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= 041618
         (129 letters)

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

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



>pdb|2AEU|A Chain A, Mj0158, Apo Form
          Length = 374

 Score = 28.9 bits (63), Expect = 0.72,   Method: Compositional matrix adjust.
 Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 3/39 (7%)

Query: 35  ASGSKRRLSFNDRPGLRACTDDNYADESSTDSASAGPRS 73
           ASG++ RL FN  P L+   D      +STD    GPR 
Sbjct: 180 ASGARVRLLFNQPPALKLGAD---LVVTSTDKLMEGPRG 215


>pdb|2AEV|A Chain A, Mj0158, Nabh4-Reduced Form
          Length = 374

 Score = 28.9 bits (63), Expect = 0.75,   Method: Compositional matrix adjust.
 Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 3/39 (7%)

Query: 35  ASGSKRRLSFNDRPGLRACTDDNYADESSTDSASAGPRS 73
           ASG++ RL FN  P L+   D      +STD    GPR 
Sbjct: 180 ASGARVRLLFNQPPALKLGAD---LVVTSTDXLMEGPRG 215


>pdb|3N75|A Chain A, X-Ray Crystal Structure Of The Escherichia Coli Inducible
           Lysine Decarboxylase Ldci
 pdb|3N75|B Chain B, X-Ray Crystal Structure Of The Escherichia Coli Inducible
           Lysine Decarboxylase Ldci
 pdb|3N75|C Chain C, X-Ray Crystal Structure Of The Escherichia Coli Inducible
           Lysine Decarboxylase Ldci
 pdb|3N75|D Chain D, X-Ray Crystal Structure Of The Escherichia Coli Inducible
           Lysine Decarboxylase Ldci
 pdb|3N75|E Chain E, X-Ray Crystal Structure Of The Escherichia Coli Inducible
           Lysine Decarboxylase Ldci
 pdb|3Q16|A Chain A, Linkage Between The Bacterial Acid Stress And Stringent
           Responses: The Structure Of The Inducible Lysine
           Decarboxylase
 pdb|3Q16|B Chain B, Linkage Between The Bacterial Acid Stress And Stringent
           Responses: The Structure Of The Inducible Lysine
           Decarboxylase
 pdb|3Q16|C Chain C, Linkage Between The Bacterial Acid Stress And Stringent
           Responses: The Structure Of The Inducible Lysine
           Decarboxylase
 pdb|3Q16|D Chain D, Linkage Between The Bacterial Acid Stress And Stringent
           Responses: The Structure Of The Inducible Lysine
           Decarboxylase
 pdb|3Q16|E Chain E, Linkage Between The Bacterial Acid Stress And Stringent
           Responses: The Structure Of The Inducible Lysine
           Decarboxylase
          Length = 715

 Score = 27.3 bits (59), Expect = 2.1,   Method: Composition-based stats.
 Identities = 17/64 (26%), Positives = 31/64 (48%), Gaps = 5/64 (7%)

Query: 30  SSMIGASGSKRRLSFNDRPGLRACTDDNYADESSTDSASAGPRSHGGE-----SLHRTIS 84
           +SMI   G     +FN+   +   T  +Y   +ST++A+A  + + G+     S+ R I 
Sbjct: 375 ASMIHVKGDVNEETFNEAYMMHTTTSPHYGIVASTETAAAMMKGNAGKRLINGSIERAIK 434

Query: 85  YPSE 88
           +  E
Sbjct: 435 FRKE 438


>pdb|3I4F|A Chain A, Structure Of Putative 3-oxoacyl-reductase From Bacillus
           Thuringiensis
 pdb|3I4F|B Chain B, Structure Of Putative 3-oxoacyl-reductase From Bacillus
           Thuringiensis
 pdb|3I4F|C Chain C, Structure Of Putative 3-oxoacyl-reductase From Bacillus
           Thuringiensis
 pdb|3I4F|D Chain D, Structure Of Putative 3-oxoacyl-reductase From Bacillus
           Thuringiensis
          Length = 264

 Score = 25.8 bits (55), Expect = 7.6,   Method: Compositional matrix adjust.
 Identities = 12/21 (57%), Positives = 14/21 (66%)

Query: 72  RSHGGESLHRTISYPSEDDID 92
           RS  GE + RTIS+  EDD D
Sbjct: 218 RSGTGEDIARTISFLCEDDSD 238


  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
   0.319    0.130    0.374 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,307,695
Number of Sequences: 62578
Number of extensions: 114159
Number of successful extensions: 202
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 198
Number of HSP's gapped (non-prelim): 7
length of query: 129
length of database: 14,973,337
effective HSP length: 88
effective length of query: 41
effective length of database: 9,466,473
effective search space: 388125393
effective search space used: 388125393
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)