7XTD
RNA polymerase II elongation complex transcribing a nucleosome (EC58oct)
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
D | SCOP2B Superfamily | HRDC-like | 8078369 | 3000132 | SCOP2B (2022-06-29) |
F | SCOP2B Superfamily | RPB6/omega subunit-like | 8078373 | 3000189 | SCOP2B (2022-06-29) |
M | SCOP2B Superfamily | Zinc beta-ribbon | 8097424 | 3001238 | SCOP2B (2022-06-29) |
J | SCOP2B Superfamily | RNA polymerase subunit RPB10 | 8063366 | 3001213 | SCOP2B (2022-06-29) |
K | SCOP2B Superfamily | RBP11-like subunits of RNA polymerase | 8080724 | 3001655 | SCOP2B (2022-06-29) |
L | SCOP2B Superfamily | RNA polymerase subunits | 8080893 | 3001823 | SCOP2B (2022-06-29) |
DA [auth e] | SCOP2B Superfamily | Core histone-like | 8070527 | 3001387 | SCOP2B (2022-06-29) |
AA [auth b] | SCOP2B Superfamily | Core histone-like | 8070545 | 3001387 | SCOP2B (2022-06-29) |
EA [auth f] | SCOP2B Superfamily | Core histone-like | 8070545 | 3001387 | SCOP2B (2022-06-29) |
BA [auth c] | SCOP2B Superfamily | Core histone-like | 8039342 | 3001387 | SCOP2B (2022-06-29) |
H | SCOP2B Superfamily | RBP8/CHS5 N-terminal domain-like | 8093395 | 3002702 | SCOP2B (2022-06-29) |
H | SCOP2B Superfamily | RBP8/CHS5 N-terminal domain-like | 8078385 | 3002702 | 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 | PF00623 | e7xtdA5 | A: beta barrels | X: cradle loop barrel | H: RIFT-related | T: double psi | F: PF00623 | ECOD (1.6) |
A | PF00623 | e7xtdA2 | 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 | e7xtdA1 | 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 | e7xtdA4 | 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 | e7xtdA3 | 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 | e7xtdA7 | 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 | e7xtdA9 | 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 | e7xtdA8 | 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 | e7xtdA6 | 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) |
D | PF03874 | e7xtdD1 | A: alpha arrays | X: HhH/H2TH | H: SAM/DNA-glycosylase | T: SAM domain-like | F: PF03874 | ECOD (1.6) |
E | PF01191 | e7xtdE2 | 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 | e7xtdE1 | 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 | e7xtdF1 | A: alpha arrays | X: RPB6/omega subunit-like (From Homology) | H: RPB6/omega subunit-like | T: RPB6 | F: PF01192 | ECOD (1.6) |
G | PF00575 | e7xtdG2 | 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 | e7xtdG1 | 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) |
M | PF05129 | e7xtdM1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: PF05129 | ECOD (1.6) |
Q [auth V] | PF06093 | e7xtdV1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: PF06093 | ECOD (1.6) |
T [auth n] | PF08711 | e7xtdn1 | A: alpha bundles | X: N-cbl like | H: Conserved domain common to transcription factors TFIIS, elongin A, CRSP70 (From Topology) | T: Conserved domain common to transcription factors TFIIS, elongin A, CRSP70 | F: PF08711 | ECOD (1.6) |
CA [auth d] | PF00125 | e7xtdd1 | A: alpha arrays | X: Histone-like | H: Histone-related | T: Histone | F: PF00125 | ECOD (1.6) |
GA [auth h] | PF00125 | e7xtdh1 | A: alpha arrays | X: Histone-like | H: Histone-related | T: Histone | F: PF00125 | ECOD (1.6) |
IA [auth k] | PF03531 | e7xtdk4 | A: beta barrels | X: PH domain-like | H: PH domain-like (From Topology) | T: PH domain-like | F: PF03531 | ECOD (1.6) |
IA [auth k] | PF08512 | e7xtdk3 | A: beta barrels | X: PH domain-like | H: PH domain-like (From Topology) | T: PH domain-like | F: PF08512 | ECOD (1.6) |
IA [auth k] | PF17292 | e7xtdk2 | A: beta barrels | X: PH domain-like | H: PH domain-like (From Topology) | T: PH domain-like | F: PF17292 | ECOD (1.6) |
IA [auth k] | PF21103 | e7xtdk1 | A: beta barrels | X: PH domain-like | H: PH domain-like (From Topology) | T: PH domain-like | F: PF21103 | ECOD (1.6) |
J | PF01194 | e7xtdJ1 | A: alpha arrays | X: HTH | H: RPB10 (From Topology) | T: RPB10 | F: PF01194 | ECOD (1.6) |
K | PF13656 | e7xtdK1 | 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 | e7xtdL1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: PF03604 | ECOD (1.6) |
B | PF00562 | e7xtdB1 | A: beta barrels | X: cradle loop barrel | H: RIFT-related | T: double psi | F: PF00562 | ECOD (1.6) |
