P06839 (RAD3_YEAST) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
General transcription and DNA repair factor IIH helicase subunit XPD UniProtKBInterProSTRINGInteractive Modelling
778 aa; Sequence (Fasta) ;
7 identical sequences: Saccharomyces cerevisiae: N1P571, G2WD57, C8Z7J4, C7GS39, A0A6A5Q1C1, A6ZRC7; Saccharomyces pastorianus: A0A6C1DR30
It is possible new templates exist for this target since these models were created.
Available Structures
25 Experimental Structures
| Description | PDB ID | Oligo-state | Range | Ligands | ||
|---|---|---|---|---|---|---|
| RNA polymerase II pre-initiation complex (PIC1) |
Heteromer P04050; P08518; P13393; P16370; P20433; P20434; P20435; P20436; P22139; P27999; P29055; P32776; P34087; P36100; P36145; P38902; P40422; P41895; P41896; Q00578; Q02939; Q03290; Q04673; Q12004; Q3E7C1; | 17×ZN; 1×MG; 1×SF4; | ||||
| Assess | ||||||
| Nucleotide Excision Repair complex TFIIH Rad4-33 |
Heteromer P14736; P32776; Q00578; Q02939; Q04231; Q04673; Q12004; Q3E7C1; | 1×SF4; 5×ZN; 2×CA; | ||||
| Assess | ||||||
| RNA polymerase II initially transcribing complex (ITC) |
Heteromer P04050; P08518; P13393; P16370; P20433; P20434; P20435; P20436; P22139; P27999; P29055; P32773; P32774; P32776; P34087; P36100; P36145; P38902; P40422; P41895; P41896; Q00578; Q02939; Q03290; Q04673; Q12004; Q3E7C1; | 15×ZN; 1×MG; 1×SF4; | ||||
| Assess | ||||||
| Structure of TFIIH/Rad4-Rad23-Rad33/DNA in DNA opening |
Heteromer P14736; P32776; Q00578; Q02939; Q04231; Q04673; Q12004; Q3E7C1; | 2×CA; 1×SF4; 5×ZN; | ||||
| Assess | ||||||
| RNA polymerase II pre-initiation complex (PIC3) |
Heteromer P04050; P08518; P13393; P16370; P20433; P20434; P20435; P20436; P22139; P27999; P29055; P32773; P32774; P32776; P34087; P36100; P36145; P38902; P40422; P41895; P41896; Q00578; Q02939; Q03290; Q04673; Q12004; Q3E7C1; | 17×ZN; 1×MG; 1×SF4; | ||||
| Assess | ||||||
| General transcription factor TFIIH (weak binding) |
Heteromer P32776; Q00578; Q02939; Q03290; Q04673; Q12004; Q3E7C1; | 7×ZN; 1×SF4; | ||||
| Assess | ||||||
| RNA polymerase II pre-initiation complex (PIC2) |
Heteromer P04050; P08518; P13393; P16370; P20433; P20434; P20435; P20436; P22139; P27999; P29055; P32773; P32774; P32776; P34087; P36100; P36145; P38902; P40422; P41895; P41896; Q00578; Q02939; Q03290; Q04673; Q12004; Q3E7C1; | 19×ZN; 1×SF4; 1×MG; | ||||
| Assess | ||||||
| Structure of TFIIH in TFIIH/Rad4-Rad23-Rad33 DNA opening complex |
Heteromer P32776; Q00578; Q02939; Q04673; Q12004; Q3E7C1; | 5×ZN; 1×SF4; | ||||
| Assess | ||||||
| Yeast RNA polymerase II transcription pre-initiation complex with the +1 nucleosome and NTP (comple… |
Heteromer P02281; P04050; P06897; P08518; P13393; P16370; P20433; P20434; P20435; P20436; P22139; P27999; P29055; P32773; P32774; P32776; P34087; P36100; P36145; P38902; P40422; P41895; P41896; P62799; P84233; Q00578; Q02939; Q03290; Q04673; Q12004; Q3E7C1; | 17×ZN; 1×MG; 1×SF4; | ||||
| Assess | ||||||
| Yeast RNA polymerase II transcription pre-initiation complex (consensus) |
