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1NHC
Biol. Unit 1
Info
Asym.Unit (341 KB)
Biol.Unit 1 (62 KB)
Biol.Unit 2 (62 KB)
Biol.Unit 3 (62 KB)
Biol.Unit 4 (62 KB)
Biol.Unit 5 (63 KB)
Biol.Unit 6 (62 KB)
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(1)
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
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Hetero Components
(4, 7)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
3a: ALPHA-D-MANNOSE (MANa)
3b: ALPHA-D-MANNOSE (MANb)
3c: ALPHA-D-MANNOSE (MANc)
3d: ALPHA-D-MANNOSE (MANd)
3e: ALPHA-D-MANNOSE (MANe)
3f: ALPHA-D-MANNOSE (MANf)
3g: ALPHA-D-MANNOSE (MANg)
3h: ALPHA-D-MANNOSE (MANh)
3i: ALPHA-D-MANNOSE (MANi)
3j: ALPHA-D-MANNOSE (MANj)
3k: ALPHA-D-MANNOSE (MANk)
3l: ALPHA-D-MANNOSE (MANl)
3m: ALPHA-D-MANNOSE (MANm)
3n: ALPHA-D-MANNOSE (MANn)
3o: ALPHA-D-MANNOSE (MANo)
4a: N-ACETYL-D-GLUCOSAMINE (NAGa)
4b: N-ACETYL-D-GLUCOSAMINE (NAGb)
4c: N-ACETYL-D-GLUCOSAMINE (NAGc)
4d: N-ACETYL-D-GLUCOSAMINE (NAGd)
4e: N-ACETYL-D-GLUCOSAMINE (NAGe)
4f: N-ACETYL-D-GLUCOSAMINE (NAGf)
4g: N-ACETYL-D-GLUCOSAMINE (NAGg)
4h: N-ACETYL-D-GLUCOSAMINE (NAGh)
4i: N-ACETYL-D-GLUCOSAMINE (NAGi)
5a: SULFATE ION (SO4a)
5b: SULFATE ION (SO4b)
5c: SULFATE ION (SO4c)
5d: SULFATE ION (SO4d)
5e: SULFATE ION (SO4e)
5f: SULFATE ION (SO4f)
5g: SULFATE ION (SO4g)
5h: SULFATE ION (SO4h)
5i: SULFATE ION (SO4i)
5j: SULFATE ION (SO4j)
5k: SULFATE ION (SO4k)
5l: SULFATE ION (SO4l)
5m: SULFATE ION (SO4m)
5n: SULFATE ION (SO4n)
5o: SULFATE ION (SO4o)
5p: SULFATE ION (SO4p)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
-1
Ligand/Ion
BETA-D-MANNOSE
2
GOL
1
Ligand/Ion
GLYCEROL
3
MAN
2
Ligand/Ion
ALPHA-D-MANNOSE
4
NAG
2
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
5
SO4
2
Ligand/Ion
SULFATE ION
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Sites
(9, 9)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: CC8 (SOFTWARE)
6: DC5 (SOFTWARE)
7: DC7 (SOFTWARE)
8: EC6 (SOFTWARE)
9: EC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
SER A:44
BINDING SITE FOR RESIDUE MAN A 401
2
AC2
SOFTWARE
PHE A:37 , GLU A:42 , SER A:46
BINDING SITE FOR RESIDUE MAN A 402
3
AC3
SOFTWARE
TYR A:197 , SER A:217 , ASN A:246 , NAG A:404 , HOH A:2843
BINDING SITE FOR RESIDUE NAG A 403
4
AC4
SOFTWARE
NAG A:403 , HOH A:2941
BINDING SITE FOR RESIDUE NAG A 404
5
CC8
SOFTWARE
ALA A:40 , SER A:41 , PRO A:61 , HOH A:2781
BINDING SITE FOR RESIDUE SO4 A 2701
6
DC5
SOFTWARE
PHE 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:2785
BINDING SITE FOR RESIDUE SO4 C 2707
7
DC7
SOFTWARE
ASP A:207 , HIS A:229 , ARG A:262 , LYS A:264 , HOH A:2881 , HOH A:2882 , HOH A:2904
BINDING SITE FOR RESIDUE SO4 A 2711
8
EC6
SOFTWARE
ASP A:73 , ARG B:96 , HIS B:138
BINDING SITE FOR RESIDUE GOL B 2001
9
EC7
SOFTWARE
ARG A:96 , TYR A:136 , HIS A:138 , HOH A:2815 , HOH A:2948
BINDING SITE FOR RESIDUE GOL A 2002
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: POLYGALACTURONASE (A:222-235)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
POLYGALACTURONASE
PS00502
Polygalacturonase active site.
