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= 039275
         (153 letters)

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

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



>pdb|3H2I|A Chain A, Crystal Structure Of N228w Mutant Of The Rice Cell Wall
           Degrading Esterase Lipa From Xanthomonas Oryzae
          Length = 397

 Score = 28.1 bits (61), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 5/55 (9%)

Query: 80  RDPVSCKAMISGYSQAGRFNEALEPFGKLESLGVHTDEVTMVVVLAASSGPGALD 134
           + P+S K M+SGYSQ G    A +       +  H  +   +V  A  SGP AL+
Sbjct: 163 KTPLSGKVMLSGYSQGGHTAMATQ-----REIEAHLSKEFHLVASAPISGPYALE 212


>pdb|3H2H|A Chain A, Crystal Structure Of G231f Mutant Of The Rice Cell Wall
           Degrading Esterase Lipa From Xanthomonas Oryzae
          Length = 397

 Score = 28.1 bits (61), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 5/55 (9%)

Query: 80  RDPVSCKAMISGYSQAGRFNEALEPFGKLESLGVHTDEVTMVVVLAASSGPGALD 134
           + P+S K M+SGYSQ G    A +       +  H  +   +V  A  SGP AL+
Sbjct: 163 KTPLSGKVMLSGYSQGGHTAMATQ-----REIEAHLSKEFHLVASAPISGPYALE 212


>pdb|3H2G|A Chain A, Crystal Structure Of A Rice Cell Wall Degrading Esterase
           Lipa From Xanthomonas Oryzae
 pdb|3H2J|A Chain A, Crystal Structure Of The Rice Cell Wall Degrading Esterase
           Lipa From Xanthomonas Oryzae
 pdb|3H2K|A Chain A, Crystal Structure Of A Ligand-Bound Form Of The Rice Cell
           Wall Degrading Esterase Lipa From Xanthomonas Oryzae
          Length = 397

 Score = 28.1 bits (61), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 5/55 (9%)

Query: 80  RDPVSCKAMISGYSQAGRFNEALEPFGKLESLGVHTDEVTMVVVLAASSGPGALD 134
           + P+S K M+SGYSQ G    A +       +  H  +   +V  A  SGP AL+
Sbjct: 163 KTPLSGKVMLSGYSQGGHTAMATQ-----REIEAHLSKEFHLVASAPISGPYALE 212


>pdb|3VI3|A Chain A, Crystal Structure Of Alpha5beta1 Integrin Headpiece
           (Ligand-Free Form)
 pdb|3VI3|C Chain C, Crystal Structure Of Alpha5beta1 Integrin Headpiece
           (Ligand-Free Form)
 pdb|3VI4|A Chain A, Crystal Structure Of Alpha5beta1 Integrin Headpiece In
           Complex With Rgd Peptide
 pdb|3VI4|C Chain C, Crystal Structure Of Alpha5beta1 Integrin Headpiece In
           Complex With Rgd Peptide
          Length = 632

 Score = 28.1 bits (61), Expect = 2.1,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 25/61 (40%), Gaps = 8/61 (13%)

Query: 89  ISGYSQAGRFNEALEPFGKLESLGVHT--------DEVTMVVVLAASSGPGALDFGKSNI 140
           ++G+ + GRF  +L P G L+  G +          E    VV     GPG L    S +
Sbjct: 342 LTGHDEFGRFGSSLTPLGDLDQDGYNDVAIGAPFGGETQQGVVFVFPGGPGGLGSKPSQV 401

Query: 141 F 141
            
Sbjct: 402 L 402



 Score = 26.2 bits (56), Expect = 7.2,   Method: Composition-based stats.
 Identities = 15/52 (28%), Positives = 22/52 (42%), Gaps = 8/52 (15%)

Query: 2   ISGYSQAGRFNEALEPFGKLESLGVHT--------DEVTMVVVLTASSGPGA 45
           ++G+ + GRF  +L P G L+  G +          E    VV     GPG 
Sbjct: 342 LTGHDEFGRFGSSLTPLGDLDQDGYNDVAIGAPFGGETQQGVVFVFPGGPGG 393


  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    0.133    0.378 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,032,490
Number of Sequences: 62578
Number of extensions: 130887
Number of successful extensions: 241
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 238
Number of HSP's gapped (non-prelim): 7
length of query: 153
length of database: 14,973,337
effective HSP length: 90
effective length of query: 63
effective length of database: 9,341,317
effective search space: 588502971
effective search space used: 588502971
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: 47 (22.7 bits)