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3IF1
Asym. Unit
Info
Asym.Unit (148 KB)
Biol.Unit 1 (142 KB)
Biol.Unit 2 (74 KB)
Biol.Unit 3 (73 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF 237MAB IN COMPLEX WITH A GALNAC
Authors
:
C. L. Brooks, S. V. Evans, S. N. Borisova
Date
:
23 Jul 09 (Deposition) - 23 Jun 10 (Release) - 16 Nov 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.39
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: A,B (1x)
Biol. Unit 3: C,D (1x)
Keywords
:
Glycopepitde, Antibody, Fab, Carbohydrate-Biding, Tumour, Immune System
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. L. Brooks, A. Schietinger, S. N. Borisova, P. Kufer, M. Okon, T. Hirama, C. R. Mackenzie, L. X. Wang, H. Schreiber, S. V. Evans
Antibody Recognition Of A Unique Tumor-Specific Glycopeptid Antigen.
Proc. Natl. Acad. Sci. Usa V. 107 10056 2010
(for further references see the
PDB file header
)
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Hetero Components
(3, 12)
Info
All Hetero Components
1a: MAGNESIUM ION (MGa)
1b: MAGNESIUM ION (MGb)
1c: MAGNESIUM ION (MGc)
1d: MAGNESIUM ION (MGd)
1e: MAGNESIUM ION (MGe)
2a: N-ACETYL-D-GALACTOSAMINE (NGAa)
2b: N-ACETYL-D-GALACTOSAMINE (NGAb)
3a: ZINC ION (ZNa)
3b: ZINC ION (ZNb)
3c: ZINC ION (ZNc)
3d: ZINC ION (ZNd)
3e: ZINC ION (ZNe)
View:
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Label:
No.
Name
Count
Type
Full Name
1
MG
5
Ligand/Ion
MAGNESIUM ION
2
NGA
2
Ligand/Ion
N-ACETYL-D-GALACTOSAMINE
3
ZN
5
Ligand/Ion
ZINC ION
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Sites
(12, 12)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
View:
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:34 , HOH A:218 , HOH A:229 , HOH B:225
BINDING SITE FOR RESIDUE ZN A 213
02
AC2
SOFTWARE
GLU A:185 , HIS A:189 , HOH A:216 , HOH A:259
BINDING SITE FOR RESIDUE ZN A 215
03
AC3
SOFTWARE
ILE A:2 , GLN A:3 , ASP A:60 , MG A:214 , HOH A:243
BINDING SITE FOR RESIDUE ZN A 222
04
AC4
SOFTWARE
ASN A:138 , ASP A:167 , ASP A:170 , HIS B:164
BINDING SITE FOR RESIDUE MG A 1
05
AC5
SOFTWARE
GLN A:3 , ASP A:60 , ZN A:222 , HOH A:234
BINDING SITE FOR RESIDUE MG A 214
06
AC6
SOFTWARE
HIS A:27D , TYR A:32 , SER A:91 , THR A:92 , HIS A:93 , TRP B:33 , TRP B:47 , GLU B:50 , ARG B:52 , TYR B:58 , ARG B:98 , HOH B:248
BINDING SITE FOR RESIDUE NGA B 1A
07
AC7
SOFTWARE
HIS B:55 , GLU C:123 , HOH C:221 , HOH C:238
BINDING SITE FOR RESIDUE ZN C 218
08
AC8
SOFTWARE
ILE C:2 , GLN C:27 , ASP C:60 , MG C:213
BINDING SITE FOR RESIDUE MG C 1
09
AC9
SOFTWARE
MG C:1 , GLN C:3 , ASP C:60
BINDING SITE FOR RESIDUE MG C 213
10
BC1
SOFTWARE
HIS C:34 , HOH C:215 , HOH C:235
BINDING SITE FOR RESIDUE MG C 214
11
BC2
SOFTWARE
ASP A:143 , HOH A:240 , HIS D:55
BINDING SITE FOR RESIDUE ZN D 221
12
BC3
SOFTWARE
HIS C:27D , TYR C:32 , SER C:91 , THR C:92 , HIS C:93 , GLU D:50 , ARG D:52 , TYR D:58 , ARG D:98 , HOH D:421
BINDING SITE FOR RESIDUE NGA D 213
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
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Exons
(0, 0)
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All Exons
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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.
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d3if1a2 (A:113-212)
1b: SCOP_d3if1c2 (C:113-212)
2a: SCOP_d3if1a1 (A:2-112)
2b: SCOP_d3if1c1 (C:2-112)
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Protein Domains
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Organisms
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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
d3if1a2
A:113-212
1b
d3if1c2
C:113-212
Family
:
V set domains (antibody variable domain-like)
(1919)
Protein domain
:
automated matches
(311)
Mouse (Mus musculus) [TaxId: 10090]
(112)
2a
d3if1a1
A:2-112
2b
d3if1c1
C:2-112
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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 C
Chain D
Asymmetric Unit 1
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select residue range 5 to 10 in all chains
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Show PDB file:
Asym.Unit (148 KB)
Header - Asym.Unit
Biol.Unit 1 (142 KB)
Header - Biol.Unit 1
Biol.Unit 2 (74 KB)
Header - Biol.Unit 2
Biol.Unit 3 (73 KB)
Header - Biol.Unit 3
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