8WAS

Structure of transcribing complex 9 (TC9), the initially transcribing complex with Pol II positioned 9nt downstream of TSS.

External Resource: Annotation


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
B [auth 1]SCOP2B SuperfamilyBSD domain-like8039783 3001039 SCOP2B (2021-05-27)
D [auth 3]SCOP2B SuperfamilyvWA-like8054198 3000832 SCOP2B (2021-05-27)
T [auth L]SCOP2B SuperfamilyCore histone-like8042408 3001387 SCOP2B (2021-05-27)
YA [auth l]SCOP2B SuperfamilyCore histone-like8042408 3001387 SCOP2B (2021-05-27)
BA [auth V]SCOP2B SuperfamilyWinged helix DNA-binding domain8003067 3000034 SCOP2B (2021-05-27)
A [auth 0]SCOP2B SuperfamilyRING/U-box like8039298 3000160 SCOP2B (2021-05-27)
TA [auth d]SCOP2B SuperfamilyCore histone-like8042407 3001387 SCOP2B (2021-05-27)
M [auth D]SCOP2B SuperfamilyCore histone-like8042407 3001387 SCOP2B (2021-05-27)
N [auth E]SCOP2B SuperfamilyTaf5 N-terminal domain-like8034920 3001495 SCOP2B (2021-05-27)
UA [auth e]SCOP2B SuperfamilyTaf5 N-terminal domain-like8034920 3001495 SCOP2B (2021-05-27)
O [auth F]SCOP2B SuperfamilyCore histone-like8081687 3001387 SCOP2B (2021-05-27)
VA [auth f]SCOP2B SuperfamilyCore histone-like8081687 3001387 SCOP2B (2021-05-27)
P [auth G]SCOP2B SuperfamilyRap30/74 heterodimerisation domain-like8054049 3000142 SCOP2B (2021-05-27)
Q [auth H]SCOP2B SuperfamilyCore histone-like8053232 3001387 SCOP2B (2021-05-27)
XA [auth j]SCOP2B SuperfamilyCore histone-like8053233 3001387 SCOP2B (2021-05-27)
S [auth J]SCOP2B SuperfamilyCore histone-like8053233 3001387 SCOP2B (2021-05-27)
U [auth O]SCOP2B SuperfamilyTranscription factor IIA (TFIIA) beta-barrel domain8037007 3001281 SCOP2B (2021-05-27)
U [auth O]SCOP2B SuperfamilyTranscription factor IIA (TFIIA) alpha-helical domain8037005 3001887 SCOP2B (2021-05-27)
V [auth P]SCOP2B SuperfamilyTATA-box binding protein-like8036293 3000705 SCOP2B (2021-05-27)
V [auth P]SCOP2B SuperfamilyTATA-box binding protein-like8036295 3000705 SCOP2B (2021-05-27)
W [auth Q]SCOP2B SuperfamilyTranscription factor IIA (TFIIA) beta-barrel domain8037002 3001281 SCOP2B (2021-05-27)
W [auth Q]SCOP2B SuperfamilyTranscription factor IIA (TFIIA) alpha-helical domain8037001 3001887 SCOP2B (2021-05-27)
X [auth R]SCOP2B SuperfamilyCyclin-like8043880 3000768 SCOP2B (2021-05-27)
X [auth R]SCOP2B SuperfamilyCyclin-like8043882 3000768 SCOP2B (2021-05-27)
Y [auth S]SCOP2B SuperfamilyRap30/74 heterodimerisation domain-like8003556 3000142 SCOP2B (2021-05-27)
Z [auth T]SCOP2B SuperfamilyWinged helix DNA-binding domain8003005 3000034 SCOP2B (2021-05-27)
Z [auth T]SCOP2B SuperfamilyRap30/74 heterodimerisation domain-like8003550 3000142 SCOP2B (2021-05-27)
AA [auth U]SCOP2B SuperfamilyZinc beta-ribbon8043056 3001238 SCOP2B (2021-05-27)
C [auth 2]SCOP2B SuperfamilyvWA-like8057086 3000832 SCOP2B (2021-05-27)
C [auth 2]SCOP2B SuperfamilyCysteine-rich domain8033482 3001452 SCOP2B (2021-05-27)
EA [auth c]SCOP2B SuperfamilyCore histone-like8086844 3001387 SCOP2B (2021-05-27)
FA [auth k]SCOP2B SuperfamilyCore histone-like8036824 3001387 SCOP2B (2021-05-27)
GA [auth m]SCOP2B SuperfamilyCore histone-like8036818 3001387 SCOP2B (2021-05-27)
KA [auth r]SCOP2B SuperfamilyHRDC-like8103054 3000132 SCOP2B (2021-05-27)
MA [auth t]SCOP2B SuperfamilyRPB6/omega subunit-like8103072 3000189 SCOP2B (2021-05-27)
RA [auth y]SCOP2B SuperfamilyRBP11-like subunits of RNA polymerase8080728 3001655 SCOP2B (2021-05-27)
SA [auth z]SCOP2B SuperfamilyRNA polymerase subunits8103068 3001823 SCOP2B (2021-05-27)
F [auth 5]SCOP2B SuperfamilyTFB5-like8034306 3000733 SCOP2B (2021-05-27)
G [auth 6]SCOP2B SuperfamilyRecA-like P-loop NTPases8054245 3002019 SCOP2B (2021-05-27)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
D [auth 3]PF03850Transcription factor Tfb4 (Tfb4)Transcription factor Tfb4This family appears to be distantly related to the VWA domain.Domain
T [auth L],
YA [auth l]		PF03847Transcription initiation factor TFIID subunit A (TFIID_20kDa)Transcription initiation factor TFIID subunit A- Domain
BA [auth V]PF18121TFA2 Winged helix domain 2 (TFA2_Winged_2)TFA2 Winged helix domain 2This is the second winged helix domain can be found in TFA2 proteins present in Saccharomyces cerevisiae. In form 2, the domain interacts directly with Rad3, a DNA helicase [1].Domain
BA [auth V]PF03870RNA polymerase Rpb8 (RNA_pol_Rpb8)RNA polymerase Rpb8- Family
A [auth 0]PF17121Zinc finger, C3HC4 type (RING finger) (zf-C3HC4_5)Zinc finger, C3HC4 type (RING finger)- Domain
