Structure Viewer: 6jri

> Structure details

Crystal Structure of Nanobody

PDB	6jri
Species	VICUGNA PACOS
Method	X-RAY DIFFRACTION
Resolution	3.101Å
Number of Fvs	8
In complex	True
Light chain type
Has constant region	False

> Fv information

This PDB has 8 Fv(s).

Fv Details
Heavy chain	E
Light chain
Heavy subgroup	IGHV1
Light subgroup
Species	VICUGNA PACOS
In complex?	True
scFv?	False
Has constant domain?	False

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	32	33	34	35	36	37	38	39	40	41	42	43	43A	43B	43C	44	45	46	47	48	49	50	51	52	52A	52B	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	100F	100G	100H	100I	101	102	103	104	105	106	107	108	109	110	111	112	113
D	V	Q	L	V	E	S	G	G	G	L	V	Q	A	G	G	S	L	R	L	S	C	T	A	S	G	F	T	F	D	D	Y	T	M	G	W	F	R	Q	A	P	G	K	E	R	E	G	V	S	Y	T	G	W	S	G	S	M	S	G	S	T	T	Y	Y	T	D	S	V	K	G	R	F	T	I	S	R	D	N	A	K	N	T	L	Y	L	Q	M	N	S	L	K	P	E	D	T	A	M	Y	Y	C	A	A	A	R	Y	R	G	I	G	S	Q	V	R	W	T	D	F	I	Y	W	G	Q	G	T	Q	V	T	V	S	S

Antigen Details
Antigen chains
Antigen type
Antigen name
Antigen species	SYNTHETIC CONSTRUCT
Antigen sequence

CDR Sequences (chothia definition)
CDRH1	GFTFDDY
CDRH2	GSMSGST
CDRH3	ARYRGIGSQVRWTDFIY

Fv Details
Heavy chain	H
Light chain
Heavy subgroup	IGHV1
Light subgroup
Species	VICUGNA PACOS
In complex?	True
scFv?	False
Has constant domain?	False

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	32	33	34	35	36	37	38	39	40	41	42	43	43A	43B	43C	44	45	46	47	48	49	50	51	52	52A	52B	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	100F	100G	100H	100I	101	102	103	104	105	106	107	108	109	110	111	112	113
D	V	Q	L	V	E	S	G	G	G	L	V	Q	A	G	G	S	L	R	L	S	C	T	A	S	G	F	T	F	D	D	Y	T	M	G	W	F	R	Q	A	P	G	K	E	R	E	G	V	S	Y	T	G	W	S	G	S	M	S	G	S	T	T	Y	Y	T	D	S	V	K	G	R	F	T	I	S	R	D	N	A	K	N	T	L	Y	L	Q	M	N	S	L	K	P	E	D	T	A	M	Y	Y	C	A	A	A	R	Y	R	G	I	G	S	Q	V	R	W	T	D	F	I	Y	W	G	Q	G	T	Q	V	T	V	S	S

Antigen Details
Antigen chains
Antigen type
Antigen name
Antigen species	SYNTHETIC CONSTRUCT
Antigen sequence

CDR Sequences (chothia definition)
CDRH1	GFTFDDY
CDRH2	GSMSGST
CDRH3	ARYRGIGSQVRWTDFIY

Fv Details
Heavy chain	C
Light chain
Heavy subgroup	IGHV1
Light subgroup
Species	VICUGNA PACOS
In complex?	True
scFv?	False
Has constant domain?	False

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	32	33	34	35	36	37	38	39	40	41	42	43	43A	43B	43C	44	45	46	47	48	49	50	51	52	52A	52B	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	100F	100G	100H	100I	101	102	103	104	105	106	107	108	109	110	111	112	113
D	V	Q	L	V	E	S	G	G	G	L	V	Q	A	G	G	S	L	R	L	S	C	T	A	S	G	F	T	F	D	D	Y	T	M	G	W	F	R	Q	A	P	G	K	E	R	E	G	V	S	Y	T	G	W	S	G	S	M	S	G	S	T	T	Y	Y	T	D	S	V	K	G	R	F	T	I	S	R	D	N	A	K	N	T	L	Y	L	Q	M	N	S	L	K	P	E	D	T	A	M	Y	Y	C	A	A	A	R	Y	R	G	I	G	S	Q	V	R	W	T	D	F	I	Y	W	G	Q	G	T	Q	V	T	V	S	S

