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= 018824
         (350 letters)

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

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



>pdb|1TZH|A Chain A, Crystal Structure Of The Fab Yads1 Complexed With H-Vegf
 pdb|1TZH|L Chain L, Crystal Structure Of The Fab Yads1 Complexed With H-Vegf
          Length = 213

 Score = 27.7 bits (60), Expect = 9.5,   Method: Compositional matrix adjust.
 Identities = 42/185 (22%), Positives = 77/185 (41%), Gaps = 26/185 (14%)

Query: 152 YCLVSWAVGLPKRAPIDSKLLKLLIPVAVCHALGHVTSNVSFAAVAVSFTHTIKALEP-- 209
           Y  V+W    P +AP      KLLI  A  +    V S  S +     FT TI +L+P  
Sbjct: 30  YSSVAWYQQKPGKAP------KLLI-YAASYLYSGVPSRFSGSGSGTDFTLTISSLQPED 82

Query: 210 ----FFNAAASQFILGQQLPLTLWLSLAPVVIGVSMASLTELSFNWTGFISAMISN---- 261
               +  ++AS    GQ   + +  ++A   + +   S  +L  + T  +  +++N    
Sbjct: 83  FATYYCQSSASPATFGQGTKVEIKRTVAAPSVFIFPPSDEQLK-SGTASVVCLLNNFYPR 141

Query: 262 -------ISFTYRSIYSKKAMTDMDSTN-IYAYISIIALFVCIPPAIIVEGPQLIKHGLS 313
                  +    +S  S++++T+ DS +  Y+  S + L         V   ++   GLS
Sbjct: 142 EAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLS 201

Query: 314 DAISK 318
             ++K
Sbjct: 202 SPVTK 206


  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
   0.327    0.139    0.427 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,397,955
Number of Sequences: 62578
Number of extensions: 367974
Number of successful extensions: 869
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 868
Number of HSP's gapped (non-prelim): 2
length of query: 350
length of database: 14,973,337
effective HSP length: 100
effective length of query: 250
effective length of database: 8,715,537
effective search space: 2178884250
effective search space used: 2178884250
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 52 (24.6 bits)