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= psy11008
         (96 letters)

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

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



>pdb|1WI9|A Chain A, Solution Structure Of The Pci Domain From Mouse
          Hypothetical Protein Aah51541
          Length = 72

 Score = 52.8 bits (125), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 26/48 (54%), Positives = 33/48 (68%)

Query: 1  MEDLAALFRMKTQSVIDRIVELQKTGALTGVIDDRGKFIYISQEELNS 48
          +EDLA    ++TQ  I+RI +L   G LTGVIDDRGKFIYI+    +S
Sbjct: 24 LEDLAFQMGLRTQDAINRIQDLLTEGTLTGVIDDRGKFIYITPSGPSS 71


>pdb|4GRI|A Chain A, Crystal Structure Of A Glutamyl-Trna Synthetase Glurs From
           Borrelia Burgdorferi Bound To Glutamic Acid And Zinc
 pdb|4GRI|B Chain B, Crystal Structure Of A Glutamyl-Trna Synthetase Glurs From
           Borrelia Burgdorferi Bound To Glutamic Acid And Zinc
          Length = 512

 Score = 26.9 bits (58), Expect = 3.1,   Method: Composition-based stats.
 Identities = 14/41 (34%), Positives = 25/41 (60%), Gaps = 1/41 (2%)

Query: 52  FIKQRGREEL-NSVATFIKQKGRVSVSELVENSNQLVTLIP 91
           +I+++  E+L N +  F ++KG VS    +E + +L  LIP
Sbjct: 347 YIREKKDEDLFNLLLPFFQKKGYVSKPSTLEENQKLKLLIP 387


>pdb|3CTA|A Chain A, Crystal Structure Of Riboflavin Kinase From Thermoplasma
          Acidophilum
          Length = 230

 Score = 26.6 bits (57), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 14/48 (29%), Positives = 28/48 (58%)

Query: 4  LAALFRMKTQSVIDRIVELQKTGALTGVIDDRGKFIYISQEELNSVAT 51
          LA +  +  QS    I++L+K G +T  +  RG+ + I+++ L+ + T
Sbjct: 33 LADMLGISQQSASRIIIDLEKNGYITRTVTKRGQILNITEKGLDVLYT 80


>pdb|1C7G|A Chain A, Tyrosine Phenol-Lyase From Erwinia Herbicola
 pdb|1C7G|B Chain B, Tyrosine Phenol-Lyase From Erwinia Herbicola
 pdb|1C7G|C Chain C, Tyrosine Phenol-Lyase From Erwinia Herbicola
 pdb|1C7G|D Chain D, Tyrosine Phenol-Lyase From Erwinia Herbicola
          Length = 456

 Score = 26.2 bits (56), Expect = 5.4,   Method: Composition-based stats.
 Identities = 12/40 (30%), Positives = 25/40 (62%)

Query: 38  FIYISQEELNSVATFIKQRGREELNSVATFIKQKGRVSVS 77
           F+ I ++E +  +  +  +G  +LN +AT IK+KG  +++
Sbjct: 137 FVDIVRDEAHDASLNLPFKGDIDLNKLATLIKEKGAENIA 176


>pdb|3RVW|C Chain C, Crystal Structure Of Der P 1 Complexed With Fab 4c1
          Length = 212

 Score = 25.8 bits (55), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 14/62 (22%), Positives = 33/62 (53%), Gaps = 5/62 (8%)

Query: 39 IYISQEELNSVATF-----IKQRGREELNSVATFIKQKGRVSVSELVENSNQLVTLIPDQ 93
          I ++Q   +  AT      I  +  +++ S  ++++QK   S+  L+  +N+L+T +P +
Sbjct: 2  IVMTQSPFSMYATLGERVTITCKASQDIYSYLSWLQQKPGKSLKTLIYRANRLITGVPSR 61

Query: 94 IA 95
           +
Sbjct: 62 FS 63


>pdb|3RVT|C Chain C, Structure Of 4c1 Fab In P212121 Space Group
 pdb|3RVU|C Chain C, Structure Of 4c1 Fab In C2221 Space Group
 pdb|3RVV|C Chain C, Crystal Structure Of Der F 1 Complexed With Fab 4c1
 pdb|3RVX|C Chain C, Crystal Structure Of Der P 1 Complexed With Fab 4c1
          Length = 213

 Score = 25.8 bits (55), Expect = 6.2,   Method: Compositional matrix adjust.
 Identities = 14/62 (22%), Positives = 33/62 (53%), Gaps = 5/62 (8%)

Query: 39 IYISQEELNSVATF-----IKQRGREELNSVATFIKQKGRVSVSELVENSNQLVTLIPDQ 93
          I ++Q   +  AT      I  +  +++ S  ++++QK   S+  L+  +N+L+T +P +
Sbjct: 2  IVMTQSPFSMYATLGERVTITCKASQDIYSYLSWLQQKPGKSLKTLIYRANRLITGVPSR 61

Query: 94 IA 95
           +
Sbjct: 62 FS 63


  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
   0.316    0.132    0.338 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,087,738
Number of Sequences: 62578
Number of extensions: 64620
Number of successful extensions: 302
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: 298
Number of HSP's gapped (non-prelim): 9
length of query: 96
length of database: 14,973,337
effective HSP length: 62
effective length of query: 34
effective length of database: 11,093,501
effective search space: 377179034
effective search space used: 377179034
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)