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= 038479
         (133 letters)

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

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



>pdb|4EXS|B Chain B, Crystal Structure Of Ndm-1 Bound To L-Captopril
 pdb|4EXS|A Chain A, Crystal Structure Of Ndm-1 Bound To L-Captopril
 pdb|4EXY|A Chain A, Crystal Structure Of Ndm-1 Bound To Ethylene Glycol
 pdb|4EXY|B Chain B, Crystal Structure Of Ndm-1 Bound To Ethylene Glycol
 pdb|4EYL|A Chain A, Crystal Structure Of Ndm-1 Bound To Hydrolyzed Meropenem
 pdb|4EYL|B Chain B, Crystal Structure Of Ndm-1 Bound To Hydrolyzed Meropenem
          Length = 272

 Score = 28.1 bits (61), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 10/26 (38%), Positives = 15/26 (57%)

Query: 38  DASWDKDQLGDVLHWIRQVVALVCGL 63
           D +W  DQ   +L+WI+Q + L   L
Sbjct: 90  DTAWTDDQTAQILNWIKQEINLPVAL 115


>pdb|4EY2|A Chain A, Crystal Structure Of Ndm-1 Bound To Hydrolyzed Methicillin
 pdb|4EY2|B Chain B, Crystal Structure Of Ndm-1 Bound To Hydrolyzed Methicillin
 pdb|4EYF|A Chain A, Crystal Structure Of Ndm-1 Bound To Hydrolyzed
           Benzylpenicillin
 pdb|4EYF|B Chain B, Crystal Structure Of Ndm-1 Bound To Hydrolyzed
           Benzylpenicillin
 pdb|4EYB|A Chain A, Crystal Structure Of Ndm-1 Bound To Hydrolyzed Oxacillin
 pdb|4EYB|B Chain B, Crystal Structure Of Ndm-1 Bound To Hydrolyzed Oxacillin
          Length = 270

 Score = 28.1 bits (61), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 10/26 (38%), Positives = 15/26 (57%)

Query: 38  DASWDKDQLGDVLHWIRQVVALVCGL 63
           D +W  DQ   +L+WI+Q + L   L
Sbjct: 90  DTAWTDDQTAQILNWIKQEINLPVAL 115


>pdb|3SPU|A Chain A, Apo Ndm-1 Crystal Structure
 pdb|3SPU|B Chain B, Apo Ndm-1 Crystal Structure
 pdb|3SPU|C Chain C, Apo Ndm-1 Crystal Structure
 pdb|3SPU|D Chain D, Apo Ndm-1 Crystal Structure
 pdb|3SPU|E Chain E, Apo Ndm-1 Crystal Structure
          Length = 265

 Score = 28.1 bits (61), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 10/26 (38%), Positives = 15/26 (57%)

Query: 38 DASWDKDQLGDVLHWIRQVVALVCGL 63
          D +W  DQ   +L+WI+Q + L   L
Sbjct: 64 DTAWTDDQTAQILNWIKQEINLPVAL 89


>pdb|4GYU|A Chain A, Crystal Structure Of New Delhi Metallo-Beta-Lactamase-1
          A121f Mutant From Klebsiella Pneumoniae
          Length = 243

 Score = 28.1 bits (61), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 10/26 (38%), Positives = 15/26 (57%)

Query: 38 DASWDKDQLGDVLHWIRQVVALVCGL 63
          D +W  DQ   +L+WI+Q + L   L
Sbjct: 63 DTAWTDDQTAQILNWIKQEINLPVAL 88


>pdb|4GYQ|A Chain A, Crystal Structure Of New Delhi Metallo-Beta-Lactamase-1
          D223a Mutant From Klebsiella Pneumoniae
 pdb|4GYQ|B Chain B, Crystal Structure Of New Delhi Metallo-Beta-Lactamase-1
          D223a Mutant From Klebsiella Pneumoniae
 pdb|4GYQ|C Chain C, Crystal Structure Of New Delhi Metallo-Beta-Lactamase-1
          D223a Mutant From Klebsiella Pneumoniae
 pdb|4GYQ|D Chain D, Crystal Structure Of New Delhi Metallo-Beta-Lactamase-1
          D223a Mutant From Klebsiella Pneumoniae
          Length = 243

 Score = 28.1 bits (61), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 10/26 (38%), Positives = 15/26 (57%)

Query: 38 DASWDKDQLGDVLHWIRQVVALVCGL 63
          D +W  DQ   +L+WI+Q + L   L
Sbjct: 63 DTAWTDDQTAQILNWIKQEINLPVAL 88


>pdb|3RKK|A Chain A, Crystal Structure Of New Delhi Metallo-Beta-Lactamase-1
          From Klebsiella Pneumoniae
 pdb|3RKK|B Chain B, Crystal Structure Of New Delhi Metallo-Beta-Lactamase-1
          From Klebsiella Pneumoniae
 pdb|3SBL|A Chain A, Crystal Structure Of New Delhi Metal-Beta-Lactamase-1
          From Klebsiella Pneumoniae
 pdb|3SRX|A Chain A, New Delhi Metallo-Beta-Lactamase-1 Complexed With Cd
 pdb|3SRX|B Chain B, New Delhi Metallo-Beta-Lactamase-1 Complexed With Cd
 pdb|3SFP|A Chain A, Crystal Structure Of The Mono-Zinc-Boundform Of New
          Delhi Metallo- Beta-Lactamase-1 From Klebsiella
          Pneumoniae
 pdb|3SFP|B Chain B, Crystal Structure Of The Mono-Zinc-Boundform Of New
          Delhi Metallo- Beta-Lactamase-1 From Klebsiella
          Pneumoniae
 pdb|3SFP|C Chain C, Crystal Structure Of The Mono-Zinc-Boundform Of New
          Delhi Metallo- Beta-Lactamase-1 From Klebsiella
          Pneumoniae
 pdb|3SFP|D Chain D, Crystal Structure Of The Mono-Zinc-Boundform Of New
          Delhi Metallo- Beta-Lactamase-1 From Klebsiella
          Pneumoniae
          Length = 237

