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= 038330
         (223 letters)

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

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



>pdb|3JUR|A Chain A, The Crystal Structure Of A Hyperthermoactive
           Exopolygalacturonase From Thermotoga Maritima
 pdb|3JUR|B Chain B, The Crystal Structure Of A Hyperthermoactive
           Exopolygalacturonase From Thermotoga Maritima
 pdb|3JUR|C Chain C, The Crystal Structure Of A Hyperthermoactive
           Exopolygalacturonase From Thermotoga Maritima
 pdb|3JUR|D Chain D, The Crystal Structure Of A Hyperthermoactive
           Exopolygalacturonase From Thermotoga Maritima
          Length = 448

 Score = 36.2 bits (82), Expect = 0.014,   Method: Compositional matrix adjust.
 Identities = 25/104 (24%), Positives = 43/104 (41%), Gaps = 1/104 (0%)

Query: 5   VCIEDCIIAMGHDAISLKSGWDEYGIAYGRPTTDVHIR-RVLLQXXXXXXXXXXXXXXGG 63
           + IE C    G D++ +KSG D  G   G P+  + +R  +++               GG
Sbjct: 249 MLIEKCRFDTGDDSVVIKSGRDADGRRIGVPSEYILVRDNLVISQASHGGLVIGSEMSGG 308

Query: 64  ISNVQVEKIHLYDSLNGIEFRTTKGRGGYIKQIVISDAELYNIN 107
           + NV        +    +  +T   RGGY++ I   D    N++
Sbjct: 309 VRNVVARNNVYMNVERALRLKTNSRRGGYMENIFFIDNVAVNVS 352


  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    0.139    0.432 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,799,560
Number of Sequences: 62578
Number of extensions: 192909
Number of successful extensions: 245
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 243
Number of HSP's gapped (non-prelim): 5
length of query: 223
length of database: 14,973,337
effective HSP length: 95
effective length of query: 128
effective length of database: 9,028,427
effective search space: 1155638656
effective search space used: 1155638656
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)