Annotations: 7D7D

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
H [auth K]	SCOP2B Superfamily	Phage late-transcription coactivator-like	8092998	3002656	SCOP2B (2022-06-29)
J [auth G]	SCOP2B Superfamily	DNA clamp	8036422	3000780	SCOP2B (2022-06-29)
J [auth G]	SCOP2B Superfamily	DNA clamp	8036423	3000780	SCOP2B (2022-06-29)
K [auth H]	SCOP2B Superfamily	DNA clamp	8036422	3000780	SCOP2B (2022-06-29)
K [auth H]	SCOP2B Superfamily	DNA clamp	8036423	3000780	SCOP2B (2022-06-29)
L [auth I]	SCOP2B Superfamily	DNA clamp	8036423	3000780	SCOP2B (2022-06-29)
L [auth I]	SCOP2B Superfamily	DNA clamp	8036422	3000780	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	PF01193	e7d7dA2	A: a+b two layers	X: DCoH-like	H: RBP11-like subunits of RNA polymerase (From Topology)	T: RBP11-like subunits of RNA polymerase	F: PF01193	ECOD (1.6)
A	PF01000	e7d7dA1	A: a+b complex topology	X: Ribosomal protein TL5/L25 C-terminal domain-like	H: Insert subdomain of RNA polymerase alpha subunit (From Topology)	T: Insert subdomain of RNA polymerase alpha subunit	F: PF01000	ECOD (1.6)
B	PF01193	e7d7dB1	A: a+b two layers	X: DCoH-like	H: RBP11-like subunits of RNA polymerase (From Topology)	T: RBP11-like subunits of RNA polymerase	F: PF01193	ECOD (1.6)
B	PF01000	e7d7dB2	A: a+b complex topology	X: Ribosomal protein TL5/L25 C-terminal domain-like	H: Insert subdomain of RNA polymerase alpha subunit (From Topology)	T: Insert subdomain of RNA polymerase alpha subunit	F: PF01000	ECOD (1.6)
C	PF00562	e7d7dC9	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: double psi	F: PF00562	ECOD (1.6)
C	F_UNCLASSIFIED	e7d7dC2	A: a+b two layers	X: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase (From Topology)	H: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase (From Topology)	T: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	F: F_UNCLASSIFIED	ECOD (1.6)
C	PF00562	e7d7dC3	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: PF00562	ECOD (1.6)
C	F_UNCLASSIFIED	e7d7dC1	A: a+b complex topology	X: Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit (From Topology)	H: Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit (From Topology)	T: Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit	F: F_UNCLASSIFIED	ECOD (1.6)
C	PF04563,PF04565	e7d7dC7	A: a+b complex topology	X: N-terminal domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	H: N-terminal domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	T: N-terminal domain in beta subunit of DNA dependent RNA-polymerase	F: PF04563,PF04565	ECOD (1.6)
C	PF04561	e7d7dC10	A: a+b complex topology	X: insertion domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	H: insertion domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	T: insertion domain in beta subunit of DNA dependent RNA-polymerase	F: PF04561	ECOD (1.6)
C	PF10385	e7d7dC8	A: a+b complex topology	X: barrel domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	H: barrel domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	T: barrel domain in beta subunit of DNA dependent RNA-polymerase	F: PF10385	ECOD (1.6)
C	PF00562,PF04560	e7d7dC5	A: a+b complex topology	X: C-terminal domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	H: C-terminal domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	T: C-terminal domain in beta subunit of DNA dependent RNA-polymerase	F: PF00562,PF04560	ECOD (1.6)
D	PF00623	e7d7dD3	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: double psi	F: PF00623	ECOD (1.6)
D	F_UNCLASSIFIED	e7d7dD8	A: a+b two layers	X: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase (From Topology)	H: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase (From Topology)	T: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	F: F_UNCLASSIFIED	ECOD (1.6)
D	F_UNCLASSIFIED	e7d7dD5	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: F_UNCLASSIFIED	ECOD (1.6)
D	PF04997	e7d7dD2	A: a+b complex topology	X: N-terminal domain in RNA-polymerase beta-prime subunit (From Topology)	H: N-terminal domain in RNA-polymerase beta-prime subunit (From Topology)	T: N-terminal domain in RNA-polymerase beta-prime subunit	F: PF04997	ECOD (1.6)
D	PF04998	e7d7dD1	A: a+b complex topology	X: central helical domain in RNA-polymerase beta-prime subunit (From Topology)	H: central helical domain in RNA-polymerase beta-prime subunit (From Topology)	T: central helical domain in RNA-polymerase beta-prime subunit	F: PF04998	ECOD (1.6)
