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= 006927
         (625 letters)

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

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



>pdb|3NJX|A Chain A, Rhamnogalacturonan Lyase From Aspergillus Aculeatus Mutant
           H210a
          Length = 508

 Score = 37.7 bits (86), Expect = 0.022,   Method: Compositional matrix adjust.
 Identities = 56/242 (23%), Positives = 92/242 (38%), Gaps = 34/242 (14%)

Query: 359 QFWTTTDADGFFSISDILVGDYNLYAFVPGFIGDYRNDVVLTITEDSDIDMGDLVFEPIR 418
           Q+WT T + G F+   +  G Y +  +     G+Y      ++T  +       +   ++
Sbjct: 283 QYWTYTSSSGSFTSPAMKPGTYTMVYYQ----GEYA-VATSSVTVSAGSTTTKNISGSVK 337

Query: 419 DGPTLWEIGIPSRSAAEFYIPDPDPTYVNKLYVNHPDRFRQYGLWERYSDLYPEGDLVYT 478
            G T+++IG       E+   D  PT     + N  ++ R +    R S   P   L YT
Sbjct: 338 TGTTIFKIG-------EW---DGQPT----GFRNAANQLRMHPSDSRMSSWGP---LTYT 380

Query: 479 VGVSDYKNDWFYAQVPRKKDDNSYEATTWQIKFKLDSVDQNA-TYKLRIALATANVAELQ 537
           VG S   +   +     K  +N        IKF   S    A T ++   L+ A     Q
Sbjct: 381 VGSSALTD---FPMAVFKSVNNPVT-----IKFTATSAQTGAATLRIGTTLSFAG-GRPQ 431

Query: 538 VRVNDEKAEPPLFATGQIGHDNAIARHGIHGLYRLYSMDVPAANLAAGENTIFLKQATSS 597
             +N      P   T        + R    GL  +Y + +P+  + AG NTI +   + S
Sbjct: 432 ATINSYTGSAPAAPTNL--DSRGVTRGAYRGLGEVYDVSIPSGTIVAGTNTITINVISGS 489

Query: 598 SA 599
           S 
Sbjct: 490 SG 491


>pdb|2XHN|A Chain A, Rhamnogalacturonan Lyase From Aspergillus Aculeatus K150a
           Active Site Mutant
 pdb|2XHN|B Chain B, Rhamnogalacturonan Lyase From Aspergillus Aculeatus K150a
           Active Site Mutant
 pdb|3NJV|A Chain A, Rhamnogalacturonan Lyase From Aspergillus Aculeatus K150a
           Substrate Complex
          Length = 508

 Score = 37.4 bits (85), Expect = 0.023,   Method: Compositional matrix adjust.
 Identities = 56/242 (23%), Positives = 92/242 (38%), Gaps = 34/242 (14%)

Query: 359 QFWTTTDADGFFSISDILVGDYNLYAFVPGFIGDYRNDVVLTITEDSDIDMGDLVFEPIR 418
           Q+WT T + G F+   +  G Y +  +     G+Y      ++T  +       +   ++
Sbjct: 283 QYWTYTSSSGSFTSPAMKPGTYTMVYYQ----GEYA-VATSSVTVSAGSTTTKNISGSVK 337

Query: 419 DGPTLWEIGIPSRSAAEFYIPDPDPTYVNKLYVNHPDRFRQYGLWERYSDLYPEGDLVYT 478
            G T+++IG       E+   D  PT     + N  ++ R +    R S   P   L YT
Sbjct: 338 TGTTIFKIG-------EW---DGQPT----GFRNAANQLRMHPSDSRMSSWGP---LTYT 380

Query: 479 VGVSDYKNDWFYAQVPRKKDDNSYEATTWQIKFKLDSVDQNA-TYKLRIALATANVAELQ 537
           VG S   +   +     K  +N        IKF   S    A T ++   L+ A     Q
Sbjct: 381 VGSSALTD---FPMAVFKSVNNPVT-----IKFTATSAQTGAATLRIGTTLSFAG-GRPQ 431

Query: 538 VRVNDEKAEPPLFATGQIGHDNAIARHGIHGLYRLYSMDVPAANLAAGENTIFLKQATSS 597
             +N      P   T        + R    GL  +Y + +P+  + AG NTI +   + S
Sbjct: 432 ATINSYTGSAPAAPTNL--DSRGVTRGAYRGLGEVYDVSIPSGTIVAGTNTITINVISGS 489

Query: 598 SA 599
           S 
Sbjct: 490 SG 491


>pdb|1NKG|A Chain A, Rhamnogalacturonan Lyase From Aspergillus Aculeatus
          Length = 508

 Score = 37.4 bits (85), Expect = 0.025,   Method: Compositional matrix adjust.
 Identities = 56/242 (23%), Positives = 92/242 (38%), Gaps = 34/242 (14%)

Query: 359 QFWTTTDADGFFSISDILVGDYNLYAFVPGFIGDYRNDVVLTITEDSDIDMGDLVFEPIR 418
           Q+WT T + G F+   +  G Y +  +     G+Y      ++T  +       +   ++
Sbjct: 283 QYWTYTSSSGSFTSPAMKPGTYTMVYYQ----GEYA-VATSSVTVSAGSTTTKNISGSVK 337

Query: 419 DGPTLWEIGIPSRSAAEFYIPDPDPTYVNKLYVNHPDRFRQYGLWERYSDLYPEGDLVYT 478
            G T+++IG       E+   D  PT     + N  ++ R +    R S   P   L YT
Sbjct: 338 TGTTIFKIG-------EW---DGQPT----GFRNAANQLRMHPSDSRMSSWGP---LTYT 380

Query: 479 VGVSDYKNDWFYAQVPRKKDDNSYEATTWQIKFKLDSVDQNA-TYKLRIALATANVAELQ 537
           VG S   +   +     K  +N        IKF   S    A T ++   L+ A     Q
Sbjct: 381 VGSSALTD---FPMAVFKSVNNPVT-----IKFTATSAQTGAATLRIGTTLSFAG-GRPQ 431

Query: 538 VRVNDEKAEPPLFATGQIGHDNAIARHGIHGLYRLYSMDVPAANLAAGENTIFLKQATSS 597
             +N      P   T        + R    GL  +Y + +P+  + AG NTI +   + S
Sbjct: 432 ATINSYTGSAPAAPTNL--DSRGVTRGAYRGLGEVYDVSIPSGTIVAGTNTITINVISGS 489

Query: 598 SA 599
           S 
Sbjct: 490 SG 491


  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
   0.317    0.136    0.424 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,830,917
Number of Sequences: 62578
Number of extensions: 959331
Number of successful extensions: 1698
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1692
Number of HSP's gapped (non-prelim): 7
length of query: 625
length of database: 14,973,337
effective HSP length: 105
effective length of query: 520
effective length of database: 8,402,647
effective search space: 4369376440
effective search space used: 4369376440
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)