RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy11848
         (184 letters)



>2pt1_A Iron transport protein; C-clamp, iron-binding protein,
           solute-binding protein, perip binding protein, ABC
           transporter, metal transport; 2.00A {Synechocystis SP}
           PDB: 2pt2_A 3f11_A
          Length = 334

 Score = 30.1 bits (68), Expect = 0.36
 Identities = 18/93 (19%), Positives = 32/93 (34%), Gaps = 3/93 (3%)

Query: 54  YNAAQVIFSLAMLWEHLMSGWLLDYSYKCQPVDYSHNPTALRHLMSG---WLLDYSYKCQ 110
           YN + V   +    E     W   +          ++   +  + SG     L  +Y   
Sbjct: 159 YNQSLVASLVVADGEESTLAWAKGFVSNFAREPQGNDTAQIEAVSSGEADLTLANTYYMG 218

Query: 111 PVDYSHNPTALRVSFWVIIECFNQGGHGTFSNL 143
            +  S +P    ++  V +   NQ G GT  N+
Sbjct: 219 RLLESEDPAQKAIAENVGVFFPNQEGRGTHVNV 251


>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 = 28.9 bits (64), Expect = 1.4
 Identities = 13/88 (14%), Positives = 25/88 (28%), Gaps = 35/88 (39%)

Query: 75  LLDYSYKCQPVDYSHNPTALRHLMSG-------------------WLLDYSYKCQPVDYS 115
           L  Y    + + +   P  LR  + G                   W    S+      + 
Sbjct: 246 LAHYVVTAKLLGF--TPGELRSYLKGATGHSQGLVTAVAIAETDSW---ESF------FV 294

Query: 116 HNPTALRVSFWVIIECFNQGGHGTFSNL 143
               A+ V F++ + C     +  + N 
Sbjct: 295 SVRKAITVLFFIGVRC-----YEAYPNT 317


>3u52_C Phenol hydroxylase component PHL; 4-helix bundle, dioxygen,
           hydrocarbons, oxidore; HET: MPO EPE; 1.95A {Pseudomonas
           stutzeri} PDB: 2inn_C* 2inp_C
          Length = 333

 Score = 27.6 bits (61), Expect = 2.7
 Identities = 9/70 (12%), Positives = 21/70 (30%), Gaps = 6/70 (8%)

Query: 57  AQVIFSLAMLWEHLMSGWLLDYSYKCQPVDYSHNPTALRHLMSGWLLDYSYKCQPVDYSH 116
              +  +   + H+   +    + + Q   Y        H    W  +++          
Sbjct: 7   TNSVEPIRHTYGHIARRFGDKPATRYQEASYDIEAKTNFHYRPQWDSEHT------LNDP 60

Query: 117 NPTALRVSFW 126
             TA+R+  W
Sbjct: 61  TRTAIRMEDW 70


>3e13_X Putative iron-uptake ABC transport system, periplasmic iron-binding
           protein; beta sheet surrounded by alpha helices; 1.60A
           {Campylobacter jejuni} PDB: 1y4t_A
          Length = 322

 Score = 26.3 bits (58), Expect = 7.6
 Identities = 16/93 (17%), Positives = 29/93 (31%), Gaps = 3/93 (3%)

Query: 54  YNAAQVIFSLAMLWEHLMSGWLLDYSYKCQPVDYSHNPTALRHLMSG---WLLDYSYKCQ 110
           Y+   +   +A         W               +    R + +G   + +  +Y   
Sbjct: 143 YSKTLLASIIANDGNKEAKAWAKGVLENLATNPKGGDRDQARQVFAGEAKFAVMNTYYIG 202

Query: 111 PVDYSHNPTALRVSFWVIIECFNQGGHGTFSNL 143
            +  S NP  + V   + I   NQ   GT  N+
Sbjct: 203 LLKNSKNPKDVEVGNSLGIIFPNQDNRGTHINI 235


>4dlp_A Aminoacyl-tRNA synthetase, class I:aminoacyl-tRNA synthetase, class
           IA:methionyl-tRNA...; structural genomics; 2.65A
           {Brucella melitensis biovar abortus 230ORGANISM_TAXID}
          Length = 536

 Score = 26.1 bits (58), Expect = 8.9
 Identities = 9/36 (25%), Positives = 19/36 (52%), Gaps = 2/36 (5%)

Query: 36  PWIMANRKPFKLKTVLIVYNAAQVIFSLAMLWEHLM 71
           PW +    P ++ TVL  Y  A+V+  + ++ +  +
Sbjct: 452 PWALRKTDPARMGTVL--YVTAEVLRRVGIMVQPFI 485


>3tun_A Methionyl-tRNA synthetase; aminoacyl-tRNA synthetase, AARS, metrs,
           parasite, protein-IN complex, translation, nucleotide
           binding; HET: C13; 2.55A {Trypanosoma brucei}
          Length = 542

 Score = 26.1 bits (57), Expect = 9.4
 Identities = 9/31 (29%), Positives = 15/31 (48%), Gaps = 2/31 (6%)

Query: 36  PWIMANRKPFKLKTVLIVYNAAQVIFSLAML 66
           PW +    P +L+TVL  Y   + +    +L
Sbjct: 453 PWKLVKTDPERLRTVL--YITLEGVRVTTLL 481


  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    0.479 

Gapped
Lambda     K      H
   0.267   0.0536    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,025,633
Number of extensions: 169238
Number of successful extensions: 373
Number of sequences better than 10.0: 1
Number of HSP's gapped: 372
Number of HSP's successfully gapped: 18
Length of query: 184
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 96
Effective length of database: 4,244,745
Effective search space: 407495520
Effective search space used: 407495520
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 (21.7 bits)
S2: 54 (25.0 bits)