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(-) Description

Title :  STRUCTURAL INSIGHTS INTO THE PROCESSIVITY OF ENDOPOLYGALACTURONASE I FROM ASPERGILLUS NIGER
 
Authors :  G. Van Pouderoyen, H. J. Snijder, J. A. Benen, B. W. Dijkstra
Date :  19 Dec 02  (Deposition) - 25 Nov 03  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Biol. Unit 5:  E  (1x)
Biol. Unit 6:  F  (1x)
Keywords :  Beta-Helix, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. Van Pouderoyen, H. J. Snijder, J. A. Benen, B. W. Dijkstra
Structural Insights Into The Processivity Of Endopolygalacturonase I From Aspergillus Niger.
Febs Lett. V. 554 462 2003
PubMed-ID: 14623112  |  Reference-DOI: 10.1016/S0014-5793(03)01221-3

(-) Compounds

Molecule 1 - POLYGALACTURONASE I
    Chains: A, B, C, D, E, F
    EC Number: 3.2.1.15
    Engineered: YES
    Expression System: ASPERGILLUS NIGER
    Expression System Taxid: 5061
    Organism Scientific: ASPERGILLUS NIGER
    Organism Taxid: 5061
    Synonym: PG-I, PECTINASE, ENDOPOLYGALACTURONASE I

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): A     
Biological Unit 2 (1x):  B    
Biological Unit 3 (1x):   C   
Biological Unit 4 (1x):    D  
Biological Unit 5 (1x):     E 
Biological Unit 6 (1x):      F

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 46)

Asymmetric Unit (5, 46)
No.NameCountTypeFull Name
1BMA1Ligand/IonBETA-D-MANNOSE
2GOL5Ligand/IonGLYCEROL
3MAN15Ligand/IonALPHA-D-MANNOSE
4NAG9Ligand/IonN-ACETYL-D-GLUCOSAMINE
5SO416Ligand/IonSULFATE ION
Biological Unit 1 (4, 7)
No.NameCountTypeFull Name
1BMA-1Ligand/IonBETA-D-MANNOSE
2GOL1Ligand/IonGLYCEROL
3MAN2Ligand/IonALPHA-D-MANNOSE
4NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE
5SO42Ligand/IonSULFATE ION
Biological Unit 2 (5, 10)
No.NameCountTypeFull Name
1BMA1Ligand/IonBETA-D-MANNOSE
2GOL1Ligand/IonGLYCEROL
3MAN4Ligand/IonALPHA-D-MANNOSE
4NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE
5SO42Ligand/IonSULFATE ION
Biological Unit 3 (3, 7)
No.NameCountTypeFull Name
1BMA-1Ligand/IonBETA-D-MANNOSE
2GOL-1Ligand/IonGLYCEROL
3MAN2Ligand/IonALPHA-D-MANNOSE
4NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE
5SO44Ligand/IonSULFATE ION
Biological Unit 4 (4, 9)
No.NameCountTypeFull Name
1BMA-1Ligand/IonBETA-D-MANNOSE
2GOL1Ligand/IonGLYCEROL
3MAN4Ligand/IonALPHA-D-MANNOSE
4NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE
5SO42Ligand/IonSULFATE ION
Biological Unit 5 (4, 8)
No.NameCountTypeFull Name
1BMA-1Ligand/IonBETA-D-MANNOSE
2GOL1Ligand/IonGLYCEROL
3MAN2Ligand/IonALPHA-D-MANNOSE
4NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE
5SO44Ligand/IonSULFATE ION
Biological Unit 6 (4, 5)
No.NameCountTypeFull Name
1BMA-1Ligand/IonBETA-D-MANNOSE
2GOL1Ligand/IonGLYCEROL
3MAN1Ligand/IonALPHA-D-MANNOSE
4NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE
5SO42Ligand/IonSULFATE ION

(-) Sites  (46, 46)

