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= psy8611
         (280 letters)

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

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



>pdb|1SMV|A Chain A, Primary Structure Of Sesbania Mosaic Virus Coat Protein:
           Its Implications To The Assembly And Architecture Of The
           Virus
 pdb|1SMV|B Chain B, Primary Structure Of Sesbania Mosaic Virus Coat Protein:
           Its Implications To The Assembly And Architecture Of The
           Virus
 pdb|1SMV|C Chain C, Primary Structure Of Sesbania Mosaic Virus Coat Protein:
           Its Implications To The Assembly And Architecture Of The
           Virus
          Length = 266

 Score = 30.8 bits (68), Expect = 0.80,   Method: Compositional matrix adjust.
 Identities = 23/70 (32%), Positives = 34/70 (48%), Gaps = 4/70 (5%)

Query: 60  SNTEEHASVSRVVSTLGELYE--RTEGVYAAEAGADLNILAELF--RDYVCLIAAVKDTF 115
           S+T    S +  VS LG+ +   +T   YA   G D+NI  +L   R  + L+     T 
Sbjct: 183 SDTSTAISTTLDVSELGKKWYPYKTSADYATAVGVDVNIATDLVPARLVIALLDGSSSTA 242

Query: 116 HARGKIYQTW 125
            A G+IY T+
Sbjct: 243 VAAGRIYDTY 252


>pdb|1GKJ|A Chain A, Histidine Ammonia-Lyase (Hal) Mutant Y280f From
           Pseudomonas Putida
          Length = 507

 Score = 29.3 bits (64), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 20/56 (35%), Positives = 28/56 (50%), Gaps = 1/56 (1%)

Query: 35  VEALALARRDLSVYSAHLAKSLALVSNTEEHASVSRVVST-LGELYERTEGVYAAE 89
           V A ALA  + ++   H   SL   +N E+H S++      L E+ E T GV A E
Sbjct: 384 VTAAALASENKALSHPHSVDSLPTSANQEDHVSMAPAAGKRLWEMAENTRGVLAIE 439


>pdb|1GKM|A Chain A, Histidine Ammonia-Lyase (Hal) From Pseudomonas Putida
           Inhibited With L-Cysteine
 pdb|1B8F|A Chain A, Histidine Ammonia-Lyase (Hal) From Pseudomonas Putida
          Length = 507

 Score = 29.3 bits (64), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 20/56 (35%), Positives = 28/56 (50%), Gaps = 1/56 (1%)

Query: 35  VEALALARRDLSVYSAHLAKSLALVSNTEEHASVSRVVST-LGELYERTEGVYAAE 89
           V A ALA  + ++   H   SL   +N E+H S++      L E+ E T GV A E
Sbjct: 384 VTAAALASENKALSHPHSVDSLPTSANQEDHVSMAPAAGKRLWEMAENTRGVLAIE 439


>pdb|1GK2|A Chain A, Histidine Ammonia-Lyase (Hal) Mutant F329g From
           Pseudomonas Putida
 pdb|1GK2|B Chain B, Histidine Ammonia-Lyase (Hal) Mutant F329g From
           Pseudomonas Putida
 pdb|1GK2|C Chain C, Histidine Ammonia-Lyase (Hal) Mutant F329g From
           Pseudomonas Putida
 pdb|1GK2|D Chain D, Histidine Ammonia-Lyase (Hal) Mutant F329g From
           Pseudomonas Putida
          Length = 509

 Score = 29.3 bits (64), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 20/56 (35%), Positives = 28/56 (50%), Gaps = 1/56 (1%)

Query: 35  VEALALARRDLSVYSAHLAKSLALVSNTEEHASVSRVVST-LGELYERTEGVYAAE 89
           V A ALA  + ++   H   SL   +N E+H S++      L E+ E T GV A E
Sbjct: 386 VTAAALASENKALSHPHSVDSLPTSANQEDHVSMAPAAGKRLWEMAENTRGVLAIE 441


>pdb|1EB4|A Chain A, Histidine Ammonia-Lyase (Hal) Mutant F329a From
           Pseudomonas Putida
          Length = 507

 Score = 29.3 bits (64), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 20/56 (35%), Positives = 28/56 (50%), Gaps = 1/56 (1%)

Query: 35  VEALALARRDLSVYSAHLAKSLALVSNTEEHASVSRVVST-LGELYERTEGVYAAE 89
           V A ALA  + ++   H   SL   +N E+H S++      L E+ E T GV A E
Sbjct: 384 VTAAALASENKALSHPHSVDSLPTSANQEDHVSMAPAAGKRLWEMAENTRGVLAIE 439


>pdb|1GK3|A Chain A, Histidine Ammonia-Lyase (Hal) Mutant D145a From
           Pseudomonas Putida
          Length = 509

 Score = 29.3 bits (64), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 20/56 (35%), Positives = 28/56 (50%), Gaps = 1/56 (1%)

Query: 35  VEALALARRDLSVYSAHLAKSLALVSNTEEHASVSRVVST-LGELYERTEGVYAAE 89
           V A ALA  + ++   H   SL   +N E+H S++      L E+ E T GV A E
Sbjct: 386 VTAAALASENKALSHPHSVDSLPTSANQEDHVSMAPAAGKRLWEMAENTRGVLAIE 441


  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
   0.319    0.132    0.376 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,973,666
Number of Sequences: 62578
Number of extensions: 245054
Number of successful extensions: 758
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 755
Number of HSP's gapped (non-prelim): 9
length of query: 280
length of database: 14,973,337
effective HSP length: 98
effective length of query: 182
effective length of database: 8,840,693
effective search space: 1609006126
effective search space used: 1609006126
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)