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= psy16154
         (105 letters)

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

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



>pdb|1RRV|A Chain A, X-Ray Crystal Structure Of Tdp-Vancosaminyltransferase
          Gtfd As A Complex With Tdp And The Natural Substrate,
          Desvancosaminyl Vancomycin.
 pdb|1RRV|B Chain B, X-Ray Crystal Structure Of Tdp-Vancosaminyltransferase
          Gtfd As A Complex With Tdp And The Natural Substrate,
          Desvancosaminyl Vancomycin
          Length = 416

 Score = 29.3 bits (64), Expect = 0.56,   Method: Composition-based stats.
 Identities = 19/73 (26%), Positives = 31/73 (42%), Gaps = 1/73 (1%)

Query: 8  DRREVESIWQSVCQPPVGYE-LAPLGVPFLPVNRSLSSMRNQGRQKLGRLNEEDFNTLVT 66
          DR +   +   +C PP   E LA +GVP +PV      M  +G        E+    +  
Sbjct: 22 DRLKALGVQTRMCAPPAAEERLAEVGVPHVPVGLPQHMMLQEGMPPPPPEEEQRLAAMTV 81

Query: 67 DIIYIAVQRGSHG 79
          ++ + AV   + G
Sbjct: 82 EMQFDAVPGAAEG 94


>pdb|1ZEE|A Chain A, X-Ray Crystal Structure Of Protein So4414 From Shewanella
           Oneidensis. Northeast Structural Genomics Consortium
           Target Sor52.
 pdb|1ZEE|B Chain B, X-Ray Crystal Structure Of Protein So4414 From Shewanella
           Oneidensis. Northeast Structural Genomics Consortium
           Target Sor52
          Length = 403

 Score = 25.0 bits (53), Expect = 9.8,   Method: Composition-based stats.
 Identities = 14/48 (29%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 27  ELAPLGVPFLPVNRSLSSMRNQGRQKLGRLNEEDFNTLVTDIIYIAVQ 74
           ++ PLG+   P++  L  +  Q  Q +   N++ FN L TD  +  V+
Sbjct: 172 KIQPLGISH-PISHDLLRVTKQALQDVIESNQQLFNRLDTDRFFYCVR 218


  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
   0.322    0.141    0.432 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,188,506
Number of Sequences: 62578
Number of extensions: 109984
Number of successful extensions: 167
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 167
Number of HSP's gapped (non-prelim): 3
length of query: 105
length of database: 14,973,337
effective HSP length: 70
effective length of query: 35
effective length of database: 10,592,877
effective search space: 370750695
effective search space used: 370750695
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: 45 (21.9 bits)