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Getting 'Biological Unit' information from database.
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Getting 'Hetero Component' information from database.
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2VUO
Asym. Unit
Info
Asym.Unit (168 KB)
Biol.Unit 1 (158 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE RABBIT IGG FC FRAGMENT
Authors
:
E. Girardi, M. D. Holdom, A. M. Davies, B. J. Sutton, A. J. Beavil
Date
:
27 May 08 (Deposition) - 16 Sep 08 (Release) - 09 Jun 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.95
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Immune System, Immunoglobulin C Region, Igg, Rabbit, Fc Fragment, Glycosylation, Immunoglobulins, Immunoglobulin Domain
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
E. Girardi, M. D. Holdom, A. M. Davies, B. J. Sutton, A. J. Beavil
The Crystal Structure Of Rabbit Igg-Fc.
Biochem. J. V. 417 77 2009
[
close entry info
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Hetero Components
(7, 27)
Info
All Hetero Components
1a: AZIDE ION (AZIa)
1b: AZIDE ION (AZIb)
2a: BETA-D-MANNOSE (BMAa)
2b: BETA-D-MANNOSE (BMAb)
3a: FORMIC ACID (FMTa)
3b: FORMIC ACID (FMTb)
3c: FORMIC ACID (FMTc)
3d: FORMIC ACID (FMTd)
3e: FORMIC ACID (FMTe)
3f: FORMIC ACID (FMTf)
4a: BETA-D-GALACTOSE (GALa)
4b: BETA-D-GALACTOSE (GALb)
5a: GLYCEROL (GOLa)
5b: GLYCEROL (GOLb)
5c: GLYCEROL (GOLc)
5d: GLYCEROL (GOLd)
6a: ALPHA-D-MANNOSE (MANa)
6b: ALPHA-D-MANNOSE (MANb)
6c: ALPHA-D-MANNOSE (MANc)
6d: ALPHA-D-MANNOSE (MANd)
7a: N-ACETYL-D-GLUCOSAMINE (NAGa)
7b: N-ACETYL-D-GLUCOSAMINE (NAGb)
7c: N-ACETYL-D-GLUCOSAMINE (NAGc)
7d: N-ACETYL-D-GLUCOSAMINE (NAGd)
7e: N-ACETYL-D-GLUCOSAMINE (NAGe)
7f: N-ACETYL-D-GLUCOSAMINE (NAGf)
7g: N-ACETYL-D-GLUCOSAMINE (NAGg)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
AZI
2
Ligand/Ion
AZIDE ION
2
BMA
2
Ligand/Ion
BETA-D-MANNOSE
3
FMT
6
Ligand/Ion
FORMIC ACID
4
GAL
2
Ligand/Ion
BETA-D-GALACTOSE
5
GOL
4
Ligand/Ion
GLYCEROL
6
MAN
4
Ligand/Ion
ALPHA-D-MANNOSE
7
NAG
7
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
close Hetero Component info
]
Sites
(27, 27)
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)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
VAL A:264 , ASP A:265 , GLN A:295 , ASN A:297 , NAG A:1446 , HOH A:2025 , HOH A:2051
BINDING SITE FOR RESIDUE NAG A1445
02
AC2
SOFTWARE
PHE A:241 , VAL A:264 , ARG A:301 , NAG A:1445 , BMA A:1447 , MAN A:1448 , HOH A:2192
BINDING SITE FOR RESIDUE NAG A1446
03
AC3
SOFTWARE
PHE A:241 , NAG A:1446 , MAN A:1448 , MAN A:1451
BINDING SITE FOR RESIDUE BMA A1447
04
AC4
SOFTWARE
ARG A:301 , NAG A:1446 , BMA A:1447 , NAG A:1449 , HOH A:2194
BINDING SITE FOR RESIDUE MAN A1448
05
AC5
SOFTWARE
PHE A:243 , THR A:260 , MAN A:1448 , GAL A:1450 , HOH A:2196 , HOH A:2197
BINDING SITE FOR RESIDUE NAG A1449
06
AC6
SOFTWARE
PRO A:244 , LYS A:246 , GLU A:258 , THR A:260 , NAG A:1449 , HOH A:2017 , HOH A:2198
BINDING SITE FOR RESIDUE GAL A1450
07
AC7
SOFTWARE
BMA A:1447 , NAG A:1452 , HOH A:2199
BINDING SITE FOR RESIDUE MAN A1451
08
AC8
SOFTWARE
MAN A:1451 , HOH A:2199
BINDING SITE FOR RESIDUE NAG A1452
09
AC9
SOFTWARE
VAL B:264 , ASP B:265 , GLN B:295 , ASN B:297 , THR B:299 , NAG B:1446 , HOH B:2183 , HOH B:2184
BINDING SITE FOR RESIDUE NAG B1445
10
BC1
SOFTWARE
PHE B:241 , VAL B:264 , ARG B:301 , NAG B:1445 , BMA B:1447 , MAN B:1448 , HOH B:2185 , HOH B:2186
BINDING SITE FOR RESIDUE NAG B1446
11
BC2
SOFTWARE
PHE B:241 , PHE B:243 , NAG B:1446 , MAN B:1448 , MAN B:1451
BINDING SITE FOR RESIDUE BMA B1447
12
BC3
SOFTWARE
PHE B:243 , NAG B:1446 , BMA B:1447 , NAG B:1449 , HOH B:2186 , HOH B:2187
