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= 032225
         (145 letters)

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

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



>pdb|1ZYO|A Chain A, Crystal Structure Of The Serine Protease Domain Of
           Sesbania Mosaic Virus Polyprotein
          Length = 191

 Score = 29.3 bits (64), Expect = 0.83,   Method: Compositional matrix adjust.
 Identities = 19/89 (21%), Positives = 38/89 (42%), Gaps = 1/89 (1%)

Query: 57  REDLNPDDNPNEKFYAGYNRYRMGGQALEWKQVNIHAWKASGRGQDIHPEAALTQAELHY 116
           R  ++ +D      +   N  R  G A   KQV++  W+ S    D   + A+ +   H 
Sbjct: 33  RTKIDGEDCLLTAHHVWCNSMRPTGLAKAGKQVSVEDWEISMSSSDKMLDFAIVRVPTHV 92

Query: 117 RWEKDIEEKKRLCKKEK-IMEKYGNAASE 144
             +  ++    +C   K ++  YG ++S+
Sbjct: 93  WSKLGVKSTPLVCPSSKDVITCYGGSSSD 121


>pdb|1SG4|A Chain A, Crystal Structure Of Human Mitochondrial Delta3-delta2-
           Enoyl-coa Isomerase
 pdb|1SG4|B Chain B, Crystal Structure Of Human Mitochondrial Delta3-delta2-
           Enoyl-coa Isomerase
 pdb|1SG4|C Chain C, Crystal Structure Of Human Mitochondrial Delta3-delta2-
           Enoyl-coa Isomerase
          Length = 260

 Score = 28.1 bits (61), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 12/39 (30%), Positives = 17/39 (43%)

Query: 7   ILPQVKKGVCGNGSGITGTNRDLRIREDIPKYLLNLDEN 45
           +L     G C  G  +     D RI  D P+Y + L+E 
Sbjct: 99  VLVSAINGACPAGGCLVALTCDYRILADNPRYCIGLNET 137


>pdb|2X42|A Chain A, Structure Of Beta-Glucosidase 3b From Thermotoga
           Neapolitana In Complex With Alpha-D-Glucose
          Length = 721

 Score = 25.8 bits (55), Expect = 8.3,   Method: Compositional matrix adjust.
 Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 1/58 (1%)

Query: 2   RVTLRILPQVKKGVCGNGSGITGTNRDLRIREDIPKYLLNLDENSA-YYDPKIRSMRE 58
           ++ L    Q++    G GSG T     + I E I +  LN DE  A  Y+  I+ MRE
Sbjct: 352 KIALFGTGQIETIKGGTGSGDTHPRYAISILEGIKERGLNFDEELAKTYEDYIKKMRE 409


>pdb|2X40|A Chain A, Structure Of Beta-Glucosidase 3b From Thermotoga
           Neapolitana In Complex With Glycerol
 pdb|2X41|A Chain A, Structure Of Beta-Glucosidase 3b From Thermotoga
           Neapolitana In Complex With Glucose
          Length = 721

 Score = 25.8 bits (55), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 1/58 (1%)

Query: 2   RVTLRILPQVKKGVCGNGSGITGTNRDLRIREDIPKYLLNLDENSA-YYDPKIRSMRE 58
           ++ L    Q++    G GSG T     + I E I +  LN DE  A  Y+  I+ MRE
Sbjct: 352 KIALFGTGQIETIKGGTGSGDTHPRYAISILEGIKERGLNFDEELAKTYEDYIKKMRE 409


>pdb|3UDF|A Chain A, Crystal Structure Of Apo Pbp1a From Acinetobacter
           Baumannii
 pdb|3UDF|B Chain B, Crystal Structure Of Apo Pbp1a From Acinetobacter
           Baumannii
 pdb|3UDI|A Chain A, Crystal Structure Of Acinetobacter Baumannii Pbp1a In
           Complex With Penicillin G
 pdb|3UDI|B Chain B, Crystal Structure Of Acinetobacter Baumannii Pbp1a In
           Complex With Penicillin G
 pdb|3UDX|A Chain A, Crystal Structure Of Acinetobacter Baumannii Pbp1a In
           Complex With Imipenem
 pdb|3UDX|B Chain B, Crystal Structure Of Acinetobacter Baumannii Pbp1a In
           Complex With Imipenem
 pdb|3UE0|A Chain A, Crystal Structure Of Acinetobacter Baumannii Pbp1a In
           Complex With Aztreonam
 pdb|3UE0|B Chain B, Crystal Structure Of Acinetobacter Baumannii Pbp1a In
           Complex With Aztreonam
 pdb|3UE1|A Chain A, Crystal Strucuture Of Acinetobacter Baumanni Pbp1a In
           Complex With Mc- 1
 pdb|3UE1|B Chain B, Crystal Strucuture Of Acinetobacter Baumanni Pbp1a In
           Complex With Mc- 1
          Length = 731

 Score = 25.8 bits (55), Expect = 9.9,   Method: Compositional matrix adjust.
 Identities = 10/28 (35%), Positives = 15/28 (53%)

Query: 51  PKIRSMREDLNPDDNPNEKFYAGYNRYR 78
           PK++     +NP+D   E    GYN Y+
Sbjct: 384 PKVQGQLIAINPNDGSIEAIVGGYNFYQ 411


  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
   0.315    0.134    0.407 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,143,310
Number of Sequences: 62578
Number of extensions: 228024
Number of successful extensions: 335
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 331
Number of HSP's gapped (non-prelim): 10
length of query: 145
length of database: 14,973,337
effective HSP length: 89
effective length of query: 56
effective length of database: 9,403,895
effective search space: 526618120
effective search space used: 526618120
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 47 (22.7 bits)