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.
2OVR
Asym. Unit
Info
Asym.Unit (107 KB)
Biol.Unit 1 (101 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
STRUCTURE OF THE SKP1-FBW7-CYCLINEDEGN COMPLEX
Authors
:
B. Hao, S. Oehlmann, M. E. Sowa, J. W. Harper, N. P. Pavletich
Date
:
14 Feb 07 (Deposition) - 24 Apr 07 (Release) - 16 Nov 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (1x)
Keywords
:
F-Box; Wd40 Domains; Double Phosphorylation, Transcription-Cell Cycle Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
B. Hao, S. Oehlmann, M. E. Sowa, J. W. Harper, N. P. Pavletich
Structure Of A Fbw7-Skp1-Cyclin E Complex: Multisite-Phosphorylated Substrate Recognition By Scf Ubiquitin Ligases
Mol. Cell V. 26 131 2007
[
close entry info
]
Hetero Components
(2, 13)
Info
All Hetero Components
1a: SULFATE ION (SO4a)
1b: SULFATE ION (SO4b)
1c: SULFATE ION (SO4c)
1d: SULFATE ION (SO4d)
1e: SULFATE ION (SO4e)
1f: SULFATE ION (SO4f)
1g: SULFATE ION (SO4g)
1h: SULFATE ION (SO4h)
1i: SULFATE ION (SO4i)
1j: SULFATE ION (SO4j)
1k: SULFATE ION (SO4k)
1l: SULFATE ION (SO4l)
2a: PHOSPHOTHREONINE (TPOa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
SO4
12
Ligand/Ion
SULFATE ION
2
TPO
1
Mod. Amino Acid
PHOSPHOTHREONINE
[
close Hetero Component info
]
Sites
(12, 12)
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)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HOH B:83 , HOH B:143 , HOH B:196 , ARG B:2505 , ARG B:2674
BINDING SITE FOR RESIDUE SO4 B 901
02
AC2
SOFTWARE
HOH B:46 , GLN B:2428 , ARG B:2676
BINDING SITE FOR RESIDUE SO4 B 902
03
AC3
SOFTWARE
ARG B:2415 , THR B:2416
BINDING SITE FOR RESIDUE SO4 B 903
04
AC4
SOFTWARE
HOH B:5 , HOH B:12 , HOH B:25 , HOH B:87 , GLN B:2618 , PRO B:2620 , GLU B:2655 , PHE B:2656
BINDING SITE FOR RESIDUE SO4 B 904
05
AC5
SOFTWARE
HOH B:73 , GLY B:2378 , HIS B:2379 , ASP B:2380 , ASP B:2400 , LYS B:2404
BINDING SITE FOR RESIDUE SO4 B 905
06
AC6
SOFTWARE
HOH B:74 , ARG B:2357 , ASN B:2679 , THR B:2680
BINDING SITE FOR RESIDUE SO4 B 906
07
AC7
SOFTWARE
HOH B:117 , ASN B:2392 , ARG B:2393 , SER B:2407
BINDING SITE FOR RESIDUE SO4 B 907
08
AC8
SOFTWARE
LYS B:2266 , PRO B:2285 , LYS B:2286
BINDING SITE FOR RESIDUE SO4 B 908
09
AC9
SOFTWARE
HOH B:15 , LEU B:2589 , LYS B:2590 , ASP B:2591
BINDING SITE FOR RESIDUE SO4 B 909
10
BC1
SOFTWARE
HOH B:186 , ARG B:2441 , GLN B:2618
BINDING SITE FOR RESIDUE SO4 B 910
11
BC2
SOFTWARE
HOH B:102 , HOH B:201 , ASP B:2399 , GLY B:2423 , TRP B:2425 , THR B:2439 , PRO C:63
BINDING SITE FOR RESIDUE SO4 B 911
12
BC3
SOFTWARE
HOH B:191 , SER B:2462 , THR B:2463 , ARG B:2479 , ASP C:64 , LYS C:65
BINDING SITE FOR RESIDUE SO4 B 912
[
close Site info
]
SAPs(SNPs)/Variants
(9, 9)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_051999 (F1014L, chain A, )
2: VAR_017815 (R2465C, chain B, )
3: VAR_035880 (R2465H, chain B, )
4: VAR_FBXW7_HUMAN_CCDS3777_1_02 (R2465H, chain B, )
5: VAR_017816 (R2505L, chain B, )
6: VAR_FBXW7_HUMAN_CCDS3777_1_03 (R2505L, chain B, )
7: VAR_035881 (S2582L, chain B, )
8: VAR_FBXW7_HUMAN_CCDS3777_1_04 (S2582L, chain B, )
9: VAR_017817 (S2668G, chain B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_051999
F
14
L
SKP1_HUMAN
Polymorphism
11538034
A
F
1014
L
2
UniProt
VAR_017815
R
465
C
FBXW7_HUMAN
Unclassified
---
B
R
2465
C
3
UniProt
VAR_035880
R
465
H
FBXW7_HUMAN
Unclassified
---
B
R
2465
H
4
CancerSNP
VAR_FBXW7_HUMAN_CCDS3777_1_02
*
R
465
H
FBXW7_HUMAN
Disease (Colorectal cancer)
---
B
R
2465
H
5
UniProt
VAR_017816
R
505
L
FBXW7_HUMAN
Unclassified
---
B
R
2505
L
6
CancerSNP
VAR_FBXW7_HUMAN_CCDS3777_1_03
*
R
505
L
FBXW7_HUMAN
Disease (Colorectal cancer)
---
B
R
2505
L
7
UniProt
VAR_035881
S
582
L
FBXW7_HUMAN
Unclassified
---
B
S
2582
L
8
CancerSNP
VAR_FBXW7_HUMAN_CCDS3777_1_04
*
S
582
L
FBXW7_HUMAN
Disease (Colorectal cancer)
---
B
S
2582
L
9
UniProt
VAR_017817
S
668
G
FBXW7_HUMAN
Polymorphism
7679116
B
S
2668
G
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 6)
Info
All PROSITE Patterns/Profiles
1: FBOX (B:2278-2324)
2: WD_REPEATS_1 (B:2434-2448|B:2474-2488|B:2554-256...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
FBOX
PS50181
F-box domain profile.
