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2J3F
Biol. Unit 2
Info
Asym.Unit (226 KB)
Biol.Unit 1 (110 KB)
Biol.Unit 2 (110 KB)
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(1)
Title
:
L-FICOLIN COMPLEXED TO N-ACETYL-D-GALACTOSAMINE
Authors
:
V. Garlatti, C. Gaboriaud
Date
:
21 Aug 06 (Deposition) - 23 Jan 07 (Release) - 21 Sep 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C (1x)
Biol. Unit 2: D,E,F (1x)
Keywords
:
Sugar Binding Protein, Collagen, Immunology, Glycoprotein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
V. Garlatti, N. Belloy, L. Martin, M. Lacroix, M. Matsushita, Y. Endo, T. Fujita, J. C. Fontecilla-Camps, G. J. Arlaud, N. M. Thielens, C. Gaboriaud
Structural Insights Into The Innate Immune Recognition Specificities Of L- And H-Ficolins.
Embo J. V. 26 623 2007
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Hetero Components
(5, 7)
Info
All Hetero Components
1a: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Ga)
1b: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Gb)
1c: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Gc)
1d: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Gd)
2a: BETA-D-MANNOSE (BMAa)
2b: BETA-D-MANNOSE (BMAb)
3a: CALCIUM ION (CAa)
3b: CALCIUM ION (CAb)
3c: CALCIUM ION (CAc)
3d: CALCIUM ION (CAd)
3e: CALCIUM ION (CAe)
4a: 4-(2-HYDROXYETHYL)-1-PIPERAZINEETH... (EPEa)
5a: ALPHA-L-FUCOSE (FUCa)
6a: ALPHA-D-MANNOSE (MANa)
7a: N-ACETYL-D-GLUCOSAMINE (NAGa)
7b: N-ACETYL-D-GLUCOSAMINE (NAGb)
7c: N-ACETYL-D-GLUCOSAMINE (NAGc)
7d: N-ACETYL-D-GLUCOSAMINE (NAGd)
8a: O-ACETALDEHYDYL-HEXAETHYLENE GLYCO... (P4Ca)
8b: O-ACETALDEHYDYL-HEXAETHYLENE GLYCO... (P4Cb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
A2G
2
Ligand/Ion
N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE
2
BMA
1
Ligand/Ion
BETA-D-MANNOSE
3
CA
-1
Ligand/Ion
CALCIUM ION
4
EPE
1
Ligand/Ion
4-(2-HYDROXYETHYL)-1-PIPERAZINEETHANESULFONIC ACID
5
FUC
-1
Ligand/Ion
ALPHA-L-FUCOSE
6
MAN
-1
Ligand/Ion
ALPHA-D-MANNOSE
7
NAG
2
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
8
P4C
1
Ligand/Ion
O-ACETALDEHYDYL-HEXAETHYLENE GLYCOL
[
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Sites
(9, 9)
Info
All Sites
1: AC2 (SOFTWARE)
2: AC3 (SOFTWARE)
3: AC4 (SOFTWARE)
4: AC8 (SOFTWARE)
5: AC9 (SOFTWARE)
6: BC2 (SOFTWARE)
7: BC3 (SOFTWARE)
8: BC4 (SOFTWARE)
9: BC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC2
SOFTWARE
ARG C:132 , ASP C:133 , GLY E:260 , SER E:261
BINDING SITE FOR RESIDUE A2G C1289
2
AC3
SOFTWARE
ARG E:132 , ASP E:133 , THR E:136 , LYS E:221
BINDING SITE FOR RESIDUE A2G E1289
3
AC4
SOFTWARE
GLY B:260 , SER B:261 , ARG F:132 , ASP F:133 , THR F:136
BINDING SITE FOR RESIDUE A2G F1289
4
AC8
SOFTWARE
ASP E:224 , ASP E:226 , ASN E:228 , GLY E:230 , HOH E:2008
BINDING SITE FOR RESIDUE CA E1290
5
AC9
SOFTWARE
ASP F:224 , ASP F:226 , ASN F:228 , GLY F:230
BINDING SITE FOR RESIDUE CA F1290
6
BC2
SOFTWARE
ASP D:125 , SER D:127 , VAL E:124 , PHE E:173 , ASP E:175 , LYS E:279
BINDING SITE FOR RESIDUE P4C E1294
7
BC3
SOFTWARE
TRP B:134 , GLU B:190 , LYS B:193 , GLN B:223 , ASP E:222 , GLN E:223
BINDING SITE FOR RESIDUE EPE E1295
8
BC4
SOFTWARE
ASN B:195 , ASN B:215 , GLN B:216 , SER B:217 , MET C:235 , HIS C:259 , GLY C:260 , PHE C:262 , ASN C:275 , THR E:229 , ASN E:244
BINDING SITE FOR CHAIN B OF SUGAR BOUND TO ASN B 215 RESIDUES 1291 TO 1295
9
BC5
SOFTWARE
ASN E:215 , GLY F:260 , PHE F:262 , ASN F:275
BINDING SITE FOR CHAIN E OF SUGAR BOUND TO ASN E 215 RESIDUES 1291 TO 1293
