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1O9T
Asym. Unit
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Asym.Unit (127 KB)
Biol.Unit 1 (239 KB)
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(1)
Title
:
METHIONINE ADENOSYLTRANSFERASE COMPLEXED WITH BOTH SUBSTRATES ATP AND METHIONINE
Authors
:
B. Gonzalez, M. A. Pajares, J. A. Hermoso, J. Sanz-Aparicio
Date
:
18 Dec 02 (Deposition) - 07 Aug 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.90
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (2x)
Keywords
:
Transferase, Adenosyltransferase, Atp Binding, Methionine Binding, One-Carbon Metabolism, Magnesium, Potassium, Metal-Binding, Multigene Family, Atp-Binding
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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Reference
:
B. Gonzalez, M. A. Pajares, J. A. Hermoso, D. Guillerm, G. Guillerm, J. Sanz-Aparicio
Crystal Structures Of Methionine Adenosyltransferase Complexed With Substrates And Products Reveal The Methionine-Atp Recognition And Give Insights Into The Catalytic Mechanism
J. Mol. Biol. V. 331 407 2003
(for further references see the
PDB file header
)
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Hetero Components
(5, 9)
Info
All Hetero Components
1a: ADENOSINE-5'-TRIPHOSPHATE (ATPa)
2a: POTASSIUM ION (Ka)
2b: POTASSIUM ION (Kb)
3a: METHIONINE (METa)
4a: MAGNESIUM ION (MGa)
4b: MAGNESIUM ION (MGb)
4c: MAGNESIUM ION (MGc)
5a: PHOSPHATE ION (PO4a)
5b: PHOSPHATE ION (PO4b)
View:
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Label:
No.
Name
Count
Type
Full Name
1
ATP
1
Ligand/Ion
ADENOSINE-5'-TRIPHOSPHATE
2
K
2
Ligand/Ion
POTASSIUM ION
3
MET
1
Mod. Amino Acid
METHIONINE
4
MG
3
Ligand/Ion
MAGNESIUM ION
5
PO4
2
Ligand/Ion
PHOSPHATE ION
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Sites
(9, 9)
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)
9: AC9 (SOFTWARE)
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
LYS A:182 , VAL A:205 , SER A:207 , PRO A:247 , ASP B:135 , ATP B:1397
BINDING SITE FOR RESIDUE PO4 A1398
2
AC2
SOFTWARE
SER A:248 , MET A:1397
BINDING SITE FOR RESIDUE MG A1399
3
AC3
SOFTWARE
HIS A:30 , PRO A:31 , MET A:1397 , ATP B:1397
BINDING SITE FOR RESIDUE MG A1400
4
AC4
SOFTWARE
GLU A:24 , LYS A:266 , ATP B:1397
BINDING SITE FOR RESIDUE MG A1401
5
AC5
SOFTWARE
GLY A:264 , ILE A:267 , ARG B:265
BINDING SITE FOR RESIDUE K A1402
6
AC6
SOFTWARE
ARG A:265 , LYS A:266 , GLY B:280 , GLY B:281 , ALA B:282 , LYS B:286 , HOH B:2082
BINDING SITE FOR RESIDUE PO4 B1398
7
AC7
SOFTWARE
SER B:284
BINDING SITE FOR RESIDUE K B1399
8
AC8
SOFTWARE
ASP A:180 , ARG A:250 , PHE A:251 , MG A:1399 , MG A:1400 , ATP B:1397
BINDING SITE FOR RESIDUE MET A1397
9
AC9
SOFTWARE
HIS A:30 , LYS A:182 , LYS A:266 , MET A:1397 , PO4 A:1398 , MG A:1400 , MG A:1401 , ALA B:56 , GLU B:71 , ASP B:135 , LYS B:286 , LYS B:290 , HOH B:2081
BINDING SITE FOR RESIDUE ATP B1397
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: ADOMET_SYNTHASE_1 (A:132-142,B:132-142)
2: ADOMET_SYNTHASE_2 (A:279-287,B:279-287)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ADOMET_SYNTHASE_1
PS00376
S-adenosylmethionine synthase signature 1.