FBXW7_HUMAN
278-324
1
B:2278-2324
2
WD_REPEATS_1
PS00678
Trp-Asp (WD) repeats signature.
FBXW7_HUMAN
434-448
474-488
554-568
594-608
637-651
5
B:2434-2448
B:2474-2488
B:2554-2568
B:2594-2608
B:2637-2651
[
close PROSITE info
]
Exons
(13, 13)
Info
All Exons
Exon 1.7 (B:2263-2287)
Exon 1.8 (B:2288-2329)
Exon 1.9 (B:2329-2374 (gaps))
Exon 1.10 (B:2375-2412)
Exon 1.11 (B:2413-2473)
Exon 1.12 (B:2473-2548)
Exon 1.13 (B:2549-2619)
Exon 1.14b (B:2619-2706)
Exon 2.5b (A:1002-1033)
Exon 2.7 (A:1033-1057 (gaps))
Exon 2.8d (A:1058-1105 (gaps))
Exon 2.9d (A:1106-1152)
Exon 2.9l (A:1153-1160)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.6/1.7
02: Boundary 1.7/1.8
03: Boundary 1.8/1.9
04: Boundary 1.9/1.10
05: Boundary 1.10/1.11
06: Boundary 1.11/1.12
07: Boundary 1.12/1.13
08: Boundary 1.13/1.14b
09: Boundary 1.14b/-
10: Boundary 2.2a/2.5b
11: Boundary 2.5b/2.7
12: Boundary 2.7/2.8d
13: Boundary 2.8d/2.9d
14: Boundary 2.9d/2.9l
15: Boundary 2.9l/-
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
ENST00000281708
1
ENSE00001480632
chr4:
153456172-153456093
80
FBXW7_HUMAN
-
0
0
-
-
1.2a
ENST00000281708
2a
ENSE00001200526
chr4:
153333024-153332455
570
FBXW7_HUMAN
1-167
167
0
-
-
1.5
ENST00000281708
5
ENSE00000740035
chr4:
153271276-153271194
83
FBXW7_HUMAN
168-195
28
0
-
-
1.6
ENST00000281708
6
ENSE00000740036
chr4:
153268223-153268082
142
FBXW7_HUMAN
195-242
48
0
-
-
1.7
ENST00000281708
7
ENSE00001002596
chr4:
153259088-153258954
135
FBXW7_HUMAN
243-287
45
1
B:2263-2287
25
1.8
ENST00000281708
8
ENSE00000821077
chr4:
153253871-153253748
124
FBXW7_HUMAN
288-329
42
1
B:2288-2329
42
1.9
ENST00000281708
9
ENSE00000821076
chr4:
153252020-153251884
137
FBXW7_HUMAN
329-374
46
1
B:2329-2374 (gaps)
46
1.10
ENST00000281708
10
ENSE00000821075
chr4:
153250937-153250824
114
FBXW7_HUMAN
375-412
38
1
B:2375-2412
38
1.11
ENST00000281708
11
ENSE00000821074
chr4:
153249541-153249360
182
FBXW7_HUMAN
413-473
61
1
B:2413-2473
61
1.12
ENST00000281708
12
ENSE00000821073
chr4:
153247383-153247158
226
FBXW7_HUMAN
473-548
76
1
B:2473-2548
76
1.13
ENST00000281708
13
ENSE00000821072
chr4:
153245546-153245336
211
FBXW7_HUMAN
549-619
71
1
B:2549-2619
71
1.14b
ENST00000281708
14b
ENSE00001431204
chr4:
153244301-153242410
1892
FBXW7_HUMAN
619-707
89
1
B:2619-2706
88
2.2a
ENST00000353411
2a
ENSE00001169035
chr5:
133512729-133512546
184
SKP1_HUMAN
-
0
0
-
-
2.5b
ENST00000353411
5b
ENSE00000763313
chr5:
133509713-133509617
97
SKP1_HUMAN
1-33
33
1
A:1002-1033
32
2.7
ENST00000353411
7
ENSE00002156080
chr5:
133502934-133502861
74
SKP1_HUMAN
33-57
25
1
A:1033-1057 (gaps)
25
2.8d
ENST00000353411
8d
ENSE00000763311
chr5:
133496821-133496678
144
SKP1_HUMAN
58-105
48
1
A:1058-1105 (gaps)
48
2.9d
ENST00000353411
9d
ENSE00001328116
chr5:
