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= 000244
         (1799 letters)

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

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



>pdb|2IT1|A Chain A, Structure Of Ph0203 Protein From Pyrococcus Horikoshii
 pdb|2IT1|B Chain B, Structure Of Ph0203 Protein From Pyrococcus Horikoshii
          Length = 362

 Score = 31.6 bits (70), Expect = 4.2,   Method: Composition-based stats.
 Identities = 42/174 (24%), Positives = 70/174 (40%), Gaps = 30/174 (17%)

Query: 957  SSFKIMAKHLGITTLYVSARQQSGHEILSQPIRVEVYAPPRI----HPHDIFLVPGASYM 1012
            +  K + K LGITT+YV+  Q    E L+   R+ V     I     P +++  P   ++
Sbjct: 174  AELKRLQKELGITTVYVTHDQA---EALAMADRIAVIREGEILQVGTPDEVYYKPKYKFV 230

Query: 1013 LTLKGGPTVGVYVDYTSTDEEIATIHRSS----GQLFAI--SPGNTTLI--------ATV 1058
                G P +  +V+    D ++    +S      Q   I    G T +I          V
Sbjct: 231  GGFLGNPPMN-FVEAKVEDGKLVITEKSKLPIPKQYVEIVKETGITEVIIGFRPHDAEIV 289

Query: 1059 FGNGDVVICQAFSSVKVGVPSSVTLNAQSDQLAVGHEMPIHPLFPEGDVFSFYE 1112
             G G+ ++ + +S   +G    VT++     + V          PEG+ FSF E
Sbjct: 290  KGEGEGIVGEVYSFEPLGREQIVTVSVNDSIVKV--------FAPEGEHFSFGE 335


>pdb|2ENI|A Chain A, Mutant F197m Structure Of Ph0725 From Pyrococcus Horikoshii
            Ot3
 pdb|2ENI|B Chain B, Mutant F197m Structure Of Ph0725 From Pyrococcus Horikoshii
            Ot3
          Length = 265

 Score = 31.2 bits (69), Expect = 5.5,   Method: Composition-based stats.
 Identities = 27/100 (27%), Positives = 43/100 (43%), Gaps = 14/100 (14%)

Query: 1333 PISYYDALGTPFHEAHNVILYHAETNYHDVVSINYTLNGSGKIYLKAKQHGRALVQVS-M 1391
            P SYYD           VI  +AE   H ++ ++  +    ++Y+ A +    L++V  M
Sbjct: 145  PTSYYD-----------VIKENAERGLHTLLFLD--IKAEKRMYMTANEAMELLLKVEDM 191

Query: 1392 NRSPQKSDYVLVSVGAQLYPQNPVLHVGGSLDFSVEGFSD 1431
             +    +D  LV V A+    NP +  G   D   E F D
Sbjct: 192  KKGGVMTDDTLVVVLARAGSLNPTIRAGYVKDLIREDFGD 231


>pdb|2PCG|A Chain A, Crystal Structure Of Ph0725 From Pyrococcus Horikoshii Ot3
 pdb|2PCG|B Chain B, Crystal Structure Of Ph0725 From Pyrococcus Horikoshii Ot3
          Length = 265

 Score = 31.2 bits (69), Expect = 5.6,   Method: Composition-based stats.
 Identities = 27/100 (27%), Positives = 43/100 (43%), Gaps = 14/100 (14%)

Query: 1333 PISYYDALGTPFHEAHNVILYHAETNYHDVVSINYTLNGSGKIYLKAKQHGRALVQVS-M 1391
            P SYYD           VI  +AE   H ++ ++  +    ++Y+ A +    L++V  M
Sbjct: 145  PTSYYD-----------VIKENAERGLHTLLFLD--IKAEKRMYMTANEAMELLLKVEDM 191

Query: 1392 NRSPQKSDYVLVSVGAQLYPQNPVLHVGGSLDFSVEGFSD 1431
             +    +D  LV V A+    NP +  G   D   E F D
Sbjct: 192  KKGGVFTDDTLVVVLARAGSMNPTIRAGYVKDLIREDFGD 231


  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    0.134    0.395 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 51,816,670
Number of Sequences: 62578
Number of extensions: 2131748
Number of successful extensions: 4824
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 4821
Number of HSP's gapped (non-prelim): 11
length of query: 1799
length of database: 14,973,337
effective HSP length: 113
effective length of query: 1686
effective length of database: 7,902,023
effective search space: 13322810778
effective search space used: 13322810778
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 59 (27.3 bits)