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1DBG
Asym. Unit
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Asym.Unit (92 KB)
Biol.Unit 1 (88 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF CHONDROITINASE B
Authors
:
W. Huang, A. Matte, Y. Li, Y. S. Kim, R. J. Linhardt, H. Su, M. Cygler
Date
:
02 Nov 99 (Deposition) - 12 Jan 00 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.70
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Beta Helix, Polysaccharide Lyase, Dematan Sulfate
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
W. Huang, A. Matte, Y. Li, Y. S. Kim, R. J. Linhardt, H. Su, M. Cygler
Crystal Structure Of Chondroitinase B From Flavobacterium Heparinum And Its Complex With A Disaccharide Product At 1. 7 A Resolution.
J. Mol. Biol. V. 294 1257 1999
(for further references see the
PDB file header
)
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Hetero Components
(7, 7)
Info
All Hetero Components
1a: BETA-D-GLUCOSE (BGCa)
2a: 4-DEOXY-ALPHA-D-GLUCOSE (G4Da)
3a: D-GLUCURONIC ACID (GCUa)
4a: ALPHA-D-MANNOSE (MANa)
5a: 2-O-METHYL FUCOSE (MXYa)
6a: ALPHA-L-RHAMNOSE (RAMa)
7a: BETA-D-XYLOPYRANOSE (XYPa)
View:
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Label:
No.
Name
Count
Type
Full Name
1
BGC
1
Ligand/Ion
BETA-D-GLUCOSE
2
G4D
1
Ligand/Ion
4-DEOXY-ALPHA-D-GLUCOSE
3
GCU
1
Ligand/Ion
D-GLUCURONIC ACID
4
MAN
1
Ligand/Ion
ALPHA-D-MANNOSE
5
MXY
1
Ligand/Ion
2-O-METHYL FUCOSE
6
RAM
1
Ligand/Ion
ALPHA-L-RHAMNOSE
7
XYP
1
Ligand/Ion
BETA-D-XYLOPYRANOSE
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Sites
(7, 7)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS A:202 , ASP A:233 , SER A:234 , TYR A:257 , RAM A:508 , GCU A:509 , HOH A:556 , HOH A:758
BINDING SITE FOR RESIDUE MAN A 507
2
AC2
SOFTWARE
GLY A:258 , ASN A:280 , PHE A:282 , GLY A:462 , LYS A:463 , MAN A:507 , HOH A:534 , HOH A:609 , HOH A:703
BINDING SITE FOR RESIDUE RAM A 508
3
AC3
SOFTWARE
ARG A:199 , HIS A:202 , ASP A:233 , MAN A:507 , XYP A:510 , HOH A:551 , HOH A:556 , HOH A:610 , HOH A:611 , HOH A:709 , HOH A:726 , HOH A:740
BINDING SITE FOR RESIDUE GCU A 509
4
AC4
SOFTWARE
GCU A:509 , MXY A:511 , HOH A:740
BINDING SITE FOR RESIDUE XYP A 510
5
AC5
SOFTWARE
LYS A:501 , XYP A:510 , G4D A:512 , BGC A:513
BINDING SITE FOR RESIDUE MXY A 511
6
AC6
SOFTWARE
LYS A:501 , MXY A:511 , BGC A:513
BINDING SITE FOR RESIDUE G4D A 512
7
AC7
SOFTWARE
LYS A:501 , MXY A:511 , G4D A:512
BINDING SITE FOR RESIDUE BGC A 513
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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PROSITE Patterns/Profiles
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Exons
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1dbga_ (A:)
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Classes
(
)
(
)
Folds
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)
(
)
Superfamilies
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)
(
)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Single-stranded right-handed beta-helix
(140)
Superfamily
:
Pectin lyase-like
(89)
Family
:
Chondroitinase B
(4)
Protein domain
:
Chondroitinase B
(4)
Pedobacter heparinus [TaxId: 984]
(4)
1a
d1dbga_
A:
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_1dbgA00 (A:26-506)
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)
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Homologous Superfamilies
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)
(
)
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)
Pedobacter heparinus. Organism_taxid: 984
(2)
1a
1dbgA00
A:26-506
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Atom Selection
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Protein
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Chain A
Asymmetric Unit 1
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Asym.Unit (92 KB)
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