BINDING SITE FOR RESIDUE MAN B1448
13
BC4
SOFTWARE
PHE B:243 , LYS B:246 , THR B:260 , MAN B:1448 , GAL B:1450 , HOH B:2188
BINDING SITE FOR RESIDUE NAG B1449
14
BC5
SOFTWARE
PHE B:243 , PRO B:244 , LYS B:246 , GLU B:258 , THR B:260 , NAG B:1449 , HOH B:2006
BINDING SITE FOR RESIDUE GAL B1450
15
BC6
SOFTWARE
BMA B:1447
BINDING SITE FOR RESIDUE MAN B1451
16
BC7
SOFTWARE
LEU A:314 , LYS A:338 , ALA A:339 , ARG A:340 , GLY A:341 , HOH A:2202
BINDING SITE FOR RESIDUE GOL A1453
17
BC8
SOFTWARE
ILE A:377 , SER A:378 , VAL A:379 , THR A:393 , HOH A:2153 , HOH A:2203 , HOH A:2204
BINDING SITE FOR RESIDUE GOL A1454
18
BC9
SOFTWARE
LEU B:314 , LYS B:338 , ARG B:340 , GLY B:341 , PRO B:343 , HOH B:2190
BINDING SITE FOR RESIDUE GOL B1452
19
CC1
SOFTWARE
PRO A:307
BINDING SITE FOR RESIDUE GOL A1455
20
CC2
SOFTWARE
GLU A:388 , ASP A:389 , ASN A:390 , HOH A:2140 , HOH A:2205
BINDING SITE FOR RESIDUE AZI A1456
21
CC3
SOFTWARE
GLU A:356 , TYR B:349 , THR B:350 , LYS B:439
BINDING SITE FOR RESIDUE AZI B1453
22
CC4
SOFTWARE
ASP A:249 , ARG A:255 , THR A:256
BINDING SITE FOR RESIDUE FMT A1457
23
CC5
SOFTWARE
ILE B:377 , SER B:378 , VAL B:379 , HOH B:2126 , HOH B:2191
BINDING SITE FOR RESIDUE FMT B1454
24
CC6
SOFTWARE
LYS A:392 , ASP B:399
BINDING SITE FOR RESIDUE FMT B1455
25
CC7
SOFTWARE
LYS A:248 , SER A:378 , GLU A:380 , SER A:426 , MET A:428 , HOH A:2206
BINDING SITE FOR RESIDUE FMT A1458
26
CC8
SOFTWARE
LYS B:248 , SER B:378 , GLU B:380 , SER B:426 , MET B:428 , HOH B:2192
BINDING SITE FOR RESIDUE FMT B1456
27
CC9
SOFTWARE
GLN B:342 , HOH B:2087
BINDING SITE FOR RESIDUE FMT B1457
[
close Site info
]
SAPs(SNPs)/Variants
(1, 2)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_IGHG_RABIT_002 (A309A, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_IGHG_RABIT_002
*
T
185
A
IGHG_RABIT
---
---
A/B
A
309
A
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: IG_MHC (A:423-429,B:423-429)
;
View:
Select:
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.
IGHG_RABIT
299-305
2
A:423-429
B:423-429
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d2vuoa1 (A:230-341)
1b: SCOP_d2vuoa2 (A:342-444)
1c: SCOP_d2vuob1 (B:231-341)
1d: SCOP_d2vuob2 (B:342-444)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
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(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
Immunoglobulin
(5995)
Family
:
automated matches
(864)
Protein domain
:
automated matches
(864)
Rabbit (Oryctolagus cuniculus) [TaxId: 9986]
(10)
1a
d2vuoa1
A:230-341
1b
d2vuoa2
A:342-444
1c
d2vuob1
B:231-341
1d
d2vuob2
B:342-444
[
close SCOP info
]
CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_2vuoA02 (A:338-443)
1b: CATH_2vuoB02 (B:338-443)
1c: CATH_2vuoA01 (A:238-337)
1d: CATH_2vuoB01 (B:238-337)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
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)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
Rabbit (Oryctolagus cuniculus)
(5)
1a
2vuoA02
A:338-443
1b
2vuoB02
B:338-443
1c
2vuoA01
A:238-337
1d
2vuoB01
B:238-337
[
close CATH info
]
Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_C1_set_2vuoB01 (B:352-437)
1b: PFAM_C1_set_2vuoB02 (B:352-437)
1c: PFAM_C1_set_2vuoB03 (B:352-437)
1d: PFAM_C1_set_2vuoB04 (B:352-437)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Ig
(577)
Family
:
C1-set
(338)
Oryctolagus cuniculus (Rabbit)
(1)
1a
C1-set-2vuoB01
B:352-437
1b
C1-set-2vuoB02
B:352-437
1c
C1-set-2vuoB03
B:352-437
1d
C1-set-2vuoB04
B:352-437
[
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]
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