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1DBG
Biol. Unit 1
Info
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 only available for the asymmetric unit)
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1dbga_ (A:)
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Classes
(
)
(
)
Folds
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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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)
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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Protein
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Chain A
Asymmetric Unit 1
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Asym.Unit (92 KB)
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