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= 036907
         (209 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 = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 31/93 (33%), Positives = 47/93 (50%), Gaps = 15/93 (16%)

Query: 17  VCIEDCYIESGNDLVAVKKGWNHYGIAMARPSSNITMR-RVSGTTPTYSGVGIGSEMSGG 75
           + IE C  ++G+D V +K G +  G  +  PS  I +R  +  +  ++ G+ IGSEMSGG
Sbjct: 249 MLIEKCRFDTGDDSVVIKSGRDADGRRIGVPSEYILVRDNLVISQASHGGLVIGSEMSGG 308

Query: 76  IFNA--------------RTKIDKGRGGNIENI 94
           + N               R K +  RGG +ENI
Sbjct: 309 VRNVVARNNVYMNVERALRLKTNSRRGGYMENI 341


>pdb|1YW1|A Chain A, Structure Of Ytnj From Bacillus Subtilis In Complex With
           Fmn
          Length = 442

 Score = 30.4 bits (67), Expect = 0.77,   Method: Compositional matrix adjust.
 Identities = 18/63 (28%), Positives = 32/63 (50%), Gaps = 2/63 (3%)

Query: 119 DEGRDPKALPKIRGISFVNVVSVNTIKAPVR--AGIIVLAPSVKWQSQFVSGFNSQVFPL 176
           DEGRDP ++    GIS +   +    +   R  A +I +  +V + ++F   ++  V+PL
Sbjct: 257 DEGRDPSSVRIFPGISPIVADTEEEAEKKYREFAELIPIENAVTYLARFFDDYDLSVYPL 316

Query: 177 PCP 179
             P
Sbjct: 317 DEP 319


>pdb|1TVL|A Chain A, Structure Of Ytnj From Bacillus Subtilis
          Length = 454

 Score = 30.4 bits (67), Expect = 0.79,   Method: Compositional matrix adjust.
 Identities = 18/63 (28%), Positives = 32/63 (50%), Gaps = 2/63 (3%)

Query: 119 DEGRDPKALPKIRGISFVNVVSVNTIKAPVR--AGIIVLAPSVKWQSQFVSGFNSQVFPL 176
           DEGRDP ++    GIS +   +    +   R  A +I +  +V + ++F   ++  V+PL
Sbjct: 259 DEGRDPSSVRIFPGISPIVADTEEEAEKKYREFAELIPIENAVTYLARFFDDYDLSVYPL 318

Query: 177 PCP 179
             P
Sbjct: 319 DEP 321


>pdb|1IDJ|A Chain A, Pectin Lyase A
 pdb|1IDJ|B Chain B, Pectin Lyase A
          Length = 359

 Score = 28.1 bits (61), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 14/56 (25%), Positives = 30/56 (53%), Gaps = 3/56 (5%)

Query: 2   SEKMKRKHY---TDLSTNVCIEDCYIESGNDLVAVKKGWNHYGIAMARPSSNITMR 54
           + ++ R+HY   T     V + + YI+  +D  A   G++++GI +   +  +TM+
Sbjct: 171 TARIGRQHYVLGTSADNRVSLTNNYIDGVSDYSATCDGYHYWGIYLDGDADLVTMK 226


  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
   0.319    0.135    0.411 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,501,736
Number of Sequences: 62578
Number of extensions: 265013
Number of successful extensions: 514
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 512
Number of HSP's gapped (non-prelim): 5
length of query: 209
length of database: 14,973,337
effective HSP length: 94
effective length of query: 115
effective length of database: 9,091,005
effective search space: 1045465575
effective search space used: 1045465575
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)