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= 035689
         (95 letters)

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

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



>pdb|4FBA|A Chain A, Structure Of Mutant Rip From Barley Seeds In Complex
          With Adenine
 pdb|4FBA|B Chain B, Structure Of Mutant Rip From Barley Seeds In Complex
          With Adenine
 pdb|4FBA|C Chain C, Structure Of Mutant Rip From Barley Seeds In Complex
          With Adenine
 pdb|4FBA|D Chain D, Structure Of Mutant Rip From Barley Seeds In Complex
          With Adenine
 pdb|4FBB|A Chain A, Structure Of Mutant Rip From Barley Seeds In Complex
          With Adenine (amp-incubated)
 pdb|4FBB|B Chain B, Structure Of Mutant Rip From Barley Seeds In Complex
          With Adenine (amp-incubated)
 pdb|4FBB|C Chain C, Structure Of Mutant Rip From Barley Seeds In Complex
          With Adenine (amp-incubated)
 pdb|4FBB|D Chain D, Structure Of Mutant Rip From Barley Seeds In Complex
          With Adenine (amp-incubated)
 pdb|4FBC|A Chain A, Structure Of Mutant Rip From Barley Seeds In Complex
          With Amp
 pdb|4FBC|B Chain B, Structure Of Mutant Rip From Barley Seeds In Complex
          With Amp
 pdb|4FBC|C Chain C, Structure Of Mutant Rip From Barley Seeds In Complex
          With Amp
 pdb|4FBC|D Chain D, Structure Of Mutant Rip From Barley Seeds In Complex
          With Amp
          Length = 282

 Score = 26.9 bits (58), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 9/15 (60%), Positives = 13/15 (86%)

Query: 72 FEKDKPVIPPVQPNV 86
          F  ++PV+PPV+PNV
Sbjct: 45 FSHNRPVLPPVEPNV 59


>pdb|4FB9|A Chain A, Structure Of Mutant Rip From Barley Seeds
 pdb|4FB9|B Chain B, Structure Of Mutant Rip From Barley Seeds
 pdb|4FB9|C Chain C, Structure Of Mutant Rip From Barley Seeds
 pdb|4FB9|D Chain D, Structure Of Mutant Rip From Barley Seeds
          Length = 282

 Score = 26.9 bits (58), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 9/15 (60%), Positives = 13/15 (86%)

Query: 72 FEKDKPVIPPVQPNV 86
          F  ++PV+PPV+PNV
Sbjct: 45 FSHNRPVLPPVEPNV 59


>pdb|4FBH|A Chain A, Structure Of Rip From Barley Seeds
          Length = 281

 Score = 26.9 bits (58), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 9/15 (60%), Positives = 13/15 (86%)

Query: 72 FEKDKPVIPPVQPNV 86
          F  ++PV+PPV+PNV
Sbjct: 44 FSHNRPVLPPVEPNV 58


>pdb|3QO5|A Chain A, Crystal Structure Of The Seryl-Trna Synthetase From
           Candida Albicans
          Length = 485

 Score = 26.2 bits (56), Expect = 5.3,   Method: Composition-based stats.
 Identities = 14/43 (32%), Positives = 24/43 (55%), Gaps = 1/43 (2%)

Query: 24  KEGYRVDVDVPDSTWAKAASFHDILIFNTGHWWWAPAKFDPVK 66
           +E Y+V +D  D  +  A S   I  ++ G W+ +PA+  PV+
Sbjct: 229 EELYKV-IDGEDEKYLIATSEQPISAYHAGEWFESPAEQLPVR 270


>pdb|3QNE|A Chain A, Candida Albicans Seryl-Trna Synthetase
 pdb|3QO7|A Chain A, Crystal Structure Of The Seryl-Trna Synthetase From
           Candida Albicans
 pdb|3QO8|A Chain A, Crystal Structure Of Seryl-Trna Synthetase From Candida
           Albicans
          Length = 485

 Score = 26.2 bits (56), Expect = 5.3,   Method: Composition-based stats.
 Identities = 14/43 (32%), Positives = 24/43 (55%), Gaps = 1/43 (2%)

Query: 24  KEGYRVDVDVPDSTWAKAASFHDILIFNTGHWWWAPAKFDPVK 66
           +E Y+V +D  D  +  A S   I  ++ G W+ +PA+  PV+
Sbjct: 229 EELYKV-IDGEDEKYLIATSEQPISAYHAGEWFESPAEQLPVR 270


  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    0.137    0.464 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,363,018
Number of Sequences: 62578
Number of extensions: 131893
Number of successful extensions: 222
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 217
Number of HSP's gapped (non-prelim): 9
length of query: 95
length of database: 14,973,337
effective HSP length: 62
effective length of query: 33
effective length of database: 11,093,501
effective search space: 366085533
effective search space used: 366085533
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)