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2JG8
Biol. Unit 2
Info
Asym.Unit (142 KB)
Biol.Unit 1 (70 KB)
Biol.Unit 2 (69 KB)
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(1)
Title
:
CRYSTALLOGRAPHIC STRUCTURE OF HUMAN C1Q GLOBULAR HEADS COMPLEXED TO PHOSPHATIDYL-SERINE
Authors
:
H. Paidassi, P. Tacnet-Delorme, V. Garlatti, C. Darnault, B. Ghebrehiwet, C. Gaboriaud, G. J. Arlaud, P. Frachet
Date
:
09 Feb 07 (Deposition) - 19 Feb 08 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.05
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C (1x)
Biol. Unit 2: D,E,F (1x)
Keywords
:
Polymorphism, Glycoprotein, Phagocytosis, Disease Mutation, Complement Pathway, Immune System, Cell Surface Molecule, Pyrrolidone Carboxylic Acid, Hydroxylation, Innate Immunity, Immune Response, Collagen, Tolerance, Apopotosis, Complement
(Keyword Search:
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Reference
:
H. Paidassi, P. Tacnet-Delorme, V. Garlatti, C. Darnault, B. Ghebrehiwet, C. Gaboriaud, G. J. Arlaud, P. Frachet
C1Q Binds Phosphatidylserine And Likely Acts As A Multiligand-Bridging Molecule In Apoptotic Cell Recognition.
J. Immunol. V. 180 2329 2008
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Hetero Components
(1, 1)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
2a: N-ACETYL-D-GLUCOSAMINE (NAGa)
3a: PHOSPHOSERINE (SEPa)
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No.
Name
Count
Type
Full Name
1
CA
-1
Ligand/Ion
CALCIUM ION
2
NAG
-1
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
3
SEP
1
Mod. Residue
PHOSPHOSERINE
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Sites
(2, 2)
Info
All Sites
1: AC3 (SOFTWARE)
2: AC4 (SOFTWARE)
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Label:
No.
Name
Evidence
Residues
Description
1
AC3
SOFTWARE
GLN D:177 , ASP E:172 , TYR E:173 , GLN E:179 , HOH F:2044
BINDING SITE FOR RESIDUE CA E1224
2
AC4
SOFTWARE
LEU C:109 , SER C:126 , THR C:127 , GLN D:160 , VAL D:161 , ARG D:162
BINDING SITE FOR RESIDUE SEP D1223
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SAPs(SNPs)/Variants
(1, 1)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_035551 (A96T, chain E, )
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dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_035551
A
123
T
C1QB_HUMAN
Unclassified
---
E
A
96
T
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(, 0)
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Exons
(0, 0)
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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
(3, 6)
Info
All SCOP Domains
1a: SCOP_d2jg8a1 (A:90-222)
1b: SCOP_d2jg8d1 (D:90-222)
2a: SCOP_d2jg8b1 (B:92-223)
2b: SCOP_d2jg8e1 (E:92-223)
3a: SCOP_d2jg8c1 (C:89-217)
3b: SCOP_d2jg8f1 (F:89-217)
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(
)
Class
:
All beta proteins
(24004)
Fold
:
TNF-like
(100)
Superfamily
:
TNF-like
(100)
Family
:
TNF-like
(82)
Protein domain
:
Complement c1q globular head, A chain
(5)
Human (Homo sapiens) [TaxId: 9606]
(5)
1a
d2jg8a1
A:90-222
1b
d2jg8d1
D:90-222
Protein domain
:
Complement c1q globular head, B chain
(3)
Human (Homo sapiens) [TaxId: 9606]
(3)
2a
d2jg8b1
B:92-223
2b
d2jg8e1
E:92-223
Protein domain
:
Complement c1q globular head, C chain
(5)
Human (Homo sapiens) [TaxId: 9606]
(5)
3a
d2jg8c1
C:89-217
3b
d2jg8f1
F:89-217
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CATH Domains
(1, 6)
Info
all CATH domains
1a: CATH_2jg8A00 (A:90-222)
1b: CATH_2jg8B00 (B:91-224)
1c: CATH_2jg8E00 (E:92-224)
1d: CATH_2jg8C00 (C:87-217)
1e: CATH_2jg8F00 (F:89-217)
1f: CATH_2jg8D00 (D:90-222)
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)
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Organisms
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)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Jelly Rolls
(1293)
Homologous Superfamily
:
[code=2.60.120.40, no name defined]
(56)
Human (Homo sapiens)
(38)
1a
2jg8A00
A:90-222
1b
2jg8B00
B:91-224
1c
2jg8E00
E:92-224
1d
2jg8C00
C:87-217
1e
2jg8F00
F:89-217
1f
2jg8D00
D:90-222
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Pfam Domains
(2, 8)
Info
all PFAM domains
1a: PFAM_C1q_2jg8D01 (D:94-219)
1b: PFAM_C1q_2jg8D02 (D:94-219)
1c: PFAM_C1q_2jg8E01 (E:96-220)
1d: PFAM_C1q_2jg8E02 (E:96-220)
1e: PFAM_C1q_2jg8F01 (F:93-214)
1f: PFAM_C1q_2jg8F02 (F:93-214)
2a: PFAM_Collagen_2jg8B01 (B:91-93)
2b: PFAM_Collagen_2jg8C01 (C:87-89)
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Clan
:
C1q_TNF
(45)
Family
:
C1q
(8)
Homo sapiens (Human)
(7)
1a
C1q-2jg8D01
D:94-219
1b
C1q-2jg8D02
D:94-219
1c
C1q-2jg8E01
E:96-220
1d
C1q-2jg8E02
E:96-220
1e
C1q-2jg8F01
F:93-214
1f
C1q-2jg8F02
F:93-214
Clan
:
no clan defined [family: Collagen]
(7)
Family
:
Collagen
(7)
Homo sapiens (Human)
(2)
2a
Collagen-2jg8B01
B:91-93
2b
Collagen-2jg8C01
C:87-89
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Asymmetric Unit 1
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Asym.Unit (142 KB)
Header - Asym.Unit
Biol.Unit 1 (70 KB)
Header - Biol.Unit 1
Biol.Unit 2 (69 KB)
Header - Biol.Unit 2
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