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1Q9L
Asym. Unit
Info
Asym.Unit (154 KB)
Biol.Unit 1 (77 KB)
Biol.Unit 2 (76 KB)
Biol.Unit 3 (148 KB)
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(1)
Title
:
S25-2 FAB UNLIGANDED 2
Authors
:
H. P. Nguyen, N. O. Seto, C. R. Mackenzie, L. Brade, P. Kosma, H. Brade, S. V. Evans
Date
:
25 Aug 03 (Deposition) - 27 Jan 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.28
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: A,B,C,D (1x)
Keywords
:
Antigen-Binding Fragment, Fab, Anti-Carbohydrate, Anti-Lps, Antibody, Immunoglobulin, Immune System
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. P. Nguyen, N. O. Seto, C. R. Mackenzie, L. Brade, P. Kosma, H. Brade, S. V. Evans
Germline Antibody Recognition Of Distinct Carbohydrate Epitopes.
Nat. Struct. Biol. V. 10 1019 2003
(for further references see the
PDB file header
)
[
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Hetero Components
(2, 10)
Info
All Hetero Components
1a: MAGNESIUM ION (MGa)
1b: MAGNESIUM ION (MGb)
1c: MAGNESIUM ION (MGc)
1d: MAGNESIUM ION (MGd)
1e: MAGNESIUM ION (MGe)
1f: MAGNESIUM ION (MGf)
1g: MAGNESIUM ION (MGg)
2a: ZINC ION (ZNa)
2b: ZINC ION (ZNb)
2c: ZINC ION (ZNc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MG
7
Ligand/Ion
MAGNESIUM ION
2
ZN
3
Ligand/Ion
ZINC ION
[
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Sites
(10, 10)
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)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU A:184 , HIS A:188 , HOH A:690 , HOH A:702
BINDING SITE FOR RESIDUE ZN A 214
02
AC2
SOFTWARE
GLU C:184 , HIS C:188 , HOH C:674 , HOH C:688
BINDING SITE FOR RESIDUE ZN C 214
03
AC3
SOFTWARE
ASP C:1
BINDING SITE FOR RESIDUE ZN C 215
04
AC4
SOFTWARE
THR A:96 , PHE A:97 , TRP B:47 , HOH B:362
BINDING SITE FOR RESIDUE MG B 212
05
AC5
SOFTWARE
THR C:96 , PHE C:97 , TRP D:47 , HOH D:504
BINDING SITE FOR RESIDUE MG C 216
06
AC6
SOFTWARE
LYS C:89 , ARG C:95 , HOH C:631 , ASP D:95
BINDING SITE FOR RESIDUE MG C 217
07
AC7
SOFTWARE
ASP A:166 , LYS A:168 , HOH A:694 , HOH A:701 , HIS B:162 , HOH B:303 , HOH B:695
BINDING SITE FOR RESIDUE MG A 215
08
AC8
SOFTWARE
ASP C:166 , LYS C:168 , HOH C:314 , HIS D:162 , HOH D:351
BINDING SITE FOR RESIDUE MG C 218
09
AC9
SOFTWARE
GLU B:1 , HOH B:530 , ASP D:171
BINDING SITE FOR RESIDUE MG D 212
10
BC1
SOFTWARE
LYS C:148 , ASP C:150 , GLY C:151 , SER C:190 , THR C:192
BINDING SITE FOR RESIDUE MG C 219
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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, 8)
Info
All SCOP Domains
1a: SCOP_d1q9lb2 (B:112-211)
1b: SCOP_d1q9ld2 (D:112-211)
2a: SCOP_d1q9la2 (A:108-213)
2b: SCOP_d1q9lc2 (C:108-213)
3a: SCOP_d1q9lb1 (B:1-111)
3b: SCOP_d1q9ld1 (D:1-111)
4a: SCOP_d1q9la1 (A:1-107)
4b: SCOP_d1q9lc1 (C:1-107)
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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
:
C1 set domains (antibody constant domain-like)
(3013)
Protein domain
:
Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma
(608)
Mouse (Mus musculus) [TaxId: 10090]
(414)
1a
d1q9lb2
B:112-211
1b
d1q9ld2
D:112-211
Protein domain
:
Immunoglobulin light chain kappa constant domain, CL-kappa
(495)
Mouse (Mus musculus) [TaxId: 10090]
(345)
2a
d1q9la2
A:108-213
2b
d1q9lc2
C:108-213
Family
:
V set domains (antibody variable domain-like)
(1919)
Protein domain
:
Immunoglobulin heavy chain variable domain, VH
(658)
Mouse (Mus musculus), cluster 1 [TaxId: 10090]
(57)
3a
d1q9lb1
B:1-111
3b
d1q9ld1
D:1-111
Protein domain
:
Immunoglobulin light chain kappa variable domain, VL-kappa
(616)
Mouse (Mus musculus), cluster 1.2 [TaxId: 10090]
(46)
4a
d1q9la1
A:1-107
4b
d1q9lc1
C:1-107
[
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CATH Domains
(1, 8)
Info
all CATH domains
1a: CATH_1q9lA02 (A:108-210)
1b: CATH_1q9lB02 (B:112-210)
1c: CATH_1q9lD02 (D:112-210)
1d: CATH_1q9lA01 (A:1-107)
1e: CATH_1q9lC01 (C:1-107)
1f: CATH_1q9lB01 (B:1-111)
1g: CATH_1q9lD01 (D:1-111)
1h: CATH_1q9lC02 (C:108-210)
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Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
House mouse (Mus musculus)
(616)
1a
1q9lA02
A:108-210
1b
1q9lB02
B:112-210
1c
1q9lD02
D:112-210
1d
1q9lA01
A:1-107
1e
1q9lC01
C:1-107
1f
1q9lB01
B:1-111
1g
1q9lD01
D:1-111
1h
1q9lC02
C:108-210
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Pfam Domains
(0, 0)
Info
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Protein & NOT Site
Protein & NOT PROSITE
Chain A
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Chain C
Chain D
Asymmetric Unit 1
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select chains 'A' and 'C'
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select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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Show PDB file:
Asym.Unit (154 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 (148 KB)
Header - Biol.Unit 3
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