Asymmetric Unit (46, 46)
No.NameEvidenceResiduesDescription
01AC1SOFTWARESER A:44BINDING SITE FOR RESIDUE MAN A 401
02AC2SOFTWAREPHE A:37 , GLU A:42 , SER A:46BINDING SITE FOR RESIDUE MAN A 402
03AC3SOFTWARETYR A:197 , SER A:217 , ASN A:246 , NAG A:404 , HOH A:2843BINDING SITE FOR RESIDUE NAG A 403
04AC4SOFTWARENAG A:403 , HOH A:2941BINDING SITE FOR RESIDUE NAG A 404
05AC5SOFTWARESER B:44BINDING SITE FOR RESIDUE MAN B 401
06AC6SOFTWAREPHE B:37 , GLU B:42 , SER B:46 , SER E:33BINDING SITE FOR RESIDUE MAN B 402
07AC7SOFTWARESER B:217 , SER B:219 , ASN B:246 , NAG B:404 , HOH B:2871BINDING SITE FOR RESIDUE NAG B 403
08AC8SOFTWARENAG B:403 , BMA B:405 , ASN E:299BINDING SITE FOR RESIDUE NAG B 404
09AC9SOFTWARENAG B:404 , MAN B:406 , GLU E:298 , ASN E:299 , HOH E:2871BINDING SITE FOR RESIDUE BMA B 405
10BC1SOFTWAREBMA B:405 , MAN B:407 , MAN D:408BINDING SITE FOR RESIDUE MAN B 406
11BC2SOFTWAREMAN B:406 , HOH B:2748 , ASN E:299BINDING SITE FOR RESIDUE MAN B 407
12BC3SOFTWAREMAN B:406 , LYS D:358BINDING SITE FOR RESIDUE MAN D 408
13BC4SOFTWARESER C:44BINDING SITE FOR RESIDUE MAN C 401
14BC5SOFTWAREGLU C:42 , SER C:46BINDING SITE FOR RESIDUE MAN C 402
15BC6SOFTWARESER C:217 , ASN C:246 , HOH C:2953 , HOH C:2956BINDING SITE FOR RESIDUE NAG C 403
16BC7SOFTWARESER D:44BINDING SITE FOR RESIDUE MAN D 401
17BC8SOFTWARESER C:51 , PHE D:37 , GLU D:42 , SER D:46 , HOH D:2840 , HOH D:2854 , HOH D:2904 , HOH D:2922BINDING SITE FOR RESIDUE MAN D 402
18BC9SOFTWARESER D:217 , SER D:219 , ASN D:246 , NAG D:404 , HOH D:2769BINDING SITE FOR RESIDUE NAG D 403
19CC1SOFTWARENAG D:403 , MAN D:405BINDING SITE FOR RESIDUE NAG D 404
20CC2SOFTWARELYS B:354 , GLU C:298 , ASN C:299 , HOH C:2918 , HOH C:2969 , NAG D:404BINDING SITE FOR RESIDUE MAN D 405
21CC3SOFTWARESER E:41 , SER E:44 , GOL E:2005BINDING SITE FOR RESIDUE MAN E 401
22CC4SOFTWAREPHE E:37 , GLU E:42 , SER E:46BINDING SITE FOR RESIDUE MAN E 402
23CC5SOFTWARETYR E:197 , SER E:217 , ASN E:246 , HOH E:2857 , HOH E:2883BINDING SITE FOR RESIDUE NAG E 403
24CC6SOFTWAREPHE F:37 , GLU F:42 , SER F:46BINDING SITE FOR RESIDUE MAN F 402
25CC7SOFTWARETYR F:197 , SER F:217 , SER F:219 , ASN F:246 , HOH F:2915BINDING SITE FOR RESIDUE NAG F 403
26CC8SOFTWAREALA A:40 , SER A:41 , PRO A:61 , HOH A:2781BINDING SITE FOR RESIDUE SO4 A 2701
27CC9SOFTWAREALA B:40 , SER B:41 , PRO B:61BINDING SITE FOR RESIDUE SO4 B 2702
