BLASTP 2.2.26 [Sep-21-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 035779
         (659 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

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



>pdb|2FN0|A Chain A, Crystal Structure Of Yersinia Enterocolitica Salicylate
           Synthase (Irp9)
 pdb|2FN0|B Chain B, Crystal Structure Of Yersinia Enterocolitica Salicylate
           Synthase (Irp9)
 pdb|2FN1|A Chain A, Crystal Structures Of Yersinia Enterocolitica Salicylate
           Synthase (Irp9) In Complex With The Reaction Products
           Salicylate And Pyruvate
 pdb|2FN1|B Chain B, Crystal Structures Of Yersinia Enterocolitica Salicylate
           Synthase (Irp9) In Complex With The Reaction Products
           Salicylate And Pyruvate
          Length = 437

 Score = 33.9 bits (76), Expect = 0.28,   Method: Compositional matrix adjust.
 Identities = 24/79 (30%), Positives = 37/79 (46%), Gaps = 3/79 (3%)

Query: 489 WFLVGNCIAILSSLATPAQATAIMDLIEERWE-DLIGEMPLK-ISYPALDGHEWRIVTGY 546
           W+L   C A L   A   QAT I D  E++W  D I +   + +++P + G       G+
Sbjct: 44  WYLGKGCQARLHINADGTQATFIDDAGEQKWAVDSIADCARRFMAHPQVKGRRVYGQVGF 103

Query: 547 D-PKNTRWSYHNGGSWPVL 564
           +   + R    N G WP+L
Sbjct: 104 NFAAHARGIAFNAGEWPLL 122


>pdb|1W36|D Chain D, Recbcd:dna Complex
 pdb|1W36|G Chain G, Recbcd:dna Complex
 pdb|3K70|D Chain D, Crystal Structure Of The Complete Initiation Complex Of
           Recbcd
 pdb|3K70|G Chain G, Crystal Structure Of The Complete Initiation Complex Of
           Recbcd
          Length = 608

 Score = 33.5 bits (75), Expect = 0.36,   Method: Compositional matrix adjust.
 Identities = 19/63 (30%), Positives = 28/63 (44%)

Query: 175 LRSIVGNHQENGESTGAAMMEEALERLKKSYVYFKGKPVGTFAAMDPNAEALNYNQVFVR 234
           L  + G H   G  T AA + ++L  L+KSY +     +G  AA     +      VF +
Sbjct: 329 LSRLTGTHVPAGTGTEAASLRDSLCLLQKSYRFGSDSGIGQLAAAINRGDKTAVKTVFQQ 388

Query: 235 DFV 237
           DF 
Sbjct: 389 DFT 391


>pdb|1GVM|A Chain A, Choline Binding Domain Of The Major Autolysin (C-Lyta)
           From Streptococcus Pneumoniae
 pdb|1GVM|B Chain B, Choline Binding Domain Of The Major Autolysin (C-Lyta)
           From Streptococcus Pneumoniae
 pdb|1GVM|C Chain C, Choline Binding Domain Of The Major Autolysin (C-Lyta)
           From Streptococcus Pneumoniae
 pdb|1GVM|D Chain D, Choline Binding Domain Of The Major Autolysin (C-Lyta)
           From Streptococcus Pneumoniae
 pdb|1GVM|E Chain E, Choline Binding Domain Of The Major Autolysin (C-Lyta)
           From Streptococcus Pneumoniae
 pdb|1GVM|F Chain F, Choline Binding Domain Of The Major Autolysin (C-Lyta)
           From Streptococcus Pneumoniae
          Length = 136

 Score = 31.2 bits (69), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 16/51 (31%), Positives = 23/51 (45%), Gaps = 3/51 (5%)

Query: 552 RWSYHNGGSWPVLLWLLTAASIKTGRPQIAKRAIELAEQRLSKDGWPEYYD 602
           RW  H  G+W    W   +  + TG  +IA +     E+   K GW +Y D
Sbjct: 37  RWRKHTDGNW---YWFDNSGEMATGWKKIADKWYYFNEEGAMKTGWVKYKD 84


>pdb|2BML|A Chain A, Ofloxacin-Like Antibiotics Inhibit Pneumococcal Cell Wall
           Degrading Virulence Factors
 pdb|2BML|B Chain B, Ofloxacin-Like Antibiotics Inhibit Pneumococcal Cell Wall
           Degrading Virulence Factors
          Length = 126

 Score = 31.2 bits (69), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 16/51 (31%), Positives = 23/51 (45%), Gaps = 3/51 (5%)

