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3OJY
Asym. Unit
Info
Asym.Unit (197 KB)
Biol.Unit 1 (188 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN COMPLEMENT COMPONENT C8
Authors
:
L. L. Lovelace, C. L. Cooper, J. M. Sodetz, L. Lebioda
Date
:
23 Aug 10 (Deposition) - 13 Apr 11 (Release) - 16 Apr 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.51
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (1x)
Keywords
:
Macpf, Lipocalin, Complement, Immune System
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
L. L. Lovelace, C. L. Cooper, J. M. Sodetz, L. Lebioda
Structure Of Human C8 Protein Provides Mechanistic Insight Into Membrane Pore Formation By Complement.
J. Biol. Chem. V. 286 17585 2011
[
close entry info
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Hetero Components
(3, 11)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
1c: BETA-D-MANNOSE (BMAc)
1d: BETA-D-MANNOSE (BMAd)
1e: BETA-D-MANNOSE (BMAe)
1f: BETA-D-MANNOSE (BMAf)
1g: BETA-D-MANNOSE (BMAg)
1h: BETA-D-MANNOSE (BMAh)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
3a: PHOSPHOTHREONINE (TPOa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
8
Ligand/Ion
BETA-D-MANNOSE
2
CA
2
Ligand/Ion
CALCIUM ION
3
TPO
1
Mod. Amino Acid
PHOSPHOTHREONINE
[
close Hetero Component info
]
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:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LEU A:83 , ASN A:86 , ASP A:88 , ASP A:90 , ASP A:96 , GLU A:97
BINDING SITE FOR RESIDUE CA A 555
02
AC2
SOFTWARE
LEU B:84 , ASN B:87 , ASP B:89 , ASP B:91 , ASP B:97 , GLU B:98
BINDING SITE FOR RESIDUE CA B 538
03
AC3
SOFTWARE
ASN A:13 , TRP A:14 , ARG A:29 , GLU C:169
BINDING SITE FOR RESIDUE BMA A 556
04
AC4
SOFTWARE
SER A:511 , TRP A:512 , ARG A:530
BINDING SITE FOR RESIDUE BMA A 557
05
AC5
SOFTWARE
LEU A:461 , TRP A:515 , ARG A:528
BINDING SITE FOR RESIDUE BMA A 558
06
AC6
SOFTWARE
TRP A:518 , GLN B:511
BINDING SITE FOR RESIDUE BMA A 559
07
AC7
SOFTWARE
SER B:15 , TRP B:16 , ARG B:31
BINDING SITE FOR RESIDUE BMA B 539
08
AC8
SOFTWARE
TRP B:19 , ARG B:29
BINDING SITE FOR RESIDUE BMA B 540
09
AC9
SOFTWARE
GLN B:443 , LYS B:444 , SER B:447 , CYS B:496 , TRP B:497 , LYS B:508
BINDING SITE FOR RESIDUE BMA B 541
10
BC1
SOFTWARE
LYS B:444 , TRP B:500 , ARG B:506
BINDING SITE FOR RESIDUE BMA B 542
[
close Site info
]
SAPs(SNPs)/Variants
(11, 11)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_014668 (R49Q, chain C, )
02: VAR_027649 (E54K, chain B, )
03: VAR_012642 (R63G, chain B, )
04: VAR_011889 (Q63K, chain A, )
05: VAR_014669 (H104N, chain C, )
06: VAR_027650 (P207L, chain B, )
07: VAR_011890 (T377I, chain A, )
08: VAR_033800 (D428N, chain A, )
09: VAR_011891 (R455L, chain A, )
10: VAR_011892 (E531Q, chain A, )
11: VAR_033801 (P545L, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_014668
R
69
Q
CO8G_HUMAN
Polymorphism
17614
C
R
49
Q
02
UniProt
VAR_027649
E
108
K
CO8B_HUMAN
Polymorphism
12067507
B
E
54
K
03
UniProt
VAR_012642
R
117
G
CO8B_HUMAN
Polymorphism
1013579
B
R
63
G
04
UniProt
VAR_011889
Q
93
K
CO8A_HUMAN
Polymorphism
652785
A
Q
63
K
05
UniProt
VAR_014669
H
124
N
CO8G_HUMAN
Polymorphism
17613
C
H
104
N
06
UniProt
VAR_027650
P
261
L
CO8B_HUMAN
Polymorphism
12085435
B
P
207
L
07
UniProt
VAR_011890
T
407
I
CO8A_HUMAN
Polymorphism
706479
A
T
377
I
08
UniProt
VAR_033800
D
458
N
CO8A_HUMAN
Polymorphism
17114555
A
D
428
N
09
UniProt
VAR_011891
R
485
L
CO8A_HUMAN
Polymorphism
1620075
A
R
455
L
10
UniProt
VAR_011892
E
561
Q
CO8A_HUMAN
Polymorphism
1342440
A
E
531
Q
11
UniProt
VAR_033801
P
575
L
CO8A_HUMAN
Polymorphism
17300936
A
P
545
L
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(7, 15)
Info
All PROSITE Patterns/Profiles
1: TSP1 (A:8-60|A:509-552,B:10-63|B:491-536)
2: LIPOCALIN (C:21-34)
3: LDLRA_2 (A:65-101,B:67-102)
4: LDLRA_1 (A:78-100,B:79-101)
5: MACPF_2 (A:105-468,B:104-450)
6: MACPF_1 (A:300-311,B:279-290)
7: EGF_1 (A:487-498,B:469-480)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TSP1
PS50092
Thrombospondin type-1 (TSP1) repeat profile.
