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= 003798
         (794 letters)

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

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



>pdb|1NQK|A Chain A, Structural Genomics, Crystal Structure Of Alkanesulfonate
           Monooxygenase
          Length = 381

 Score = 30.0 bits (66), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 29/110 (26%), Positives = 50/110 (45%), Gaps = 7/110 (6%)

Query: 124 MDFTLLKRCGRKHVYIAVTGVIIPTATSAAVAFLTRKSMDPELAKVSSIGAITTSLAVTS 183
           +D   L++  +    +  TGV+IPT  S   A+L   SM P   ++  + A+  S  VTS
Sbjct: 27  VDHGYLQQIAQAADRLGYTGVLIPTGRSCEDAWLVAASMIPVTQRLKFLVALRPS--VTS 84

Query: 184 FPVLNPILKDLNLLSSEMGRMAIVTA-----VIGDAIGINIVIAFEAAKQ 228
             V       L+ LS+      +VT      + GD + ++    +EA+ +
Sbjct: 85  PTVAARQAATLDRLSNGRALFNLVTGSDPQELAGDGVFLDHSERYEASAE 134


>pdb|1M41|A Chain A, Crystal Structure Of Escherichia Coli Alkanesulfonate
           Monooxygenase Ssud At 2.3 A Resolution
 pdb|1M41|B Chain B, Crystal Structure Of Escherichia Coli Alkanesulfonate
           Monooxygenase Ssud At 2.3 A Resolution
          Length = 380

 Score = 30.0 bits (66), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 29/110 (26%), Positives = 50/110 (45%), Gaps = 7/110 (6%)

Query: 124 MDFTLLKRCGRKHVYIAVTGVIIPTATSAAVAFLTRKSMDPELAKVSSIGAITTSLAVTS 183
           +D   L++  +    +  TGV+IPT  S   A+L   SM P   ++  + A+  S  VTS
Sbjct: 26  VDHGYLQQIAQAADRLGYTGVLIPTGRSCEDAWLVAASMIPVTQRLKFLVALRPS--VTS 83

Query: 184 FPVLNPILKDLNLLSSEMGRMAIVTA-----VIGDAIGINIVIAFEAAKQ 228
             V       L+ LS+      +VT      + GD + ++    +EA+ +
Sbjct: 84  PTVAARQAATLDRLSNGRALFNLVTGSDPQELAGDGVFLDHSERYEASAE 133


>pdb|4HL7|A Chain A, Crystal Structure Of Nicotinate Phosphoribosyltransferase
           (Target Nysgr-026035) From Vibrio Cholerae
 pdb|4HL7|B Chain B, Crystal Structure Of Nicotinate Phosphoribosyltransferase
           (Target Nysgr-026035) From Vibrio Cholerae
          Length = 446

 Score = 30.0 bits (66), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 12/35 (34%), Positives = 19/35 (54%)

Query: 447 YMVNKRRTIQHHPPDTELRLVVCVHEEESVAGLIN 481
           Y +N  + I H  PD  +R  + V  EE  +GL++
Sbjct: 22  YKINXXQAIHHFYPDVSVRYELIVRSEEDASGLLD 56


>pdb|2RKX|A Chain A, The 3d Structure Of Chain D, Cyclase Subunit Of
           Imidazoleglycerol_evolvedcerolphosphate Synthase
          Length = 255

 Score = 29.3 bits (64), Expect = 8.3,   Method: Compositional matrix adjust.
 Identities = 13/27 (48%), Positives = 18/27 (66%)

Query: 623 PMHAAGGSMRRHHFVVLFLGGADAREA 649
           P+ A GG+ +  HF+  FL GADA +A
Sbjct: 197 PIIAHGGAGKMEHFLEAFLAGADAAKA 223


  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
   0.325    0.141    0.422 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,312,252
Number of Sequences: 62578
Number of extensions: 892800
Number of successful extensions: 2146
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 2142
Number of HSP's gapped (non-prelim): 6
length of query: 794
length of database: 14,973,337
effective HSP length: 107
effective length of query: 687
effective length of database: 8,277,491
effective search space: 5686636317
effective search space used: 5686636317
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (25.8 bits)