Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

28JS

Cryo-EM structure of the human holo-TFIIH-XPC complex bound to bulky lesion-mimic DNA (composite map)

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000112	cellular_component	nucleotide-excision repair factor 3 complex
A	0000439	cellular_component	transcription factor TFIIH core complex
A	0003677	molecular_function	DNA binding
A	0003684	molecular_function	damaged DNA binding
A	0005515	molecular_function	protein binding
A	0005634	cellular_component	nucleus
A	0005654	cellular_component	nucleoplasm
A	0005669	cellular_component	transcription factor TFIID complex
A	0005675	cellular_component	transcription factor TFIIH holo complex
A	0006265	biological_process	DNA topological change
A	0006281	biological_process	DNA repair
A	0006283	biological_process	transcription-coupled nucleotide-excision repair
A	0006289	biological_process	nucleotide-excision repair
A	0006366	biological_process	transcription by RNA polymerase II
A	0006367	biological_process	transcription initiation at RNA polymerase II promoter
A	0006368	biological_process	transcription elongation by RNA polymerase II
A	0006915	biological_process	apoptotic process
A	0006979	biological_process	response to oxidative stress
A	0008104	biological_process	intracellular protein localization
A	0009411	biological_process	response to UV
A	0016887	molecular_function	ATP hydrolysis activity
A	0035315	biological_process	hair cell differentiation
A	0043065	biological_process	positive regulation of apoptotic process
A	0043138	molecular_function	3'-5' DNA helicase activity
A	0048568	biological_process	embryonic organ development
A	0097550	cellular_component	transcription preinitiation complex
A	1901990	biological_process	regulation of mitotic cell cycle phase transition
A	1990841	molecular_function	promoter-specific chromatin binding
B	0000439	cellular_component	transcription factor TFIIH core complex
B	0001666	biological_process	response to hypoxia
B	0003678	molecular_function	DNA helicase activity
B	0003684	molecular_function	damaged DNA binding
B	0005515	molecular_function	protein binding
B	0005634	cellular_component	nucleus
B	0005654	cellular_component	nucleoplasm
B	0005669	cellular_component	transcription factor TFIID complex
B	0005675	cellular_component	transcription factor TFIIH holo complex
B	0005737	cellular_component	cytoplasm
B	0005819	cellular_component	spindle
B	0006283	biological_process	transcription-coupled nucleotide-excision repair
B	0006289	biological_process	nucleotide-excision repair
B	0006357	biological_process	regulation of transcription by RNA polymerase II
B	0006366	biological_process	transcription by RNA polymerase II
B	0006367	biological_process	transcription initiation at RNA polymerase II promoter
B	0006915	biological_process	apoptotic process
B	0006979	biological_process	response to oxidative stress
B	0007059	biological_process	chromosome segregation
B	0016887	molecular_function	ATP hydrolysis activity
B	0030674	molecular_function	protein-macromolecule adaptor activity
B	0035315	biological_process	hair cell differentiation
B	0043139	molecular_function	5'-3' DNA helicase activity
B	0048568	biological_process	embryonic organ development
B	0070516	cellular_component	CAK-ERCC2 complex
B	0071817	cellular_component	MMXD complex
B	1901990	biological_process	regulation of mitotic cell cycle phase transition
C	0000079	biological_process	regulation of cyclin-dependent protein serine/threonine kinase activity
C	0000439	cellular_component	transcription factor TFIIH core complex
C	0005515	molecular_function	protein binding
C	0005634	cellular_component	nucleus
C	0005654	cellular_component	nucleoplasm
C	0005675	cellular_component	transcription factor TFIIH holo complex
C	0006281	biological_process	DNA repair
C	0006289	biological_process	nucleotide-excision repair
C	0006366	biological_process	transcription by RNA polymerase II
C	0006367	biological_process	transcription initiation at RNA polymerase II promoter
C	0009755	biological_process	hormone-mediated signaling pathway
C	0045893	biological_process	positive regulation of DNA-templated transcription
C	0046966	molecular_function	nuclear thyroid hormone receptor binding
D	0000438	cellular_component	core TFIIH complex portion of holo TFIIH complex
D	0000439	cellular_component	transcription factor TFIIH core complex
