PLEASE WAIT...
Getting 'Biological Unit' information from database.
PLEASE WAIT...
Getting 'Hetero Component' information from database.
PLEASE WAIT...
Getting 'Site' information from database.
PLEASE WAIT...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
2W86
Asym. Unit
Info
Asym.Unit (54 KB)
Biol.Unit 1 (49 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
CRYSTAL STRUCTURE OF FIBRILLIN-1 DOMAINS CBEGF9HYB2CBEGF10, CALCIUM SATURATED FORM
Authors
:
S. A. Jensen, S. Iqbal, E. D. Lowe, C. Redfield, P. A. Handford
Date
:
09 Jan 09 (Deposition) - 26 May 09 (Release) - 26 May 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.80
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Fibrillin, Phosphoprotein, Egf-Like Domain, Disease Mutation, Craniosynostosis, Extracellular Matrix, Fibrillin Calcium Cbegf Hybrid, Calcium, Secreted, Polymorphism, Glycoprotein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. A. Jensen, S. Iqbal, E. D. Lowe, C. Redfield, P. A. Handford
Structure And Interdomain Interactions Of A Hybrid Domain: A Disulphide-Rich Module Of The Fibrillin/Ltbp Superfamily Of Matrix Proteins.
Structure V. 17 759 2009
[
close entry info
]
Hetero Components
(2, 5)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
2a: IODIDE ION (IODa)
2b: IODIDE ION (IODb)
2c: IODIDE ION (IODc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
2
Ligand/Ion
CALCIUM ION
2
IOD
3
Ligand/Ion
IODIDE ION
[
close Hetero Component info
]
Sites
(5, 5)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP A:3 , ILE A:4 , GLU A:6 , ASN A:19 , SER A:20 , SER A:23 , HOH A:2069
BINDING SITE FOR RESIDUE CA A1148
2
AC2
SOFTWARE
ASP A:106 , ILE A:107 , GLU A:109 , ASN A:124 , THR A:125 , SER A:128 , HOH A:2110
BINDING SITE FOR RESIDUE CA A1149
3
AC3
SOFTWARE
ARG A:98 , SER A:135
BINDING SITE FOR RESIDUE IOD A1150
4
AC4
SOFTWARE
LEU A:67
BINDING SITE FOR RESIDUE IOD A1151
5
AC5
SOFTWARE
GLY A:56 , ARG A:57 , ALA A:65
BINDING SITE FOR RESIDUE IOD A1152
[
close Site info
]
SAPs(SNPs)/Variants
(12, 12)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_065987 (C7Y, chain A, )
02: VAR_017991 (C12S, chain A, )
03: VAR_023871 (C28Y, chain A, )
04: VAR_065988 (C49S, chain A, )
05: VAR_002294 (C58R, chain A, )
06: VAR_023872 (C86G, chain A, )
07: VAR_017992 (C86R, chain A, )
08: VAR_017993 (C104R, chain A, )
09: VAR_017994 (E109G, chain A, )
10: VAR_017995 (C117G, chain A, )
11: VAR_002295 (C122R, chain A, )
12: VAR_065989 (C122Y, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_065987
C
811
Y
FBN1_HUMAN
Disease (MFS)
---
A
C
7
Y
02
UniProt
VAR_017991
C
816
S
FBN1_HUMAN
Disease (MFS)
---
A
C
12
S
03
UniProt
VAR_023871
C
832
Y
FBN1_HUMAN
Disease (MFS)
---
A
C
28
Y
04
UniProt
VAR_065988
C
853
S
FBN1_HUMAN
Disease (MFS)
---
A
C
49
S
05
UniProt
VAR_002294
C
862
R
FBN1_HUMAN
Disease (MFS)
---
A
C
58
R
06
UniProt
VAR_023872
C
890
G
FBN1_HUMAN
Disease (MFS)
---
A
C
86
G
07
UniProt
VAR_017992
C
890
R
FBN1_HUMAN
Disease (MFS)
---
A
C
86
R
08
UniProt
VAR_017993
C
908
R
FBN1_HUMAN
Disease (MFS)
---
A
C
104
R
09
UniProt
VAR_017994
E
913
G
FBN1_HUMAN
Disease (MFS)
---
A
E
109
G
10
UniProt
VAR_017995
C
921
G
FBN1_HUMAN
Disease (MFS)
---
A
C
117
G
11
UniProt
VAR_002295
C
926
R
FBN1_HUMAN
Disease (MFS)
---
A
C
122
R
12
UniProt
VAR_065989
C
926
Y
FBN1_HUMAN
Disease (MFS)
---
A
C
122
Y
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(4, 7)
Info
All PROSITE Patterns/Profiles
1: EGF_3 (-|-|-|-|-|-|-|-|-|A:3-42|A:106-147...)
