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Asym. Unit
Info
Asym.Unit (555 KB)
Biol.Unit 1 (547 KB)
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Title
:
HUMAN DOUBLECORTIN N-DC REPEAT (1MJD) AND MAMMALIAN TUBULIN (1JFF AND 3HKE) DOCKED INTO THE 8-ANGSTROM CRYO-EM MAP OF DOUBLECORTIN-STABILISED MICROTUBULES
Authors
:
F. J. Fourniol, C. V. Sindelar, B. Amigues, D. K. Clare, G. Thomas, M. Per F. Francis, A. Houdusse, C. A. Moores
Date
:
18 Sep 10 (Deposition) - 24 Nov 10 (Release) - 21 Mar 12 (Revision)
Method
:
ELECTRON MICROSCOPY
Resolution
:
8.20
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I
Biol. Unit 1: A,B,C,D,E,F,G,H,I (1x)
Keywords
:
Structural Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
F. J. Fourniol, C. V. Sindelar, B. Amigues, D. K. Clare, G. Thomas, M. Perderiset, F. Francis, A. Houdusse, C. A. Moores
Template-Free 13-Protofilament Microtubule-Map Assembly Visualized At 8 A Resolution.
J. Cell Biol. V. 191 463 2010
[
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Hetero Components
(2, 8)
Info
All Hetero Components
1a: GUANOSINE-5'-DIPHOSPHATE (GDPa)
1b: GUANOSINE-5'-DIPHOSPHATE (GDPb)
1c: GUANOSINE-5'-DIPHOSPHATE (GDPc)
1d: GUANOSINE-5'-DIPHOSPHATE (GDPd)
2a: GUANOSINE-5'-TRIPHOSPHATE (GTPa)
2b: GUANOSINE-5'-TRIPHOSPHATE (GTPb)
2c: GUANOSINE-5'-TRIPHOSPHATE (GTPc)
2d: GUANOSINE-5'-TRIPHOSPHATE (GTPd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GDP
4
Ligand/Ion
GUANOSINE-5'-DIPHOSPHATE
2
GTP
4
Ligand/Ion
GUANOSINE-5'-TRIPHOSPHATE
[
close Hetero Component info
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Sites
(8, 8)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLY A:10 , GLN A:11 , CYS A:12 , GLN A:15 , SER A:140 , GLY A:142 , GLY A:144 , THR A:145 , GLY A:146 , ASP A:179 , ASN A:206 , TYR A:224 , ASN A:228
BINDING SITE FOR RESIDUE GDP A 600
2
AC2
SOFTWARE
LEU A:248 , LYS A:254 , GLY B:10 , GLN B:11 , ALA B:12 , GLN B:15 , ALA B:99 , ALA B:100 , ASN B:101 , SER B:140 , GLY B:143 , GLY B:144 , THR B:145 , GLY B:146 , ILE B:171 , GLU B:183 , ASN B:206 , TYR B:224 , ASN B:228
BINDING SITE FOR RESIDUE GTP B 500
3
AC3
SOFTWARE
GLY C:10 , GLN C:11 , CYS C:12 , GLN C:15 , SER C:140 , GLY C:142 , GLY C:144 , THR C:145 , GLY C:146 , ASP C:179 , ASN C:206 , TYR C:224 , ASN C:228
BINDING SITE FOR RESIDUE GDP C 600
4
AC4
SOFTWARE
LEU C:248 , LYS C:254 , GLY D:10 , GLN D:11 , ALA D:12 , GLN D:15 , ALA D:99 , ALA D:100 , ASN D:101 , SER D:140 , GLY D:143 , GLY D:144 , THR D:145 , GLY D:146 , ILE D:171 , GLU D:183 , ASN D:206 , TYR D:224 , ASN D:228
BINDING SITE FOR RESIDUE GTP D 500
5
AC5
SOFTWARE
GLY E:10 , GLN E:11 , CYS E:12 , GLN E:15 , SER E:140 , GLY E:142 , GLY E:144 , THR E:145 , GLY E:146 , ASP E:179 , ASN E:206 , TYR E:224 , ASN E:228
BINDING SITE FOR RESIDUE GDP E 600
6
AC6
SOFTWARE
LEU E:248 , LYS E:254 , GLY F:10 , GLN F:11 , ALA F:12 , GLN F:15 , ALA F:99 , ALA F:100 , ASN F:101 , SER F:140 , GLY F:143 , GLY F:144 , THR F:145 , GLY F:146 , ILE F:171 , GLU F:183 , ASN F:206 , TYR F:224 , ASN F:228