D	0005515	molecular_function	protein binding
D	0005634	cellular_component	nucleus
D	0005654	cellular_component	nucleoplasm
D	0005669	cellular_component	transcription factor TFIID complex
D	0005675	cellular_component	transcription factor TFIIH holo complex
D	0006281	biological_process	DNA repair
D	0006289	biological_process	nucleotide-excision repair
D	0006366	biological_process	transcription by RNA polymerase II
D	0006367	biological_process	transcription initiation at RNA polymerase II promoter
D	0016251	molecular_function	RNA polymerase II general transcription initiation factor activity
D	0016607	cellular_component	nuclear speck
E	0000438	cellular_component	core TFIIH complex portion of holo TFIIH complex
E	0000439	cellular_component	transcription factor TFIIH core complex
E	0002031	biological_process	G protein-coupled receptor internalization
E	0005515	molecular_function	protein binding
E	0005634	cellular_component	nucleus
E	0005654	cellular_component	nucleoplasm
E	0005669	cellular_component	transcription factor TFIID complex
E	0005675	cellular_component	transcription factor TFIIH holo complex
E	0006289	biological_process	nucleotide-excision repair
E	0006366	biological_process	transcription by RNA polymerase II
E	0006367	biological_process	transcription initiation at RNA polymerase II promoter
E	0009411	biological_process	response to UV
E	0016251	molecular_function	RNA polymerase II general transcription initiation factor activity
E	0016607	cellular_component	nuclear speck
F	0000438	cellular_component	core TFIIH complex portion of holo TFIIH complex
F	0000439	cellular_component	transcription factor TFIIH core complex
F	0005515	molecular_function	protein binding
F	0005634	cellular_component	nucleus
F	0005654	cellular_component	nucleoplasm
F	0005669	cellular_component	transcription factor TFIID complex
F	0005675	cellular_component	transcription factor TFIIH holo complex
F	0006281	biological_process	DNA repair
F	0006289	biological_process	nucleotide-excision repair
F	0006366	biological_process	transcription by RNA polymerase II
F	0006367	biological_process	transcription initiation at RNA polymerase II promoter
F	0016251	molecular_function	RNA polymerase II general transcription initiation factor activity
F	0097550	cellular_component	transcription preinitiation complex
G	0000439	cellular_component	transcription factor TFIIH core complex
G	0005515	molecular_function	protein binding
G	0005634	cellular_component	nucleus
G	0005654	cellular_component	nucleoplasm
G	0005669	cellular_component	transcription factor TFIID complex
G	0005675	cellular_component	transcription factor TFIIH holo complex
G	0005730	cellular_component	nucleolus
G	0005737	cellular_component	cytoplasm
G	0006289	biological_process	nucleotide-excision repair
G	0006294	biological_process	nucleotide-excision repair, preincision complex assembly
G	0006366	biological_process	transcription by RNA polymerase II
G	0006367	biological_process	transcription initiation at RNA polymerase II promoter
H	0000082	biological_process	G1/S transition of mitotic cell cycle
H	0000307	cellular_component	cyclin-dependent protein kinase holoenzyme complex
H	0000439	cellular_component	transcription factor TFIIH core complex
H	0005515	molecular_function	protein binding
H	0005634	cellular_component	nucleus
H	0005654	cellular_component	nucleoplasm
H	0005675	cellular_component	transcription factor TFIIH holo complex
H	0006281	biological_process	DNA repair
H	0006289	biological_process	nucleotide-excision repair
H	0006357	biological_process	regulation of transcription by RNA polymerase II
H	0006367	biological_process	transcription initiation at RNA polymerase II promoter
H	0008270	molecular_function	zinc ion binding
H	0030674	molecular_function	protein-macromolecule adaptor activity
H	0043066	biological_process	negative regulation of apoptotic process
H	0048661	biological_process	positive regulation of smooth muscle cell proliferation
H	0070516	cellular_component	CAK-ERCC2 complex
H	0070985	cellular_component	transcription factor TFIIK complex
H	2000045	biological_process	regulation of G1/S transition of mitotic cell cycle
I	0000109	cellular_component	nucleotide-excision repair complex
I	0000404	molecular_function	heteroduplex DNA loop binding
I	0000405	molecular_function	bubble DNA binding
