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Getting 'Exon' information from database.
2VFX
Asym. Unit
Info
Asym.Unit (443 KB)
Biol.Unit 1 (42 KB)
Biol.Unit 10 (42 KB)
Biol.Unit 11 (42 KB)
Biol.Unit 12 (42 KB)
Biol.Unit 2 (42 KB)
Biol.Unit 3 (42 KB)
Biol.Unit 4 (43 KB)
Biol.Unit 5 (43 KB)
Biol.Unit 6 (41 KB)
Biol.Unit 7 (42 KB)
Biol.Unit 8 (41 KB)
Biol.Unit 9 (42 KB)
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(1)
Title
:
STRUCTURE OF THE SYMMETRIC MAD2 DIMER
Authors
:
M. Yang, B. Li, C. -J. Liu, D. R. Tomchick, M. Machius, J. Rizo, H. Yu, X. L
Date
:
05 Nov 07 (Deposition) - 18 Mar 08 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.95
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Biol. Unit 5: E (1x)
Biol. Unit 6: F (1x)
Biol. Unit 7: G (1x)
Biol. Unit 8: H (1x)
Biol. Unit 9: I (1x)
Biol. Unit 10: J (1x)
Biol. Unit 11: K (1x)
Biol. Unit 12: L (1x)
Keywords
:
Mad2, Mad1, Cdc2, Nucleus, Mitosis, Anaphase, Cell Cycle, Cell Division, Spindle Checkpoint, Anaphase-Promoting Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Yang, B. Li, C. -J. Liu, D. R. Tomchick, M. Machius, J. Rizo, H. Yu, X. Luo
Insights Into Mad2 Regulation In The Spindle Checkpoint Revealed By The Crystal Structure Of The Symmetric Mad2 Dimer.
Plos Biol. V. 6 E50 2008
[
close entry info
]
Hetero Components
(5, 55)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1aa: CHLORIDE ION (CLaa)
1ab: CHLORIDE ION (CLab)
1ac: CHLORIDE ION (CLac)
1ad: CHLORIDE ION (CLad)
1ae: CHLORIDE ION (CLae)
1af: CHLORIDE ION (CLaf)
1ag: CHLORIDE ION (CLag)
1ah: CHLORIDE ION (CLah)
1ai: CHLORIDE ION (CLai)
1aj: CHLORIDE ION (CLaj)
1ak: CHLORIDE ION (CLak)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
1e: CHLORIDE ION (CLe)
1f: CHLORIDE ION (CLf)
1g: CHLORIDE ION (CLg)
1h: CHLORIDE ION (CLh)
1i: CHLORIDE ION (CLi)
1j: CHLORIDE ION (CLj)
1k: CHLORIDE ION (CLk)
1l: CHLORIDE ION (CLl)
1m: CHLORIDE ION (CLm)
1n: CHLORIDE ION (CLn)
1o: CHLORIDE ION (CLo)
1p: CHLORIDE ION (CLp)
1q: CHLORIDE ION (CLq)
1r: CHLORIDE ION (CLr)
1s: CHLORIDE ION (CLs)
1t: CHLORIDE ION (CLt)
1u: CHLORIDE ION (CLu)
1v: CHLORIDE ION (CLv)
1w: CHLORIDE ION (CLw)
1x: CHLORIDE ION (CLx)
1y: CHLORIDE ION (CLy)
1z: CHLORIDE ION (CLz)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
2c: MAGNESIUM ION (MGc)
2d: MAGNESIUM ION (MGd)
2e: MAGNESIUM ION (MGe)
2f: MAGNESIUM ION (MGf)
2g: MAGNESIUM ION (MGg)
2h: MAGNESIUM ION (MGh)
3a: 3,6,9,12,15,18,21,24,27,30,33,36,3... (PE3a)