28DC1SOFTWAREALA C:40 , SER C:41 , PRO C:61 , HOH C:2789 , HOH C:2943 , HOH C:2951BINDING SITE FOR RESIDUE SO4 C 2703
29DC2SOFTWARESER D:39 , ALA D:40 , SER D:41 , PRO D:61 , HOH D:2767 , HOH D:2909BINDING SITE FOR RESIDUE SO4 D 2704
30DC3SOFTWAREALA E:40 , SER E:41 , PRO E:61 , HOH E:2746 , HOH E:2928 , HOH E:2942 , HOH E:2957BINDING SITE FOR RESIDUE SO4 E 2705
31DC4SOFTWAREALA F:40 , SER F:41 , PRO F:61 , HOH F:2766BINDING SITE FOR RESIDUE SO4 F 2706
32DC5SOFTWAREPHE A:85 , GLY A:86 , TYR A:87 , ARG A:118 , PHE C:85 , GLY C:86 , TYR C:87 , ARG C:118 , HOH C:2736 , HOH C:2739 , HOH C:2753 , HOH C:2755 , HOH C:2770 , HOH C:2785BINDING SITE FOR RESIDUE SO4 C 2707
33DC6SOFTWAREPHE E:85 , GLY E:86 , TYR E:87 , ARG E:118 , HOH E:2749 , HOH E:2752 , HOH E:2759 , HOH E:2773 , HOH E:2774 , HOH E:2804 , PHE F:85 , GLY F:86 , TYR F:87 , ARG F:118BINDING SITE FOR RESIDUE SO4 E 2708
34DC7SOFTWAREASP A:207 , HIS A:229 , ARG A:262 , LYS A:264 , HOH A:2881 , HOH A:2882 , HOH A:2904BINDING SITE FOR RESIDUE SO4 A 2711
35DC8SOFTWAREASP B:207 , HIS B:229 , ARG B:262 , HOH B:2821 , HOH B:2823 , HOH B:2855BINDING SITE FOR RESIDUE SO4 B 2712
36DC9SOFTWAREASP C:207 , HIS C:229 , ARG C:262 , LYS C:264 , HOH C:2851 , HOH C:2853 , HOH C:2942BINDING SITE FOR RESIDUE SO4 C 2713
37EC1SOFTWAREASP D:207 , HIS D:229 , ARG D:262 , HOH D:2765 , HOH D:2780 , HOH D:2785BINDING SITE FOR RESIDUE SO4 D 2714
38EC2SOFTWAREASP E:207 , HIS E:229 , ARG E:262 , LYS E:264 , HOH E:2783 , HOH E:2808 , HOH E:2873BINDING SITE FOR RESIDUE SO4 E 2715
39EC3SOFTWAREASP F:207 , HIS F:229 , ARG F:262 , LYS F:264 , HOH F:2749 , HOH F:2799 , HOH F:2878 , HOH F:2947BINDING SITE FOR RESIDUE SO4 F 2716
40EC4SOFTWAREARG E:96 , HIS E:138 , HOH E:2940BINDING SITE FOR RESIDUE SO4 E 2717
41EC5SOFTWAREARG C:96 , HIS C:138 , HOH C:2892 , HOH C:2930BINDING SITE FOR RESIDUE SO4 C 2718
42EC6SOFTWAREASP A:73 , ARG B:96 , HIS B:138BINDING SITE FOR RESIDUE GOL B 2001
43EC7SOFTWAREARG A:96 , TYR A:136 , HIS A:138 , HOH A:2815 , HOH A:2948BINDING SITE FOR RESIDUE GOL A 2002
44EC8SOFTWAREARG D:96 , TYR D:136 , HIS D:138 , HOH D:2878 , LYS F:100BINDING SITE FOR RESIDUE GOL D 2003
45EC9SOFTWAREARG F:96 , HIS F:138 , HOH F:2824 , HOH F:2904BINDING SITE FOR RESIDUE GOL F 2004
46FC1SOFTWARETHR E:65 , ASP E:67 , ARG E:96 , MAN E:401 , HOH E:2958BINDING SITE FOR RESIDUE GOL E 2005

