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= 012980
         (452 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 = 0.60,   Method: Compositional matrix adjust.
 Identities = 27/110 (24%), Positives = 48/110 (43%), Gaps = 10/110 (9%)

Query: 322 KKMIDSKKLTLEGHFSYKIGNLVMSWFGAKVACLLNYRIVCNTTFTISNI---VGPTEKI 378
           K M+D  ++T+  +F       V  W G +   L+N+ +V      +  I     P    
Sbjct: 24  KLMMDGHEVTVVDNFFTGRKRNVEHWIGHENFELINHDVVEPLYIEVDQIYHLASPASPP 83

Query: 379 TLADNPVAYLRANTSSLPHALTMHMMSYAGRADMQILVA--KDIIPDPEL 426
               NP+  L+ NT       T++M+  A R   ++L+A   ++  DPE+
Sbjct: 84  NYMYNPIKTLKTNTIG-----TLNMLGLAKRVGARLLLASTSEVYGDPEV 128


>pdb|3U0B|A Chain A, Crystal Structure Of An Oxidoreductase From Mycobacterium
           Smegmatis
          Length = 454

 Score = 29.3 bits (64), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 24/86 (27%), Positives = 36/86 (41%), Gaps = 14/86 (16%)

Query: 232 GATINDVLFGVVSSGLSRYLDHRSPNALPEGLR--------------ITGLAMVNIRRQP 277
           G+  +D+   VV+SG   +L  +     PE LR              I G   V    + 
Sbjct: 3   GSMASDLFSQVVNSGPGSFLAKQLGVPQPETLRRYRPGDPPLAGSLLIGGSGRVAEPLRT 62

Query: 278 GLQDLSNLMKSNSGTRWGNKFGMLLL 303
            L D  NL+ +N G RW + FG ++ 
Sbjct: 63  ALADDYNLVSNNIGGRWADSFGGVVF 88


  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
   0.321    0.136    0.408 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,265,904
Number of Sequences: 62578
Number of extensions: 534271
Number of successful extensions: 1102
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1102
Number of HSP's gapped (non-prelim): 5
length of query: 452
length of database: 14,973,337
effective HSP length: 102
effective length of query: 350
effective length of database: 8,590,381
effective search space: 3006633350
effective search space used: 3006633350
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)