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2AZT
Biol. Unit 1
Info
Asym.Unit (94 KB)
Biol.Unit 1 (173 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF H176N MUTANT OF HUMAN GLYCINE N-METHYLTRANSFERASE
Authors
:
Z. Luka, S. Pakhomova, Y. Luka, M. E. Newcomer, C. Wagner
Date
:
12 Sep 05 (Deposition) - 26 Sep 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.70
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (2x)
Keywords
:
Glycine N-Methyltransferase, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Z. Luka, S. Pakhomova, Y. Luka, M. E. Newcomer, C. Wagner
Destabilization Of Human Glycine N-Methyltransferase By H176N Mutation.
Protein Sci. V. 16 1957 2007
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Hetero Components
(2, 14)
Info
All Hetero Components
1a: BETA-MERCAPTOETHANOL (BMEa)
1b: BETA-MERCAPTOETHANOL (BMEb)
1c: BETA-MERCAPTOETHANOL (BMEc)
1d: BETA-MERCAPTOETHANOL (BMEd)
1e: BETA-MERCAPTOETHANOL (BMEe)
2a: CITRIC ACID (CITa)
2b: CITRIC ACID (CITb)
3a: CHLORIDE ION (CLa)
View:
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Label:
No.
Name
Count
Type
Full Name
1
BME
10
Ligand/Ion
BETA-MERCAPTOETHANOL
2
CIT
4
Ligand/Ion
CITRIC ACID
3
CL
-1
Ligand/Ion
CHLORIDE ION
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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)
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLN B:58 , PHE B:79
BINDING SITE FOR RESIDUE CL B 3000
2
AC2
SOFTWARE
CYS A:187 , ALA A:188 , PRO A:189 , VAL A:204 , THR A:206 , ASN A:212
BINDING SITE FOR RESIDUE BME A 1188
3
AC3
SOFTWARE
ILE A:282 , CYS A:284
BINDING SITE FOR RESIDUE BME A 1285
4
AC4
SOFTWARE
ARG B:53 , GLN B:54 , GLY B:186 , CYS B:187 , PRO B:189 , VAL B:204 , THR B:206 , ASN B:212
BINDING SITE FOR RESIDUE BME B 2188
5
AC5
SOFTWARE
LEU B:183 , CYS B:248
BINDING SITE FOR RESIDUE BME B 2249
6
AC6
SOFTWARE
HIS B:181 , LYS B:192 , ILE B:282 , CYS B:284
BINDING SITE FOR RESIDUE BME B 2285
7
AC7
SOFTWARE
TYR A:33 , GLY A:139 , ASN A:140 , HIS A:144 , ARG A:177 , ASN A:193 , TYR A:222 , TYR A:244 , TYR A:285 , GLU B:15
BINDING SITE FOR RESIDUE CIT A 1000
8
AC8
SOFTWARE
GLU A:15 , TYR B:33 , GLY B:139 , ASN B:140 , HIS B:144 , ASN B:193 , TYR B:222 , TYR B:244 , TYR B:285
BINDING SITE FOR RESIDUE CIT B 2000
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SAPs(SNPs)/Variants
(3, 12)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_012766 (L49P, chain A/B, )
2: VAR_019840 (N140S, chain A/B, )
3: VAR_012767 (N176N, chain A/B, )
View:
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dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_012766
L
50
P
GNMT_HUMAN
Disease (GNMT deficiency)
---
A/B
L
49
P
2
UniProt
VAR_019840
N
141
S
GNMT_HUMAN
Disease (GNMT deficiency)
---
A/B
N
140
S
3
UniProt
VAR_012767
H
177
N
GNMT_HUMAN
Disease (GNMT deficiency)
---
A/B
N
176
N
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(, 0)
Info
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Sorry, no Info available
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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
(1, 2)
Info
All SCOP Domains
1a: SCOP_d2azta_ (A:)
1b: SCOP_d2aztb_ (B:)
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Protein Domains
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Organisms
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(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
S-adenosyl-L-methionine-dependent methyltransferases
(533)
Superfamily
:
S-adenosyl-L-methionine-dependent methyltransferases
(533)
Family
:
Glycine N-methyltransferase
(16)
Protein domain
:
Glycine N-methyltransferase
(16)
Human (Homo sapiens) [TaxId: 9606]
(2)
1a
d2azta_
A:
1b
d2aztb_
B:
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CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_2aztB01 (B:22-37,B:178-244)
1b: CATH_2aztA01 (A:22-37,A:178-244)
2a: CATH_2aztA02 (A:38-177,A:245-293)
2b: CATH_2aztB02 (B:38-177,B:245-293)
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)
Organisms
(
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(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Glycine N-methyltransferase; chain A, domain 1
(14)
Homologous Superfamily
:
Glycine N-methyltransferase, chain A, domain 1
(14)
Human (Homo sapiens)
(2)
1a
2aztB01
B:22-37,B:178-244
1b
2aztA01
A:22-37,A:178-244
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
Vaccinia Virus protein VP39
(378)
Human (Homo sapiens)
(49)
2a
2aztA02
A:38-177,A:245-293
2b
2aztB02
B:38-177,B:245-293
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Pfam Domains
(0, 0)
Info
all PFAM domains
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