A [auth 0]PF06391CDK-activating kinase assembly factor MAT1 (MAT1)CDK-activating kinase assembly factor MAT1- Family
K [auth A]PF12157Protein of unknown function (DUF3591) (DUF3591)Protein of unknown function (DUF3591)- Family
N [auth E],
UA [auth e]		PF04494WD40 associated region in TFIID subunit, NTD2 domain (TFIID_NTD2)WD40 associated region in TFIID subunit, NTD2 domain- Family
N [auth E],
UA [auth e]		PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
O [auth F],
VA [auth f]		PF07571TAF6 C-terminal HEAT repeat domain (TAF6_C)TAF6 C-terminal HEAT repeat domain- Repeat
O [auth F],
VA [auth f]		PF02969TATA box binding protein associated factor (TAF) (TAF)TATA box binding protein associated factor (TAF)TAF proteins adopt a histone-like fold.Domain
P [auth G]PF04658TAFII55 protein conserved region (TAFII55_N)TAFII55 protein conserved region- Family
Q [auth H]PF07524Bromodomain associated (Bromo_TP)Bromodomain associatedThis domain is predicted to bind DNA [1] and is often found associated with Pfam:PF00439 and in transcription factors. It has a histone-like fold.Domain
Q [auth H]PF10406Transcription factor TFIID complex subunit 8 C-term (TAF8_C)Transcription factor TFIID complex subunit 8 C-termThis is the C-terminal, Delta, part of the TAF8 protein [1]. The N-terminal is generally the histone fold domain, Bromo_TP (Pfam:PF07524). TAF8 is one of the key subunits of the transcription factor for pol II, TFIID. TAF8 is one of the several gener ...This is the C-terminal, Delta, part of the TAF8 protein [1]. The N-terminal is generally the histone fold domain, Bromo_TP (Pfam:PF07524). TAF8 is one of the key subunits of the transcription factor for pol II, TFIID. TAF8 is one of the several general cofactors which are typically involved in gene activation to bring about the communication between gene-specific transcription factors and components of the general transcription machinery [2].
Domain
S [auth J],
XA [auth j]		PF03540Transcription initiation factor TFIID 23-30kDa subunit (TFIID_30kDa)Transcription initiation factor TFIID 23-30kDa subunit- Family
U [auth O]PF02751Transcription initiation factor IIA, gamma subunit (TFIIA_gamma_C)Transcription initiation factor IIA, gamma subunitAccurate transcription in vivo requires at least six general transcription initiation factors, in addition to RNA polymerase II. Transcription initiation factor IIA (TFIIA) is a multimeric protein which facilitates the binding of TFIID to the TATA b ...Accurate transcription in vivo requires at least six general transcription initiation factors, in addition to RNA polymerase II. Transcription initiation factor IIA (TFIIA) is a multimeric protein which facilitates the binding of TFIID to the TATA box. The C-terminal domain of the gamma subunit is a 12 stranded beta-barrel.
Domain
U [auth O]PF02268Transcription initiation factor IIA, gamma subunit, helical domain (TFIIA_gamma_N)Transcription initiation factor IIA, gamma subunit, helical domainAccurate transcription in vivo requires at least six general transcription initiation factors, in addition to RNA polymerase II. Transcription initiation factor IIA (TFIIA) is a multimeric protein which facilitates the binding of TFIID to the TATA ...Accurate transcription in vivo requires at least six general transcription initiation factors, in addition to RNA polymerase II. Transcription initiation factor IIA (TFIIA) is a multimeric protein which facilitates the binding of TFIID to the TATA box. The N-terminal domain of the gamma subunit is a 4 helix bundle.
Domain
U [auth O]PF04997RNA polymerase Rpb1, domain 1 (RNA_pol_Rpb1_1)RNA polymerase Rpb1, domain 1RNA 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
V [auth P]PF04561RNA polymerase Rpb2, domain 2 (RNA_pol_Rpb2_2)RNA polymerase Rpb2, domain 2RNA 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 ...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 polymerase. This domain forms one of the two distinctive lobes of the Rpb2 structure. This domain is also known as the lobe domain [1]. DNA has been demonstrated to bind to the concave surface of the lobe domain, and plays a role in maintaining the transcription bubble [1]. Many of the bacterial members contain large insertions within this domain, as region known as dispensable region 1 (DRI).
Domain
V [auth P]PF04563RNA polymerase beta subunit (RNA_pol_Rpb2_1)RNA polymerase beta subunit- Family
V [auth P]PF00352Transcription factor TFIID (or TATA-binding protein, TBP) (TBP)Transcription factor TFIID (or TATA-binding protein, TBP)- Domain
