RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy13305
         (171 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 = 32.1 bits (72), Expect = 0.087
 Identities = 23/168 (13%), Positives = 53/168 (31%), Gaps = 56/168 (33%)

Query: 36  SLAMLIAYYNLKV-----------PLAI-----FKREKEIAR-----RLEFDGLYIA--- 71
             ++L+ Y + +            P  +       R+  +A       +  D L      
Sbjct: 303 VKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRD-GLATWDNWKHVNCDKLTTIIES 361

Query: 72  --EQPEDDDIKSHWDRLVI---SANRPSD-------DPRRSITIDEENLCCRGSVDVSVD 119
                E  + +  +DRL +   SA+ P+        D  +S  +   N   + S+     
Sbjct: 362 SLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL----- 416

Query: 120 INRCPVDYVPLAIFKREKEIARRLEFDGLYIAEQPEDDDIKSHWDRLV 167
                       + K+ KE    +    +Y+  + + ++  +    +V
Sbjct: 417 ------------VEKQPKE--STISIPSIYLELKVKLENEYALHRSIV 450



 Score = 26.4 bits (57), Expect = 7.3
 Identities = 13/85 (15%), Positives = 27/85 (31%), Gaps = 17/85 (20%)

Query: 22  EHVMRLMAALHSLVSLAMLIAYYNLKVPLAIFKREKEIARRLEFDGLYIAEQPEDDDIKS 81
             VM ++  LH   SL              + K+ KE    +    +Y+  + + ++  +
Sbjct: 402 SDVMVVVNKLHKY-SL--------------VEKQPKE--STISIPSIYLELKVKLENEYA 444

Query: 82  HWDRLVISANRPSDDPRRSITIDEE 106
               +V   N P       +     
Sbjct: 445 LHRSIVDHYNIPKTFDSDDLIPPYL 469


>3hww_A 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene- carboxylate
           synthase; menaquinone, THDP, Mg, vitamin K2,
           carboxylase, magnesium; HET: AKG; 1.95A {Escherichia
           coli k-12} PDB: 3flm_A* 3hwx_A* 2jlc_A* 2jla_A*
          Length = 556

 Score = 26.7 bits (59), Expect = 4.5
 Identities = 7/57 (12%), Positives = 19/57 (33%), Gaps = 11/57 (19%)

Query: 86  LVISANRPS-----DDPRRSITIDEENL---CCRGSVDVSVDINRCPVDYVPLAIFK 134
           ++++A+RP         +    I +  +       S+ +       P  ++   I  
Sbjct: 101 ILLTADRPPELIDCGANQ---AIRQPGMFASHPTHSISLPRPTQDIPARWLVSTIDH 154


>3qde_A Cellobiose phosphorylase; cellulase, phosphate, transferase; 2.40A
           {Clostridium thermocellum}
          Length = 811

 Score = 26.7 bits (58), Expect = 5.3
 Identities = 17/78 (21%), Positives = 30/78 (38%), Gaps = 7/78 (8%)

Query: 62  RLEFDGLYIAEQPEDDDIKSHWDRLVISANRPSDDPRRSITIDEENLCCRGSVDVSVDIN 121
           + ++DGL I   P    I   WD       R        IT+   N   +G   ++VD N
Sbjct: 736 KPDYDGLKI--DP---CIPKAWDGY--KVTRYFRGSTYEITVKNPNHVSKGVAKITVDGN 788

Query: 122 RCPVDYVPLAIFKREKEI 139
               + +P+    +  ++
Sbjct: 789 EISGNILPVFNDGKTHKV 806


>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 = 6.6
 Identities = 10/37 (27%), Positives = 15/37 (40%), Gaps = 10/37 (27%)

Query: 56 EKEIARRLEFD-GLYIAEQPEDDDIKSHWDRLVISAN 91
          EK+  ++L+    LY      DD   +    L I A 
Sbjct: 18 EKQALKKLQASLKLY-----ADDSAPA----LAIKAT 45



 Score = 25.7 bits (55), Expect = 6.8
 Identities = 10/36 (27%), Positives = 15/36 (41%), Gaps = 10/36 (27%)

Query: 136 EKEIARRLEFD-GLYIAEQPEDDDIKSHWDRLVISA 170
           EK+  ++L+    LY      DD   +    L I A
Sbjct: 18  EKQALKKLQASLKLY-----ADDSAPA----LAIKA 44


>3k8u_A Putative ABC transporter, ATP-binding protein COMA; cysteine
          protease, quorum-sensing, hydrolase; 1.90A
          {Streptococcus mutans}
          Length = 156

 Score = 25.6 bits (56), Expect = 6.6
 Identities = 4/29 (13%), Positives = 11/29 (37%)

Query: 34 LVSLAMLIAYYNLKVPLAIFKREKEIARR 62
             LA +  +Y     +A  +   +  ++
Sbjct: 19 PAVLASVAKHYGSNYSIAYLRELSKTNKQ 47


  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
   0.322    0.140    0.415 

Gapped
Lambda     K      H
   0.267   0.0501    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,868,988
Number of extensions: 174141
Number of successful extensions: 327
Number of sequences better than 10.0: 1
Number of HSP's gapped: 327
Number of HSP's successfully gapped: 12
Length of query: 171
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 84
Effective length of database: 4,272,666
Effective search space: 358903944
Effective search space used: 358903944
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 (21.9 bits)
S2: 54 (25.1 bits)