Structure of PDB 6vd0 Chain B

Receptor sequence
>6vd0B (length=389) Species: 3702 (Arabidopsis thaliana) [Search protein sequence]
METFLFTSESVNEGHPDKLCDQISDAVLDACLEQDPDSKVACETCTKTNM
VMVFGEITTKATIDYEKIVRDTCRSIGFISDDVGLDADKCKVLVNIEQQS
PDIAQGVHGHFTKRPEDIGAGDQGHMFGYATDETPELMPLSHVLATKIGA
RLTEVRKNGTCRWLRPDGKTQVTVEYYNDNGAMVPVRVHTVLISTQHDET
VTNDEIARDLKEHVIKPIIPEKYLDDKTIFHLNPSGRFVIGGPHGDAGLT
GRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSVVANGMAR
RALVQVSYAIGVPEPLSVFVDTYGTGLIPDKEILKIVKETFDFRPGMMTI
NLDLKRGGNGRFQKTAAYGHFGRDDPDFTWEVVKPLKWD
3D structure
PDB6vd0 S-adenosylmethionine synthases in plants: Structural characterization of type I and II isoenzymes from Arabidopsis thaliana and Medicago truncatula.
ChainB
Resolution2.0 Å
3D
structure
Catalytic site residues are labeled in the structure
[Spin on]
[Spin off]
[Reset orientation]

[High quality]
[Low quality]

[White background]
[Black background]

[Download]
[Download structure with residue number starting from 1]
Enzymatic activity
Catalytic site (original residue number in PDB) H15 D17 K18 E43 E56 K169 F238 D246 A247 R252 K253 K273 K277 D279
Catalytic site (residue number reindexed from 1) H15 D17 K18 E43 E56 K169 F238 D246 A247 R252 K253 K273 K277 D279
Enzyme Commision number 2.5.1.6: methionine adenosyltransferase.
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 APC B D102 I103 D122 A269 K273 I310 D102 I103 D122 A269 K273 I310
BS02 APC B H15 P16 D17 D167 K169 S235 F238 D246 R252 K253 H15 P16 D17 D167 K169 S235 F238 D246 R252 K253
BS03 MET B A41 E56 Q99 I103 K277 A41 E56 Q99 I103 K277
Gene Ontology
Molecular Function
GO:0004478 methionine adenosyltransferase activity
GO:0005507 copper ion binding
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0016740 transferase activity
GO:0046872 metal ion binding
Biological Process
GO:0006556 S-adenosylmethionine biosynthetic process
GO:0006730 one-carbon metabolic process
Cellular Component
GO:0005730 nucleolus
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0009505 plant-type cell wall
GO:0009506 plasmodesma
GO:0070062 extracellular exosome

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:6vd0, PDBe:6vd0, PDBj:6vd0
PDBsum6vd0
PubMed32057875
UniProtP17562|METK2_ARATH S-adenosylmethionine synthase 2 (Gene Name=SAM2)

[Back to BioLiP]