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2XWJ
Biol. Unit 1
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Asym.Unit (3.0 MB)
Biol.Unit 1 (786 KB)
Biol.Unit 2 (787 KB)
Biol.Unit 3 (788 KB)
Biol.Unit 4 (791 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF COMPLEMENT C3B IN COMPLEX WITH FACTOR B
Authors
:
F. Forneris, D. Ricklin, J. Wu, A. Tzekou, R. S. Wallace, J. D. Lambris, P
Date
:
04 Nov 10 (Deposition) - 12 Jan 11 (Release) - 11 Apr 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
4.00
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A,B,I (1x)
Biol. Unit 2: C,D,J (1x)
Biol. Unit 3: G,H,L (1x)
Biol. Unit 4: E,F,K (1x)
Keywords
:
Immune System, Pro-Convertase, Hydrolase, Serine Protease, Conformational Changes, Alternative Pathway
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
F. Forneris, D. Ricklin, J. Wu, A. Tzekou, R. S. Wallace, J. D. Lambris, P. Gros
Structures Of C3B In Complex With Factors B And D Give Insight Into Complement Convertase Formation.
Science V. 330 1816 2010
[
close entry info
]
Hetero Components
(1, 2)
Info
All Hetero Components
1a: N-ACETYL-D-GLUCOSAMINE (NAGa)
1b: N-ACETYL-D-GLUCOSAMINE (NAGb)
1c: N-ACETYL-D-GLUCOSAMINE (NAGc)
1d: N-ACETYL-D-GLUCOSAMINE (NAGd)
1e: N-ACETYL-D-GLUCOSAMINE (NAGe)
1f: N-ACETYL-D-GLUCOSAMINE (NAGf)
1g: N-ACETYL-D-GLUCOSAMINE (NAGg)
1h: N-ACETYL-D-GLUCOSAMINE (NAGh)
2a: NICKEL (II) ION (NIa)
2b: NICKEL (II) ION (NIb)
2c: NICKEL (II) ION (NIc)
2d: NICKEL (II) ION (NId)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
NAG
2
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
2
NI
-1
Ligand/Ion
NICKEL (II) ION
[
close Hetero Component info
]
Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC5 (SOFTWARE)
3: AC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASN B:917 , THR B:919
BINDING SITE FOR RESIDUE NAG B1917
2
AC5
SOFTWARE
ASN I:353
BINDING SITE FOR RESIDUE NAG I1353
3
AC9
SOFTWARE
ASN B:1641 , SER I:253 , SER I:255 , THR I:328 , HOH I:2001 , HOH I:2002
BINDING SITE FOR RESIDUE NI I1742
[
close Site info
]
SAPs(SNPs)/Variants
(33, 33)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
01: VAR_001983 (R80G, chain A, )
02: VAR_070941 (K133Q, chain A, )
03: VAR_063659 (S141P, chain I, )
04: VAR_063660 (R178Q, chain I, )
05: VAR_063661 (I217L, chain I, )
06: VAR_063221 (F261L, chain I, )
07: VAR_001984 (P292L, chain A, )
08: VAR_063222 (K298E, chain I, )
09: VAR_063662 (K298Q, chain I, )
10: VAR_063663 (M433I, chain I, )
11: VAR_020262 (E447D, chain A, )
12: VAR_063664 (K508R, chain I, )
13: VAR_001985 (D527N, chain A, )
14: VAR_016277 (K540E, chain I, )
15: VAR_063213 (R570Q, chain A, )
16: VAR_063214 (R570W, chain A, )
17: VAR_063654 (F581V, chain A, )
18: VAR_016278 (D626E, chain I, )
19: VAR_006495 (A711S, chain I, )
20: VAR_019206 (R841K, chain B, )
21: VAR_063655 (R1020L, chain B, )
22: VAR_063216 (A1072V, chain B, )
23: VAR_063217 (D1093N, chain B, )
24: VAR_063218 (C1136W, chain B, )
25: VAR_063219 (Q1139K, chain B, )
26: VAR_022761 (D1194N, chain B, )
