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1Y0L
Asym. Unit
Info
Asym.Unit (290 KB)
Biol.Unit 1 (77 KB)
Biol.Unit 2 (76 KB)
Biol.Unit 3 (75 KB)
Biol.Unit 4 (77 KB)
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(1)
Title
:
CATALYTIC ELIMINATION ANTIBODY 34E4 IN COMPLEX WITH HAPTEN
Authors
:
E. W. Debler, S. Ito, A. Heine, I. A. Wilson
Date
:
15 Nov 04 (Deposition) - 05 Apr 05 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A,B,C,D,E,F,H,L
Biol. Unit 1: H,L (1x)
Biol. Unit 2: A,B (1x)
Biol. Unit 3: C,D (1x)
Biol. Unit 4: E,F (1x)
Keywords
:
Immunoglobulin, Catalytic Antibody, Chimeric Fab, Hapten Complex, Immune System
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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)
Reference
:
E. W. Debler, S. Ito, F. P. Seebeck, A. Heine, D. Hilvert, I. A. Wilson
Structural Origins Of Efficient Proton Abstraction From Carbon By A Catalytic Antibody
Proc. Natl. Acad. Sci. Usa V. 102 4984 2005
(for further references see the
PDB file header
)
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Hetero Components
(2, 5)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
2a: 2-AMINO-5,6-DIMETHYL-BENZIMIDAZOLE... (HANa)
2b: 2-AMINO-5,6-DIMETHYL-BENZIMIDAZOLE... (HANb)
2c: 2-AMINO-5,6-DIMETHYL-BENZIMIDAZOLE... (HANc)
2d: 2-AMINO-5,6-DIMETHYL-BENZIMIDAZOLE... (HANd)
View:
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Label:
No.
Name
Count
Type
Full Name
1
CL
1
Ligand/Ion
CHLORIDE ION
2
HAN
4
Ligand/Ion
2-AMINO-5,6-DIMETHYL-BENZIMIDAZOLE-1-PENTANOIC ACID
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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
LYS E:183 , THR F:116
BINDING SITE FOR RESIDUE CL E 901
2
AC2
SOFTWARE
TYR B:100 , GLU H:50 , TYR H:100D , HOH H:513 , HOH H:542 , TYR L:32 , TRP L:91
BINDING SITE FOR RESIDUE HAN H 501
3
AC3
SOFTWARE
TYR A:32 , TRP A:91 , LEU A:96 , HOH A:643 , GLU B:50 , LEU B:95 , TYR B:100D , HOH B:254
BINDING SITE FOR RESIDUE HAN A 601
4
AC4
SOFTWARE
TYR C:32 , TRP C:91 , LEU C:96 , GLU D:50 , PHE D:97 , TYR D:100D , HOH D:722
BINDING SITE FOR RESIDUE HAN D 701
5
AC5
SOFTWARE
TYR D:100 , TYR E:32 , TRP E:91 , LEU E:96 , GLU F:50 , LEU F:95 , HIS F:100B , TYR F:100D , LEU F:100F
BINDING SITE FOR RESIDUE HAN F 801
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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)
Info
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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
(4, 16)
Info
All SCOP Domains
1a: SCOP_d1y0lb2 (B:114-233)
1b: SCOP_d1y0ld2 (D:114-233)
1c: SCOP_d1y0lf2 (F:114-233)
1d: SCOP_d1y0lh2 (H:114-233)
2a: SCOP_d1y0la2 (A:108-212)
2b: SCOP_d1y0lc2 (C:108-212)
2c: SCOP_d1y0le2 (E:108-212)
2d: SCOP_d1y0ll2 (L:108-212)
3a: SCOP_d1y0lb1 (B:1-113)
3b: SCOP_d1y0ld1 (D:1-113)
3c: SCOP_d1y0lf1 (F:1-113)
3d: SCOP_d1y0lh1 (H:1-113)
4a: SCOP_d1y0la1 (A:1-107)
4b: SCOP_d1y0lc1 (C:1-107)
4c: SCOP_d1y0le1 (E:1-107)
4d: SCOP_d1y0ll1 (L:1-107)
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
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
d1y0lb2
B:114-233
1b
d1y0ld2
D:114-233
1c
d1y0lf2
F:114-233
1d
d1y0lh2
H:114-233
Protein domain
:
Immunoglobulin light chain kappa constant domain, CL-kappa
(495)
Human (Homo sapiens) [TaxId: 9606]
(144)
2a
d1y0la2
A:108-212
2b
d1y0lc2
C:108-212
2c
d1y0le2
E:108-212
2d
d1y0ll2
L:108-212
Family
:
V set domains (antibody variable domain-like)
(1919)
Protein domain
:
Immunoglobulin heavy chain variable domain, VH
(658)
Human (Homo sapiens), cluster 3 [TaxId: 9606]
(33)
3a
d1y0lb1
B:1-113
3b
d1y0ld1
D:1-113
3c
d1y0lf1
F:1-113
3d
d1y0lh1
H:1-113
Protein domain
:
Immunoglobulin light chain kappa variable domain, VL-kappa
(616)
Human (Homo sapiens), cluster 3.2 [TaxId: 9606]
(31)
4a
d1y0la1
A:1-107
4b
d1y0lc1
C:1-107
4c
d1y0le1
E:1-107
4d
d1y0ll1
L:1-107
[
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CATH Domains
(1, 16)
Info
all CATH domains
1a: CATH_1y0lA02 (A:109-214)
1b: CATH_1y0lC02 (C:109-214)
1c: CATH_1y0lA01 (A:1-108)
1d: CATH_1y0lE02 (E:109-214)
1e: CATH_1y0lC01 (C:1-108)
1f: CATH_1y0lE01 (E:1-108)
1g: CATH_1y0lL01 (L:1-108)
1h: CATH_1y0lL02 (L:109-214)
1i: CATH_1y0lB01 (B:1-113)
1j: CATH_1y0lD01 (D:1-113)
1k: CATH_1y0lF01 (F:1-113)
1l: CATH_1y0lH01 (H:1-113)
1m: CATH_1y0lB02 (B:114-233)
1n: CATH_1y0lD02 (D:114-233)
1o: CATH_1y0lF02 (F:114-233)
1p: CATH_1y0lH02 (H:114-233)
View:
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(
)
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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
1y0lA02
A:109-214
1b
1y0lC02
C:109-214
1c
1y0lA01
A:1-108
1d
1y0lE02
E:109-214
1e
1y0lC01
C:1-108
1f
1y0lE01
E:1-108
1g
1y0lL01
L:1-108
1h
1y0lL02
L:109-214
1i
1y0lB01
B:1-113
1j
1y0lD01
D:1-113
1k
1y0lF01
F:1-113
1l
1y0lH01
H:1-113
1m
1y0lB02
B:114-233
1n
1y0lD02
D:114-233
1o
1y0lF02
F:114-233
1p
1y0lH02
H:114-233
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Pfam Domains
(0, 0)
Info
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Chain L
Asymmetric Unit 1
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Show PDB file:
Asym.Unit (290 KB)
Header - Asym.Unit
Biol.Unit 1 (77 KB)
Header - Biol.Unit 1
Biol.Unit 2 (76 KB)
Header - Biol.Unit 2
Biol.Unit 3 (75 KB)
Header - Biol.Unit 3
Biol.Unit 4 (77 KB)
Header - Biol.Unit 4
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