5OLA

Structure of mitochondrial transcription elongation complex in complex with elongation factor TEFM

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	UNK_F_TYPE	e5olaA1	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: UNK_F_TYPE	ECOD (1.6)
B	UNK_F_TYPE	e5olaB1	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: UNK_F_TYPE	ECOD (1.6)
C	UNK_F_TYPE	e5olaC1	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: UNK_F_TYPE	ECOD (1.6)
D	UNK_F_TYPE	e5olaD1	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: UNK_F_TYPE	ECOD (1.6)
E	RPOL_N	e5olaE8	A: alpha arrays	X: HTH	H: HTH	T: HTH in T7 RNA polymerase	F: RPOL_N	ECOD (1.6)
E	RNA_pol_2nd	e5olaE6	A: alpha arrays	X: helical bundle in Bacillus stearothermophilus-like DNA polymerase I (From Topology)	H: helical bundle in Bacillus stearothermophilus-like DNA polymerase I (From Topology)	T: helical bundle in Bacillus stearothermophilus-like DNA polymerase I	F: RNA_pol_2nd	ECOD (1.6)
E	RNA_pol_1st	e5olaE2	A: alpha arrays	X: inserted helical bundle subdomain in T7 RNA polymerase (From Topology)	H: inserted helical bundle subdomain in T7 RNA polymerase (From Topology)	T: inserted helical bundle subdomain in T7 RNA polymerase	F: RNA_pol_1st	ECOD (1.6)
E	KOG1038,RPOL_N	e5olaE7	A: alpha bundles	X: fingers domain in bacteriophage RB69-like DNA polymerase I (From Topology)	H: fingers domain in bacteriophage RB69-like DNA polymerase I (From Topology)	T: fingers domain in bacteriophage RB69-like DNA polymerase I	F: KOG1038,RPOL_N	ECOD (1.6)
E	PPR_long	e5olaE3	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: PPR_long	ECOD (1.6)
E	RNA_pol_3rd	e5olaE5	A: a+b two layers	X: Alpha-beta plaits	H: Adenylyl and guanylyl cyclase catalytic domain-like	T: Adenylyl and guanylyl cyclase catalytic domain-like	F: RNA_pol_3rd	ECOD (1.6)
I [auth F]	RPOL_N	e5olaF8	A: alpha arrays	X: HTH	H: HTH	T: HTH in T7 RNA polymerase	F: RPOL_N	ECOD (1.6)
I [auth F]	RNA_pol_2nd	e5olaF4	A: alpha arrays	X: helical bundle in Bacillus stearothermophilus-like DNA polymerase I (From Topology)	H: helical bundle in Bacillus stearothermophilus-like DNA polymerase I (From Topology)	T: helical bundle in Bacillus stearothermophilus-like DNA polymerase I	F: RNA_pol_2nd	ECOD (1.6)
I [auth F]	RNA_pol_1st	e5olaF5	A: alpha arrays	X: inserted helical bundle subdomain in T7 RNA polymerase (From Topology)	H: inserted helical bundle subdomain in T7 RNA polymerase (From Topology)	T: inserted helical bundle subdomain in T7 RNA polymerase	F: RNA_pol_1st	ECOD (1.6)
I [auth F]	KOG1038,RPOL_N	e5olaF7	A: alpha bundles	X: fingers domain in bacteriophage RB69-like DNA polymerase I (From Topology)	H: fingers domain in bacteriophage RB69-like DNA polymerase I (From Topology)	T: fingers domain in bacteriophage RB69-like DNA polymerase I	F: KOG1038,RPOL_N	ECOD (1.6)
I [auth F]	PPR_long	e5olaF6	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: PPR_long	ECOD (1.6)
I [auth F]	RNA_pol_3rd	e5olaF1	A: a+b two layers	X: Alpha-beta plaits	H: Adenylyl and guanylyl cyclase catalytic domain-like	T: Adenylyl and guanylyl cyclase catalytic domain-like	F: RNA_pol_3rd	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
E, I [auth F]	PF14700	DNA-directed RNA polymerase N-terminal (RPOL_N)	DNA-directed RNA polymerase N-terminal	This is the N-terminal domain of DNA-directed RNA polymerase. This domain has a role in interaction with regions of upstream promoter DNA and the nascent RNA chain, leading to the processivity of the enzyme [1]. In order to make mRNA transcripts the ...	This is the N-terminal domain of DNA-directed RNA polymerase. This domain has a role in interaction with regions of upstream promoter DNA and the nascent RNA chain, leading to the processivity of the enzyme [1]. In order to make mRNA transcripts the RNA polymerase undergoes a transition from the initiation phase (which only makes short fragments of RNA) to an elongation phase. This domain undergoes a structural change in the transition from initiation to elongation phase. The structural change results in abolition of the promoter binding site, creation of a channel accommodating the heteroduplex in the active site and formation of an exit tunnel which the RNA transcript passes through after peeling off the heteroduplex [2].	Domain
E, I [auth F]	PF00940	DNA-dependent RNA polymerase (RNA_pol)	DNA-dependent RNA polymerase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Transcription elongation factor, mitochondrial	enzyme regulator activity DNA polymerase processivity factor activity enzyme activator activity molecular function activator activity molecular function regulator activity RNA binding binding organic cyclic compound binding nucleic acid binding	aerobic respiration cellular respiration oxidative phosphorylation energy derivation by oxidation of organic compounds cellular metabolic process metabolic process cellular process generation of precursor metabolites and energy cellular biosynthetic process RNA metabolic process primary metabolic process mitochondrial gene expression gene expression nucleobase-containing compound biosynthetic process aerobic respiration cellular respiration oxidative phosphorylation energy derivation