W [auth Q]PF03153Transcription factor IIA, alpha/beta subunit (TFIIA)Transcription factor IIA, alpha/beta subunit- Family
W [auth Q]PF01193RNA polymerase Rpb3/Rpb11 dimerisation domain (RNA_pol_L)RNA polymerase Rpb3/Rpb11 dimerisation domainThe 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
W [auth Q]PF01000RNA polymerase Rpb3/RpoA insert domain (RNA_pol_A_bac)RNA polymerase Rpb3/RpoA insert domainMembers of this family include: alpha subunit from eubacteria alpha subunits from chloroplasts Rpb3 subunits from eukaryotes RpoD subunits from archaealDomain
X [auth R]PF00382Transcription factor TFIIB repeat (TFIIB)Transcription factor TFIIB repeat- Domain
X [auth R]PF03874RNA polymerase Rpb4 (RNA_pol_Rpb4)RNA polymerase Rpb4- Family
Y [auth S]PF01191RNA polymerase Rpb5, C-terminal domain (RNA_pol_Rpb5_C)RNA polymerase Rpb5, C-terminal domainThe assembly domain of Rpb5 [1]. The archaeal equivalent to this domain is subunit H. Subunit H lacks the N-terminal domain.Domain
Y [auth S]PF03871RNA polymerase Rpb5, N-terminal domain (RNA_pol_Rpb5_N)RNA polymerase Rpb5, N-terminal domainRpb5 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 ...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 pol II structure [3]. This module is important for positioning the downstream DNA.
Domain
Z [auth T]PF02270TFIIF, beta subunit HTH domain (TFIIF_beta)TFIIF, beta subunit HTH domainAccurate transcription in vivo requires at least six general transcription initiation factors, in addition to RNA polymerase II. Transcription initiation factor IIF (TFIIF) is a tetramer of two beta subunits associate with two alpha subunits which ...Accurate transcription in vivo requires at least six general transcription initiation factors, in addition to RNA polymerase II. Transcription initiation factor IIF (TFIIF) is a tetramer of two beta subunits associate with two alpha subunits which interacts directly with RNA polymerase II. The beta subunit of TFIIF is required for recruitment of RNA polymerase II onto the promoter.
Domain
Z [auth T]PF01192RNA polymerase Rpb6 (RNA_pol_Rpb6)RNA polymerase Rpb6- Family
Z [auth T]PF17683TFIIF, beta subunit N-terminus (TFIIF_beta_N)TFIIF, beta subunit N-terminus- Family
AA [auth U]PF08271TFIIB zinc-binding (TF_Zn_Ribbon)TFIIB zinc-bindingThe 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 ...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 ribbon like structure [1].
Domain
AA [auth U]PF02002TFIIE alpha subunit (TFIIE_alpha)TFIIE alpha subunit- Family
AA [auth U]PF03876SHS2 domain found in N terminus of Rpb7p/Rpc25p/MJ0397 (SHS2_Rpb7-N)SHS2 domain found in N terminus of Rpb7p/Rpc25p/MJ0397Rpb7 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 ...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 least one of the subunits contacted by the transcription factor TIF-IA [2]. The N terminus of Rpb7p/Rpc25p/MJ0397 has a SHS2 domain that is involved in protein-protein interaction [3].
Domain
AA [auth U]PF00575S1 RNA binding domain (S1)S1 RNA binding domainThe 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
CA [auth X]PF01194RNA polymerases N / 8 kDa subunit (RNA_pol_N)RNA polymerases N / 8 kDa subunit- Domain
C [auth 2]PF04056Ssl1-like (Ssl1)Ssl1-like- Family
C [auth 2]PF07975TFIIH C1-like domain (C1_4)TFIIH C1-like domainThe carboxyl-terminal region of TFIIH is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD ...The carboxyl-terminal region of TFIIH is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C (Pfam:PF00130) [1].
Domain
DA [auth Y]PF13656RNA polymerase Rpb3/Rpb11 dimerisation domain (RNA_pol_L_2)RNA polymerase Rpb3/Rpb11 dimerisation domainThe 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. Many of the members of this family carry only the N-terminal region of Rpb11.
Domain
E [auth 4]PF03849Transcription factor Tfb2 (Tfb2)Transcription factor Tfb2- Family
E [auth 4]PF18307Transcription factor Tfb2 (p52) C-terminal domain (Tfb2_C)Transcription factor Tfb2 (p52) C-terminal domainThis is the C-terminal domain of Transcription factor Tfb2 present in Saccharomyces cerevisiae. Tfb2 is referred to as p52 in humans. The interaction between p8-Tfb5 and p52-Tfb2 has a key role in the maintenance of the transcription factor TFIIH arc ...This is the C-terminal domain of Transcription factor Tfb2 present in Saccharomyces cerevisiae. Tfb2 is referred to as p52 in humans. The interaction between p8-Tfb5 and p52-Tfb2 has a key role in the maintenance of the transcription factor TFIIH architecture and TFIIHs function in nucleotide-excision repair (NER) pathway. The C-terminal domain of Tfb2 is thought to have a crucial role in DNA repair [1].
