28RF | pdb_000028rf

Cryo-EM single particle structure of the Plastid-Encoded RNA Polymerase (PEP)from Chlamydomonas reinhardtii.

External Resource: Annotation

Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
J	Uncharacterized protein A0A2K3DRS4	-	-	-
H, I	UDP-3-O-acyl-N-acetylglucosamine deacetylase	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides UDP-3-O-acyl-N-acetylglucosamine deacetylase activity hydrolase activity catalytic activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds	carbohydrate derivative biosynthetic process lipooligosaccharide metabolic process glycolipid metabolic process lipid A biosynthetic process liposaccharide metabolic process carbohydrate derivative metabolic process lipid biosynthetic process primary metabolic process glycolipid biosynthetic process phospholipid biosynthetic process phospholipid metabolic process lipid A metabolic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process carbohydrate derivative biosynthetic process lipooligosaccharide metabolic process glycolipid metabolic process lipid A biosynthetic process liposaccharide metabolic process carbohydrate derivative metabolic process lipid biosynthetic process primary metabolic process glycolipid biosynthetic process phospholipid biosynthetic process phospholipid metabolic process lipid A metabolic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process lipooligosaccharide biosynthetic process metabolic process cellular process phosphorus metabolic process lipid metabolic process lipid X metabolic process amino sugar metabolic process	-
G	Rubisco LSMT substrate-binding domain-containing protein	-	-	-
F	Glucose-6-phosphate 1-epimerase	binding carbohydrate binding isomerase activity racemase and epimerase activity racemase and epimerase activity, acting on carbohydrates and derivatives glucose-6-phosphate 1-epimerase activity catalytic activity	carbohydrate metabolic process primary metabolic process metabolic process cellular process	-
E	DNA-directed RNA polymerase subunit	-	-	-
D	DNA-directed RNA polymerase subunit beta''	DNA binding binding nucleic acid binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding DNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity DNA binding binding nucleic acid binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding DNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process metabolic process cellular process macromolecule metabolic process	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure plastid organelle cytoplasm intracellular membrane-bounded organelle chloroplast
C	DNA-directed RNA polymerase subunit beta C-terminal section	DNA binding binding nucleic acid binding ribonucleoside binding nucleoside binding heterocyclic compound binding carbohydrate derivative binding small molecule binding DNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity DNA binding binding nucleic acid binding ribonucleoside binding nucleoside binding heterocyclic compound binding carbohydrate derivative binding small molecule binding DNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process metabolic process cellular process macromolecule metabolic process	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure plastid organelle cytoplasm intracellular membrane-bounded organelle chloroplast
B	DNA-directed RNA polymerase subunit beta N-terminal section	DNA binding binding nucleic acid binding ribonucleoside binding nucleoside binding heterocyclic compound binding carbohydrate derivative binding small molecule binding DNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity DNA binding binding nucleic acid binding ribonucleoside binding nucleoside binding heterocyclic compound binding carbohydrate derivative binding small molecule binding DNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process metabolic process cellular process macromolecule metabolic process	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure plastid organelle cytoplasm intracellular membrane-bounded organelle chloroplast
R [auth X], S [auth Y]	Uncharacterized protein	catalytic activity	biosynthetic process small molecule biosynthetic process oxoacid metabolic process carboxylic acid metabolic process small molecule metabolic process metabolic process cellular process carboxylic acid biosynthetic process	-
Q [auth T]	Uncharacterized protein	-	-	-
P [auth S]	Uncharacterized protein	-	-	-
