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4B3F
Asym. Unit
Info
Asym.Unit (216 KB)
Biol.Unit 1 (210 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF 1GHMBP2 HELICASE
Authors
:
S. C. Lim, H. Song
Date
:
24 Jul 12 (Deposition) - 26 Sep 12 (Release) - 19 Dec 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : X
Biol. Unit 1: X (1x)
Keywords
:
Hydrolase, Helicase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. C. Lim, M. W. Bowler, T. F. Lai, H. Song
The Ighmbp2 Helicase Structure Reveals The Molecular Basis For Disease-Causing Mutations In Dmsa1.
Nucleic Acids Res. V. 40 11009 2012
[
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Hetero Components
(1, 1)
Info
All Hetero Components
1a: PHOSPHATE ION (PO4a)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
PO4
1
Ligand/Ion
PHOSPHATE ION
[
close Hetero Component info
]
Sites
(1, 1)
Info
All Sites
1: AC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
PRO X:216 , GLY X:217 , GLN X:403 , ARG X:443 , GLY X:569 , ARG X:603 , HOH X:2046
BINDING SITE FOR RESIDUE PO4 X1649
[
close Site info
]
SAPs(SNPs)/Variants
(34, 34)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_058497 (L17P, chain X, )
02: VAR_022321 (L192P, chain X, )
03: VAR_058498 (Q196R, chain X, )
04: VAR_024242 (L201S, chain X, )
05: VAR_072694 (F202V, chain X, )
06: VAR_022322 (H213R, chain X, )
07: VAR_058499 (P216L, chain X, )
08: VAR_022323 (T221A, chain X, )
09: VAR_022324 (C241R, chain X, )
10: VAR_058500 (L251P, chain X, )
11: VAR_024243 (I275V, chain X, )
12: VAR_022325 (E334K, chain X, )
13: VAR_022326 (L361P, chain X, )
14: VAR_022327 (L364P, chain X, )
15: VAR_072695 (F369L, chain X, )
16: VAR_072696 (V373G, chain X, )
17: VAR_022328 (E382K, chain X, )
18: VAR_058501 (W386R, chain X, )
19: VAR_022329 (L426P, chain X, )
20: VAR_058502 (H445P, chain X, )
21: VAR_058503 (L472P, chain X, )
22: VAR_058504 (T493I, chain X, )
23: VAR_022330 (E514K, chain X, )
24: VAR_072697 (A528T, chain X, )
25: VAR_055226 (P557A, chain X, )
26: VAR_022331 (D565N, chain X, )
27: VAR_022333 (L577P, chain X, )
28: VAR_022334 (V580I, chain X, )
29: VAR_058505 (R581S, chain X, )
30: VAR_022335 (N583I, chain X, )
31: VAR_022336 (G586C, chain X, )
32: VAR_058506 (R603C, chain X, )
33: VAR_022337 (R603H, chain X, )
34: VAR_022338 (R637C, chain X, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_058497
L
17
P
SMBP2_HUMAN
Disease (HMN6)
---
X
L
17
P
02
UniProt
VAR_022321
L
192
P
SMBP2_HUMAN
Disease (HMN6)
---
X
L
192
P
03
UniProt
VAR_058498
Q
196
R
SMBP2_HUMAN
Disease (HMN6)
---
X
Q
196
R
04
UniProt
VAR_024242
L
201
S
SMBP2_HUMAN
Polymorphism
560096
X
L
201
S
05
UniProt
VAR_072694
F
202
V
SMBP2_HUMAN
Disease (CMT2S)
---
X
F
202
V
06
UniProt
VAR_022322
H
213
R
SMBP2_HUMAN
Disease (HMN6)
---
X
H
213
R
07
UniProt
VAR_058499
P
216
L
SMBP2_HUMAN
Disease (HMN6)
---
X
P
216
L
08
UniProt
VAR_022323
T
221
A
SMBP2_HUMAN
Disease (HMN6)
---
X
T
221
A
09
UniProt
VAR_022324
C
241
R
SMBP2_HUMAN
Disease (HMN6)
---
X
C
241
R
10
UniProt
VAR_058500
L
251
P
SMBP2_HUMAN
Disease (HMN6)
---
X
L
251
P
11
UniProt
VAR_024243
I
275
V
SMBP2_HUMAN
Polymorphism
10896380
X
I
275
V
12
UniProt
VAR_022325
E
334
K
SMBP2_HUMAN
Disease (HMN6)
---
X
E
334
K
13
UniProt
VAR_022326
L
361
P
SMBP2_HUMAN
Disease (HMN6)
---
X
L
361
P
14
UniProt
VAR_022327
L
364
P
SMBP2_HUMAN
Disease (HMN6)
---
X
L
364
P
15
UniProt
VAR_072695
F
369
L
SMBP2_HUMAN
Disease (HMN6)
---
X
F
369
L
16
UniProt
VAR_072696
V
373
G
SMBP2_HUMAN
Disease (CMT2S)
---
X
V
373
G
17
UniProt
VAR_022328
E
382
K
SMBP2_HUMAN
Disease (HMN6)
---
X
E
382
K
18
UniProt
VAR_058501
W
386
R
SMBP2_HUMAN
Disease (HMN6)
---
X
W
386
R
19
UniProt
VAR_022329
L
426
P
SMBP2_HUMAN
Disease (HMN6)
---
X
L
426
P
20
UniProt
VAR_058502
H
445
P
SMBP2_HUMAN
Disease (HMN6)
---
X
H
445
P
21
UniProt