Query: 552 RWSYHNGGSWPVLLWLLTAASIKTGRPQIAKRAIELAEQRLSKDGWPEYYD 602
           RW  H  G+W    W   +  + TG  +IA +     E+   K GW +Y D
Sbjct: 27  RWRKHTDGNW---YWFDNSGEMATGWKKIADKWYYFNEEGAMKTGWVKYKD 74


>pdb|1HCX|A Chain A, Choline Binding Domain Of The Major Autolysin (C-Lyta)
           From Streptococcus Pneumoniae
 pdb|1HCX|B Chain B, Choline Binding Domain Of The Major Autolysin (C-Lyta)
           From Streptococcus Pneumoniae
          Length = 127

 Score = 31.2 bits (69), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 16/51 (31%), Positives = 23/51 (45%), Gaps = 3/51 (5%)

Query: 552 RWSYHNGGSWPVLLWLLTAASIKTGRPQIAKRAIELAEQRLSKDGWPEYYD 602
           RW  H  G+W    W   +  + TG  +IA +     E+   K GW +Y D
Sbjct: 28  RWRKHTDGNW---YWFDNSGEMATGWKKIADKWYYFNEEGAMKTGWVKYKD 75


>pdb|1JGT|A Chain A, Crystal Structure Of Beta-Lactam Synthetase
 pdb|1JGT|B Chain B, Crystal Structure Of Beta-Lactam Synthetase
 pdb|1M1Z|A Chain A, Beta-Lactam Synthetase Apo Enzyme
 pdb|1M1Z|B Chain B, Beta-Lactam Synthetase Apo Enzyme
 pdb|1MB9|A Chain A, Beta-Lactam Synthetase Complexed With Atp
 pdb|1MB9|B Chain B, Beta-Lactam Synthetase Complexed With Atp
 pdb|1MBZ|A Chain A, Beta-Lactam Synthetase With Trapped Intermediate
 pdb|1MBZ|B Chain B, Beta-Lactam Synthetase With Trapped Intermediate
 pdb|1MC1|A Chain A, Beta-Lactam Synthetase With Product (Dgpc), Amp And Ppi
 pdb|1MC1|B Chain B, Beta-Lactam Synthetase With Product (Dgpc), Amp And Ppi
          Length = 513

 Score = 29.3 bits (64), Expect = 6.4,   Method: Compositional matrix adjust.
 Identities = 17/43 (39%), Positives = 20/43 (46%)

Query: 526 MPLKISYPALDGHEWRIVTGYDPKNTRWSYHNGGSWPVLLWLL 568
           +PL   Y ALDG E RI+TGY         H     P L  +L
Sbjct: 328 LPLTALYRALDGPERRILTGYGADIPLGGMHREDRLPALDTVL 370


>pdb|1L8K|A Chain A, T Cell Protein-Tyrosine Phosphatase Structure
          Length = 314

 Score = 29.3 bits (64), Expect = 6.8,   Method: Compositional matrix adjust.
 Identities = 50/206 (24%), Positives = 84/206 (40%), Gaps = 31/206 (15%)

Query: 392 ALRCARQMLKPERDGKELIERIDKRITALSYHIQKYYWLDFTQLNNIYRYKTEEYSH--- 448
           +++CA+    P  D + L +     +  LS  ++ YY +   QL NI   +T   SH   
Sbjct: 120 SVKCAQYW--PTDDQEMLFKETGFSVKLLSEDVKSYYTVHLLQLENINSGETRTISHFHY 177

Query: 449 TAVNKFNVIPDSIPDWV-FDFMPLRGGYLIGNVSPARMDFRWFLVGNCIAILSSLATPAQ 507
           T    F V P+S   ++ F F     G L  +  PA        V +C A +    T + 
Sbjct: 178 TTWPDFGV-PESPASFLNFLFKVRESGSLNPDHGPA--------VIHCSAGIGRSGTFSL 228

Query: 508 ATAIMDLIEERWEDLIGEMPLKISYPALDGHEWRIVTGYDPKNTRWSYHNGGSWPVLLWL 567
               + L+E+      G+  + I    L+  ++R+     P   R+SY         + +
Sbjct: 229 VDTCLVLMEK------GD-DINIKQVLLNMRKYRMGLIQTPDQLRFSY---------MAI 272

Query: 568 LTAASIKTGRPQIAKRAIELAEQRLS 593
           +  A    G   I KR  EL+++ LS
Sbjct: 273 IEGAKCIKGDSSIQKRWKELSKEDLS 298


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.318    0.134    0.401 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,280,530
Number of Sequences: 62578
Number of extensions: 872528
Number of successful extensions: 2392
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 2385
Number of HSP's gapped (non-prelim): 27
length of query: 659
length of database: 14,973,337
effective HSP length: 105
effective length of query: 554
effective length of database: 8,402,647
effective search space: 4655066438
effective search space used: 4655066438
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)