9PTU

Cryo-EM structure of the DCAF11 E3 ligase bound to the DDX18 helicase mediated by GSH-M12

This is a non-PDB format compatible entry.

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A (A)	DDB1- and CUL4-associated factor 11	polymer	590	66606.8	1	UniProt (Q8TEB1)	Homo sapiens (human)	WD repeat-containing protein 23
2	B (C)	ATP-dependent RNA helicase DDX18	polymer	478	54206.4	1	UniProt (Q9NVP1)	Homo sapiens (human)	DEAD box protein 18,Myc-regulated DEAD box protein,MrDb
3	C (B)	DNA damage-binding protein 1	polymer	864	96425.6	1	UniProt (Q16531)	Homo sapiens (human)	DDB p127 subunit,DNA damage-binding protein a,DDBa,Damage-specific DNA-binding protein 1,HBV X-associated protein 1,XAP-1,UV-damaged DNA-binding factor,UV-damaged DNA-binding protein 1,UV-DDB 1,XPE-binding factor,XPE-BF,Xeroderma pigmentosum group E-complementing protein,XPCe
4	D (A)	L-gamma-glutamyl-S-{6-chloro-5-[(3,5-dimethylphenoxy)carbonyl]-3-fluoropyridin-2-yl}-L-cysteinylglycine	non-polymer		585.0	1	Chemie (A1CK5)

Sequence modifications

A: 1 - 546 (UniProt: Q8TEB1)

PDB	External Database	Details
Met -43	-	initiating methionine
Asp -42	-	expression tag
Trp -41	-	expression tag
Ser -40	-	expression tag
His -39	-	expression tag
Pro -38	-	expression tag
Gln -37	-	expression tag
Phe -36	-	expression tag
Glu -35	-	expression tag
Lys -34	-	expression tag
Ser -33	-	expression tag
Ala -32	-	expression tag
Val -31	-	expression tag
Gly -30	-	expression tag
Leu -29	-	expression tag
Asn -28	-	expression tag
Asp -27	-	expression tag
Ile -26	-	expression tag
Phe -25	-	expression tag
Glu -24	-	expression tag
Ala -23	-	expression tag
Gln -22	-	expression tag
Lys -21	-	expression tag
Ile -20	-	expression tag
Glu -19	-	expression tag
Trp -18	-	expression tag
His -17	-	expression tag
Glu -16	-	expression tag
Gly -15	-	expression tag
Gly -14	-	expression tag
Gly -13	-	expression tag
Gly -12	-	expression tag
Ser -11	-	expression tag
Gly -10	-	expression tag
Glu -9	-	expression tag
Asn -8	-	expression tag
Leu -7	-	expression tag
Tyr -6	-	expression tag
Phe -5	-	expression tag
Gln -4	-	expression tag
Gly -3	-	expression tag
Gly -2	-	expression tag
Gly -1	-	expression tag
Arg 0	-	expression tag

C: 171 - 625 (UniProt: Q9NVP1)

PDB	External Database	Details
Met 148	-	initiating methionine
Asp 149	-	expression tag
Tyr 150	-	expression tag
Lys 151	-	expression tag
Asp 152	-	expression tag
Asp 153	-	expression tag
Asp 154	-	expression tag
Asp 155	-	expression tag
Lys 156	-	expression tag
Ser 157	-	expression tag
Ala 158	-	expression tag
Val 159	-	expression tag
Asp 160	-	expression tag
Glu 161	-	expression tag
Asn 162	-	expression tag
Leu 163	-	expression tag
Tyr 164	-	expression tag
Phe 165	-	expression tag
Gln 166	-	expression tag
Gly 167	-	expression tag
Gly 168	-	expression tag
Gly 169	-	expression tag
Arg 170	-	expression tag

B: 1 - 699 (UniProt: Q16531)

PDB	External Database	Details
Met -27	-	initiating methionine
Gly -26	-	expression tag
Ser -25	-	expression tag
Ser -24	-	expression tag
His -23	-	expression tag
His -22	-	expression tag
His -21	-	expression tag
His -20	-	expression tag
His -19	-	expression tag
His -18	-	expression tag
Ser -17	-	expression tag
Ala -16	-	expression tag
Ala -15	-	expression tag
His -14	-	expression tag
Ile -13	-	expression tag
Val -12	-	expression tag
Met -11	-	expression tag
Val -10	-	expression tag
Asp -9	-	expression tag
Ala -8	-	expression tag
Tyr -7	-	expression tag
Lys -6	-	expression tag
Pro -5	-	expression tag
Thr -4	-	expression tag
Lys -3	-	expression tag
Gly -2	-	expression tag
Gly -1	-	expression tag
Arg 0	-	expression tag

B: 706 - 1140 (UniProt: Q16531)

PDB	External Database	Details
Gly 700	-	linker
Asn 701	-	linker
Gly 702	-	linker
Asn 703	-	linker
Ser 704	-	linker
Gly 705	-	linker

Contents of the asymmetric unit

Polymers	Number of chains	3
	Total formula weight	217238.8
Non-Polymers*	Number of molecules	1
	Total formula weight	585.0
All*	Total formula weight	217823.8

*Water molecules are not included.