27: VAR_019207 (G1202D, chain B, )
28: VAR_001986 (R1298Q, chain B, )
29: VAR_019208 (I1345T, chain B, )
30: VAR_063220 (H1442D, chain B, )
31: VAR_029792 (Q1499R, chain B, )
32: VAR_029793 (H1579N, chain B, )
33: VAR_029326 (S1597R, chain B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_001983
R
102
G
CO3_HUMAN
Polymorphism
2230199
A
R
80
G
02
UniProt
VAR_070941
K
155
Q
CO3_HUMAN
Disease (ARMD9)
---
A
K
133
Q
03
UniProt
VAR_063659
S
166
P
CFAB_HUMAN
Disease (AHUS4)
---
I
S
141
P
04
UniProt
VAR_063660
R
203
Q
CFAB_HUMAN
Disease (AHUS4)
---
I
R
178
Q
05
UniProt
VAR_063661
I
242
L
CFAB_HUMAN
Disease (AHUS4)
---
I
I
217
L
06
UniProt
VAR_063221
F
286
L
CFAB_HUMAN
Disease (AHUS4)
---
I
F
261
L
07
UniProt
VAR_001984
P
314
L
CO3_HUMAN
Polymorphism
1047286
A
P
292
L
08
UniProt
VAR_063222
K
323
E
CFAB_HUMAN
Disease (AHUS4)
---
I
K
298
E
09
UniProt
VAR_063662
K
323
Q
CFAB_HUMAN
Disease (AHUS4)
---
I
K
298
Q
10
UniProt
VAR_063663
M
458
I
CFAB_HUMAN
Disease (AHUS4)
---
I
M
433
I
11
UniProt
VAR_020262
E
469
D
CO3_HUMAN
Polymorphism
11569422
A
E
447
D
12
UniProt
VAR_063664
K
533
R
CFAB_HUMAN
Disease (AHUS4)
---
I
K
508
R
13
UniProt
VAR_001985
D
549
N
CO3_HUMAN
Disease (C3D)
---
A
D
527
N
14
UniProt
VAR_016277
K
565
E
CFAB_HUMAN
Polymorphism
4151659
I
K
540
E
15
UniProt
VAR_063213
R
592
Q
CO3_HUMAN
Disease (AHUS5)
---
A
R
570
Q
16
UniProt
VAR_063214
R
592
W
CO3_HUMAN
Disease (AHUS5)
---
A
R
570
W
17
UniProt
VAR_063654
F
603
V
CO3_HUMAN
Disease (AHUS5)
---
A
F
581
V
18
UniProt
VAR_016278
D
651
E
CFAB_HUMAN
Polymorphism
4151660
I
D
626
E
19
UniProt
VAR_006495
A
736
S
CFAB_HUMAN
Polymorphism
---
I
A
711
S
20
UniProt
VAR_019206
R
863
K
CO3_HUMAN
Polymorphism
11569472
B
R
841
K
21
UniProt
VAR_063655
R
1042
L
CO3_HUMAN
Disease (AHUS5)
---
B
R
1020
L
22
UniProt
VAR_063216
A
1094
V
CO3_HUMAN
Disease (AHUS5)
---
B
A
1072
V
23
UniProt
VAR_063217
D
1115
N
CO3_HUMAN
Disease (AHUS5)
---
B
D
1093
N
24
UniProt
VAR_063218
C
1158
W
CO3_HUMAN
Disease (AHUS5)
---
B
C
1136
W
25
UniProt
VAR_063219
Q
1161
K
CO3_HUMAN
Disease (AHUS5)
---
B
Q
1139
K
26
UniProt
VAR_022761
D
1216
N
CO3_HUMAN
Unclassified
---
B
D
1194
N
27
UniProt
VAR_019207
G
1224
D
CO3_HUMAN
Polymorphism
11569534
B
G
1202
D
28
UniProt
VAR_001986
R
1320
Q
CO3_HUMAN
Disease (C3D)
---
B
R
1298
Q
29
UniProt
VAR_019208
I
1367
T
CO3_HUMAN
Polymorphism
11569541
B
I
1345
T
30
UniProt
VAR_063220
H
1464
D
CO3_HUMAN
Disease (AHUS5)
---
B
H
1442
D
31
UniProt
VAR_029792
Q
1521
R
CO3_HUMAN
Polymorphism
7256789
B
Q
1499
R
32
UniProt
VAR_029793
H
1601
N
CO3_HUMAN
Polymorphism
1803225
B
H
1579
N
33
UniProt
VAR_029326
S
1619
R
CO3_HUMAN
Polymorphism
2230210
B
S
1597
R
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(7, 9)
Info
All PROSITE Patterns/Profiles
1: SUSHI (I:10-75)
2: VWFA (I:245-444)
3: TRYPSIN_DOM (I:452-732)
4: TRYPSIN_HIS (I:497-502)
5: TRYPSIN_SER (I:668-679)
6: ALPHA_2_MACROGLOBULIN (B:985-993)
7: NTR (B:1496-1639)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
SUSHI
PS50923
Sushi/CCP/SCR domain profile.
