4O1X

Crystal structure of human thymidylate synthase double mutant C195S-Y202C

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Protein Modification Annotation

Domain Annotation: SCOP/SCOPe Classification SCOP Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d4o1xa_	Alpha and beta proteins (a+b)	Thymidylate synthase/dCMP hydroxymethylase	Thymidylate synthase/dCMP hydroxymethylase	Thymidylate synthase/dCMP hydroxymethylase	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d4o1xb_	Alpha and beta proteins (a+b)	Thymidylate synthase/dCMP hydroxymethylase	Thymidylate synthase/dCMP hydroxymethylase	Thymidylate synthase/dCMP hydroxymethylase	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d4o1xc_	Alpha and beta proteins (a+b)	Thymidylate synthase/dCMP hydroxymethylase	Thymidylate synthase/dCMP hydroxymethylase	Thymidylate synthase/dCMP hydroxymethylase	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d4o1xd_	Alpha and beta proteins (a+b)	Thymidylate synthase/dCMP hydroxymethylase	Thymidylate synthase/dCMP hydroxymethylase	Thymidylate synthase/dCMP hydroxymethylase	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Thymidylate synthase/dCMP hydroxymethylase	8036156	3000544	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Thymidylate synthase/dCMP hydroxymethylase	8036156	3000544	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Thymidylate synthase/dCMP hydroxymethylase	8036156	3000544	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Thymidylate synthase/dCMP hydroxymethylase	8036156	3000544	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF00303	e4o1xA1	A: a+b two layers	X: Thymidylate synthase/dCMP hydroxymethylase (From Topology)	H: Thymidylate synthase/dCMP hydroxymethylase (From Topology)	T: Thymidylate synthase/dCMP hydroxymethylase	F: PF00303	ECOD (1.6)
B	PF00303	e4o1xB1	A: a+b two layers	X: Thymidylate synthase/dCMP hydroxymethylase (From Topology)	H: Thymidylate synthase/dCMP hydroxymethylase (From Topology)	T: Thymidylate synthase/dCMP hydroxymethylase	F: PF00303	ECOD (1.6)
C	PF00303	e4o1xC1	A: a+b two layers	X: Thymidylate synthase/dCMP hydroxymethylase (From Topology)	H: Thymidylate synthase/dCMP hydroxymethylase (From Topology)	T: Thymidylate synthase/dCMP hydroxymethylase	F: PF00303	ECOD (1.6)
D	PF00303	e4o1xD1	A: a+b two layers	X: Thymidylate synthase/dCMP hydroxymethylase (From Topology)	H: Thymidylate synthase/dCMP hydroxymethylase (From Topology)	T: Thymidylate synthase/dCMP hydroxymethylase	F: PF00303	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.572.10	Alpha Beta	2-Layer Sandwich	Thymidylate Synthase	Chain A	CATH (4.3.0)
B	3.30.572.10	Alpha Beta	2-Layer Sandwich	Thymidylate Synthase	Chain A	CATH (4.3.0)
C	3.30.572.10	Alpha Beta	2-Layer Sandwich	Thymidylate Synthase	Chain A	CATH (4.3.0)
D	3.30.572.10	Alpha Beta	2-Layer Sandwich	Thymidylate Synthase	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF00303	Thymidylate synthase (Thymidylat_synt)	Thymidylate synthase	This is a family of proteins that are flavin-dependent thymidylate synthases.	Domain
D	PF00303	Thymidylate synthase (Thymidylat_synt)	Thymidylate synthase	This is a family of proteins that are flavin-dependent thymidylate synthases.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	Thymidylate synthase	translation regulator activity binding mRNA regulatory element binding translation repressor activity organic cyclic compound binding translation regulator activity, nucleic acid binding nucleic acid binding translation repressor activity RNA binding sequence-specific mRNA binding mRNA binding transferase activity, transferring one-carbon groups transferase activity methyltransferase activity thymidylate synthase activity translation regulator activity binding mRNA regulatory element binding translation repressor activity organic cyclic compound binding translation regulator activity, nucleic acid binding nucleic acid binding translation repressor activity RNA binding sequence-specific mRNA binding mRNA binding transferase activity, transferring one-carbon groups transferase activity methyltransferase activity thymidylate synthase activity 5,10-methylenetetrahydrofolate-dependent methyltransferase activity catalytic activity identical protein binding protein binding protein homodimerization activity protein dimerization activity amide binding organic acid binding modified amino acid binding vitamin binding ion binding folic acid binding anion binding carboxylic acid binding heterocyclic compound binding small molecule binding	developmental process multicellular organism development multicellular organismal process skeletal system development connective tissue development anatomical structure development animal organ development tissue development cartilage development system development response to stimulus response to chemical response to xenobiotic stimulus rhythmic process developmental process multicellular organism development multicellular organismal process skeletal system