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= 000636
         (1380 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 = 3.2,   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|2IVT|A Chain A, Crystal Structure Of Phosphorylated Ret Tyrosine Kinase
           Domain
 pdb|2IVU|A Chain A, Crystal Structure Of Phosphorylated Ret Tyrosine Kinase
           Domain Complexed With The Inhibitor Zd6474
 pdb|2X2K|A Chain A, Crystal Structure Of Phosphorylated Ret Tyrosine Kinase
           Domain With Inhibitor
 pdb|2X2L|A Chain A, Crystal Structure Of Phosphorylated Ret Tyrosine Kinase
           Domain With Inhibitor
 pdb|2X2M|A Chain A, Crystal Structure Of Phosphorylated Ret Tyrosine Kinase
           Domain With Inhibitor
 pdb|2X2M|B Chain B, Crystal Structure Of Phosphorylated Ret Tyrosine Kinase
           Domain With Inhibitor
          Length = 314

 Score = 30.4 bits (67), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 12/37 (32%), Positives = 21/37 (56%)

Query: 204 WFVVSGFQYLIQMKVFSQGPGSQEIYITESDDIKLSD 240
           W +  G QYL +MK+  +   ++ I + E   +K+SD
Sbjct: 157 WQISQGMQYLAEMKLVHRDLAARNILVAEGRKMKISD 193


>pdb|2IVS|A Chain A, Crystal Structure Of Non-Phosphorylated Ret Tyrosine
           Kinase Domain
 pdb|2IVS|B Chain B, Crystal Structure Of Non-Phosphorylated Ret Tyrosine
           Kinase Domain
          Length = 314

 Score = 30.4 bits (67), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 12/37 (32%), Positives = 21/37 (56%)

Query: 204 WFVVSGFQYLIQMKVFSQGPGSQEIYITESDDIKLSD 240
           W +  G QYL +MK+  +   ++ I + E   +K+SD
Sbjct: 157 WQISQGMQYLAEMKLVHRDLAARNILVAEGRKMKISD 193


  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    0.397 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 40,026,132
Number of Sequences: 62578
Number of extensions: 1633296
Number of successful extensions: 3755
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 3753
Number of HSP's gapped (non-prelim): 11
length of query: 1380
length of database: 14,973,337
effective HSP length: 111
effective length of query: 1269
effective length of database: 8,027,179
effective search space: 10186490151
effective search space used: 10186490151
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: 58 (26.9 bits)