RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy2488
         (142 letters)



>2j0a_A Beta-1,3-N-acetylglucosaminyltransferase manic FR;
           glycosyltransferase, developmental protein,
           transmembrane, G apparatus, notch signaling; 1.8A {Mus
           musculus} PDB: 2j0b_A*
          Length = 280

 Score =  136 bits (343), Expect = 8e-41
 Identities = 61/142 (42%), Positives = 84/142 (59%), Gaps = 5/142 (3%)

Query: 1   EDWYLGKRSIKTPLKILNREGKNKTSKQQFVKFWFGTGGAGYCISRALALKMLPIASGGK 60
            D Y+GK S+  P+     + K +T     V+FWF TGGAG+CI+R LALKM+P ASG  
Sbjct: 122 RDVYVGKPSLNRPIHASELQSKQRTKL---VRFWFATGGAGFCINRQLALKMVPWASGSH 178

Query: 61  FISICEKIRLPDDCTMGYIIEHRLQRPMTVIEEFHSHLEPMKFLHQDKFSQQVTFSYMQY 120
           F+     IRLPDDCT+GYIIE +L   +     FHSHLE ++ L   +  +QVT SY  +
Sbjct: 179 FVDTSALIRLPDDCTVGYIIECKLGGRLQPSPLFHSHLETLQLLGAAQLPEQVTLSYGVF 238

Query: 121 AKDVVNRLNIE-SFDTSVDPTR 141
            +  +N + +   F    DP+R
Sbjct: 239 -EGKLNVIKLPGPFSHEEDPSR 259


>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 = 36.2 bits (83), Expect = 0.002
 Identities = 18/67 (26%), Positives = 27/67 (40%), Gaps = 22/67 (32%)

Query: 80  IEHRLQR---------PMTVIEEFHSH-LEP-MKFLHQDKFSQQVTFSYMQYAKDVVNRL 128
           I    +R         P+     FHSH L P    +++D     V+F+    AKD    +
Sbjct: 407 IPFS-ERKLKFSNRFLPVAS--PFHSHLLVPASDLINKDLVKNNVSFN----AKD----I 455

Query: 129 NIESFDT 135
            I  +DT
Sbjct: 456 QIPVYDT 462


>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 = 30.2 bits (67), Expect = 0.24
 Identities = 25/151 (16%), Positives = 48/151 (31%), Gaps = 38/151 (25%)

Query: 7   KRSIKTPLKILN-REGKNKTSKQQFVKFWFGTGGAG-------YCISRALALKMLPIASG 58
           K ++      L  R+   +    + V    G  G+G        C+S  +  KM      
Sbjct: 128 KYNVSRLQPYLKLRQALLELRPAKNV-LIDGVLGSGKTWVALDVCLSYKVQCKM----DF 182

Query: 59  GKF-ISI--CEKIRLPDDCTMGYIIEHRLQR------PMTVIEEFHSHLEPMKFLHQDKF 109
             F +++  C     P+      ++E  LQ+      P       HS    ++ +H  + 
Sbjct: 183 KIFWLNLKNCNS---PET-----VLEM-LQKLLYQIDPNWTSRSDHSSNIKLR-IHSIQA 232

Query: 110 SQQVTFSYMQYAK------DVVNRLNIESFD 134
             +       Y        +V N     +F+
Sbjct: 233 ELRRLLKSKPYENCLLVLLNVQNAKAWNAFN 263


>3v9f_A Two-component system sensor histidine kinase/RESP regulator, hybrid
           (ONE-component...; beta-propeller, beta-sandwich; 3.30A
           {Bacteroides thetaiotaomicron}
          Length = 781

 Score = 25.8 bits (57), Expect = 6.3
 Identities = 10/49 (20%), Positives = 12/49 (24%), Gaps = 10/49 (20%)

Query: 33  FWFGTGGAGYCISRALALKMLPIASGGKFISICEKIRLPDDCTMGYIIE 81
            W  TG    C            A    +     K  LP+      I E
Sbjct: 552 MWLATGEGLVCFPS---------ARNFDYQVFQRKEGLPNTHIRA-ISE 590


>3iz6_M 40S ribosomal protein S18 (S13P); eukaryotic ribosome,homology
           modeling,de novo modeling,ribos proteins,novel ribosomal
           proteins, ribosome; 5.50A {Triticum aestivum}
          Length = 152

 Score = 25.3 bits (56), Expect = 7.2
 Identities = 15/70 (21%), Positives = 29/70 (41%), Gaps = 3/70 (4%)

Query: 64  ICEKIRLPDDCTMGYIIEHRLQRPMTVIEEFHSHLEPMKFLHQDKFSQQVTFSYMQYAKD 123
           +C+K  +  +   G +    + R M V+        P  FL++ K  +   FS +  +  
Sbjct: 44  VCKKADIDMNKRAGELSAEEMDRLMAVVHNPRQFKVPDWFLNRKKDYKDGRFSQV-VSNA 102

Query: 124 VVN--RLNIE 131
           V    R ++E
Sbjct: 103 VDMKLRDDLE 112


>3u5c_S 40S ribosomal protein S18-A, 40S ribosomal protein S17-A;
           translation, ribosome, ribosomal, ribosomal R ribosomal
           protein, eukaryotic ribosome, RNA-protein C; 3.00A
           {Saccharomyces cerevisiae} PDB: 3izb_M 3o30_L 3o2z_L
           3u5g_S 1s1h_M 3jyv_M* 2zkq_m
          Length = 146

 Score = 24.9 bits (55), Expect = 8.4
 Identities = 12/70 (17%), Positives = 30/70 (42%), Gaps = 3/70 (4%)

Query: 64  ICEKIRLPDDCTMGYIIEHRLQRPMTVIEEFHSHLEPMKFLHQDKFSQQVTFSYMQYAKD 123
           +C+K  +      G + +  L+R + +++    +  P  FL++          +   A +
Sbjct: 46  VCKKADVDLHKRAGELTQEELERIVQIMQNPTHYKIPAWFLNRQNDITDGKDYHT-LANN 104

Query: 124 VVN--RLNIE 131
           V +  R ++E
Sbjct: 105 VESKLRDDLE 114


  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
   0.323    0.138    0.423 

Gapped
Lambda     K      H
   0.267   0.0850    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,181,702
Number of extensions: 119719
Number of successful extensions: 177
Number of sequences better than 10.0: 1
Number of HSP's gapped: 177
Number of HSP's successfully gapped: 9
Length of query: 142
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 58
Effective length of database: 4,356,429
Effective search space: 252672882
Effective search space used: 252672882
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: 52 (23.6 bits)