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= 027268
         (225 letters)

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

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



>pdb|2CRW|A Chain A, Solution Structure Of The Arfgap Domain Of
           Adp-Ribosylation Factor Gtpaseactivating Protein 3
           (Arfgap 3)
          Length = 149

 Score = 28.9 bits (63), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 12/25 (48%), Positives = 16/25 (64%)

Query: 124 EQVKVLADRFQRPGGFDLWTESDGP 148
           E++K LA +  R  G DLW +S GP
Sbjct: 122 EKIKSLASQATRKHGTDLWLDSSGP 146


>pdb|3FIH|N Chain N, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry
           Consists Of The 30s Subunit, Trnas And The Ternary
           Complex.
 pdb|2WWL|N Chain N, E.Coli 70s Ribosome Stalled During Translation Of Tnac
           Leader Peptide. This File Contains The 30s, The P-Site
           Trna And The Tnac Leader Peptide (Part 1 Of 2)
          Length = 96

 Score = 28.5 bits (62), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 23/68 (33%), Positives = 34/68 (50%), Gaps = 2/68 (2%)

Query: 74  GKQLLKARLCRERHIYE--MRKRAELKAAVSELERPWEAVEKAPNLFSVSADEQVKVLAD 131
            KQ +KAR  +   + +    KRAELKA +S++   W AV K   L   S+  + +    
Sbjct: 1   AKQSMKAREVKRVALADKYFAKRAELKAIISDVNARWNAVLKLQTLPRDSSPSRQRNRCR 60

Query: 132 RFQRPGGF 139
           +  RP GF
Sbjct: 61  QTGRPHGF 68


>pdb|1OAS|A Chain A, O-Acetylserine Sulfhydrylase From Salmonella Typhimurium
 pdb|1OAS|B Chain B, O-Acetylserine Sulfhydrylase From Salmonella Typhimurium
 pdb|1FCJ|A Chain A, Crystal Structure Of Oass Complexed With Chloride And
           Sulfate
 pdb|1FCJ|B Chain B, Crystal Structure Of Oass Complexed With Chloride And
           Sulfate
 pdb|1FCJ|C Chain C, Crystal Structure Of Oass Complexed With Chloride And
           Sulfate
 pdb|1FCJ|D Chain D, Crystal Structure Of Oass Complexed With Chloride And
           Sulfate
          Length = 322

 Score = 27.7 bits (60), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 14/47 (29%), Positives = 28/47 (59%), Gaps = 2/47 (4%)

Query: 110 AVEKAPNLFSVSADEQVKVLADRFQRPGGFDLWTESDGPQMFETPDG 156
           A++KA  +  V++D Q  +L  +F  P   ++  ++ GP+++E  DG
Sbjct: 122 AIQKAEEI--VASDPQKYLLLQQFSNPANPEIHEKTTGPEIWEDTDG 166


>pdb|1D6S|A Chain A, Crystal Structure Of The K41a Mutant Of O-Acetylserine
           Sulfhydrylase Complexed In External Aldimine Linkage
           With Methionine
 pdb|1D6S|B Chain B, Crystal Structure Of The K41a Mutant Of O-Acetylserine
           Sulfhydrylase Complexed In External Aldimine Linkage
           With Methionine
          Length = 322

 Score = 27.3 bits (59), Expect = 6.4,   Method: Compositional matrix adjust.
 Identities = 14/47 (29%), Positives = 28/47 (59%), Gaps = 2/47 (4%)

Query: 110 AVEKAPNLFSVSADEQVKVLADRFQRPGGFDLWTESDGPQMFETPDG 156
           A++KA  +  V++D Q  +L  +F  P   ++  ++ GP+++E  DG
Sbjct: 122 AIQKAEEI--VASDPQKYLLLQQFSNPANPEIHEKTTGPEIWEDTDG 166


>pdb|1NQ6|A Chain A, Crystal Structure Of The Catalytic Domain Of Xylanase A
           From Streptomyces Halstedii Jm8
          Length = 302

 Score = 26.9 bits (58), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 13/38 (34%), Positives = 20/38 (52%)

Query: 89  YEMRKRAELKAAVSELERPWEAVEKAPNLFSVSADEQV 126
           Y     A+  +   E E  W+AVE + N FS SA +++
Sbjct: 29  YASTLDAQFGSVTPENEMKWDAVESSRNSFSFSAADRI 66


  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
   0.314    0.132    0.404 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,013,733
Number of Sequences: 62578
Number of extensions: 306250
Number of successful extensions: 462
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 456
Number of HSP's gapped (non-prelim): 9
length of query: 225
length of database: 14,973,337
effective HSP length: 95
effective length of query: 130
effective length of database: 9,028,427
effective search space: 1173695510
effective search space used: 1173695510
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 50 (23.9 bits)