Antigen Details
Antigen chains
Antigen type
Antigen name
Antigen species	SYNTHETIC CONSTRUCT
Antigen sequence

CDR Sequences (chothia definition)
CDRH1	GFTFDDY
CDRH2	GSMSGST
CDRH3	ARYRGIGSQVRWTDFIY

Fv Details
Heavy chain	F
Light chain
Heavy subgroup	IGHV1
Light subgroup
Species	VICUGNA PACOS
In complex?	True
scFv?	False
Has constant domain?	False

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	32	33	34	35	36	37	38	39	40	41	42	43	43A	43B	43C	44	45	46	47	48	49	50	51	52	52A	52B	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	100F	100G	100H	100I	101	102	103	104	105	106	107	108	109	110	111	112	113
D	V	Q	L	V	E	S	G	G	G	L	V	Q	A	G	G	S	L	R	L	S	C	T	A	S	G	F	T	F	D	D	Y	T	M	G	W	F	R	Q	A	P	G	K	E	R	E	G	V	S	Y	T	G	W	S	G	S	M	S	G	S	T	T	Y	Y	T	D	S	V	K	G	R	F	T	I	S	R	D	N	A	K	N	T	L	Y	L	Q	M	N	S	L	K	P	E	D	T	A	M	Y	Y	C	A	A	A	R	Y	R	G	I	G	S	Q	V	R	W	T	D	F	I	Y	W	G	Q	G	T	Q	V	T	V	S	S

Antigen Details
Antigen chains
Antigen type
Antigen name
Antigen species	SYNTHETIC CONSTRUCT
Antigen sequence

CDR Sequences (chothia definition)
CDRH1	GFTFDDY
CDRH2	GSMSGST
CDRH3	ARYRGIGSQVRWTDFIY

Fv Details
Heavy chain	A
Light chain
Heavy subgroup	IGHV1
Light subgroup
Species	VICUGNA PACOS
In complex?	True
scFv?	False
Has constant domain?	False

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	32	33	34	35	36	37	38	39	40	41	42	43	43A	43B	43C	44	45	46	47	48	49	50	51	52	52A	52B	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	100F	100G	100H	100I	101	102	103	104	105	106	107	108	109	110	111	112	113
D	V	Q	L	V	E	S	G	G	G	L	V	Q	A	G	G	S	L	R	L	S	C	T	A	S	G	F	T	F	D	D	Y	T	M	G	W	F	R	Q	A	P	G	K	E	R	E	G	V	S	Y	T	G	W	S	G	S	M	S	G	S	T	T	Y	Y	T	D	S	V	K	G	R	F	T	I	S	R	D	N	A	K	N	T	L	Y	L	Q	M	N	S	L	K	P	E	D	T	A	M	Y	Y	C	A	A	A	R	Y	R	G	I	G	S	Q	V	R	W	T	D	F	I	Y	W	G	Q	G	T	Q	V	T	V	S	S

Antigen Details
Antigen chains
Antigen type
Antigen name
Antigen species	SYNTHETIC CONSTRUCT
Antigen sequence

CDR Sequences (chothia definition)
CDRH1	GFTFDDY
CDRH2	GSMSGST
CDRH3	ARYRGIGSQVRWTDFIY

Fv Details
Heavy chain	D
Light chain
Heavy subgroup	IGHV1
Light subgroup
Species	VICUGNA PACOS
In complex?	True
scFv?	False
Has constant domain?	False