PGLR1_ASPNG
222-235
1
A:222-235
-
-
-
-
-
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 6)
Info
All SCOP Domains
1a: SCOP_d1nhca_ (A:)
1b: SCOP_d1nhcb_ (B:)
1c: SCOP_d1nhcc_ (C:)
1d: SCOP_d1nhcd_ (D:)
1e: SCOP_d1nhce_ (E:)
1f: SCOP_d1nhcf_ (F:)
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Protein Domains
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)
Organisms
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)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Single-stranded right-handed beta-helix
(140)
Superfamily
:
Pectin lyase-like
(89)
Family
:
Galacturonase
(11)
Protein domain
:
Polygalacturonase
(9)
Fungus (Aspergillus niger), endo-polygalacturonase I [TaxId: 5061]
(1)
1a
d1nhca_
A:
1b
d1nhcb_
B:
1c
d1nhcc_
C:
1d
d1nhcd_
D:
1e
d1nhce_
E:
1f
d1nhcf_
F:
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CATH Domains
(1, 6)
Info
all CATH domains
1a: CATH_1nhcA00 (A:33-368)
1b: CATH_1nhcB00 (B:33-368)
1c: CATH_1nhcC00 (C:33-368)
1d: CATH_1nhcD00 (D:33-368)
1e: CATH_1nhcE00 (E:33-368)
1f: CATH_1nhcF00 (F:33-368)
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Topologies
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Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
3 Solenoid
(196)
Topology
:
Pectate Lyase C-like
(105)
Homologous Superfamily
:
Single-stranded right-handed beta-helix, Pectin lyase-like
(73)
Aspergillus niger. Organism_taxid: 5061.
(3)
1a
1nhcA00
A:33-368
1b
1nhcB00
B:33-368
1c
1nhcC00
C:33-368
1d
1nhcD00
D:33-368
1e
1nhcE00
E:33-368
1f
1nhcF00
F:33-368
[
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Pfam Domains
(1, 6)
Info
all PFAM domains
1a: PFAM_Glyco_hydro_28_1nhcF01 (F:50-368)
1b: PFAM_Glyco_hydro_28_1nhcF02 (F:50-368)
1c: PFAM_Glyco_hydro_28_1nhcF03 (F:50-368)
1d: PFAM_Glyco_hydro_28_1nhcF04 (F:50-368)
1e: PFAM_Glyco_hydro_28_1nhcF05 (F:50-368)
1f: PFAM_Glyco_hydro_28_1nhcF06 (F:50-368)
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Organisms
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)
Clan
:
Pec_lyase
(42)
Family
:
Glyco_hydro_28
(6)
Aspergillus niger
(1)
1a
Glyco_hydro_28-1nhcF01
F:50-368
1b
Glyco_hydro_28-1nhcF02
F:50-368
1c
Glyco_hydro_28-1nhcF03
F:50-368
1d
Glyco_hydro_28-1nhcF04
F:50-368
1e
Glyco_hydro_28-1nhcF05
F:50-368
1f
Glyco_hydro_28-1nhcF06
F:50-368
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