Domain
G [auth 6]PF13625Helicase conserved C-terminal domain (Helicase_C_3)Helicase conserved C-terminal domainThis domain family is found in a wide variety of helicases and helicase-related proteins.Domain
G [auth 6]PF04851Type III restriction enzyme, res subunit (ResIII)Type III restriction enzyme, res subunit- Family
G [auth 6]PF16203ERCC3/RAD25/XPB C-terminal helicase (ERCC3_RAD25_C)ERCC3/RAD25/XPB C-terminal helicaseThis is the C-terminal helicase domain of ERCC3, RAD25 and XPB helicases [1].Domain
H [auth 7]PF13307Helicase C-terminal domain (Helicase_C_2)Helicase C-terminal domainThis domain is found at the C-terminus of DEAD-box helicases.Domain
H [auth 7]PF06733DEAD_2 (DEAD_2)DEAD_2- Family
H [auth 7]PF06777Helical and beta-bridge domain (HBB)Helical and beta-bridge domainHBB is the domain on DEAD-box eukaryotic DNA repair helicases (EC:3.6.1.-) that appears to be a unique fold. It's conformation is of alpha-helices 12-16 plus a short beta-bridge to the FeS-cluster domain at the N-terminal. The full-length XPD protein ...HBB is the domain on DEAD-box eukaryotic DNA repair helicases (EC:3.6.1.-) that appears to be a unique fold. It's conformation is of alpha-helices 12-16 plus a short beta-bridge to the FeS-cluster domain at the N-terminal. The full-length XPD protein verifies the presence of damage to DNA and allows DNA repair to proceed. XPD is an assembly of several domains to form a doughnut-shaped molecule that is able to separate two DNA strands and scan the DNA for damage. HBB helps to form the overall DNA-clamping architecture [1]. This family represents a conserved region within a number of eukaryotic DNA repair helicases (EC:3.6.1.-).
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
B [auth 1]General transcription factor IIH subunit 1
D [auth 3]General transcription factor IIH subunit 3
T [auth L],
YA [auth l]		Transcription initiation factor TFIID subunit 12
BA [auth V]Transcription initiation factor IIE subunit beta
A [auth 0]CDK-activating kinase assembly factor MAT1
J [auth Z]RNA---
K [auth A]Transcription initiation factor TFIID subunit 1
L [auth B]Transcription initiation factor TFIID subunit 2
M [auth D],
TA [auth d]		Transcription initiation factor TFIID subunit 4
N [auth E],
UA [auth e]		Transcription initiation factor TFIID subunit 5
O [auth F],
VA [auth f]		Transcription initiation factor TFIID subunit 6
P [auth G]Transcription initiation factor TFIID subunit 7
Q [auth H]Transcription initiation factor TFIID subunit 8
R [auth I],
WA [auth i]		Transcription initiation factor TFIID subunit 9
S [auth J],
XA [auth j]		Transcription initiation factor TFIID subunit 10
U [auth O]Transcription initiation factor IIA subunit 2
V [auth P]TATA-box-binding protein
W [auth Q]Transcription initiation factor IIA beta chain
X [auth R]Transcription initiation factor IIB
Y [auth S]General transcription factor IIF subunit 1
Z [auth T]General transcription factor IIF subunit 2
AA [auth U]General transcription factor IIE subunit 1
CA [auth X]non-template DNA---
C [auth 2]General transcription factor IIH subunit 2
DA [auth Y]template DNA---
EA [auth c]Transcription initiation factor TFIID subunit 3
FA [auth k]Transcription initiation factor TFIID subunit 11
GA [auth m]Transcription initiation factor TFIID subunit 13
HA [auth o]DNA-directed RNA polymerase subunit -
IA [auth p]DNA-directed RNA polymerase subunit beta -
JA [auth q]DNA-directed RNA polymerase II subunit RPB3 -
KA [auth r]DNA-directed RNA polymerase II subunit RPB4
LA [auth s]DNA-directed RNA polymerase II subunit E -
MA [auth t]DNA-directed RNA polymerase II subunit F
NA [auth u]DNA-directed RNA polymerase II subunit RPB7
OA [auth v]DNA-directed RNA polymerases I, II, and III subunit RPABC3 -
PA [auth w]DNA-directed RNA polymerase II subunit RPB9
QA [auth x]DNA-directed RNA polymerases I, II, and III subunit RPABC5
RA [auth y]DNA-directed RNA polymerase II subunit RPB11-a -
SA [auth z]RPB12 -
E [auth 4]General transcription factor IIH subunit 4
F [auth 5]General transcription factor IIH subunit 5-
G [auth 6]General transcription and DNA repair factor IIH helicase subunit XPB
H [auth 7]General transcription and DNA repair factor IIH helicase subunit XPD
I [auth N]Alpha-amanitin - -