2: TB (-|-|-|A:47-86|-|-|-|-|-)
3: EGF_CA (-|-|-|-|-|-|-|-|A:3-26|A:106-131|-...)
4: ASX_HYDROXYL (-|-|-|-|-|-|-|-|A:17-28|A:122-133|...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
EGF_3
PS50026
EGF-like domain profile.
FBN1_HUMAN
146-178
246-287
288-329
490-525
530-571
572-612
613-653
723-764
765-806
807-846
910-951
1028-1069
1070-1112
1113-1154
1155-1196
1197-1237
1238-1279
1280-1317
1322-1362
1363-1401
1404-1445
1446-1482
1487-1527
1606-1647
1648-1684
1766-1807
1808-1848
1849-1886
1891-1926
1930-1972
1973-2012
2013-2054
2127-2165
2166-2205
2206-2246
2247-2290
2291-2332
2402-2439
2444-2484
2485-2521
2524-2566
2567-2606
2607-2643
2648-2687
2
-
-
-
-
-
-
-
-
-
A:3-42
A:106-147
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
2
TB
PS51364
TGF-beta binding (TB) domain profile.
FBN1_HUMAN
184-227
334-389
659-711
851-890
956-1008
1532-1589
1693-1748
2059-2111
2337-2390
1
-
-
-
A:47-86
-
-
-
-
-
3
EGF_CA
PS01187
Calcium-binding EGF-like domain signature.
FBN1_HUMAN
246-271
288-313
490-513
530-555
572-596
613-637
723-748
765-790
807-830
910-935
1028-1053
1070-1095
1113-1138
1155-1180
1197-1221
1238-1263
1280-1305
1322-1348
1363-1389
1404-1429
1446-1470
1487-1511
1606-1631
1648-1672
1766-1791
1808-1833
1849-1874
1891-1914
1930-1956
1973-1998
2013-2038
2127-2151
2166-2190
2206-2230
2247-2274
2291-2316
2402-2427
2444-2468
2485-2509
2524-2550
2567-2590
2601-2631
2648-2672
2
-
-
-
-
-
-
-
-
A:3-26
A:106-131
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
4
ASX_HYDROXYL
PS00010
Aspartic acid and asparagine hydroxylation site.
FBN1_HUMAN
262-273
304-315
504-515
546-557
587-598
628-639
739-750
781-792
821-832
926-937
1044-1055
1086-1097
1129-1140
1171-1182
1212-1223
1254-1265
1296-1307
1339-1350
1380-1391
1420-1431
1461-1472
1502-1513
1622-1633
1663-1674
1782-1793
1824-1835
1865-1876
1905-1916
1947-1958
1989-2000
2029-2040
2142-2153
2181-2192
2221-2232
2265-2276
2307-2318
2418-2429
2459-2470
2500-2511
2541-2552
2581-2592
2622-2633
2663-2674
2
-
-
-
-
-
-
-
-
A:17-28
A:122-133
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
[
close PROSITE info
]
Exons
(5, 5)
Info
All Exons
Exon 1.20 (A:1-3)
Exon 1.21 (A:3-43)
Exon 1.22 (A:43-89)
Exon 1.23 (A:89-106)
Exon 1.24 (A:106-147)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.19/1.20
2: Boundary 1.20/1.21
3: Boundary 1.21/1.22
4: Boundary 1.22/1.23
5: Boundary 1.23/1.24
6: Boundary 1.24/1.25
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
ENST00000316623
1
ENSE00001525471
chr15:
48937918-48937772
147
FBN1_HUMAN
-
0
0
-
-
1.2
ENST00000316623
2
ENSE00002176401
chr15:
48937147-48936803
345
FBN1_HUMAN
1-55
55
0
-
-
1.3
ENST00000316623
3
ENSE00001761744
chr15:
48905289-48905207
83
FBN1_HUMAN
55-83
29
0
-
-
1.4
ENST00000316623
