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1L6X
Asym. Unit
Info
Asym.Unit (57 KB)
Biol.Unit 1 (51 KB)
Biol.Unit 2 (100 KB)
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(1)
Title
:
FC FRAGMENT OF RITUXIMAB BOUND TO A MINIMIZED VERSION OF THE B-DOMAIN FROM PROTEIN A CALLED Z34C
Authors
:
E. E. Idusogie, L. G. Presta, H. Santoro-Gazzano, K. Totpal, P. Y. Wong, Y. G. Meng, M. G. Mullkerrin
Date
:
14 Mar 02 (Deposition) - 10 Apr 02 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.65
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Biol. Unit 2: A,B (2x)
Keywords
:
Igg1 Fc, Protein A, Fc Complex, B-Domain, Immune System
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
E. E. Idusogie, L. G. Presta, H. Gazzano-Santoro, K. Totpal, P. Y. Wong M. Ultsch, Y. G. Meng, M. G. Mulkerrin
Mapping Of The C1Q Binding Site On Rituxan, A Chimeric Antibody With A Human Igg1 Fc.
J. Immunol. V. 164 4178 2000
(for further references see the
PDB file header
)
[
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Hetero Components
(5, 10)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
2a: BETA-L-FUCOSE (FULa)
3a: BETA-D-GALACTOSE (GALa)
3b: BETA-D-GALACTOSE (GALb)
4a: ALPHA-D-MANNOSE (MANa)
4b: ALPHA-D-MANNOSE (MANb)
5a: N-ACETYL-D-GLUCOSAMINE (NAGa)
5b: N-ACETYL-D-GLUCOSAMINE (NAGb)
5c: N-ACETYL-D-GLUCOSAMINE (NAGc)
5d: N-ACETYL-D-GLUCOSAMINE (NAGd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
1
Ligand/Ion
BETA-D-MANNOSE
2
FUL
1
Ligand/Ion
BETA-L-FUCOSE
3
GAL
2
Ligand/Ion
BETA-D-GALACTOSE
4
MAN
2
Ligand/Ion
ALPHA-D-MANNOSE
5
NAG
4
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
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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
NAG A:2 , FUL A:8 , VAL A:264 , ASP A:265 , GLN A:295 , ASN A:297 , THR A:299 , HOH A:663
BINDING SITE FOR RESIDUE NAG A 1
02
AC2
SOFTWARE
NAG A:1 , BMA A:3 , MAN A:4 , PHE A:241 , VAL A:264 , ARG A:301 , HOH A:540 , HOH A:577 , HOH A:663
BINDING SITE FOR RESIDUE NAG A 2
03
AC3
SOFTWARE
NAG A:2 , MAN A:4 , MAN A:6 , PHE A:241 , PHE A:243 , HOH A:545 , HOH A:628 , HOH A:693
BINDING SITE FOR RESIDUE BMA A 3
04
AC4
SOFTWARE
NAG A:2 , BMA A:3 , NAG A:5 , HOH A:504 , HOH A:598 , HOH A:691 , HOH A:713
BINDING SITE FOR RESIDUE MAN A 4
05
AC5
SOFTWARE
MAN A:4 , GAL A:7 , PHE A:243 , LYS A:246 , THR A:260 , HOH A:529 , HOH A:605 , HOH A:665
BINDING SITE FOR RESIDUE NAG A 5
06
AC6
SOFTWARE
BMA A:3 , NAG A:9 , HOH A:628 , HOH A:722
BINDING SITE FOR RESIDUE MAN A 6
07
AC7
SOFTWARE
NAG A:5 , PHE A:243 , PRO A:244 , PRO A:245 , LYS A:246 , GLU A:258 , THR A:260 , HOH A:458 , HOH A:466 , HOH A:529 , HOH B:114 , HOH B:115
BINDING SITE FOR RESIDUE GAL A 7
08
AC8
SOFTWARE
NAG A:1
BINDING SITE FOR RESIDUE FUL A 8
09
AC9
SOFTWARE
MAN A:6 , GAL A:10 , PHE A:241 , HOH A:679 , HOH A:681 , HOH A:725
BINDING SITE FOR RESIDUE NAG A 9
10
BC1
SOFTWARE
NAG A:9
BINDING SITE FOR RESIDUE GAL A 10
[
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SAPs(SNPs)/Variants
(2, 2)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_003887 (D356E, chain A, )
2: VAR_003888 (L358M, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_003887
D
239
E
IGHG1_HUMAN
Unclassified
---
A
D
356
E
2
UniProt
VAR_003888
L
241
M
IGHG1_HUMAN
Unclassified
---
A
L
358
M
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: IG_MHC (-|A:423-429)
;
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.
IGHG1_HUMAN
81-87
306-312
1
-
A:423-429
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Exons
(2, 2)
Info
All Exons
Exon 1.3b (A:237-341)
Exon 1.4c (A:341-443)
View:
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All Exon Boundaries
1: Boundary 1.2/1.3b
2: Boundary 1.3b/1.4c
3: Boundary 1.4c/-
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Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1
ENST00000390549
1
ENSE00001838294
chr14:
106209408-106209114
295
IGHG1_HUMAN
1-99
99
0
-
-
1.2
ENST00000390549
2
ENSE00001719055
chr14:
106208722-106208678
45
IGHG1_HUMAN
99-114
16
0
-
-
1.3b
ENST00000390549
3b
ENSE00001776617
chr14:
106208559-106208230
330
IGHG1_HUMAN
114-224
111
1
A:237-341
105
1.4c
ENST00000390549
4c
ENSE00001837466
chr14:
106208132-106207675
458
IGHG1_HUMAN
224-330
107
1
A:341-443
103
[
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]
SCOP Domains
(3, 3)
Info
All SCOP Domains
1a: SCOP_d1l6xa1 (A:237-341)
2a: SCOP_d1l6xa2 (A:342-443)
3a: SCOP_d1l6xb_ (B:)
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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
:
C1 set domains (antibody constant domain-like)
(3013)
Protein domain
:
Immunoglobulin heavy chain gamma constant domain 2, CH2-gamma
(36)
Human (Homo sapiens) [TaxId: 9606]
(31)
1a
d1l6xa1
A:237-341
Protein domain
:
Immunoglobulin heavy chain gamma constant domain 3, CH3-gamma
(38)
Human (Homo sapiens) [TaxId: 9606]
(31)
2a
d1l6xa2
A:342-443
Class
:
Designed proteins
(167)
Fold
:
Protein A Ig(Fc)-binding domain mimics
(7)
Superfamily
:
Protein A Ig(Fc)-binding domain mimics
(7)
Family
:
Protein A Ig(Fc)-binding domain mimics
(7)
Protein domain
:
Protein A Ig(Fc)-binding domain mimics
(7)
Synthetic
(7)
3a
d1l6xb_
B:
[
close SCOP info
]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_1l6xA02 (A:338-443)
1b: CATH_1l6xA01 (A:238-337)
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)
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)
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)
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)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
Human (Homo sapiens)
(912)
1a
1l6xA02
A:338-443
1b
1l6xA01
A:238-337
[
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]
Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_C1_set_1l6xA01 (A:352-437)
1b: PFAM_C1_set_1l6xA02 (A:352-437)
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Clans
(
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(
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Families
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(
)
Organisms
(
)
(
)
Clan
:
Ig
(577)
Family
:
C1-set
(338)
Homo sapiens (Human)
(218)
1a
C1-set-1l6xA01
A:352-437
1b
C1-set-1l6xA02
A:352-437
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