7UIF
Mediator-PIC Early (Core B)
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
A | SCOP2B Superfamily | Two-barrel nucleic acid polymerases | 8042682 | 3001330 | SCOP2B (2021-05-27) |
B | SCOP2B Superfamily | Two-barrel nucleic acid polymerases | 8042684 | 3001330 | SCOP2B (2021-05-27) |
B | SCOP2B Superfamily | Two-barrel nucleic acid polymerases | 8042684 | 3001330 | SCOP2B (2021-05-27) |
C | SCOP2B Superfamily | RBP11-like subunits of RNA polymerase | 8042685 | 3001655 | SCOP2B (2021-05-27) |
C | SCOP2B Superfamily | Insert subdomain of RNA polymerase alpha subunit | 8042687 | 3001500 | SCOP2B (2021-05-27) |
C | SCOP2B Superfamily | RBP11-like subunits of RNA polymerase | 8042685 | 3001655 | SCOP2B (2021-05-27) |
D | SCOP2B Superfamily | HRDC-like | 8044250 | 3000132 | SCOP2B (2021-05-27) |
E | SCOP2B Superfamily | RPB5-like RNA polymerase subunit | 8035939 | 3001722 | SCOP2B (2021-05-27) |
E | SCOP2B Superfamily | Eukaryotic RPB5 N-terminal domain | 8044454 | 3000444 | SCOP2B (2021-05-27) |
F | SCOP2B Superfamily | RPB6/omega subunit-like | 8042688 | 3000189 | SCOP2B (2021-05-27) |
G | SCOP2B Superfamily | N-terminal heterodimerisation domain of RBP7 (RpoE) | 8044252 | 3001137 | SCOP2B (2021-05-27) |
G | SCOP2B Superfamily | Nucleic acid-binding proteins | 8044251 | 3000135 | SCOP2B (2021-05-27) |
H | SCOP2B Superfamily | RBP8/CHS5 N-terminal domain-like | 8093392 | 3002702 | SCOP2B (2021-05-27) |
H | SCOP2B Superfamily | RBP8/CHS5 N-terminal domain-like | 8041967 | 3002702 | SCOP2B (2021-05-27) |
I | SCOP2B Superfamily | Zinc beta-ribbon | 8042690 | 3001238 | SCOP2B (2021-05-27) |
I | SCOP2B Superfamily | Zinc beta-ribbon | 8042689 | 3001238 | SCOP2B (2021-05-27) |
J | SCOP2B Superfamily | RNA polymerase subunit RPB10 | 8042692 | 3001213 | SCOP2B (2021-05-27) |
K | SCOP2B Superfamily | RBP11-like subunits of RNA polymerase | 8042694 | 3001655 | SCOP2B (2021-05-27) |
L | SCOP2B Superfamily | RNA polymerase subunits | 8042695 | 3001823 | SCOP2B (2021-05-27) |
P [auth S] | SCOP2B Superfamily | Elongation factor TFIIS domain 2 | 8036681 | 3001247 | SCOP2B (2021-05-27) |
S [auth f] | SCOP2B Superfamily | Mediator of RNA polymerase II transcription subunit 6 | 8091511 | 3002516 | SCOP2B (2021-05-27) |
T [auth g] | SCOP2B Superfamily | Mediator subcomplex-like | 8034652 | 3001613 | SCOP2B (2021-05-27) |
X [auth k] | SCOP2B Superfamily | Mediator subcomplex-like | 8051777 | 3001613 | SCOP2B (2021-05-27) |
Z [auth q] | SCOP2B Superfamily | Mediator of RNA polymerase II transcription subunit 17 | 8091516 | 3002517 | SCOP2B (2021-05-27) |
AA [auth r] | SCOP2B Superfamily | CYTH-like phosphatases | 8090011 | 3001426 | SCOP2B (2021-05-27) |
CA [auth t] | SCOP2B Superfamily | CYTH-like phosphatases | 8091513 | 3001426 | SCOP2B (2021-05-27) |
EA [auth v] | SCOP2B Superfamily | Mediator subcomplex-like | 8051778 | 3001613 | SCOP2B (2021-05-27) |
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A | PF00623 | e7uifA6 | A: beta barrels | X: cradle loop barrel | H: RIFT-related | T: double psi | F: PF00623 | ECOD (1.6) |
A | PF00623 | e7uifA9 | 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: PF00623 | ECOD (1.6) |
A | PF04990 | e7uifA1 | A: a+b two layers | X: permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit (From Topology) | H: permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit (From Topology) | T: permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit | F: PF04990 | ECOD (1.6) |
