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1X6V
Asym. Unit
Info
Asym.Unit (214 KB)
Biol.Unit 1 (207 KB)
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(1)
Title
:
THE CRYSTAL STRUCTURE OF HUMAN 3'-PHOSPHOADENOSINE-5'-PHOSPHOSULFATE SYNTHETASE 1
Authors
:
S. Harjes, P. Bayer, A. J. Scheidig
Date
:
12 Aug 04 (Deposition) - 22 Mar 05 (Release) - 06 Mar 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.75
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Transferase, Atp Sulfurylase, Aps Kinase, Paps, Phosphoadenosine Phosphosulfate
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Harjes, P. Bayer, A. J. Scheidig
The Crystal Structure Of Human Paps Synthetase 1 Reveals Asymmetry In Substrate Binding
J. Mol. Biol. V. 347 623 2005
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Hetero Components
(2, 3)
Info
All Hetero Components
1a: ADENOSINE-5'-DIPHOSPHATE (ADPa)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ADP
1
Ligand/Ion
ADENOSINE-5'-DIPHOSPHATE
2
CL
2
Ligand/Ion
CHLORIDE ION
[
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Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLN A:419 , ALA A:525
BINDING SITE FOR RESIDUE CL A 700
2
AC2
SOFTWARE
GLN B:419 , MET B:495 , ALA B:525 , HOH B:1275 , HOH B:1344
BINDING SITE FOR RESIDUE CL B 700
3
AC3
SOFTWARE
LEU B:60 , GLY B:62 , ALA B:63 , GLY B:64 , LYS B:65 , THR B:66 , THR B:67 , ARG B:168 , VAL B:170 , THR B:204 , CYS B:207 , ASP B:208 , CYS B:212 , HOH B:876 , HOH B:1012 , HOH B:1028 , HOH B:1186 , HOH B:1289
BINDING SITE FOR RESIDUE ADP B 800
[
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SAPs(SNPs)/Variants
(2, 4)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_014065 (L270F, chain A/B, )
2: VAR_014064 (S587L, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_014065
L
270
F
PAPS1_HUMAN
Polymorphism
1127008
A/B
L
270
F
2
UniProt
VAR_014064
S
587
L
PAPS1_HUMAN
Polymorphism
1127014
A/B
S
587
L
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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End label:
Sorry, no Info available
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Exons
(11, 22)
Info
All Exons
Exon 1.3 (A:34-59 | B:34-59)
Exon 1.4c (A:59-137 | B:59-137)
Exon 1.5c (A:138-160 | B:138-180)
Exon 1.6 (A:191-223 | B:185-223)
Exon 1.7b (A:224-261 | B:224-261)
Exon 1.8 (A:262-299 | B:262-299)
Exon 1.9 (A:299-367 | B:299-367)
Exon 1.10b (A:368-413 | B:368-413)
Exon 1.11 (A:413-502 | B:413-502)
Exon 1.12a (A:503-579 | B:503-579)
Exon 1.13 (A:579-624 | B:579-623)
View:
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All Exon Boundaries
01: Boundary 1.1a/1.3
02: Boundary 1.3/1.4c
03: Boundary 1.4c/1.5c
04: Boundary 1.5c/1.6
05: Boundary 1.6/1.7b
06: Boundary 1.7b/1.8
07: Boundary 1.8/1.9
08: Boundary 1.9/1.10b
09: Boundary 1.10b/1.11
10: Boundary 1.11/1.12a
11: Boundary 1.12a/1.13
12: Boundary 1.13/-
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
ENST00000265174
1a
ENSE00000935008
chr4:
108641608-108641276
333
PAPS1_HUMAN
1-20
20
0
-
-
1.3
ENST00000265174
3
ENSE00000935007
chr4:
108622441-108622327
115
PAPS1_HUMAN
21-59
39
2
A:34-59
B:34-59
26
26
1.4c
ENST00000265174
4c
ENSE00000736237
chr4:
108615162-108614927
236
PAPS1_HUMAN
59-137
79
2
A:59-137
B:59-137
79
79
1.5c
ENST00000265174
5c
ENSE00000736234
chr4:
108608333-108608195
139
PAPS1_HUMAN
138-184
47
2
A:138-160
B:138-180
23
43
1.6
ENST00000265174
6
ENSE00000736231
chr4:
108603289-108603171
119
PAPS1_HUMAN
184-223
40
2
A:191-223
B:185-223
33
39
1.7b
ENST00000265174
7b
ENSE00000841651
chr4:
108581228-108581115
114
PAPS1_HUMAN
224-261
38
2
A:224-261
B:224-261
38
38
1.8
ENST00000265174
8
ENSE00000841650
chr4:
108578163-108578052
112
PAPS1_HUMAN
262-299
38
2
A:262-299
B:262-299
38
38
1.9
ENST00000265174
9
ENSE00000841649
chr4:
108576056-108575851
206
PAPS1_HUMAN
299-367
69
2
A:299-367
B:299-367
69
69
1.10b
ENST00000265174
10b
ENSE00001217423
chr4:
108574782-108574647
136
PAPS1_HUMAN
368-413
46
2
A:368-413
B:368-413
46
46
1.11
ENST00000265174
11
ENSE00001217417
chr4:
108566226-108565958
269
PAPS1_HUMAN
413-502
90
2
A:413-502
B:413-502
90
90
1.12a
ENST00000265174
12a
ENSE00001217412
chr4:
108553016-108552787
230
PAPS1_HUMAN
503-579
77
2
A:503-579
B:503-579
77
77
1.13
ENST00000265174
13
ENSE00001217468
chr4:
108535543-108534822
722
PAPS1_HUMAN
579-624
46
2
A:579-624
B:579-623
46
45
[
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SCOP Domains
(3, 6)
Info
All SCOP Domains
1a: SCOP_d1x6va1 (A:229-389)
1b: SCOP_d1x6vb1 (B:229-389)
2a: SCOP_d1x6va2 (A:390-624)
2b: SCOP_d1x6vb2 (B:390-623)
3a: SCOP_d1x6va3 (A:34-228)
3b: SCOP_d1x6vb3 (B:34-228)
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Class
:
All beta proteins
(24004)
Fold
:
PUA domain-like
(96)
Superfamily
:
PUA domain-like
(96)
Family
:
ATP sulfurylase N-terminal domain
(15)
Protein domain
:
ATP sulfurylase N-terminal domain
(15)
Human (Homo sapiens) [TaxId: 9606]
(3)
1a
d1x6va1
A:229-389
1b
d1x6vb1
B:229-389
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Adenine nucleotide alpha hydrolase-like
(440)
Superfamily
:
Nucleotidylyl transferase
(325)
Family
:
ATP sulfurylase catalytic domain
(16)
Protein domain
:
ATP sulfurylase catalytic domain
(15)
Human (Homo sapiens) [TaxId: 9606]
(3)
2a
d1x6va2
A:390-624
2b
d1x6vb2
B:390-623
Fold
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Superfamily
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Family
:
Adenosine-5'phosphosulfate kinase (APS kinase)
(9)
Protein domain
:
Adenosine-5'phosphosulfate kinase (APS kinase)
(6)
Human (Homo sapiens) [TaxId: 9606]
(3)
3a
d1x6va3
A:34-228
3b
d1x6vb3
B:34-228
[
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_1x6vB01 (B:34-232)
1b: CATH_1x6vA01 (A:34-232)
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Organisms
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(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
P-loop containing nucleotide triphosphate hydrolases
(1378)
Human (Homo sapiens)
(413)
1a
1x6vB01
B:34-232
1b
1x6vA01
A:34-232
[
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Pfam Domains
(3, 6)
Info
all PFAM domains
1a: PFAM_ATP_sulfurylase_1x6vB01 (B:393-618)
1b: PFAM_ATP_sulfurylase_1x6vB02 (B:393-618)
2a: PFAM_APS_kinase_1x6vB03 (B:51-209)
2b: PFAM_APS_kinase_1x6vB04 (B:51-209)
3a: PFAM_PUA_2_1x6vB05 (B:225-386)
3b: PFAM_PUA_2_1x6vB06 (B:225-386)
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Clan
:
HUP
(230)
Family
:
ATP-sulfurylase
(9)
Homo sapiens (Human)
(4)
1a
ATP-sulfurylase-1x6vB01
B:393-618
1b
ATP-sulfurylase-1x6vB02
B:393-618
Clan
:
P-loop_NTPase
(1112)
Family
:
APS_kinase
(10)
Homo sapiens (Human)
(7)
2a
APS_kinase-1x6vB03
B:51-209
2b
APS_kinase-1x6vB04
B:51-209
Clan
:
PUA
(42)
Family
:
PUA_2
(11)
Homo sapiens (Human)
(6)
3a
PUA_2-1x6vB05
B:225-386
3b
PUA_2-1x6vB06
B:225-386
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