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1YFH
Biol. Unit 1
Info
Asym.Unit (98 KB)
Biol.Unit 1 (35 KB)
Biol.Unit 2 (37 KB)
Biol.Unit 3 (25 KB)
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(1)
Title
:
WT HUMAN O6-ALKYLGUANINE-DNA ALKYLTRANSFERASE BOUND TO DNA CONTAINING AN ALKYLATED CYTOSINE
Authors
:
E. M. Duguid, P. A. Rice, C. He
Date
:
31 Dec 04 (Deposition) - 13 Dec 05 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.01
Chains
:
Asym. Unit : A,B,C,D,E,F,G
Biol. Unit 1: C,D,E (1x)
Biol. Unit 2: A,F,G (1x)
Biol. Unit 3: B (1x)
Keywords
:
Protein-Dna Complex, Transferase/Dna Complex
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
E. M. Duguid, P. A. Rice, C. He
The Structure Of The Human Agt Protein Bound To Dna And Its Implications For Damage Detection.
J. Mol. Biol. V. 350 657 2005
(for further references see the
PDB file header
)
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Hetero Components
(1, 1)
Info
All Hetero Components
1a: {5-[4-{[4-(AMINOMETHYL)BENZYL]AMIN... (XCYa)
1b: {5-[4-{[4-(AMINOMETHYL)BENZYL]AMIN... (XCYb)
2a: ZINC ION (ZNa)
2b: ZINC ION (ZNb)
2c: ZINC ION (ZNc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
XCY
1
Mod. Nucleotide
{5-[4-{[4-(AMINOMETHYL)BENZYL]AMINO}-2-OXOPYRIMIDIN-1(2H)- YL]-3-HYDROXYTETRAHYDROFURAN-2-YL}METHYLDIHYDROGEN PHOSPHATE
2
ZN
-1
Ligand/Ion
ZINC ION
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Sites
(1, 1)
Info
All Sites
1: AC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC2
SOFTWARE
CYS C:5 , CYS C:24 , HIS C:29 , HIS C:85
BINDING SITE FOR RESIDUE ZN C 302
[
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SAPs(SNPs)/Variants
(7, 7)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_014750 (E30K, chain C, )
2: VAR_029112 (P58S, chain C, )
3: VAR_020354 (W65C, chain C, )
4: VAR_014751 (L84F, chain C, )
5: VAR_056130 (I112V, chain C, )
6: VAR_014752 (I143V, chain C, )
7: VAR_014754 (E166D, chain C, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_014750
E
30
K
MGMT_HUMAN
Polymorphism
2020893
C
E
30
K
03
UniProt
VAR_029112
P
58
S
MGMT_HUMAN
Polymorphism
2308322
C
P
58
S
04
UniProt
VAR_020354
W
65
C
MGMT_HUMAN
Polymorphism
2282164
C
W
65
C
05
UniProt
VAR_014751
L
84
F
MGMT_HUMAN
Polymorphism
12917
C
L
84
F
06
UniProt
VAR_056130
I
112
V
MGMT_HUMAN
Polymorphism
2308321
C
I
112
V
07
UniProt
VAR_014752
I
143
V
MGMT_HUMAN
Polymorphism
2308321
C
I
143
V
09
UniProt
VAR_014754
E
166
D
MGMT_HUMAN
Polymorphism
2308320
C
E
166
D
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: MGMT (C:143-149)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
MGMT
PS00374
Methylated-DNA--protein-cysteine methyltransferase active site.
MGMT_HUMAN
143-149
1
-
-
C:143-149
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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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, 6)
Info
All SCOP Domains
1a: SCOP_d1yfha1 (A:92-179)
1b: SCOP_d1yfhb1 (B:92-175)
1c: SCOP_d1yfhc1 (C:92-177)
2a: SCOP_d1yfha2 (A:5-91)
2b: SCOP_d1yfhb2 (B:5-91)
2c: SCOP_d1yfhc2 (C:5-91)
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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
DNA/RNA-binding 3-helical bundle
(1299)
Superfamily
:
Methylated DNA-protein cysteine methyltransferase, C-terminal domain
(12)
Family
:
Methylated DNA-protein cysteine methyltransferase, C-terminal domain
(9)
Protein domain
:
O6-alkylguanine-DNA alkyltransferase
(8)
Human (Homo sapiens) [TaxId: 9606]
(7)
1a
d1yfha1
A:92-179
1b
d1yfhb1
B:92-175
1c
d1yfhc1
C:92-177
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Ribonuclease H-like motif
(1424)
Superfamily
:
Methylated DNA-protein cysteine methyltransferase domain
(12)
Family
:
Methylated DNA-protein cysteine methyltransferase domain
(9)
Protein domain
:
O6-alkylguanine-DNA alkyltransferase
(8)
Human (Homo sapiens) [TaxId: 9606]
(7)
2a
d1yfha2
A:5-91
2b
d1yfhb2
B:5-91
2c
d1yfhc2
C:5-91
[
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CATH Domains
(2, 6)
Info
all CATH domains
1a: CATH_1yfhC02 (C:86-175)
1b: CATH_1yfhA02 (A:86-175)
1c: CATH_1yfhB02 (B:86-175)
2a: CATH_1yfhA01 (A:6-85)
2b: CATH_1yfhB01 (B:6-85)
2c: CATH_1yfhC01 (C:6-85)
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Homologous Superfamilies
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)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Arc Repressor Mutant, subunit A
(1030)
Homologous Superfamily
:
'winged helix' repressor DNA binding domain
(507)
[unclassified]
(77)
1a
1yfhC02
C:86-175
1b
1yfhA02
A:86-175
1c
1yfhB02
B:86-175
Class
:
Mainly Beta
(13760)
Architecture
:
Roll
(1513)
Topology
:
O6-alkylguanine-DNA Alkyltransferase; Chain A, domain 1
(7)
Homologous Superfamily
:
O6-alkylguanine-DNA Alkyltransferase; Chain A, domain 1
(7)
[unclassified]
(3)
2a
1yfhA01
A:6-85
2b
1yfhB01
B:6-85
2c
1yfhC01
C:6-85
[
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Pfam Domains
(2, 6)
Info
all PFAM domains
1a: PFAM_DNA_binding_1_1yfhC01 (C:92-177)
1b: PFAM_DNA_binding_1_1yfhC02 (C:92-177)
1c: PFAM_DNA_binding_1_1yfhC03 (C:92-177)
2a: PFAM_Methyltransf_1N_1yfhC04 (C:6-90)
2b: PFAM_Methyltransf_1N_1yfhC05 (C:6-90)
2c: PFAM_Methyltransf_1N_1yfhC06 (C:6-90)
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Clans
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Families
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(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: DNA_binding_1]
(4)
Family
:
DNA_binding_1
(4)
Homo sapiens (Human)
(3)
1a
DNA_binding_1-1yfhC01
C:92-177
1b
DNA_binding_1-1yfhC02
C:92-177
1c
DNA_binding_1-1yfhC03
C:92-177
Clan
:
no clan defined [family: Methyltransf_1N]
(4)
Family
:
Methyltransf_1N
(4)
Homo sapiens (Human)
(3)
2a
Methyltransf_1N-1yfhC04
C:6-90
2b
Methyltransf_1N-1yfhC05
C:6-90
2c
Methyltransf_1N-1yfhC06
C:6-90
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Chain E
Asymmetric Unit 1
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Asym.Unit (98 KB)
Header - Asym.Unit
Biol.Unit 1 (35 KB)
Header - Biol.Unit 1
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Biol.Unit 3 (25 KB)
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