A | F_UNCLASSIFIED | e7uifA7 | A: a+b two layers | X: ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit (From Topology) | H: ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit (From Topology) | T: ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit | F: F_UNCLASSIFIED | ECOD (1.6) |
A | PF04997 | e7uifA8 | 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) |
A | PF04998 | e7uifA2 | 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) |
A | PF04992 | e7uifA3 | A: a+b complex topology | X: helical domain in yeast RNA-polymerases | H: third helical domain in yeast RNA-polymerase II beta-prime subunit (From Topology) | T: third helical domain in yeast RNA-polymerase II beta-prime subunit | F: PF04992 | ECOD (1.6) |
A | PF04998,PF05000 | e7uifA4 | 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) |
A | PF04983 | e7uifA5 | 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) |
B | PF00562 | e7uifB4 | A: beta barrels | X: cradle loop barrel | H: RIFT-related | T: double psi | F: PF00562 | ECOD (1.6) |
B | PF00562 | e7uifB6 | 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) |
B | PF04563,PF04565 | e7uifB5 | 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) |
B | PF04561 | e7uifB2 | 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) |
B | PF00562,PF04567 | e7uifB7 | 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: PF00562,PF04567 | ECOD (1.6) |
B | PF00562,PF04560 | e7uifB1 | 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) |
B | PF04566 | e7uifB3 | A: a+b complex topology | X: inserted a+b domain in yeast RNA polymerase beta subunit (From Topology) | H: inserted a+b domain in yeast RNA polymerase beta subunit (From Topology) | T: inserted a+b domain in yeast RNA polymerase beta subunit | F: PF04566 | ECOD (1.6) |
C | PF01193 | e7uifC2 | 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) |
C | PF01000 | e7uifC1 | 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) |
D | PF03874 | e7uifD1 | A: alpha arrays | X: HhH/H2TH | H: SAM/DNA-glycosylase | T: SAM domain-like | F: PF03874 | ECOD (1.6) |
E | PF01191 | e7uifE2 | A: a+b two layers | X: RPB5-like RNA polymerase subunit (From Topology) | H: RPB5-like RNA polymerase subunit (From Topology) | T: RPB5-like RNA polymerase subunit | F: PF01191 | ECOD (1.6) |
E | PF03871 | e7uifE1 | A: a/b three-layered sandwiches | X: Restriction endonuclease-like | H: Eukaryotic RPB5 N-terminal domain (From Topology) | T: Eukaryotic RPB5 N-terminal domain | F: PF03871 | ECOD (1.6) |
F | PF01192 | e7uifF1 | A: alpha arrays | X: RPB6/omega subunit-like (From Homology) | H: RPB6/omega subunit-like | T: RPB6 | F: PF01192 | ECOD (1.6) |
G | PF00575 | e7uifG1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF00575 | ECOD (1.6) |
G | PF03876 | e7uifG2 | A: a+b two layers | X: Dodecin subunit-like | H: Flavin-binding protein dodecin-like (From Topology) | T: Flavin-binding protein dodecin-like | F: PF03876 | ECOD (1.6) |
H | PF03870 | e7uifH1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF03870 | ECOD (1.6) |
I | PF01096 | e7uifI1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: PF01096 | ECOD (1.6) |
I | PF02150 | e7uifI2 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: PF02150 | ECOD (1.6) |
J | PF01194 | e7uifJ1 | A: alpha arrays | X: HTH | H: RPB10 (From Topology) | T: RPB10 | F: PF01194 | ECOD (1.6) |
K | PF13656 | e7uifK1 | 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: PF13656 | ECOD (1.6) |