4
ENSE00001729100
chr15:
48903023-48902925
99
FBN1_HUMAN
83-116
34
0
-
-
1.5
ENST00000316623
5
ENSE00001737946
chr15:
48892431-48892336
96
FBN1_HUMAN
116-148
33
0
-
-
1.6
ENST00000316623
6
ENSE00001783191
chr15:
48888575-48888480
96
FBN1_HUMAN
148-180
33
0
-
-
1.7
ENST00000316623
7
ENSE00001764592
chr15:
48830005-48829808
198
FBN1_HUMAN
180-246
67
0
-
-
1.8
ENST00000316623
8
ENSE00001793339
chr15:
48826402-48826277
126
FBN1_HUMAN
246-288
43
0
-
-
1.9
ENST00000316623
9
ENSE00001771562
chr15:
48818452-48818327
126
FBN1_HUMAN
288-330
43
0
-
-
1.10
ENST00000316623
10
ENSE00001744589
chr15:
48813014-48812856
159
FBN1_HUMAN
330-383
54
0
-
-
1.11
ENST00000316623
11
ENSE00001699841
chr15:
48808559-48808380
180
FBN1_HUMAN
383-443
61
0
-
-
1.12
ENST00000316623
12
ENSE00001599991
chr15:
48807724-48807584
141
FBN1_HUMAN
443-490
48
0
-
-
1.13
ENST00000316623
13
ENSE00001788059
chr15:
48805865-48805746
120
FBN1_HUMAN
490-530
41
0
-
-
1.14
ENST00000316623
14
ENSE00001675795
chr15:
48802366-48802241
126
FBN1_HUMAN
530-572
43
0
-
-
1.15
ENST00000316623
15
ENSE00001666782
chr15:
48800901-48800779
123
FBN1_HUMAN
572-613
42
0
-
-
1.16
ENST00000316623
16
ENSE00001721875
chr15:
48797344-48797222
123
FBN1_HUMAN
613-654
42
0
-
-
1.17
ENST00000316623
17
ENSE00001715942
chr15:
48796136-48795984
153
FBN1_HUMAN
654-705
52
0
-
-
1.18
ENST00000316623
18
ENSE00001640683
chr15:
48791235-48791182
54
FBN1_HUMAN
705-723
19
0
-
-
1.19
ENST00000316623
19
ENSE00001612341
chr15:
48789588-48789463
126
FBN1_HUMAN
723-765
43
0
-
-
1.20
ENST00000316623
20
ENSE00001630897
chr15:
48788422-48788297
126
FBN1_HUMAN
765-807
43
1
A:1-3
3
1.21
ENST00000316623
21
ENSE00001772761
chr15:
48787785-48787666
120
FBN1_HUMAN
807-847
41
1
A:3-43
41
1.22
ENST00000316623
22
ENSE00001661869
chr15:
48787457-48787320
138
FBN1_HUMAN
847-893
47
1
A:43-89
47
1.23
ENST00000316623
23
ENSE00001788284
chr15:
48786451-48786401
51
FBN1_HUMAN
893-910
18
1
A:89-106
18
1.24
ENST00000316623
24
ENSE00001769793
chr15:
48784783-48784658
126
FBN1_HUMAN
910-952
43
1
A:106-147
42
1.25
ENST00000316623
25
ENSE00001717687
chr15:
48782275-48782048
228
FBN1_HUMAN
952-1028
77
0
-
-
1.26
ENST00000316623
26
ENSE00001613423
chr15:
48780690-48780565
126
FBN1_HUMAN
1028-1070
43
0
-
-
1.27
ENST00000316623
27
ENSE00001762721
chr15:
48780438-48780310
129
FBN1_HUMAN
1070-1113
44
0
-
-
1.28
ENST00000316623
28
ENSE00001641154
chr15:
48779634-48779509
126
FBN1_HUMAN
1113-1155
43
0
-
-
1.29
ENST00000316623
29
ENSE00001800492
chr15:
48779397-48779272
126
FBN1_HUMAN
1155-1197
43
0
-
-
1.30
ENST00000316623
30
ENSE00001620699
chr15:
48777693-48777571
123
FBN1_HUMAN
1197-1238
42
0
-
-
1.31
ENST00000316623
31
ENSE00001613453
chr15:
48776140-48776015
126
FBN1_HUMAN
1238-1280
43
0
-
-
1.32
