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= 032800
         (133 letters)

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

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



>pdb|2IUK|A Chain A, Crystal Structure Of Soybean Lipoxygenase-D
 pdb|2IUK|B Chain B, Crystal Structure Of Soybean Lipoxygenase-D
          Length = 864

 Score = 28.5 bits (62), Expect = 1.1,   Method: Composition-based stats.
 Identities = 14/47 (29%), Positives = 22/47 (46%)

Query: 84  ESAREKSQKYKEGKFVLERFIFLSHIVSSNFCKHWVHEESHNVVPAF 130
           E  R      K G+  + R     H+ SS+F  + +   SH+V+P F
Sbjct: 247 ERTRTDPNSEKPGEVYVPRDENFGHLKSSDFLTYGIKSLSHDVIPLF 293


>pdb|2EWF|A Chain A, Crystal Structure Of The Site-specific Dna Nickase
           N.bspd6i
          Length = 610

 Score = 27.7 bits (60), Expect = 1.8,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 27/52 (51%), Gaps = 3/52 (5%)

Query: 55  SEERLMLSGMHTVADIFCCSCGQIVGWKYESAREKSQKYKEGKFVLERFIFL 106
           +E   ML+      D+F     Q+V W+Y S + K ++Y E ++ +   +F+
Sbjct: 99  TEAGKMLANNRRPKDVFL---KQLVKWQYPSFQHKGKEYPEEEWSINPLVFV 147


>pdb|3P2A|A Chain A, Crystal Structure Of Thioredoxin 2 From Yersinia Pestis
 pdb|3P2A|B Chain B, Crystal Structure Of Thioredoxin 2 From Yersinia Pestis
 pdb|3P2A|C Chain C, Crystal Structure Of Thioredoxin 2 From Yersinia Pestis
 pdb|3P2A|D Chain D, Crystal Structure Of Thioredoxin 2 From Yersinia Pestis
          Length = 148

 Score = 27.7 bits (60), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 19/82 (23%), Positives = 33/82 (40%), Gaps = 3/82 (3%)

Query: 16 CKFCRTHLALPEDLVSRAFHCRRGKAYLFNSAVNITVGASEERLMLSGMHTVADIFCCSC 75
          C  C     LPE+ +     C R    LF+  V      + ++L+   +  V D +   C
Sbjct: 8  CTACXATNRLPEERIDDGAKCGRCGHSLFDGEVINATAETLDKLLQDDLPXVIDFWAPWC 67

Query: 76 GQIVGWKY---ESAREKSQKYK 94
          G    +     E+A E++ K +
Sbjct: 68 GPCRSFAPIFAETAAERAGKVR 89


>pdb|3IHP|A Chain A, Covalent Ubiquitin-Usp5 Complex
 pdb|3IHP|B Chain B, Covalent Ubiquitin-Usp5 Complex
          Length = 854

 Score = 26.6 bits (57), Expect = 4.4,   Method: Composition-based stats.
 Identities = 10/28 (35%), Positives = 17/28 (60%)

Query: 92  KYKEGKFVLERFIFLSHIVSSNFCKHWV 119
           K ++G    + F F+SH+ +S  C H+V
Sbjct: 789 KVRDGPGKYQLFAFISHMGTSTMCGHYV 816


  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
   0.328    0.138    0.444 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,675,990
Number of Sequences: 62578
Number of extensions: 124287
Number of successful extensions: 304
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 298
Number of HSP's gapped (non-prelim): 8
length of query: 133
length of database: 14,973,337
effective HSP length: 88
effective length of query: 45
effective length of database: 9,466,473
effective search space: 425991285
effective search space used: 425991285
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 46 (22.3 bits)