Structure Viewer: 7lu9

> Structure details

Cryo-Em Structure of Dh851.3 Bound to Hiv-1 Ch505 Env

PDB	7lu9
Species	MACACA MULATTA
Method	ELECTRON MICROSCOPY
Resolution	5.6Å
Number of Fvs	6
In complex	True
Light chain type	Lambda
Has constant region	True

> Fv information

This PDB has 6 Fv(s).

Fv Details
Heavy chain	l
Light chain	k
Heavy subgroup	IGHV2
Light subgroup	IGLV2
Species	MACACA MULATTA
In complex?	True
scFv?	False
Has constant domain?	True

Numbered Sequences (chothia)

Heavy chain

1	2	3	4	5	6	7	8	9	10	11	12	13	14	15	16	17	18	19	20	21	22	23	24	25	26	27	28	29	30	31	31A	31B	32	33	34	35	36	37	38	39	40	41	42	43	44	45	46	47	48	49	50	51	52	53	54	55	56	57	58	59	60	61	62	63	64	65	66	67	68	69	70	71	72	73	74	75	76	77	78	79	80	81	82	82A	82B	82C	83	84	85	86	87	88	89	90	91	92	93	94	95	96	97	98	99	100	100A	100B	100C	100D	100E	101	102	103	104	105	106	107	108	109	110	111	112	113
Q	V	T	L	M	E	S	G	P	A	L	V	K	V	T	Q	T	L	A	V	T	C	T	F	S	G	F	S	I	R	D	S	G	K	G	V	A	W	I	R	Q	P	P	G	G	A	L	E	W	L	T	S	I	Y	W	D	D	T	K	Y	H	D	T	S	L	K	P	R	L	T	I	F	R	D	T	S	Q	T	Q	V	I	L	I	L	T	N	M	A	P	L	D	T	A	T	Y	Y	C	G	R	I	N	N	G	G	G	W	K	D	H	I	D	F	W	G	P	G	L	L	V	T	V	S	S

Light chain

3	4	5	6	7	8	9	11	12	13	14	15	16	17	18	19	20	21	22	23	24	25	26	27	28	29	30	32	33	34	35	36	37	38	39	40	41	42	43	44	45	46	47	48	49	50	51	52	53	54	55	56	57	58	59	60	61	62	63	64	65	66	67	68	69	70	71	72	73	74	75	76	77	78	79	80	81	82	83	84	85	86	87	88	89	90	91	92	93	94	95	95A	96	97	98	99	100	101	102	103	104	105	106	107
A	L	T	Q	P	P	S	V	S	K	S	L	E	Q	S	V	T	I	S	C	T	G	T	T	T	G	N	S	V	S	W	Y	Q	C	H	S	G	T	A	P	R	L	L	I	Y	D	V	N	K	R	P	S	G	V	S	D	R	F	S	G	S	K	S	H	N	T	A	S	L	T	I	F	G	L	Q	A	E	D	E	A	D	Y	Y	C	G	S	Y	G	S	G	G	S	L	L	F	G	G	G	T	R	L	T	V	L

Antigen Details
Antigen chains	f
Antigen type	protein
Antigen name	unknown
Antigen species	HUMAN IMMUNODEFICIENCY VIRUS 1
Antigen sequence	ENLWVTVYYGVPVWKEAKTTLFCASDAKAYEKEVHNVWATHACVPTDPNPQEMVLKNVTENFNMWKNDMVDQMHEDVISLWDQSLKPCVKLTPLCVTLNCTNATASNSSIIEGMKNCSFNITTELRDKREKKNALFYKLDIVQLDGNSSQYRLINCNTSVITQACPKVSFDPIPIHYCAPAGYAILKCNNKTFTGTGPCNNVSTVQCTHGIKPVVSTQLLLNGSLAEGEIIIRSENITNNVKTIIVHLNESVKIECTRPNNKTRTSIRIGPGQWFYATGQVIGDIREAYCNINESKWNETLQRVSKKLKEYFPHKNITFQPSSGGDLEITTHSFNCGGEFFYCNTSSLFNRTYMANSTDMANSTETNSTRTITIHCRIKQIINMWQEVGRAMYAPPIAGNITCISNITGLLLTRDGGKNNTETFRPGGGNMKDNWRSELYKYKVVKIEPLGVAPTRCKRRV