[
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SAPs(SNPs)/Variants
(4, 12)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_049072 (H88Y, chain D/E/F, )
2: VAR_049073 (G92S, chain D/E/F, )
3: VAR_049074 (T211M, chain D/E/F, )
4: VAR_049075 (A233S, chain D/E/F, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_049072
H
113
Y
FCN2_HUMAN
Polymorphism
17549179
D/E/F
H
88
Y
2
UniProt
VAR_049073
G
117
S
FCN2_HUMAN
Polymorphism
12684476
D/E/F
G
92
S
3
UniProt
VAR_049074
T
236
M
FCN2_HUMAN
Polymorphism
17549193
D/E/F
T
211
M
4
UniProt
VAR_049075
A
258
S
FCN2_HUMAN
Polymorphism
7851696
D/E/F
A
233
S
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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PROSITE Patterns/Profiles
(1, 3)
Info
All PROSITE Patterns/Profiles
2: FIBRINOGEN_C_1 (D:240-252,E:240-252,F:240-252)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
FIBRINOGEN_C_2
PS51406
Fibrinogen C-terminal domain profile.
FCN2_HUMAN
96-313
0
-
2
FIBRINOGEN_C_1
PS00514
Fibrinogen C-terminal domain signature.
FCN2_HUMAN
265-277
3
-
-
-
D:240-252
E:240-252
F:240-252
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Exons
(0, 0)
Info
All Exons
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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
(1, 6)
Info
All SCOP Domains
1a: SCOP_d2j3fa_ (A:)
1b: SCOP_d2j3fb_ (B:)
1c: SCOP_d2j3fc_ (C:)
1d: SCOP_d2j3fd_ (D:)
1e: SCOP_d2j3fe_ (E:)
1f: SCOP_d2j3ff_ (F:)
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Protein Domains
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(
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Organisms
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(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Fibrinogen C-terminal domain-like
(70)
Superfamily
:
Fibrinogen C-terminal domain-like
(70)
Family
:
automated matches
(27)
Protein domain
:
automated matches
(27)
Human (Homo sapiens) [TaxId: 9606]
(27)
1a
d2j3fa_
A:
1b
d2j3fb_
B:
1c
d2j3fc_
C:
1d
d2j3fd_
D:
1e
d2j3fe_
E:
1f
d2j3ff_
F:
[
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CATH Domains
(2, 12)
Info
all CATH domains
1a: CATH_2j3fA01 (A:70-206,A:280-288)
1b: CATH_2j3fB01 (B:72-206,B:280-288)
1c: CATH_2j3fD01 (D:72-206,D:280-288)
1d: CATH_2j3fE01 (E:72-206,E:280-288)
1e: CATH_2j3fF01 (F:72-206,F:280-288)
1f: CATH_2j3fC01 (C:75-206,C:280-288)
2a: CATH_2j3fB02 (B:207-279)
2b: CATH_2j3fC02 (C:207-279)
2c: CATH_2j3fE02 (E:207-279)
2d: CATH_2j3fF02 (F:207-279)
2e: CATH_2j3fA02 (A:207-279)
2f: CATH_2j3fD02 (D:207-279)
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)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Gamma Fibrinogen; Chain A, domain 1
(58)
Homologous Superfamily
:
Gamma Fibrinogen, chain A, domain 1
(58)
Human (Homo sapiens)
(53)
1a
2j3fA01
A:70-206,A:280-288
1b
2j3fB01
B:72-206,B:280-288
1c
2j3fD01
D:72-206,D:280-288
1d
2j3fE01
E:72-206,E:280-288
1e
2j3fF01
F:72-206,F:280-288
1f
2j3fC01
C:75-206,C:280-288
Class
:
Few Secondary Structures
(1120)
Architecture
:
Irregular
(1120)
Topology
:
Gamma-fibrinogen Carboxyl Terminal Fragment; domain 2
(58)
Homologous Superfamily
:
Gamma-fibrinogen Carboxyl Terminal Fragment, domain 2
(58)
Human (Homo sapiens)
(53)
2a
2j3fB02
B:207-279
2b
2j3fC02
C:207-279
2c
2j3fE02
E:207-279
2d
2j3fF02
F:207-279
2e
2j3fA02
A:207-279
2f
2j3fD02
D:207-279
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Asymmetric Unit 1
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