D	PF04998,PF05000	e7d7dD4	A: a+b complex topology	X: second helical domain in RNA-polymerase beta-prime subunit (From Topology)	H: second helical domain in RNA-polymerase beta-prime subunit (From Topology)	T: second helical domain in RNA-polymerase beta-prime subunit	F: PF04998,PF05000	ECOD (1.6)
D	PF04983	e7d7dD7	A: a+b complex topology	X: first helical domain in RNA-polymerase beta-prime subunit (From Topology)	H: first helical domain in RNA-polymerase beta-prime subunit (From Topology)	T: first helical domain in RNA-polymerase beta-prime subunit	F: PF04983	ECOD (1.6)
H [auth K]	PF16805	e7d7dK1	A: alpha arrays	X: RNA polymerase-associated protein Gp33 (From Topology)	H: RNA polymerase-associated protein Gp33 (From Topology)	T: RNA polymerase-associated protein Gp33	F: PF16805	ECOD (1.6)
I [auth E]	PF01192	e7d7dE1	A: alpha arrays	X: RPB6/omega subunit-like (From Homology)	H: RPB6/omega subunit-like	T: RNA polymerase omega subunit	F: PF01192	ECOD (1.6)
J [auth G]	PF02916	e7d7dG2	A: a+b two layers	X: DNA clamp (From Topology)	H: DNA clamp (From Topology)	T: DNA clamp	F: PF02916	ECOD (1.6)
J [auth G]	PF09116	e7d7dG1	A: a+b two layers	X: DNA clamp (From Topology)	H: DNA clamp (From Topology)	T: DNA clamp	F: PF09116	ECOD (1.6)
K [auth H]	PF02916	e7d7dH1	A: a+b two layers	X: DNA clamp (From Topology)	H: DNA clamp (From Topology)	T: DNA clamp	F: PF02916	ECOD (1.6)
K [auth H]	PF09116	e7d7dH2	A: a+b two layers	X: DNA clamp (From Topology)	H: DNA clamp (From Topology)	T: DNA clamp	F: PF09116	ECOD (1.6)
L [auth I]	PF02916	e7d7dI1	A: a+b two layers	X: DNA clamp (From Topology)	H: DNA clamp (From Topology)	T: DNA clamp	F: PF02916	ECOD (1.6)
L [auth I]	PF09116	e7d7dI2	A: a+b two layers	X: DNA clamp (From Topology)	H: DNA clamp (From Topology)	T: DNA clamp	F: PF09116	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF01193	RNA polymerase Rpb3/Rpb11 dimerisation domain (RNA_pol_L)	RNA polymerase Rpb3/Rpb11 dimerisation domain	The two eukaryotic subunits Rpb3 and Rpb11 dimerise to from a platform onto which the other subunits of the RNA polymerase assemble (D/L in archaea). The prokaryotic equivalent of the Rpb3/Rpb11 platform is the alpha-alpha dimer. The dimerisation do ...	The two eukaryotic subunits Rpb3 and Rpb11 dimerise to from a platform onto which the other subunits of the RNA polymerase assemble (D/L in archaea). The prokaryotic equivalent of the Rpb3/Rpb11 platform is the alpha-alpha dimer. The dimerisation domain of the alpha subunit/Rpb3 is interrupted by an insert domain (Pfam:PF01000). Some of the alpha subunits also contain iron-sulphur binding domains (Pfam:PF00037). Rpb11 is found as a continuous domain. Members of this family include: alpha subunit from eubacteria, alpha subunits from chloroplasts, Rpb3 subunits from eukaryotes, Rpb11 subunits from eukaryotes, RpoD subunits from archaeal spp, and RpoL subunits from archaeal spp.	Domain
A, B	PF01000	RNA polymerase Rpb3/RpoA insert domain (RNA_pol_A_bac)	RNA polymerase Rpb3/RpoA insert domain	Members of this family include: alpha subunit from eubacteria alpha subunits from chloroplasts Rpb3 subunits from eukaryotes RpoD subunits from archaeal	Domain
D	PF00623	RNA polymerase Rpb1, domain 2 (RNA_pol_Rpb1_2)	RNA polymerase Rpb1, domain 2	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 2, contains the active site ...	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 2, contains the active site. The invariant motif -NADFDGD- binds the active site magnesium ion [1,2].	Domain
D	PF05000	RNA polymerase Rpb1, domain 4 (RNA_pol_Rpb1_4)	RNA polymerase Rpb1, domain 4	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 4, represents the funnel do ...	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 4, represents the funnel domain. The funnel contain the binding site for some elongation factors [1,2].	Domain
D	PF04983	RNA polymerase Rpb1, domain 3 (RNA_pol_Rpb1_3)	RNA polymerase Rpb1, domain 3	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 3, represents the pore doma ...	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 3, represents the pore domain. The 3' end of RNA is positioned close to this domain. The pore delimited by this domain is thought to act as a channel through which nucleotides enter the active site and/or where the 3' end of the RNA may be extruded during back-tracking [1,2].	Domain