3b: 3,6,9,12,15,18,21,24,27,30,33,36,3... (PE3b)
3c: 3,6,9,12,15,18,21,24,27,30,33,36,3... (PE3c)
3d: 3,6,9,12,15,18,21,24,27,30,33,36,3... (PE3d)
3e: 3,6,9,12,15,18,21,24,27,30,33,36,3... (PE3e)
3f: 3,6,9,12,15,18,21,24,27,30,33,36,3... (PE3f)
4a: 2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)... (PE4a)
4b: 2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)... (PE4b)
4c: 2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)... (PE4c)
5a: DI(HYDROXYETHYL)ETHER (PEGa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
37
Ligand/Ion
CHLORIDE ION
2
MG
8
Ligand/Ion
MAGNESIUM ION
3
PE3
6
Ligand/Ion
3,6,9,12,15,18,21,24,27,30,33,36,39-TRIDECAOXAHENTETRACONTANE-1,41-DIOL
4
PE4
3
Ligand/Ion
2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL
5
PEG
1
Ligand/Ion
DI(HYDROXYETHYL)ETHER
[
close Hetero Component info
]
Sites
(49, 49)
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)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
36: DC9 (SOFTWARE)
37: EC1 (SOFTWARE)
38: EC2 (SOFTWARE)
39: EC3 (SOFTWARE)
40: EC4 (SOFTWARE)
41: EC5 (SOFTWARE)
42: EC6 (SOFTWARE)
43: EC7 (SOFTWARE)
44: EC8 (SOFTWARE)
45: EC9 (SOFTWARE)
46: FC1 (SOFTWARE)
47: FC2 (SOFTWARE)
48: FC3 (SOFTWARE)
49: FC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:205 , HOH A:2139 , HOH A:2143 , HOH A:2144 , ASP D:205
BINDING SITE FOR RESIDUE MG A1206
02
AC2
SOFTWARE
ASP B:205 , HOH B:2126 , HOH B:2130
BINDING SITE FOR RESIDUE MG B1206
03
AC3
SOFTWARE
ASP C:205 , HOH C:2119 , ASP I:205 , HOH I:2133 , HOH I:2137
BINDING SITE FOR RESIDUE MG C1206
04
AC4
SOFTWARE
ASP E:205 , HOH E:2129 , HOH E:2131 , ASP H:205 , HOH H:2117 , HOH H:2118
BINDING SITE FOR RESIDUE MG E1206
05
AC5
SOFTWARE
ASP F:205 , HOH F:2126 , HOH F:2129 , HOH F:2130 , ASP J:205
BINDING SITE FOR RESIDUE MG F1206
06
AC6
SOFTWARE
ASP G:205 , HOH G:2125 , HOH G:2129 , HOH G:2130
BINDING SITE FOR RESIDUE MG G1206
07
AC7
SOFTWARE
ASP K:205 , HOH K:2134 , HOH K:2138 , HOH K:2139
BINDING SITE FOR RESIDUE MG K1206
08
AC8
SOFTWARE
ASP L:205 , HOH L:2121 , HOH L:2125 , HOH L:2127
BINDING SITE FOR RESIDUE MG L1206
09
AC9
SOFTWARE
ARG E:99 , PHE E:174 , ILE E:175 , LYS H:192 , HOH H:2061
BINDING SITE FOR RESIDUE CL E1207
10
BC1
SOFTWARE
ARG B:99 , ILE B:175 , LYS E:192 , HOH E:2069
BINDING SITE FOR RESIDUE CL E3102
11
BC2
SOFTWARE
LYS I:192 , HOH I:2073 , ARG L:99 , PHE L:174 , ILE L:175
BINDING SITE FOR RESIDUE CL I3103
12
BC3
SOFTWARE
LYS J:192 , HOH J:2074 , ARG K:99 , ILE K:175