CFAB_HUMAN
35-100
101-160
163-220
3
I:10-75
-
-
-
I:76-135
-
-
-
I:138-195
-
-
-
2
VWFA
PS50234
VWFA domain profile.
CFAB_HUMAN
270-469
1
I:245-444
-
-
-
3
TRYPSIN_DOM
PS50240
Serine proteases, trypsin domain profile.
CFAB_HUMAN
477-757
1
I:452-732
-
-
-
4
TRYPSIN_HIS
PS00134
Serine proteases, trypsin family, histidine active site.
CFAB_HUMAN
522-527
1
I:497-502
-
-
-
5
TRYPSIN_SER
PS00135
Serine proteases, trypsin family, serine active site.
CFAB_HUMAN
693-704
1
I:668-679
-
-
-
6
ALPHA_2_MACROGLOBULIN
PS00477
Alpha-2-macroglobulin family thiolester region signature.
CO3_HUMAN
1007-1015
1
B:985-993
-
-
-
7
NTR
PS50189
NTR domain profile.
CO3_HUMAN
1518-1661
1
B:1496-1639
-
-
-
[
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.
(no "Exon" information available for biological units yet)
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(10, 48)
Info
all PFAM domains
01a: PFAM_A2M_comp_2xwjH01 (H:1029-1262)
01b: PFAM_A2M_comp_2xwjH02 (H:1029-1262)
01c: PFAM_A2M_comp_2xwjH03 (H:1029-1262)
01d: PFAM_A2M_comp_2xwjH04 (H:1029-1262)
02a: PFAM_A2M_N_2xwjG01 (G:107-202)
02b: PFAM_A2M_N_2xwjG02 (G:107-202)
02c: PFAM_A2M_N_2xwjG03 (G:107-202)
02d: PFAM_A2M_N_2xwjG04 (G:107-202)
03a: PFAM_A2M_2xwjH05 (H:748-844)
03b: PFAM_A2M_2xwjH06 (H:748-844)
03c: PFAM_A2M_2xwjH07 (H:748-844)
03d: PFAM_A2M_2xwjH08 (H:748-844)
04a: PFAM_Trypsin_2xwjL01 (L:456-727)
04b: PFAM_Trypsin_2xwjL02 (L:456-727)
04c: PFAM_Trypsin_2xwjL03 (L:456-727)
04d: PFAM_Trypsin_2xwjL04 (L:456-727)
05a: PFAM_NTR_2xwjH09 (H:1512-1622)
05b: PFAM_NTR_2xwjH10 (H:1512-1622)
05c: PFAM_NTR_2xwjH11 (H:1512-1622)
05d: PFAM_NTR_2xwjH12 (H:1512-1622)
06a: PFAM_A2M_N_2_2xwjG05 (G:434-583)
06b: PFAM_A2M_N_2_2xwjG06 (G:434-583)
06c: PFAM_A2M_N_2_2xwjG07 (G:434-583)
06d: PFAM_A2M_N_2_2xwjG08 (G:434-583)
07a: PFAM_A2M_recep_2xwjH13 (H:1376-1471)
07b: PFAM_A2M_recep_2xwjH14 (H:1376-1471)
07c: PFAM_A2M_recep_2xwjH15 (H:1376-1471)
07d: PFAM_A2M_recep_2xwjH16 (H:1376-1471)
08a: PFAM_Sushi_2xwjL05 (L:140-193)
08b: PFAM_Sushi_2xwjL06 (L:140-193)
08c: PFAM_Sushi_2xwjL07 (L:140-193)
08d: PFAM_Sushi_2xwjL08 (L:140-193)
08e: PFAM_Sushi_2xwjL09 (L:140-193)
08f: PFAM_Sushi_2xwjL10 (L:140-193)
08g: PFAM_Sushi_2xwjL11 (L:140-193)
08h: PFAM_Sushi_2xwjL12 (L:140-193)
08i: PFAM_Sushi_2xwjL13 (L:140-193)
08j: PFAM_Sushi_2xwjL14 (L:140-193)
08k: PFAM_Sushi_2xwjL15 (L:140-193)
08l: PFAM_Sushi_2xwjL16 (L:140-193)
09a: PFAM_Thiol_ester_cl_2xwjH17 (H:977-1007)
09b: PFAM_Thiol_ester_cl_2xwjH18 (H:977-1007)
09c: PFAM_Thiol_ester_cl_2xwjH19 (H:977-1007)
09d: PFAM_Thiol_ester_cl_2xwjH20 (H:977-1007)
10a: PFAM_VWA_2xwjL17 (L:245-443)
10b: PFAM_VWA_2xwjL18 (L:245-443)
10c: PFAM_VWA_2xwjL19 (L:245-443)
10d: PFAM_VWA_2xwjL20 (L:245-443)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
6_Hairpin
