Structure of PDB 1ls3 Chain D

Receptor sequence
>1ls3D (length=456) Species: 9986 (Oryctolagus cuniculus) [Search protein sequence]
SHEQMLAQPLKDSDAEVYDIIKKESNRQRVGLELIASENFASRAVLEALG
SCLNNKYSEGYPGQRYYGGTEHIDELETLCQKRALQAYGLDPQCWGVNVQ
PYSGSPANFAVYTALVEPHGRIMGLDLPDGGHLTHGFMTDKKKISATSIF
FESMAYKVNPDTGYIDYDRLEENARLFHPKLIIAGTSCYSRNLDYGRLRK
IADENGAYLMADMAHISGLVVAGVVPSPFEHCHVVTTTTHKTLRGCRAGM
IFYRRGVYNLESLINSAVFPGLQGGPHNHAIAGVAVALKQAMTPEFKEYQ
RQVVANCRALSAALVELGYKIVTGGSDNHLILVDLRSKGTDGGRAEKVLE
ACSIACNKNTCPGDKSALRPSGLRLGTPALTSRGLLEKDFQKVAHFIHRG
IELTVQIQDDTGPRATLKEFKEKLAGDEKHQRAVRALRQEVESFAALFPL
PGLPGF
3D structure
PDB1ls3 Location of the Pteroylpolyglutamate Binding Site on Rabbit Cytosolic Serine Hydroxymethyltransferase
ChainD
Resolution2.7 Å
3D
structure
Catalytic site residues are labeled in the structure
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Enzymatic activity
Catalytic site (original residue number in PDB) Y55 E57 D200 T226 K229 R235
Catalytic site (residue number reindexed from 1) Y57 E59 D212 T238 K241 R247
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 PLP D Y55 G262 G263 Y57 G274 G275
BS02 PLP D S97 G98 S99 H126 S175 D200 A202 H203 H228 K229 S103 G104 S105 H132 S187 D212 A214 H215 H240 K241
BS03 TGF D G124 G125 H126 S175 C176 K346 N347 A356 L357 P359 G130 G131 H132 S187 C188 K358 N359 A367 L368 P370
Gene Ontology
Molecular Function
GO:0000900 mRNA regulatory element binding translation repressor activity
GO:0004372 glycine hydroxymethyltransferase activity
GO:0008270 zinc ion binding
GO:0016740 transferase activity
GO:0030170 pyridoxal phosphate binding
GO:0036094 small molecule binding
GO:0042802 identical protein binding
GO:0042803 protein homodimerization activity
GO:0048027 mRNA 5'-UTR binding
GO:0050897 cobalt ion binding
GO:0070905 serine binding
Biological Process
GO:0006544 glycine metabolic process
GO:0006563 L-serine metabolic process
GO:0006565 L-serine catabolic process
GO:0006730 one-carbon metabolic process
GO:0009113 purine nucleobase biosynthetic process
GO:0017148 negative regulation of translation
GO:0019264 glycine biosynthetic process from serine
GO:0035999 tetrahydrofolate interconversion
GO:0046653 tetrahydrofolate metabolic process
GO:0046655 folic acid metabolic process
GO:0051289 protein homotetramerization
GO:1904482 cellular response to tetrahydrofolate
GO:1990830 cellular response to leukemia inhibitory factor
Cellular Component
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol

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Molecular Function
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Cellular Component
External links
PDB RCSB:1ls3, PDBe:1ls3, PDBj:1ls3
PDBsum1ls3
PubMed12438316
UniProtP07511|GLYC_RABIT Serine hydroxymethyltransferase, cytosolic (Gene Name=SHMT1)

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