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
B [auth 1]IPR013876TFIIH p62 subunit, N-terminalDomain
B [auth 1]IPR035925BSD domain superfamilyHomologous Superfamily
B [auth 1]IPR027079TFIIH subunit Tfb1/GTF2H1Family
B [auth 1]IPR011993PH-like domain superfamilyHomologous Superfamily
B [auth 1]IPR005607BSD domainDomain
D [auth 3]IPR004600TFIIH subunit Tfb4/GTF2H3Family
D [auth 3]IPR036465von Willebrand factor A-like domain superfamilyHomologous Superfamily
T [auth L],
YA [auth l]		IPR009072Histone-foldHomologous Superfamily
T [auth L],
YA [auth l]		IPR037794Transcription initiation factor TFIID subunit 12Family
T [auth L],
YA [auth l]		IPR003228Transcription initiation factor TFIID subunit 12 domainDomain
BA [auth V]IPR036388Winged helix-like DNA-binding domain superfamilyHomologous Superfamily
BA [auth V]IPR003166Transcription factor TFIIE beta subunit, DNA-binding domainDomain
BA [auth V]IPR036390Winged helix DNA-binding domain superfamilyHomologous Superfamily
BA [auth V]IPR040501TFA2, Winged helix domain 2Domain
BA [auth V]IPR016656Transcription initiation factor TFIIE, beta subunitFamily
A [auth 0]IPR017907Zinc finger, RING-type, conserved siteConserved Site
A [auth 0]IPR004575Cdk-activating kinase assembly factor MAT1/Tfb3Family
A [auth 0]IPR013083Zinc finger, RING/FYVE/PHD-typeHomologous Superfamily
A [auth 0]IPR015877Cdk-activating kinase assembly factor MAT1, centreDomain
A [auth 0]IPR003903Ubiquitin interacting motifConserved Site
A [auth 0]IPR001841Zinc finger, RING-typeDomain
K [auth A]IPR018359Bromodomain, conserved siteConserved Site
K [auth A]IPR009067TAFII-230 TBP-bindingDomain
K [auth A]IPR022591Transcription initiation factor TFIID subunit 1, histone acetyltransferase domainDomain
K [auth A]IPR036427Bromodomain-like superfamilyHomologous Superfamily
K [auth A]IPR040240Transcription initiation factor TFIID subunit 1Family
K [auth A]IPR001487BromodomainDomain
K [auth A]IPR041670Zinc knuckleDomain
K [auth A]IPR011177Transcription initiation factor TFIID subunit 1, animalFamily
K [auth A]IPR036741TAFII-230 TBP-binding domain superfamilyHomologous Superfamily
L [auth B]IPR016024Armadillo-type foldHomologous Superfamily
L [auth B]IPR027268Peptidase M4/M1, CTD superfamilyHomologous Superfamily
L [auth B]IPR037813Transcription initiation factor TFIID subunit 2Family
L [auth B]IPR042097Aminopeptidase N-like , N-terminal domain superfamliyHomologous Superfamily
M [auth D],
TA [auth d]		IPR003894TAFH/NHR1Domain
M [auth D],
TA [auth d]		IPR007900Transcription initiation factor TFIID component TAF4, C-terminalDomain
M [auth D],
TA [auth d]		IPR009072Histone-foldHomologous Superfamily
M [auth D],
TA [auth d]		IPR045144Transcription initiation factor TFIID component TAF4Family
M [auth D],
TA [auth d]		IPR037249TAFH/NHR1 domain superfamilyHomologous Superfamily
N [auth E],
UA [auth e]		IPR007582TFIID subunit TAF5, NTD2 domainDomain
N [auth E],
UA [auth e]		IPR019775WD40 repeat, conserved siteConserved Site
N [auth E],
UA [auth e]		IPR037264TFIID subunit TAF5, NTD2 domain superfamilyHomologous Superfamily
N [auth E],
UA [auth e]		IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
N [auth E],
UA [auth e]		IPR001680WD40 repeatRepeat
N [auth E],
UA [auth e]		IPR020472G-protein beta WD-40 repeatRepeat
N [auth E],
UA [auth e]		IPR006594LIS1 homology motifConserved Site
N [auth E],
UA [auth e]		IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
O [auth F],
VA [auth f]		IPR011442TAF6, C-terminal HEAT repeat domainDomain
O [auth F],
VA [auth f]		IPR016024Armadillo-type foldHomologous Superfamily
O [auth F],
VA [auth f]		IPR009072Histone-foldHomologous Superfamily
O [auth F],
VA [auth f]		IPR037796Transcription initiation factor TFIID subunit 6Family
O [auth F],
VA [auth f]		IPR046344TAF6, C-terminal HEAT repeat domain superfamilyHomologous Superfamily
O [auth F],
VA [auth f]		IPR004823TATA box binding protein associated factor (TAF), histone-like fold domainDomain
P [auth G]IPR006751TAFII55 protein, conserved regionDomain
P [auth G]IPR037817Transcription initiation factor TFIID subunit 7Family
Q [auth H]IPR009072Histone-foldHomologous Superfamily
Q [auth H]IPR037818Transcription initiation factor TFIID subunit 8Family
Q [auth H]IPR006565Bromodomain associated domainDomain
Q [auth H]IPR019473Transcription factor TFIID, subunit 8, C-terminalDomain
R [auth I],
WA [auth i]		IPR009072Histone-foldHomologous Superfamily
R [auth I],
WA [auth i]		IPR003162Transcription initiation factor TAFII31Family
S [auth J],
XA [auth j]		IPR003923Transcription initiation factor TFIID, 23-30kDa subunitFamily
U [auth O]IPR015871Transcription initiation factor IIA, gamma subunit, C-terminalDomain
U [auth O]IPR015872Transcription initiation factor IIA, gamma subunit, N-terminalDomain
U [auth O]IPR009083Transcription factor IIA, alpha-helical domainHomologous Superfamily
U [auth O]IPR009088Transcription factor IIA, beta-barrelHomologous Superfamily