development connective tissue development anatomical structure development animal organ development tissue development cartilage development system development response to stimulus response to chemical response to xenobiotic stimulus rhythmic process circadian rhythm regulation of amide metabolic process regulation of cellular process organonitrogen compound biosynthetic process negative regulation of biological process negative regulation of nitrogen compound metabolic process cellular nitrogen compound biosynthetic process negative regulation of cellular metabolic process regulation of primary metabolic process regulation of nitrogen compound metabolic process post-transcriptional regulation of gene expression organic substance biosynthetic process negative regulation of protein metabolic process regulation of biological process negative regulation of amide metabolic process cellular metabolic process regulation of protein metabolic process negative regulation of metabolic process regulation of cellular metabolic process primary metabolic process amide biosynthetic process cellular nitrogen compound metabolic process negative regulation of cellular biosynthetic process regulation of gene expression negative regulation of gene expression biosynthetic process peptide biosynthetic process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of metabolic process peptide metabolic process cellular biosynthetic process negative regulation of translation organic substance metabolic process negative regulation of cellular process nitrogen compound metabolic process protein metabolic process amide metabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process organonitrogen compound metabolic process biological regulation regulation of macromolecule metabolic process gene expression translation macromolecule biosynthetic process regulation of cellular biosynthetic process negative regulation of biosynthetic process regulation of translation cellular process pyrimidine deoxyribonucleotide metabolic process nucleotide biosynthetic process carbohydrate derivative metabolic process pyrimidine nucleotide metabolic process nucleobase-containing compound metabolic process deoxyribonucleotide biosynthetic process heterocycle metabolic process pyrimidine deoxyribonucleotide biosynthetic process dTMP metabolic process phosphate-containing compound metabolic process dTMP biosynthetic process small molecule metabolic process phosphorus metabolic process nucleoside phosphate metabolic process pyrimidine-containing compound metabolic process 2'-deoxyribonucleotide biosynthetic process nucleotide metabolic process deoxyribonucleoside monophosphate metabolic process organic cyclic compound metabolic process aromatic compound biosynthetic process organophosphate biosynthetic process organic cyclic compound biosynthetic process nucleoside phosphate biosynthetic process pyrimidine nucleoside monophosphate biosynthetic process deoxyribose phosphate biosynthetic process pyrimidine deoxyribonucleoside monophosphate metabolic process deoxyribonucleotide metabolic process nucleobase-containing small molecule metabolic process deoxyribonucleoside monophosphate biosynthetic process pyrimidine deoxyribonucleoside monophosphate biosynthetic process pyrimidine-containing compound biosynthetic process nucleoside monophosphate metabolic process carbohydrate derivative biosynthetic process pyrimidine nucleoside monophosphate metabolic process 2'-deoxyribonucleotide metabolic process deoxyribose phosphate metabolic process nucleobase-containing compound biosynthetic process heterocycle biosynthetic process nucleoside monophosphate biosynthetic process organophosphate metabolic process pyrimidine nucleotide biosynthetic process cellular aromatic compound metabolic process response to organic substance response to ketone response to lipid response to endogenous stimulus response to progesterone response to oxygen-containing compound response to hormone response to steroid hormone response to organic cyclic compound cellular developmental process cell development epithelial cell differentiation intestinal epithelial cell maturation columnar/cuboidal epithelial cell development cell differentiation cell maturation epithelium development digestive system development intestinal epithelial cell differentiation tube development intestinal epithelial cell development developmental maturation digestive tract development epithelial cell development anatomical structure maturation columnar/cuboidal epithelial cell differentiation epithelial cell maturation columnar/cuboidal epithelial cell maturation methylation uracil metabolic process pyrimidine nucleobase metabolic process nucleobase metabolic process cellular modified amino acid metabolic process folic acid-containing compound metabolic process tetrahydrofolate interconversion tetrahydrofolate metabolic process pteridine-containing compound metabolic process one-carbon metabolic process response