RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy7377
         (83 letters)



>1ixk_A Methyltransferase; open beta sheet; 1.90A {Pyrococcus horikoshii}
          SCOP: c.66.1.38
          Length = 315

 Score = 32.2 bits (74), Expect = 0.009
 Identities = 4/23 (17%), Positives = 10/23 (43%)

Query: 58 LKDLCTYFSYNEFLMERIMQIFP 80
          + D      Y++   +R  Q++ 
Sbjct: 7  MLDKLLRLGYSKLFADRYFQLWG 29


>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 = 0.012
 Identities = 15/98 (15%), Positives = 30/98 (30%), Gaps = 26/98 (26%)

Query: 3   IADHEVFAFPSEEEADKVLSIPDV-------EQRIK----------DVLMVLGNFKQYRD 45
           I  H      + E  +++     V       EQ+I+           +L  L   K Y+ 
Sbjct: 477 IGHH----LKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKP 532

Query: 46  PARSRCEYTSLLLKDLCTY-FSYNEFLME----RIMQI 78
                      L+  +  +     E L+      +++I
Sbjct: 533 YICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRI 570



 Score = 31.4 bits (70), Expect = 0.020
 Identities = 12/63 (19%), Positives = 22/63 (34%), Gaps = 11/63 (17%)

Query: 13 SEEEADKVLSIPDVEQRIKDVLMVLGNFKQYRDPARSRCEYTSLLLKDLCTYFSYNEFLM 72
          S+EE D ++   D       +   L              ++   +L+      +Y +FLM
Sbjct: 47 SKEEIDHIIMSKDAVSGTLRLFWTL-----LSKQEEMVQKFVEEVLRI-----NY-KFLM 95

Query: 73 ERI 75
            I
Sbjct: 96 SPI 98



 Score = 27.1 bits (59), Expect = 0.67
 Identities = 18/80 (22%), Positives = 32/80 (40%), Gaps = 15/80 (18%)

Query: 6   HEVFAFPSEEEAD---KVLSI--PDVEQRIKDVLMVLGNFKQY----RDPARSRCEYTSL 56
             +  FP    A     +LS+   DV +   DV++V+    +Y    + P  S     S+
Sbjct: 376 DRLSVFP--PSAHIPTILLSLIWFDVIKS--DVMVVVNKLHKYSLVEKQPKESTISIPSI 431

Query: 57  LLKDLCTYFSYNEFLMERIM 76
            L+        NE+ + R +
Sbjct: 432 YLELKVK--LENEYALHRSI 449


>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens}
          PDB: 2ld5_A*
          Length = 73

 Score = 25.6 bits (56), Expect = 1.2
 Identities = 8/33 (24%), Positives = 17/33 (51%)

Query: 42 QYRDPARSRCEYTSLLLKDLCTYFSYNEFLMER 74
             +  + R  YT + LK+L   ++ N+F+ + 
Sbjct: 3  HMLEGRKKRVPYTKVQLKELEREYATNKFITKD 35


>2xwv_A Sialic acid-binding periplasmic protein SIAP; transport protein,
           trap, sugar transport; HET: SLB; 1.05A {Haemophilus
           influenzae} PDB: 2xxk_A* 2xa5_A* 2wyp_A* 2wx9_A* 2xwo_A*
           2xwk_A* 2v4c_A* 2wyk_A* 2xwi_A* 3b50_A* 2cey_A 2cex_A
          Length = 312

 Score = 24.9 bits (55), Expect = 3.1
 Identities = 3/33 (9%), Positives = 9/33 (27%)

Query: 9   FAFPSEEEADKVLSIPDVEQRIKDVLMVLGNFK 41
           +   +   A K L   +  + +   +       
Sbjct: 85  YVISNYNVAQKALFDTEFGKDLIKKMDKDLGVT 117


>2cra_A Homeobox protein HOX-B13; DNA-binding, transcription regulation,
          helix-turn-helix, structural genomics, NPPSFA; NMR
          {Homo sapiens} SCOP: a.4.1.1
          Length = 70

 Score = 23.6 bits (51), Expect = 5.7
 Identities = 6/31 (19%), Positives = 15/31 (48%)

Query: 44 RDPARSRCEYTSLLLKDLCTYFSYNEFLMER 74
              + R  Y+   L++L   ++ N+F+ + 
Sbjct: 5  SSGRKKRIPYSKGQLRELEREYAANKFITKD 35


>3u65_B TP33 protein; tetratrico peptide repeat, protein-prote interaction,
           syphilis, lipoprotein, transport protein; HET: EDO;
           1.40A {Treponema pallidum subsp} PDB: 4di4_B* 4di3_D*
          Length = 328

 Score = 24.3 bits (53), Expect = 5.7
 Identities = 4/26 (15%), Positives = 13/26 (50%), Gaps = 2/26 (7%)

Query: 9   FAFPSEEEADKVLSIPDVEQRIKDVL 34
           F   +E++ ++VL   ++ + +    
Sbjct: 100 FLIQNEKDLERVLH--ELREDLDRPF 123


  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
   0.324    0.140    0.406 

Gapped
Lambda     K      H
   0.267   0.0684    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,270,252
Number of extensions: 61356
Number of successful extensions: 158
Number of sequences better than 10.0: 1
Number of HSP's gapped: 157
Number of HSP's successfully gapped: 12
Length of query: 83
Length of database: 6,701,793
Length adjustment: 51
Effective length of query: 32
Effective length of database: 5,277,822
Effective search space: 168890304
Effective search space used: 168890304
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 51 (23.5 bits)