BINDING SITE FOR RESIDUE GTP F 500
7
AC7
SOFTWARE
GLY G:10 , GLN G:11 , CYS G:12 , GLN G:15 , SER G:140 , GLY G:142 , GLY G:144 , THR G:145 , GLY G:146 , ASP G:179 , ASN G:206 , TYR G:224 , ASN G:228
BINDING SITE FOR RESIDUE GDP G 600
8
AC8
SOFTWARE
LEU G:248 , GLY H:10 , GLN H:11 , ALA H:12 , GLN H:15 , ALA H:99 , ALA H:100 , ASN H:101 , SER H:140 , GLY H:143 , GLY H:144 , THR H:145 , GLY H:146 , ILE H:171 , GLU H:183 , ASN H:206 , TYR H:224 , ASN H:228
BINDING SITE FOR RESIDUE GTP H 500
[
close Site info
]
SAPs(SNPs)/Variants
(18, 18)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_007820 (S47R, chain I, )
02: VAR_026023 (K50N, chain I, )
03: VAR_007822 (R59H, chain I, )
04: VAR_007821 (R59L, chain I, )
05: VAR_026024 (N60D, chain I, )
06: VAR_007823 (D62N, chain I, )
07: VAR_026025 (G67E, chain I, )
08: VAR_026026 (A71S, chain I, )
09: VAR_010202 (R78H, chain I, )
10: VAR_007824 (R78L, chain I, )
11: VAR_007825 (D86H, chain I, )
12: VAR_010536 (R89G, chain I, )
13: VAR_026027 (L97R, chain I, )
14: VAR_007826 (G100A, chain I, )
15: VAR_007827 (R102S, chain I, )
16: VAR_026028 (I104T, chain I, )
17: VAR_007829 (Y125D, chain I, )
18: VAR_007828 (Y125H, chain I, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_007820
S
128
R
DCX_HUMAN
Disease (SBHX)
---
I
S
47
R
02
UniProt
VAR_026023
K
131
N
DCX_HUMAN
Disease (SBHX)
---
I
K
50
N
03
UniProt
VAR_007822
R
140
H
DCX_HUMAN
Disease (SBHX)
---
I
R
59
H
04
UniProt
VAR_007821
R
140
L
DCX_HUMAN
Disease (SBHX)
---
I
R
59
L
05
UniProt
VAR_026024
N
141
D
DCX_HUMAN
Disease (LISX1)
---
I
N
60
D
06
UniProt
VAR_007823
D
143
N
DCX_HUMAN
Disease (SBHX)
---
I
D
62
N
07
UniProt
VAR_026025
G
148
E
DCX_HUMAN
Disease (SBHX)
---
I
G
67
E
08
UniProt
VAR_026026
A
152
S
DCX_HUMAN
Disease (LISX1)
---
I
A
71
S
09
UniProt
VAR_010202
R
159
H
DCX_HUMAN
Unclassified
---
I
R
78
H
10
UniProt
VAR_007824
R
159
L
DCX_HUMAN
Disease (SBHX)
---
I
R
78
L
11
UniProt
VAR_007825
D
167
H
DCX_HUMAN
Disease (SBHX)
---
I
D
86
H
12
UniProt
VAR_010536
R
170
G
DCX_HUMAN
Disease (SBHX)
---
I
R
89
G
13
UniProt
VAR_026027
L
178
R
DCX_HUMAN
Disease (SBHX)
---
I
L
97
R
14
UniProt
VAR_007826
G
181
A
DCX_HUMAN
Disease (SBHX)
---
I
G
100
A
15
UniProt
VAR_007827
R
183
S
DCX_HUMAN
Disease (LISX1)
---
I
R
102
S
16
UniProt
VAR_026028
I
185
T
DCX_HUMAN
Disease (SBHX)
---
I
I
104
T
17
UniProt
VAR_007829
Y
206
D
DCX_HUMAN
Disease (SBHX)
---
I
Y
125
D
18
UniProt
VAR_007828
Y
206
H
DCX_HUMAN
Disease (SBHX)
---
I
Y
125
H
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 9)
Info
All PROSITE Patterns/Profiles
1: DC (I:53-139|-)
2: TUBULIN (A:142-148,C:142-148,E:142-148,G:14...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
DC
PS50309
Doublecortin domain profile.
DCX_HUMAN
53-139
180-263
1
I:53-139
-
2
TUBULIN
PS00227
Tubulin subunits alpha, beta, and gamma signature.
