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1D6V
Asym. Unit
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Asym.Unit (78 KB)
Biol.Unit 1 (72 KB)
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(1)
Title
:
CONFORMATION EFFECTS IN BIOLOGICAL CATALYSIS INTRODUCED BY OXY-COPE ANTIBODY MATURATION
Authors
:
E. C. Mundorff, M. A. Hanson, P. G. Schultz, R. C. Stevens
Date
:
15 Oct 99 (Deposition) - 09 Feb 00 (Release) - 21 Jun 17 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : H,L
Biol. Unit 1: H,L (1x)
Keywords
:
Immune System
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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Reference
:
E. C. Mundorff, M. A. Hanson, A. Varvak, H. Ulrich, P. G. Schultz, R. C. Stevens
Conformational Effects In Biological Catalysis: An Antibody-Catalyzed Oxy-Cope Rearrangement.
Biochemistry V. 39 627 2000
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Hetero Components
(2, 5)
Info
All Hetero Components
1a: CADMIUM ION (CDa)
1b: CADMIUM ION (CDb)
1c: CADMIUM ION (CDc)
1d: CADMIUM ION (CDd)
2a: (1S,2S,5S)2-(4-GLUTARIDYLBENZYL)-5... (HOPa)
View:
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Label:
No.
Name
Count
Type
Full Name
1
CD
4
Ligand/Ion
CADMIUM ION
2
HOP
1
Ligand/Ion
(1S,2S,5S)2-(4-GLUTARIDYLBENZYL)-5-PHENYL-1-CYCLOHEXANOL
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Sites
(5, 5)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLU L:79 , HOH L:554
BINDING SITE FOR RESIDUE CD L 501
2
AC2
SOFTWARE
HIS H:164 , ASN L:138 , HOH L:556
BINDING SITE FOR RESIDUE CD L 502
3
AC3
SOFTWARE
LYS L:45 , HOH L:507 , HOH L:568
BINDING SITE FOR RESIDUE CD L 503
4
AC4
SOFTWARE
GLU L:81 , HOH L:517 , HOH L:566
BINDING SITE FOR RESIDUE CD L 504
5
AC5
SOFTWARE
GLU H:35 , HIS H:96 , TYR H:100A , ASP H:101 , TRP H:103 , LEU L:89 , TYR L:91
BINDING SITE FOR RESIDUE HOP H 401
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SAPs(SNPs)/Variants
(2, 2)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_066403 (W148R, chain L, )
2: VAR_003897 (V191L, chain L, )
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dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_066403
W
40
R
IGKC_HUMAN
Disease (IGKCD)
---
L
W
148
R
2
UniProt
VAR_003897
V
83
L
IGKC_HUMAN
Unclassified
---
L
V
191
L
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: IG_MHC (L:192-198,H:194-200|-)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
IG_MHC
PS00290
Immunoglobulins and major histocompatibility complex proteins signature.
IGKC_HUMAN
85-91
1
L:192-198
IGG1_HUMAN
200-206
425-431
1
H:194-200
-
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Exons
(0, 0)
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(4, 4)
Info
All SCOP Domains
1a: SCOP_d1d6vh2 (H:114-214)
2a: SCOP_d1d6vl2 (L:108-211)
3a: SCOP_d1d6vh1 (H:1-113)
4a: SCOP_d1d6vl1 (L:1-107)
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)
Protein Domains
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)
(
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Organisms
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)
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Class
:
All beta proteins
(24004)
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
Immunoglobulin
(5995)
Family
:
C1 set domains (antibody constant domain-like)
(3013)
Protein domain
:
Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma
(608)
Human (Homo sapiens) [TaxId: 9606]
(179)
1a
d1d6vh2
H:114-214
Protein domain
:
Immunoglobulin light chain kappa constant domain, CL-kappa
(495)
Human (Homo sapiens) [TaxId: 9606]
(144)
2a
d1d6vl2
L:108-211
Family
:
V set domains (antibody variable domain-like)
(1919)
Protein domain
:
Immunoglobulin heavy chain variable domain, VH
(658)
Mouse (Mus musculus), cluster 3.2 [TaxId: 10090]
(177)
3a
d1d6vh1
H:1-113
Protein domain
:
Immunoglobulin light chain kappa variable domain, VL-kappa
(616)
Mouse (Mus musculus), cluster 4 [TaxId: 10090]
(211)
4a
d1d6vl1
L:1-107
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_1d6vL02 (L:109-211)
1b: CATH_1d6vH01 (H:1-113)
1c: CATH_1d6vL01 (L:1-108)
1d: CATH_1d6vH02 (H:114-211)
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)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
House mouse, human (Mus musculus, homo sapiens)
(20)
1a
1d6vL02
L:109-211
1b
1d6vH01
H:1-113
1c
1d6vL01
L:1-108
1d
1d6vH02
H:114-211
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Pfam Domains
(0, 0)
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Asymmetric Unit 1
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