8C0D | pdb_00008c0d

UFL1/DDRGK1 bound to UFC1

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F	SCOP2B Superfamily	UBC-like	8042801	3000570	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	UBC-like	8042801	3000570	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)
C		e8c0dC01	A: alpha bundles	X: Rossmann-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F:	ECOD (develop294)
B		e8c0dB01	A: alpha bundles	X: Rossmann-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F:	ECOD (develop294)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C, F	PF08694	Ubiquitin-fold modifier-conjugating enzyme 1 (UFC1)	Ubiquitin-fold modifier-conjugating enzyme 1	Ubiquitin-like (UBL) post-translational modifiers are covalently linked to most, if not all, target protein(s) through an enzymatic cascade analogous to ubiquitylation, consisting of E1 (activating), E2 (conjugating), and E3 (ligating) enzymes. Ubiqu ...	Ubiquitin-like (UBL) post-translational modifiers are covalently linked to most, if not all, target protein(s) through an enzymatic cascade analogous to ubiquitylation, consisting of E1 (activating), E2 (conjugating), and E3 (ligating) enzymes. Ubiquitin-fold modifier 1 (Ufm1) a ubiquitin-like protein is activated by a novel E1-like enzyme, Uba5, by forming a high-energy thioester bond. Activated Ufm1 is then transferred to its cognate E2-like enzyme, Ufc1, in a similar thioester linkage. This family represents the E2-like enzyme.	Domain
B, E	PF09756	DDRGK domain (DDRGK)	DDRGK domain	-	Family
A, D	PF09743	E3 UFM1-protein ligase 1 (E3_UFM1_ligase)	E3 UFM1-protein ligase 1	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C, F	Ubiquitin-fold modifier-conjugating enzyme 1	aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity UFM1 transferase activity transferase activity catalytic activity UFM1 conjugating enzyme activity ubiquitin-like protein conjugating enzyme activity	developmental process multicellular organism development multicellular organismal process head development central nervous system development anatomical structure development animal organ development brain development nervous system development system development regulation of biosynthetic process regulation of biological process regulation of type II interferon production regulation of cellular process developmental process multicellular organism development multicellular organismal process head development central nervous system development anatomical structure development animal organ development brain development nervous system development system development regulation of biosynthetic process regulation of biological process regulation of type II interferon production regulation of cellular process type II interferon production biological regulation regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression biosynthetic process cytokine production regulation of cytokine production metabolic process cellular process regulation of macromolecule biosynthetic process regulation of multicellular organismal process macromolecule metabolic process regulation of metabolic process primary metabolic process protein ufmylation macromolecule modification protein metabolic process post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal catabolic process macroautophagy reticulophagy autophagy process utilizing autophagic mechanism cellular response to stimulus cellular response to stress response to stimulus response to stress response to endoplasmic reticulum stress protein polyufmylation protein K69-linked ufmylation	extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle
B, E	DDRGK domain-containing protein 1	UFM1-modified protein reader activity protein-macromolecule adaptor activity ubiquitin-like protein reader activity molecular adaptor activity protein binding binding ubiquitin-like protein ligase binding enzyme 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 cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction 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 cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction positive regulation of canonical NF-kappaB signal transduction response to stimulus signaling positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette signal transduction positive regulation of cellular process regulation of biological process regulation of signaling biological regulation positive regulation of intracellular signal transduction canonical NF-kappaB signal transduction regulation of response to stimulus regulation of cell communication regulation of canonical NF-kappaB signal transduction cellular process positive regulation of signaling positive regulation of proteasomal protein catabolic process catabolic process positive regulation of protein metabolic process macromolecule catabolic process regulation of primary metabolic process positive regulation of metabolic process positive regulation of macromolecule metabolic process protein metabolic process regulation of protein metabolic process primary metabolic process proteasomal protein catabolic process regulation of macromolecule metabolic process protein catabolic process regulation of catabolic process positive regulation of protein