9DNS

Cryo-EM structure of Tom1-UBE2D2-ubiquitin complex

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A (A)	E3 ubiquitin-protein ligase TOM1	polymer	3292	377412.5	1	UniProt (Q03280) Pfam (PF06012) Pfam (PF06025) Pfam (PF14377) Pfam (PF00632)	Saccharomyces cerevisiae (brewer's yeast)	HECT-type E3 ubiquitin transferase TOM1,Suppressor of snRNA protein 2,Temperature-dependent organization in mitotic nucleus protein 1
2	B, C (D, E)	Ubiquitin-conjugating enzyme E2 D2	polymer	149	16899.4	2	UniProt (P62837) Pfam (PF00179)	Homo sapiens (human)	(E3-independent) E2 ubiquitin-conjugating enzyme D2,E2 ubiquitin-conjugating enzyme D2,Ubiquitin carrier protein D2,Ubiquitin-conjugating enzyme E2(17)KB 2,Ubiquitin-conjugating enzyme E2-17 kDa 2,Ubiquitin-protein ligase D2,p53-regulated ubiquitin-conjugating enzyme 1
3	D, E, F, G (U, V, W, X)	Ubiquitin	polymer	76	8576.8	4	UniProt (P0CG48) Pfam (PF00240)	Homo sapiens (human)

Sequence modifications

A: 1 - 3268 (UniProt: Q03280)

PDB	External Database	Details
Met -23	-	expression tag
Asp -22	-	expression tag
Trp -21	-	expression tag
Ser -20	-	expression tag
His -19	-	expression tag
Pro -18	-	expression tag
Gln -17	-	expression tag
Phe -16	-	expression tag
Glu -15	-	expression tag
Lys -14	-	expression tag
Ser -13	-	expression tag
Ala -12	-	expression tag
Val -11	-	expression tag
Asp -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

D, E: 1 - 147 (UniProt: P62837)

PDB	External Database	Details
Gly -1	-	expression tag
Ser 0	-	expression tag

Contents of the asymmetric unit

Polymers	Number of chains	7
	Total formula weight	445518.5
All*	Total formula weight	445518.5

*Water molecules are not included.