Structure Viewer: 8u2c

> Structure details

Gaussian Mixture Model Based Single Particle Refinement - abc Transporter (inhibitor-Bound abcg2 From Empiar-10374)

PDB	8u2c
Species	MUS MUSCULUS; HOMO SAPIENS
Method	ELECTRON MICROSCOPY
Resolution	2.5Å
Number of Fvs	6
In complex	True
Light chain type	Kappa,NA
Has constant region	True

> Fv information

This PDB has 6 Fv(s).

Fv Details
Heavy chain	D
Light chain	C
Heavy subgroup	IGHV3
Light subgroup	IGKV13
Species	MUS MUSCULUS
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	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	101	102	103	104	105	106	107	108	109	110	111	112	113
Q	V	Q	L	Q	E	S	G	P	G	L	V	K	P	S	Q	S	L	S	L	T	C	T	V	T	G	F	S	I	T	S	D	Y	A	W	N	W	I	R	Q	F	P	G	K	K	L	E	W	M	G	Y	I	N	F	D	G	G	T	T	Y	N	P	S	L	R	G	R	I	S	I	T	R	D	T	S	K	N	Q	F	F	L	Q	L	R	S	V	T	P	E	D	T	A	T	Y	Y	C	A	T	F	Y	G	A	K	G	T	L	D	Y	W	G	Q	G	T	S	V	T	V	S	S

Light 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	83	84	85	86	87	88	89	90	91	92	93	94	95	96	97	98	99	100	101	102	103	104	105	106	107
D	I	V	L	T	Q	S	P	S	S	F	S	V	S	L	G	D	R	V	T	I	S	C	K	A	S	G	Y	I	L	N	R	L	A	W	Y	Q	Q	K	P	G	N	A	P	R	L	L	I	S	G	A	T	S	L	E	T	G	F	P	S	R	F	S	G	T	G	S	G	K	D	Y	T	L	S	I	S	S	L	Q	T	E	D	V	G	T	Y	Y	C	Q	Q	Y	W	S	T	P	W	T	F	G	G	G	T	K	L	E	I	R

Antigen Details
Antigen chains	B
Antigen type	protein
Antigen name	broad substrate specificity atp-binding cassettetransporter abcg2
Antigen species	HOMO SAPIENS
Antigen sequence	MSSSNVEVFIPVSQGNTNGFPATASNDLKAFTEGAVLSFHNICYRVKLKSGFLPCRKPVEKEILSNINGIMKPGLNAILGPTGGGKSSLLDVLAARKDPSGLSGDVLINGAPRPANFKCNSGYVVQDDVVMGTLTVRENLQFSAALRLATTMTNHEKNERINRVIQELGLDKVADSKVGTQFIRGVSGGERKRTSIGMELITDPSILFLDEPTTGLDSSTANAVLLLLKRMSKQGRTIIFSIHQPRYSIFKLFDSLTLLASGRLMFHGPAQEALGYFESAGYHCEAYNNPADFFLDIINGDSTAVALNREEDFKATEIIEPSKQDKPLIEKLAEIYVNSSFYKETKAELHQLSGGEKKKKITVFKEISYTTSFCHQLRWVSKRSFKNLLGNPQASIAQIIVTVVLGLVIGAIYFGLKNDSTGIQNRAGVLFFLTTNQCFSSVSAVELFVVEKKLFIHEYISGYYRVSSYFLGKLLSDLLPMRMLPSIIFTCIVYFMLGLKPKADAFFVMMFTLMMVAYSASSMALAIAAGQSVVSVATLLMTICFVFMMIFSGLLVNLTTIASWLSWLQYFSIPRYGFTALQHNEFLGQNFCPGLNATGNNPCNYATCTGEEYLVKQGIDLSPWGLWKNHVALACMIVIFLTIAYLKLLFLKKYS

CDR Sequences (chothia definition)
CDRH1	GFSITSDY
CDRH2	NFDGG
CDRH3	FYGAKGTLDY
CDRL1	KASGYILNRLA
CDRL2	GATSLET
CDRL3	QQYWSTPWT

Orientation Angles (from ABangle)
HL	-60.03°
HC1	75.26°
HC2	118.75°
LC1	119.52°
LC2	81.16°
dc	16.63Å

Fv Details
Heavy chain	F
Light chain	E
Heavy subgroup	IGHV3
Light subgroup	IGKV13
Species	MUS MUSCULUS
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	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	101	102	103	104	105	106	107	108	109	110	111	112	113
Q	V	Q	L	Q	E	S	G	P	G	L	V	K	P	S	Q	S	L	S	L	T	C	T	V	T	G	F	S	I	T	S	D	Y	A	W	N	W	I	R	Q	F	P	G	K	K	L	E	W	M	G	Y	I	N	F	D	G	G	T	T	Y	N	P	S	L	R	G	R	I	S	I	T	R	D	T	S	K	N	Q	F	F	L	Q	L	R	S	V	T	P	E	D	T	A	T	Y	Y	C	A	T	F	Y	G	A	K	G	T	L	D	Y	W	G	Q	G	T	S	V	T	V	S	S

