9QS6

Cryo-EM structure of the helix-stabilized MMM ubiquitin ligase complex with nanobody 270 (Composite map)

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 (D)	Isoform 4 of E3 ubiquitin-protein ligase MGRN1	polymer	539	59455.0	1	UniProt (O60291) Pfam (PF26192) Pfam (PF13920)	Homo sapiens (human)	Mahogunin RING finger protein 1,RING finger protein 156,RING-type E3 ubiquitin transferase MGRN1
2	B (A)	Modulator of smoothened protein	polymer	211	22594.2	1	UniProt (Q8NHV5) Pfam (PF18800)	Homo sapiens (human)	Attenuator of hedgehog
3	C (C)	Nanobody 270	polymer	129	14378.9	1		Lama glama
4	D (B)	Isoform 2 of Multiple epidermal growth factor-like domains protein 8	polymer	477	50593.1	1	UniProt (Q7Z7M0)	Homo sapiens (human)	Multiple EGF-like domains protein 8,Epidermal growth factor-like protein 4,EGF-like protein 4
5	E, F (D)	ZINC ION	non-polymer		65.4	2	Chemie (ZN) PubChem (32051)
6	G (B)	(1~{S},2~{S},4~{S},5'~{R},6~{R},7~{S},8~{R},9~{S},12~{S},13~{R},16~{S})-16-methoxy-5',7,9,13-tetramethyl-spiro[5-oxapentacyclo[10.8.0.0^{2,9}.0^{4,8}.0^{13,18}]icos-18-ene-6,2'-oxane]	non-polymer		428.6	1	Chemie (A1JAX)
7	H, I, J (A, C, B)	water	water		18.0	19	Chemie (HOH)

Sequence modifications

D: 1 - 530 (UniProt: O60291)

PDB	External Database	Details
Glu 317	Arg 317	engineered mutation
Gly 531	-	expression tag
Thr 532	-	expression tag
Lys 533	-	expression tag
His 534	-	expression tag
His 535	-	expression tag
His 536	-	expression tag
His 537	-	expression tag
His 538	-	expression tag
His 539	-	expression tag

A: 1 - 167 (UniProt: Q8NHV5)

PDB	External Database	Details
Gly 168	-	linker
Thr 169	-	linker
Leu 170	-	expression tag
Glu 171	-	expression tag
Val 172	-	expression tag
Leu 173	-	expression tag
Phe 174	-	expression tag
Gln 175	-	expression tag
Gly 176	-	expression tag
Pro 177	-	expression tag
Gly 178	-	linker
Gly 179	-	linker
Ser 180	-	linker
Gly 181	-	linker
Ser 182	-	expression tag
Ala 183	-	expression tag
Trp 184	-	expression tag
Ser 185	-	expression tag
His 186	-	expression tag
Pro 187	-	expression tag
Gln 188	-	expression tag
Phe 189	-	expression tag
Glu 190	-	expression tag
Lys 191	-	expression tag
Gly 192	-	expression tag
Gly 193	-	expression tag
Gly 194	-	expression tag
Ser 195	-	expression tag
Gly 196	-	expression tag
Gly 197	-	expression tag
Gly 198	-	expression tag
Ser 199	-	expression tag
Gly 200	-	expression tag
Gly 201	-	expression tag
Ser 202	-	expression tag
Ala 203	-	expression tag
Trp 204	-	expression tag
Ser 205	-	expression tag
His 206	-	expression tag
Pro 207	-	expression tag
Gln 208	-	expression tag
Phe 209	-	expression tag
Glu 210	-	expression tag
Lys 211	-	expression tag

B: 2312 - 2778 (UniProt: Q7Z7M0)

PDB	External Database	Details
Glu 2605	Ala 2605	engineered mutation
Glu 2606	Lys 2606	engineered mutation
Glu 2607	Gln 2607	engineered mutation
Glu 2608	Ala 2608	engineered mutation
Lys 2609	Leu 2609	engineered mutation
Lys 2610	Asp 2610	engineered mutation
Lys 2611	Gln 2611	engineered mutation
Glu 2613	Gln 2613	engineered mutation
Glu 2615	Gln 2615	engineered mutation
Glu 2616	Arg 2616	engineered mutation
Arg 2618	His 2618	engineered mutation
Arg 2619	Leu 2619	engineered mutation
Arg 2620	Gln 2620	engineered mutation
Glu 2622	Met 2622	engineered mutation
Glu 2623	Thr 2623	engineered mutation
Gly 2779	-	expression tag
Thr 2780	-	expression tag
Glu 2781	-	expression tag
Thr 2782	-	expression tag
Ser 2783	-	expression tag
Gln 2784	-	expression tag
Val 2785	-	expression tag
Ala 2786	-	expression tag
Pro 2787	-	expression tag
Ala 2788	-	expression tag

Contents of the asymmetric unit

Polymers	Number of chains	4
	Total formula weight	147021.3
Non-Polymers*	Number of molecules	3
	Total formula weight	559.5
All*	Total formula weight	147580.7

*Water molecules are not included.