ENST00000316623
32
ENSE00001753582
chr15:
48773977-48773852
126
FBN1_HUMAN
1280-1322
43
0
-
-
1.33
ENST00000316623
33
ENSE00001628258
chr15:
48766847-48766725
123
FBN1_HUMAN
1322-1363
42
0
-
-
1.34
ENST00000316623
34
ENSE00001770461
chr15:
48766574-48766452
123
FBN1_HUMAN
1363-1404
42
0
-
-
1.35
ENST00000316623
35
ENSE00001613724
chr15:
48764873-48764748
126
FBN1_HUMAN
1404-1446
43
0
-
-
1.36
ENST00000316623
36
ENSE00000884505
chr15:
48762953-48762831
123
FBN1_HUMAN
1446-1487
42
0
-
-
1.37
ENST00000316623
37
ENSE00000884504
chr15:
48760731-48760609
123
FBN1_HUMAN
1487-1528
42
0
-
-
1.38
ENST00000316623
38
ENSE00000686984
chr15:
48760299-48760135
165
FBN1_HUMAN
1528-1583
56
0
-
-
1.39
ENST00000316623
39
ENSE00000686980
chr15:
48758055-48757987
69
FBN1_HUMAN
1583-1606
24
0
-
-
1.40
ENST00000316623
40
ENSE00000686976
chr15:
48757890-48757765
126
FBN1_HUMAN
1606-1648
43
0
-
-
1.41
ENST00000316623
41
ENSE00000884503
chr15:
48756218-48756096
123
FBN1_HUMAN
1648-1689
42
0
-
-
1.42
ENST00000316623
42
ENSE00000686967
chr15:
48755437-48755279
159
FBN1_HUMAN
1689-1742
54
0
-
-
1.43
ENST00000316623
43
ENSE00001175019
chr15:
48752514-48752443
72
FBN1_HUMAN
1742-1766
25
0
-
-
1.44
ENST00000316623
44
ENSE00000884501
chr15:
48748959-48748834
126
FBN1_HUMAN
1766-1808
43
0
-
-
1.45
ENST00000316623
45
ENSE00000884500
chr15:
48744881-48744759
123
FBN1_HUMAN
1808-1849
42
0
-
-
1.46
ENST00000316623
46
ENSE00001181714
chr15:
48741090-48740965
126
FBN1_HUMAN
1849-1891
43
0
-
-
1.47
ENST00000316623
47
ENSE00001175887
chr15:
48739019-48738903
117
FBN1_HUMAN
1891-1930
40
0
-
-
1.48
ENST00000316623
48
ENSE00000884497
chr15:
48737701-48737573
129
FBN1_HUMAN
1930-1973
44
0
-
-
1.49
ENST00000316623
49
ENSE00000884496
chr15:
48736857-48736738
120
FBN1_HUMAN
1973-2013
41
0
-
-
1.50
ENST00000316623
50
ENSE00000884495
chr15:
48734043-48733918
126
FBN1_HUMAN
2013-2055
43
0
-
-
1.51
ENST00000316623
51
ENSE00000884494
chr15:
48730114-48729965
150
FBN1_HUMAN
2055-2105
51
0
-
-
1.52
ENST00000316623
52
ENSE00000884493
chr15:
48729584-48729519
66
FBN1_HUMAN
2105-2127
23
0
-
-
1.53
ENST00000316623
53
ENSE00000884492
chr15:
48729274-48729158
117
FBN1_HUMAN
2127-2166
40
0
-
-
1.54
ENST00000316623
54
ENSE00001721904
chr15:
48726910-48726791
120
FBN1_HUMAN
2166-2206
41
0
-
-
1.55
ENST00000316623
55
ENSE00001759584
chr15:
48725185-48725063
123
FBN1_HUMAN
2206-2247
42
0
-
-
1.56
ENST00000316623
56
ENSE00000884489
chr15:
48722999-48722868
132
FBN1_HUMAN
2247-2291
45
0
-
-
1.57
ENST00000316623
57
ENSE00000884488
chr15:
48720668-48720543
126
FBN1_HUMAN
2291-2333
43
0
-
-
1.59
ENST00000316623
59
ENSE00001682471
chr15:
48719970-48719764
207
FBN1_HUMAN
2333-2402
70
0
-
-
1.60
ENST00000316623
60
ENSE00001657678
chr15:
48718061-48717936