CO8A_HUMAN
38-91
539-583
2
A:8-60
A:509-552
CO8B_HUMAN
64-117
545-591
2
B:10-63
B:491-536
2
LIPOCALIN
PS00213
Lipocalin signature.
CO8G_HUMAN
41-54
1
C:21-34
3
LDLRA_2
PS50068
LDL-receptor class A (LDLRA) domain profile.
CO8A_HUMAN
95-131
1
A:65-101
CO8B_HUMAN
121-156
1
B:67-102
4
LDLRA_1
PS01209
LDL-receptor class A (LDLRA) domain signature.
CO8A_HUMAN
108-130
1
A:78-100
CO8B_HUMAN
133-155
1
B:79-101
5
MACPF_2
PS51412
Membrane attack complex/perforin (MACPF) domain profile.
CO8A_HUMAN
135-498
1
A:105-468
CO8B_HUMAN
158-504
1
B:104-450
6
MACPF_1
PS00279
Membrane attack complex/perforin (MACPF) domain signature.
CO8A_HUMAN
330-341
1
A:300-311
CO8B_HUMAN
333-344
1
B:279-290
7
EGF_1
PS00022
EGF-like domain signature 1.
CO8A_HUMAN
517-528
1
A:487-498
CO8B_HUMAN
523-534
1
B:469-480
[
close PROSITE info
]
Exons
(17, 17)
Info
All Exons
Exon 1.1b (C:13-26)
Exon 1.2 (C:27-72)
Exon 1.3 (C:72-95)
Exon 1.4a (C:99-132)
Exon 1.6c (C:132-166)
Exon 1.7a (C:166-179)
Exon 1.7c (C:179-180)
Exon 2.2 (A:2-27)
Exon 2.3 (A:28-76 (gaps))
Exon 2.4 (A:76-125)
Exon 2.5 (A:125-188)
Exon 2.6 (A:189-255 (gaps))
Exon 2.7 (A:256-336)
Exon 2.8 (A:336-378 (gaps))
Exon 2.9 (A:378-430 (gaps))
Exon 2.10 (A:431-499)
Exon 2.11 (A:506-552 (gaps))
View:
Select:
Label:
All Exon Boundaries
01: Boundary -/1.1b
02: Boundary 1.1b/1.2
03: Boundary 1.2/1.3
04: Boundary 1.3/1.4a
05: Boundary 1.4a/1.6c
06: Boundary 1.6c/1.7a
07: Boundary 1.7a/1.7c
08: Boundary 1.7c/-
09: Boundary 2.1/2.2
10: Boundary 2.2/2.3
11: Boundary 2.3/2.4
12: Boundary 2.4/2.5
13: Boundary 2.5/2.6
14: Boundary 2.6/2.7
15: Boundary 2.7/2.8
16: Boundary 2.8/2.9
17: Boundary 2.9/2.10
18: Boundary 2.10/2.11
19: Boundary 2.11/-
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
1.1b
ENST00000224181
1b
ENSE00001834506
chr9:
139839713-139839910
198
CO8G_HUMAN
1-46
46
1
C:13-26
14
1.2
ENST00000224181
2
ENSE00000734163
chr9:
139840086-139840222
137
CO8G_HUMAN
47-92
46
1
C:27-72
46
1.3
ENST00000224181
3
ENSE00001194952
chr9:
139840381-139840451
71
CO8G_HUMAN
92-116
25
1
C:72-95
24
1.4a
ENST00000224181
4a
ENSE00000734168
chr9:
139840537-139840644
108
CO8G_HUMAN
116-152
37
1
C:99-132
34
1.6c
ENST00000224181
6c
ENSE00000734170
chr9:
139840917-139841018
102
CO8G_HUMAN
152-186
35
1
C:132-166
35
1.7a
ENST00000224181
7a
ENSE00001407255
chr9:
139841103-139841141
39
CO8G_HUMAN
186-199
14
1
C:166-179
14
1.7c
ENST00000224181
7c
ENSE00001902507
chr9:
139841220-139841419
200
CO8G_HUMAN
199-202
4
1
C:179-180
2
2.1
ENST00000361249
1
ENSE00001436108
chr1:
57320479-57320651
173
CO8A_HUMAN
1-26
26
0
-
-
2.2
ENST00000361249
2
ENSE00001390177
chr1:
57333282-57333375
94
