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= psy11419
         (244 letters)

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

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



>pdb|3ZY2|A Chain A, Crystal Structure Of Pofut1 In Complex With Gdp (High
           Resolution Dataset)
 pdb|3ZY3|A Chain A, Crystal Structure Of Pofut1 In Complex With Gdp
           (Crystal-Form-Iii)
 pdb|3ZY3|B Chain B, Crystal Structure Of Pofut1 In Complex With Gdp
           (Crystal-Form-Iii)
 pdb|3ZY4|A Chain A, Crystal Structure Of Pofut1 Apo-Form (Crystal-Form-I)
 pdb|3ZY5|A Chain A, Crystal Structure Of Pofut1 In Complex With Gdp-Fucose
           (Crystal-Form-I)
 pdb|3ZY6|A Chain A, Crystal Structure Of Pofut1 In Complex With Gdp-Fucose
           (Crystal-Form-Ii)
          Length = 362

 Score =  179 bits (454), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 93/247 (37%), Positives = 140/247 (56%), Gaps = 44/247 (17%)

Query: 1   RFGNQADNFLGALALAKGINRTLVLPPWVEYRYGEPKSIQVPFDTYFQVEPLQEYHRVMT 60
           RFGNQ D FLG LA AK ++RTLVLP ++E+++  P++  +PF+  FQV  + +Y RV+T
Sbjct: 19  RFGNQVDQFLGVLAFAKALDRTLVLPNFIEFKH--PETKMIPFEFLFQVGTVAKYTRVVT 76

Query: 61  MEKFMQDIAPHIWPPHKRIAFCYMARGS----TNESSCNAKEGNPFGPFWDTYGIDFVGS 116
           M++F + I P +WPP KR AFC+  R +    + E  C++KEGNPFGP+WD   + FVG 
Sbjct: 77  MQEFTKKIMPTVWPPEKRKAFCWTPRQAIYDKSAEPGCHSKEGNPFGPYWDQIDVSFVGD 136

Query: 117 EFYG--PLHYDVHHSDIAEHWKMRYPSDDWPVSGYCRTMGRTPSLAAIQTLNPLGKKSLS 174
           E++G  P  +D++     + W  ++PS++                               
Sbjct: 137 EYFGDIPGGFDLNQMGSRKKWLEKFPSEE------------------------------- 165

Query: 175 NFQCFPVIAFTGAPGSFPVQDENRVLQKYLVWTEKIANQAKTFIKNKLPAGAYIGIHLRN 234
               +PV+AF+ AP  FP + +   +QKYL W+ +I  QAK FI   L A  ++ +HLRN
Sbjct: 166 ----YPVLAFSSAPAPFPSKGKVWSIQKYLRWSSRITEQAKKFISANL-AKPFVAVHLRN 220

Query: 235 GIDWPRL 241
             DW R+
Sbjct: 221 DADWVRV 227


>pdb|1O4T|A Chain A, Crystal Structure Of A Predicted Oxalate Decarboxylase
           (Tm1287) From Thermotoga Maritima At 1.95 A Resolution
 pdb|1O4T|B Chain B, Crystal Structure Of A Predicted Oxalate Decarboxylase
           (Tm1287) From Thermotoga Maritima At 1.95 A Resolution
          Length = 133

 Score = 30.8 bits (68), Expect = 0.70,   Method: Compositional matrix adjust.
 Identities = 13/38 (34%), Positives = 22/38 (57%)

Query: 198 RVLQKYLVWTEKIANQAKTFIKNKLPAGAYIGIHLRNG 235
            V   +L+  E + N+A+ F + KLP G+ +G+H   G
Sbjct: 40  EVEMAHLLSKEAMHNKARLFARMKLPPGSSVGLHKHEG 77


  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    0.140    0.462 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,253,239
Number of Sequences: 62578
Number of extensions: 358953
Number of successful extensions: 685
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 677
Number of HSP's gapped (non-prelim): 8
length of query: 244
length of database: 14,973,337
effective HSP length: 96
effective length of query: 148
effective length of database: 8,965,849
effective search space: 1326945652
effective search space used: 1326945652
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: 50 (23.9 bits)