U [auth O]IPR003194Transcription initiation factor IIA, gamma subunitFamily
V [auth P]IPR030491TATA-box binding protein, conserved siteConserved Site
V [auth P]IPR000814TATA-box binding proteinFamily
V [auth P]IPR012295TBP domain superfamilyHomologous Superfamily
V [auth P]IPR033710TATA-box binding protein, eukaryoticFamily
W [auth Q]IPR004855Transcription factor IIA, alpha/beta subunitFamily
W [auth Q]IPR009088Transcription factor IIA, beta-barrelHomologous Superfamily
X [auth R]IPR000812Transcription factor TFIIBFamily
X [auth R]IPR013137Zinc finger, TFIIB-typeDomain
X [auth R]IPR023486Transcription factor TFIIB, conserved siteConserved Site
X [auth R]IPR013150Transcription factor TFIIB, cyclin-like domainDomain
X [auth R]IPR036915Cyclin-like superfamilyHomologous Superfamily
X [auth R]IPR013763Cyclin-like domainDomain
Y [auth S]IPR008851Transcription initiation factor IIF, alpha subunitFamily
Y [auth S]IPR036388Winged helix-like DNA-binding domain superfamilyHomologous Superfamily
Y [auth S]IPR036390Winged helix DNA-binding domain superfamilyHomologous Superfamily
Y [auth S]IPR011039Transcription Factor IIF, Rap30/Rap74, interactionHomologous Superfamily
Z [auth T]IPR003196Transcription initiation factor IIF, beta subunitFamily
Z [auth T]IPR036388Winged helix-like DNA-binding domain superfamilyHomologous Superfamily
Z [auth T]IPR036390Winged helix DNA-binding domain superfamilyHomologous Superfamily
Z [auth T]IPR040450TFIIF beta subunit, HTH domainDomain
Z [auth T]IPR040504TFIIF, beta subunit, N-terminalDomain
Z [auth T]IPR011039Transcription Factor IIF, Rap30/Rap74, interactionHomologous Superfamily
AA [auth U]IPR021600Transcription factor TFIIE alpha subunit, C-terminalDomain
AA [auth U]IPR024550TFIIEalpha/SarR/Rpc3 HTH domainDomain
AA [auth U]IPR013083Zinc finger, RING/FYVE/PHD-typeHomologous Superfamily
AA [auth U]IPR013137Zinc finger, TFIIB-typeDomain
AA [auth U]IPR039997Transcription factor EFamily
AA [auth U]IPR017919Transcription factor TFE/TFIIEalpha HTH domainDomain
AA [auth U]IPR002853Transcription initiation factor IIE subunit alpha, N-terminalDomain
C [auth 2]IPR007198Ssl1-likeDomain
C [auth 2]IPR012170TFIIH subunit Ssl1/p44Family
C [auth 2]IPR004595TFIIH C1-like domainDomain
C [auth 2]IPR013087Zinc finger C2H2-typeDomain
C [auth 2]IPR036465von Willebrand factor A-like domain superfamilyHomologous Superfamily
C [auth 2]IPR013083Zinc finger, RING/FYVE/PHD-typeHomologous Superfamily
C [auth 2]IPR002035von Willebrand factor, type ADomain
C [auth 2]IPR046349C1-like domain superfamilyHomologous Superfamily
EA [auth c]IPR009072Histone-foldHomologous Superfamily
EA [auth c]IPR001965Zinc finger, PHD-typeDomain
EA [auth c]IPR006565Bromodomain associated domainDomain
EA [auth c]IPR013083Zinc finger, RING/FYVE/PHD-typeHomologous Superfamily
EA [auth c]IPR019787Zinc finger, PHD-fingerDomain
EA [auth c]IPR011011Zinc finger, FYVE/PHD-typeHomologous Superfamily
EA [auth c]IPR019786Zinc finger, PHD-type, conserved siteConserved Site
FA [auth k]IPR009072Histone-foldHomologous Superfamily
FA [auth k]IPR045127Transcription initiation factor TFIID subunit 11-likeFamily
FA [auth k]IPR006809TAFII28-like protein domainDomain
GA [auth m]IPR009072Histone-foldHomologous Superfamily
GA [auth m]IPR003195Transcription initiation factor IID, subunit 13Family
HA [auth o]IPR007066RNA polymerase Rpb1, domain 3Domain
HA [auth o]IPR007081RNA polymerase Rpb1, domain 5Domain
HA [auth o]IPR007073RNA polymerase Rpb1, domain 7Domain
HA [auth o]IPR045867DNA-directed RNA polymerase, subunit beta-primeFamily
HA [auth o]IPR042102RNA polymerase Rpb1, domain 3 superfamilyHomologous Superfamily
HA [auth o]IPR007075RNA polymerase Rpb1, domain 6Domain
HA [auth o]IPR000684RNA polymerase II, heptapeptide repeat, eukaryoticRepeat
HA [auth o]IPR007083RNA polymerase Rpb1, domain 4Domain
HA [auth o]IPR038593RNA polymerase Rpb1, domain 7 superfamilyHomologous Superfamily
HA [auth o]IPR000722RNA polymerase, alpha subunitDomain
HA [auth o]IPR044893RNA polymerase Rpb1, clamp domain superfamilyHomologous Superfamily
HA [auth o]IPR038120RNA polymerase Rpb1, funnel domain superfamilyHomologous Superfamily
HA [auth o]IPR006592RNA polymerase, N-terminalDomain
HA [auth o]IPR007080RNA polymerase Rpb1, domain 1Domain
IA [auth p]IPR007642RNA polymerase Rpb2, domain 2Domain
IA [auth p]IPR015712DNA-directed RNA polymerase, subunit 2Family
IA [auth p]IPR037033DNA-directed RNA polymerase, subunit 2, hybrid-binding domain superfamilyHomologous Superfamily
IA [auth p]IPR037034RNA polymerase Rpb2, domain 2 superfamilyHomologous Superfamily
IA [auth p]IPR007120DNA-directed RNA polymerase, subunit 2, hybrid-binding domainDomain
IA [auth p]IPR007121RNA polymerase, beta subunit, conserved siteConserved Site
IA [auth p]IPR007645RNA polymerase Rpb2, domain 3Domain
IA [auth p]IPR007646RNA polymerase Rpb2, domain 4Domain
IA [auth p]IPR007647RNA polymerase Rpb2, domain 5Domain
