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= 014568
         (422 letters)

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

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



>pdb|1P9O|A Chain A, Crystal Structure Of Phosphopantothenoylcysteine
           Synthetase
 pdb|1P9O|B Chain B, Crystal Structure Of Phosphopantothenoylcysteine
           Synthetase
          Length = 313

 Score = 33.5 bits (75), Expect = 0.26,   Method: Compositional matrix adjust.
 Identities = 29/103 (28%), Positives = 46/103 (44%), Gaps = 16/103 (15%)

Query: 55  RGFQLEFKLADDPNIGLQRYGQYLYDALVLFCPSVERFGGSIDVASIVDFVDSGHDLIVA 114
           + F + FKL  DP I + R  + L           E +   + VA+I++   S   LIV 
Sbjct: 226 KAFIISFKLETDPAIVINRARKAL-----------EIYQHQVVVANILESRQS-FVLIVT 273

Query: 115 ADSNASDLIREVATECGVDFDEDPAAMVIDHINYAVSNFDGDH 157
            DS    L+ E   E GV+ +E     ++D++    + F GD 
Sbjct: 274 KDSETKLLLSEEEIEKGVEIEEK----IVDNLQSRHTAFIGDR 312


>pdb|4GYJ|A Chain A, Crystal Structure Of Mutant (D318n) Bacillus Subtilus
           Family 3 Glycoside Hydrolase (Nagz) In Complex With
           Glcnac-Murnac (Space Group P1)
 pdb|4GYJ|B Chain B, Crystal Structure Of Mutant (D318n) Bacillus Subtilus
           Family 3 Glycoside Hydrolase (Nagz) In Complex With
           Glcnac-Murnac (Space Group P1)
 pdb|4GYK|A Chain A, Crystal Structure Of Mutant (D318n) Bacillus Subtilus
           Family 3 Glycoside Hydrolase (Nagz) In Complex With
           Glcnac-Murnac (Space Group P1211)
 pdb|4GYK|B Chain B, Crystal Structure Of Mutant (D318n) Bacillus Subtilus
           Family 3 Glycoside Hydrolase (Nagz) In Complex With
           Glcnac-Murnac (Space Group P1211)
          Length = 648

 Score = 29.3 bits (64), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 14/71 (19%)

Query: 285 HKVGESDEPAIYRINDDLEYSVEIYEWSG----------TSWEPYVSDDVQVQFYMMSPY 334
            K GES   A+ ++ND++   V+ Y++ G          T     ++DD Q      SP 
Sbjct: 64  QKEGESSPQALTKMNDEVASLVKKYQFGGIILFAENVKTTKQTVQLTDDYQ----KASPK 119

Query: 335 VLKTLSTDQKG 345
           +   LS DQ+G
Sbjct: 120 IPLMLSIDQEG 130


>pdb|3BMX|A Chain A, Beta-N-Hexosaminidase (Ybbd) From Bacillus Subtilis
 pdb|3BMX|B Chain B, Beta-N-Hexosaminidase (Ybbd) From Bacillus Subtilis
 pdb|3NVD|A Chain A, Structure Of Ybbd In Complex With Pugnac
 pdb|3NVD|B Chain B, Structure Of Ybbd In Complex With Pugnac
          Length = 642

 Score = 29.3 bits (64), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 14/71 (19%)

Query: 285 HKVGESDEPAIYRINDDLEYSVEIYEWSG----------TSWEPYVSDDVQVQFYMMSPY 334
            K GES   A+ ++ND++   V+ Y++ G          T     ++DD Q      SP 
Sbjct: 60  QKEGESSPQALTKMNDEVASLVKKYQFGGIILFAENVKTTKQTVQLTDDYQ----KASPK 115

Query: 335 VLKTLSTDQKG 345
           +   LS DQ+G
Sbjct: 116 IPLMLSIDQEG 126


>pdb|3LK6|A Chain A, Beta-N-Hexosaminidase N318d Mutant (Ybbd_n318d) From
           Bacillus Subtilis
 pdb|3LK6|B Chain B, Beta-N-Hexosaminidase N318d Mutant (Ybbd_n318d) From
           Bacillus Subtilis
 pdb|3LK6|C Chain C, Beta-N-Hexosaminidase N318d Mutant (Ybbd_n318d) From
           Bacillus Subtilis
 pdb|3LK6|D Chain D, Beta-N-Hexosaminidase N318d Mutant (Ybbd_n318d) From
           Bacillus Subtilis
          Length = 616

 Score = 28.9 bits (63), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 14/71 (19%)

Query: 285 HKVGESDEPAIYRINDDLEYSVEIYEWSG----------TSWEPYVSDDVQVQFYMMSPY 334
            K GES   A+ ++ND++   V+ Y++ G          T     ++DD Q      SP 
Sbjct: 34  QKEGESSPQALTKMNDEVASLVKKYQFGGIILFAENVKTTKQTVQLTDDYQ----KASPK 89

Query: 335 VLKTLSTDQKG 345
           +   LS DQ+G
Sbjct: 90  IPLMLSIDQEG 100


>pdb|1ZHV|A Chain A, X-Ray Crystal Structure Protein Atu0741 From Agobacterium
           Tumefaciens. Northeast Structural Genomics Consortium
           Target Atr8
          Length = 134

 Score = 28.9 bits (63), Expect = 5.4,   Method: Composition-based stats.
 Identities = 12/27 (44%), Positives = 17/27 (62%)

Query: 148 YAVSNFDGDHTLIASDDFIKADVILGS 174
           + VS FDGDH L+ S+D  K   +L +
Sbjct: 94  FVVSTFDGDHLLVRSNDLEKTADLLAN 120


  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
   0.320    0.137    0.403 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,725,070
Number of Sequences: 62578
Number of extensions: 466460
Number of successful extensions: 965
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 962
Number of HSP's gapped (non-prelim): 14
length of query: 422
length of database: 14,973,337
effective HSP length: 101
effective length of query: 321
effective length of database: 8,652,959
effective search space: 2777599839
effective search space used: 2777599839
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: 53 (25.0 bits)