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1PKX
Biol. Unit 1
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Asym.Unit (384 KB)
Biol.Unit 1 (193 KB)
Biol.Unit 2 (192 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN ATIC IN COMPLEX WITH XMP
Authors
:
D. W. Wolan, C. G. Cheong, S. E. Greasley, I. A. Wilson
Date
:
06 Jun 03 (Deposition) - 17 Feb 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Atic, Aicar Transformylase, Imp Cyclohydrolase, Xanthosine Monophosphate, Purine Biosynthesis, Transferase, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. W. Wolan, C. G. Cheong, S. E. Greasley, I. A. Wilson
Structural Insights Into The Human And Avian Imp Cyclohydrolase Mechanism Via Crystal Structures With The Bound Xmp Inhibitor.
Biochemistry V. 43 1171 2004
(for further references see the
PDB file header
)
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Hetero Components
(1, 1)
Info
All Hetero Components
1a: POTASSIUM ION (Ka)
1b: POTASSIUM ION (Kb)
1c: POTASSIUM ION (Kc)
1d: POTASSIUM ION (Kd)
2a: XANTHOSINE-5'-MONOPHOSPHATE (XMPa)
2b: XANTHOSINE-5'-MONOPHOSPHATE (XMPb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
K
-1
Ligand/Ion
POTASSIUM ION
2
XMP
1
Ligand/Ion
XANTHOSINE-5'-MONOPHOSPHATE
[
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Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
VAL A:425 , THR A:428 , SER A:430 , SER A:432 , ASP A:539 , LEU A:589 , HIS A:591
BINDING SITE FOR RESIDUE K A 2001
2
AC2
SOFTWARE
VAL B:425 , THR B:428 , SER B:430 , SER B:432 , ASP B:539 , LEU B:589
BINDING SITE FOR RESIDUE K B 2002
3
AC5
SOFTWARE
SER A:10 , VAL A:11 , SER A:12 , LYS A:14 , SER A:34 , GLY A:36 , THR A:37 , ARG A:64 , LYS A:66 , THR A:67 , CYS A:101 , ASN A:102 , LEU A:103 , TYR A:104 , ASP A:125 , ILE A:126 , GLY A:127 , GLY A:128
BINDING SITE FOR RESIDUE XMP A 1901
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SAPs(SNPs)/Variants
(2, 4)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_019306 (T116S, chain A/B, )
2: VAR_019307 (K426R, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_019306
T
116
S
PUR9_HUMAN
Polymorphism
2372536
A/B
T
116
S
2
UniProt
VAR_019307
K
426
R
PUR9_HUMAN
Disease (AICAR)
---
A/B
K
426
R
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(, 0)
Info
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;
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Exons
(0, 0)
Info
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(2, 8)
Info
All SCOP Domains
1a: SCOP_d1pkxa2 (A:201-592)
1b: SCOP_d1pkxb2 (B:201-592)
1c: SCOP_d1pkxc2 (C:201-592)
1d: SCOP_d1pkxd2 (D:201-592)
2a: SCOP_d1pkxa1 (A:3-200)
2b: SCOP_d1pkxb1 (B:4-200)
2c: SCOP_d1pkxc1 (C:4-200)
2d: SCOP_d1pkxd1 (D:4-200)
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(
)
(
)
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(
)
(
)
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(
)
(
)
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(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Cytidine deaminase-like
(78)
Superfamily
:
Cytidine deaminase-like
(76)
Family
:
AICAR transformylase domain of bifunctional purine biosynthesis enzyme ATIC
(12)
Protein domain
:
AICAR transformylase domain of bifunctional purine biosynthesis enzyme ATIC
(12)
Human (Homo sapiens) [TaxId: 9606]
(3)
1a
d1pkxa2
A:201-592
1b
d1pkxb2
B:201-592
1c
d1pkxc2
C:201-592
1d
d1pkxd2
D:201-592
Fold
:
Methylglyoxal synthase-like
(31)
Superfamily
:
Methylglyoxal synthase-like
(31)
Family
:
Inosicase
(12)
Protein domain
:
IMP cyclohydrolase domain of bifunctional purine biosynthesis enzyme ATIC
(12)
Human (Homo sapiens) [TaxId: 9606]
(3)
2a
d1pkxa1
A:3-200
2b
d1pkxb1
B:4-200
2c
d1pkxc1
C:4-200
2d
d1pkxd1
D:4-200
[
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CATH Domains
(3, 16)
Info
all CATH domains
1a: CATH_1pkxA02 (A:374-475,A:519-584)
1b: CATH_1pkxB02 (B:374-475,B:519-584)
1c: CATH_1pkxA03 (A:227-373)
1d: CATH_1pkxB03 (B:227-373)
1e: CATH_1pkxC03 (C:227-373)
1f: CATH_1pkxD03 (D:227-373)
1g: CATH_1pkxC02 (C:374-475,C:519-584)
1h: CATH_1pkxD02 (D:374-475,D:519-584)
2a: CATH_1pkxB04 (B:4-197)
2b: CATH_1pkxC04 (C:4-197)
2c: CATH_1pkxD04 (D:4-197)
2d: CATH_1pkxA04 (A:3-197)
3a: CATH_1pkxB01 (B:476-518)
3b: CATH_1pkxD01 (D:476-518)
3c: CATH_1pkxA01 (A:476-518)
3d: CATH_1pkxC01 (C:476-518)
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)
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)
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)
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)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Cytidine Deaminase; domain 2
(44)
Homologous Superfamily
:
[code=3.40.140.20, no name defined]
(11)
Human (Homo sapiens)
(3)
1a
1pkxA02
A:374-475,A:519-584
1b
1pkxB02
B:374-475,B:519-584
1c
1pkxA03
A:227-373
1d
1pkxB03
B:227-373
1e
1pkxC03
C:227-373
1f
1pkxD03
D:227-373
1g
1pkxC02
C:374-475,C:519-584
1h
1pkxD02
D:374-475,D:519-584
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.1380, no name defined]
(29)
Human (Homo sapiens)
(3)
2a
1pkxB04
B:4-197
2b
1pkxC04
C:4-197
2c
1pkxD04
D:4-197
2d
1pkxA04
A:3-197
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Helix Hairpins
(718)
Homologous Superfamily
:
[code=1.10.287.440, no name defined]
(11)
Human (Homo sapiens)
(3)
3a
1pkxB01
B:476-518
3b
1pkxD01
D:476-518
3c
1pkxA01
A:476-518
3d
1pkxC01
C:476-518
[
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Pfam Domains
(2, 8)
Info
all PFAM domains
1a: PFAM_AICARFT_IMPCHas_1pkxD01 (D:135-462)
1b: PFAM_AICARFT_IMPCHas_1pkxD02 (D:135-462)
1c: PFAM_AICARFT_IMPCHas_1pkxD03 (D:135-462)
1d: PFAM_AICARFT_IMPCHas_1pkxD04 (D:135-462)
2a: PFAM_MGS_1pkxD05 (D:16-130)
2b: PFAM_MGS_1pkxD06 (D:16-130)
2c: PFAM_MGS_1pkxD07 (D:16-130)
2d: PFAM_MGS_1pkxD08 (D:16-130)
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Clans
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)
(
)
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(
)
(
)
Organisms
(
)
(
)
Clan
:
CDA
(39)
Family
:
AICARFT_IMPCHas
(5)
Homo sapiens (Human)
(1)
1a
AICARFT_IMPCHas-1pkxD01
D:135-462
1b
AICARFT_IMPCHas-1pkxD02
D:135-462
1c
AICARFT_IMPCHas-1pkxD03
D:135-462
1d
AICARFT_IMPCHas-1pkxD04
D:135-462
Clan
:
no clan defined [family: MGS]
(13)
Family
:
MGS
(13)
Homo sapiens (Human)
(2)
2a
MGS-1pkxD05
D:16-130
2b
MGS-1pkxD06
D:16-130
2c
MGS-1pkxD07
D:16-130
2d
MGS-1pkxD08
D:16-130
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