BINDING SITE FOR RESIDUE CL J3104
13
BC4
SOFTWARE
LYS D:192 , HOH D:2077 , ARG G:99 , PHE G:174 , ILE G:175
BINDING SITE FOR RESIDUE CL D1206
14
BC5
SOFTWARE
LYS C:192 , ARG I:99 , PHE I:174 , ILE I:175
BINDING SITE FOR RESIDUE CL I1206
15
BC6
SOFTWARE
ARG A:99 , ILE A:175 , LYS G:192
BINDING SITE FOR RESIDUE CL A1207
16
BC7
SOFTWARE
LYS F:192 , HOH F:2066 , ARG J:99 , PHE J:174 , ILE J:175
BINDING SITE FOR RESIDUE CL J1206
17
BC8
SOFTWARE
ARG F:99 , ILE F:175 , LYS K:192 , HOH K:2076
BINDING SITE FOR RESIDUE CL F1207
18
BC9
SOFTWARE
LYS A:192 , HOH A:2077 , ARG D:99 , PHE D:174 , ILE D:175
BINDING SITE FOR RESIDUE CL D1207
19
CC1
SOFTWARE
LYS B:192 , HOH B:2074 , ARG H:99 , PHE H:174 , ILE H:175
BINDING SITE FOR RESIDUE CL B3111
20
CC2
SOFTWARE
SER A:178 , SER G:185 , LYS G:192
BINDING SITE FOR RESIDUE CL G1207
21
CC3
SOFTWARE
ARG C:99 , PHE C:174 , ILE C:175 , LYS L:192 , HOH L:2069
BINDING SITE FOR RESIDUE CL L1207
22
CC4
SOFTWARE
ALA C:137 , HOH C:2079
BINDING SITE FOR RESIDUE CL C1207
23
CC5
SOFTWARE
SER E:178 , SER H:185 , LYS H:192
BINDING SITE FOR RESIDUE CL E1208
24
CC6
SOFTWARE
SER A:185 , LYS A:192 , HOH A:2131 , SER D:178
BINDING SITE FOR RESIDUE CL D1208
25
CC7
SOFTWARE
SER F:185 , LYS F:192 , SER J:178
BINDING SITE FOR RESIDUE CL J1207
26
CC8
SOFTWARE
ARG B:182 , SER B:185 , LYS B:192 , SER H:178 , HOH H:2095
BINDING SITE FOR RESIDUE CL B1207
27
CC9
SOFTWARE
SER F:178 , SER K:185 , LYS K:192
BINDING SITE FOR RESIDUE CL K1207
28
DC1
SOFTWARE
SER D:185 , LYS D:192 , SER G:178
BINDING SITE FOR RESIDUE CL D1209
29
DC2
SOFTWARE
SER I:185 , LYS I:192 , SER L:178
BINDING SITE FOR RESIDUE CL L1208
30
DC3
SOFTWARE
SER C:178 , SER L:185 , LYS L:192
BINDING SITE FOR RESIDUE CL C1208
31
DC4
SOFTWARE
SER C:185 , LYS C:192 , SER I:178
BINDING SITE FOR RESIDUE CL I1207
32
DC5
SOFTWARE
SER J:185 , LYS J:192 , SER K:178
BINDING SITE FOR RESIDUE CL K1208
33
DC6
SOFTWARE
SER B:178 , SER E:185 , LYS E:192
BINDING SITE FOR RESIDUE CL B1208
34
DC7
SOFTWARE
ARG C:99 , GLN C:101 , HOH C:2059
BINDING SITE FOR RESIDUE CL C1209
35
DC8
SOFTWARE
ALA I:137 , HOH I:2038 , HOH I:2092 , ALA L:137
BINDING SITE FOR RESIDUE CL I1208
36
DC9
SOFTWARE
ALA E:137 , HOH E:2090
BINDING SITE FOR RESIDUE CL B1209
37
EC1
SOFTWARE
SER E:40
BINDING SITE FOR RESIDUE CL E1209
38
EC2
SOFTWARE
ALA D:137 , HOH D:2037
BINDING SITE FOR RESIDUE CL D1210
39
EC3
SOFTWARE
ALA J:137 , HOH K:2093
BINDING SITE FOR RESIDUE CL J1208
40
EC4
