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= 023233
         (285 letters)

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

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



>pdb|1M6B|A Chain A, Structure Of The Her3 (Erbb3) Extracellular Domain
 pdb|1M6B|B Chain B, Structure Of The Her3 (Erbb3) Extracellular Domain
          Length = 621

 Score = 29.3 bits (64), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 20/64 (31%), Positives = 29/64 (45%), Gaps = 5/64 (7%)

Query: 221 KLFQVSLTGENGVRVEAA-AVCHMDTSQWN---RDHASFRVLKIEPGTSPVCHFLPVDNL 276
           +L Q++     GV +E    +CHMDT  W    RD  +  V+K    + P CH +     
Sbjct: 116 RLTQLTEILSGGVYIEKNDKLCHMDTIDWRDIVRDRDAEIVVKDNGRSCPPCHEV-CKGR 174

Query: 277 VWVP 280
            W P
Sbjct: 175 CWGP 178


>pdb|3P11|A Chain A, Anti-EgfrHER3 FAB DL11 IN COMPLEX WITH DOMAINS I-Iii Of
           The Her3 Extracellular Region
          Length = 522

 Score = 29.3 bits (64), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 20/64 (31%), Positives = 29/64 (45%), Gaps = 5/64 (7%)

Query: 221 KLFQVSLTGENGVRVEAA-AVCHMDTSQWN---RDHASFRVLKIEPGTSPVCHFLPVDNL 276
           +L Q++     GV +E    +CHMDT  W    RD  +  V+K    + P CH +     
Sbjct: 116 RLTQLTEILSGGVYIEKNDKLCHMDTIDWRDIVRDRDAEIVVKDNGRSCPPCHEV-CKGR 174

Query: 277 VWVP 280
            W P
Sbjct: 175 CWGP 178


>pdb|2F82|A Chain A, Hmg-Coa Synthase From Brassica Juncea In The Apo-Form
 pdb|2F9A|A Chain A, Hmg-Coa Synthase From Brassica Juncea In Complex With
           F-244
 pdb|2FA0|A Chain A, Hmg-coa Synthase From Brassica Juncea In Complex With
           Hmg-coa And Covalently Bound To Hmg-coa
          Length = 450

 Score = 27.3 bits (59), Expect = 9.2,   Method: Compositional matrix adjust.
 Identities = 27/88 (30%), Positives = 40/88 (45%), Gaps = 3/88 (3%)

Query: 66  SDLKIGKSLPIYFSYKDPSTSPHLLPRDEANSIPFSSSELPYLLEFFSFSKDSHQAEAMK 125
           SDL  GK + + FSY   ST+     R   N  PFS S +  +++     K  H+    K
Sbjct: 344 SDL-AGKRV-VMFSYGSGSTATMFSLRLCENQSPFSLSNIASVMDVGGKLKARHEYAPEK 401

Query: 126 YTLTQCELQPLKGETKFCATSLESMLDF 153
           +  T   ++   G  +F  TS E +LD 
Sbjct: 402 FVETMKLMEHRYGAKEF-VTSKEGILDL 428


>pdb|2FA3|A Chain A, Hmg-Coa Synthase From Brassica Juncea In Complex With
           Acetyl-Coa And Acetyl-Cys117
          Length = 450

 Score = 27.3 bits (59), Expect = 9.6,   Method: Compositional matrix adjust.
 Identities = 27/88 (30%), Positives = 40/88 (45%), Gaps = 3/88 (3%)

Query: 66  SDLKIGKSLPIYFSYKDPSTSPHLLPRDEANSIPFSSSELPYLLEFFSFSKDSHQAEAMK 125
           SDL  GK + + FSY   ST+     R   N  PFS S +  +++     K  H+    K
Sbjct: 344 SDL-AGKRV-VMFSYGSGSTATMFSLRLCENQSPFSLSNIASVMDVGGKLKARHEYAPEK 401

Query: 126 YTLTQCELQPLKGETKFCATSLESMLDF 153
           +  T   ++   G  +F  TS E +LD 
Sbjct: 402 FVETMKLMEHRYGAKEF-VTSKEGILDL 428


  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
   0.320    0.134    0.403 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,912,061
Number of Sequences: 62578
Number of extensions: 301934
Number of successful extensions: 608
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: 608
Number of HSP's gapped (non-prelim): 8
length of query: 285
length of database: 14,973,337
effective HSP length: 98
effective length of query: 187
effective length of database: 8,840,693
effective search space: 1653209591
effective search space used: 1653209591
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)