(-) SS Bonds  (24, 24)

Asymmetric Unit
No.Residues
1A:35 -A:50
2A:209 -A:225
3A:335 -A:340
4A:359 -A:368
5B:35 -B:50
6B:209 -B:225
7B:335 -B:340
8B:359 -B:368
9C:35 -C:50
10C:209 -C:225
11C:335 -C:340
12C:359 -C:368
13D:35 -D:50
14D:209 -D:225
15D:335 -D:340
16D:359 -D:368
17E:35 -E:50
18E:209 -E:225
19E:335 -E:340
20E:359 -E:368
21F:35 -F:50
22F:209 -F:225
23F:335 -F:340
24F:359 -F:368

(-) Cis Peptide Bonds  (12, 12)

Asymmetric Unit
No.Residues
1Gly A:92 -Pro A:93
2Gly A:234 -Ser A:235
3Gly B:92 -Pro B:93
4Gly B:234 -Ser B:235
5Gly C:92 -Pro C:93
6Gly C:234 -Ser C:235
7Gly D:92 -Pro D:93
8Gly D:234 -Ser D:235
9Gly E:92 -Pro E:93
10Gly E:234 -Ser E:235
11Gly F:92 -Pro F:93
12Gly F:234 -Ser F:235

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1NHC)

(-) PROSITE Motifs  (1, 6)

Asymmetric Unit (1, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1POLYGALACTURONASEPS00502 Polygalacturonase active site.PGLR1_ASPNG222-235
 
 
 
 
 		  6A:222-235
B:222-235
C:222-235
D:222-235
E:222-235
F:222-235
Biological Unit 1 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1POLYGALACTURONASEPS00502 Polygalacturonase active site.PGLR1_ASPNG222-235
 
 
 
 
 		  1A:222-235
-
-
-
-
-
Biological Unit 2 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1POLYGALACTURONASEPS00502 Polygalacturonase active site.PGLR1_ASPNG222-235
 
 
 
 
 		  1-
B:222-235
-
-
-
-
Biological Unit 3 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1POLYGALACTURONASEPS00502 Polygalacturonase active site.PGLR1_ASPNG222-235
 
 
 
 
 		  1-
-
C:222-235
-
-
-
Biological Unit 4 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1POLYGALACTURONASEPS00502 Polygalacturonase active site.PGLR1_ASPNG222-235
 
 
 
 
 		  1-
-
-
D:222-235
-
-
Biological Unit 5 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1POLYGALACTURONASEPS00502 Polygalacturonase active site.PGLR1_ASPNG222-235
 
 
 
 
 		  1-
-
-
-
E:222-235
-
Biological Unit 6 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1POLYGALACTURONASEPS00502 Polygalacturonase active site.PGLR1_ASPNG222-235
 
 
 
 
 		  1-
-
-
-
-
F:222-235

(-) Exons   (0, 0)

(no "Exon" information available for 1NHC)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:336
 aligned with PGLR1_ASPNG | P26213 from UniProtKB/Swiss-Prot  Length:368

    Alignment length:336
                                    42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362      
          PGLR1_ASPNG    33 STCTFTSASEASESISSCSDVVLSSIEVPAGETLDLSDAADGSTITFEGTTSFGYKEWKGPLIRFGGKDLTVTMADGAVIDGDGSRWWDSKGTNGGKTKPKFMYIHDVEDSTFKGINIKNTPVQAISVQATNVHLNDFTIDNSDGDDNGGHNTDGFDISESTGVYISGATVKNQDDCIAINSGESISFTGGTCSGGHGLSIGSVGGRDDNTVKNVTISDSTVSNSANGVRIKTIYKETGDVSEITYSNIQLSGITDYGIVIEQDYENGSPTGTPSTGIPITDVTVDGVTGTLEDDATQVYILCGDGSCSDWTWSGVDLSGGKTSDKCENVPSGASC 368
               SCOP domains d1nhca_ A: Polygalacturonase                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains 1nhcA00 A:33-368 Single-stranded right-handed beta-helix, Pectin lyase-like                                                                                                                                                                                                                                                                      CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eee.hhhhhhhhhhhh.eeeee..ee.....ee........eeeee.eeee.........ee..ee..eeee....eee.hhhhh...............eeeeeeeeeeee..eee......eeeeeeeeeee..eee..hhhhhh......eee...eeeeee..eee...eeeee..eeeeeee..eee...eeeeeee......eeeeeeeeeeeee...eeeeeeee.....eeeeeeeeeeeeeee..eeeeeeeeee..ee.........eeeeeeeeeeeee....eeeeee.....eeeeeeeeeeee................. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------POLYGALACTURON------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1nhc A  33 STCTFTSASEASESISSCSDVVLSSIEVPAGETLDLSDAADGSTITFEGTTSFGYKEWKGPLIRFGGKDLTVTMADGAVIDGDGSRWWDSKGTNGGKTKPKFMYIHDVEDSTFKGINIKNTPVQAISVQATNVHLNDFTIDNSDGDDNGGHNTDGFDISESTGVYISGATVKNQDDCIAINSGESISFTGGTCSGGHGLSIGSVGGRDDNTVKNVTISDSTVSNSANGVRIKTIYKETGDVSEITYSNIQLSGITDYGIVIEQDYENGSPTGTPSTGIPITDVTVDGVTGTLEDDATQVYILCGDGSCSDWTWSGVDLSGGKTSDKCENVPSGASC 368
                                    42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362      


