/37 (16%), Positives = 14/37 (37%), Gaps = 8/37 (21%)

Query: 84  EQFNKSVANYFDETGLLLPDLV--------ENDVSRL 112
           E+F  + A Y ++ G +  D+         +  +   
Sbjct: 272 EKFGMTPAEYAEDLGWVGHDVWHAHCVQLDDAGIGLF 308


>3ls9_A Triazine hydrolase; atrazine chlorohydrolase TRZN; 1.40A
           {Arthrobacter aurescens} PDB: 3lsc_A* 3lsb_A*
          Length = 456

 Score = 24.9 bits (55), Expect = 8.1
 Identities = 1/37 (2%), Positives = 9/37 (24%), Gaps = 8/37 (21%)

Query: 84  EQFNKSVANYFDETGLLLPDLV--------ENDVSRL 112
             +  +   + ++ G     +           ++   
Sbjct: 250 HLYGMTPWRFLEKHGWASDRVWLAHAVVPPREEIPEF 286


>3n4i_B BLIP, beta-lactamase inhibitory protein; beta-lactamase inhibitor
          protein, protein-PR complex, SHV-1, hydrolase; 1.56A
          {Streptomyces clavuligerus} PDB: 1jtg_B 2b5r_C 2g2w_B
          3e2k_C 3e2l_C* 3gmu_B 2g2u_B 3c4p_B 3c7v_B 1s0w_C
          3c7u_B 3c4o_B 1xxm_C
          Length = 165

 Score = 24.6 bits (52), Expect = 9.1
 Identities = 8/50 (16%), Positives = 18/50 (36%)

Query: 35 YTTYKEKGIFAVAKKDHIVWEASSYLKKYDDMYNLVLQYKDTKTGVTRSE 84
          Y  Y   G  + A    +  ++   L         + ++     G+TR++
Sbjct: 50 YYAYATFGFTSAAADAKVDSKSQEKLLAPSAPTLTLAKFNQVTVGMTRAQ 99


  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
   0.321    0.136    0.403 

Gapped
Lambda     K      H
   0.267   0.0798    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,809,499
Number of extensions: 92899
Number of successful extensions: 184
Number of sequences better than 10.0: 1
Number of HSP's gapped: 184
Number of HSP's successfully gapped: 13
Length of query: 123
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 41
Effective length of database: 4,412,271
Effective search space: 180903111
Effective search space used: 180903111
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: 51 (23.3 bits)