O [auth R]	S1 motif domain-containing protein	RNA binding binding nucleic acid binding	-	membrane-bounded organelle protein-containing complex intracellular anatomical structure catalytic complex plastid transferase complex intracellular membrane-bounded organelle plastid-encoded plastid RNA polymerase complex transferase complex, transferring phosphorus-containing groups intracellular organelle cellular anatomical structure organelle RNA polymerase complex DNA-directed RNA polymerase complex membrane-bounded organelle protein-containing complex intracellular anatomical structure catalytic complex plastid transferase complex intracellular membrane-bounded organelle plastid-encoded plastid RNA polymerase complex transferase complex, transferring phosphorus-containing groups intracellular organelle cellular anatomical structure organelle RNA polymerase complex DNA-directed RNA polymerase complex cytoplasm intracellular protein-containing complex
N [auth Q]	Coenzyme Q-binding protein COQ10 START domain-containing protein	-	-	-
M [auth N]	Mur ligase central domain-containing protein	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding catalytic activity ligase activity acid-amino acid ligase activity ligase activity, forming carbon-nitrogen bonds	-	-
L [auth M]	Uncharacterized protein A0A2K3D3G3	-	cellular component organization organelle organization cellular process cellular component organization or biogenesis mitochondrion organization RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process cellular component organization organelle organization cellular process cellular component organization or biogenesis mitochondrion organization RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process biosynthetic process metabolic process RNA processing macromolecule metabolic process	-
K	SAP domain-containing protein	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding cation binding metal ion binding	-	-
A, T [auth Z]	DNA-directed RNA polymerase	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
H, I	IPR004463	UDP-3-O-acyl N-acetylglucosamine deacetylase	Family
H, I	IPR020568	Ribosomal protein uS5 domain 2-type superfamily	Homologous Superfamily
H, I	IPR015870	UDP-3-O-acyl N-acetylglucosamine deacetylase, N-terminal	Homologous Superfamily
H, I	IPR011334	UDP-3-O-acyl N-acetylglucosamine deacetylase, C-terminal	Homologous Superfamily
G	IPR046341	SET domain superfamily	Homologous Superfamily
F	IPR014718	Glycoside hydrolase-type carbohydrate-binding	Homologous Superfamily
F	IPR011013	Galactose mutarotase-like domain superfamily	Homologous Superfamily
D	IPR007066	RNA polymerase Rpb1, domain 3	Domain
D	IPR007081	RNA polymerase Rpb1, domain 5	Domain
D	IPR045867	DNA-directed RNA polymerase, subunit beta-prime	Family
D	IPR007083	RNA polymerase Rpb1, domain 4	Domain
D	IPR038120	RNA polymerase Rpb1, funnel domain superfamily	Homologous Superfamily
D	IPR012756	DNA-directed RNA polymerase, subunit beta''	Family
D	IPR042102	RNA polymerase Rpb1, domain 3 superfamily	Homologous Superfamily
C	IPR015712	DNA-directed RNA polymerase, subunit 2	Family
C	IPR037033	DNA-directed RNA polymerase, subunit 2, hybrid-binding domain superfamily	Homologous Superfamily
C	IPR014724	RNA polymerase Rpb2, OB-fold	Homologous Superfamily
C	IPR007120	DNA-directed RNA polymerase, subunit 2, hybrid-binding domain	Domain
C	IPR007641	RNA polymerase Rpb2, domain 7	Domain
C	IPR007121	RNA polymerase, beta subunit, conserved site	Conserved Site
B	IPR007642	RNA polymerase Rpb2, domain 2	Domain
B	IPR015712	DNA-directed RNA polymerase, subunit 2	Family
B	IPR007644	RNA polymerase, beta subunit, protrusion	Domain
B	IPR007645	RNA polymerase Rpb2, domain 3	Domain
R [auth X], S [auth Y]	IPR050571	Class-IV Pyridoxal-Phosphate-Dependent Aminotransferase	Family
R [auth X], S [auth Y]	IPR043132	Branched-chain-amino-acid aminotransferase-like, C-terminal	Homologous Superfamily
R [auth X], S [auth Y]	IPR043131	Branched-chain-amino-acid aminotransferase-like, N-terminal	Homologous Superfamily
R [auth X], S [auth Y]	IPR001544	Aminotransferase class IV	Family
R [auth X], S [auth Y]	IPR036038	Aminotransferase-like, PLP-dependent enzymes	Homologous Superfamily
O [auth R]	IPR003029	S1 domain	Domain
O [auth R]	IPR012340	Nucleic acid-binding, OB-fold	Homologous Superfamily
O [auth R]	IPR044967	Protein PLASTID TRANSCRIPTIONALLY ACTIVE 10	Family
N [auth Q]	IPR047137	Polyketide cyclase/dehydrase-like ORF3	Family
N [auth Q]	IPR023393	START-like domain superfamily	Homologous Superfamily
M [auth N]	IPR036615	Mur ligase, C-terminal domain superfamily	Homologous Superfamily
M [auth N]	IPR004101	Mur ligase, C-terminal	Domain
M [auth N]	IPR013221	Mur ligase, central	Domain
M [auth N]	IPR035911	MurE/MurF, N-terminal	Homologous Superfamily
M [auth N]	IPR036565	Mur-like, catalytic domain superfamily	Homologous Superfamily
L [auth M]	IPR051114	Mitochondrial RNA Processing CCM1	Family
L [auth M]	IPR011990	Tetratricopeptide-like helical domain superfamily	Homologous Superfamily
K	IPR011761	ATP-grasp fold	Domain
K	IPR003034	SAP domain	Domain
K	IPR036361	SAP domain superfamily	Homologous Superfamily