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3IJY
Asym. Unit
Info
Asym.Unit (146 KB)
Biol.Unit 1 (73 KB)
Biol.Unit 2 (73 KB)
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(1)
Title
:
STRUCTURE OF S67-27 IN COMPLEX WITH KDO(2.8)KDO
Authors
:
C. L. Brooks, R. J. Blackler, S. V. Evans
Date
:
05 Aug 09 (Deposition) - 06 Oct 09 (Release) - 12 Jan 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.85
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Antibody, Kdo, Chlamydia, Lps, Fab, Carbohydrate, Immune System
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. L. Brooks, R. J. Blackler, G. Sixta, P. Kosma, S. Muller-Loennies, L. Brade, T. Hirama, C. R. Mackenzie, H. Brade, S. V. Evans
The Role Of Cdr H3 In Antibody Recognition Of A Synthetic Analog Of A Lipopolysaccharide Antigen.
Glycobiology V. 20 138 2010
(for further references see the
PDB file header
)
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Hetero Components
(3, 6)
Info
All Hetero Components
1a: (3-DEOXY-D-MANNO-OCT-2-ULOSONIC AC... (KDAa)
1b: (3-DEOXY-D-MANNO-OCT-2-ULOSONIC AC... (KDAb)
2a: 3-DEOXY-D-MANNO-OCT-2-ULOSONIC ACI... (KDOa)
2b: 3-DEOXY-D-MANNO-OCT-2-ULOSONIC ACI... (KDOb)
3a: MAGNESIUM ION (MGa)
3b: MAGNESIUM ION (MGb)
View:
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Label:
No.
Name
Count
Type
Full Name
1
KDA
2
Ligand/Ion
(3-DEOXY-D-MANNO-OCT-2-ULOSONIC ACID)-2-O-ALLYL
2
KDO
2
Ligand/Ion
3-DEOXY-D-MANNO-OCT-2-ULOSONIC ACID
3
MG
2
Ligand/Ion
MAGNESIUM ION
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Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
View:
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ARG A:27F , LYS B:53 , HOH B:219 , KDO B:303
BINDING SITE FOR RESIDUE KDA B 302
2
AC2
SOFTWARE
ASN A:27D , ARG A:27F , SER A:91 , ASN A:92 , ARG A:95 , TYR B:33 , ARG B:52 , ILE B:96 , GLU B:100E , KDA B:302
BINDING SITE FOR RESIDUE KDO B 303
3
AC3
SOFTWARE
ARG B:52 , GLU B:58 , GLU D:58 , MG D:214
BINDING SITE FOR RESIDUE MG B 214
4
AC4
SOFTWARE
ARG C:27F , LYS D:53 , KDO D:303
BINDING SITE FOR RESIDUE KDA D 302
5
AC5
SOFTWARE
ASN C:27D , SER C:91 , ASN C:92 , ARG C:95 , TYR D:33 , ARG D:52 , ILE D:96 , GLU D:100E , HOH D:226 , KDA D:302
BINDING SITE FOR RESIDUE KDO D 303
6
AC6
SOFTWARE
GLU B:58 , MG B:214 , ARG D:52 , GLU D:58
BINDING SITE FOR RESIDUE MG D 214
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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
(2, 4)
Info
All SCOP Domains
1a: SCOP_d3ijya1 (A:2-106)
1b: SCOP_d3ijyc1 (C:2-106)
2a: SCOP_d3ijya2 (A:107-210)
2b: SCOP_d3ijyc2 (C:107-212)
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(
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(
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)
(
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(
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
Immunoglobulin
(5995)
Family
:
automated matches
(864)
Protein domain
:
automated matches
(864)
Mouse (Mus musculus) [TaxId: 10090]
(360)
1a
d3ijya1
A:2-106
1b
d3ijyc1
C:2-106
Family
:
C1 set domains (antibody constant domain-like)
(3013)
Protein domain
:
automated matches
(652)
Mouse (Mus musculus) [TaxId: 10090]
(309)
2a
d3ijya2
A:107-210
2b
d3ijyc2
C:107-212
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CATH Domains
(1, 6)
Info
all CATH domains
1a: CATH_3ijyC02 (C:108-210)
1b: CATH_3ijyA02 (A:108-210)
1c: CATH_3ijyB02 (B:114-213)
1d: CATH_3ijyD02 (D:114-213)
1e: CATH_3ijyB01 (B:1-113)
1f: CATH_3ijyD01 (D:1-113)
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)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
Mouse (Mus musculus)
(152)
1a
3ijyC02
C:108-210
1b
3ijyA02
A:108-210
1c
3ijyB02
B:114-213
1d
3ijyD02
D:114-213
1e
3ijyB01
B:1-113
1f
3ijyD01
D:1-113
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Pfam Domains
(0, 0)
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Asymmetric Unit 1
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Show PDB file:
Asym.Unit (146 KB)
Header - Asym.Unit
Biol.Unit 1 (73 KB)
Header - Biol.Unit 1
Biol.Unit 2 (73 KB)
Header - Biol.Unit 2
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