Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

4E5O

Crystal structure of mouse thymidylate synthase in complex with dUMP

Replaces: 3IHH

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000900	molecular_function	mRNA regulatory element binding translation repressor activity
A	0004799	molecular_function	thymidylate synthase activity
A	0005634	cellular_component	nucleus
A	0005737	cellular_component	cytoplasm
A	0005739	cellular_component	mitochondrion
A	0005743	cellular_component	mitochondrial inner membrane
A	0005759	cellular_component	mitochondrial matrix
A	0005829	cellular_component	cytosol
A	0006231	biological_process	dTMP biosynthetic process
A	0006235	biological_process	dTTP biosynthetic process
A	0008168	molecular_function	methyltransferase activity
A	0009165	biological_process	nucleotide biosynthetic process
A	0016020	cellular_component	membrane
A	0016740	molecular_function	transferase activity
A	0016741	molecular_function	transferase activity, transferring one-carbon groups
A	0017148	biological_process	negative regulation of translation
A	0032259	biological_process	methylation
A	0035999	biological_process	tetrahydrofolate interconversion
A	0046653	biological_process	tetrahydrofolate metabolic process
A	1990825	molecular_function	sequence-specific mRNA binding
B	0000900	molecular_function	mRNA regulatory element binding translation repressor activity
B	0004799	molecular_function	thymidylate synthase activity
B	0005634	cellular_component	nucleus
B	0005737	cellular_component	cytoplasm
B	0005739	cellular_component	mitochondrion
B	0005743	cellular_component	mitochondrial inner membrane
B	0005759	cellular_component	mitochondrial matrix
B	0005829	cellular_component	cytosol
B	0006231	biological_process	dTMP biosynthetic process
B	0006235	biological_process	dTTP biosynthetic process
B	0008168	molecular_function	methyltransferase activity
B	0009165	biological_process	nucleotide biosynthetic process
B	0016020	cellular_component	membrane
B	0016740	molecular_function	transferase activity
B	0016741	molecular_function	transferase activity, transferring one-carbon groups
B	0017148	biological_process	negative regulation of translation
B	0032259	biological_process	methylation
B	0035999	biological_process	tetrahydrofolate interconversion
B	0046653	biological_process	tetrahydrofolate metabolic process
B	1990825	molecular_function	sequence-specific mRNA binding
C	0000900	molecular_function	mRNA regulatory element binding translation repressor activity
C	0004799	molecular_function	thymidylate synthase activity
C	0005634	cellular_component	nucleus
C	0005737	cellular_component	cytoplasm
C	0005739	cellular_component	mitochondrion
C	0005743	cellular_component	mitochondrial inner membrane
C	0005759	cellular_component	mitochondrial matrix
C	0005829	cellular_component	cytosol
C	0006231	biological_process	dTMP biosynthetic process
C	0006235	biological_process	dTTP biosynthetic process
C	0008168	molecular_function	methyltransferase activity
C	0009165	biological_process	nucleotide biosynthetic process
C	0016020	cellular_component	membrane
C	0016740	molecular_function	transferase activity
C	0016741	molecular_function	transferase activity, transferring one-carbon groups
C	0017148	biological_process	negative regulation of translation
C	0032259	biological_process	methylation
C	0035999	biological_process	tetrahydrofolate interconversion
C	0046653	biological_process	tetrahydrofolate metabolic process
C	1990825	molecular_function	sequence-specific mRNA binding
D	0000900	molecular_function	mRNA regulatory element binding translation repressor activity
D	0004799	molecular_function	thymidylate synthase activity
D	0005634	cellular_component	nucleus
D	0005737	cellular_component	cytoplasm
D	0005739	cellular_component	mitochondrion
D	0005743	cellular_component	mitochondrial inner membrane
D	0005759	cellular_component	mitochondrial matrix
D	0005829	cellular_component	cytosol
D	0006231	biological_process	dTMP biosynthetic process
D	0006235	biological_process	dTTP biosynthetic process
D	0008168	molecular_function	methyltransferase activity
D	0009165	biological_process	nucleotide biosynthetic process
D	0016020	cellular_component	membrane
D	0016740	molecular_function	transferase activity
D	0016741	molecular_function	transferase activity, transferring one-carbon groups
D	0017148	biological_process	negative regulation of translation
D	0032259	biological_process	methylation
D	0035999	biological_process	tetrahydrofolate interconversion
D	0046653	biological_process	tetrahydrofolate metabolic process
D	1990825	molecular_function	sequence-specific mRNA binding
E	0000900	molecular_function	mRNA regulatory element binding translation repressor activity
E	0004799	molecular_function	thymidylate synthase activity
E	0005634	cellular_component	nucleus
E	0005737	cellular_component	cytoplasm
E	0005739	cellular_component	mitochondrion
E	0005743	cellular_component	mitochondrial inner membrane
E	0005759	cellular_component	mitochondrial matrix
E	0005829	cellular_component	cytosol
E	0006231	biological_process	dTMP biosynthetic process
E	0006235	biological_process	dTTP biosynthetic process
E	0008168	molecular_function	methyltransferase activity
E	0009165	biological_process	nucleotide biosynthetic process
E	0016020	cellular_component	membrane
E	0016740	molecular_function	transferase activity
E	0016741	molecular_function	transferase activity, transferring one-carbon groups
E	0017148	biological_process	negative regulation of translation
E	0032259	biological_process	methylation
E	0035999	biological_process	tetrahydrofolate interconversion
E	0046653	biological_process	tetrahydrofolate metabolic process
E	1990825	molecular_function	sequence-specific mRNA binding
F	0000900	molecular_function	mRNA regulatory element binding translation repressor activity
F	0004799	molecular_function	thymidylate synthase activity
F	0005634	cellular_component	nucleus
F	0005737	cellular_component	cytoplasm
F	0005739	cellular_component	mitochondrion
F	0005743	cellular_component	mitochondrial inner membrane
F	0005759	cellular_component	mitochondrial matrix
F	0005829	cellular_component	cytosol
F	0006231	biological_process	dTMP biosynthetic process
F	0006235	biological_process	dTTP biosynthetic process
F	0008168	molecular_function	methyltransferase activity
F	0009165	biological_process	nucleotide biosynthetic process
F	0016020	cellular_component	membrane
F	0016740	molecular_function	transferase activity
F	0016741	molecular_function	transferase activity, transferring one-carbon groups
F	0017148	biological_process	negative regulation of translation
F	0032259	biological_process	methylation
F	0035999	biological_process	tetrahydrofolate interconversion
F	0046653	biological_process	tetrahydrofolate metabolic process
F	1990825	molecular_function	sequence-specific mRNA binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	17
Details	BINDING SITE FOR RESIDUE UMP A 501