126
FBN1_HUMAN
2402-2444
43
0
-
-
1.61
ENST00000316623
61
ENSE00001705569
chr15:
48717688-48717566
123
FBN1_HUMAN
2444-2485
42
0
-
-
1.62
ENST00000316623
62
ENSE00001770578
chr15:
48714265-48714149
117
FBN1_HUMAN
2485-2524
40
0
-
-
1.63
ENST00000316623
63
ENSE00001771268
chr15:
48713883-48713755
129
FBN1_HUMAN
2524-2567
44
0
-
-
1.64
ENST00000316623
64
ENSE00001767848
chr15:
48713003-48712884
120
FBN1_HUMAN
2567-2607
41
0
-
-
1.65
ENST00000316623
65
ENSE00001743300
chr15:
48707964-48707733
232
FBN1_HUMAN
2607-2684
78
0
-
-
1.66
ENST00000316623
66
ENSE00001804196
chr15:
48704940-48704766
175
FBN1_HUMAN
2684-2742
59
0
-
-
1.67
ENST00000316623
67
ENSE00001662441
chr15:
48703576-48700505
3072
FBN1_HUMAN
2743-2871
129
0
-
-
[
close EXON info
]
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
close SCOP info
]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_2w86A01 (A:1-45)
1b: CATH_2w86A03 (A:106-147)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Ribbon
(789)
Topology
:
Laminin
(270)
Homologous Superfamily
:
Laminin
(263)
Human (Homo sapiens)
(195)
1a
2w86A01
A:1-45
1b
2w86A03
A:106-147
[
close CATH info
]
Pfam Domains
(2, 2)
Info
all PFAM domains
1a: PFAM_EGF_CA_2w86A01 (A:106-146)
2a: PFAM_TB_2w86A02 (A:56-97)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
EGF
(60)
Family
:
EGF_CA
(18)
Homo sapiens (Human)
(14)
1a
EGF_CA-2w86A01
A:106-146
Clan
:
no clan defined [family: TB]
(5)
Family
:
TB
(5)
Homo sapiens (Human)
(5)
2a
TB-2w86A02
A:56-97
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Asymmetric Unit 1
Rendering
(selected part)
Molecule Coloring
(selected part)
by Chain (Asym. Unit)
by Chain (Biol. Unit)
by Secondary Structure
by Atom (CPK)
by SCOP Domain
by CATH Domain
by Pfam Domain
by Asymmetric Unit
by Exon
by Amino Acid
by Nucleotide
by Temperature
by Charge
by Rainbow (Group)
by Custom Color
Background Coloring
Choose
molecule
background
color...
[
close
]
RGB value
(e.g.: "#3cb371" or "60,179,113")
Stereo
Graphics Window
x
pixel
Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
[
close Script example commands
]
Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
QuickSearch:
by PDB,NDB,UniProt,PROSITE Code or
Search Term(s)
Show PDB file:
Asym.Unit (54 KB)
Header - Asym.Unit
Biol.Unit 1 (49 KB)
Header - Biol.Unit 1
Plain Text
HTML (compressed size)
use JSmol [Javascript]
use Jmol [Java applet]
Upload:
Select a local file
OR
Enter a remote file address
You can upload any molecular structure file format that is recognized by Jmol,
e.g.: PDB, mmCif, CIF, CML, MOL, XYZ
(also compressed with 'gzip', see the
Jmol documentation
for a complete list)
JenaLib Atlas Page
|
Sequence/Alignment View
2W86
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help