RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy12509
         (194 letters)



>3rce_A Oligosaccharide transferase to N-glycosylate PROT;
           oligosaccharyltransferase, membrane protein, helical
           bundle, glycosylation, acceptor peptide, plasma
           membrane; HET: PPN; 3.40A {Campylobacter lari}
          Length = 724

 Score =  103 bits (257), Expect = 5e-26
 Identities = 37/180 (20%), Positives = 71/180 (39%), Gaps = 10/180 (5%)

Query: 15  AFKAAFSTRLFSVLRFESVIHEFDPYFNYRTTKFLVEEGYYKFHNWFDDRAWYPLGRIIG 74
           AF  +   RL+ V        EF  +F          +GY     + +       G    
Sbjct: 23  AFAFSVLCRLYWVAWAS----EFYEFFFNDQLMITTNDGYA----FAEGARDMIAGFHQP 74

Query: 75  GTIYPGLMVTSAVLYHLMWLLNITIDIRNVCVFLAPFFSSLTTIVTYLLTKEVKDTGSGL 134
             +       S + Y L  +L       ++ ++++ FF+SL  +   L+ +E K T  G 
Sbjct: 75  NDLSYFGSSLSTLTYWLYSILPF--SFESIILYMSTFFASLIVVPIILIAREYKLTTYGF 132

Query: 135 VAAAMISIVPGYISRSVAGSYDNEAIAIFCMLLTYYSWIKAVKTGSILWSALTALAYFYM 194
           +AA + SI   Y +R+++G YD + + +   +L   ++I+      I    L+ +     
Sbjct: 133 IAALLGSIANSYYNRTMSGYYDTDMLVLVLPMLILLTFIRLTINKDIFTLLLSPIFIMIY 192


>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 = 45.4 bits (107), Expect = 4e-06
 Identities = 41/232 (17%), Positives = 63/232 (27%), Gaps = 73/232 (31%)

Query: 9    GSHKP----------SAFKAAF--------STRLFSVLRF------ESVIHEFDP----- 39
            GS +            A +  +         T  FS+L           IH F       
Sbjct: 1625 GSQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIH-FGGEKGKR 1683

Query: 40   -YFNYRTTKF-LVEEGYYKFHNWFDDRAWYPLGRIIGG-------TIY--PGLMVTSAVL 88
               NY    F  + +G  K    F +   +               T +  P L +     
Sbjct: 1684 IRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAA 1743

Query: 89   YHLMWLLNITIDIRNVCVF----------LAPF-----FSSLTTIVTY---LLTKEVKDT 130
            +  +    +   I     F          LA         SL  +V Y    +   V   
Sbjct: 1744 FEDLKSKGL---IPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRD 1800

Query: 131  GSGLVAAAMISIVPGYISRSVAGSYDNEAIAIFCMLLTYYSWIKAVKTGSIL 182
              G     MI+I PG     VA S+  EA+      +         +TG ++
Sbjct: 1801 ELGRSNYGMIAINPG----RVAASFSQEALQYVVERV-------GKRTGWLV 1841



 Score = 43.1 bits (101), Expect = 3e-05
 Identities = 36/209 (17%), Positives = 62/209 (29%), Gaps = 74/209 (35%)

Query: 4   LKSVLGSHKPSA-FKAAFS--TRLFSVLRFESVIHEF------DPYFN-----YRTTKFL 49
            K        SA F+A      +L ++         F      D YF      Y+T   L
Sbjct: 133 AKRPFDKKSNSALFRAVGEGNAQLVAI---------FGGQGNTDDYFEELRDLYQTYHVL 183

Query: 50  VEEGYYKFHNWFDDRAWYPLGRIIGGT-----IYP-GLMVTSAVLYHLMWLLNITIDIRN 103
           V +            +   L  +I  T     ++  GL +         WL N   +  +
Sbjct: 184 VGD--------LIKFSAETLSELIRTTLDAEKVFTQGLNILE-------WLEN-PSNTPD 227

Query: 104 VCVFLAPFFS----SLTTIVTYLLT--------KEVKDT-------GSGLVAAAMISIVP 144
               L+   S     +  +  Y++T         E++           GLV A  I+   
Sbjct: 228 KDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIA--- 284

Query: 145 GYISRSVAGSYDNEAIAIFCMLLTYYSWI 173
              + S    + +   A     +T   +I
Sbjct: 285 --ETDSWESFFVSVRKA-----ITVLFFI 306



 Score = 33.1 bits (75), Expect = 0.055
 Identities = 19/88 (21%), Positives = 30/88 (34%), Gaps = 17/88 (19%)

Query: 107 FL---APFFSSL-----TTIVTYLLTKEVKDTGSGLVAAAMISIVPGYISRSVAGSYDNE 158
           FL   +PF S L       I   L+   V      +    +     G   R ++GS  +E
Sbjct: 420 FLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDI-QIPVYDTFDGSDLRVLSGS-ISE 477

Query: 159 AIA--IFCMLLTYYSWIKAVKTGS--IL 182
            I   I  + +    W    +  +  IL
Sbjct: 478 RIVDCIIRLPV---KWETTTQFKATHIL 502


>3d36_A Sporulation kinase B; GHKL ATPase, four helix bundle, class I
           two-component histidine kinase, phosphoprotein; HET:
           ADP; 2.03A {Geobacillus stearothermophilus}
          Length = 244

 Score = 26.8 bits (60), Expect = 5.0
 Identities = 11/36 (30%), Positives = 16/36 (44%), Gaps = 16/36 (44%)

Query: 110 PFFSSLTTIVTYLLTKEVKDTGSGLVAAAMIS--IV 143
           P+F+          TK VK TG G+    M+   I+
Sbjct: 178 PYFT----------TKGVKGTGLGM----MVVYRII 199


  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
   0.328    0.140    0.440 

Gapped
Lambda     K      H
   0.267   0.0414    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,065,557
Number of extensions: 177788
Number of successful extensions: 450
Number of sequences better than 10.0: 1
Number of HSP's gapped: 447
Number of HSP's successfully gapped: 9
Length of query: 194
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 106
Effective length of database: 4,244,745
Effective search space: 449942970
Effective search space used: 449942970
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 55 (25.8 bits)