 Score = 28.1 bits (61), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 10/26 (38%), Positives = 15/26 (57%)

Query: 38 DASWDKDQLGDVLHWIRQVVALVCGL 63
          D +W  DQ   +L+WI+Q + L   L
Sbjct: 57 DTAWTDDQTAQILNWIKQEINLPVAL 82


>pdb|3PG4|A Chain A, The Crystal Structure Of New Delhi Metallo-Beta
          Lactamase (Ndm-1)
          Length = 230

 Score = 28.1 bits (61), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 10/26 (38%), Positives = 15/26 (57%)

Query: 38 DASWDKDQLGDVLHWIRQVVALVCGL 63
          D +W  DQ   +L+WI+Q + L   L
Sbjct: 43 DTAWTDDQTAQILNWIKQEINLPVAL 68


>pdb|4H0D|A Chain A, New Delhi Metallo-Beta-Lactamase-1 Complexed With Mn
          From Klebsiella Pneumoniae
 pdb|4H0D|B Chain B, New Delhi Metallo-Beta-Lactamase-1 Complexed With Mn
          From Klebsiella Pneumoniae
 pdb|4HL1|A Chain A, Crystal Structure Of New Delhi Metallo-Beta-Lactamase-1,
          Complexed With Cd And Ampicillin
 pdb|4HL1|B Chain B, Crystal Structure Of New Delhi Metallo-Beta-Lactamase-1,
          Complexed With Cd And Ampicillin
 pdb|4HL2|A Chain A, New Delhi Metallo-Beta-Lactamase-1 1.05 A Structure
          Complexed With Hydrolyzed Ampicillin
 pdb|4HL2|B Chain B, New Delhi Metallo-Beta-Lactamase-1 1.05 A Structure
          Complexed With Hydrolyzed Ampicillin
 pdb|4HKY|A Chain A, New Delhi Metallo-beta-lactamase-1, Complexed With Cd
          And Faropenem
 pdb|4HKY|B Chain B, New Delhi Metallo-beta-lactamase-1, Complexed With Cd
          And Faropenem
          Length = 243

 Score = 28.1 bits (61), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 10/26 (38%), Positives = 15/26 (57%)

Query: 38 DASWDKDQLGDVLHWIRQVVALVCGL 63
          D +W  DQ   +L+WI+Q + L   L
Sbjct: 63 DTAWTDDQTAQILNWIKQEINLPVAL 88


>pdb|3RKJ|A Chain A, Crystal Structure Of New Delhi Metallo-Beta-Lactamase-1
          From Klebsiella Pnueumoniae
 pdb|3RKJ|B Chain B, Crystal Structure Of New Delhi Metallo-Beta-Lactamase-1
          From Klebsiella Pnueumoniae
          Length = 235

 Score = 28.1 bits (61), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 10/26 (38%), Positives = 15/26 (57%)

Query: 38 DASWDKDQLGDVLHWIRQVVALVCGL 63
          D +W  DQ   +L+WI+Q + L   L
Sbjct: 55 DTAWTDDQTAQILNWIKQEINLPVAL 80


>pdb|3Q6X|A Chain A, Crystal Structure Of Ndm-1 In Complex With Hydrolyzed
          Ampicillin
 pdb|3Q6X|B Chain B, Crystal Structure Of Ndm-1 In Complex With Hydrolyzed
          Ampicillin
          Length = 243

 Score = 28.1 bits (61), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 10/26 (38%), Positives = 15/26 (57%)

Query: 38 DASWDKDQLGDVLHWIRQVVALVCGL 63
          D +W  DQ   +L+WI+Q + L   L
Sbjct: 63 DTAWTDDQTAQILNWIKQEINLPVAL 88


>pdb|3S0Z|A Chain A, Crystal Structure Of New Delhi Metallo-Beta-Lactamase
          (Ndm-1)
 pdb|3S0Z|B Chain B, Crystal Structure Of New Delhi Metallo-Beta-Lactamase
          (Ndm-1)
          Length = 224

 Score = 27.7 bits (60), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 10/26 (38%), Positives = 15/26 (57%)

Query: 38 DASWDKDQLGDVLHWIRQVVALVCGL 63
          D +W  DQ   +L+WI+Q + L   L
Sbjct: 44 DTAWTDDQTAQILNWIKQEINLPVAL 69


>pdb|3ZR9|A Chain A, Structure Of New Delhi Metallo-Beta-Lactamase 1 (Ndm-1)
          Length = 231

 Score = 27.7 bits (60), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 10/26 (38%), Positives = 15/26 (57%)

Query: 38 DASWDKDQLGDVLHWIRQVVALVCGL 63
          D +W  DQ   +L+WI+Q + L   L
Sbjct: 51 DTAWTDDQTAQILNWIKQEINLPVAL 76


  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
   0.327    0.145    0.470 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,173,806
Number of Sequences: 62578
Number of extensions: 156309
Number of successful extensions: 415
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 399
Number of HSP's gapped (non-prelim): 16
length of query: 133
length of database: 14,973,337
effective HSP length: 88
effective length of query: 45
effective length of database: 9,466,473
effective search space: 425991285
effective search space used: 425991285
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 46 (22.3 bits)