Chain B from PDB  Type:PROTEIN  Length:336
 aligned with PGLR1_ASPNG | P26213 from UniProtKB/Swiss-Prot  Length:368

    Alignment length:336
                                    42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362      
          PGLR1_ASPNG    33 STCTFTSASEASESISSCSDVVLSSIEVPAGETLDLSDAADGSTITFEGTTSFGYKEWKGPLIRFGGKDLTVTMADGAVIDGDGSRWWDSKGTNGGKTKPKFMYIHDVEDSTFKGINIKNTPVQAISVQATNVHLNDFTIDNSDGDDNGGHNTDGFDISESTGVYISGATVKNQDDCIAINSGESISFTGGTCSGGHGLSIGSVGGRDDNTVKNVTISDSTVSNSANGVRIKTIYKETGDVSEITYSNIQLSGITDYGIVIEQDYENGSPTGTPSTGIPITDVTVDGVTGTLEDDATQVYILCGDGSCSDWTWSGVDLSGGKTSDKCENVPSGASC 368
               SCOP domains d1nhcb_ B: Polygalacturonase                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains 1nhcB00 B:33-368 Single-stranded right-handed beta-helix, Pectin lyase-like                                                                                                                                                                                                                                                                      CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeee.hhhhhhhhhhhh.eeeee..ee.....ee........eeeee.eeee.........ee..ee..eeee....eee.hhhhh...hhhhh.......eeeeeeeeeeee..eee......eeeeeeeeeee..eee..hhhhhh......eee...eeeeee..eee.....eee..eeeeeee..eee....eeeeee......eeeeeeeeeeeee...eeeeeeee.....eeeeeeeeeeeeeee..eeeeeeeeee..ee.........eeeeeeeeeeeee....eeeeee.....eeeeeeeeeeee................. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------POLYGALACTURON------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1nhc B  33 STCTFTSASEASESISSCSDVVLSSIEVPAGETLDLSDAADGSTITFEGTTSFGYKEWKGPLIRFGGKDLTVTMADGAVIDGDGSRWWDSKGTNGGKTKPKFMYIHDVEDSTFKGINIKNTPVQAISVQATNVHLNDFTIDNSDGDDNGGHNTDGFDISESTGVYISGATVKNQDDCIAINSGESISFTGGTCSGGHGLSIGSVGGRDDNTVKNVTISDSTVSNSANGVRIKTIYKETGDVSEITYSNIQLSGITDYGIVIEQDYENGSPTGTPSTGIPITDVTVDGVTGTLEDDATQVYILCGDGSCSDWTWSGVDLSGGKTSDKCENVPSGASC 368
                                    42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362      


Chain C from PDB  Type:PROTEIN  Length:336
 aligned with PGLR1_ASPNG | P26213 from UniProtKB/Swiss-Prot  Length:368

