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= 004412
         (755 letters)

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

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



>pdb|4EF7|A Chain A, Udp-Xylose Synthase
 pdb|4EF7|B Chain B, Udp-Xylose Synthase
 pdb|4GLL|A Chain A, Crystal Structure Of Human Udp-Xylose Synthase.
 pdb|4GLL|B Chain B, Crystal Structure Of Human Udp-Xylose Synthase
          Length = 337

 Score = 32.3 bits (72), Expect = 0.99,   Method: Compositional matrix adjust.
 Identities = 15/36 (41%), Positives = 24/36 (66%), Gaps = 2/36 (5%)

Query: 708 ACFDK-KRFADSLTTLFQEVQRGLEVRIARIIGDLG 742
           AC+D+ KR A+++   + + Q G+EVR+ARI    G
Sbjct: 146 ACYDEGKRVAETMCYAYMK-QEGVEVRVARIFNTFG 180


>pdb|2DF4|B Chain B, Structure Of Trna-Dependent Amidotransferase Gatcab
           Complexed With Mn2+
 pdb|2DQN|B Chain B, Structure Of Trna-Dependent Amidotransferase Gatcab
           Complexed With Asn
 pdb|2F2A|B Chain B, Structure Of Trna-Dependent Amidotransferase Gatcab
           Complexed With Gln
 pdb|2G5H|B Chain B, Structure Of Trna-Dependent Amidotransferase Gatcab
 pdb|2G5I|B Chain B, Structure Of Trna-dependent Amidotransferase Gatcab
           Complexed With Adp-alf4
 pdb|3IP4|B Chain B, The High Resolution Structure Of Gatcab
          Length = 483

 Score = 30.4 bits (67), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 12/23 (52%), Positives = 16/23 (69%)

Query: 360 HIELKKDSDVFSPLSDYYSAEGN 382
           H+ELK DS +FSP   ++ AE N
Sbjct: 12  HVELKTDSKMFSPSPAHFGAEPN 34


  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
   0.313    0.128    0.350 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,419,007
Number of Sequences: 62578
Number of extensions: 599370
Number of successful extensions: 1648
Number of sequences better than 100.0: 32
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 1617
Number of HSP's gapped (non-prelim): 54
length of query: 755
length of database: 14,973,337
effective HSP length: 106
effective length of query: 649
effective length of database: 8,340,069
effective search space: 5412704781
effective search space used: 5412704781
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 55 (25.8 bits)