Heteromer P04050; P08518; P13393; P16370; P20433; P20434; P20435; P20436; P22139; P27999; P29055; P32773; P32774; P32776; P34087; P36100; P36145; P38902; P40422; P41895; P41896; Q00578; Q02939; Q03290; Q04673; Q12004; Q3E7C1; | 1×SF4; 17×ZN; 1×BEF; 2×MG; 1×ADP; | ||||
| Assess | ||||||
| Yeast RNA polymerase II transcription pre-initiation complex with open promoter DNA |
Heteromer P04050; P08518; P13393; P16370; P20433; P20434; P20435; P20436; P22139; P27999; P29055; P32773; P32774; P32776; P34087; P36100; P36145; P38902; P40422; P41895; P41896; Q00578; Q02939; Q03290; Q04673; Q12004; Q3E7C1; | 1×SF4; 17×ZN; 1×BEF; 2×MG; 1×ADP; | ||||
| Assess | ||||||
| Yeast RNA polymerase II transcription pre-initiation complex with the +1 nucleosome and NTP, comple… |
Heteromer P02281; P04050; P06897; P08518; P13393; P16370; P20433; P20434; P20435; P20436; P22139; P27999; P29055; P32773; P32774; P32776; P34087; P36100; P36145; P38902; P40422; P41895; P41896; P62799; P84233; Q00578; Q02939; Q03290; Q04673; Q12004; Q3E7C1; | 17×ZN; 1×MG; 1×SF4; | ||||
| Assess | ||||||
| Yeast RNA polymerase II transcription pre-initiation complex with core Mediator |
Heteromer A0A6A5PRZ0; G4XSG8; P04050; P08518; P16370; P20433; P20434; P20435; P20436; P22139; P27999; P29055; P34087; P36100; P36145; P38902; P40422; P41896; Q00578; | 1×SF4; 17×ZN; 1×MG; | ||||
| Assess | ||||||
| Yeast RNA polymerase II transcription pre-initiation complex with closed distorted promoter DNA |
Heteromer P04050; P08518; P13393; P16370; P20433; P20434; P20435; P20436; P22139; P27999; P29055; P32773; P32774; P32776; P34087; P36100; P36145; P38902; P40422; P41895; P41896; Q00578; Q02939; Q03290; Q04673; Q12004; Q3E7C1; | 1×SF4; 17×ZN; 1×BEF; 2×MG; 1×ADP; | ||||
| Assess | ||||||
| Yeast RNA polymerase II transcription pre-initiation complex with the +1 nucleosome (complex A) |
Heteromer P02281; P04050; P06897; P08518; P13393; P16370; P20433; P20434; P20435; P20436; P22139; P27999; P29055; P32773; P32774; P32776; P34087; P36100; P36145; P38902; P40422; P41895; P41896; P62799; P84233; Q00578; Q02939; Q03290; Q04673; Q12004; Q3E7C1; | 17×ZN; 1×MG; 1×SF4; | ||||
| Assess | ||||||
| Yeast RNA polymerase II transcription pre-initiation complex with closed promoter DNA |
Heteromer P04050; P08518; P13393; P16370; P20433; P20434; P20435; P20436; P22139; P27999; P29055; P32773; P32774; P32776; P34087; P36100; P36145; P38902; P40422; P41895; P41896; Q00578; Q02939; Q03290; Q04673; Q12004; Q3E7C1; | 1×SF4; 17×ZN; 1×BEF; 2×MG; 1×ADP; | ||||
| Assess | ||||||
| Yeast TFIIH in the contracted state within the pre-initiation complex |
Heteromer P04050; P08518; P20433; P20435; P32776; P34087; P36100; P36145; Q00578; Q02939; Q03290; Q04673; Q12004; Q3E7C1; | 1×SF4; 10×ZN; 1×BEF; 1×MG; 1×ADP; | ||||
| Assess | ||||||
| Yeast RNA polymerase II transcription pre-initiation complex with initial transcription bubble |
Heteromer P04050; P08518; P13393; P16370; P20433; P20434; P20435; P20436; P22139; P27999; P29055; P32773; P32774; P32776; P34087; P36100; P36145; P38902; P40422; P41895; P41896; Q00578; Q02939; Q03290; Q04673; Q12004; Q3E7C1; | 1×SF4; 17×ZN; 1×BEF; 2×MG; 1×ADP; | ||||