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	32	33	34	35	36	37	38	39	40	41	42	43	43A	43B	43C	44	45	46	47	48	49	50	51	52	52A	52B	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	100F	100G	100H	100I	101	102	103	104	105	106	107	108	109	110	111	112	113
D	V	Q	L	V	E	S	G	G	G	L	V	Q	A	G	G	S	L	R	L	S	C	T	A	S	G	F	T	F	D	D	Y	T	M	G	W	F	R	Q	A	P	G	K	E	R	E	G	V	S	Y	T	G	W	S	G	S	M	S	G	S	T	T	Y	Y	T	D	S	V	K	G	R	F	T	I	S	R	D	N	A	K	N	T	L	Y	L	Q	M	N	S	L	K	P	E	D	T	A	M	Y	Y	C	A	A	A	R	Y	R	G	I	G	S	Q	V	R	W	T	D	F	I	Y	W	G	Q	G	T	Q	V	T	V	S	S

Antigen Details
Antigen chains
Antigen type
Antigen name
Antigen species	SYNTHETIC CONSTRUCT
Antigen sequence

CDR Sequences (chothia definition)
CDRH1	GFTFDDY
CDRH2	GSMSGST
CDRH3	ARYRGIGSQVRWTDFIY

Fv Details
Heavy chain	G
Light chain
Heavy subgroup	IGHV1
Light subgroup
Species	VICUGNA PACOS
In complex?	True
scFv?	False
Has constant domain?	False

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	32	33	34	35	36	37	38	39	40	41	42	43	43A	43B	43C	44	45	46	47	48	49	50	51	52	52A	52B	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	100F	100G	100H	100I	101	102	103	104	105	106	107	108	109	110	111	112	113
D	V	Q	L	V	E	S	G	G	G	L	V	Q	A	G	G	S	L	R	L	S	C	T	A	S	G	F	T	F	D	D	Y	T	M	G	W	F	R	Q	A	P	G	K	E	R	E	G	V	S	Y	T	G	W	S	G	S	M	S	G	S	T	T	Y	Y	T	D	S	V	K	G	R	F	T	I	S	R	D	N	A	K	N	T	L	Y	L	Q	M	N	S	L	K	P	E	D	T	A	M	Y	Y	C	A	A	A	R	Y	R	G	I	G	S	Q	V	R	W	T	D	F	I	Y	W	G	Q	G	T	Q	V	T	V	S	S

Antigen Details
Antigen chains
Antigen type
Antigen name
Antigen species	SYNTHETIC CONSTRUCT
Antigen sequence

CDR Sequences (chothia definition)
CDRH1	GFTFDDY
CDRH2	GSMSGST
CDRH3	ARYRGIGSQVRWTDFIY

Fv Details
Heavy chain	B
Light chain
Heavy subgroup	IGHV1
Light subgroup
Species	VICUGNA PACOS
In complex?	True
scFv?	False
Has constant domain?	False

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	32	33	34	35	36	37	38	39	40	41	42	43	43A	43B	43C	44	45	46	47	48	49	50	51	52	52A	52B	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	100F	100G	100H	100I	101	102	103	104	105	106	107	108	109	110	111	112	113
D	V	Q	L	V	E	S	G	G	G	L	V	Q	A	G	G	S	L	R	L	S	C	T	A	S	G	F	T	F	D	D	Y	T	M	G	W	F	R	Q	A	P	G	K	E	R	E	G	V	S	Y	T	G	W	S	G	S	M	S	G	S	T	T	Y	Y	T	D	S	V	K	G	R	F	T	I	S	R	D	N	A	K	N	T	L	Y	L	Q	M	N	S	L	K	P	E	D	T	A	M	Y	Y	C	A	A	A	R	Y	R	G	I	G	S	Q	V	R	W	T	D	F	I	Y	W	G	Q	G	T	Q	V	T	V	S	S

Antigen Details
Antigen chains
Antigen type
Antigen name
Antigen species	SYNTHETIC CONSTRUCT
Antigen sequence

CDR Sequences (chothia definition)
CDRH1	GFTFDDY
CDRH2	GSMSGST
CDRH3	ARYRGIGSQVRWTDFIY

Additional links and files for download: see help for more details.

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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