9DDA

Cryo-EM structure of gB-Ecto.516P.531E.DS, a prefusion-stabilized HSV-1 glycoprotein B extracellular domain

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A, B, C (A, B, C)	Glycoprotein B	polymer	808	90326.2	3	UniProt (A1Z0P6) Pfam (PF17416) Pfam (PF17417) Pfam (PF00606)	Human alphaherpesvirus 1 (Herpes simplex virus type 1)	UL27
2	D, F, H (D, F, H)	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		424.4	3	In PDB GlyTouCan (G42666HT)
3	E, G, I (E, G, I)	beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		586.5	3	In PDB GlyTouCan (G15407YE)
4	J, K, L, M, N... (A, B, C)	2-acetamido-2-deoxy-beta-D-glucopyranose	non-polymer		221.2	6	Chemie (NAG)

Sequence modifications

A, B, C: 1 - 728 (UniProt: A1Z0P6)

PDB	External Database	Details
Cys 240	Ala 240	conflict
Pro 516	His 516	engineered mutation
Glu 531	Leu 531	engineered mutation
Cys 607	Glu 607	conflict
Gly 729	-	expression tag
Ser 730	-	expression tag
Gly 731	-	expression tag
Tyr 732	-	expression tag
Ile 733	-	expression tag
Pro 734	-	expression tag
Glu 735	-	expression tag
Ala 736	-	expression tag
Pro 737	-	expression tag
Arg 738	-	expression tag
Asp 739	-	expression tag
Gly 740	-	expression tag
Gln 741	-	expression tag
Ala 742	-	expression tag
Tyr 743	-	expression tag
Val 744	-	expression tag
Arg 745	-	expression tag
Lys 746	-	expression tag
Asp 747	-	expression tag
Gly 748	-	expression tag
Glu 749	-	expression tag
Trp 750	-	expression tag
Val 751	-	expression tag
Leu 752	-	expression tag
Leu 753	-	expression tag
Ser 754	-	expression tag
Thr 755	-	expression tag
Phe 756	-	expression tag
Leu 757	-	expression tag
Gly 758	-	expression tag
Arg 759	-	expression tag
Ser 760	-	expression tag
Leu 761	-	expression tag
Glu 762	-	expression tag
Val 763	-	expression tag
Leu 764	-	expression tag
Phe 765	-	expression tag
Gln 766	-	expression tag
Gly 767	-	expression tag
Pro 768	-	expression tag
Gly 769	-	expression tag
His 770	-	expression tag
His 771	-	expression tag
His 772	-	expression tag
His 773	-	expression tag
His 774	-	expression tag
His 775	-	expression tag
His 776	-	expression tag
His 777	-	expression tag
Ser 778	-	expression tag
Ala 779	-	expression tag
Trp 780	-	expression tag
Ser 781	-	expression tag
His 782	-	expression tag
Pro 783	-	expression tag
Gln 784	-	expression tag
Phe 785	-	expression tag
Glu 786	-	expression tag
Lys 787	-	expression tag
Gly 788	-	expression tag
Gly 789	-	expression tag
Gly 790	-	expression tag
Ser 791	-	expression tag
Gly 792	-	expression tag
Gly 793	-	expression tag
Gly 794	-	expression tag
Gly 795	-	expression tag
Ser 796	-	expression tag
Gly 797	-	expression tag
Gly 798	-	expression tag
Ser 799	-	expression tag
Ala 800	-	expression tag
Trp 801	-	expression tag
Ser 802	-	expression tag
His 803	-	expression tag
Pro 804	-	expression tag
Gln 805	-	expression tag
Phe 806	-	expression tag
Glu 807	-	expression tag
Lys 808	-	expression tag

Contents of the asymmetric unit

Polymers	Number of chains	3
	Total formula weight	270978.6
Branched	Number of molecules	6
	Total formula weight	3032.8
Non-Polymers*	Number of molecules	6
	Total formula weight	1327.2
All*	Total formula weight	275338.7

*Water molecules are not included.