catabolic process positive regulation of catabolic process regulation of proteasomal protein catabolic process metabolic process macromolecule metabolic process regulation of metabolic process regulation of protein catabolic process cellular component disassembly ribosome disassembly translation gene expression protein biosynthetic process macromolecule biosynthetic process cellular component organization organelle organization biosynthetic process organelle disassembly translational elongation cytoplasmic translation cytoplasmic translational elongation cellular component organization or biogenesis rescue of stalled cytosolic ribosome negative regulation of programmed cell death regulation of apoptotic process negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of cellular process apoptotic process programmed cell death regulation of biosynthetic process positive regulation of macromolecule biosynthetic process regulation of gene expression positive regulation of gene expression positive regulation of biosynthetic process regulation of macromolecule biosynthetic process intracellular receptor signaling pathway response to lipid hormone-mediated signaling pathway cellular response to endogenous stimulus response to hormone response to steroid hormone regulation of intracellular estrogen receptor signaling pathway regulation of intracellular steroid hormone receptor signaling pathway nuclear receptor-mediated steroid hormone signaling pathway cellular response to steroid hormone stimulus steroid hormone receptor signaling pathway cellular response to hormone stimulus response to endogenous stimulus estrogen receptor signaling pathway cellular response to chemical stimulus response to chemical cellular response to lipid nuclear receptor-mediated signaling pathway regulation of immune effector process regulation of leukocyte differentiation regulation of leukocyte activation regulation of cell activation mononuclear cell differentiation regulation of cell differentiation mature B cell differentiation positive regulation of B cell differentiation B cell activation involved in immune response cell activation involved in immune response lymphocyte differentiation regulation of cell development positive regulation of developmental process positive regulation of cell activation regulation of plasma cell differentiation positive regulation of immune response cell differentiation positive regulation of leukocyte activation regulation of immune system process positive regulation of immune system process immune response positive regulation of cell development immune effector process positive regulation of plasma cell differentiation regulation of immune response positive regulation of multicellular organismal process plasma cell differentiation leukocyte differentiation cellular developmental process regulation of developmental process cell development lymphocyte activation leukocyte activation regulation of B cell differentiation positive regulation of lymphocyte activation B cell differentiation positive regulation of hemopoiesis positive regulation of cell differentiation leukocyte activation involved in immune response regulation of B cell activation positive regulation of immune effector process regulation of multicellular organismal process lymphocyte activation involved in immune response regulation of lymphocyte differentiation regulation of multicellular organismal development mature B cell differentiation involved in immune response hemopoiesis B cell activation cell activation positive regulation of B cell activation immune system process regulation of hemopoiesis positive regulation of leukocyte differentiation positive regulation of lymphocyte differentiation regulation of lymphocyte activation proteasome-mediated ubiquitin-dependent protein catabolic process regulation of ubiquitin-dependent protein catabolic process positive regulation of ubiquitin-dependent protein catabolic process modification-dependent macromolecule catabolic process regulation of proteasomal ubiquitin-dependent protein catabolic process modification-dependent protein catabolic process positive regulation of proteasomal ubiquitin-dependent protein catabolic process ubiquitin-dependent protein catabolic process negative regulation of protein catabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process negative regulation of ubiquitin-dependent protein catabolic process negative regulation of catabolic process negative regulation of proteasomal ubiquitin-dependent protein catabolic process negative regulation of metabolic process negative regulation of proteasomal protein catabolic process cell population proliferation positive regulation of cell population proliferation regulation of cell population proliferation regulation of protein stability regulation of biological quality positive regulation of autophagy macroautophagy autophagy regulation of reticulophagy regulation of autophagy regulation of macroautophagy reticulophagy positive regulation of macroautophagy process utilizing autophagic mechanism positive regulation of reticulophagy protein ufmylation macromolecule modification post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal positive regulation of locomotion regulation of cell motility positive regulation of cell migration regulation of locomotion positive regulation of cell motility regulation of cell migration cell migration cell motility locomotion localization protein localization to organelle macromolecule localization intracellular protein localization protein localization to endoplasmic reticulum negative regulation of signaling negative regulation of intracellular signal transduction regulation of cellular response to stress endoplasmic reticulum unfolded protein response regulation of response to endoplasmic reticulum stress negative regulation of cell communication regulation of endoplasmic reticulum unfolded protein response cellular response to stress response to stress regulation of response to stress negative regulation of IRE1-mediated unfolded protein response response to endoplasmic reticulum stress regulation of IRE1-mediated unfolded protein response negative regulation of endoplasmic reticulum unfolded protein response negative regulation of response to endoplasmic reticulum stress cellular response to topologically incorrect protein negative regulation of response to stimulus cellular response to unfolded protein response to unfolded protein negative regulation of signal transduction response to topologically incorrect protein IRE1-mediated unfolded protein response regulation of cell cycle phase transition regulation of cell cycle process cell cycle phase transition regulation of cell cycle G1/S phase transition cell cycle G1/S phase transition positive regulation of cell cycle positive regulation of cell cycle G1/S phase transition positive regulation of cell cycle phase transition positive regulation of cell cycle process cell cycle regulation of cell cycle cell cycle process regulation of protein modification process positive regulation of phosphorylation regulation of protein phosphorylation positive regulation of phosphate metabolic process positive regulation of protein modification process phosphate-containing compound metabolic process positive regulation of I-kappaB phosphorylation phosphorus metabolic process positive regulation of protein phosphorylation I-kappaB phosphorylation protein phosphorylation positive regulation of phosphorus metabolic process phosphorylation regulation of phosphorylation regulation of phosphorus metabolic process regulation of I-kappaB phosphorylation PERK-mediated unfolded protein response integrated stress response signaling ER-nucleus signaling pathway regulation of PERK-mediated unfolded protein response negative regulation of PERK-mediated unfolded protein response negative regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of localization regulation of protein localization regulation of protein localization to endoplasmic reticulum positive regulation of protein localization positive regulation of protein localization to endoplasmic reticulum positive regulation of DNA-templated transcription RNA metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process regulation of DNA-templated transcription protein polyufmylation protein K69-linked ufmylation	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen cytoplasm organelle subcompartment membrane endomembrane system endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum organelle membrane endoplasmic reticulum membrane
A, D	E3 UFM1-protein ligase 1	protein binding binding kinase binding enzyme binding protein kinase binding aminoacyltransferase activity ubiquitin-like protein transferase activity UFM1 ligase activity catalytic activity, acting on a protein acyltransferase activity UFM1 transferase activity ubiquitin-like protein ligase activity transferase activity catalytic activity	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process developmental process multicellular organismal process cellular developmental process ossification cell differentiation osteoblast differentiation regulation of protein stability biological regulation cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process developmental process multicellular organismal process cellular developmental process ossification cell differentiation osteoblast differentiation regulation of protein stability biological regulation regulation of biological quality protein stabilization cellular component disassembly ribosome disassembly primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process cellular component organization organelle organization biosynthetic process organelle disassembly translational elongation cytoplasmic translation metabolic process cytoplasmic translational elongation protein metabolic process macromolecule metabolic process cellular component organization or biogenesis rescue of stalled cytosolic ribosome negative regulation of post-translational protein modification regulation of cellular process regulation of protein modification process negative regulation of biological process regulation of protein ubiquitination regulation of primary metabolic process protein ubiquitination negative regulation of protein modification process negative regulation of cellular process negative regulation of protein ubiquitination regulation