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3U1N
Asym. Unit
Info
Asym.Unit (585 KB)
Biol.Unit 1 (287 KB)
Biol.Unit 2 (289 KB)
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(1)
Title
:
STRUCTURE OF THE CATALYTIC CORE OF HUMAN SAMHD1
Authors
:
D. C. Goldstone, V. Ennis-Adeniran, P. A. Walker, L. F. Haire, M Webb, I
Date
:
30 Sep 11 (Deposition) - 16 Nov 11 (Release) - 12 Nov 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.10
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,D (1x)
Biol. Unit 2: B,C (1x)
Keywords
:
Hd-Domain, Deoxynucleotide Triphosphohydrolase, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. C. Goldstone, V. Ennis-Adeniran, J. J. Hedden, H. C. Groom, G. I. Rice, E. Christodoulou, P. A. Walker, G. Kelly, L. F. Haire, M. W. Yap, L. P. De Carvalho, J. P. Stoye, Y. J. Crow, I. A. Taylor, M. Web
Hiv-1 Restriction Factor Samhd1 Is A Deoxynucleoside Triphosphate Triphosphohydrolase
Nature V. 480 379 2011
[
close entry info
]
Hetero Components
(3, 40)
Info
All Hetero Components
1a: SELENOMETHIONINE (MSEa)
1aa: SELENOMETHIONINE (MSEaa)
1ab: SELENOMETHIONINE (MSEab)
1ac: SELENOMETHIONINE (MSEac)
1ad: SELENOMETHIONINE (MSEad)
1ae: SELENOMETHIONINE (MSEae)
1af: SELENOMETHIONINE (MSEaf)
1b: SELENOMETHIONINE (MSEb)
1c: SELENOMETHIONINE (MSEc)
1d: SELENOMETHIONINE (MSEd)
1e: SELENOMETHIONINE (MSEe)
1f: SELENOMETHIONINE (MSEf)
1g: SELENOMETHIONINE (MSEg)
1h: SELENOMETHIONINE (MSEh)
1i: SELENOMETHIONINE (MSEi)
1j: SELENOMETHIONINE (MSEj)
1k: SELENOMETHIONINE (MSEk)
1l: SELENOMETHIONINE (MSEl)
1m: SELENOMETHIONINE (MSEm)
1n: SELENOMETHIONINE (MSEn)
1o: SELENOMETHIONINE (MSEo)
1p: SELENOMETHIONINE (MSEp)
1q: SELENOMETHIONINE (MSEq)
1r: SELENOMETHIONINE (MSEr)
1s: SELENOMETHIONINE (MSEs)
1t: SELENOMETHIONINE (MSEt)
1u: SELENOMETHIONINE (MSEu)
1v: SELENOMETHIONINE (MSEv)
1w: SELENOMETHIONINE (MSEw)
1x: SELENOMETHIONINE (MSEx)
1y: SELENOMETHIONINE (MSEy)
1z: SELENOMETHIONINE (MSEz)
2a: PHOSPHATE ION (PO4a)
2b: PHOSPHATE ION (PO4b)
2c: PHOSPHATE ION (PO4c)
2d: PHOSPHATE ION (PO4d)
3a: ZINC ION (ZNa)
3b: ZINC ION (ZNb)
3c: ZINC ION (ZNc)
3d: ZINC ION (ZNd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MSE
32
Mod. Amino Acid
SELENOMETHIONINE
2
PO4
4
Ligand/Ion
PHOSPHATE ION
3
ZN
4
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
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
HOH A:18 , ARG A:164 , ASP A:207 , HIS A:210 , HIS A:215 , HIS A:233 , ASP A:311 , ZN A:627
BINDING SITE FOR RESIDUE PO4 A 1
2
AC2
SOFTWARE
ZN B:4 , HOH B:25 , ARG B:164 , ASP B:207 , HIS B:210 , HIS B:215 , HIS B:233 , ASP B:311
BINDING SITE FOR RESIDUE PO4 B 2
3
AC3
SOFTWARE
HOH C:7 , ARG C:164 , ASP C:207 , HIS C:210 , HIS C:215 , HIS C:233 , ASP C:311 , ZN C:627
BINDING SITE FOR RESIDUE PO4 C 3
4
AC4
SOFTWARE
ZN D:2 , HOH D:11 , ARG D:164 , ASP D:207 , HIS D:210 , HIS D:215 , ASP D:311