I	0000785	cellular_component	chromatin
I	0003684	molecular_function	damaged DNA binding
I	0003697	molecular_function	single-stranded DNA binding
I	0003713	molecular_function	transcription coactivator activity
I	0005515	molecular_function	protein binding
I	0005634	cellular_component	nucleus
I	0005643	cellular_component	nuclear pore
I	0005654	cellular_component	nucleoplasm
I	0005694	cellular_component	chromosome
I	0005737	cellular_component	cytoplasm
I	0005886	cellular_component	plasma membrane
I	0006281	biological_process	DNA repair
I	0006289	biological_process	nucleotide-excision repair
I	0006298	biological_process	mismatch repair
I	0007346	biological_process	regulation of mitotic cell cycle
I	0009410	biological_process	response to xenobiotic stimulus
I	0009411	biological_process	response to UV
I	0010996	biological_process	response to auditory stimulus
I	0043025	cellular_component	neuronal cell body
I	0044877	molecular_function	protein-containing complex binding
I	0045893	biological_process	positive regulation of DNA-templated transcription
I	0048471	cellular_component	perinuclear region of cytoplasm
I	0061629	molecular_function	RNA polymerase II-specific DNA-binding transcription factor binding
I	0070914	biological_process	UV-damage excision repair
I	0071942	cellular_component	XPC complex
I	0072718	biological_process	response to cisplatin
I	0090734	cellular_component	site of DNA damage
I	0140612	molecular_function	DNA damage sensor activity
I	1901987	biological_process	regulation of cell cycle phase transition
I	1901990	biological_process	regulation of mitotic cell cycle phase transition
J	0000976	molecular_function	transcription cis-regulatory region binding
J	0000978	molecular_function	RNA polymerase II cis-regulatory region sequence-specific DNA binding
J	0003697	molecular_function	single-stranded DNA binding
J	0005515	molecular_function	protein binding
J	0005634	cellular_component	nucleus
J	0005654	cellular_component	nucleoplasm
J	0005737	cellular_component	cytoplasm
J	0005829	cellular_component	cytosol
J	0006289	biological_process	nucleotide-excision repair
J	0006338	biological_process	chromatin remodeling
J	0031593	molecular_function	polyubiquitin modification-dependent protein binding
J	0032434	biological_process	regulation of proteasomal ubiquitin-dependent protein catabolic process
J	0035575	molecular_function	histone H4K20 demethylase activity
J	0043130	molecular_function	ubiquitin binding
J	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
J	0048568	biological_process	embryonic organ development
J	0061629	molecular_function	RNA polymerase II-specific DNA-binding transcription factor binding
J	0070628	molecular_function	proteasome binding
J	0071942	cellular_component	XPC complex
J	0140612	molecular_function	DNA damage sensor activity
K	0000226	biological_process	microtubule cytoskeleton organization
K	0000278	biological_process	mitotic cell cycle
K	0005509	molecular_function	calcium ion binding
K	0005515	molecular_function	protein binding
K	0005634	cellular_component	nucleus
K	0005635	cellular_component	nuclear envelope
K	0005643	cellular_component	nuclear pore
K	0005654	cellular_component	nucleoplasm
K	0005813	cellular_component	centrosome
K	0005814	cellular_component	centriole
K	0005829	cellular_component	cytosol
K	0005929	cellular_component	cilium
K	0006289	biological_process	nucleotide-excision repair
K	0006406	biological_process	mRNA export from nucleus
K	0007099	biological_process	centriole replication
K	0007283	biological_process	spermatogenesis
K	0008017	molecular_function	microtubule binding
K	0031683	molecular_function	G-protein beta/gamma-subunit complex binding
K	0032391	cellular_component	photoreceptor connecting cilium
K	0032465	biological_process	regulation of cytokinesis
K	0032795	molecular_function	heterotrimeric G-protein binding
K	0036064	cellular_component	ciliary basal body
K	0044615	cellular_component	nuclear pore nuclear basket
K	0045177	cellular_component	apical part of cell
K	0045944	biological_process	positive regulation of transcription by RNA polymerase II
K	0070390	cellular_component	transcription export complex 2
K	0071942	cellular_component	XPC complex
K	0097225	cellular_component	sperm midpiece
K	0097228	cellular_component	sperm principal piece
K	0097729	cellular_component	9+2 motile cilium

