Structure of PDB 6uxj Chain B

Receptor sequence

>6uxjB (length=472) Species: 3847 (Glycine max)

HMDPVSVWGNTPLATVDPEIHDLIEKEKRRQCRGIELIASENFTSFAVIE
ALGSALTNKYSEGMPGNRYYGGNEYIDQIENLCRSRALQAFHLDAQSWGV
NVQPYSGSPANFAAYTAVLNPHDRIMGLDLPSGGHLTHGYYTSGGKKISA
TSIYFESLPYKVNSTTGYIDYDRLEEKALDFRPKLIICGGSAYPRDWDYK
RFREVADKCGALLLCDMAHTSGLVAAQEVNSPFEYCDIVTTTTHKSLRGP
RAGMIFYRKGPKPPKKGQPENAVYDFEDKINFAVFPSLQGGPHNHQIGAL
AVALKQAASPGFKAYAKQVKANAVALGKYLMGKGYSLVTGGTENHLVLWD
LRPLGLTGNKVEKLCDLCNITVNKNAVFGDSSALAPGGVRIGAPAMTSRG
LVEKDFEQIGEFLHRAVTLTLEIQKEHGKLLKDFNKGLVNNKAIEDLKAD
VEKFSALFDMPGFLVSEMKYKD

3D structure

• PDB: 6uxj Impaired folate binding of serine hydroxymethyltransferase 8 from soybean underlies resistance to the soybean cyst nematode.
• Chain: B
• Resolution: 1.4 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): Y59 E61 D215 T241 K244 R250
• Catalytic site (residue number reindexed from 1): Y60 E62 D216 T242 K245 R251
• 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	PLG	B	Y59 Y69 G289	Y60 Y70 G290
BS02	FFO	B	E61 Y68 Y69 F281	E62 Y69 Y70 F282	MOAD: Kd=17uM
BS03	PLG	B	S39 S105 G106 S107 H134 G189 S190 D215 A217 H218 H243 K244 R389	S40 S106 G107 S108 H135 G190 S191 D216 A218 H219 H244 K245 R390
BS04	FFO	B	L129 G132 G133 H134 L135 Y139 S190 N374 A382	L130 G133 G134 H135 L136 Y140 S191 N375 A383	MOAD: Kd=17uM

Gene Ontology

Molecular Function

• GO:0004372 glycine hydroxymethyltransferase activity
• GO:0030170 pyridoxal phosphate binding

Biological Process

• GO:0019264 glycine biosynthetic process from serine
• GO:0035999 tetrahydrofolate interconversion

External links

• PDB: RCSB:6uxj, PDBe:6uxj, PDBj:6uxj
• PDBsum: 6uxj
• PubMed: 32014996
• UniProt: A0A0R0IK90