CDR Sequences (chothia definition)
CDRH1	GFSIRDSGK
CDRH2	YWDDT
CDRH3	INNGGGWKDHIDF
CDRL1	TGTTTGNSVS
CDRL2	DVNKRPS
CDRL3	GSYGSGGSLL

Orientation Angles (from ABangle)
HL	-48.96°
HC1	73.77°
HC2	121.91°
LC1	120.7°
LC2	87.94°
dc	16.04Å

Fv Details
Heavy chain	m
Light chain	n
Heavy subgroup	IGHV2
Light subgroup	IGLV2
Species	MACACA MULATTA
In complex?	True
scFv?	False
Has constant domain?	True

Numbered Sequences (chothia)

Heavy chain

1	2	3	4	5	6	7	8	9	10	11	12	13	14	15	16	17	18	19	20	21	22	23	24	25	26	27	28	29	30	31	31A	31B	32	33	34	35	36	37	38	39	40	41	42	43	44	45	46	47	48	49	50	51	52	53	54	55	56	57	58	59	60	61	62	63	64	65	66	67	68	69	70	71	72	73	74	75	76	77	78	79	80	81	82	82A	82B	82C	83	84	85	86	87	88	89	90	91	92	93	94	95	96	97	98	99	100	100A	100B	100C	100D	100E	101	102	103	104	105	106	107	108	109	110	111	112	113
Q	V	T	L	M	E	S	G	P	A	L	V	K	V	T	Q	T	L	A	V	T	C	T	F	S	G	F	S	I	R	D	S	G	K	G	V	A	W	I	R	Q	P	P	G	G	A	L	E	W	L	T	S	I	Y	W	D	D	T	K	Y	H	D	T	S	L	K	P	R	L	T	I	F	R	D	T	S	Q	T	Q	V	I	L	I	L	T	N	M	A	P	L	D	T	A	T	Y	Y	C	G	R	I	N	N	G	G	G	W	K	D	H	I	D	F	W	G	P	G	L	L	V	T	V	S	S

Light chain

3	4	5	6	7	8	9	11	12	13	14	15	16	17	18	19	20	21	22	23	24	25	26	27	28	29	30	32	33	34	35	36	37	38	39	40	41	42	43	44	45	46	47	48	49	50	51	52	53	54	55	56	57	58	59	60	61	62	63	64	65	66	67	68	69	70	71	72	73	74	75	76	77	78	79	80	81	82	83	84	85	86	87	88	89	90	91	92	93	94	95	95A	96	97	98	99	100	101	102	103	104	105	106	107
A	L	T	Q	P	P	S	V	S	K	S	L	E	Q	S	V	T	I	S	C	T	G	T	T	T	G	N	S	V	S	W	Y	Q	C	H	S	G	T	A	P	R	L	L	I	Y	D	V	N	K	R	P	S	G	V	S	D	R	F	S	G	S	K	S	H	N	T	A	S	L	T	I	F	G	L	Q	A	E	D	E	A	D	Y	Y	C	G	S	Y	G	S	G	G	S	L	L	F	G	G	G	T	R	L	T	V	L

Antigen Details
Antigen chains	I
Antigen type	carbohydrate
Antigen name	ALPHA-D-MANNOSE
Antigen species	SYNTHETIC CONSTRUCT
Antigen sequence

CDR Sequences (chothia definition)
CDRH1	GFSIRDSGK
CDRH2	YWDDT
CDRH3	INNGGGWKDHIDF
CDRL1	TGTTTGNSVS
CDRL2	DVNKRPS
CDRL3	GSYGSGGSLL

Orientation Angles (from ABangle)
HL	-56.93°
HC1	73.35°
HC2	119.59°
LC1	122.61°
LC2	84.79°
dc	16.28Å