L | PF03604 | e7uifL1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: PF03604 | ECOD (1.6) |
M | PF08271 | e7uifM1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: PF08271 | ECOD (1.6) |
N [auth P] | F_UNCLASSIFIED | e7uifP1 | A: beta complex topology | X: triple barrel (From Homology) | H: triple barrel | T: Rap30/74 interaction domains-like | F: F_UNCLASSIFIED | ECOD (1.6) |
O [auth Q] | PF17683 | e7uifQ1 | A: beta complex topology | X: triple barrel (From Homology) | H: triple barrel | T: Rap30/74 interaction domains-like | F: PF17683 | ECOD (1.6) |
P [auth S] | PF07500 | e7uifS2 | A: alpha arrays | X: RuvA-C | H: Elongation factor TFIIS domain 2/ Kix domain of creb binding protein (From Topology) | T: Elongation factor TFIIS domain 2/ Kix domain of creb binding protein | F: PF07500 | ECOD (1.6) |
P [auth S] | PF01096 | e7uifS1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: PF01096 | ECOD (1.6) |
S [auth f] | PF04934 | e7uiff1 | A: extended segments | X: Mediator of RNA polymerase II transcription subunit 6 (From Topology) | H: Mediator of RNA polymerase II transcription subunit 6 (From Topology) | T: Mediator of RNA polymerase II transcription subunit 6 | F: PF04934 | ECOD (1.6) |
T [auth g] | PF05983 | e7uifg2 | A: alpha duplicates or obligate multimers | X: Mediator hinge subcomplex-like (From Homology) | H: Mediator hinge subcomplex-like | T: MED7 hinge region | F: PF05983 | ECOD (1.6) |
T [auth g] | PF05983 | e7uifg1 | A: a+b complex topology | X: Mediator of RNA polymerase II transcription submodule Med7N/31 (From Topology) | H: Mediator of RNA polymerase II transcription submodule Med7N/31 (From Topology) | T: Mediator of RNA polymerase II transcription submodule Med7N/31 | F: PF05983 | ECOD (1.6) |
U [auth h] | PF10232 | e7uifh1 | A: a+b complex topology | X: Mediator of RNA polymerase II transcription subunit 8 (From Topology) | H: Mediator of RNA polymerase II transcription subunit 8 (From Topology) | T: Mediator of RNA polymerase II transcription subunit 8 | F: PF10232 | ECOD (1.6) |
X [auth k] | PF10280 | e7uifk1 | A: a+b complex topology | X: Mediator of RNA polymerase II transcription subunit 11 (From Topology) | H: Mediator of RNA polymerase II transcription subunit 11 (From Topology) | T: Mediator of RNA polymerase II transcription subunit 11 | F: PF10280 | ECOD (1.6) |
AA [auth r] | PF09637 | e7uifr1 | A: a+b complex topology | X: mRNA triphosphatase CET1-related (From Topology) | H: mRNA triphosphatase CET1-related (From Topology) | T: mRNA triphosphatase CET1-related | F: PF09637 | ECOD (1.6) |
CA [auth t] | PF08612 | e7uift1 | A: a+b complex topology | X: mRNA triphosphatase CET1-related (From Topology) | H: mRNA triphosphatase CET1-related (From Topology) | T: mRNA triphosphatase CET1-related | F: PF08612 | ECOD (1.6) |
DA [auth u] | PF11221 | e7uifu1 | A: alpha duplicates or obligate multimers | X: Mediator hinge subcomplex-like (From Homology) | H: Mediator hinge subcomplex-like | T: RNA polymerase II holoenzyme component SRB7 (MED21) | F: PF11221 | ECOD (1.6) |
EA [auth v] | PF06179 | e7uifv1 | A: a+b complex topology | X: Mediator of RNA polymerase II transcription subunit 22 (From Topology) | H: Mediator of RNA polymerase II transcription subunit 22 (From Topology) | T: Mediator of RNA polymerase II transcription subunit 22 | F: PF06179 | ECOD (1.6) |