CO8A_HUMAN
26-57
32
1
A:2-27
26
2.3
ENST00000361249
3
ENSE00001436153
chr1:
57340622-57340766
145
CO8A_HUMAN
58-106
49
1
A:28-76 (gaps)
49
2.4
ENST00000361249
4
ENSE00001030576
chr1:
57341735-57341882
148
CO8A_HUMAN
106-155
50
1
A:76-125
50
2.5
ENST00000361249
5
ENSE00001381670
chr1:
57347118-57347307
190
CO8A_HUMAN
155-218
64
1
A:125-188
64
2.6
ENST00000361249
6
ENSE00001030560
chr1:
57349154-57349354
201
CO8A_HUMAN
219-285
67
1
A:189-255 (gaps)
67
2.7
ENST00000361249
7
ENSE00001436552
chr1:
57351600-57351840
241
CO8A_HUMAN
286-366
81
1
A:256-336
81
2.8
ENST00000361249
8
ENSE00001382619
chr1:
57372340-57372465
126
CO8A_HUMAN
366-408
43
1
A:336-378 (gaps)
43
2.9
ENST00000361249
9
ENSE00001030541
chr1:
57373629-57373786
158
CO8A_HUMAN
408-460
53
1
A:378-430 (gaps)
53
2.10
ENST00000361249
10
ENSE00001436003
chr1:
57378076-57378298
223
CO8A_HUMAN
461-535
75
1
A:431-499
69
2.11
ENST00000361249
11
ENSE00001422483
chr1:
57383238-57383894
657
CO8A_HUMAN
535-584
50
1
A:506-552 (gaps)
47
[
close EXON info
]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d3ojyc_ (C:)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
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(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Lipocalins
(514)
Superfamily
:
Lipocalins
(514)
Family
:
Retinol binding protein-like
(261)
Protein domain
:
automated matches
(36)
Human (Homo sapiens) [TaxId: 9606]
(11)
1a
d3ojyc_
C:
[
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]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
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Pfam Domains
(4, 6)
Info
all PFAM domains
1a: PFAM_MACPF_3ojyA01 (A:244-460)
1b: PFAM_MACPF_3ojyB01 (B:215-442)
2a: PFAM_Lipocalin_3ojyC01 (C:28-166)
3a: PFAM_Ldl_recept_a_3ojyA02 (A:64-100)
3b: PFAM_Ldl_recept_a_3ojyB02 (B:61-101)
4a: PFAM_TSP_1_3ojyA03 (A:510-552)
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Clans
(
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(
)
Families
(
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(
)
Organisms
(
)
(
)
Clan
:
CDC
(6)
Family
:
MACPF
(3)
Homo sapiens (Human)
(2)
1a
MACPF-3ojyA01
A:244-460
1b
MACPF-3ojyB01
B:215-442
Clan
:
Calycin
(163)
Family
:
Lipocalin
(123)
Homo sapiens (Human)
(41)
2a
Lipocalin-3ojyC01
C:28-166
Clan
:
no clan defined [family: Ldl_recept_a]
(10)
Family
:
Ldl_recept_a
(10)
Homo sapiens (Human)
(9)
3a
Ldl_recept_a-3ojyA02
A:64-100
3b
Ldl_recept_a-3ojyB02
B:61-101
Clan
:
no clan defined [family: TSP_1]
(3)
Family
:
TSP_1
(3)
Homo sapiens (Human)
(2)
4a
TSP_1-3ojyA03
A:510-552
[
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