SOFTWARE
TYR L:33 , GLN L:34 , GLY L:36 , LEU L:145 , VAL L:147 , HOH L:2128
BINDING SITE FOR RESIDUE PE4 L1209
41
EC5
SOFTWARE
GLN C:34 , LEU C:145 , VAL C:147 , HOH C:2120 , HOH C:2121
BINDING SITE FOR RESIDUE PE3 C1210
42
EC6
SOFTWARE
TYR F:33 , ARG F:35 , GLY F:36 , LEU F:145 , HOH F:2131
BINDING SITE FOR RESIDUE PE3 F1208
43
EC7
SOFTWARE
GLN H:34 , ARG H:35 , GLY H:36 , LEU H:145 , VAL H:147
BINDING SITE FOR RESIDUE PE3 H3104
44
EC8
SOFTWARE
GLN G:34 , LEU G:145
BINDING SITE FOR RESIDUE PE3 G1208
45
EC9
SOFTWARE
GLN B:34 , ARG B:35 , LEU B:145 , VAL B:147 , HOH B:2020 , HOH B:2132
BINDING SITE FOR RESIDUE PE3 B1210
46
FC1
SOFTWARE
TYR I:33 , GLN I:34 , ARG I:35 , LEU I:145
BINDING SITE FOR RESIDUE PEG I1209
47
FC2
SOFTWARE
TYR K:33 , GLN K:34 , GLY K:36 , LEU K:145
BINDING SITE FOR RESIDUE PE3 K1209
48
FC3
SOFTWARE
GLN A:34 , ARG A:35 , GLY A:36 , LEU A:145 , VAL A:147 , SER A:148 , HOH A:2145
BINDING SITE FOR RESIDUE PE4 A1210
49
FC4
SOFTWARE
TYR E:33 , GLY E:36 , LEU E:145 , HOH E:2018
BINDING SITE FOR RESIDUE PE4 E1210
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 12)
Info
All PROSITE Patterns/Profiles
1: HORMA (A:14-197,B:14-197,C:14-197,D:14-19...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
HORMA
PS50815
HORMA domain profile.
MD2L1_HUMAN
14-197
12
A:14-197
B:14-197
C:14-197
D:14-197
E:14-197
F:14-197
G:14-197
H:14-197
I:14-197
J:14-197
K:14-197
L:14-197
[
close PROSITE info
]
Exons
(5, 60)
Info
All Exons
Exon 1.1a (A:1-25 | B:1-25 | C:1-25 | D:1-25 ...)
Exon 1.2a (A:25-74 | B:25-74 | C:25-74 | D:25...)
Exon 1.3 (A:74-114 (gaps) | B:74-114 (gaps) ...)
Exon 1.4b (A:114-149 | B:114-149 | C:114-149 ...)
Exon 1.5c (A:149-205 | B:149-205 | C:149-205 ...)
View:
Select:
Label:
All Exon Boundaries
1: Boundary -/1.1a
2: Boundary 1.1a/1.2a
3: Boundary 1.2a/1.3
4: Boundary 1.3/1.4b
5: Boundary 1.4b/1.5c
6: Boundary 1.5c/-
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
1.1a
ENST00000296509
1a
ENSE00001705676
chr4:
120988229-120987817
413
MD2L1_HUMAN
1-25
25
12
A:1-25
B:1-25
C:1-25
D:1-25
E:1-25
F:1-25
G:1-25
H:1-25
I:1-25
J:1-25
K:1-25
L:1-25
25
25
25
25
25
25
25
25
25
25
25
25
1.2a
ENST00000296509
2a
ENSE00001081494
chr4:
120986973-120986827
147
MD2L1_HUMAN
25-74
50
12
A:25-74
B:25-74
C:25-74
D:25-74
E:25-74
F:25-74
G:25-74
H:25-74
I:25-74
J:25-74
K:25-74
L:25-74
50
50
50
50
50
50
50
50
50
50
50
50
1.3
ENST00000296509
3
ENSE00001081493
chr4:
120983250-120983130
121
MD2L1_HUMAN
74-114
41