Functional Information from PROSITE/UniProt

site_id	PS00018
Number of Residues	13
Details	EF_HAND_1 EF-hand calcium-binding domain. DADGTGTIDvkEL

Chain	Residue	Details
K	ASP41-LEU53
K	ASP150-PHE162

site_id	PS00028
Number of Residues	21
Details	ZINC_FINGER_C2H2_1 Zinc finger C2H2 type domain signature. Cav..CqnvFcvdcdvfvHdsl..H

Chain	Residue	Details
E	CYS360-HIS380

site_id	PS00039
Number of Residues	9
Details	DEAD_ATP_HELICASE DEAD-box subfamily ATP-dependent helicases signature. MIDEADRdG

Chain	Residue	Details
K	MET145-GLY153

site_id	PS00518
Number of Residues	10
Details	ZF_RING_1 Zinc finger RING-type signature. CgHtLCesCV

Chain	Residue	Details
H	CYS26-VAL35

site_id	PS00690
Number of Residues	10
Details	DEAH_ATP_HELICASE DEAH-box subfamily ATP-dependent helicases signature. AvVVFDEAHN

Chain	Residue	Details
B	ALA229-ASN238

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	437
Details	Domain: {"description":"Helicase ATP-binding","evidences":[{"source":"PROSITE-ProRule","id":"PRU00541","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	160
Details	Domain: {"description":"Helicase C-terminal","evidences":[{"source":"PROSITE-ProRule","id":"PRU00542","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	3
Details	Motif: {"description":"DEVH box"}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	7
Details	Binding site: {"evidences":[{"source":"PROSITE-ProRule","id":"PRU00541","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"33902107","evidenceCode":"ECO:0000305"},{"source":"PDB","id":"7NVV","evidenceCode":"ECO:0000312"},{"source":"PDB","id":"7NVX","evidenceCode":"ECO:0000312"}]}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	2
Details	Binding site: {"evidences":[{"source":"PubMed","id":"33902107","evidenceCode":"ECO:0000305"},{"source":"PDB","id":"7NVV","evidenceCode":"ECO:0000312"},{"source":"PDB","id":"7NVX","evidenceCode":"ECO:0000312"}]}

Chain

Residue

Details

site_id	SWS_FT_FI6
Number of Residues	2
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI7
Number of Residues	199
Details	Region: {"description":"Mediates interaction with MMS19"}

Chain

Residue

Details

site_id	SWS_FT_FI8
Number of Residues	3
Details	Motif: {"description":"DEAH box"}

Chain

Residue

Details

site_id	SWS_FT_FI9
Number of Residues	13
Details	Motif: {"description":"Nuclear localization signal","evidences":[{"evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI10
Number of Residues	7
Details	Binding site: {"evidences":[{"source":"PROSITE-ProRule","id":"PRU00541","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI11
Number of Residues	4
Details	Binding site: {"evidences":[{"source":"PubMed","id":"31253769","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"6RO4","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI12
Number of Residues	1
Details	Modified residue: {"description":"N6-acetyllysine","evidences":[{"source":"UniProtKB","id":"Q9DBA9","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI13
Number of Residues	176
Details	Domain: {"description":"VWFA","evidences":[{"source":"PROSITE-ProRule","id":"PRU00219","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI14
Number of Residues	34
Details	Zinc finger: {"description":"C4-type"}

Chain

Residue

Details

site_id	SWS_FT_FI15
Number of Residues	1
Details	Modified residue: {"description":"Phosphotyrosine","evidences":[{"source":"UniProtKB","id":"A0JN27","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI16
Number of Residues	1
Details	Modified residue: {"description":"Phosphothreonine","evidences":[{"source":"PubMed","id":"17525332","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI17
Number of Residues	159
Details	Region: {"description":"Minimal sensor domain involved in damage recognition"}

Chain

Residue

Details

site_id	SWS_FT_FI18
Number of Residues	134
Details	Region: {"description":"DNA-binding; preference for heteroduplex DNA"}

Chain

Residue

Details

site_id	SWS_FT_FI19
Number of Residues	64
Details	Region: {"description":"DNA-binding; preference for single stranded DNA; required for formation of stable nucleoprotein complex"}

Chain

Residue

Details

site_id	SWS_FT_FI20
Number of Residues	19
Details	Region: {"description":"Interaction with CETN2"}

Chain

Residue

Details

site_id	SWS_FT_FI21
Number of Residues	1
Details	Modified residue: {"description":"Phosphothreonine","evidences":[{"source":"PubMed","id":"18669648","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI22
Number of Residues	1
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"18669648","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI23
Number of Residues	1
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"24275569","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI24
Number of Residues	43
Details	Domain: {"description":"STI1"}

Chain

Residue

Details

site_id	SWS_FT_FI25
Number of Residues	35
Details	Domain: {"description":"EF-hand 3","evidences":[{"source":"PROSITE-ProRule","id":"PRU00448","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI26
Number of Residues	5
Details	Binding site: {"evidences":[{"source":"PROSITE-ProRule","id":"PRU00448","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)