Fv Details
Heavy chain	i
Light chain	j
Heavy subgroup	IGHV2
Light subgroup	IGLV2
Species	MACACA MULATTA
In complex?	True
scFv?	False
Has constant domain?	True

Numbered Sequences (chothia)

Heavy chain

1	2	3	4	5	6	7	8	9	10	11	12	13	14	15	16	17	18	19	20	21	22	23	24	25	26	27	28	29	30	31	31A	31B	32	33	34	35	36	37	38	39	40	41	42	43	44	45	46	47	48	49	50	51	52	53	54	55	56	57	58	59	60	61	62	63	64	65	66	67	68	69	70	71	72	73	74	75	76	77	78	79	80	81	82	82A	82B	82C	83	84	85	86	87	88	89	90	91	92	93	94	95	96	97	98	99	100	100A	100B	100C	100D	100E	101	102	103	104	105	106	107	108	109	110	111	112	113
Q	V	T	L	M	E	S	G	P	A	L	V	K	V	T	Q	T	L	A	V	T	C	T	F	S	G	F	S	I	R	D	S	G	K	G	V	A	W	I	R	Q	P	P	G	G	A	L	E	W	L	T	S	I	Y	W	D	D	T	K	Y	H	D	T	S	L	K	P	R	L	T	I	F	R	D	T	S	Q	T	Q	V	I	L	I	L	T	N	M	A	P	L	D	T	A	T	Y	Y	C	G	R	I	N	N	G	G	G	W	K	D	H	I	D	F	W	G	P	G	L	L	V	T	V	S	S

Light chain

3	4	5	6	7	8	9	11	12	13	14	15	16	17	18	19	20	21	22	23	24	25	26	27	28	29	30	32	33	34	35	36	37	38	39	40	41	42	43	44	45	46	47	48	49	50	51	52	53	54	55	56	57	58	59	60	61	62	63	64	65	66	67	68	69	70	71	72	73	74	75	76	77	78	79	80	81	82	83	84	85	86	87	88	89	90	91	92	93	94	95	95A	96	97	98	99	100	101	102	103	104	105	106	107
A	L	T	Q	P	P	S	V	S	K	S	L	E	Q	S	V	T	I	S	C	T	G	T	T	T	G	N	S	V	S	W	Y	Q	C	H	S	G	T	A	P	R	L	L	I	Y	D	V	N	K	R	P	S	G	V	S	D	R	F	S	G	S	K	S	H	N	T	A	S	L	T	I	F	G	L	Q	A	E	D	E	A	D	Y	Y	C	G	S	Y	G	S	G	G	S	L	L	F	G	G	G	T	R	L	T	V	L

Antigen Details
Antigen chains	B
Antigen type	carbohydrate
Antigen name	ALPHA-D-MANNOSE
Antigen species	SYNTHETIC CONSTRUCT
Antigen sequence

CDR Sequences (chothia definition)
CDRH1	GFSIRDSGK
CDRH2	YWDDT
CDRH3	INNGGGWKDHIDF
CDRL1	TGTTTGNSVS
CDRL2	DVNKRPS
CDRL3	GSYGSGGSLL

Orientation Angles (from ABangle)
HL	-45.52°
HC1	72.41°
HC2	122.94°
LC1	123.52°
LC2	92.21°
dc	16.61Å

Fv Details
Heavy chain	p
Light chain	o
Heavy subgroup	IGHV2
Light subgroup	IGLV2
Species	MACACA MULATTA
In complex?	True
scFv?	False
Has constant domain?	True

Numbered Sequences (chothia)

