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= 042759
         (1055 letters)

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

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



>pdb|2ZE9|A Chain A, Crystal Structure Of H168a Mutant Of Phospholipase D From
           Streptomyces Antibioticus, As A Complex With
           Phosphatidylcholine
          Length = 509

 Score = 32.7 bits (73), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 17/42 (40%), Positives = 22/42 (52%), Gaps = 5/42 (11%)

Query: 296 TGKNSDTMRALCNSVVSLSWRSANGTPTDVCHWADGFPLNVH 337
           TG N    RALC ++   S+RS     +D   WADG P  +H
Sbjct: 406 TGDNEKASRALCGNLQLASFRS-----SDAAKWADGKPYALH 442


>pdb|2ZE4|A Chain A, Crystal Structure Of Phospholipase D From Streptomyces
           Antibioticus
          Length = 509

 Score = 32.7 bits (73), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 17/42 (40%), Positives = 22/42 (52%), Gaps = 5/42 (11%)

Query: 296 TGKNSDTMRALCNSVVSLSWRSANGTPTDVCHWADGFPLNVH 337
           TG N    RALC ++   S+RS     +D   WADG P  +H
Sbjct: 406 TGDNEKASRALCGNLQLASFRS-----SDAAKWADGKPYALH 442


>pdb|4F9D|A Chain A, Structure Of Escherichia Coli Pgab 42-655 In Complex With
           Nickel
 pdb|4F9D|B Chain B, Structure Of Escherichia Coli Pgab 42-655 In Complex With
           Nickel
          Length = 618

 Score = 30.8 bits (68), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 9/26 (34%), Positives = 18/26 (69%)

Query: 24  LAWPFGKLEGIDSDDIRETAYEVFFT 49
             WP+G+  GI  +++++  Y++FFT
Sbjct: 211 FVWPYGEANGIAIEELKKLGYDMFFT 236


>pdb|3VUS|A Chain A, Escherichia Coli Pgab N-terminal Domain
 pdb|3VUS|B Chain B, Escherichia Coli Pgab N-terminal Domain
          Length = 268

 Score = 30.8 bits (68), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 9/26 (34%), Positives = 18/26 (69%)

Query: 24  LAWPFGKLEGIDSDDIRETAYEVFFT 49
             WP+G+  GI  +++++  Y++FFT
Sbjct: 207 FVWPYGEANGIAIEELKKLGYDMFFT 232


>pdb|4F9J|A Chain A, Structure Of Escherichia Coli Pgab 42-655 In Complex With
           Iron
 pdb|4F9J|B Chain B, Structure Of Escherichia Coli Pgab 42-655 In Complex With
           Iron
          Length = 618

 Score = 30.0 bits (66), Expect = 6.7,   Method: Compositional matrix adjust.
 Identities = 9/26 (34%), Positives = 17/26 (65%)

Query: 24  LAWPFGKLEGIDSDDIRETAYEVFFT 49
             WP+G+  GI  +++++  Y+ FFT
Sbjct: 211 FVWPYGEANGIAIEELKKLGYDXFFT 236


  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    0.133    0.393 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 28,420,826
Number of Sequences: 62578
Number of extensions: 1114945
Number of successful extensions: 2315
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 2312
Number of HSP's gapped (non-prelim): 9
length of query: 1055
length of database: 14,973,337
effective HSP length: 109
effective length of query: 946
effective length of database: 8,152,335
effective search space: 7712108910
effective search space used: 7712108910
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: 57 (26.6 bits)