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1O4Z
Biol. Unit 1
Info
Asym.Unit (221 KB)
Biol.Unit 1 (110 KB)
Biol.Unit 2 (110 KB)
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(1)
Title
:
THE THREE-DIMENSIONAL STRUCTURE OF BETA-AGARASE B FROM ZOBELLIA GALACTANIVORANS
Authors
:
J. Allouch, M. Jam, W. Helbert, T. Barbeyron, B. Kloareg, B. Henrissat, M. Czjzek
Date
:
29 Jul 03 (Deposition) - 09 Dec 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Beta-Agarase, Glycoside Hydrolase Family 16, Agarose Degradation, Cleavage Of Beta-1, 4-D-Galactose Linkages
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. Allouch, M. Jam, W. Helbert, T. Barbeyron, B. Kloareg, B. Henrissat, M. Czjzek
The Three-Dimensional Structures Of Two {Beta}-Agarases.
J. Biol. Chem. V. 278 47171 2003
(for further references see the
PDB file header
)
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEa)
1b: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEb)
1c: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEc)
1d: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEd)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
3a: SODIUM ION (NAa)
3b: SODIUM ION (NAb)
3c: SODIUM ION (NAc)
3d: SODIUM ION (NAd)
3e: SODIUM ION (NAe)
3f: SODIUM ION (NAf)
3g: SODIUM ION (NAg)
View:
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No.
Name
Count
Type
Full Name
1
EPE
2
Ligand/Ion
4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
2
MG
-1
Ligand/Ion
MAGNESIUM ION
3
NA
-1
Ligand/Ion
SODIUM ION
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Sites
(7, 7)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC4 (SOFTWARE)
3: AC5 (SOFTWARE)
4: AC7 (SOFTWARE)
5: AC8 (SOFTWARE)
6: BC2 (SOFTWARE)
7: BC4 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
VAL B:239
BINDING SITE FOR RESIDUE MG B 1001
2
AC4
SOFTWARE
ASN A:83 , GLU A:85 , GLY A:127 , ASP A:343 , HOH A:2119
BINDING SITE FOR RESIDUE NA A 1004
3
AC5
SOFTWARE
ASN B:83 , GLU B:85 , GLY B:127 , ASP B:343
BINDING SITE FOR RESIDUE NA B 1005
4
AC7
SOFTWARE
ARG A:246
BINDING SITE FOR RESIDUE NA A 1007
5
AC8
SOFTWARE
GLU B:128 , HOH B:2232
BINDING SITE FOR RESIDUE NA B 1008
6
BC2
SOFTWARE
PRO A:112 , ASP A:173 , TRP A:175 , GLU A:184 , ASP A:186 , GLU A:189 , GLU A:308 , GLN A:310 , THR A:311
BINDING SITE FOR RESIDUE EPE A 2002
7
BC4
SOFTWARE
PRO B:112 , TRP B:175 , GLU B:184 , ASP B:186 , GLU B:189 , GLU B:308 , GLN B:310 , THR B:311 , HOH B:2084
BINDING SITE FOR RESIDUE EPE B 2004
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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
(1, 1)
Info
All PROSITE Patterns/Profiles
1: GH16_2 (B:58-353)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GH16_2
PS51762
Glycosyl hydrolases family 16 (GH16) domain profile.
AGAB_ZOBGA
58-353
1
B:58-353
-
-
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Exons
(0, 0)
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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, 4)
Info
All SCOP Domains
1a: SCOP_d1o4za_ (A:)
1b: SCOP_d1o4zb_ (B:)
1c: SCOP_d1o4zc_ (C:)
1d: SCOP_d1o4zd_ (D:)
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Protein Domains
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(
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Organisms
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Class
:
All beta proteins
(24004)
Fold
:
Concanavalin A-like lectins/glucanases
(797)
Superfamily
:
Concanavalin A-like lectins/glucanases
(797)
Family
:
Glycosyl hydrolases family 16
(29)
Protein domain
:
beta-Agarase A
(3)
Zobellia galactanivorans [TaxId: 63186]
(3)
1a
d1o4za_
A:
1b
d1o4zb_
B:
1c
d1o4zc_
C:
1d
d1o4zd_
D:
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_1o4zA00 (A:59-353)
1b: CATH_1o4zC00 (C:58-353)
1c: CATH_1o4zB00 (B:58-354)
1d: CATH_1o4zD00 (D:58-354)
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)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Jelly Rolls
(1293)
Homologous Superfamily
:
[code=2.60.120.200, no name defined]
(421)
Zobellia galactanivorans. Organism_taxid: 63186. Strain: dsij.
(1)
1a
1o4zA00
A:59-353
1b
1o4zC00
C:58-353
1c
1o4zB00
B:58-354
1d
1o4zD00
D:58-354
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Pfam Domains
(0, 0)
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Asymmetric Unit 1
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Show PDB file:
Asym.Unit (221 KB)
Header - Asym.Unit
Biol.Unit 1 (110 KB)
Header - Biol.Unit 1
Biol.Unit 2 (110 KB)
Header - Biol.Unit 2
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