BINDING SITE FOR RESIDUE PO4 D 4
5
AC5
SOFTWARE
PO4 A:1 , HIS A:167 , HIS A:206 , ASP A:207 , ASP A:311
BINDING SITE FOR RESIDUE ZN A 627
6
AC6
SOFTWARE
PO4 D:4 , HIS D:167 , HIS D:206 , ASP D:207 , ASP D:311
BINDING SITE FOR RESIDUE ZN D 2
7
AC7
SOFTWARE
PO4 C:3 , HIS C:167 , HIS C:206 , ASP C:207 , ASP C:311
BINDING SITE FOR RESIDUE ZN C 627
8
AC8
SOFTWARE
PO4 B:2 , HIS B:167 , HIS B:206 , ASP B:207 , ASP B:311
BINDING SITE FOR RESIDUE ZN B 4
[
close Site info
]
SAPs(SNPs)/Variants
(11, 44)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_058481 (H123P, chain A/B/C/D, )
02: VAR_058482 (R143C, chain A/B/C/D, )
03: VAR_058483 (R143H, chain A/B/C/D, )
04: VAR_058484 (R145Q, chain A/B/C/D, )
05: VAR_070633 (H167Y, chain A/B/C/D, )
06: VAR_058485 (I201N, chain A/B/C/D, )
07: VAR_058486 (G209S, chain A/B/C/D, )
08: VAR_058487 (M254V, chain A/B/C/D, )
09: VAR_070634 (R290H, chain A/B/C/D, )
10: VAR_058488 (L369S, chain A/B/C/D, )
11: VAR_058489 (M385V, chain A/B/C/D, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_058481
H
123
P
SAMH1_HUMAN
Disease (AGS5)
---
A/B/C/D
H
123
P
02
UniProt
VAR_058482
R
143
C
SAMH1_HUMAN
Disease (AGS5)
---
A/B/C/D
R
143
C
03
UniProt
VAR_058483
R
143
H
SAMH1_HUMAN
Disease (AGS5)
---
A/B/C/D
R
143
H
04
UniProt
VAR_058484
R
145
Q
SAMH1_HUMAN
Disease (AGS5)
---
A/B/C/D
R
145
Q
05
UniProt
VAR_070633
H
167
Y
SAMH1_HUMAN
Disease (AGS5)
---
A/B/C/D
H
167
Y
06
UniProt
VAR_058485
I
201
N
SAMH1_HUMAN
Disease (CHBL2)
---
A/B/C/D
I
201
N
07
UniProt
VAR_058486
G
209
S
SAMH1_HUMAN
Disease (AGS5)
---
A/B/C/D
G
209
S
08
UniProt
VAR_058487
M
254
V
SAMH1_HUMAN
Disease (AGS5)
---
A/B/C/D
M
254
V
09
UniProt
VAR_070634
R
290
H
SAMH1_HUMAN
Disease (AGS5)
---
A/B/C/D
R
290
H
10
UniProt
VAR_058488
L
369
S
SAMH1_HUMAN
Disease (AGS5)
---
A/B/C/D
L
369
S
11
UniProt
VAR_058489
M
385
V
SAMH1_HUMAN
Disease (AGS5)
---
A/B/C/D
M
385
V
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: HD (A:164-316,B:164-316,C:164-316,D:16...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
HD
PS51831
HD domain profile.
SAMH1_HUMAN
164-316
4
A:164-316
B:164-316
C:164-316
D:164-316
[
close PROSITE info
]
Exons
(14, 54)
Info
All Exons
Exon 1.1a (- | - | C:117-118 | D:117-118)
Exon 1.4 (A:118-170 | B:118-170 | C:119-170 ...)
Exon 1.5 (A:170-209 | B:170-209 | C:170-209 ...)
Exon 1.6 (A:209-232 | B:209-232 | C:209-232 ...)
Exon 1.7 (A:233-284 (gaps) | B:233-284 (gaps...)
Exon 1.8 (A:285-318 | B:285-318 | C:285-318 ...)
Exon 1.9 (A:318-354 | B:318-354 | C:318-354 ...)
Exon 1.10 (A:355-385 | B:355-385 | C:355-385 ...)
Exon 1.11 (A:385-424 | B:385-424 | C:385-424 ...)
Exon 1.12a (A:424-470 | B:424-470 | C:424-470 ...)
Exon 1.13 (A:471-501 | B:471-501 | C:471-501 ...)
Exon 1.14 (A:502-530 (gaps) | B:502-531 (gaps...)
Exon 1.15a (A:546-582 | B:546-582 | C:547-582 ...)