IA [auth p]IPR014724RNA polymerase Rpb2, OB-foldHomologous Superfamily
IA [auth p]IPR007644RNA polymerase, beta subunit, protrusionDomain
IA [auth p]IPR007641RNA polymerase Rpb2, domain 7Domain
JA [auth q]IPR011262DNA-directed RNA polymerase, insert domainDomain
JA [auth q]IPR011263DNA-directed RNA polymerase, RpoA/D/Rpb3-typeDomain
JA [auth q]IPR036643DNA-directed RNA polymerase, insert domain superfamilyHomologous Superfamily
JA [auth q]IPR022842DNA-directed RNA polymerase subunit Rpo3/Rpb3/RPAC1Family
JA [auth q]IPR001514DNA-directed RNA polymerase, 30-40kDa subunit, conserved siteConserved Site
JA [auth q]IPR036603RNA polymerase, RBP11-like subunitHomologous Superfamily
KA [auth r]IPR005574RNA polymerase subunit Rpb4/RPC9Family
KA [auth r]IPR010997HRDC-like superfamilyHomologous Superfamily
KA [auth r]IPR006590RNA polymerase Rpb4/RPC9, coreDomain
KA [auth r]IPR038324Rpb4/RPC9 superfamilyHomologous Superfamily
KA [auth r]IPR045222DNA-directed RNA polymerase II subunit Rpb4-likeFamily
LA [auth s]IPR014381DNA-directed RNA polymerase subunit Rpo5/Rpb5Family
LA [auth s]IPR036710RNA polymerase Rpb5, N-terminal domain superfamilyHomologous Superfamily
LA [auth s]IPR035913RPB5-like RNA polymerase subunit superfamilyHomologous Superfamily
LA [auth s]IPR000783RNA polymerase, subunit H/Rpb5 C-terminalDomain
LA [auth s]IPR020608RNA polymerase, subunit H/Rpb5, conserved siteConserved Site
LA [auth s]IPR005571RNA polymerase, Rpb5, N-terminalDomain
MA [auth t]IPR020708DNA-directed RNA polymerase, 14-18kDa subunit, conserved siteConserved Site
MA [auth t]IPR028363DNA-directed RNA polymerase, subunit RPB6Family
MA [auth t]IPR006110RNA polymerase, subunit omega/Rpo6/RPB6Family
MA [auth t]IPR036161RPB6/omega subunit-like superfamilyHomologous Superfamily
MA [auth t]IPR006111Archaeal Rpo6/eukaryotic RPB6 RNA polymerase subunitFamily
NA [auth u]IPR003029S1 domainDomain
NA [auth u]IPR045113RNA polymerase subunit Rpb7-likeFamily
NA [auth u]IPR005576RNA polymerase Rpb7-like , N-terminalDomain
NA [auth u]IPR036898RNA polymerase Rpb7-like, N-terminal domain superfamilyHomologous Superfamily
NA [auth u]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
OA [auth v]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
OA [auth v]IPR005570DNA-directed RNA polymerases I, II, and III subunit RPABC3Family
PA [auth w]IPR012164DNA-directed RNA polymerase subunit/transcription factor SFamily
PA [auth w]IPR001222Zinc finger, TFIIS-typeDomain
PA [auth w]IPR034012Pol II subunit B9, C-terminal zinc ribbonDomain
PA [auth w]IPR019761DNA-directed RNA polymerase M, 15kDa subunit, conserved siteConserved Site
PA [auth w]IPR001529DNA-directed RNA polymerase, M/15kDa subunitDomain
QA [auth x]IPR023580RNA polymerase subunit RPB10Homologous Superfamily
QA [auth x]IPR020789RNA polymerases, subunit N, zinc binding siteBinding Site
QA [auth x]IPR000268DNA-directed RNA polymerase subunit RPABC5/Rpb10Family
RA [auth y]IPR022905DNA-directed RNA polymerase subunit Rpo11-likeFamily
RA [auth y]IPR009025DNA-directed RNA polymerase, RBP11-like dimerisation domainDomain
RA [auth y]IPR036603RNA polymerase, RBP11-like subunitHomologous Superfamily
RA [auth y]IPR008193DNA-directed RNA polymerase Rpb11, 13-16kDa subunit, conserved siteConserved Site
RA [auth y]IPR037685RNA polymerase RBP11Family
SA [auth z]IPR006591RNA polymerase archaeal subunit P/eukaryotic subunit RPABC4Family
SA [auth z]IPR029040RNA polymerase subunit RPABC4/transcription elongation factor Spt4Homologous Superfamily
SA [auth z]IPR039747DNA-directed RNA polymerases I, II, and III subunit RPABC4Family
E [auth 4]IPR040662Transcription factor Tfb2, C-terminal domainDomain
E [auth 4]IPR004598Transcription factor TFIIH subunit p52/Tfb2Family
F [auth 5]IPR009400TFIIH subunit TTDA/Tfb5Family
F [auth 5]IPR035935TFB5-like superfamilyHomologous Superfamily
G [auth 6]IPR032830Helicase XPB/Ssl2, N-terminal domainDomain
G [auth 6]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
G [auth 6]IPR006935Helicase/UvrB, N-terminalDomain
G [auth 6]IPR001650Helicase, C-terminal domain-likeDomain
G [auth 6]IPR014001Helicase superfamily 1/2, ATP-binding domainDomain
G [auth 6]IPR032438ERCC3/RAD25/XPB helicase, C-terminal domainDomain
G [auth 6]IPR001161Helicase XPB/Ssl2Family
H [auth 7]IPR001945RAD3/XPD familyFamily
H [auth 7]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
H [auth 7]IPR006554Helicase-like, DEXD box c2 typeDomain
H [auth 7]IPR010614RAD3-like helicase, DEADDomain
H [auth 7]IPR013020ATP-dependent helicase Rad3/Chl1-likeFamily
H [auth 7]IPR010643Helical and beta-bridge domainDomain
H [auth 7]IPR045028Helicase superfamily 1/2, DinG/Rad3-likeFamily
H [auth 7]IPR002464DNA/RNA helicase, ATP-dependent, DEAH-box type, conserved siteConserved Site
H [auth 7]IPR006555ATP-dependent helicase, C-terminalDomain
H [auth 7]IPR014013Helicase superfamily 1/2, ATP-binding domain, DinG/Rad3-typeDomain

