1LFB

THE X-RAY STRUCTURE OF AN ATYPICAL HOMEODOMAIN PRESENT IN THE RAT LIVER TRANSCRIPTION FACTOR LFB1(SLASH)HNF1 AND IMPLICATIONS FOR DNA BINDING

External Resource: Annotation

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

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1lfba_	All alpha proteins	DNA/RNA-binding 3-helical bundle	Homeodomain-like	Homeodomain	Hepatocyte nuclear factor 1a (LFB1/HNF1)	Norway rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Homeodomain	8057803	4000291	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Homeodomain-like	8057804	3000001	SCOP2 (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	F_UNCLASSIFIED	e1lfbA1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: F_UNCLASSIFIED	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.10.60	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Homeodomain-like	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	LIVER TRANSCRIPTION FACTOR (LFB1)	DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding binding double-stranded DNA binding organic cyclic compound binding nucleic acid binding transcription regulatory region nucleic acid binding transcription factor binding transcription coregulator binding protein binding DNA-binding transcription factor activity, RNA polymerase II-specific transcription regulator activity DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding binding double-stranded DNA binding organic cyclic compound binding nucleic acid binding transcription regulatory region nucleic acid binding transcription factor binding transcription coregulator binding protein binding DNA-binding transcription factor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription factor activity protein dimerization activity DNA-binding transcription activator activity, RNA polymerase II-specific DNA-binding transcription activator activity identical protein binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding RNA polymerase II cis-regulatory region sequence-specific DNA binding protein-containing complex binding chromatin binding transcription coactivator binding	cellular response to stimulus cellular response to nitrogen compound response to organic substance response to ketone response to stimulus cellular response to ether cellular response to endogenous stimulus response to ether response to rapamycin cellular response to organic substance cellular response to ketone response to organic cyclic compound response to alcohol response to organonitrogen compound cellular response to stimulus cellular response to nitrogen compound response to organic substance response to ketone response to stimulus cellular response to ether cellular response to endogenous stimulus response to ether response to rapamycin cellular response to organic substance cellular response to ketone response to organic cyclic compound response to alcohol response to organonitrogen compound response to endogenous stimulus cellular response to organic cyclic compound response to oxygen-containing compound response to nitrogen compound cellular response to oxygen-containing compound cellular response to chemical stimulus cellular response to alcohol cellular response to organonitrogen compound response to chemical cellular process cellular response to rapamycin cellular response to acid chemical cellular response to amino acid stimulus response to amino acid cellular response to L-leucine response to acid chemical response to L-leucine protein localization localization cellular localization cellular macromolecule localization macromolecule localization transport organic substance transport reverse cholesterol transport lipid localization lipid transport organic hydroxy compound transport establishment of localization cholesterol transport sterol transport developmental process placenta development animal organ development anatomical structure development regulation of cellular process cellular biosynthetic process positive regulation of biological process positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process organic substance metabolic process positive regulation of biosynthetic process organic substance biosynthetic process positive regulation of macromolecule metabolic process positive regulation of cellular process regulation of biosynthetic process regulation of biological process cellular metabolic process biological regulation regulation of cellular metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of cellular biosynthetic process regulation of gene expression biosynthetic process positive regulation of gene expression regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of metabolic process positive regulation of cellular biosynthetic process organic anion transport carboxylic acid transport bile acid and bile salt transport organic acid transport monocarboxylic acid transport RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process primary metabolic process nucleobase-containing compound biosynthetic process nucleic acid metabolic process organic cyclic compound metabolic process organic cyclic compound biosynthetic process regulation of DNA-templated transcription multicellular organism development multicellular organismal process reproductive system development reproductive process reproductive structure development developmental process involved in reproduction system development pigment metabolic process heme metabolic process porphyrin-containing compound biosynthetic process organonitrogen compound metabolic process tetrapyrrole metabolic process heme biosynthetic process organonitrogen compound biosynthetic process pigment biosynthetic process tetrapyrrole biosynthetic process porphyrin-containing compound metabolic process nucleotide biosynthetic process carbohydrate derivative metabolic process purine ribonucleotide biosynthetic process positive regulation of phosphate metabolic process purine ribonucleoside triphosphate biosynthetic process positive regulation of nucleotide biosynthetic process