D	PF04998	RNA polymerase Rpb1, domain 5 (RNA_pol_Rpb1_5)	RNA polymerase Rpb1, domain 5	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 5, represents the discontin ...	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 5, represents the discontinuous cleft domain that is required to from the central cleft or channel where the DNA is bound [1,2].	Domain
D	PF04997	RNA polymerase Rpb1, domain 1 (RNA_pol_Rpb1_1)	RNA polymerase Rpb1, domain 1	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 1, represents the clamp do ...	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 1, represents the clamp domain, which a mobile domain involved in positioning the DNA, maintenance of the transcription bubble and positioning of the nascent RNA strand [1,2].	Domain
H [auth K]	PF16805	Phage late-transcription coactivator (Trans_coact)	Phage late-transcription coactivator	This family of proteins is found in Caudovirales. It is a late-transcription coactivator which interacts with the host RNA polymerase forming a part of the initiation complex [1].	Domain
J [auth G], K [auth H], L [auth I]	PF09116	gp45 sliding clamp, C terminal (gp45-slide_C)	gp45 sliding clamp, C terminal	Members of this family are essential for the interaction of the gp45 sliding clamp with the corresponding polymerase. They adopt a DNA clamp fold, consisting of two alpha helices and two beta sheets - the fold is duplicated and has internal pseudo tw ...	Members of this family are essential for the interaction of the gp45 sliding clamp with the corresponding polymerase. They adopt a DNA clamp fold, consisting of two alpha helices and two beta sheets - the fold is duplicated and has internal pseudo two-fold symmetry [1].	Domain
J [auth G], K [auth H], L [auth I]	PF02916	DNA polymerase processivity factor (DNA_PPF)	DNA polymerase processivity factor	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	DNA-directed RNA polymerase subunit alpha	-	-	-
C	DNA-directed RNA polymerase subunit beta	-	-	-
D	DNA-directed RNA polymerase subunit beta'	-	-	-
E [auth T]	DNA (template strand)	-	-	-
F	gp55	-	-	-
G [auth N]	DNA (nontemplate strand)	-	-	-
H [auth K]	RNA polymerase-associated protein Gp33	molecular function activator activity molecular function regulator activity transcription regulator activator activity	viral gene expression late viral transcription viral process viral transcription	-
I [auth E]	DNA-directed RNA polymerase subunit omega	-	-	-
J [auth G], K [auth H], L [auth I]	DNA polymerase clamp	enzyme regulator activity DNA polymerase processivity factor activity enzyme activator activity molecular function activator activity molecular function regulator activity	nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA replication organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process viral gene expression viral process viral transcription cellular biosynthetic process viral life cycle nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA replication organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process viral gene expression viral process viral transcription cellular biosynthetic process viral life cycle nucleic acid biosynthetic process organic substance biosynthetic process bidirectional double-stranded viral DNA replication cellular metabolic process viral DNA genome replication nucleobase-containing compound biosynthetic process macromolecule biosynthetic process biosynthetic process viral genome replication organic cyclic compound biosynthetic process cellular process DNA biosynthetic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
H [auth K]	IPR042071	Phage late-transcription coactivator superfamily	Homologous Superfamily
H [auth K]	IPR046384	Late transcription coactivator, myovirus	Family
H [auth K]	IPR031836	Late transcription coactivator	Family
J [auth G], K [auth H], L [auth I]	IPR046938	DNA clamp superfamily	Homologous Superfamily
J [auth G], K [auth H], L [auth I]	IPR046389	Sliding clamp	Family
J [auth G], K [auth H], L [auth I]	IPR004190	DNA polymerase processivity factor	Domain
J [auth G], K [auth H], L [auth I]	IPR015200	Sliding clamp, C-terminal	Domain