Heavy chain

1	2	3	4	5	6	7	8	9	10	11	12	13	14	15	16	17	18	19	20	21	22	23	24	25	26	27	28	29	30	31	31A	31B	32	33	34	35	36	37	38	39	40	41	42	43	44	45	46	47	48	49	50	51	52	53	54	55	56	57	58	59	60	61	62	63	64	65	66	67	68	69	70	71	72	73	74	75	76	77	78	79	80	81	82	82A	82B	82C	83	84	85	86	87	88	89	90	91	92	93	94	95	96	97	98	99	100	100A	100B	100C	100D	100E	101	102	103	104	105	106	107	108	109	110	111	112	113
Q	V	T	L	M	E	S	G	P	A	L	V	K	V	T	Q	T	L	A	V	T	C	T	F	S	G	F	S	I	R	D	S	G	K	G	V	A	W	I	R	Q	P	P	G	G	A	L	E	W	L	T	S	I	Y	W	D	D	T	K	Y	H	D	T	S	L	K	P	R	L	T	I	F	R	D	T	S	Q	T	Q	V	I	L	I	L	T	N	M	A	P	L	D	T	A	T	Y	Y	C	G	R	I	N	N	G	G	G	W	K	D	H	I	D	F	W	G	P	G	L	L	V	T	V	S	S

Light chain

3	4	5	6	7	8	9	11	12	13	14	15	16	17	18	19	20	21	22	23	24	25	26	27	28	29	30	32	33	34	35	36	37	38	39	40	41	42	43	44	45	46	47	48	49	50	51	52	53	54	55	56	57	58	59	60	61	62	63	64	65	66	67	68	69	70	71	72	73	74	75	76	77	78	79	80	81	82	83	84	85	86	87	88	89	90	91	92	93	94	95	95A	96	97	98	99	100	101	102	103	104	105	106	107
A	L	T	Q	P	P	S	V	S	K	S	L	E	Q	S	V	T	I	S	C	T	G	T	T	T	G	N	S	V	S	W	Y	Q	C	H	S	G	T	A	P	R	L	L	I	Y	D	V	N	K	R	P	S	G	V	S	D	R	F	S	G	S	K	S	H	N	T	A	S	L	T	I	F	G	L	Q	A	E	D	E	A	D	Y	Y	C	G	S	Y	G	S	G	G	S	L	L	F	G	G	G	T	R	L	T	V	L

Antigen Details
Antigen chains	P
Antigen type	carbohydrate
Antigen name	BETA-D-MANNOSE
Antigen species	SYNTHETIC CONSTRUCT
Antigen sequence

CDR Sequences (chothia definition)
CDRH1	GFSIRDSGK
CDRH2	YWDDT
CDRH3	INNGGGWKDHIDF
CDRL1	TGTTTGNSVS
CDRL2	DVNKRPS
CDRL3	GSYGSGGSLL

Orientation Angles (from ABangle)
HL	-50.77°
HC1	71.74°
HC2	120.81°
LC1	119.09°
LC2	85.9°
dc	16.73Å

Fv Details
Heavy chain	h
Light chain	g
Heavy subgroup	IGHV2
Light subgroup	IGLV2
Species	MACACA MULATTA
In complex?	True
scFv?	False
Has constant domain?	True

Numbered Sequences (chothia)

Heavy chain

1	2	3	4	5	6	7	8	9	10	11	12	13	14	15	16	17	18	19	20	21	22	23	24	25	26	27	28	29	30	31	31A	31B	32	33	34	35	36	37	38	39	40	41	42	43	44	45	46	47	48	49	50	51	52	53	54	55	56	57	58	59	60	61	62	63	64	65	66	67	68	69	70	71	72	73	74	75	76	77	78	79	80	81	82	82A	82B	82C	83	84	85	86	87	88	89	90	91	92	93	94	95	96	97	98	99	100	100A	100B	100C	100D	100E	101	102	103	104	105	106	107	108	109	110	111	112	113
Q	V	T	L	M	E	S	G	P	A	L	V	K	V	T	Q	T	L	A	V	T	C	T	F	S	G	F	S	I	R	D	S	G	K	G	V	A	W	I	R	Q	P	P	G	G	A	L	E	W	L	T	S	I	Y	W	D	D	T	K	Y	H	D	T	S	L	K	P	R	L	T	I	F	R	D	T	S	Q	T	Q	V	I	L	I	L	T	N	M	A	P	L	D	T	A	T	Y	Y	C	G	R	I	N	N	G	G	G	W	K	D	H	I	D	F	W	G	P	G	L	L	V	T	V	S	S