    Alignment length:336
                                    42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362      
          PGLR1_ASPNG    33 STCTFTSASEASESISSCSDVVLSSIEVPAGETLDLSDAADGSTITFEGTTSFGYKEWKGPLIRFGGKDLTVTMADGAVIDGDGSRWWDSKGTNGGKTKPKFMYIHDVEDSTFKGINIKNTPVQAISVQATNVHLNDFTIDNSDGDDNGGHNTDGFDISESTGVYISGATVKNQDDCIAINSGESISFTGGTCSGGHGLSIGSVGGRDDNTVKNVTISDSTVSNSANGVRIKTIYKETGDVSEITYSNIQLSGITDYGIVIEQDYENGSPTGTPSTGIPITDVTVDGVTGTLEDDATQVYILCGDGSCSDWTWSGVDLSGGKTSDKCENVPSGASC 368
               SCOP domains d1nhcc_ C: Polygalacturonase                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains 1nhcC00 C:33-368 Single-stranded right-handed beta-helix, Pectin lyase-like                                                                                                                                                                                                                                                                      CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eee.hhhhhhhhhhhh.eeeee..ee.....eee.......eeeee.eeee.........eeeeee..eeee....eee.hhhhh...............eeeeeeeeeeee..eee......eeeeeeeeeee..eee..hhhhhh......eee...eeeeee..eee...eeeee..eeeeeee..eee...eeeeeee......eeeeeeeeeeeee...eeeeeeee.....eeeeeeeeeeeeeee..eeeeeeeeee..ee.........eeeeeeeeeeeee....eeeeee.....eeeeeeeeeeee................. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------POLYGALACTURON------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1nhc C  33 STCTFTSASEASESISSCSDVVLSSIEVPAGETLDLSDAADGSTITFEGTTSFGYKEWKGPLIRFGGKDLTVTMADGAVIDGDGSRWWDSKGTNGGKTKPKFMYIHDVEDSTFKGINIKNTPVQAISVQATNVHLNDFTIDNSDGDDNGGHNTDGFDISESTGVYISGATVKNQDDCIAINSGESISFTGGTCSGGHGLSIGSVGGRDDNTVKNVTISDSTVSNSANGVRIKTIYKETGDVSEITYSNIQLSGITDYGIVIEQDYENGSPTGTPSTGIPITDVTVDGVTGTLEDDATQVYILCGDGSCSDWTWSGVDLSGGKTSDKCENVPSGASC 368
                                    42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362      


Chain D from PDB  Type:PROTEIN  Length:336
 aligned with PGLR1_ASPNG | P26213 from UniProtKB/Swiss-Prot  Length:368

    Alignment length:336
                                    42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362      
          PGLR1_ASPNG    33 STCTFTSASEASESISSCSDVVLSSIEVPAGETLDLSDAADGSTITFEGTTSFGYKEWKGPLIRFGGKDLTVTMADGAVIDGDGSRWWDSKGTNGGKTKPKFMYIHDVEDSTFKGINIKNTPVQAISVQATNVHLNDFTIDNSDGDDNGGHNTDGFDISESTGVYISGATVKNQDDCIAINSGESISFTGGTCSGGHGLSIGSVGGRDDNTVKNVTISDSTVSNSANGVRIKTIYKETGDVSEITYSNIQLSGITDYGIVIEQDYENGSPTGTPSTGIPITDVTVDGVTGTLEDDATQVYILCGDGSCSDWTWSGVDLSGGKTSDKCENVPSGASC 368
               SCOP domains d1nhcd_ D: Polygalacturonase                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains 1nhcD00 D:33-368 Single-stranded right-handed beta-helix, Pectin lyase-like                                                                                                                                                                                                                                                                      CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeee.hhhhhhhhhhhh.eeeee..ee.....ee........eeeee.eeee.........ee..ee..eeee....eee.hhhhh...hhhhh.......eeeeeeeeeeee..eee......eeeeeeeeeee..eee..hhhhhh......eee...eeeeee..eee...eeeee..eeeeeee..eee...eeeeeee......eeeeeeeeeeeee...eeeeeeee.....eeeeeeeeeeeeeee..eeeeeeeeee..ee.........eeeeeeeeeeeee....eeeeee.....eeeeeeeeeeee................. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------POLYGALACTURON------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1nhc D  33 STCTFTSASEASESISSCSDVVLSSIEVPAGETLDLSDAADGSTITFEGTTSFGYKEWKGPLIRFGGKDLTVTMADGAVIDGDGSRWWDSKGTNGGKTKPKFMYIHDVEDSTFKGINIKNTPVQAISVQATNVHLNDFTIDNSDGDDNGGHNTDGFDISESTGVYISGATVKNQDDCIAINSGESISFTGGTCSGGHGLSIGSVGGRDDNTVKNVTISDSTVSNSANGVRIKTIYKETGDVSEITYSNIQLSGITDYGIVIEQDYENGSPTGTPSTGIPITDVTVDGVTGTLEDDATQVYILCGDGSCSDWTWSGVDLSGGKTSDKCENVPSGASC 368
                                    42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362      