regulation of nucleotide biosynthetic process regulation of ATP metabolic process ribonucleotide biosynthetic process purine nucleoside triphosphate biosynthetic process regulation of small molecule metabolic process positive regulation of purine nucleotide biosynthetic process regulation of phosphate metabolic process regulation of nucleotide metabolic process phosphate-containing compound metabolic process small molecule metabolic process phosphorus metabolic process ribose phosphate biosynthetic process nucleoside phosphate metabolic process positive regulation of nucleobase-containing compound metabolic process positive regulation of phosphorus metabolic process nucleotide metabolic process regulation of purine nucleotide metabolic process ribonucleoside triphosphate biosynthetic process positive regulation of ATP metabolic process organophosphate biosynthetic process nucleoside phosphate biosynthetic process regulation of phosphorus metabolic process nucleoside triphosphate metabolic process purine ribonucleotide metabolic process purine nucleotide biosynthetic process ribose phosphate metabolic process ATP metabolic process ATP biosynthetic process positive regulation of nucleotide metabolic process purine nucleotide metabolic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process purine ribonucleoside triphosphate metabolic process purine-containing compound biosynthetic process ribonucleoside triphosphate metabolic process purine nucleoside triphosphate metabolic process carbohydrate derivative biosynthetic process regulation of purine nucleotide biosynthetic process nucleoside triphosphate biosynthetic process purine-containing compound metabolic process positive regulation of purine nucleotide metabolic process positive regulation of ATP biosynthetic process regulation of ATP biosynthetic process organophosphate metabolic process positive regulation of small molecule metabolic process negative regulation of biological process negative regulation of cellular metabolic process post-transcriptional regulation of gene expression negative regulation of nucleobase-containing compound metabolic process RNA processing negative regulation of metabolic process regulation of miRNA processing negative regulation of cellular biosynthetic process miRNA-mediated post-transcriptional gene silencing negative regulation of gene expression negative regulation of macromolecule biosynthetic process negative regulation of miRNA-mediated gene silencing post-transcriptional gene silencing miRNA processing negative regulation of post-transcriptional gene silencing negative regulation of RNA metabolic process regulation of miRNA-mediated gene silencing negative regulation of post-transcriptional gene silencing by regulatory ncRNA regulation of regulatory ncRNA processing regulation of gene silencing by regulatory ncRNA negative regulation of cellular process regulation of post-transcriptional gene silencing by regulatory ncRNA negative regulation of miRNA processing negative regulation of macromolecule metabolic process negative regulation of gene silencing by regulatory ncRNA regulatory ncRNA-mediated post-transcriptional gene silencing regulatory ncRNA processing regulatory ncRNA-mediated gene silencing regulation of post-transcriptional gene silencing negative regulation of biosynthetic process negative regulation of RNA biosynthetic process transcription by RNA polymerase II regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II renal glucose absorption renal system process system process hexose transmembrane transport carbohydrate transport transmembrane transport renal absorption glucose transmembrane transport monosaccharide transmembrane transport carbohydrate transmembrane transport positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of DNA-templated transcription positive regulation of RNA biosynthetic process establishment of protein localization nitrogen compound transport signaling hormone secretion cell communication protein localization to extracellular region peptide secretion secretion by cell amide transport signal release regulation of biological quality secretion regulation of hormone levels establishment of protein localization to extracellular region cell-cell signaling export from cell protein secretion peptide transport protein transport peptide hormone secretion hormone transport insulin secretion multicellular organismal-level homeostasis homeostatic process tissue remodeling bone remodeling anatomical structure homeostasis tissue homeostasis bone resorption chemical homeostasis glucose homeostasis carbohydrate homeostasis formation of primary germ layer mesoderm morphogenesis paraxial mesoderm formation mesenchyme morphogenesis embryonic morphogenesis mesenchyme development tissue development embryo development gastrulation tissue morphogenesis anatomical structure morphogenesis paraxial mesoderm development anatomical structure formation involved in morphogenesis animal organ morphogenesis paraxial mesoderm morphogenesis mesoderm formation mesoderm development hepaticobiliary system development gland development liver development regulation of protein modification process regulation of protein phosphorylation regulation of peptidyl-threonine phosphorylation negative regulation of phosphate metabolic process negative regulation of protein modification process peptidyl-amino acid modification protein metabolic process peptidyl-threonine modification protein modification process negative regulation of protein metabolic process protein phosphorylation phosphorylation regulation of protein metabolic process negative regulation of protein phosphorylation macromolecule modification negative regulation of peptidyl-threonine phosphorylation negative regulation of phosphorus metabolic process regulation of phosphorylation negative regulation of phosphorylation peptidyl-threonine phosphorylation cellular component disassembly cellular component organization execution phase of apoptosis cellular component