9DD9

Cryo-EM structure of neutralizing human antibody D48 in complex with HSV-1 glycoprotein B trimer gB-Ecto.516P.531E

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, B, C (A, B, C)	Glycoprotein B	polymer	808	90320.1	3	UniProt (A1Z0P7) Pfam (PF17416) Pfam (PF17417) Pfam (PF00606)	Human alphaherpesvirus 1 (Herpes simplex virus type 1)
2	D, E, F (H, I, J)	D48 heavy chain	polymer	123	13590.4	3		Homo sapiens
3	G, H, I (L, M, N)	D48 light chain	polymer	107	11716.1	3		Homo sapiens
4	J, L, N (D, F, K)	alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		1235.1	3	In PDB GlyTouCan (G55220VL)
5	K, M, O (E, G, O)	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		424.4	3	In PDB GlyTouCan (G42666HT)
6	P, Q, R, S, T... (A, B, C)	2-acetamido-2-deoxy-beta-D-glucopyranose	non-polymer		221.2	6	Chemie (NAG)

Sequence modifications

A, B, C: 1 - 732 (UniProt: A1Z0P7)

PDB	External Database	Details
Pro 516	His 516	conflict
Glu 531	Leu 531	conflict
Gly 729	Ala 729	conflict
Ser 730	Ala 730	conflict
Gly 731	Met 731	conflict
Tyr 732	Phe 732	conflict
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	9
	Total formula weight	346880.0
Branched	Number of molecules	6
	Total formula weight	4978.5
Non-Polymers*	Number of molecules	6
	Total formula weight	1327.2
All*	Total formula weight	353185.7

*Water molecules are not included.