Chain E from PDB  Type:PROTEIN  Length:336
 aligned with PGLR1_ASPNG | P26213 from UniProtKB/Swiss-Prot  Length:368

    Alignment length:336
                                    42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362      
          PGLR1_ASPNG    33 STCTFTSASEASESISSCSDVVLSSIEVPAGETLDLSDAADGSTITFEGTTSFGYKEWKGPLIRFGGKDLTVTMADGAVIDGDGSRWWDSKGTNGGKTKPKFMYIHDVEDSTFKGINIKNTPVQAISVQATNVHLNDFTIDNSDGDDNGGHNTDGFDISESTGVYISGATVKNQDDCIAINSGESISFTGGTCSGGHGLSIGSVGGRDDNTVKNVTISDSTVSNSANGVRIKTIYKETGDVSEITYSNIQLSGITDYGIVIEQDYENGSPTGTPSTGIPITDVTVDGVTGTLEDDATQVYILCGDGSCSDWTWSGVDLSGGKTSDKCENVPSGASC 368
               SCOP domains d1nhce_ E: Polygalacturonase                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains 1nhcE00 E:33-368 Single-stranded right-handed beta-helix, Pectin lyase-like                                                                                                                                                                                                                                                                      CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eee.hhhhhhhhhhhh.eeeee..ee.....ee........eeeee.eeee.........eeeeee..eeee....eee.hhhhh...............eeeeeeeeeeee..eee......eeeeeeeeeee..eee..hhhhhh......eee...eeeeee..eee...eeeee..eeeeeee..eee...eeeeeee......eeeeeeeeeeeee...eeeeeeee.....eeeeeeeeeeeeeee..eeeeeeeeee..ee.........eeeeeeeeeeeee....eeeeee.....eeeeeeeeeeee................. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------POLYGALACTURON------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1nhc E  33 STCTFTSASEASESISSCSDVVLSSIEVPAGETLDLSDAADGSTITFEGTTSFGYKEWKGPLIRFGGKDLTVTMADGAVIDGDGSRWWDSKGTNGGKTKPKFMYIHDVEDSTFKGINIKNTPVQAISVQATNVHLNDFTIDNSDGDDNGGHNTDGFDISESTGVYISGATVKNQDDCIAINSGESISFTGGTCSGGHGLSIGSVGGRDDNTVKNVTISDSTVSNSANGVRIKTIYKETGDVSEITYSNIQLSGITDYGIVIEQDYENGSPTGTPSTGIPITDVTVDGVTGTLEDDATQVYILCGDGSCSDWTWSGVDLSGGKTSDKCENVPSGASC 368
                                    42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362      


Chain F from PDB  Type:PROTEIN  Length:336
 aligned with PGLR1_ASPNG | P26213 from UniProtKB/Swiss-Prot  Length:368

