NPIDB: 5IVW structure

General information

PDB ID

5IVW

Title

HUMAN CORE TFIIH BOUND TO DNA WITHIN THE PIC

PDB header

TRANSCRIPTION/DNA

Date

2016-03-21

Experimental method

ELECTRON MICROSCOPY

Resolution (A)

Kind

dna

Organism

HOMO SAPIENS


Download complex	View in Jmol

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PDB	PDBe	MMDB	Jena	OCA
CATH	PDBsum	HSSP	PDBePISA	UniProt
ProteopediA	BIPA

Composition of PDB entry and biounits
File:	Protein chains:	DNA chains:	RNA chains:	No. of models:	Action:

PDB entry:

pdb5ivw.pdb	VW0123	XY		0

Biounits:

5ivw.pdb1.pdb	VW0123	XY		1

Pfam domains
Name:	Type:	Domain:	E-value:	Significance:	Clan:	Prot. chain:	Start res.:	End res.:	Nuc. chains:	Int. mode:	Action:

Tfb2_C	Domain	Q92759_389-456	1.4e-23	1	No_clan	2	389	456
Tfb4	Domain	Q13889_8-231	1.1e-61	1	CL0128	3	8	231
ERCC3_RAD25_C	Domain	P19447_496-718	2e-123	1	CL0023	V	496	718	X	H-Bb
Helicase_C_2	Domain	P18074_524-700	3.2e-45	1	CL0023	W	524	700
HBB	Domain	P18074_269-413	5.1e-21	1	No_clan	W	269	395
Ssl1	Family	Q13888_64-241	3.3e-88	1	CL0128	0	64	241
Tfb5	Family	Q6ZYL4_1-62	1.9e-25	1	No_clan	1	1	62
Tfb2	Family	Q92759_28-274	1e-38	1	No_clan	2	139	405
Tfb2	Family	Q92759_2-60	1.4e-10	1	No_clan	2	28	99
ResIII	Family	P19447_313-472	1.6e-15	1	CL0023	V	313	472	XY	L-Bb L-Mn
DEAD_2	Family	P18074_72-256	1.6e-46	1	CL0023	W	72	256