of protein modification by small protein conjugation or removal protein modification process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of biological process negative regulation of protein modification by small protein conjugation or removal regulation of post-translational protein modification regulation of protein metabolic process negative regulation of metabolic process regulation of macromolecule metabolic process macromolecule modification post-translational protein modification regulation of metabolic process protein modification by small protein conjugation protein modification by small protein conjugation or removal intracellular receptor signaling pathway response to lipid signaling regulation of signal transduction hormone-mediated signaling pathway intracellular signal transduction cell communication cellular response to endogenous stimulus response to hormone regulation of intracellular signal transduction response to steroid hormone regulation of intracellular estrogen receptor signaling pathway regulation of intracellular steroid hormone receptor signaling pathway signal transduction nuclear receptor-mediated steroid hormone signaling pathway cellular response to steroid hormone stimulus steroid hormone receptor signaling pathway cellular response to hormone stimulus regulation of signaling response to endogenous stimulus estrogen receptor signaling pathway cellular response to chemical stimulus regulation of response to stimulus response to chemical cellular response to lipid regulation of cell communication nuclear receptor-mediated signaling pathway cell population proliferation positive regulation of cell population proliferation regulation of cell population proliferation positive regulation of biological process positive regulation of cellular process positive regulation of autophagy catabolic process macroautophagy autophagy regulation of reticulophagy regulation of catabolic process regulation of autophagy positive regulation of catabolic process positive regulation of metabolic process regulation of macroautophagy reticulophagy positive regulation of macroautophagy process utilizing autophagic mechanism positive regulation of reticulophagy stem cell differentiation hemopoiesis hematopoietic stem cell differentiation anatomical structure development cell development hematopoietic progenitor cell differentiation regulation of defense response regulation of response to external stimulus defense response regulation of inflammatory response response to external stimulus regulation of response to stress inflammatory response protein ufmylation DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process DNA repair regulation of localization localization regulation of protein localization macromolecule localization intracellular protein localization proteasome-mediated ubiquitin-dependent protein catabolic process macromolecule catabolic process regulation of ubiquitin-dependent protein catabolic process modification-dependent macromolecule catabolic process proteasomal protein catabolic process protein catabolic process regulation of proteasomal ubiquitin-dependent protein catabolic process modification-dependent protein catabolic process regulation of proteasomal protein catabolic process ubiquitin-dependent protein catabolic process regulation of protein catabolic process negative regulation of signaling negative regulation of intracellular signal transduction regulation of cellular response to stress endoplasmic reticulum unfolded protein response regulation of response to endoplasmic reticulum stress negative regulation of cell communication regulation of endoplasmic reticulum unfolded protein response negative regulation of IRE1-mediated unfolded protein response response to endoplasmic reticulum stress regulation of IRE1-mediated unfolded protein response negative regulation of endoplasmic reticulum unfolded protein response negative regulation of response to endoplasmic reticulum stress cellular response to topologically incorrect protein negative regulation of response to stimulus cellular response to unfolded protein response to unfolded protein negative regulation of signal transduction response to topologically incorrect protein IRE1-mediated unfolded protein response homeostatic process erythrocyte differentiation multicellular organismal-level homeostasis myeloid cell differentiation immune system process homeostasis of number of cells myeloid cell homeostasis erythrocyte homeostasis adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains lymphocyte mediated immunity regulation of immune effector process T cell mediated immunity regulation of response to biotic stimulus negative regulation of response to biotic stimulus immune response to tumor cell negative regulation of immune response to tumor cell negative regulation of response to tumor cell negative regulation of lymphocyte mediated immunity regulation of response to tumor cell response to biotic stimulus T cell mediated immune response to tumor cell negative regulation of T cell mediated immune response to tumor cell regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains regulation of T cell mediated immune response to tumor