    Alignment length:336
                                    42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362      
          PGLR1_ASPNG    33 STCTFTSASEASESISSCSDVVLSSIEVPAGETLDLSDAADGSTITFEGTTSFGYKEWKGPLIRFGGKDLTVTMADGAVIDGDGSRWWDSKGTNGGKTKPKFMYIHDVEDSTFKGINIKNTPVQAISVQATNVHLNDFTIDNSDGDDNGGHNTDGFDISESTGVYISGATVKNQDDCIAINSGESISFTGGTCSGGHGLSIGSVGGRDDNTVKNVTISDSTVSNSANGVRIKTIYKETGDVSEITYSNIQLSGITDYGIVIEQDYENGSPTGTPSTGIPITDVTVDGVTGTLEDDATQVYILCGDGSCSDWTWSGVDLSGGKTSDKCENVPSGASC 368
               SCOP domains d1nhcf_ F: Polygalacturonase                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains 1nhcF00 F:33-368 Single-stranded right-handed beta-helix, Pectin lyase-like                                                                                                                                                                                                                                                                      CATH domains
           Pfam domains (1) -----------------Glyco_hydro_28-1nhcF01 F:50-368                                                                                                                                                                                                                                                                                                 Pfam domains (1)
           Pfam domains (2) -----------------Glyco_hydro_28-1nhcF02 F:50-368                                                                                                                                                                                                                                                                                                 Pfam domains (2)
           Pfam domains (3) -----------------Glyco_hydro_28-1nhcF03 F:50-368                                                                                                                                                                                                                                                                                                 Pfam domains (3)
           Pfam domains (4) -----------------Glyco_hydro_28-1nhcF04 F:50-368                                                                                                                                                                                                                                                                                                 Pfam domains (4)
           Pfam domains (5) -----------------Glyco_hydro_28-1nhcF05 F:50-368                                                                                                                                                                                                                                                                                                 Pfam domains (5)
           Pfam domains (6) -----------------Glyco_hydro_28-1nhcF06 F:50-368                                                                                                                                                                                                                                                                                                 Pfam domains (6)
         Sec.struct. author .eeee.hhhhhhhhhhhh.eeeee..ee.....eee.......eeeee.eeee.........eee.ee..eeee....eee.hhhhh...hhhhh.......eeeeeeeeeeee..eee......eeeeeeeeeee..eee..hhhhhh......eee...eeeeee..eee.....eee..eeeeeee..eee....eeeeee......eeeeeeeeeeeee...eeeeeeee.....eeeeeeeeeeeeeee..eeeeeeeeee..ee.........eeeeeeeeeeeee....eeeeee.....eeeeeeeeeeee................. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------POLYGALACTURON------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1nhc F  33 STCTFTSASEASESISSCSDVVLSSIEVPAGETLDLSDAADGSTITFEGTTSFGYKEWKGPLIRFGGKDLTVTMADGAVIDGDGSRWWDSKGTNGGKTKPKFMYIHDVEDSTFKGINIKNTPVQAISVQATNVHLNDFTIDNSDGDDNGGHNTDGFDISESTGVYISGATVKNQDDCIAINSGESISFTGGTCSGGHGLSIGSVGGRDDNTVKNVTISDSTVSNSANGVRIKTIYKETGDVSEITYSNIQLSGITDYGIVIEQDYENGSPTGTPSTGIPITDVTVDGVTGTLEDDATQVYILCGDGSCSDWTWSGVDLSGGKTSDKCENVPSGASC 368
                                    42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 6)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 6)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 6)

Asymmetric Unit
(-)
Clan: Pec_lyase (42)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F   (PGLR1_ASPNG | P26213)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0016798    hydrolase activity, acting on glycosyl bonds    Catalysis of the hydrolysis of any glycosyl bond.
    GO:0004650    polygalacturonase activity    Catalysis of the random hydrolysis of (1->4)-alpha-D-galactosiduronic linkages in pectate and other galacturonans.
biological process
    GO:0005975    carbohydrate metabolic process    The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
    GO:0071555    cell wall organization    A process that results in the assembly, arrangement of constituent parts, or disassembly of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells, maintaining their shape and protecting them from osmotic lysis.
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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 Related Entries

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(-) Related Entries Specified in the PDB File

1czf ASPERGILLUS NIGER ENDOPOLYGALACTURONASE II