TBB2B_BOVIN
140-146
4
A:142-148
C:142-148
E:142-148
G:142-148
TBA1D_BOVIN
142-148
4
B:142-148
D:142-148
F:142-148
H:142-148
[
close PROSITE info
]
Exons
(4, 16)
Info
All Exons
Exon 1.1 (A:2-19 | C:2-19 | E:2-19 | G:2-19)
Exon 1.2 (A:20-58 (gaps) | C:20-58 (gaps) | ...)
Exon 1.3 (A:58-95 | C:58-95 | E:58-95 | G:58...)
Exon 1.4 (A:95-437 (gaps) | C:95-437 (gaps) ...)
View:
Select:
Label:
All Exon Boundaries
1: Boundary -/1.1
2: Boundary 1.1/1.2
3: Boundary 1.2/1.3
4: Boundary 1.3/1.4
5: Boundary 1.4/-
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
ENSBTAT00000005346
1
ENSBTAE00000067590
chr23:
51448815-51448966
152
TBB2B_BOVIN
1-19
19
4
A:2-19
C:2-19
E:2-19
G:2-19
18
18
18
18
1.2
ENSBTAT00000005346
2
ENSBTAE00000380542
chr23:
51449714-51449822
109
TBB2B_BOVIN
20-56
37
4
A:20-58 (gaps)
C:20-58 (gaps)
E:20-58 (gaps)
G:20-58 (gaps)
39
39
39
39
1.3
ENSBTAT00000005346
3
ENSBTAE00000419208
chr23:
51450093-51450203
111
TBB2B_BOVIN
56-93
38
4
A:58-95
C:58-95
E:58-95
G:58-95
38
38
38
38
1.4
ENSBTAT00000005346
4
ENSBTAE00000067601
chr23:
51450543-51451603
1061
TBB2B_BOVIN
93-445
353
4
A:95-437 (gaps)
C:95-437 (gaps)
E:95-437 (gaps)
G:95-437 (gaps)
343
343
343
343
[
close EXON info
]
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
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]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(2, 16)
Info
all PFAM domains
1a: PFAM_Tubulin_2xrpH01 (H:3-226)
1b: PFAM_Tubulin_2xrpH02 (H:3-226)
1c: PFAM_Tubulin_2xrpH03 (H:3-226)
1d: PFAM_Tubulin_2xrpH04 (H:3-226)
1e: PFAM_Tubulin_2xrpG01 (G:3-226)
1f: PFAM_Tubulin_2xrpG02 (G:3-226)
1g: PFAM_Tubulin_2xrpG03 (G:3-226)
1h: PFAM_Tubulin_2xrpG04 (G:3-226)
2a: PFAM_Tubulin_C_2xrpH05 (H:263-393)
2b: PFAM_Tubulin_C_2xrpH06 (H:263-393)
2c: PFAM_Tubulin_C_2xrpH07 (H:263-393)
2d: PFAM_Tubulin_C_2xrpH08 (H:263-393)
2e: PFAM_Tubulin_C_2xrpG05 (G:263-393)
2f: PFAM_Tubulin_C_2xrpG06 (G:263-393)
2g: PFAM_Tubulin_C_2xrpG07 (G:263-393)
2h: PFAM_Tubulin_C_2xrpG08 (G:263-393)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Tubulin-like
(34)
Family
:
Tubulin
(34)
Bos taurus (Bovine)
(7)
1a
Tubulin-2xrpH01
H:3-226
1b
Tubulin-2xrpH02
H:3-226
1c
Tubulin-2xrpH03
H:3-226
1d
Tubulin-2xrpH04
H:3-226
1e
Tubulin-2xrpG01
G:3-226
1f
Tubulin-2xrpG02
G:3-226
1g
Tubulin-2xrpG03
G:3-226
1h
Tubulin-2xrpG04
G:3-226
Family
:
Tubulin_C
(11)
Bos taurus (Bovine)
(7)
2a
Tubulin_C-2xrpH05
H:263-393
2b
Tubulin_C-2xrpH06
H:263-393
2c
Tubulin_C-2xrpH07
H:263-393
2d
Tubulin_C-2xrpH08
H:263-393
2e
Tubulin_C-2xrpG05
G:263-393
2f
Tubulin_C-2xrpG06
G:263-393
2g
Tubulin_C-2xrpG07
G:263-393
2h
Tubulin_C-2xrpG08
G:263-393
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