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= 047130
         (815 letters)

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

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



>pdb|3KP2|A Chain A, Staphylococcus Epidermidis Tcar In Complex With Penicillin
           G
 pdb|3KP2|B Chain B, Staphylococcus Epidermidis Tcar In Complex With Penicillin
           G
 pdb|3KP3|A Chain A, Staphylococcus Epidermidis In Complex With Ampicillin
 pdb|3KP3|B Chain B, Staphylococcus Epidermidis In Complex With Ampicillin
 pdb|3KP4|A Chain A, Staphylococcus Epidermidis Tcar In Complex With
           Methicillin
 pdb|3KP4|B Chain B, Staphylococcus Epidermidis Tcar In Complex With
           Methicillin
 pdb|3KP5|A Chain A, Staphylococcus Epidermidis Tcar In Complex With Kanamycin
 pdb|3KP5|B Chain B, Staphylococcus Epidermidis Tcar In Complex With Kanamycin
 pdb|3KP7|A Chain A, Staphylococcus Epidermidis Tcar (Apo Form)
 pdb|3KP7|B Chain B, Staphylococcus Epidermidis Tcar (Apo Form)
 pdb|3KP6|A Chain A, Staphylococcus Epidermidis Tcar In Complex With Salicylate
 pdb|3KP6|B Chain B, Staphylococcus Epidermidis Tcar In Complex With Salicylate
          Length = 151

 Score = 32.3 bits (72), Expect = 1.0,   Method: Composition-based stats.
 Identities = 13/48 (27%), Positives = 37/48 (77%), Gaps = 1/48 (2%)

Query: 709 ISTNWEKVLDSEVLKEVKPENNFNQRVKYVVEMVNEGQETLAKIQSVV 756
           +S   +K+L++E++K  KP++N +QR+K ++++ N+G++ + + ++++
Sbjct: 68  VSRRVKKLLNAELVKLEKPDSNTDQRLK-IIKLSNKGKKYIKERKAIM 114


>pdb|3NZP|A Chain A, Crystal Structure Of The Biosynthetic Arginine
           Decarboxylase Spea From Campylobacter Jejuni, Northeast
           Structural Genomics Consortium Target Br53
 pdb|3NZP|B Chain B, Crystal Structure Of The Biosynthetic Arginine
           Decarboxylase Spea From Campylobacter Jejuni, Northeast
           Structural Genomics Consortium Target Br53
          Length = 619

 Score = 30.0 bits (66), Expect = 4.7,   Method: Compositional matrix adjust.
 Identities = 25/93 (26%), Positives = 46/93 (49%), Gaps = 7/93 (7%)

Query: 461 IIIPILVKFLYDPSRKYAGYQKRNIMQHSKASGELRILACIYRPDNIPAIIKFLQASCPK 520
           +I P+L  F    S++YA  +     Q+ K   EL  L    +P N    +++L  S   
Sbjct: 332 LIAPVLELF----SQEYAENKLILKKQNPKLIDELYDLYKSIKPSNA---LEYLHDSIDH 384

Query: 521 RGSLVTVYVLHLIDLRGRAAPLFISHKMQKKTV 553
             S++T++ L  +DL+ R+    ++H + KK +
Sbjct: 385 LESILTLFDLGYVDLQDRSNAEILTHLITKKAI 417


  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
   0.323    0.139    0.411 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,144,889
Number of Sequences: 62578
Number of extensions: 813846
Number of successful extensions: 1764
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1764
Number of HSP's gapped (non-prelim): 6
length of query: 815
length of database: 14,973,337
effective HSP length: 107
effective length of query: 708
effective length of database: 8,277,491
effective search space: 5860463628
effective search space used: 5860463628
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 56 (26.2 bits)