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= 003738
         (799 letters)

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

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



>pdb|1HS7|A Chain A, Vam3p N-Terminal Domain Solution Structure
          Length = 97

 Score = 31.6 bits (70), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 18/65 (27%), Positives = 34/65 (52%)

Query: 339 LISREIEKIDVRADAETLRYKYENNTVMDVSSSDATSPLNYQLYGNGKIGVDAPSRGTQN 398
           ++ +E  KI  + D++ LRYK E   + + +S       N  ++ NGK+  D  +  T+ 
Sbjct: 21  VLEKECTKIGSKRDSKELRYKIETELIPNCTSVRDKIESNILIHQNGKLSADFKNLKTKY 80

Query: 399 QLLER 403
           Q L++
Sbjct: 81  QSLQQ 85


>pdb|3DWK|A Chain A, Identification Of Dynamic Structural Motifs Involved In
           Peptidoglycan Glycosyltransfer
 pdb|3DWK|B Chain B, Identification Of Dynamic Structural Motifs Involved In
           Peptidoglycan Glycosyltransfer
 pdb|3DWK|C Chain C, Identification Of Dynamic Structural Motifs Involved In
           Peptidoglycan Glycosyltransfer
 pdb|3DWK|D Chain D, Identification Of Dynamic Structural Motifs Involved In
           Peptidoglycan Glycosyltransfer
          Length = 625

 Score = 30.8 bits (68), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 24/76 (31%), Positives = 37/76 (48%), Gaps = 3/76 (3%)

Query: 292 PQLEAMKLGFDFEGEI-PDEVRTVIVNCLKNPPQLLQAITAYTLRLKTLISREIEKIDVR 350
           P+  A KLG ++EG+I P EV     +   +P QL  A  A         +  I+K+  R
Sbjct: 408 PKKFAAKLGLNYEGDIGPSEVLGGSASEF-SPTQLASAFAAIANGGTYNNAHSIQKVVTR 466

Query: 351 ADAETLRYKYENNTVM 366
            D ET+ Y + ++  M
Sbjct: 467 -DGETIEYDHTSHKAM 481


>pdb|2BW0|A Chain A, Crystal Structure Of The Hydrolase Domain Of Human 10-
           Formyltetrahydrofolate 2 Dehydrogenase
 pdb|2CFI|A Chain A, The Hydrolase Domain Of Human 10-Fthfd In Complex With 6-
           Formyltetrahydropterin
          Length = 329

 Score = 30.4 bits (67), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 11/37 (29%), Positives = 20/37 (54%)

Query: 762 WEQPASTVVDWVTVDGQNVAAWHNHVKQLLAFYDKEL 798
           W+QPA  + +W+  + +   AW    +Q L F++  L
Sbjct: 235 WDQPAEAIHNWIRGNDKVPGAWTEACEQKLTFFNSTL 271


>pdb|1S3I|A Chain A, Crystal Structure Of The N Terminal Hydrolase Domain Of
           10- Formyltetrahydrofolate Dehydrogenase
          Length = 310

 Score = 30.4 bits (67), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 11/37 (29%), Positives = 19/37 (51%)

Query: 762 WEQPASTVVDWVTVDGQNVAAWHNHVKQLLAFYDKEL 798
           W+QPA  + +W+  + +   AW     Q L F++  L
Sbjct: 213 WDQPAEAIHNWIRGNDKVPGAWTEACGQKLTFFNSTL 249


>pdb|3TLX|A Chain A, Crystal Structure Of Pf10_0086, Adenylate Kinase From
           Plasmodium Falciparum
 pdb|3TLX|B Chain B, Crystal Structure Of Pf10_0086, Adenylate Kinase From
           Plasmodium Falciparum
 pdb|3TLX|C Chain C, Crystal Structure Of Pf10_0086, Adenylate Kinase From
           Plasmodium Falciparum
 pdb|3TLX|D Chain D, Crystal Structure Of Pf10_0086, Adenylate Kinase From
           Plasmodium Falciparum
          Length = 243

 Score = 29.3 bits (64), Expect = 8.5,   Method: Composition-based stats.
 Identities = 29/104 (27%), Positives = 44/104 (42%), Gaps = 6/104 (5%)

Query: 387 IGVDAPSRGTQNQLLERQKAHVQQFLATEDALNKAAEAKNLCQKLIKRLHGNGDAISSH- 445
           I + AP  G   Q L  +K+H    L+T D L +AAE K      IK +   G  +    
Sbjct: 33  IFLGAPGSGKGTQSLNLKKSHCYCHLSTGDLLREAAEKKTELGLKIKNIINEGKLVDDQM 92

Query: 446 --SLVGATSQNVGSLRQFQLDVWSKEREAAGLRASLNTVMSEIQ 487
             SLV    +     + F LD + +  + A     LN ++ + Q
Sbjct: 93  VLSLVDEKLKTPQCKKGFILDGYPRNVKQA---EDLNKLLQKNQ 133


  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
   0.314    0.128    0.361 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,914,697
Number of Sequences: 62578
Number of extensions: 803594
Number of successful extensions: 2739
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 2725
Number of HSP's gapped (non-prelim): 24
length of query: 799
length of database: 14,973,337
effective HSP length: 107
effective length of query: 692
effective length of database: 8,277,491
effective search space: 5728023772
effective search space used: 5728023772
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.8 bits)