6CFI: Rad4-Rad23

Crystal structure of Rad4-Rad23 bound to a 6-4 photoproduct UV lesion. Determined by X-ray diffraction at 3.36 Å resolution. Released 27 Feb 2019.

Method
X-ray diffraction
Resolution
3.36 Å
Organisms
Saccharomyces cerevisiae S288c, synthetic construct
Chains
4
Atoms
5,473
Mol. weight
95.12 kDa
Released
27 Feb 2019

Explore 6CFI in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6CFI contains 36 α-helices and 23 β-strands across 2 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 31 helices, 23 β-strands

ElementResiduesLengthSheet
α-helix134-16229
α-helix165-1728
α-helix177-1837
α-helix185-1873
α-helix192-21423
β-strand216-21721
α-helix218-2203
α-helix227-2293
α-helix230-2389
α-helix248-25710
β-strand259-26021
α-helix262-27514
β-strand280-28672
α-helix305-3095
β-strand315-32172
β-strand326-33162
β-strand337-33932
α-helix354-3563
β-strand362-36652
β-strand372-37432
α-helix376-3794
α-helix387-3904
α-helix392-3943
α-helix396-40914
α-helix416-43217
α-helix439-4413
β-strand447-44933
α-helix450-4523
β-strand457-45934
α-helix4601
β-strand467-47043
β-strand478-48363
α-helix484-4863
β-strand487-48934
β-strand49115
α-helix493-4986
β-strand501-50336
α-helix5041
β-strand511-51337
β-strand529-53137
β-strand53215
α-helix534-5363
β-strand537-53936
α-helix542-5465
α-helix550-5523
β-strand559-56028
α-helix564-5663
β-strand571-57558
α-helix579-5868
β-strand590-599108
β-strand605-615118
α-helix616-6183
α-helix619-6279
α-helix629-6313
Chain X: 5 helices, 0 β-strands
ElementResiduesLengthSheet
α-helix259-27113
α-helix273-2753
α-helix276-28611
α-helix290-2967
α-helix298-3069

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
DNA repair protein RAD4Aprotein538Saccharomyces cerevisiae S288cP14736 (AlphaFold model)
UV excision repair protein RAD23Xprotein171Saccharomyces cerevisiae S288cP32628 (AlphaFold model)
DNA('-d(*tp*tp*gp*ap*cp*tp*cp*ap*ap*cp*ap*tp*cp*cp*ap*ap*ap*gp*cp*tp*ap*cp*ap*a)-')WDNA24synthetic construct
DNA (5'-D(*AP*TP*TP*GP*TP*AP*GP*CP*(T64)P*TP*GP*GP*AP*TP*GP*TP*TP*GP*AP*GP*TP*CP*A)-3')YDNA23synthetic construct
Sequence of entity 1 (A), FASTA
>6CFI_1 DNA repair protein RAD4 (chains A)
GSSRAMGNEVAGVEDISVEITPSSKRNSDARRTSRNVCSNEERKRRKYFHMLYLVCLMVH
GFIRNEWINSKRLSRKLSNLVPEKVFELLHPQKDEELPLRSTRKLLDGLKKCMELWQKHW
KITKKYDNEGLYMRTWKEIEMSANNKRKFKTLKRSDFLRAVSKGHGDPDISVQGFVAMLR
ACNVNARLIMSCQPPDFTNMKIDTSLNGNNAYKDMVKYPIFWCEVWDKFSKKWITVDPVN
LKTIEQVRLHSKLAPKGVACCERNMLRYVIAYDRKYGCRDVTRRYAQWMNSKVRKRRITK
DDFGEKWFRKVITALHHRKRTKIDDYEDQYFFRRDESEGIPDSVQDLKNHPYYVLEQDIK
QTQIVKPGCKECGYLKVHGKVGKVLKVYAKRDIADLKSARQWYMNGRILKTGSRCKKVIK
RTVGRPKGEAEEEDERLYSFEDTELYIPPLASASGEITKNTFGNIEVFAPTMIPGNCCLV
ENPVAIKAARFLGVEFAPAVTSFKFERGSTVKPVLSGIVVAKWLREAIETAIDGIEFI
Sequence of entity 2 (X), FASTA
>6CFI_2 UV excision repair protein RAD23 (chains X)
GSGNASSGALGTTGGATDAAQGGPPGSIGLTVEDLLSLRQVVSGNPEALAPLLENISARY
PQLREHIMANPEVFVSMLLEAVGDNMQDVMEGADDMVEGEDIEVTGEAAAAGLGQGEGEG
SFQVDYTPEDDQAISRLCELGFERDLVIQVYFACDKNEEAAANILFSDHAD
Sequence of entity 3 (W), FASTA
>6CFI_3 DNA('-D(*TP*TP*GP*AP*CP*TP*CP*AP*AP*CP*AP*TP*CP*CP*AP*AP*AP*GP*CP*TP*AP*CP*AP*A)-') (chains W)
TTGACTCAACATCCAAAGCTACAA
Sequence of entity 4 (Y), FASTA
>6CFI_4 DNA (5'-D(*AP*TP*TP*GP*TP*AP*GP*CP*(T64)P*TP*GP*GP*AP*TP*GP*TP*TP*GP*AP*GP*TP*CP*A)-3') (chains Y)
ATTGTAGCXTGGATGTTGAGTCA

Primary citation

Structure and mechanism of pyrimidine-pyrimidone (6-4) photoproduct recognition by the Rad4/XPC nucleotide excision repair complex. Paul, D., Mu, H., Zhao, H. et al. Nucleic Acids Res (2019) 47:6015-6028. DOI 10.1093/nar/gkz359 · PubMed

Other PDB entries of the same protein (UniProt P14736 (AlphaFold model), which also has an AlphaFold model), best resolution first:

Browse structure collections

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