12
A:74-114 (gaps)
B:74-114 (gaps)
C:74-114 (gaps)
D:74-110
E:74-114
F:74-114 (gaps)
G:74-111
H:74-114 (gaps)
I:74-110
J:74-110
K:74-114
L:74-111
41
41
41
37
41
41
38
41
37
37
41
38
1.4b
ENST00000296509
4b
ENSE00001765948
chr4:
120982132-120982029
104
MD2L1_HUMAN
114-149
36
12
A:114-149
B:114-149
C:114-149
D:115-149
E:114-149
F:114-149
G:115-149
H:114-149
I:115-149
J:115-149
K:114-149
L:115-149
36
36
36
35
36
36
35
36
35
35
36
35
1.5c
ENST00000296509
5c
ENSE00001796865
chr4:
120981445-120980577
869
MD2L1_HUMAN
149-205
57
12
A:149-205
B:149-205
C:149-205
D:149-205
E:149-205
F:149-205
G:149-205
H:149-205
I:149-205
J:149-205 (gaps)
K:149-205
L:149-205
57
57
57
57
57
57
57
57
57
57
57
57
[
close EXON info
]
SCOP Domains
(1, 12)
Info
All SCOP Domains
1a: SCOP_d2vfxa_ (A:)
1b: SCOP_d2vfxb_ (B:)
1c: SCOP_d2vfxk_ (K:)
1d: SCOP_d2vfxl_ (L:)
1e: SCOP_d2vfxc_ (C:)
1f: SCOP_d2vfxd_ (D:)
1g: SCOP_d2vfxe_ (E:)
1h: SCOP_d2vfxf_ (F:)
1i: SCOP_d2vfxg_ (G:)
1j: SCOP_d2vfxh_ (H:)
1k: SCOP_d2vfxi_ (I:)
1l: SCOP_d2vfxj_ (J:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
The spindle assembly checkpoint protein mad2
(8)
Superfamily
:
The spindle assembly checkpoint protein mad2
(8)
Family
:
The spindle assembly checkpoint protein mad2
(7)
Protein domain
:
automated matches
(2)
Human (Homo sapiens) [TaxId: 9606]
(2)
1a
d2vfxa_
A:
1b
d2vfxb_
B:
1c
d2vfxk_
K:
1d
d2vfxl_
L:
1e
d2vfxc_
C:
1f
d2vfxd_
D:
1g
d2vfxe_
E:
1h
d2vfxf_
F:
1i
d2vfxg_
G:
1j
d2vfxh_
H:
1k
d2vfxi_
I:
1l
d2vfxj_
J:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(1, 12)
Info
all PFAM domains
1a: PFAM_HORMA_2vfxL01 (L:12-191)
1b: PFAM_HORMA_2vfxL02 (L:12-191)
1c: PFAM_HORMA_2vfxL03 (L:12-191)
1d: PFAM_HORMA_2vfxL04 (L:12-191)
1e: PFAM_HORMA_2vfxL05 (L:12-191)
1f: PFAM_HORMA_2vfxL06 (L:12-191)
1g: PFAM_HORMA_2vfxL07 (L:12-191)
1h: PFAM_HORMA_2vfxL08 (L:12-191)
1i: PFAM_HORMA_2vfxL09 (L:12-191)
1j: PFAM_HORMA_2vfxL10 (L:12-191)
1k: PFAM_HORMA_2vfxL11 (L:12-191)
1l: PFAM_HORMA_2vfxL12 (L:12-191)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: HORMA]
(5)
Family
:
HORMA
(5)
Homo sapiens (Human)
(5)
1a
HORMA-2vfxL01
L:12-191
1b
HORMA-2vfxL02
L:12-191
1c
HORMA-2vfxL03
L:12-191
1d
HORMA-2vfxL04
L:12-191
1e
HORMA-2vfxL05
L:12-191
1f
HORMA-2vfxL06
L:12-191
1g
HORMA-2vfxL07
L:12-191
1h
HORMA-2vfxL08
L:12-191
1i
HORMA-2vfxL09
L:12-191
1j
HORMA-2vfxL10
L:12-191
1k
HORMA-2vfxL11
L:12-191
1l
HORMA-2vfxL12
L:12-191
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