Chain	Residue
A	ARG44
A	ASN220
A	HIS250
A	TYR252
A	HOH603
A	HOH682
A	HOH815
B	ARG169
B	ARG170
A	CYS189
A	HIS190
A	GLN208
A	ARG209
A	SER210
A	GLY211
A	ASP212
A	GLY216

site_id	AC2
Number of Residues	17
Details	BINDING SITE FOR RESIDUE UMP B 501

Chain	Residue
A	ARG169
A	ARG170
B	ARG44
B	CYS189
B	HIS190
B	GLN208
B	ARG209
B	SER210
B	GLY211
B	ASP212
B	GLY216
B	ASN220
B	HIS250
B	TYR252
B	HOH604
B	HOH656
B	HOH738

site_id	AC3
Number of Residues	17
Details	BINDING SITE FOR RESIDUE UMP C 501

Chain	Residue
C	ARG44
C	CYS189
C	HIS190
C	GLN208
C	ARG209
C	SER210
C	GLY211
C	ASP212
C	GLY216
C	ASN220
C	HIS250
C	TYR252
C	HOH602
C	HOH613
C	HOH678
D	ARG169
D	ARG170

site_id	AC4
Number of Residues	2
Details	BINDING SITE FOR RESIDUE BU1 C 502

Chain	Residue
C	SER148
C	HOH735

site_id	AC5
Number of Residues	5
Details	BINDING SITE FOR RESIDUE BU1 C 503

Chain	Residue
C	LYS87
C	GLY88
C	HIS135
C	HOH698
C	HOH736

site_id	AC6
Number of Residues	5
Details	BINDING SITE FOR RESIDUE BU1 C 504

Chain	Residue
C	GLY149
C	GLY151
C	HOH675
C	HOH780
C	HOH781

site_id	AC7
Number of Residues	16
Details	BINDING SITE FOR RESIDUE UMP D 501

Chain	Residue
C	ARG169
C	ARG170
D	ARG44
D	CYS189
D	HIS190
D	GLN208
D	ARG209
D	SER210
D	GLY211
D	ASP212
D	GLY216
D	ASN220
D	HIS250
D	TYR252
D	HOH615
D	HOH688