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
B [auth 1]Pharos:  P32780
D [auth 3]Pharos:  Q13889
T [auth L],
YA [auth l]		Pharos:  Q16514
BA [auth V]Pharos:  P29084
A [auth 0]Pharos:  P51948
K [auth A]Pharos:  P21675
L [auth B]Pharos:  Q6P1X5
M [auth D],
TA [auth d]		Pharos:  O00268
N [auth E],
UA [auth e]		Pharos:  Q15542
O [auth F],
VA [auth f]		Pharos:  P49848
P [auth G]Pharos:  Q15545
Q [auth H]Pharos:  Q7Z7C8
R [auth I],
WA [auth i]		Pharos:  Q16594
S [auth J],
XA [auth j]		Pharos:  Q12962
U [auth O]Pharos:  P52657
V [auth P]Pharos:  P20226
W [auth Q]Pharos:  P52655
X [auth R]Pharos:  Q00403
Z [auth T]Pharos:  P13984
AA [auth U]Pharos:  P29083
EA [auth c]Pharos:  Q5VWG9
FA [auth k]Pharos:  Q15544
GA [auth m]Pharos:  Q15543
E [auth 4]Pharos:  Q92759
F [auth 5]Pharos:  Q6ZYL4
G [auth 6]Pharos:  P19447
H [auth 7]Pharos:  P18074

Protein Modification Annotation

Modified Residue(s)
ChainResidue(s)Description
J [auth Z]ATP
J [auth Z]G2L Parent Component: G

I [auth N]CSX Parent Component: CYS

RESID:  AA0451

PSI-MOD :  2'-(S-L-cysteinyl)-6'-hydroxy-L-tryptophan sulfoxide MOD:01380
I [auth N]HYP Parent Component: PRO

RESID:  AA0451 , AA0030

PSI-MOD :  2'-(S-L-cysteinyl)-6'-hydroxy-L-tryptophan sulfoxide MOD:01380 , 4-hydroxy-L-proline MOD:00039
I [auth N]ILX Parent Component: ILE

RESID:  AA0451 , AA0030 , AA0449

PSI-MOD :  2'-(S-L-cysteinyl)-6'-hydroxy-L-tryptophan sulfoxide MOD:01380 , 4-hydroxy-L-proline MOD:00039 , (2S,3R,4R)-4,5-dihydroxyisoleucine MOD:01378
I [auth N]TRX Parent Component: TRP

RESID:  AA0451 , AA0030 , AA0449