Structure Viewer: 6ssi

> Structure details

Structure of the Pentameric Ligand-Gated Ion Channel Elic in complex with a Pam Nanobody

PDB	6ssi
Species	LAMA GLAMA
Method	X-RAY DIFFRACTION
Resolution	2.59Å
Number of Fvs	5
In complex	True
Light chain type
Has constant region	False

> Fv information

This PDB has 5 Fv(s).

Fv Details
Heavy chain	H
Light chain
Heavy subgroup	IGHV1
Light subgroup
Species	LAMA GLAMA
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	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	101	102	103	104	105	106	107	108	109	110	111	112	113
Q	V	Q	L	Q	E	S	G	G	G	L	A	Q	A	G	G	S	M	R	L	S	C	I	A	S	G	R	N	F	F	I	N	I	M	N	W	Y	R	Q	A	P	G	K	Q	R	E	L	V	A	Q	I	T	R	A	G	T	T	T	Y	A	D	S	V	K	G	R	F	T	I	S	R	D	N	A	K	N	T	V	Y	L	Q	M	S	T	L	Q	S	E	D	T	A	V	Y	Y	C	N	V	G	A	S	W	G	Q	G	T	Q	V	T	V	S	S

Antigen Details
Antigen chains	C
Antigen type	protein
Antigen name	cys-loop ligand-gated ion channel
Antigen species	DICKEYA CHRYSANTHEMI
Antigen sequence	GPVDARPVDVSVSIFINKIYGVNTLEQTYKVDGYIVAQWTGKPRKTPGDKPLIVENTQIERWINNGLWVPALEFINVVGSPDTGNKRLMLFPDGRVIYNARFLGSFSNDMDFRLFPFDRQQFVLELEPFSYNNQQLRFSDIQVYTENIDNEEIDEWWIRGKASTHISDIRYDHLSSVQPNQNEFSRITVRIDAVRNPSYYLWSFILPLGLIIAASWSVFWLESFSERLQTSFTLMLTVVAYAFYTSNILPRLPYTTVIDQMIIAGYGSIFAAILLIIFAHHRQANGVEDDLLIQRCRLAFPLGFLAIGCVLVIRGITG

CDR Sequences (chothia definition)
CDRH1	GRNFFIN
CDRH2	TRAGT
CDRH3	GAS

Fv Details
Heavy chain	J
Light chain
Heavy subgroup	IGHV1
Light subgroup
Species	LAMA GLAMA
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	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	101	102	103	104	105	106	107	108	109	110	111	112	113
Q	V	Q	L	Q	E	S	G	G	G	L	A	Q	A	G	G	S	M	R	L	S	C	I	A	S	G	R	N	F	F	I	N	I	M	N	W	Y	R	Q	A	P	G	K	Q	R	E	L	V	A	Q	I	T	R	A	G	T	T	T	Y	A	D	S	V	K	G	R	F	T	I	S	R	D	N	A	K	N	T	V	Y	L	Q	M	S	T	L	Q	S	E	D	T	A	V	Y	Y	C	N	V	G	A	S	W	G	Q	G	T	Q	V	T	V	S	S

Antigen Details
Antigen chains	E
Antigen type	protein
Antigen name	cys-loop ligand-gated ion channel
Antigen species	DICKEYA CHRYSANTHEMI
Antigen sequence	GPVDARPVDVSVSIFINKIYGVNTLEQTYKVDGYIVAQWTGKPRKTPGDKPLIVENTQIERWINNGLWVPALEFINVVGSPDTGNKRLMLFPDGRVIYNARFLGSFSNDMDFRLFPFDRQQFVLELEPFSYNNQQLRFSDIQVYTENIDNEEIDEWWIRGKASTHISDIRYDHLSSVQPNQNEFSRITVRIDAVRNPSYYLWSFILPLGLIIAASWSVFWLESFSERLQTSFTLMLTVVAYAFYTSNILPRLPYTTVIDQMIIAGYGSIFAAILLIIFAHHRQANGVEDDLLIQRCRLAFPLGFLAIGCVLVIRGITG

CDR Sequences (chothia definition)
CDRH1	GRNFFIN
CDRH2	TRAGT
CDRH3	GAS

Fv Details
Heavy chain	I
Light chain
Heavy subgroup	IGHV1
Light subgroup
Species	LAMA GLAMA
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	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	101	102	103	104	105	106	107	108	109	110	111	112	113
Q	V	Q	L	Q	E	S	G	G	G	L	A	Q	A	G	G	S	M	R	L	S	C	I	A	S	G	R	N	F	F	I	N	I	M	N	W	Y	R	Q	A	P	G	K	Q	R	E	L	V	A	Q	I	T	R	A	G	T	T	T	Y	A	D	S	V	K	G	R	F	T	I	S	R	D	N	A	K	N	T	V	Y	L	Q	M	S	T	L	Q	S	E	D	T	A	V	Y	Y	C	N	V	G	A	S	W	G	Q	G	T	Q	V	T	V	S	S