Light chain

3	4	5	6	7	8	9	11	12	13	14	15	16	17	18	19	20	21	22	23	24	25	26	27	28	29	30	32	33	34	35	36	37	38	39	40	41	42	43	44	45	46	47	48	49	50	51	52	53	54	55	56	57	58	59	60	61	62	63	64	65	66	67	68	69	70	71	72	73	74	75	76	77	78	79	80	81	82	83	84	85	86	87	88	89	90	91	92	93	94	95	95A	96	97	98	99	100	101	102	103	104	105	106	107
A	L	T	Q	P	P	S	V	S	K	S	L	E	Q	S	V	T	I	S	C	T	G	T	T	T	G	N	S	V	S	W	Y	Q	C	H	S	G	T	A	P	R	L	L	I	Y	D	V	N	K	R	P	S	G	V	S	D	R	F	S	G	S	K	S	H	N	T	A	S	L	T	I	F	G	L	Q	A	E	D	E	A	D	Y	Y	C	G	S	Y	G	S	G	G	S	L	L	F	G	G	G	T	R	L	T	V	L

Antigen Details
Antigen chains	e
Antigen type	protein
Antigen name	unknown
Antigen species	HUMAN IMMUNODEFICIENCY VIRUS 1
Antigen sequence	ENLWVTVYYGVPVWKEAKTTLFCASDAKAYEKEVHNVWATHACVPTDPNPQEMVLKNVTENFNMWKNDMVDQMHEDVISLWDQSLKPCVKLTPLCVTLNCTNATASNSSIIEGMKNCSFNITTELRDKREKKNALFYKLDIVQLDGNSSQYRLINCNTSVITQACPKVSFDPIPIHYCAPAGYAILKCNNKTFTGTGPCNNVSTVQCTHGIKPVVSTQLLLNGSLAEGEIIIRSENITNNVKTIIVHLNESVKIECTRPNNKTRTSIRIGPGQWFYATGQVIGDIREAYCNINESKWNETLQRVSKKLKEYFPHKNITFQPSSGGDLEITTHSFNCGGEFFYCNTSSLFNRTYMANSTDMANSTETNSTRTITIHCRIKQIINMWQEVGRAMYAPPIAGNITCISNITGLLLTRDGGKNNTETFRPGGGNMKDNWRSELYKYKVVKIEPLGVAPTRCKRRV

CDR Sequences (chothia definition)
CDRH1	GFSIRDSGK
CDRH2	YWDDT
CDRH3	INNGGGWKDHIDF
CDRL1	TGTTTGNSVS
CDRL2	DVNKRPS
CDRL3	GSYGSGGSLL

Orientation Angles (from ABangle)
HL	-47.6°
HC1	73.24°
HC2	118.62°
LC1	119.08°
LC2	87.68°
dc	16.32Å

Fv Details
Heavy chain	q
Light chain	r
Heavy subgroup	IGHV2
Light subgroup	IGLV2
Species	MACACA MULATTA
In complex?	True
scFv?	False
Has constant domain?	True

Numbered Sequences (chothia)

Heavy chain

1	2	3	4	5	6	7	8	9	10	11	12	13	14	15	16	17	18	19	20	21	22	23	24	25	26	27	28	29	30	31	31A	31B	32	33	34	35	36	37	38	39	40	41	42	43	44	45	46	47	48	49	50	51	52	53	54	55	56	57	58	59	60	61	62	63	64	65	66	67	68	69	70	71	72	73	74	75	76	77	78	79	80	81	82	82A	82B	82C	83	84	85	86	87	88	89	90	91	92	93	94	95	96	97	98	99	100	100A	100B	100C	100D	100E	101	102	103	104	105	106	107	108	109	110	111	112	113
Q	V	T	L	M	E	S	G	P	A	L	V	K	V	T	Q	T	L	A	V	T	C	T	F	S	G	F	S	I	R	D	S	G	K	G	V	A	W	I	R	Q	P	P	G	G	A	L	E	W	L	T	S	I	Y	W	D	D	T	K	Y	H	D	T	S	L	K	P	R	L	T	I	F	R	D	T	S	Q	T	Q	V	I	L	I	L	T	N	M	A	P	L	D	T	A	T	Y	Y	C	G	R	I	N	N	G	G	G	W	K	D	H	I	D	F	W	G	P	G	L	L	V	T	V	S	S