B | PF00562 | e7xtdB5 | 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 | e7xtdB2 | 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 | e7xtdB6 | 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 | e7xtdB3 | 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 | e7xtdB4 | 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 | e7xtdB7 | 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) |
DA [auth e] | PF00125 | e7xtde1 | A: alpha arrays | X: Histone-like | H: Histone-related | T: Histone | F: PF00125 | ECOD (1.6) |
Z [auth a] | PF00125 | e7xtda1 | A: alpha arrays | X: Histone-like | H: Histone-related | T: Histone | F: PF00125 | ECOD (1.6) |
AA [auth b] | PF15511 | e7xtdb1 | A: alpha arrays | X: Histone-like | H: Histone-related | T: Histone | F: PF15511 | ECOD (1.6) |
EA [auth f] | PF15511 | e7xtdf1 | A: alpha arrays | X: Histone-like | H: Histone-related | T: Histone | F: PF15511 | ECOD (1.6) |
BA [auth c] | PF00125,PF16211 | e7xtdc1 | A: alpha arrays | X: Histone-like | H: Histone-related | T: Histone | F: PF00125,PF16211 | ECOD (1.6) |
FA [auth g] | PF00125 | e7xtdg1 | A: alpha arrays | X: Histone-like | H: Histone-related | T: Histone | F: PF00125 | ECOD (1.6) |
C | PF01193 | e7xtdC1 | 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 | e7xtdC2 | 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) |
H | PF03870 | e7xtdH1 | 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 | e7xtdI1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: PF01096 | ECOD (1.6) |
I | PF02150 | e7xtdI2 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: PF02150 | ECOD (1.6) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
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 | |
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 | |
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 | |
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 | |
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 | |
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 | |
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 | |
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 | |
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 | |
PF05129 | Transcription elongation factor Elf1 like (Elf1) | Transcription elongation factor Elf1 like | This family of short proteins contains a putative zinc binding domain with four conserved cysteines. Swiss:P36053 has been identified as a transcription elongation factor in Saccharomyces cerevisiae [1]. | Domain | |
Q [auth V] | PF06093 | Spt4/RpoE2 zinc finger (Spt4) | Spt4/RpoE2 zinc finger | This family consists of several eukaryotic transcription elongation Spt4 proteins as well as archaebacterial RpoE2 [2]. Three transcription-elongation factors Spt4, Spt5, and Spt6 are conserved among eukaryotes and are essential for transcription via ... | Domain |
R [auth W] | PF03439 | Early transcription elongation factor of RNA pol II, NGN section (Spt5-NGN) | Early transcription elongation factor of RNA pol II, NGN section | - | Family |
R [auth W] | PF11942 | Spt5 transcription elongation factor, acidic N-terminal (Spt5_N) | Spt5 transcription elongation factor, acidic N-terminal | This is the very acidic N-terminal region of the early transcription elongation factor Spt5 [1]. The Spt5-Spt4 complex regulates early transcription elongation by RNA polymerase II and has an imputed role in pre-mRNA processing via its physical assoc ... | Domain |
R [auth W] | PF00467 | KOW motif (KOW) | KOW motif | - | Family |
T [auth n] | PF08711 | TFIIS helical bundle-like domain (Med26) | TFIIS helical bundle-like domain | Mediator is a large complex of up to 33 proteins that is conserved from plants to fungi to humans - the number and representation of individual subunits varying with species {1-2]. It is arranged into four different sections, a core, a head, a tail a ... | Domain |
W [auth u] | PF04004 | Leo1-like protein (Leo1) | Leo1-like protein | - | Family |
X [auth v] | PF03985 | Paf1 (Paf1) | Paf1 | - | Family |
CA [auth d], GA [auth h] | PF00125 | Core histone H2A/H2B/H3/H4 (Histone) | Core histone H2A/H2B/H3/H4 | - | Domain |
IA [auth k] | PF21103 | SSRP1 PH domain (PH1_SSRP1-like) | SSRP1 PH domain | SSRP1 is a component of FACT (facilitator of chromatin transcription), an essential chromatin reorganizing factor. This entry represents the first of two PH-like domains in these proteins. | Domain |