SCOP domains
No SCOP domains

GO terms
Protein chains:	GO type:	GO description:
0=1-395	C	core TFIIH complex portion of holo TFIIH complex
0=1-395	C	nuclear speck
0=1-395	C	nucleoplasm
0=1-395	C	nucleus
0=1-395	C	transcription factor TFIID complex
0=1-395	C	transcription factor TFIIH core complex
0=1-395	C	transcription factor TFIIH holo complex
0=1-395	F	protein N-terminus binding
0=1-395	F	RNA polymerase II general transcription initiation factor activity
0=1-395	F	zinc ion binding
0=1-395	P	7-methylguanosine mRNA capping
0=1-395	P	G protein-coupled receptor internalization
0=1-395	P	global genome nucleotide-excision repair
0=1-395	P	nucleotide-excision repair
0=1-395	P	nucleotide-excision repair, DNA duplex unwinding
0=1-395	P	nucleotide-excision repair, DNA incision
0=1-395	P	nucleotide-excision repair, DNA incision, 3'-to lesion
0=1-395	P	nucleotide-excision repair, DNA incision, 5'-to lesion
0=1-395	P	nucleotide-excision repair, preincision complex assembly
0=1-395	P	nucleotide-excision repair, preincision complex stabilization
0=1-395	P	positive regulation of DNA helicase activity
0=1-395	P	regulation of transcription by RNA polymerase II
0=1-395	P	response to UV
0=1-395	P	termination of RNA polymerase I transcription
0=1-395	P	transcription by RNA polymerase II
0=1-395	P	transcription elongation from RNA polymerase I promoter
0=1-395	P	transcription elongation from RNA polymerase II promoter
0=1-395	P	transcription initiation from RNA polymerase I promoter
0=1-395	P	transcription initiation from RNA polymerase II promoter
0=1-395	P	transcription-coupled nucleotide-excision repair
0=1-395	P	viral process
1=1-71	C	nucleolus
1=1-71	C	nucleoplasm
1=1-71	C	transcription factor TFIID complex
1=1-71	C	transcription factor TFIIH core complex
1=1-71	C	transcription factor TFIIH holo complex
1=1-71	P	7-methylguanosine mRNA capping
1=1-71	P	cellular response to gamma radiation
1=1-71	P	global genome nucleotide-excision repair
1=1-71	P	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
1=1-71	P	nucleotide-excision repair
1=1-71	P	nucleotide-excision repair, DNA duplex unwinding
1=1-71	P	nucleotide-excision repair, DNA incision
1=1-71	P	nucleotide-excision repair, DNA incision, 3'-to lesion
1=1-71	P	nucleotide-excision repair, DNA incision, 5'-to lesion
1=1-71	P	nucleotide-excision repair, preincision complex assembly
1=1-71	P	nucleotide-excision repair, preincision complex stabilization
1=1-71	P	phosphorylation of RNA polymerase II C-terminal domain
1=1-71	P	termination of RNA polymerase I transcription
1=1-71	P	transcription by RNA polymerase II
1=1-71	P	transcription elongation from RNA polymerase I promoter
1=1-71	P	transcription elongation from RNA polymerase II promoter
1=1-71	P	transcription initiation from RNA polymerase I promoter
1=1-71	P	transcription initiation from RNA polymerase II promoter
1=1-71	P	transcription-coupled nucleotide-excision repair
2=1-462	C	core TFIIH complex portion of holo TFIIH complex
2=1-462	C	nuclear speck
2=1-462	C	nucleoplasm
2=1-462	C	nucleus
2=1-462	C	transcription factor TFIID complex
2=1-462	C	transcription factor TFIIH core complex
2=1-462	C	transcription factor TFIIH holo complex
2=1-462	F	ATPase activator activity
2=1-462	F	double-stranded DNA binding
2=1-462	F	RNA polymerase II general transcription initiation factor activity
2=1-462	P	7-methylguanosine mRNA capping
2=1-462	P	DNA repair
2=1-462	P	global genome nucleotide-excision repair
2=1-462	P	nucleotide-excision repair
2=1-462	P	nucleotide-excision repair, DNA duplex unwinding
2=1-462	P	nucleotide-excision repair, DNA incision
2=1-462	P	nucleotide-excision repair, DNA incision, 3'-to lesion
2=1-462	P	nucleotide-excision repair, DNA incision, 5'-to lesion
2=1-462	P	nucleotide-excision repair, preincision complex assembly
2=1-462	P	nucleotide-excision repair, preincision complex stabilization
2=1-462	P	phosphorylation of RNA polymerase II C-terminal domain
2=1-462	P	termination of RNA polymerase I transcription
2=1-462	P	transcription by RNA polymerase II
2=1-462	P	transcription elongation from RNA polymerase I promoter
2=1-462	P	transcription elongation from RNA polymerase II promoter
2=1-462	P	transcription initiation from RNA polymerase I promoter
2=1-462	P	transcription initiation from RNA polymerase II promoter
2=1-462	P	transcription-coupled nucleotide-excision repair
3=1-308	C	core TFIIH complex portion of holo TFIIH complex
3=1-308	C	nucleoplasm
3=1-308	C	nucleus
3=1-308	C	transcription factor TFIID complex
3=1-308	C	transcription factor TFIIH core complex
3=1-308	C	transcription factor TFIIH holo complex
3=1-308	C	transcription preinitiation complex
3=1-308	F	metal ion binding
3=1-308	F	protein N-terminus binding
3=1-308	F	RNA polymerase II general transcription initiation factor activity
3=1-308	P	7-methylguanosine mRNA capping
3=1-308	P	DNA repair
3=1-308	P	global genome nucleotide-excision repair
3=1-308	P	nucleotide-excision repair
3=1-308	P	nucleotide-excision repair, DNA duplex unwinding
3=1-308	P	nucleotide-excision repair, DNA incision
3=1-308	P	nucleotide-excision repair, DNA incision, 3'-to lesion
3=1-308	P	nucleotide-excision repair, DNA incision, 5'-to lesion
3=1-308	P	nucleotide-excision repair, preincision complex assembly
3=1-308	P	nucleotide-excision repair, preincision complex stabilization
