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2O5X
Biol. Unit 1
Info
Asym.Unit (87 KB)
Biol.Unit 1 (81 KB)
Biol.Unit 2 (158 KB)
Biol.Unit 3 (158 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF 1E9 LEUH47TRP/ARGH100TRP, AN ENGINEERED DIELS-ALDERASE FAB WITH NM STEROID-BINDING AFFINITY
Authors
:
P. Verdino, I. A. Wilson
Date
:
06 Dec 06 (Deposition) - 18 Dec 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.05
Chains
:
Asym. Unit : H,L
Biol. Unit 1: H,L (1x)
Biol. Unit 2: H,L (2x)
Biol. Unit 3: H,L (2x)
Keywords
:
Immunoglobulin, Chimeric Fab, Antibody Engineering, Evolution Of Ligand Recognition, Immune System
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
P. Verdino, C. Aldag, D. Hilvert, I. A. Wilson
Closely Related Antibody Receptors Exploit Fundamentally Different Strategies For Steroid Recognition.
Proc. Natl. Acad. Sci. Usa V. 105 11725 2008
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Hetero Components
(2, 12)
Info
All Hetero Components
1a: SULFATE ION (SO4a)
1b: SULFATE ION (SO4b)
1c: SULFATE ION (SO4c)
1d: SULFATE ION (SO4d)
1e: SULFATE ION (SO4e)
1f: SULFATE ION (SO4f)
1g: SULFATE ION (SO4g)
1h: SULFATE ION (SO4h)
1i: SULFATE ION (SO4i)
1j: SULFATE ION (SO4j)
1k: SULFATE ION (SO4k)
2a: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,... (TRSa)
View:
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Label:
No.
Name
Count
Type
Full Name
1
SO4
11
Ligand/Ion
SULFATE ION
2
TRS
1
Ligand/Ion
2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
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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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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLY H:55 , GLU H:56 , SER H:57 , ARG L:211 , HOH L:468 , HOH L:515 , HOH L:524
BINDING SITE FOR RESIDUE SO4 L 404
02
AC2
SOFTWARE
PRO L:8 , LEU L:9 , SER L:10 , SER L:156
BINDING SITE FOR RESIDUE SO4 L 406
03
AC3
SOFTWARE
HIS L:93 , PHE L:94
BINDING SITE FOR RESIDUE SO4 L 407
04
AC4
SOFTWARE
SER L:52 , ASN L:53 , ARG L:54 , LYS L:188 , HOH L:494
BINDING SITE FOR RESIDUE SO4 L 408
05
AC5
SOFTWARE
PRO H:123 , SER L:121 , ASP L:122 , GLU L:123
BINDING SITE FOR RESIDUE SO4 L 410
06
AC6
SOFTWARE
PRO H:14 , ASN H:84 , SER H:112 , SER H:113 , HOH H:418 , HOH H:505 , ARG L:108 , ALA L:111 , HOH L:440 , HOH L:454
BINDING SITE FOR RESIDUE SO4 H 401
07
AC7
SOFTWARE
SER H:25 , GLY H:26 , HOH H:531 , HOH H:558
BINDING SITE FOR RESIDUE SO4 H 402
08
AC8
SOFTWARE
ARG H:66 , LYS H:83 , GLU H:85
BINDING SITE FOR RESIDUE SO4 H 403
09
AC9
SOFTWARE
GLU H:72 , THR H:73 , SER H:74
BINDING SITE FOR RESIDUE SO4 H 405
10
BC1
SOFTWARE
MET H:28 , ASN H:31 , ARG H:94 , TYR H:102 , HOH H:426
BINDING SITE FOR RESIDUE SO4 H 409
11
BC2
SOFTWARE
TYR H:27 , MET H:28 , TYR H:32 , HOH H:426
BINDING SITE FOR RESIDUE SO4 H 411
12
BC3
SOFTWARE
ASN H:35 , TRP H:50 , TRP H:100 , PHE L:89
BINDING SITE FOR RESIDUE TRS H 301
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SAPs(SNPs)/Variants
(2, 2)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_066403 (W148R, chain L, )
2: VAR_003897 (V191L, chain L, )
View:
Select:
Label:
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, 1)
Info
All PROSITE Patterns/Profiles
1: IG_MHC (L:192-198)
;
View:
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Label:
End label:
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
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Exons
(0, 0)
Info
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.
(no "Exon" information available for biological units yet)
SCOP Domains
(2, 2)
Info
All SCOP Domains
1a: SCOP_d2o5xl2 (L:108-213)
2a: SCOP_d2o5xl1 (L:1-107)
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(
)
Protein Domains
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)
(
)
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
d2o5xl2
L:108-213
Family
:
V set domains (antibody variable domain-like)
(1919)
Protein domain
:
automated matches
(311)
Mouse (Mus musculus) [TaxId: 10090]
(112)
2a
d2o5xl1
L:1-107
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_2o5xL02 (L:108-211)
1b: CATH_2o5xH02 (H:114-227)
1c: CATH_2o5xL01 (L:1-107)
1d: CATH_2o5xH01 (H:1-113)
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Organisms
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)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
House mouse, human (Mus musculus, homo sapiens)
(20)
1a
2o5xL02
L:108-211
1b
2o5xH02
H:114-227
1c
2o5xL01
L:1-107
1d
2o5xH01
H:1-113
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Asymmetric Unit 1
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Show PDB file:
Asym.Unit (87 KB)
Header - Asym.Unit
Biol.Unit 1 (81 KB)
Header - Biol.Unit 1
Biol.Unit 2 (158 KB)
Header - Biol.Unit 2
Biol.Unit 3 (158 KB)
Header - Biol.Unit 3
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