Structure of PDB 6smw Chain C

Receptor sequence
>6smwC (length=475) Species: 3702 (Arabidopsis thaliana) [Search protein sequence]
SRSSWIKQLNASLDEIDPEVADIIELEKARQWKGFELIPSENFTSLSVMQ
AVGSVMTNKYSEGYPGARYYGGNEYIDMAETLCQKRALEAFQLDPSKWGV
NVQSLSGSPANFQVYTALLKPHERIMALDLPHGGHLSHGYQTDTKKISAV
SIFFETMPYRLDENTGYIDYDQLEKSAVLFRPKLIVAGASAYARLYDYAR
IRKVCNKQKAVMLADMAHISGLVAAGVIPSPFEYADVVTTTTHKSLRGPR
GAMIFFRKGLKEINKQGKEVMYDYEDRINQAVFPGLQGGPHNHTITGLAV
ALKQARTPEYKAYQDQVLRNCSKFAETLLAKGYDLVSGGTDNHLVLVNLK
NKGIDGSRVEKVLELVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFI
EEDFAKVAEYFDLAVKIALKIKAESQGTKLKDFVATMQSNEKLQSEMSKL
REMVEEYAKQFPTIGFEKETMRYKE
3D structure
PDB6smw Structural basis of methotrexate and pemetrexed action on serine hydroxymethyltransferases revealed using plant models.
ChainC
Resolution1.54 Å
3D
structure
Catalytic site residues are labeled in the structure
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Enzymatic activity
Catalytic site (original residue number in PDB) Y102 E104 D257 T283 K286 R292
Catalytic site (residue number reindexed from 1) Y60 E62 D215 T241 K244 R250
Enzyme Commision number 2.1.2.1: glycine hydroxymethyltransferase.
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 PLS C S82 S148 G149 S150 H177 S232 D257 A259 H260 T283 H285 K286 R430 S40 S106 G107 S108 H135 S190 D215 A217 H218 T241 H243 K244 R388
BS02 LYA C L172 K187 I189 M424 L130 K145 I147 M382 MOAD: Ki=119.4uM
BS03 SER C Y102 E104 Y112 Y60 E62 Y70
BS04 LYA C E104 Y111 E62 Y69 MOAD: Ki=119.4uM
BS05 PLP C Y102 G330 Y60 G288
Gene Ontology
Molecular Function
GO:0004372 glycine hydroxymethyltransferase activity
GO:0008270 zinc ion binding
GO:0016740 transferase activity
GO:0030170 pyridoxal phosphate binding
GO:0050897 cobalt ion binding
Biological Process
GO:0006544 glycine metabolic process
GO:0006563 L-serine metabolic process
GO:0006730 one-carbon metabolic process
GO:0019264 glycine biosynthetic process from serine
GO:0035999 tetrahydrofolate interconversion
Cellular Component
GO:0005739 mitochondrion
GO:0009536 plastid

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:6smw, PDBe:6smw, PDBj:6smw
PDBsum6smw
PubMed31873125
UniProtQ94C74|GLYM2_ARATH Serine hydroxymethyltransferase 2, mitochondrial (Gene Name=SHM2)

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