Light chain

3	4	5	6	7	8	9	11	12	13	14	15	16	17	18	19	20	21	22	23	24	25	26	27	28	29	30	32	33	34	35	36	37	38	39	40	41	42	43	44	45	46	47	48	49	50	51	52	53	54	55	56	57	58	59	60	61	62	63	64	65	66	67	68	69	70	71	72	73	74	75	76	77	78	79	80	81	82	83	84	85	86	87	88	89	90	91	92	93	94	95	95A	96	97	98	99	100	101	102	103	104	105	106	107
A	L	T	Q	P	P	S	V	S	K	S	L	E	Q	S	V	T	I	S	C	T	G	T	T	T	G	N	S	V	S	W	Y	Q	C	H	S	G	T	A	P	R	L	L	I	Y	D	V	N	K	R	P	S	G	V	S	D	R	F	S	G	S	K	S	H	N	T	A	S	L	T	I	F	G	L	Q	A	E	D	E	A	D	Y	Y	C	G	S	Y	G	S	G	G	S	L	L	F	G	G	G	T	R	L	T	V	L

Antigen Details
Antigen chains	d
Antigen type	protein
Antigen name	unknown
Antigen species	HUMAN IMMUNODEFICIENCY VIRUS 1
Antigen sequence	ENLWVTVYYGVPVWKEAKTTLFCASDAKAYEKEVHNVWATHACVPTDPNPQEMVLKNVTENFNMWKNDMVDQMHEDVISLWDQSLKPCVKLTPLCVTLNCTNATASNSSIIEGMKNCSFNITTELRDKREKKNALFYKLDIVQLDGNSSQYRLINCNTSVITQACPKVSFDPIPIHYCAPAGYAILKCNNKTFTGTGPCNNVSTVQCTHGIKPVVSTQLLLNGSLAEGEIIIRSENITNNVKTIIVHLNESVKIECTRPNNKTRTSIRIGPGQWFYATGQVIGDIREAYCNINESKWNETLQRVSKKLKEYFPHKNITFQPSSGGDLEITTHSFNCGGEFFYCNTSSLFNRTYMANSTDMANSTETNSTRTITIHCRIKQIINMWQEVGRAMYAPPIAGNITCISNITGLLLTRDGGKNNTETFRPGGGNMKDNWRSELYKYKVVKIEPLGVAPTRCKRRV

CDR Sequences (chothia definition)
CDRH1	GFSIRDSGK
CDRH2	YWDDT
CDRH3	INNGGGWKDHIDF
CDRL1	TGTTTGNSVS
CDRL2	DVNKRPS
CDRL3	GSYGSGGSLL

Orientation Angles (from ABangle)
HL	-48.74°
HC1	73.83°
HC2	117.68°
LC1	117.66°
LC2	85.87°
dc	16.17Å

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Chothia-numbered structure	Download
IMGT-numbered structure	Download
Non-annotated structure from the PDB	Download
Summary file for this antibody	Download

Schneider, C., Raybould, M.I.J., Deane, C.M. (2022) SAbDab in the Age of Biotherapeutics: Updates including SAbDab-Nano, the Nanobody Structure Tracker. Nucleic Acids Res. 50(D1):D1368-D1372 [link]

SAbDab paper: Dunbar, J., Krawczyk, K. et al (2014). Nucleic Acids Res. 42. D1140-D1146 [link]

Thera-SAbDab paper: Raybould, M.I.J., Marks, C. et al (2019). Nucleic Acids Res. gkz827 [link]

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