by oxidation of organic compounds cellular metabolic process metabolic process cellular process generation of precursor metabolites and energy cellular biosynthetic process RNA metabolic process primary metabolic process mitochondrial gene expression gene expression nucleobase-containing compound biosynthetic process mitochondrial transcription macromolecule biosynthetic process nucleic acid metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process macromolecule metabolic process mitochondrial RNA metabolic process DNA-templated transcription elongation transcription elongation by mitochondrial RNA polymerase	membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle membrane-enclosed lumen nucleoid mitochondrial matrix intracellular organelle lumen organelle lumen intracellular non-membrane-bounded organelle membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle membrane-enclosed lumen nucleoid mitochondrial matrix intracellular organelle lumen organelle lumen intracellular non-membrane-bounded organelle mitochondrial nucleoid non-membrane-bounded organelle protein-containing complex ribonucleoprotein complex
E, I [auth F]	DNA-directed RNA polymerase, mitochondrial	DNA-directed 5'-3' 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 DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding binding DNA-directed 5'-3' 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 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 mitochondrial promoter sequence-specific DNA binding 3'-5'-RNA exonuclease activity RNA exonuclease activity, producing 5'-phosphomonoesters 3'-5' exonuclease activity RNA exonuclease activity RNA nuclease activity hydrolase activity exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters nuclease activity hydrolase activity, acting on ester bonds exonuclease activity DNA primase activity RNA binding	cellular biosynthetic process cellular metabolic process RNA metabolic process primary metabolic process mitochondrial gene expression gene expression nucleobase-containing compound biosynthetic process mitochondrial transcription macromolecule biosynthetic process nucleic acid metabolic process DNA-templated transcription initiation nucleobase-containing compound metabolic process RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process cellular biosynthetic process cellular metabolic process RNA metabolic process primary metabolic process mitochondrial gene expression gene expression nucleobase-containing compound biosynthetic process mitochondrial transcription macromolecule biosynthetic process nucleic acid metabolic process DNA-templated transcription initiation nucleobase-containing compound metabolic process RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process transcription initiation at mitochondrial promoter metabolic process cellular process macromolecule metabolic process mitochondrial RNA metabolic process	membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle mitochondrial protein-containing complex protein-containing complex catalytic complex transferase complex transferase complex, transferring phosphorus-containing groups RNA polymerase complex membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle mitochondrial protein-containing complex protein-containing complex catalytic complex transferase complex transferase complex, transferring phosphorus-containing groups RNA polymerase complex mitochondrial DNA-directed RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex membrane-enclosed lumen nucleoid mitochondrial matrix intracellular organelle lumen organelle lumen intracellular non-membrane-bounded organelle mitochondrial nucleoid non-membrane-bounded organelle
F [auth N], J [auth G]	DNA (5'-D(PAPTPGPGPTPGPTPAPAPCPGPCPCPAPGPAPCPGPAPAP*C)-3')	-	-	-
G [auth R], K [auth H]	RNA (5'-R(PGPCPGPGPCPGPCPGP*C)-3')	-	-	-
H [auth T], L [auth I]	DNA (30-MER)	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR036397	Ribonuclease H superfamily	Homologous Superfamily
A, B, C, D	IPR010994	RuvA domain 2-like	Homologous Superfamily
A, B, C, D	IPR039150	Transcription elongation factor, mitochondrial	Family
A, B, C, D	IPR012337	Ribonuclease H-like superfamily	Homologous Superfamily
E, I [auth F]	IPR029262	DNA-directed RNA polymerase, N-terminal	Domain
E, I [auth F]	IPR002092	DNA-directed RNA polymerase, phage-type	Family
E, I [auth F]	IPR011990	Tetratricopeptide-like helical domain superfamily	Homologous Superfamily
E, I [auth F]	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
E, I [auth F]	IPR046950	DNA-directed RNA polymerase, C-terminal domain, phage-type	Domain
E, I [auth F]	IPR037159	DNA-directed RNA polymerase, N-terminal domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D	Pharos: Q96QE5	breast carcinoma glioblastoma medulloblastoma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia cancer hepatocellular carcinoma osteosarcoma pancreatic intraductal papillary-mucinous carcinoma psoriasis cystic fibrosis large cell medulloblastoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm tuberculosis
E, I [auth F]	Pharos: O00411	osteosarcoma ovarian cancer

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.