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= 041933
         (309 letters)

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

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



>pdb|3U9R|B Chain B, Crystal Structure Of P. Aeruginosa 3-methylcrotonyl-coa
           Carboxylase (mcc), Beta Subunit
 pdb|3U9S|B Chain B, Crystal Structure Of P. Aeruginosa 3-methylcrotonyl-coa
           Carboxylase (mcc) 750 Kd Holoenzyme, Coa Complex
 pdb|3U9S|D Chain D, Crystal Structure Of P. Aeruginosa 3-methylcrotonyl-coa
           Carboxylase (mcc) 750 Kd Holoenzyme, Coa Complex
 pdb|3U9S|F Chain F, Crystal Structure Of P. Aeruginosa 3-methylcrotonyl-coa
           Carboxylase (mcc) 750 Kd Holoenzyme, Coa Complex
 pdb|3U9S|H Chain H, Crystal Structure Of P. Aeruginosa 3-methylcrotonyl-coa
           Carboxylase (mcc) 750 Kd Holoenzyme, Coa Complex
 pdb|3U9S|J Chain J, Crystal Structure Of P. Aeruginosa 3-methylcrotonyl-coa
           Carboxylase (mcc) 750 Kd Holoenzyme, Coa Complex
 pdb|3U9S|L Chain L, Crystal Structure Of P. Aeruginosa 3-methylcrotonyl-coa
           Carboxylase (mcc) 750 Kd Holoenzyme, Coa Complex
 pdb|3U9T|B Chain B, Crystal Structure Of P. Aeruginosa 3-methylcrotonyl-coa
           Carboxylase (mcc) 750 Kd Holoenzyme, Free Enzyme
          Length = 555

 Score = 29.6 bits (65), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 29/104 (27%), Positives = 40/104 (38%), Gaps = 15/104 (14%)

Query: 162 NSDRTDRNCPDGE---VNFSNAAQEWGKYICEVSE-NGVCTTVGRLTPAFYDQMVAIVNV 217
           N  R D   PD E     F N A    + I +++   G CT  G   PA  D+ V +V  
Sbjct: 169 NLPRQDEVFPDREHFGRIFFNQANMSARGIPQIAVVMGSCTAGGAYVPAMSDETV-MVRE 227

Query: 218 SYALYRHVPPLVEVADCTFVRV----------TFGGITEHYCPD 251
              ++   PPLV+ A    V               G+ +HY  D
Sbjct: 228 QATIFLAGPPLVKAATGEVVSAEELGGADVHCKVSGVADHYAED 271


>pdb|3GZA|A Chain A, Crystal Structure Of Putative Alpha-L-Fucosidase
           (Np_812709.1) From Bacteroides Thetaiotaomicron Vpi-5482
           At 1.60 A Resolution
 pdb|3GZA|B Chain B, Crystal Structure Of Putative Alpha-L-Fucosidase
           (Np_812709.1) From Bacteroides Thetaiotaomicron Vpi-5482
           At 1.60 A Resolution
          Length = 443

 Score = 28.1 bits (61), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 13/38 (34%), Positives = 19/38 (50%)

Query: 172 DGEVNFSNAAQEWGKYICEVSENGVCTTVGRLTPAFYD 209
           +GE  F+   Q W K +CE     +CT  G L   ++D
Sbjct: 145 EGEGAFARNRQAWYKRLCEKXVTELCTRYGDLYXIWFD 182


  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
   0.324    0.138    0.446 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,976,647
Number of Sequences: 62578
Number of extensions: 337622
Number of successful extensions: 540
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 539
Number of HSP's gapped (non-prelim): 3
length of query: 309
length of database: 14,973,337
effective HSP length: 99
effective length of query: 210
effective length of database: 8,778,115
effective search space: 1843404150
effective search space used: 1843404150
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 51 (24.3 bits)