disassembly involved in execution phase of apoptosis apoptotic nuclear changes apoptotic process cellular component organization or biogenesis cell death programmed cell death negative regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death negative regulation of apoptotic process response to monosaccharide response to carbohydrate cellular response to hexose stimulus intracellular chemical homeostasis cellular response to monosaccharide stimulus cellular response to glucose stimulus intracellular glucose homeostasis response to hexose cellular response to carbohydrate stimulus cellular homeostasis response to glucose regulation of mitochondrial membrane potential positive regulation of mitochondrial membrane potential positive regulation of membrane potential regulation of membrane potential positive regulation of cell communication regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction positive regulation of signal transduction regulation of signal transduction intracellular signal transduction positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette signal transduction regulation of signaling positive regulation of intracellular signal transduction positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction regulation of response to stimulus regulation of cell communication phosphatidylinositol 3-kinase/protein kinase B signal transduction positive regulation of signaling organic hydroxy compound metabolic process sterol metabolic process steroid metabolic process cholesterol metabolic process alcohol metabolic process secondary alcohol metabolic process lipid metabolic process limb development appendage development embryonic limb morphogenesis embryonic appendage morphogenesis appendage morphogenesis limb morphogenesis oxoacid metabolic process lipid biosynthetic process organic acid biosynthetic process organic acid metabolic process carboxylic acid biosynthetic process steroid biosynthetic process bile acid biosynthetic process monocarboxylic acid biosynthetic process small molecule biosynthetic process carboxylic acid metabolic process bile acid metabolic process organic hydroxy compound biosynthetic process monocarboxylic acid metabolic process fatty acid transport regulation of DNA-templated transcription initiation transcription initiation at RNA polymerase II promoter positive regulation of DNA-templated transcription initiation positive regulation of transcription initiation by RNA polymerase II DNA-templated transcription initiation regulation of transcription initiation by RNA polymerase II pancreas development regulation of localization regulation of hormone secretion regulation of secretion by cell regulation of transport regulation of secretion fatty acid metabolic process fatty acid biosynthetic process cellular lipid metabolic process regulation of Wnt signaling pathway cell surface receptor signaling pathway Wnt signaling pathway positive regulation of phosphorylation positive regulation of protein metabolic process positive regulation of protein modification process positive regulation of protein phosphorylation response to oxidative stress response to stress positive regulation of establishment of protein localization positive regulation of insulin secretion regulation of peptide hormone secretion positive regulation of peptide hormone secretion regulation of protein secretion positive regulation of protein localization regulation of protein localization regulation of peptide secretion positive regulation of secretion by cell positive regulation of protein transport positive regulation of hormone secretion positive regulation of secretion positive regulation of peptide secretion regulation of peptide transport regulation of establishment of protein localization regulation of protein transport positive regulation of protein secretion positive regulation of transport regulation of cellular localization regulation of insulin secretion embryo development ending in birth or egg hatching chordate embryonic development in utero embryonic development blastocyst development glucose import pyridine-containing compound metabolic process regulation of NADP metabolic process pyridine nucleotide metabolic process nicotinamide nucleotide metabolic process NADP metabolic process protein-DNA complex organization protein-containing complex organization chromatin organization chromatin remodeling	protein-containing complex transcription regulator complex intracellular anatomical structure cytoplasm cellular anatomical entity intracellular organelle protein-DNA complex organelle intracellular non-membrane-bounded organelle chromatin chromosome non-membrane-bounded organelle membrane-bounded organelle non-motile cilium protein-containing complex transcription regulator complex intracellular anatomical structure cytoplasm cellular anatomical entity intracellular organelle protein-DNA complex organelle intracellular non-membrane-bounded organelle chromatin chromosome non-membrane-bounded organelle membrane-bounded organelle non-motile cilium 9+0 non-motile cilium cilium neuron projection photoreceptor outer segment plasma membrane bounded cell projection cell projection photoreceptor cell cilium nucleus pronucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR044869	HNF-1, POU-specific (POUs) atypical domain	Domain
A	IPR009057	Homeobox-like domain superfamily	Homologous Superfamily
A	IPR023219	Hepatocyte nuclear factor 1, N-terminal domain superfamily	Homologous Superfamily
A	IPR044866	HNF-1, dimerization domain	Domain
A	IPR006899	Hepatocyte nuclear factor 1, N-terminal	Domain
A	IPR001356	Homeobox domain	Domain
A	IPR006897	Hepatocyte nuclear factor 1, beta isoform, C-terminal	Domain
A	IPR006898	Hepatocyte nuclear factor 1, alpha isoform C-terminal	Domain
A	IPR039066	Hepatocyte nuclear factor 1	Family
A	IPR010982	Lambda repressor-like, DNA-binding domain superfamily	Homologous Superfamily

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), 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.