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2CBI
Biol. Unit 1
Info
Asym.Unit (399 KB)
Biol.Unit 1 (199 KB)
Biol.Unit 2 (198 KB)
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(1)
Title
:
STRUCTURE OF THE CLOSTRIDIUM PERFRINGENS NAGJ FAMILY 84 GLYCOSIDE HYDROLASE, A HOMOLOGUE OF HUMAN O-GLCNACASE
Authors
:
F. V. Rao, H. C. Dorfmueller, F. Villa, M. Allwood, I. M. Eggleston, D. M. F. Van Aalten
Date
:
04 Jan 06 (Deposition) - 13 Feb 06 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.25
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
O-Glcnac, Family 84 Glycoside Hydrolases, Glycoside Hydrolase, Hyaluronidases, Carbohydrates, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
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)
Reference
:
F. V. Rao, H. C. Dorfmueller, F. Villa, M. Allwood, I. M. Eggleston, D. M. F. Van Aalten
Structural Insights Into The Mechanism And Inhibition Of Eukaryotic O-Glcnac Hydrolysis.
Embo J. V. 25 1569 2006
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Hetero Components
(3, 3)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
2a: GAMMA-BUTYROLACTONE (GBLa)
2b: GAMMA-BUTYROLACTONE (GBLb)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
4a: SULFATE ION (SO4a)
5a: ZINC ION (ZNa)
5b: ZINC ION (ZNb)
5c: ZINC ION (ZNc)
5d: ZINC ION (ZNd)
5e: ZINC ION (ZNe)
5f: ZINC ION (ZNf)
5g: ZINC ION (ZNg)
5h: ZINC ION (ZNh)
5i: ZINC ION (ZNi)
5j: ZINC ION (ZNj)
5k: ZINC ION (ZNk)
View:
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Label:
No.
Name
Count
Type
Full Name
1
CL
-1
Ligand/Ion
CHLORIDE ION
2
GBL
1
Ligand/Ion
GAMMA-BUTYROLACTONE
3
GOL
1
Ligand/Ion
GLYCEROL
4
SO4
1
Ligand/Ion
SULFATE ION
5
ZN
-1
Ligand/Ion
ZINC ION
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Sites
(11, 11)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC5 (SOFTWARE)
04: AC7 (SOFTWARE)
05: AC8 (SOFTWARE)
06: AC9 (SOFTWARE)
07: BC1 (SOFTWARE)
08: BC3 (SOFTWARE)
09: BC5 (SOFTWARE)
10: BC7 (SOFTWARE)
11: BC8 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU A:282 , ASP A:286 , HOH A:2313 , GLU B:96 , ZN B:1632
BINDING SITE FOR RESIDUE SO4 A1625
02
AC2
SOFTWARE
GLN A:161 , ASN A:208 , HIS A:442 , MET A:466 , HOH A:2063
BINDING SITE FOR RESIDUE CL A1626
03
AC5
SOFTWARE
GLU A:118 , GLU B:51 , ASP B:452
BINDING SITE FOR RESIDUE ZN B1627
04
AC7
SOFTWARE
GLU A:96 , GLU B:282 , ASP B:286
BINDING SITE FOR RESIDUE ZN B1631
05
AC8
SOFTWARE
GLU A:282 , ASP A:286 , SO4 A:1625 , GLU B:96
BINDING SITE FOR RESIDUE ZN B1632
06
AC9
SOFTWARE
ASP A:117 , GLU A:145
BINDING SITE FOR RESIDUE ZN B1633
07
BC1
SOFTWARE
GLU A:272 , HIS A:276
BINDING SITE FOR RESIDUE ZN B1634
08
BC3
SOFTWARE
VAL A:546 , GLU A:549 , GLU A:550 , HOH B:2337
BINDING SITE FOR RESIDUE ZN B1636
09
BC5
SOFTWARE
ASP A:297 , VAL A:331 , TYR A:335 , THR A:366 , TRP A:394 , ASN A:396 , GOL A:1628
BINDING SITE FOR RESIDUE GBL A1627
10
BC7
SOFTWARE
GLY A:187 , ASN A:396 , VAL A:399 , ASP A:401 , ASN A:429 , TRP A:490 , GBL A:1627 , HOH A:2050 , LEU B:623
BINDING SITE FOR RESIDUE GOL A1628
11
BC8
SOFTWARE
LEU A:623 , ASN B:396 , ASP B:401 , ASN B:429 , GBL B:1629 , HOH B:2335 , HOH B:2336
BINDING SITE FOR RESIDUE GOL B1630
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(, 0)
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Exons
(0, 0)
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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
(3, 6)
Info
All SCOP Domains
1a: SCOP_d2cbia1 (A:496-624)
1b: SCOP_d2cbib1 (B:496-624)
2a: SCOP_d2cbia3 (A:41-178)
2b: SCOP_d2cbib3 (B:41-178)
3a: SCOP_d2cbia2 (A:179-495)
3b: SCOP_d2cbib2 (B:179-495)
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Protein Domains
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)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Hyaluronidase domain-like
(25)
Superfamily
:
Hyaluronidase post-catalytic domain-like
(20)
Family
:
Hyaluronidase post-catalytic domain-like
(15)
Protein domain
:
Hyaluronidase, post-catalytic domain 3
(7)
Clostridium perfringens [TaxId: 1502]
(7)
1a
d2cbia1
A:496-624
1b
d2cbib1
B:496-624
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Zincin-like
(701)
Superfamily
:
beta-N-acetylhexosaminidase-like domain
(54)
Family
:
Hyaluronidase N-terminal domain-like
(15)
Protein domain
:
Hyaluronidase N-terminal domain
(7)
Clostridium perfringens [TaxId: 1502]
(7)
2a
d2cbia3
A:41-178
2b
d2cbib3
B:41-178
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
(Trans)glycosidases
(1191)
Family
:
alpha-D-glucuronidase/Hyaluronidase catalytic domain
(32)
Protein domain
:
Hyaluronidase catalytic domain
(7)
Clostridium perfringens [TaxId: 1502]
(7)
3a
d2cbia2
A:179-495
3b
d2cbib2
B:179-495
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CATH Domains
(0, 0)
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all CATH domains
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Pfam Domains
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Chain A
Asymmetric Unit 1
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Show PDB file:
Asym.Unit (399 KB)
Header - Asym.Unit
Biol.Unit 1 (199 KB)
Header - Biol.Unit 1
Biol.Unit 2 (198 KB)
Header - Biol.Unit 2
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