9AXK

HIV 16055.v8.3 SOSIP Env in Complex with Base and N611 Epitope pAbs from Rabbit 2463

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 (M, D, I)	Surface protein gp120	polymer	514	58156.3	3	UniProt (A1EAI1) Pfam (PF00516)	Human immunodeficiency virus 1	HIV 16055.v8.3 SOSIP gp120
2	D (F)	Rabbit Base Epitope Polyclonal Antibody - Predicted Light Chain	polymer	109	9294.4	1		Oryctolagus cuniculus
3	E (H)	Rabbit Base Epitope Polyclonal Antibody - Predicted Heavy Chain	polymer	124	10571.0	1		Oryctolagus cuniculus
4	F (A)	Rabbit N611 Epitope Polyclonal Antibody - Predicted Light Chain	polymer	104	8868.9	1		Oryctolagus cuniculus
5	G (B)	Rabbit N611 Epitope Polyclonal Antibody - Predicted Heavy Chain	polymer	112	9549.8	1		Oryctolagus cuniculus
6	H, I, J (N, C, J)	Transmembrane protein gp41	polymer	155	17430.7	3	UniProt (A0A0B5KUY7) Pfam (PF00517) UniProt (by SIFTS) (A0A866DY39)	Human immunodeficiency virus 1	HIV 16055.v8.3 SOSIP gp41
7	AA, BA, K, L, O... (a, b, E, G, O...)	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		424.4	14	In PDB GlyTouCan (G42666HT)
8	M, S, W (K, S, W)	alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		910.8	3	In PDB GlyTouCan (G22768VO)
9	N (L)	beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		586.5	1	In PDB GlyTouCan (G15407YE)
10	AB, BB, CA, CB, DA... (I, M, J, D)	2-acetamido-2-deoxy-beta-D-glucopyranose	non-polymer		221.2	31	Chemie (NAG)

Sequence modifications

M, D, I: 31 - 512 (UniProt: A1EAI1)

PDB	External Database	Details
Met -4	-	initiating methionine
Asp -3	-	expression tag
Ala -2	-	expression tag
Met -1	-	expression tag
Lys 0	-	expression tag
Arg 1	-	expression tag
Gly 2	-	expression tag
Leu 3	-	expression tag
Cys 4	-	expression tag
Cys 5	-	expression tag
Val 6	-	expression tag
Leu 7	-	expression tag
Leu 8	-	expression tag
Leu 9	-	expression tag
Cys 10	-	expression tag
Gly 11	-	expression tag
Ala 12	-	expression tag
Val 13	-	expression tag
Phe 14	-	expression tag
Val 15	-	expression tag
Ser 16	-	expression tag
Pro 17	-	expression tag
Ser 18	-	expression tag
Gln 19	-	expression tag
Glu 20	-	expression tag
Ile 21	-	expression tag
His 22	-	expression tag
Ala 23	-	expression tag
Arg 24	-	expression tag
Phe 25	-	expression tag
Arg 26	-	expression tag
Arg 27	-	expression tag
Gly 28	-	expression tag
Ala 29	-	expression tag
Arg 30	-	expression tag
Asp 47	Glu 44	conflict
Glu 49	Lys 46	conflict
Lys 65	Val 62	conflict
Arg 66	His 63	conflict
Cys 73	Ala 70	conflict
Leu 165	Ile 159	conflict
Val 308	Arg 302	conflict
Trp 318	Thr 312	conflict
Tyr 321	Ala 315	conflict
Gln 364	Ser 359	conflict
Arg 430	Glu 424	conflict
Gln 433	Arg 427	conflict
Arg 501	Ala 495	conflict
Cys 502	Ala 496	conflict
Arg 510	Glu 504	conflict
Arg 511	Lys 505	conflict

N, C, J: 511 - 665 (UniProt: A0A0B5KUY7)

PDB	External Database	Details
Arg 511	Lys 505	conflict
Ser 520	Ile 514	conflict
Pro 560	Ile 554	conflict
Cys 562	Ala 556	conflict
Asp 569	Leu 563	conflict
Gly 570	Thr 564	conflict
His 571	Val 565	conflict
His 586	Arg 580	conflict
Cys 606	Thr 600	conflict

Contents of the asymmetric unit

Polymers	Number of chains	10
	Total formula weight	265045.0
Branched	Number of molecules	18
	Total formula weight	9260.6
Non-Polymers*	Number of molecules	31
	Total formula weight	6857.4
All*	Total formula weight	281163.1

*Water molecules are not included.