IA [auth k] | PF03531 | Structure-specific recognition protein (SSRP1) (SSrecog) | Structure-specific recognition protein (SSRP1) | SSRP1 has been implicated in transcriptional initiation and elongation and in DNA replication and repair [1]. This domain belongs to the Pleckstrin homology fold superfamily. | Domain |
IA [auth k] | PF08512 | Histone chaperone Rttp106-like, middle domain (Rttp106-like_middle) | Histone chaperone Rttp106-like, middle domain | This Pleckstrin homology (PH) domain is found in the middle region of Rttp106, a histone chaperone involved in heterochromatin-mediated silencing [1]. It is also found in the final part of the middle domain of various FACT (facilitates chromatin tran ... | Domain |
IA [auth k] | PF17292 | POB3-like N-terminal PH domain (POB3_N) | POB3-like N-terminal PH domain | This domain is found at the N-terminus of POB3 and related proteins. | Domain |
PF01194 | RNA polymerases N / 8 kDa subunit (RNA_pol_N) | RNA polymerases N / 8 kDa subunit | - | 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 | |
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 | |
S [auth m] | PF14639 | Holliday-junction resolvase-like of SPT6 (YqgF) | Holliday-junction resolvase-like of SPT6 | The YqgF domain of SPT6 proteins is homologous to the E.coli RuvC [1] but its putative catalytic site lacks the carboxylate side chains critical for coordinating magnesium ions that mediate phosphodiester bond-cleavage [2] | Domain |
S [auth m] | PF14641 | Helix-turn-helix DNA-binding domain of SPT6 (HTH_44) | Helix-turn-helix DNA-binding domain of SPT6 | This helix-turn-helix represents the first of two DNA-binding domains on the SPT6 proteins. | Domain |
S [auth m] | PF21710 | Spt6, S1/OB domain (Spt6_S1) | Spt6, S1/OB domain | This entry represents the S1/OB-fold domain of Spt6. This domain has structural similarity to S1 domain but lacks the typical S1 binding cleft residues involved in nucleic acid binding [1], therefore, this domain in Spt6 may be involved in interacti ... | Domain |
S [auth m] | PF14633 | SH2 domain (SH2_2) | SH2 domain | - | Domain |
S [auth m] | PF14635 | Helix-hairpin-helix motif (HHH_7) | Helix-hairpin-helix motif | - | 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 | |
V [auth r] | PF03126 | Plus-3 domain (Plus-3) | Plus-3 domain | This domain is about 90 residues in length and is often found associated with the Pfam:PF02213 domain. The function of this domain is uncertain. It is possible that this domain is involved in DNA binding as it has three conserved positively charged ... | Domain |
DA [auth e], Z [auth a] | PF00125 | Core histone H2A/H2B/H3/H4 (Histone) | Core histone H2A/H2B/H3/H4 | - | Domain |
AA [auth b], EA [auth f] | PF15511 | Centromere kinetochore component CENP-T histone fold (CENP-T_C) | Centromere kinetochore component CENP-T histone fold | CENP-T is a family of vertebral kinetochore proteins that associates directly with CENP-W. The N-terminus of CENP-T proteins interacts directly with the Ndc80 complex in the outer kinetochore. Importantly, the CENP-T-W complex does not directly asso ... | Domain |
BA [auth c], FA [auth g] | PF16211 | C-terminus of histone H2A (Histone_H2A_C) | C-terminus of histone H2A | - | Family |
BA [auth c], FA [auth g] | PF00125 | Core histone H2A/H2B/H3/H4 (Histone) | Core histone H2A/H2B/H3/H4 | - | 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 | |
HA [auth j] | PF08644 | FACT complex subunit (SPT16/CDC68) (SPT16) | FACT complex subunit (SPT16/CDC68) | Proteins in this family are subunits the FACT complex. The FACT complex plays a role in transcription initiation and promotes binding of TATA-binding protein (TBP) to a TATA box in chromatin [2]. | Domain |
HA [auth j] | PF08512 | Histone chaperone Rttp106-like, middle domain (Rttp106-like_middle) | Histone chaperone Rttp106-like, middle domain | This Pleckstrin homology (PH) domain is found in the middle region of Rttp106, a histone chaperone involved in heterochromatin-mediated silencing [1]. It is also found in the final part of the middle domain of various FACT (facilitates chromatin tran ... | Domain |
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 |