METK1_RAT
132-142
2
A:132-142
B:132-142
2
ADOMET_SYNTHASE_2
PS00377
S-adenosylmethionine synthase signature 2.
METK1_RAT
279-287
2
A:279-287
B:279-287
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Exons
(0, 0)
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All Exons
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 6)
Info
All SCOP Domains
1a: SCOP_d1o9ta1 (A:17-116)
1b: SCOP_d1o9tb2 (B:129-252)
1c: SCOP_d1o9tb3 (B:253-396)
1d: SCOP_d1o9ta2 (A:129-252)
1e: SCOP_d1o9ta3 (A:253-396)
1f: SCOP_d1o9tb1 (B:17-116)
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
S-adenosylmethionine synthetase
(23)
Superfamily
:
S-adenosylmethionine synthetase
(23)
Family
:
S-adenosylmethionine synthetase
(15)
Protein domain
:
S-adenosylmethionine synthetase
(15)
Norway rat (Rattus norvegicus) [TaxId: 10116]
(5)
1a
d1o9ta1
A:17-116
1b
d1o9tb2
B:129-252
1c
d1o9tb3
B:253-396
1d
d1o9ta2
A:129-252
1e
d1o9ta3
A:253-396
1f
d1o9tb1
B:17-116
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CATH Domains
(1, 6)
Info
all CATH domains
1a: CATH_1o9tA01 (A:130-152,A:291-395)
1b: CATH_1o9tA03 (A:17-25,A:153-253)
1c: CATH_1o9tB03 (B:17-25,B:153-253)
1d: CATH_1o9tA02 (A:26-129,A:254-290)
1e: CATH_1o9tB02 (B:26-129,B:254-290)
1f: CATH_1o9tB01 (B:130-152,B:291-395)
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Organisms
(
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(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
GMP Synthetase; Chain A, domain 3
(192)
Homologous Superfamily
:
[code=3.30.300.10, no name defined]
(22)
Rat (Rattus norvegicus)
(5)
1a
1o9tA01
A:130-152,A:291-395
1b
1o9tA03
A:17-25,A:153-253
1c
1o9tB03
B:17-25,B:153-253
1d
1o9tA02
A:26-129,A:254-290
1e
1o9tB02
B:26-129,B:254-290
1f
1o9tB01
B:130-152,B:291-395
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Pfam Domains
(3, 6)
Info
all PFAM domains
1a: PFAM_S_AdoMet_synt_C_1o9tB01 (B:253-390)
1b: PFAM_S_AdoMet_synt_C_1o9tB02 (B:253-390)
2a: PFAM_S_AdoMet_synt_M_1o9tB03 (B:129-251)
2b: PFAM_S_AdoMet_synt_M_1o9tB04 (B:129-251)
3a: PFAM_S_AdoMet_synt_N_1o9tB05 (B:17-116)
3b: PFAM_S_AdoMet_synt_N_1o9tB06 (B:17-116)
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Clans
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(
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(
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Organisms
(
)
(
)
Clan
:
no clan defined [family: S-AdoMet_synt_C]
(16)
Family
:
S-AdoMet_synt_C
(16)
Rattus norvegicus (Rat)
(5)
1a
S-AdoMet_synt_C-1o9tB01
B:253-390
1b
S-AdoMet_synt_C-1o9tB02
B:253-390
Clan
:
no clan defined [family: S-AdoMet_synt_M]
(16)
Family
:
S-AdoMet_synt_M
(16)
Rattus norvegicus (Rat)
(5)
2a
S-AdoMet_synt_M-1o9tB03
B:129-251
2b
S-AdoMet_synt_M-1o9tB04
B:129-251
Clan
:
no clan defined [family: S-AdoMet_synt_N]
(16)
Family
:
S-AdoMet_synt_N
(16)
Rattus norvegicus (Rat)
(5)
3a
S-AdoMet_synt_N-1o9tB05
B:17-116
3b
S-AdoMet_synt_N-1o9tB06
B:17-116
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