FA [auth w] | PF05669 | e7uifw1 | A: a+b complex topology | X: Mediator of RNA polymerase II transcription submodule Med7N/31 (From Topology) | H: Mediator of RNA polymerase II transcription submodule Med7N/31 (From Topology) | T: Mediator of RNA polymerase II transcription submodule Med7N/31 | F: PF05669 | ECOD (1.6) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
A, GA [auth z] | 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 ... | Domain |
A, GA [auth z] | PF04990 | RNA polymerase Rpb1, domain 7 (RNA_pol_Rpb1_7) | RNA polymerase Rpb1, domain 7 | 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 7, represents a mobile modu ... | Domain |
A, GA [auth z] | 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 ... | Domain |
A, GA [auth z] | 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 ... | Domain |
A, GA [auth z] | PF04992 | RNA polymerase Rpb1, domain 6 (RNA_pol_Rpb1_6) | RNA polymerase Rpb1, domain 6 | 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 6, represents a mobile modu ... | Domain |
A, GA [auth z] | PF10744 | Mediator of RNA polymerase II transcription subunit 1 (Med1) | Mediator of RNA polymerase II transcription subunit 1 | Mediator complexes are basic necessities for linking transcriptional regulators to RNA polymerase II. This domain, Med1, is conserved from plants to fungi to humans and forms part of the Med9 submodule of the Srb/Med complex. it is one of three subu ... | Domain |
A, GA [auth z] | 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 ... | Domain |
A, GA [auth z] | 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 ... | Domain |
PF04561 | RNA polymerase Rpb2, domain 2 (RNA_pol_Rpb2_2) | RNA polymerase Rpb2, 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). Rpb2 is the second largest subunit of the RNA po ... | Domain | |
PF04560 | RNA polymerase Rpb2, domain 7 (RNA_pol_Rpb2_7) | RNA polymerase Rpb2, domain 7 | 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). Rpb2 is the second largest subunit of the RNA p ... | Domain | |
PF04565 | RNA polymerase Rpb2, domain 3 (RNA_pol_Rpb2_3) | RNA polymerase Rpb2, 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). Domain 3, s also known as the fork domain and is ... | Domain | |
PF04566 | RNA polymerase Rpb2, domain 4 (RNA_pol_Rpb2_4) | RNA polymerase Rpb2, 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). Domain 4, is also known as the external 2 domain ... | Domain | |
PF04563 | RNA polymerase beta subunit (RNA_pol_Rpb2_1) | RNA polymerase beta subunit | - | Family | |
PF00562 | RNA polymerase Rpb2, domain 6 (RNA_pol_Rpb2_6) | RNA polymerase Rpb2, domain 6 | 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 represents the hybrid binding domain ... | Domain | |
PF04567 | RNA polymerase Rpb2, domain 5 (RNA_pol_Rpb2_5) | RNA polymerase Rpb2, 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). Domain 5, is also known as the external 2 domain ... | Domain | |
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 ... | Domain | |
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 | |
PF10018 | Vitamin-D-receptor interacting Mediator subunit 4 (Med4) | Vitamin-D-receptor interacting Mediator subunit 4 | - | Family | |
PF03874 | RNA polymerase Rpb4 (RNA_pol_Rpb4) | RNA polymerase Rpb4 | - | Family | |
PF01191 | RNA polymerase Rpb5, C-terminal domain (RNA_pol_Rpb5_C) | RNA polymerase Rpb5, C-terminal domain | The assembly domain of Rpb5 [1]. The archaeal equivalent to this domain is subunit H. Subunit H lacks the N-terminal domain. | Domain | |