Exon 1.16 (A:583-583 | B:583-583 | C:583-583 ...)
View:
Select:
Label:
All Exon Boundaries
01: Boundary -/1.1a
02: Boundary 1.1a/1.2
03: Boundary 1.3/1.4
04: Boundary 1.4/1.5
05: Boundary 1.5/1.6
06: Boundary 1.6/1.7
07: Boundary 1.7/1.8
08: Boundary 1.8/1.9
09: Boundary 1.9/1.10
10: Boundary 1.10/1.11
11: Boundary 1.11/1.12a
12: Boundary 1.12a/1.13
13: Boundary 1.13/1.14
14: Boundary 1.14/1.15a
15: Boundary 1.15a/1.16
16: Boundary 1.16/-
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
ENST00000262878
1a
ENSE00001898623
chr20:
35580246-35579839
408
SAMH1_HUMAN
1-70
70
2
-
-
C:117-118
D:117-118
-
-
2
2
1.2
ENST00000262878
2
ENSE00001678776
chr20:
35575207-35575141
67
SAMH1_HUMAN
70-92
23
0
-
-
1.3
ENST00000262878
3
ENSE00001650543
chr20:
35569514-35569442
73
SAMH1_HUMAN
92-116
25
0
-
-
1.4
ENST00000262878
4
ENSE00001681376
chr20:
35563592-35563432
161
SAMH1_HUMAN
117-170
54
4
A:118-170
B:118-170
C:119-170
D:119-170
53
53
52
52
1.5
ENST00000262878
5
ENSE00001594973
chr20:
35559278-35559163
116
SAMH1_HUMAN
170-209
40
4
A:170-209
B:170-209
C:170-209
D:170-209
40
40
40
40
1.6
ENST00000262878
6
ENSE00001630356
chr20:
35555655-35555585
71
SAMH1_HUMAN
209-232
24
4
A:209-232
B:209-232
C:209-232
D:209-232
24
24
24
24
1.7
ENST00000262878
7
ENSE00001752622
chr20:
35547922-35547767
156
SAMH1_HUMAN
233-284
52
4
A:233-284 (gaps)
B:233-284 (gaps)
C:233-284 (gaps)
D:233-284 (gaps)
52
52
52
52
1.8
ENST00000262878
8
ENSE00001667406
chr20:
35545452-35545352
101
SAMH1_HUMAN
285-318
34
4
A:285-318
B:285-318
C:285-318
D:285-318
34
34
34
34
1.9
ENST00000262878
9
ENSE00001793017
chr20:
35545233-35545125
109
SAMH1_HUMAN
318-354
37
4
A:318-354
B:318-354
C:318-354
D:318-354
37
37
37
37
1.10
ENST00000262878
10
ENSE00001711142
chr20:
35540955-35540864
92
SAMH1_HUMAN
355-385
31
4
A:355-385
B:355-385
C:355-385
D:355-385
31
31
31
31
1.11
ENST00000262878
11
ENSE00001622813
chr20:
35539736-35539621
116
SAMH1_HUMAN
385-424
40
4
A:385-424
B:385-424
C:385-424
D:385-424
40
40
40
40
1.12a
ENST00000262878
12a
ENSE00000661815
chr20:
35533906-35533767
140
SAMH1_HUMAN
424-470
47
4
A:424-470
B:424-470
C:424-470
D:424-470
47
47
47
47
1.13
ENST00000262878
13
ENSE00000661814
chr20:
35532652-35532560
93
SAMH1_HUMAN
471-501
31
4
A:471-501
B:471-501
C:471-501
D:471-501 (gaps)
31
31
31
31
1.14
ENST00000262878
14
ENSE00000661813
chr20:
35526947-35526843
105
SAMH1_HUMAN
502-536
35
4
A:502-530 (gaps)
B:502-531 (gaps)
C:502-523 (gaps)
D:502-523 (gaps)
29
30
22
22
1.15a
ENST00000262878
15a
ENSE00000661812
chr20:
35526362-35526225
138
SAMH1_HUMAN
537-582
46
4
A:546-582
B:546-582
C:547-582
D:547-582
37
37
36
36
1.16
ENST00000262878
16
ENSE00000800455
chr20:
35521469-35518632
2838
SAMH1_HUMAN
583-626
44
4
A:583-583
B:583-583
C:583-583
D:583-583
1
1
1
1
[
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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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Sorry, no Info available
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Asym.Unit (585 KB)
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