to extracellular stimulus response to nutrient levels response to nutrient response to external stimulus response to vitamin A response to vitamin gland development animal organ regeneration liver development regeneration hepaticobiliary system development liver regeneration response to toxic substance developmental growth growth pyrimidine deoxyribonucleoside triphosphate metabolic process nucleoside triphosphate metabolic process pyrimidine deoxyribonucleoside triphosphate biosynthetic process dTTP biosynthetic process pyrimidine nucleoside triphosphate biosynthetic process pyrimidine nucleoside triphosphate metabolic process dTTP metabolic process nucleoside triphosphate biosynthetic process response to cytokine response to corticosteroid response to glucocorticoid response to alcohol response to ethanol DNA metabolic process nucleic acid metabolic process DNA biosynthetic process response to organophosphorus response to organonitrogen compound response to folic acid response to nitrogen compound	membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle mitochondrial membrane organelle inner membrane membrane mitochondrial inner membrane organelle envelope mitochondrial envelope membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle mitochondrial membrane organelle inner membrane membrane mitochondrial inner membrane organelle envelope mitochondrial envelope envelope organelle membrane cytosol membrane-enclosed lumen mitochondrial matrix intracellular organelle lumen organelle lumen nucleus
D	Thymidylate synthase	translation regulator activity binding mRNA regulatory element binding translation repressor activity organic cyclic compound binding translation regulator activity, nucleic acid binding nucleic acid binding translation repressor activity RNA binding sequence-specific mRNA binding mRNA binding transferase activity, transferring one-carbon groups transferase activity methyltransferase activity thymidylate synthase activity translation regulator activity binding mRNA regulatory element binding translation repressor activity organic cyclic compound binding translation regulator activity, nucleic acid binding nucleic acid binding translation repressor activity RNA binding sequence-specific mRNA binding mRNA binding transferase activity, transferring one-carbon groups transferase activity methyltransferase activity thymidylate synthase activity 5,10-methylenetetrahydrofolate-dependent methyltransferase activity catalytic activity identical protein binding protein binding protein homodimerization activity protein dimerization activity amide binding organic acid binding modified amino acid binding vitamin binding ion binding folic acid binding anion binding carboxylic acid binding heterocyclic compound binding small molecule binding	developmental process multicellular organism development multicellular organismal process skeletal system development connective tissue development anatomical structure development animal organ development tissue development cartilage development system development response to stimulus response to chemical response to xenobiotic stimulus rhythmic process developmental process multicellular organism development multicellular organismal process skeletal system development connective tissue development anatomical structure development animal organ development tissue development cartilage development system development response to stimulus response to chemical response to xenobiotic stimulus rhythmic process circadian rhythm regulation of amide metabolic process regulation of cellular process organonitrogen compound biosynthetic process negative regulation of biological process negative regulation of nitrogen compound metabolic process cellular nitrogen compound biosynthetic process negative regulation of cellular metabolic process regulation of primary metabolic process regulation of nitrogen compound metabolic process post-transcriptional regulation of gene expression organic substance biosynthetic process negative regulation of protein metabolic process regulation of biological process negative regulation of amide metabolic process cellular metabolic process regulation of protein metabolic process negative regulation of metabolic process regulation of cellular metabolic process primary metabolic process amide biosynthetic process cellular nitrogen compound metabolic process negative regulation of cellular biosynthetic process regulation of gene expression negative regulation of gene expression biosynthetic process peptide biosynthetic process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of metabolic process peptide metabolic process cellular biosynthetic process negative regulation of translation organic substance metabolic process negative regulation of cellular process nitrogen compound metabolic process protein metabolic process amide metabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process organonitrogen compound metabolic process