PF03871 | RNA polymerase Rpb5, N-terminal domain (RNA_pol_Rpb5_N) | RNA polymerase Rpb5, N-terminal domain | Rpb5 has a bipartite structure which includes a eukaryote-specific N-terminal domain and a C-terminal domain resembling the archaeal RNAP subunit H [1,2]. The N-terminal domain is involved in DNA binding and is part of the jaw module in the RNA p ... | Domain | |
PF01192 | RNA polymerase Rpb6 (RNA_pol_Rpb6) | RNA polymerase Rpb6 | - | Family | |
PF04934 | MED6 mediator sub complex component (Med6) | MED6 mediator sub complex component | - | Family | |
PF03876 | SHS2 domain found in N terminus of Rpb7p/Rpc25p/MJ0397 (SHS2_Rpb7-N) | SHS2 domain found in N terminus of Rpb7p/Rpc25p/MJ0397 | Rpb7 bind to Rpb4 to form a heterodimer. This complex is thought to interact with the nascent RNA strand during RNA polymerase II elongation[1]. This family includes the homologs from RNA polymerase I and III. In RNA polymerase I, Rpa43 is at leas ... | Domain | |
PF00575 | S1 RNA binding domain (S1) | S1 RNA binding domain | The S1 domain occurs in a wide range of RNA associated proteins. It is structurally similar to cold shock protein which binds nucleic acids. The S1 domain has an OB-fold structure. | Domain | |
PF10232 | Mediator of RNA polymerase II transcription complex subunit 8 (Med8) | Mediator of RNA polymerase II transcription complex subunit 8 | - | Family | |
PF03870 | RNA polymerase Rpb8 (RNA_pol_Rpb8) | RNA polymerase Rpb8 | - | Family | |
PF02150 | RNA polymerases M/15 Kd subunit (RNA_POL_M_15KD) | RNA polymerases M/15 Kd subunit | - | Domain | |
PF01096 | Transcription factor S-II (TFIIS) (TFIIS_C) | Transcription factor S-II (TFIIS) | - | Domain | |
PF07544 | RNA polymerase II transcription mediator complex subunit 9 (Med9) | RNA polymerase II transcription mediator complex subunit 9 | - | Family | |
PF01194 | RNA polymerases N / 8 kDa subunit (RNA_pol_N) | RNA polymerases N / 8 kDa subunit | - | Domain | |
PF09748 | Transcription factor subunit Med10 of Mediator complex (Med10) | Transcription factor subunit Med10 of Mediator complex | - | Family | |
PF10280 | Mediator complex protein (Med11) | Mediator complex protein | - | Family | |
PF13656 | RNA polymerase Rpb3/Rpb11 dimerisation domain (RNA_pol_L_2) | 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 ... | Domain | |
PF03604 | DNA directed RNA polymerase, 7 kDa subunit (DNA_RNApol_7kD) | DNA directed RNA polymerase, 7 kDa subunit | - | Domain | |
PF08271 | TFIIB zinc-binding (TF_Zn_Ribbon) | TFIIB zinc-binding | The transcription factor TFIIB contains a zinc-binding motif near the N-terminus. This domain is involved in the interaction with RNA pol II and TFIIF and plays a crucial role in selecting the transcription initiation site. The domain adopts a zinc ... | Domain | |
O [auth Q] | PF17683 | TFIIF, beta subunit N-terminus (TFIIF_beta_N) | TFIIF, beta subunit N-terminus | - | Family |
P [auth S] | PF01096 | Transcription factor S-II (TFIIS) (TFIIS_C) | Transcription factor S-II (TFIIS) | - | Domain |
P [auth S] | PF07500 | Transcription factor S-II (TFIIS), central domain (TFIIS_M) | Transcription factor S-II (TFIIS), central domain | Transcription elongation by RNA polymerase II is regulated by the general elongation factor TFIIS. This factor stimulates RNA polymerase II to transcribe through regions of DNA that promote the formation of stalled ternary complexes. TFIIS is comp ... | Domain |
P [auth S] | PF08633 | Rox3 mediator complex subunit (Rox3) | Rox3 mediator complex subunit | - | Family |