(120)
Family
:
A2M_comp
(16)
Homo sapiens (Human)
(13)
01a
A2M_comp-2xwjH01
H:1029-1262
01b
A2M_comp-2xwjH02
H:1029-1262
01c
A2M_comp-2xwjH03
H:1029-1262
01d
A2M_comp-2xwjH04
H:1029-1262
Clan
:
E-set
(290)
Family
:
A2M_N
(14)
Homo sapiens (Human)
(13)
02a
A2M_N-2xwjG01
G:107-202
02b
A2M_N-2xwjG02
G:107-202
02c
A2M_N-2xwjG03
G:107-202
02d
A2M_N-2xwjG04
G:107-202
Clan
:
Ig
(577)
Family
:
A2M
(13)
Homo sapiens (Human)
(12)
03a
A2M-2xwjH05
H:748-844
03b
A2M-2xwjH06
H:748-844
03c
A2M-2xwjH07
H:748-844
03d
A2M-2xwjH08
H:748-844
Clan
:
Peptidase_PA
(797)
Family
:
Trypsin
(679)
Homo sapiens (Human)
(339)
04a
Trypsin-2xwjL01
L:456-727
04b
Trypsin-2xwjL02
L:456-727
04c
Trypsin-2xwjL03
L:456-727
04d
Trypsin-2xwjL04
L:456-727
Clan
:
TIMP-like
(15)
Family
:
NTR
(13)
Homo sapiens (Human)
(13)
05a
NTR-2xwjH09
H:1512-1622
05b
NTR-2xwjH10
H:1512-1622
05c
NTR-2xwjH11
H:1512-1622
05d
NTR-2xwjH12
H:1512-1622
Clan
:
no clan defined [family: A2M_N_2]
(13)
Family
:
A2M_N_2
(13)
Homo sapiens (Human)
(12)
06a
A2M_N_2-2xwjG05
G:434-583
06b
A2M_N_2-2xwjG06
G:434-583
06c
A2M_N_2-2xwjG07
G:434-583
06d
A2M_N_2-2xwjG08
G:434-583
Clan
:
no clan defined [family: A2M_recep]
(13)
Family
:
A2M_recep
(13)
Homo sapiens (Human)
(12)
07a
A2M_recep-2xwjH13
H:1376-1471
07b
A2M_recep-2xwjH14
H:1376-1471
07c
A2M_recep-2xwjH15
H:1376-1471
07d
A2M_recep-2xwjH16
H:1376-1471
Clan
:
no clan defined [family: Sushi]
(50)
Family
:
Sushi
(50)
Homo sapiens (Human)
(42)
08a
Sushi-2xwjL05
L:140-193
08b
Sushi-2xwjL06
L:140-193
08c
Sushi-2xwjL07
L:140-193
08d
Sushi-2xwjL08
L:140-193
08e
Sushi-2xwjL09
L:140-193
08f
Sushi-2xwjL10
L:140-193
08g
Sushi-2xwjL11
L:140-193
08h
Sushi-2xwjL12
L:140-193
08i
Sushi-2xwjL13
L:140-193
08j
Sushi-2xwjL14
L:140-193
08k
Sushi-2xwjL15
L:140-193
08l
Sushi-2xwjL16
L:140-193
Clan
:
no clan defined [family: Thiol-ester_cl]
(12)
Family
:
Thiol-ester_cl
(12)
Homo sapiens (Human)
(9)
09a
Thiol-ester_cl-2xwjH17
H:977-1007
09b
Thiol-ester_cl-2xwjH18
H:977-1007
09c
Thiol-ester_cl-2xwjH19
H:977-1007
09d
Thiol-ester_cl-2xwjH20
H:977-1007
Clan
:
vWA-like
(60)
Family
:
VWA
(50)
Homo sapiens (Human)
(47)
10a
VWA-2xwjL17
L:245-443
10b
VWA-2xwjL18
L:245-443
10c
VWA-2xwjL19
L:245-443
10d
VWA-2xwjL20
L:245-443
[
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select :A, :C
select chains 'A' and 'C'
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select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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select non-helix/non-sheet protein parts
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set label size to 20 (allowed range: 1-58)
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show SS bonds with a radius of 100 units (=0.4Å)
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