3=1-308	P	phosphorylation of RNA polymerase II C-terminal domain
3=1-308	P	termination of RNA polymerase I transcription
3=1-308	P	transcription by RNA polymerase II
3=1-308	P	transcription elongation from RNA polymerase I promoter
3=1-308	P	transcription elongation from RNA polymerase II promoter
3=1-308	P	transcription initiation from RNA polymerase I promoter
3=1-308	P	transcription initiation from RNA polymerase II promoter
3=1-308	P	transcription-coupled nucleotide-excision repair
V=1-782	C	nucleoplasm
V=1-782	C	nucleotide-excision repair factor 3 complex
V=1-782	C	nucleus
V=1-782	C	transcription factor TFIID complex
V=1-782	C	transcription factor TFIIH core complex
V=1-782	C	transcription factor TFIIH holo complex
V=1-782	C	transcription preinitiation complex
V=1-782	F	3'-5' DNA helicase activity
V=1-782	F	ATP binding
V=1-782	F	ATPase activity
V=1-782	F	damaged DNA binding
V=1-782	F	DNA binding
V=1-782	F	DNA helicase activity
V=1-782	F	helicase activity
V=1-782	F	promoter-specific chromatin binding
V=1-782	F	protein C-terminus binding
V=1-782	F	protein N-terminus binding
V=1-782	F	transcription factor binding
V=1-782	P	7-methylguanosine mRNA capping
V=1-782	P	apoptotic process
V=1-782	P	DNA repair
V=1-782	P	DNA topological change
V=1-782	P	embryonic organ development
V=1-782	P	global genome nucleotide-excision repair
V=1-782	P	hair cell differentiation
V=1-782	P	nucleotide-excision repair
V=1-782	P	nucleotide-excision repair, DNA duplex unwinding
V=1-782	P	nucleotide-excision repair, DNA incision
V=1-782	P	nucleotide-excision repair, DNA incision, 3'-to lesion
V=1-782	P	nucleotide-excision repair, DNA incision, 5'-to lesion
V=1-782	P	nucleotide-excision repair, preincision complex assembly
V=1-782	P	nucleotide-excision repair, preincision complex stabilization
V=1-782	P	positive regulation of apoptotic process
V=1-782	P	protein localization
V=1-782	P	protein phosphorylation
V=1-782	P	regulation of mitotic cell cycle phase transition
V=1-782	P	response to hypoxia
V=1-782	P	response to oxidative stress
V=1-782	P	response to UV
V=1-782	P	termination of RNA polymerase I transcription
V=1-782	P	transcription by RNA polymerase II
V=1-782	P	transcription elongation from RNA polymerase I promoter
V=1-782	P	transcription elongation from RNA polymerase II promoter
V=1-782	P	transcription initiation from RNA polymerase I promoter
V=1-782	P	transcription initiation from RNA polymerase II promoter
V=1-782	P	transcription-coupled nucleotide-excision repair
V=1-782	P	UV protection
V=1-782	P	viral process
W=1-760	C	CAK-ERCC2 complex
W=1-760	C	cytoplasm
W=1-760	C	cytosol
W=1-760	C	MMXD complex
W=1-760	C	nucleoplasm
W=1-760	C	nucleus
W=1-760	C	spindle
W=1-760	C	transcription factor TFIID complex
W=1-760	C	transcription factor TFIIH core complex
W=1-760	C	transcription factor TFIIH holo complex
W=1-760	F	4 iron, 4 sulfur cluster binding
W=1-760	F	5'-3' DNA helicase activity
W=1-760	F	ATP binding
W=1-760	F	damaged DNA binding
W=1-760	F	DNA helicase activity
W=1-760	F	metal ion binding
W=1-760	F	protein C-terminus binding
W=1-760	F	protein N-terminus binding
W=1-760	F	protein-macromolecule adaptor activity
W=1-760	P	7-methylguanosine mRNA capping
W=1-760	P	aging
W=1-760	P	apoptotic process
W=1-760	P	bone mineralization
W=1-760	P	cell population proliferation
W=1-760	P	central nervous system myelin formation
W=1-760	P	chromosome segregation
W=1-760	P	embryonic cleavage
W=1-760	P	embryonic organ development
W=1-760	P	erythrocyte maturation
W=1-760	P	extracellular matrix organization
W=1-760	P	global genome nucleotide-excision repair
W=1-760	P	hair cell differentiation
W=1-760	P	hair follicle maturation
W=1-760	P	hematopoietic stem cell differentiation
W=1-760	P	in utero embryonic development
W=1-760	P	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
W=1-760	P	multicellular organism growth
W=1-760	P	nucleotide-excision repair
W=1-760	P	nucleotide-excision repair, DNA duplex unwinding
W=1-760	P	nucleotide-excision repair, DNA incision
W=1-760	P	nucleotide-excision repair, DNA incision, 3'-to lesion
W=1-760	P	nucleotide-excision repair, DNA incision, 5'-to lesion
W=1-760	P	nucleotide-excision repair, preincision complex assembly
W=1-760	P	nucleotide-excision repair, preincision complex stabilization
W=1-760	P	positive regulation of DNA binding
W=1-760	P	positive regulation of mitotic recombination
W=1-760	P	positive regulation of transcription, DNA-templated
W=1-760	P	post-embryonic development
W=1-760	P	protein phosphorylation
W=1-760	P	regulation of mitotic cell cycle phase transition
W=1-760	P	regulation of mitotic recombination
W=1-760	P	response to hypoxia
W=1-760	P	response to oxidative stress
W=1-760	P	response to UV
W=1-760	P	spinal cord development
W=1-760	P	termination of RNA polymerase I transcription
W=1-760	P	transcription by RNA polymerase II
W=1-760	P	transcription elongation from RNA polymerase I promoter
W=1-760	P	transcription elongation from RNA polymerase II promoter
W=1-760	P	transcription initiation from RNA polymerase I promoter
W=1-760	P	transcription initiation from RNA polymerase II promoter
W=1-760	P	transcription-coupled nucleotide-excision repair
W=1-760	P	UV protection
W=1-760	P	viral process

Sequences

Download file with secondary structure created by Stride

5ivw.pdb1.pdb: [ download sequences in FASTA format ]

X (dna):