| Assess | ||||||
| Yeast TFIIH in the expanded state within the pre-initiation complex |
Heteromer P04050; P08518; P20433; P20435; P32776; P34087; P36100; P36145; Q00578; Q02939; Q03290; Q04673; Q12004; Q3E7C1; | 1×SF4; 11×ZN; 1×BEF; 1×MG; 1×ADP; | ||||
| Assess | ||||||
| Yeast RNA polymerase II transcription pre-initiation complex with core Mediator and the +1 nucleoso… |
Heteromer P02281; P04050; P06897; P08518; P13393; P16370; P19263; P20433; P20434; P20435; P20436; P22139; P25046; P27999; P29055; P32569; P32570; P32585; P32773; P32774; P32776; P33308; P34087; P34162; P36100; P36145; P38304; P38633; P38782; P38902; P40422; P41895; P41896; P47822; P62799; P84233; Q00578; Q02939; Q03290; Q04673; Q06213; Q08278; Q12004; Q12321; Q12343; Q3E7C1; Q99278; | 1×SF4; 17×ZN; 1×MG; | ||||
| Assess | ||||||
| STRUCTURE OF YEAST TRANSCRIPTION PRE-INITIATION COMPLEX WITH TFIIH |
Heteromer P04050; P08518; P13393; P16370; P20433; P20434; P20435; P20436; P22139; P27999; P29055; P32773; P32774; P32776; P34087; P36100; P36145; P38902; P40422; P41895; P41896; Q00578; Q02939; Q03290; Q04673; Q12004; Q3E7C1; | 16×ZN; 1×MG; 1×SF4; | ||||
| Assess | ||||||
| STRUCTURE OF YEAST TRANSCRIPTION PRE-INITIATION COMPLEX WITH TFIIH AND CORE MEDIATOR |
Heteromer P04050; P08518; P13393; P16370; P19263; P20433; P20434; P20435; P20436; P22139; P25046; P27999; P29055; P32569; P32570; P32585; P32773; P32774; P32776; P33308; P34087; P34162; P36100; P36145; P38304; P38633; P38782; P38902; P40422; P41895; P41896; P47822; Q00578; Q02939; Q03290; Q04673; Q06213; Q08278; Q12004; Q12343; Q3E7C1; Q99278; | 16×ZN; 1×MG; 1×SF4; | ||||
| Assess | ||||||
| Structure of a yeast closed complex with distorted DNA (CCdist) |
Heteromer P04050; P08518; P13393; P16370; P20433; P20434; P20435; P20436; P22139; P27999; P29055; P32773; P32774; P32776; P34087; P36100; P36145; P38902; P40422; P41895; P41896; Q00578; Q02939; Q03290; Q04673; Q12004; Q3E7C1; | 1×SF4; 16×ZN; 1×MG; | ||||
| Assess | ||||||
| Mediator-RNA Polymerase II Pre-Initiation Complex |
Heteromer P04050; P08518; P13393; P16370; P20433; P20434; P20435; P20436; P22139; P27999; P29055; P32569; P32570; P32585; P32773; P32774; P33308; P34087; P34162; P35189; P36100; P36145; P38304; P38633; P38782; P38902; P40422; P41895; P41896; P47822; Q00578; Q02939; Q08278; Q12343; Q3E7C1; Q99278; | 8×ZN; 1×MG; | ||||
| Assess | ||||||
| the P-lobe of RNA polymerase II pre-initiation complex |
Heteromer P04050; P07273; P08518; P13393; P16370; P20433; P20434; P20435; P20436; P22139; P27999; P29055; P32773; P32774; P34087; P36100; P36145; P38902; P40422; P41895; P41896; Q00578; Q02939; Q3E7C1; | 2×MG; 9×ZN; | ||||
| Assess | ||||||
3 SWISS-MODEL models
| Template | Oligo-state | QMEANDisCo | Range | Ligands | Trg-Tpl Seq id (%) | |
|---|---|---|---|---|---|---|
| 7m2u.1.E | monomer | 0.78 | 1×SF4; | 100.00 | ||
| Assess | ||||||
| 5sva.1.Y | monomer | 0.55 | 100.00 | |||
| Assess | ||||||
| 5fmf.1.0 | monomer | 0.52 | 100.00 | |||
| Assess | ||||||