RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy7109
         (236 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 = 44.3 bits (104), Expect = 2e-05
 Identities = 44/239 (18%), Positives = 71/239 (29%), Gaps = 73/239 (30%)

Query: 1    MDSFGNSK------NLSDTHIQAKSPYLDFDPAYLPKTSQPEFIFPEGASKQRGR----- 49
            MD +  SK      N +D H +       F    +   +        G   ++G+     
Sbjct: 1633 MDLYKTSKAAQDVWNRADNHFKDT---YGFSILDIVINNPVNLTIHFGG--EKGKRIREN 1687

Query: 50   -FELAFSQIGGSCMLGAAIGGAEGFYKGLRNTTLEGQTGKLRRTQ------------LLN 96
               + F  I    +    I   +   +   + T   + G L  TQ               
Sbjct: 1688 YSAMIFETIVDGKLKTEKI--FKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFE 1745

Query: 97   HIMKHG-----SATA--STLG------TIA-VMYSSF--GVLLQTTRGTDDDFNTLTAAT 140
             +   G     +  A  S LG      ++A VM  S    V +   RG      T+  A 
Sbjct: 1746 DLKSKGLIPADATFAGHS-LGEYAALASLADVM--SIESLVEVVFYRG-----MTMQVAV 1797

Query: 141  ATGMLFRSTGNCLVSSLSSFSLHFCDNKTSAVTVPSIRPLTCSQKLLENIVKERSKRCG 199
                L RS    +                 A+  P     + SQ+ L+ +V+   KR G
Sbjct: 1798 PRDELGRSNYGMI-----------------AIN-PGRVAASFSQEALQYVVERVGKRTG 1838



 Score = 32.7 bits (74), Expect = 0.11
 Identities = 55/293 (18%), Positives = 84/293 (28%), Gaps = 100/293 (34%)

Query: 2   DSFGNSKNLSDTHIQAKSPYLDFDPAYLPKTSQPEFIFPEGASKQRGRFELAF------- 54
           + F  +K L +       P   F     P T+  E +         G+F L +       
Sbjct: 35  EQF--NKILPE-------PTEGFAADDEP-TTPAELV---------GKF-LGYVSSLVEP 74

Query: 55  SQIGGSC-MLGAAIGGAEGFYKGLRNT-------TLEG--QTGKLRRTQLL------NHI 98
           S++G    +L   +   E  Y  L           L     T  ++  +L+        +
Sbjct: 75  SKVGQFDQVLNLCLTEFENCY--LEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIM 132

Query: 99  MK------HGSA--TASTLGTIAVMYSSFGVLLQTTRGTDDD-FNTL-----TAATATGM 144
            K        SA   A   G  A + + FG   Q   G  DD F  L     T     G 
Sbjct: 133 AKRPFDKKSNSALFRAVGEGN-AQLVAIFGG--Q---GNTDDYFEELRDLYQTYHVLVGD 186

Query: 145 LFRSTGNCL---VSSLSSFSLHF---CDNK----------------TSAVTVPSIRPLTC 182
           L + +   L   + +       F    +                  +  ++ P I  +  
Sbjct: 187 LIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQL 246

Query: 183 SQ-----KLLENIVKE-RSKRCGLKKCGLGGVVGLGIASLYVLWNKRDSLSDF 229
           +      KLL     E RS   G      G V  + IA         DS   F
Sbjct: 247 AHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAE-------TDSWESF 292



 Score = 26.6 bits (58), Expect = 8.8
 Identities = 7/18 (38%), Positives = 7/18 (38%), Gaps = 6/18 (33%)

Query: 9   NLSDTHIQAKSPYLDFDP 26
               THI      LDF P
Sbjct: 495 QFKATHI------LDFGP 506


>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 = 32.5 bits (73), Expect = 0.14
 Identities = 29/186 (15%), Positives = 51/186 (27%), Gaps = 60/186 (32%)

Query: 2   DSFGNSKNLSDTHIQAKSPYLDFDPAYLPKTSQPEFIFPEGASKQRGRFELAFSQIGGSC 61
            +    +  S   +  K  YLD  P  LP+  +     P              S I  S 
Sbjct: 296 MTLTPDEVKS---LLLK--YLDCRPQDLPR--EVLTTNP-----------RRLSIIAESI 337

Query: 62  MLGAAIGGAEGFYKGLRNTTLEGQTGKLRRT------QLLNHIMKHGSATASTLGTIAVM 115
             G A       +   ++   +    KL          L     +              M
Sbjct: 338 RDGLAT------WDNWKHVNCD----KLTTIIESSLNVLEPAEYRK-------------M 374

Query: 116 YSSFGVLLQTTRGTDDDFNTLTAATATGML-FRSTGNC---LVSSLSSFSLHFCDNKTSA 171
           +    V            + +       ++ F    +    +V+ L  +SL     K S 
Sbjct: 375 FDRLSVF-------PPSAH-IPTIL-LSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKEST 425

Query: 172 VTVPSI 177
           +++PSI
Sbjct: 426 ISIPSI 431


>3b7s_A Leukotriene A-4 hydrolase; transition state, analogue peptide,
           hydrolysis, hydrolase, leukotriene biosynthesis,
           metal-binding, metalloprotease; 1.47A {Homo sapiens}
           SCOP: a.118.1.7 b.98.1.1 d.92.1.13 PDB: 3b7t_A 3b7r_L*
           2r59_A* 3b7u_X* 3fun_A* 1hs6_A* 2vj8_A* 3fh7_A* 3fh8_A*
           3fhe_A* 3fts_A* 3ftu_A* 3ftv_A* 3ftw_A* 3ftx_A* 3fty_A*
           3ftz_A* 3fu0_A* 3fu3_A* 3fu5_A* ...
          Length = 616

 Score = 27.1 bits (60), Expect = 6.4
 Identities = 9/33 (27%), Positives = 13/33 (39%), Gaps = 6/33 (18%)

Query: 53  AFSQIG---GSC---MLGAAIGGAEGFYKGLRN 79
           A+S +    G      L   +GG E F   L+ 
Sbjct: 383 AYSSVPYEKGFALLFYLEQLLGGPEIFLGFLKA 415


>2bjv_A PSP operon transcriptional activator; AAA, transcription
          activation, gene regulation, sigma54 activator,
          enhancer binding protein, PSPF; 1.7A {Escherichia coli}
          PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*
          Length = 265

 Score = 26.3 bits (59), Expect = 9.5
 Identities = 8/13 (61%), Positives = 9/13 (69%), Gaps = 1/13 (7%)

Query: 42 GASKQR-GRFELA 53
          GA K+  GRFE A
Sbjct: 87 GAQKRHPGRFERA 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
   0.318    0.133    0.391 

Gapped
Lambda     K      H
   0.267   0.0647    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,349,122
Number of extensions: 183748
Number of successful extensions: 395
Number of sequences better than 10.0: 1
Number of HSP's gapped: 393
Number of HSP's successfully gapped: 7
Length of query: 236
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 145
Effective length of database: 4,160,982
Effective search space: 603342390
Effective search space used: 603342390
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (25.5 bits)