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= 040730
         (144 letters)

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

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



>pdb|4EBY|A Chain A, Crystal Structure Of The Ectodomain Of A Receptor Like
           Kinase
 pdb|4EBZ|A Chain A, Crystal Structure Of The Ectodomain Of A Receptor Like
           Kinase
          Length = 212

 Score = 27.3 bits (59), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 25/116 (21%), Positives = 53/116 (45%), Gaps = 6/116 (5%)

Query: 23  SLVKVPISCPCIDGIRHSKSTTNNVRPADTIDSI-LNGFGGLVSAEQINSTSELSH---P 78
           S V VP  C C  G     + + +VR  DT + + ++ +  L + E + + +       P
Sbjct: 59  SRVLVPFPCECQPGDFLGHNFSYSVRQEDTYERVAISNYANLTTMESLQARNPFPATNIP 118

Query: 79  VNDWTKLMIMLPCTCFNNGNNGVTSIYKSYVVQWGESPSSVGSKFGVTMAELVATN 134
           ++    L +++ C+C +   +    ++ +Y ++  +S SS+    GV+   L   N
Sbjct: 119 LS--ATLNVLVNCSCGDESVSKDFGLFVTYPLRPEDSLSSIARSSGVSADILQRYN 172


  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
   0.313    0.129    0.380 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,929,904
Number of Sequences: 62578
Number of extensions: 145392
Number of successful extensions: 206
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 206
Number of HSP's gapped (non-prelim): 2
length of query: 144
length of database: 14,973,337
effective HSP length: 89
effective length of query: 55
effective length of database: 9,403,895
effective search space: 517214225
effective search space used: 517214225
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 46 (22.3 bits)