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Getting 'Biological Unit' information from database.
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Getting 'Hetero Component' information from database.
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Getting 'Exon' information from database.
4D9R
Asym. Unit
Info
Asym.Unit (215 KB)
Biol.Unit 1 (108 KB)
Biol.Unit 2 (107 KB)
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(1)
Title
:
INHIBITING ALTERNATIVE PATHWAY COMPLEMENT ACTIVATION BY TARGETING THE EXOSITE ON FACTOR D
Authors
:
J. M. Murray, C. Wiesmann
Date
:
11 Jan 12 (Deposition) - 22 Feb 12 (Release) - 02 May 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.42
Chains
:
Asym. Unit : A,B,D,E,H,L
Biol. Unit 1: A,H,L (1x)
Biol. Unit 2: B,D,E (1x)
Keywords
:
Factor D, Complement, Antibody, Exosite, Fab, Chymotrypsin, Protease, Hydrolase-Immune System Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. J. Katschke, P. Wu, R. Ganesan, R. F. Kelley, M. A. Mathieu, P. E. Hass J. Murray, D. Kirchhofer, C. Wiesmann, M. Van Lookeren Campagne
Inhibiting Alternative Pathway Complement Activation By Targeting The Factor D Exosite.
J. Biol. Chem. V. 287 12886 2012
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
View:
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Label:
No.
Name
Count
Type
Full Name
1
CL
2
Ligand/Ion
CHLORIDE ION
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ARG D:55 , HOH D:408 , ASN E:109
BINDING SITE FOR RESIDUE CL D 301
2
AC2
SOFTWARE
ASP D:92
BINDING SITE FOR RESIDUE CL D 302
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SAPs(SNPs)/Variants
(5, 10)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_066403 (W148R, chain D/L, )
2: VAR_003897 (V191L, chain D/L, )
3: VAR_034866 (V200G, chain A/B, )
4: VAR_034867 (C201R, chain A/B, )
5: VAR_034868 (I238M, chain A/B, )
View:
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Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_066403
W
40
R
IGKC_HUMAN
Disease (IGKCD)
---
D/L
W
148
R
2
UniProt
VAR_003897
V
83
L
IGKC_HUMAN
Unclassified
---
D/L
V
191
L
3
UniProt
VAR_034866
V
213
G
CFAD_HUMAN
Disease (CFDD)
---
A/B
V
200
G
4
UniProt
VAR_034867
C
214
R
CFAD_HUMAN
Disease (CFDD)
---
A/B
C
201
R
5
UniProt
VAR_034868
I
248
M
CFAD_HUMAN
Polymorphism
2230216
A/B
I
238
M
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(4, 8)
Info
All PROSITE Patterns/Profiles
1: TRYPSIN_DOM (A:16-243,B:16-243)
2: TRYPSIN_HIS (A:53-58,B:53-58)
3: IG_MHC (D:192-198,L:192-198)
4: TRYPSIN_SER (A:189-200,B:189-200)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TRYPSIN_DOM
PS50240
Serine proteases, trypsin domain profile.
CFAD_HUMAN
26-253
2
A:16-243
B:16-243
2
TRYPSIN_HIS
PS00134
Serine proteases, trypsin family, histidine active site.
CFAD_HUMAN
62-67
2
A:53-58
B:53-58
3
IG_MHC
PS00290
Immunoglobulins and major histocompatibility complex proteins signature.
IGKC_HUMAN
85-91
2
D:192-198
L:192-198
4
TRYPSIN_SER
PS00135
Serine proteases, trypsin family, serine active site.
CFAD_HUMAN
202-213
2
A:189-200
B:189-200
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Exons
(4, 8)
Info
All Exons
Exon 1.2 (A:16-61A (gaps) | B:16-61A (gaps))
Exon 1.3 (A:61A-107 | B:61A-107)
Exon 1.4 (A:108-192 (gaps) | B:108-192 (gaps...)
Exon 1.5 (A:193-243 (gaps) | B:193-243 (gaps...)
View:
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All Exon Boundaries
1: Boundary 1.1/1.2
2: Boundary 1.2/1.3
3: Boundary 1.3/1.4
4: Boundary 1.4/1.5
5: Boundary 1.5/-
View:
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
ENST00000327726
1
ENSE00001231576
chr19:
859665-859744
80
CFAD_HUMAN
1-19
19
0
-
-
1.2
ENST00000327726
2
ENSE00001231561
chr19:
860617-860773
157
CFAD_HUMAN
19-71
53
2
A:16-61A (gaps)
B:16-61A (gaps)
47
47
1.3
ENST00000327726
3
ENSE00001231555
chr19:
860861-861005
145
CFAD_HUMAN
71-119
49
2
A:61A-107
B:61A-107
49
49
1.4
ENST00000327726
4
ENSE00001374327
chr19:
861699-861956
258
CFAD_HUMAN
120-205
86
2
A:108-192 (gaps)
B:108-192 (gaps)
89
89
1.5
ENST00000327726
5
ENSE00001354943
chr19:
863092-863606
515
CFAD_HUMAN
206-253
48
2
A:193-243 (gaps)
B:193-243 (gaps)
52
52
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SCOP Domains
(3, 6)
Info
All SCOP Domains
1a: SCOP_d4d9rd1 (D:1-107)
1b: SCOP_d4d9rl1 (L:1-107)
2a: SCOP_d4d9rd2 (D:108-213)
2b: SCOP_d4d9rl2 (L:108-214)
3a: SCOP_d4d9ra_ (A:)
3b: SCOP_d4d9rb_ (B:)
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Protein Domains
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Class
:
All beta proteins
(24004)
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
Immunoglobulin
(5995)
Family
:
automated matches
(864)
Protein domain
:
automated matches
(864)
Human (Homo sapiens) [TaxId: 9606]
(448)
1a
d4d9rd1
D:1-107
1b
d4d9rl1
L:1-107
Family
:
C1 set domains (antibody constant domain-like)
(3013)
Protein domain
:
automated matches
(652)
Human (Homo sapiens) [TaxId: 9606]
(334)
2a
d4d9rd2
D:108-213
2b
d4d9rl2
L:108-214
Fold
:
Trypsin-like serine proteases
(1752)
Superfamily
:
Trypsin-like serine proteases
(1752)
Family
:
Eukaryotic proteases
(1343)
Protein domain
:
Factor D
(12)
Human (Homo sapiens) [TaxId: 9606]
(12)
3a
d4d9ra_
A:
3b
d4d9rb_
B:
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CATH Domains
(0, 0)
Info
all CATH domains
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Pfam Domains
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Chain D
Chain E
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Chain L
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Asym.Unit (215 KB)
Header - Asym.Unit
Biol.Unit 1 (108 KB)
Header - Biol.Unit 1
Biol.Unit 2 (107 KB)
Header - Biol.Unit 2
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