133494286-133494146
141
SKP1_HUMAN
106-152
47
1
A:1106-1152
47
2.9l
ENST00000353411
9l
ENSE00001291683
chr5:
133493459-133492082
1378
SKP1_HUMAN
153-163
11
1
A:1153-1160
8
[
close EXON info
]
SCOP Domains
(4, 4)
Info
All SCOP Domains
1a: SCOP_d2ovrb1 (B:2263-2364)
2a: SCOP_d2ovra1 (A:1085-1159)
3a: SCOP_d2ovrb2 (B:2365-2706)
4a: SCOP_d2ovra2 (A:1002-1065)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
F-box domain
(12)
Superfamily
:
F-box domain
(12)
Family
:
F-box domain
(12)
Protein domain
:
F-box/WD repeat-containing protein 7, FBXW7
(3)
Human (Homo sapiens) [TaxId: 9606]
(3)
1a
d2ovrb1
B:2263-2364
Fold
:
Skp1 dimerisation domain-like
(18)
Superfamily
:
Skp1 dimerisation domain-like
(18)
Family
:
Skp1 dimerisation domain-like
(13)
Protein domain
:
Cyclin A/CDK2-associated p45, Skp1
(9)
Human (Homo sapiens) [TaxId: 9606]
(9)
2a
d2ovra1
A:1085-1159
Class
:
All beta proteins
(24004)
Fold
:
7-bladed beta-propeller
(245)
Superfamily
:
WD40 repeat-like
(95)
Family
:
WD40-repeat
(53)
Protein domain
:
F-box/WD repeat-containing protein 7, FBXW7
(3)
Human (Homo sapiens) [TaxId: 9606]
(3)
3a
d2ovrb2
B:2365-2706
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
POZ domain
(79)
Superfamily
:
POZ domain
(79)
Family
:
BTB/POZ domain
(43)
Protein domain
:
Cyclin A/CDK2-associated p45, Skp1
(9)
Human (Homo sapiens) [TaxId: 9606]
(9)
4a
d2ovra2
A:1002-1065
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(4, 10)
Info
all PFAM domains
1a: PFAM_WD40_2ovrB01 (B:2611-2650)
1b: PFAM_WD40_2ovrB02 (B:2611-2650)
1c: PFAM_WD40_2ovrB03 (B:2611-2650)
1d: PFAM_WD40_2ovrB04 (B:2611-2650)
1e: PFAM_WD40_2ovrB05 (B:2611-2650)
1f: PFAM_WD40_2ovrB06 (B:2611-2650)
1g: PFAM_WD40_2ovrB07 (B:2611-2650)
2a: PFAM_F_box_like_2ovrB08 (B:2281-2327)
3a: PFAM_Skp1_POZ_2ovrA01 (A:1002-1065)
4a: PFAM_Skp1_2ovrA02 (A:1085-1160)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Beta_propeller
(192)
Family
:
WD40
(64)
Homo sapiens (Human)
(18)
1a
WD40-2ovrB01
B:2611-2650
1b
WD40-2ovrB02
B:2611-2650
1c
WD40-2ovrB03
B:2611-2650
1d
WD40-2ovrB04
B:2611-2650
1e
WD40-2ovrB05
B:2611-2650
1f
WD40-2ovrB06
B:2611-2650
1g
WD40-2ovrB07
B:2611-2650
Clan
:
F-box
(7)
Family
:
F-box-like
(4)
Homo sapiens (Human)
(4)
2a
F-box-like-2ovrB08
B:2281-2327
Clan
:
POZ
(36)
Family
:
Skp1_POZ
(18)
Homo sapiens (Human)
(7)
3a
Skp1_POZ-2ovrA01
A:1002-1065
Clan
:
no clan defined [family: Skp1]
(15)
Family
:
Skp1
(15)
Homo sapiens (Human)
(5)
4a
Skp1-2ovrA02
A:1085-1160
[
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
Chain B
Chain C
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 (107 KB)
Header - Asym.Unit
Biol.Unit 1 (101 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
2OVR
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help