cell leukocyte mediated immunity regulation of immune system process regulation of T cell mediated immunity response to tumor cell immune response regulation of adaptive immune response negative regulation of immune response negative regulation of immune effector process regulation of immune response to tumor cell negative regulation of adaptive immune response adaptive immune response immune effector process negative regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains regulation of leukocyte mediated immunity regulation of lymphocyte mediated immunity negative regulation of immune system process regulation of immune response negative regulation of leukocyte mediated immunity negative regulation of T cell mediated immunity response to acid chemical response to oxygen-containing compound response to nitrogen compound response to L-glutamate response to amino acid positive regulation of nervous system development regulation of developmental process regulation of neurogenesis regulation of cell differentiation regulation of gliogenesis positive regulation of glial cell proliferation positive regulation of gliogenesis regulation of cell development regulation of nervous system development positive regulation of developmental process neurogenesis multicellular organism development regulation of glial cell proliferation gliogenesis positive regulation of cell differentiation regulation of multicellular organismal process positive regulation of neurogenesis system development regulation of multicellular organismal development positive regulation of cell development nervous system development positive regulation of multicellular organismal process glial cell proliferation DNA damage checkpoint signaling regulation of cell cycle phase transition negative regulation of cell cycle cell cycle phase transition negative regulation of cell cycle phase transition cell cycle regulation of cell cycle cell cycle process regulation of cell cycle process DNA integrity checkpoint signaling negative regulation of cell cycle process cell cycle checkpoint signaling signal transduction in response to DNA damage regulation of leukocyte activation regulation of cell activation lymphocyte activation negative regulation of lymphocyte activation leukocyte cell-cell adhesion negative regulation of cell adhesion leukocyte activation cell adhesion cell-cell adhesion T cell activation regulation of cell-cell adhesion regulation of cell adhesion cell activation regulation of T cell activation negative regulation of cell activation negative regulation of T cell activation negative regulation of leukocyte cell-cell adhesion negative regulation of cell-cell adhesion regulation of leukocyte cell-cell adhesion negative regulation of multicellular organismal process negative regulation of leukocyte activation regulation of lymphocyte activation canonical NF-kappaB signal transduction intracellular signaling cassette regulation of canonical NF-kappaB signal transduction protein polyufmylation protein K69-linked ufmylation	cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol protein-containing complex membrane-bounded organelle organelle subcompartment intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle organelle nuclear outer membrane-endoplasmic reticulum membrane network cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol protein-containing complex membrane-bounded organelle organelle subcompartment intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum organelle membrane endoplasmic reticulum membrane cell projection neuron projection plasma membrane bounded cell projection mitochondrial membrane mitochondrion organelle outer membrane organelle envelope bounding membrane of organelle mitochondrial envelope mitochondrial outer membrane outer membrane site of double-strand break membraneless organelle site of DNA damage intracellular membraneless organelle chromosome nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C, F	IPR016135	Ubiquitin-conjugating enzyme/RWD-like	Homologous Superfamily
C, F	IPR014806	Ubiquitin-fold modifier-conjugating enzyme 1	Family
B, E	IPR019153	DDRGK domain containing protein	Family
B, E	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
B, E	IPR036390	Winged helix DNA-binding domain superfamily	Homologous Superfamily
B, E	IPR050899	DDRGK domain-containing protein	Family
A, D	IPR056580	E3 UFM1-protein ligase 1-like domain	Domain
A, D	IPR056579	E3 UFM1-protein ligase 1-like, N-terminal	Domain
A, D	IPR018611	E3 UFM1-protein ligase 1	Family
A, D	IPR056761	E3 UFM1-protein ligase-like, C-terminal domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C, F	Pharos: Q9Y3C8	allergic rhinitis ovarian cancer diabetes mellitus plasma cell myeloma lymphoplasmacytic lymphoma
B, E	Pharos: Q96HY6	spondyloepimetaphyseal dysplasia, Shohat type astrocytic tumor psoriasis hepatitis C virus infection plasma cell myeloma
A, D	Pharos: O94874	brain aneurysm lymphoplasmacytic lymphoma ovarian cancer psoriasis breast carcinoma myocardial infarction pilocytic astrocytoma lung cancer osteosarcoma progressive supranuclear palsy

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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.