biological regulation regulation of macromolecule metabolic process gene expression translation macromolecule biosynthetic process regulation of cellular biosynthetic process negative regulation of biosynthetic process regulation of translation cellular process pyrimidine deoxyribonucleotide metabolic process nucleotide biosynthetic process carbohydrate derivative metabolic process pyrimidine nucleotide metabolic process nucleobase-containing compound metabolic process deoxyribonucleotide biosynthetic process heterocycle metabolic process pyrimidine deoxyribonucleotide biosynthetic process dTMP metabolic process phosphate-containing compound metabolic process dTMP biosynthetic process small molecule metabolic process phosphorus metabolic process nucleoside phosphate metabolic process pyrimidine-containing compound metabolic process 2'-deoxyribonucleotide biosynthetic process nucleotide metabolic process deoxyribonucleoside monophosphate metabolic process organic cyclic compound metabolic process aromatic compound biosynthetic process organophosphate biosynthetic process organic cyclic compound biosynthetic process nucleoside phosphate biosynthetic process pyrimidine nucleoside monophosphate biosynthetic process deoxyribose phosphate biosynthetic process pyrimidine deoxyribonucleoside monophosphate metabolic process deoxyribonucleotide metabolic process nucleobase-containing small molecule metabolic process deoxyribonucleoside monophosphate biosynthetic process pyrimidine deoxyribonucleoside monophosphate biosynthetic process pyrimidine-containing compound biosynthetic process nucleoside monophosphate metabolic process carbohydrate derivative biosynthetic process pyrimidine nucleoside monophosphate metabolic process 2'-deoxyribonucleotide metabolic process deoxyribose phosphate metabolic process nucleobase-containing compound biosynthetic process heterocycle biosynthetic process nucleoside monophosphate biosynthetic process organophosphate metabolic process pyrimidine nucleotide biosynthetic process cellular aromatic compound metabolic process response to organic substance response to ketone response to lipid response to endogenous stimulus response to progesterone response to oxygen-containing compound response to hormone response to steroid hormone response to organic cyclic compound cellular developmental process cell development epithelial cell differentiation intestinal epithelial cell maturation columnar/cuboidal epithelial cell development cell differentiation cell maturation epithelium development digestive system development intestinal epithelial cell differentiation tube development intestinal epithelial cell development developmental maturation digestive tract development epithelial cell development anatomical structure maturation columnar/cuboidal epithelial cell differentiation epithelial cell maturation columnar/cuboidal epithelial cell maturation methylation uracil metabolic process pyrimidine nucleobase metabolic process nucleobase metabolic process cellular modified amino acid metabolic process folic acid-containing compound metabolic process tetrahydrofolate interconversion tetrahydrofolate metabolic process pteridine-containing compound metabolic process one-carbon metabolic process response to extracellular stimulus response to nutrient levels response to nutrient response to external stimulus response to vitamin A response to vitamin gland development animal organ regeneration liver development regeneration hepaticobiliary system development liver regeneration response to toxic substance developmental growth growth pyrimidine deoxyribonucleoside triphosphate metabolic process nucleoside triphosphate metabolic process pyrimidine deoxyribonucleoside triphosphate biosynthetic process dTTP biosynthetic process pyrimidine nucleoside triphosphate biosynthetic process pyrimidine nucleoside triphosphate metabolic process dTTP metabolic process nucleoside triphosphate biosynthetic process response to cytokine response to corticosteroid response to glucocorticoid response to alcohol response to ethanol DNA metabolic process nucleic acid metabolic process DNA biosynthetic process response to organophosphorus response to organonitrogen compound response to folic acid response to nitrogen compound	membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle mitochondrial membrane organelle inner membrane membrane mitochondrial inner membrane organelle envelope mitochondrial envelope membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle mitochondrial membrane organelle inner membrane membrane mitochondrial inner membrane organelle envelope mitochondrial envelope envelope organelle membrane cytosol membrane-enclosed lumen mitochondrial matrix intracellular organelle lumen organelle lumen nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR036926	Thymidylate synthase/dCMP hydroxymethylase superfamily	Homologous Superfamily
A, B, C	IPR000398	Thymidylate synthase	Family
