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= 030062
         (183 letters)

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

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



>pdb|2KVO|A Chain A, Solution Nmr Structure Of Photosystem Ii Reaction Center
           Psb28 Protein From Synechocystis Sp.(Strain Pcc 6803),
           Northeast Structural Genomics Consortium Target Sgr171
          Length = 120

 Score =  120 bits (301), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 57/108 (52%), Positives = 76/108 (70%), Gaps = 1/108 (0%)

Query: 75  IQFIQGTDELTVPDVKLTKSRDGSNGMAIFSFSEPSVFDSSGEIGDITGFYMIDEEGTLQ 134
           IQF +G  E  VP+V+L+KS++G +GMA F F EP++  +     DITG Y+ID+EG + 
Sbjct: 4   IQFSKGVAETVVPEVRLSKSKNGQSGMAKFYFLEPTIL-AKESTDDITGMYLIDDEGEII 62

Query: 135 SVDVSAKFVNGRPSRIEAKYIMRSPREWDRFMRFMERYANQNGLQFVK 182
           + +V  KF+NGRP+ IEA  I+ S  EWDRFMRFMERY  +NGL F K
Sbjct: 63  TREVKGKFINGRPTAIEATVILNSQPEWDRFMRFMERYGAENGLGFSK 110


>pdb|3LVT|A Chain A, The Crystal Structure Of A Protein In The Glycosyl
           Hydrolase Family 38 From Enterococcus Faecalis To 2.55a
          Length = 899

 Score = 29.3 bits (64), Expect = 1.3,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 31/53 (58%)

Query: 105 SFSEPSVFDSSGEIGDITGFYMIDEEGTLQSVDVSAKFVNGRPSRIEAKYIMR 157
           +FS+   F+ +G+IG+   F+   E+  + + +V+A+  N   S ++A Y ++
Sbjct: 555 TFSKLLTFEDTGDIGNEYIFFKPTEDQGITTENVTAEITNKENSPVKASYQIK 607


>pdb|2GH9|A Chain A, Thermus Thermophilus Maltotriose Binding Protein Bound
           With Maltotriose
          Length = 386

 Score = 28.5 bits (62), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 28/107 (26%), Positives = 44/107 (41%), Gaps = 22/107 (20%)

Query: 76  QFIQGTDELTVPDVKLTKSRDGSNGMAIFSFSEPSVFDSSGEIGDITGFYMIDEEGTLQS 135
           +FI G  +    D+ +T   D    MA     +  V +  G+   +T  Y+ D    LQ 
Sbjct: 45  KFILGAPQGQAADLVVTVPHDWVGEMA-----QAGVLEPVGKY--VTQAYLAD----LQG 93

Query: 136 VDVSAKFVNGR----PSRIEA-------KYIMRSPREWDRFMRFMER 171
           V V A    GR    P+  E+       KY+   PR W+ F+   ++
Sbjct: 94  VAVEAFTFGGRLMGLPAFAESVALIYNKKYVKEPPRTWEEFLALAQK 140


>pdb|3ZTH|A Chain A, Crystal Structure Of Stu0660 Of Streptococcus Thermophilus
 pdb|3ZTH|B Chain B, Crystal Structure Of Stu0660 Of Streptococcus Thermophilus
          Length = 350

 Score = 28.5 bits (62), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 10/32 (31%), Positives = 19/32 (59%)

Query: 97  GSNGMAIFSFSEPSVFDSSGEIGDITGFYMID 128
            S  ++IF + EP++ D + EI   + ++ ID
Sbjct: 48  SSEDLSIFDYEEPTILDEAREIVKRSSYHYID 79


>pdb|1CI0|A Chain A, Pnp Oxidase From Saccharomyces Cerevisiae
 pdb|1CI0|B Chain B, Pnp Oxidase From Saccharomyces Cerevisiae
          Length = 228

 Score = 26.6 bits (57), Expect = 9.1,   Method: Compositional matrix adjust.
 Identities = 13/36 (36%), Positives = 20/36 (55%)

Query: 128 DEEGTLQSVDVSAKFVNGRPSRIEAKYIMRSPREWD 163
           D  G L+ V +  +F  GRPSR+  +++ R   E D
Sbjct: 184 DYWGGLRIVPLEIEFWQGRPSRLHDRFVYRRKTEND 219


  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
   0.318    0.131    0.390 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,211,210
Number of Sequences: 62578
Number of extensions: 202963
Number of successful extensions: 424
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 418
Number of HSP's gapped (non-prelim): 7
length of query: 183
length of database: 14,973,337
effective HSP length: 93
effective length of query: 90
effective length of database: 9,153,583
effective search space: 823822470
effective search space used: 823822470
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)