VAR_058503
L
472
P
SMBP2_HUMAN
Disease (HMN6)
---
X
L
472
P
22
UniProt
VAR_058504
T
493
I
SMBP2_HUMAN
Disease (HMN6)
---
X
T
493
I
23
UniProt
VAR_022330
E
514
K
SMBP2_HUMAN
Disease (HMN6)
---
X
E
514
K
24
UniProt
VAR_072697
A
528
T
SMBP2_HUMAN
Disease (CMT2S)
---
X
A
528
T
25
UniProt
VAR_055226
P
557
A
SMBP2_HUMAN
Polymorphism
7122089
X
P
557
A
26
UniProt
VAR_022331
D
565
N
SMBP2_HUMAN
Disease (HMN6)
---
X
D
565
N
27
UniProt
VAR_022333
L
577
P
SMBP2_HUMAN
Disease (HMN6)
---
X
L
577
P
28
UniProt
VAR_022334
V
580
I
SMBP2_HUMAN
Disease (HMN6)
---
X
V
580
I
29
UniProt
VAR_058505
R
581
S
SMBP2_HUMAN
Disease (HMN6)
---
X
R
581
S
30
UniProt
VAR_022335
N
583
I
SMBP2_HUMAN
Disease (HMN6)
---
X
N
583
I
31
UniProt
VAR_022336
G
586
C
SMBP2_HUMAN
Disease (HMN6)
---
X
G
586
C
32
UniProt
VAR_058506
R
603
C
SMBP2_HUMAN
Disease (HMN6)
---
X
R
603
C
33
UniProt
VAR_022337
R
603
H
SMBP2_HUMAN
Disease (HMN6)
---
X
R
603
H
34
UniProt
VAR_022338
R
637
C
SMBP2_HUMAN
Disease (HMN6)
---
X
R
637
C
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
close PROSITE info
]
Exons
(13, 13)
Info
All Exons
Exon 1.1 (X:3-29)
Exon 1.2 (X:29-86 (gaps))
Exon 1.3 (X:86-150 (gaps))
Exon 1.4 (X:150-183)
Exon 1.5 (X:183-237)
Exon 1.6 (X:238-304)
Exon 1.7 (X:305-354 (gaps))
Exon 1.8 (X:354-412)
Exon 1.9 (X:412-473)
Exon 1.10 (X:473-513 (gaps))
Exon 1.11 (X:513-544)
Exon 1.12 (X:545-586)
Exon 1.13 (X:586-648)
View:
Select:
Label:
All Exon Boundaries
01: Boundary -/1.1
02: Boundary 1.1/1.2
03: Boundary 1.2/1.3
04: Boundary 1.3/1.4
05: Boundary 1.4/1.5
06: Boundary 1.5/1.6
07: Boundary 1.6/1.7
08: Boundary 1.7/1.8
09: Boundary 1.8/1.9
10: Boundary 1.9/1.10
11: Boundary 1.10/1.11
12: Boundary 1.11/1.12
13: Boundary 1.12/1.13
14: Boundary 1.13/1.14
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
ENST00000255078
1
ENSE00001200470
chr11:
68671319-68671506
188
SMBP2_HUMAN
1-29
29
1
X:3-29
27
1.2
ENST00000255078
2
ENSE00001064263
chr11:
68673537-68673706
170
SMBP2_HUMAN
29-86
58
1
X:29-86 (gaps)
58
1.3
ENST00000255078
3
ENSE00001117306
chr11:
68675613-68675805
193
SMBP2_HUMAN
86-150
65
1
X:86-150 (gaps)
65
1.4
ENST00000255078
4
ENSE00001117303
chr11:
68676002-68676099
98
SMBP2_HUMAN
150-183
34
1
X:150-183
34
1.5
ENST00000255078
5
ENSE00001200445
chr11:
68678908-68679071
164
SMBP2_HUMAN
183-237
55
1
X:183-237
55
1.6
ENST00000255078
6
ENSE00000737364
chr11:
68682291-68682491
201
SMBP2_HUMAN
238-304
67
1
X:238-304
67
1.7
ENST00000255078
7
ENSE00001117311
chr11:
68685204-68685351
148
SMBP2_HUMAN
305-354
50
1
X:305-354 (gaps)
50
1.8
ENST00000255078
8
ENSE00001117308
chr11:
68696651-68696825
175
SMBP2_HUMAN
354-412
59
1
X:354-412
59
1.9
ENST00000255078
9
ENSE00001200438
chr11:
68700767-68700949
183
SMBP2_HUMAN
412-473
62
1
X:412-473
62
1.10
ENST00000255078
10
ENSE00001200433
chr11:
68701263-68701381
119
SMBP2_HUMAN
473-513
41
1
X:473-513 (gaps)
41
1.11
ENST00000255078
11
ENSE00001200427
chr11:
68701932-68702026
95
SMBP2_HUMAN
513-544
32
1
X:513-544
32
1.12
ENST00000255078
12
ENSE00001200421
chr11:
68702767-68702890
124
SMBP2_HUMAN
545-586
42
1
X:545-586
42
1.13
ENST00000255078
13
ENSE00001165813
chr11:
68703705-68704559
855
SMBP2_HUMAN
586-871
286
1
X:586-648
63
1.14
ENST00000255078
14
ENSE00001200411
chr11:
68705650-68705822
173
SMBP2_HUMAN
871-928
58
0
-
-
1.15
ENST00000255078
15
ENSE00001311607
chr11:
68707002-68708069
1068
SMBP2_HUMAN
929-993
65
0
-
-
[
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]
SCOP Domains
(0, 0)
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CATH Domains
(0, 0)
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all CATH domains
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Pfam Domains
(0, 0)
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all PFAM domains
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