site_id	AC8
Number of Residues	17
Details	BINDING SITE FOR RESIDUE UMP E 501

Chain	Residue
E	ARG44
E	CYS189
E	HIS190
E	GLN208
E	ARG209
E	SER210
E	GLY211
E	ASP212
E	GLY216
E	ASN220
E	HIS250
E	TYR252
E	HOH637
E	HOH716
F	ARG169
F	ARG170
F	HOH603

site_id	AC9
Number of Residues	18
Details	BINDING SITE FOR RESIDUE UMP F 501

Chain	Residue
F	CYS189
F	HIS190
F	GLN208
F	ARG209
F	SER210
F	GLY211
F	ASP212
F	GLY216
F	ASN220
F	HIS250
F	TYR252
F	UMP502
F	HOH609
F	HOH696
F	HOH775
E	ARG169
E	ARG170
F	ARG44

site_id	BC1
Number of Residues	13
Details	BINDING SITE FOR RESIDUE UMP F 502

Chain	Residue
F	GLU81
F	PHE85
F	ILE102
F	TRP103
F	HIS190
F	UMP501
F	HOH631
F	HOH692
F	HOH704
F	HOH750
F	HOH774
F	HOH775
F	HOH776

Functional Information from PROSITE/UniProt

site_id	PS00091
Number of Residues	29
Details	THYMIDYLATE_SYNTHASE Thymidylate synthase active site. RriImcaWNpkdlplma.....LpPCHalcQFyV

Chain	Residue	Details
A	ARG169-VAL197

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	6
Details	ACT_SITE: Nucleophile => ECO:0000250\|UniProtKB:P0A884

Chain	Residue	Details
A	CYS189
B	CYS189
C	CYS189
D	CYS189
E	CYS189
F	CYS189

site_id	SWS_FT_FI2
Number of Residues	12
Details	BINDING: in other chain => ECO:0000250\|UniProtKB:P0A884

Chain	Residue	Details
A	ARG44
E	ASN220
F	ARG44
F	ASN220
A	ASN220
B	ARG44
B	ASN220
C	ARG44
C	ASN220
D	ARG44
D	ASN220
E	ARG44

site_id	SWS_FT_FI3
Number of Residues	6
Details	BINDING: BINDING => ECO:0000250\|UniProtKB:P45352

Chain	Residue	Details
A	ARG169
B	ARG169
C	ARG169
D	ARG169
E	ARG169
F	ARG169

site_id	SWS_FT_FI4
Number of Residues	18
Details	BINDING: in other chain => ECO:0000250\|UniProtKB:P45352

Chain	Residue	Details
A	CYS189
D	CYS189
D	ARG209
D	HIS250
E	CYS189
E	ARG209
E	HIS250
F	CYS189
F	ARG209
F	HIS250
A	ARG209
A	HIS250
B	CYS189
B	ARG209
B	HIS250
C	CYS189
C	ARG209
C	HIS250

site_id	SWS_FT_FI5
Number of Residues	12
Details	BINDING: BINDING => ECO:0000250\|UniProtKB:P0A884

Chain	Residue	Details
A	ASP212
E	ALA306
F	ASP212
F	ALA306
A	ALA306
B	ASP212
B	ALA306
C	ASP212
C	ALA306
D	ASP212
D	ALA306
E	ASP212

site_id	SWS_FT_FI6
Number of Residues	6
Details	MOD_RES: Phosphoserine => ECO:0000250\|UniProtKB:P04818

Chain	Residue	Details
A	SER108
B	SER108
C	SER108
D	SER108
E	SER108
F	SER108

site_id	SWS_FT_FI7
Number of Residues	18
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) => ECO:0000250\|UniProtKB:P04818

Chain	Residue	Details
A	LYS286
D	LYS286
D	LYS302
E	LYS286
E	LYS302
F	LYS286
F	LYS302
A	LYS302
B	LYS286
B	LYS302
C	LYS286
C	LYS302

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)
		EDMap 2fo-fc (MTZ)