Antigen Details
Antigen chains	D
Antigen type	protein
Antigen name	cys-loop ligand-gated ion channel
Antigen species	DICKEYA CHRYSANTHEMI
Antigen sequence	GPVDARPVDVSVSIFINKIYGVNTLEQTYKVDGYIVAQWTGKPRKTPGDKPLIVENTQIERWINNGLWVPALEFINVVGSPDTGNKRLMLFPDGRVIYNARFLGSFSNDMDFRLFPFDRQQFVLELEPFSYNNQQLRFSDIQVYTENIDNEEIDEWWIRGKASTHISDIRYDHLSSVQPNQNEFSRITVRIDAVRNPSYYLWSFILPLGLIIAASWSVFWLESFSERLQTSFTLMLTVVAYAFYTSNILPRLPYTTVIDQMIIAGYGSIFAAILLIIFAHHRQANGVEDDLLIQRCRLAFPLGFLAIGCVLVIRGITG

CDR Sequences (chothia definition)
CDRH1	GRNFFIN
CDRH2	TRAGT
CDRH3	GAS

Fv Details
Heavy chain	F
Light chain
Heavy subgroup	IGHV1
Light subgroup
Species	LAMA GLAMA
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	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	101	102	103	104	105	106	107	108	109	110	111	112	113
Q	V	Q	L	Q	E	S	G	G	G	L	A	Q	A	G	G	S	M	R	L	S	C	I	A	S	G	R	N	F	F	I	N	I	M	N	W	Y	R	Q	A	P	G	K	Q	R	E	L	V	A	Q	I	T	R	A	G	T	T	T	Y	A	D	S	V	K	G	R	F	T	I	S	R	D	N	A	K	N	T	V	Y	L	Q	M	S	T	L	Q	S	E	D	T	A	V	Y	Y	C	N	V	G	A	S	W	G	Q	G	T	Q	V	T	V	S	S

Antigen Details
Antigen chains	A
Antigen type	protein
Antigen name	cys-loop ligand-gated ion channel
Antigen species	DICKEYA CHRYSANTHEMI
Antigen sequence	GPVDARPVDVSVSIFINKIYGVNTLEQTYKVDGYIVAQWTGKPRKTPGDKPLIVENTQIERWINNGLWVPALEFINVVGSPDTGNKRLMLFPDGRVIYNARFLGSFSNDMDFRLFPFDRQQFVLELEPFSYNNQQLRFSDIQVYTENIDNEEIDEWWIRGKASTHISDIRYDHLSSVQPNQNEFSRITVRIDAVRNPSYYLWSFILPLGLIIAASWSVFWLESFSERLQTSFTLMLTVVAYAFYTSNILPRLPYTTVIDQMIIAGYGSIFAAILLIIFAHHRQANGVEDDLLIQRCRLAFPLGFLAIGCVLVIRGITG

CDR Sequences (chothia definition)
CDRH1	GRNFFIN
CDRH2	TRAGT
CDRH3	GAS

Fv Details
Heavy chain	G
Light chain
Heavy subgroup	IGHV1
Light subgroup
Species	LAMA GLAMA
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	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	101	102	103	104	105	106	107	108	109	110	111	112	113
Q	V	Q	L	Q	E	S	G	G	G	L	A	Q	A	G	G	S	M	R	L	S	C	I	A	S	G	R	N	F	F	I	N	I	M	N	W	Y	R	Q	A	P	G	K	Q	R	E	L	V	A	Q	I	T	R	A	G	T	T	T	Y	A	D	S	V	K	G	R	F	T	I	S	R	D	N	A	K	N	T	V	Y	L	Q	M	S	T	L	Q	S	E	D	T	A	V	Y	Y	C	N	V	G	A	S	W	G	Q	G	T	Q	V	T	V	S	S

Antigen Details
Antigen chains	B
Antigen type	protein
Antigen name	cys-loop ligand-gated ion channel
Antigen species	DICKEYA CHRYSANTHEMI
Antigen sequence	GPVDARPVDVSVSIFINKIYGVNTLEQTYKVDGYIVAQWTGKPRKTPGDKPLIVENTQIERWINNGLWVPALEFINVVGSPDTGNKRLMLFPDGRVIYNARFLGSFSNDMDFRLFPFDRQQFVLELEPFSYNNQQLRFSDIQVYTENIDNEEIDEWWIRGKASTHISDIRYDHLSSVQPNQNEFSRITVRIDAVRNPSYYLWSFILPLGLIIAASWSVFWLESFSERLQTSFTLMLTVVAYAFYTSNILPRLPYTTVIDQMIIAGYGSIFAAILLIIFAHHRQANGVEDDLLIQRCRLAFPLGFLAIGCVLVIRGITG

CDR Sequences (chothia definition)
CDRH1	GRNFFIN
CDRH2	TRAGT
CDRH3	GAS

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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