A, B, C	IPR020940	Thymidylate synthase, active site	Active Site
A, B, C	IPR023451	Thymidylate synthase/dCMP hydroxymethylase domain	Domain
A, B, C	IPR045097	Thymidylate synthase/dCMP hydroxymethylase	Family
D	IPR036926	Thymidylate synthase/dCMP hydroxymethylase superfamily	Homologous Superfamily
D	IPR000398	Thymidylate synthase	Family
D	IPR020940	Thymidylate synthase, active site	Active Site
D	IPR023451	Thymidylate synthase/dCMP hydroxymethylase domain	Domain
D	IPR045097	Thymidylate synthase/dCMP hydroxymethylase	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C	Pharos: P04818	malignant colon neoplasm breast carcinoma cleft palate squamous cell carcinoma follicular lymphoma lung adenocarcinoma colorectal cancer nervous system disorder non-small cell lung carcinoma gastric cancer head and neck cancer breast cancer Hyperammonemia malignant pancreatic neoplasm neuroendocrine neoplasm malignant colon neoplasm breast carcinoma cleft palate squamous cell carcinoma follicular lymphoma lung adenocarcinoma colorectal cancer nervous system disorder non-small cell lung carcinoma gastric cancer head and neck cancer breast cancer Hyperammonemia malignant pancreatic neoplasm neuroendocrine neoplasm ovarian cancer anemia rectal neoplasm brain disease prostate cancer Sjogren syndrome medulloblastoma superficial multifocal basal cell carcinoma nasopharyngeal carcinoma cystic fibrosis digestive system disease Down syndrome actinic keratosis pancreatic adenocarcinoma ductal breast carcinoma in situ pancreatic neoplasm atypical teratoid rhabdoid tumor pituitary cancer hepatocellular carcinoma primitive neuroectodermal tumor cancer invasive ductal breast carcinoma cleft lip rectal carcinoma reticulum cell sarcoma small intestine cancer lung benign neoplasm colorectal carcinoma testicular germ cell tumor neoplasm of neck Tourette syndrome pancreatic intraductal papillary-mucinous carcinoma endometriosis lymphoplasmacytic lymphoma Pick disease gastric neoplasm head and neck neoplasm malignant ependymoma benign colon neoplasm hereditary diffuse gastric adenocarcinoma progressive supranuclear palsy IgA glomerulonephritis psoriasis large cell medulloblastoma malignant pleural mesothelioma sinusitis colonic neoplasm lung cancer tongue cancer digestive system cancer tuberculosis non-Hodgkin lymphoma ovarian neoplasm adrenal cortex carcinoma pancreatic intraductal papillary-mucinous neoplasm lymphosarcoma atopic eczema pilocytic astrocytoma glioblastoma malignant glioma breast fibroadenoma interstitial cystitis rectal cancer liver cancer malignant tumor of neck
D	Pharos: P04818	malignant colon neoplasm breast carcinoma cleft palate squamous cell carcinoma follicular lymphoma lung adenocarcinoma colorectal cancer nervous system disorder non-small cell lung carcinoma gastric cancer head and neck cancer breast cancer Hyperammonemia malignant pancreatic neoplasm neuroendocrine neoplasm malignant colon neoplasm breast carcinoma cleft palate squamous cell carcinoma follicular lymphoma lung adenocarcinoma colorectal cancer nervous system disorder non-small cell lung carcinoma gastric cancer head and neck cancer breast cancer Hyperammonemia malignant pancreatic neoplasm neuroendocrine neoplasm ovarian cancer anemia rectal neoplasm brain disease prostate cancer Sjogren syndrome medulloblastoma superficial multifocal basal cell carcinoma nasopharyngeal carcinoma cystic fibrosis digestive system disease Down syndrome actinic keratosis pancreatic adenocarcinoma ductal breast carcinoma in situ pancreatic neoplasm atypical teratoid rhabdoid tumor pituitary cancer hepatocellular carcinoma primitive neuroectodermal tumor cancer invasive ductal breast carcinoma cleft lip rectal carcinoma reticulum cell sarcoma small intestine cancer lung benign neoplasm colorectal carcinoma testicular germ cell tumor neoplasm of neck Tourette syndrome pancreatic intraductal papillary-mucinous carcinoma endometriosis lymphoplasmacytic lymphoma Pick disease gastric neoplasm head and neck neoplasm malignant ependymoma benign colon neoplasm hereditary diffuse gastric adenocarcinoma progressive supranuclear palsy IgA glomerulonephritis psoriasis large cell medulloblastoma malignant pleural mesothelioma sinusitis colonic neoplasm lung cancer tongue cancer digestive system cancer tuberculosis non-Hodgkin lymphoma ovarian neoplasm adrenal cortex carcinoma pancreatic intraductal papillary-mucinous neoplasm lymphosarcoma atopic eczema pilocytic astrocytoma glioblastoma malignant glioma breast fibroadenoma interstitial cystitis rectal cancer liver cancer malignant tumor of neck

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A, B, C	CME	Parent Component: CYS
A, B, C	SCH	Parent Component: CYS RESID: AA0101 PSI-MOD : L-cysteine methyl disulfide MOD:00110
D	CME	Parent Component: CYS RESID: AA0101
D	SCH	Parent Component: CYS RESID: AA0101 , AA0101 PSI-MOD : L-cysteine methyl disulfide MOD:00110 , L-cysteine methyl disulfide MOD:00110

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.