Light 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	83	84	85	86	87	88	89	90	91	92	93	94	95	96	97	98	99	100	101	102	103	104	105	106	107
D	I	V	L	T	Q	S	P	S	S	F	S	V	S	L	G	D	R	V	T	I	S	C	K	A	S	G	Y	I	L	N	R	L	A	W	Y	Q	Q	K	P	G	N	A	P	R	L	L	I	S	G	A	T	S	L	E	T	G	F	P	S	R	F	S	G	T	G	S	G	K	D	Y	T	L	S	I	S	S	L	Q	T	E	D	V	G	T	Y	Y	C	Q	Q	Y	W	S	T	P	W	T	F	G	G	G	T	K	L	E	I	R

Antigen Details
Antigen chains	A
Antigen type	protein
Antigen name	broad substrate specificity atp-binding cassettetransporter abcg2
Antigen species	HOMO SAPIENS
Antigen sequence	MSSSNVEVFIPVSQGNTNGFPATASNDLKAFTEGAVLSFHNICYRVKLKSGFLPCRKPVEKEILSNINGIMKPGLNAILGPTGGGKSSLLDVLAARKDPSGLSGDVLINGAPRPANFKCNSGYVVQDDVVMGTLTVRENLQFSAALRLATTMTNHEKNERINRVIQELGLDKVADSKVGTQFIRGVSGGERKRTSIGMELITDPSILFLDEPTTGLDSSTANAVLLLLKRMSKQGRTIIFSIHQPRYSIFKLFDSLTLLASGRLMFHGPAQEALGYFESAGYHCEAYNNPADFFLDIINGDSTAVALNREEDFKATEIIEPSKQDKPLIEKLAEIYVNSSFYKETKAELHQLSGGEKKKKITVFKEISYTTSFCHQLRWVSKRSFKNLLGNPQASIAQIIVTVVLGLVIGAIYFGLKNDSTGIQNRAGVLFFLTTNQCFSSVSAVELFVVEKKLFIHEYISGYYRVSSYFLGKLLSDLLPMRMLPSIIFTCIVYFMLGLKPKADAFFVMMFTLMMVAYSASSMALAIAAGQSVVSVATLLMTICFVFMMIFSGLLVNLTTIASWLSWLQYFSIPRYGFTALQHNEFLGQNFCPGLNATGNNPCNYATCTGEEYLVKQGIDLSPWGLWKNHVALACMIVIFLTIAYLKLLFLKKYS

CDR Sequences (chothia definition)
CDRH1	GFSITSDY
CDRH2	NFDGG
CDRH3	FYGAKGTLDY
CDRL1	KASGYILNRLA
CDRL2	GATSLET
CDRL3	QQYWSTPWT

Orientation Angles (from ABangle)
HL	-60.05°
HC1	75.31°
HC2	118.68°
LC1	119.32°
LC2	81.3°
dc	16.62Å

Fv Details
Heavy chain	I
Light chain
Heavy subgroup	IGHV4
Light subgroup	NA
Species	HOMO SAPIENS
In complex?	False
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	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	101	102	103	104	105	106	107	108	109	110	111	112	113
A	V	Q	L	E	Q	S	G	P	G	L	V	R	P	S	Q	T	L	S	L	T	C	T	V	S	G	T	S	F	D	D	Y	Y	W	T	W	V	R	Q	P	P	G	R	G	L	E	W	I	G	Y	V	F	Y	T	G	T	T	L	L	D	P	S	L	R	G	R	V	T	M	L	V	N	T	S	K	N	Q	F	S	L	R	L	S	S	V	T	A	A	D	T	A	V	Y	Y	C	A	R	N	L	I	A	G	G	I	D	V	W	G	Q	G	S	L	V	T	V	S	S

CDR Sequences (chothia definition)
CDRH1	GTSFDDY
CDRH2	FYTGT
CDRH3	NLIAGGIDV

Fv Details
Heavy chain
Light chain	K
Heavy subgroup	NA
Light subgroup	IGKV1
Species	HOMO SAPIENS
In complex?	False
scFv?	False
Has constant domain?	True

Numbered Sequences (chothia)

Light chain

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	83	84	85	86	87	88	89	90	91	92	93	94	95	96	97	98	99	100	101	102	103	104	105	106	107
Q	M	T	Q	S	P	S	S	L	S	A	S	V	G	D	R	V	T	I	T	C	R	A	S	Q	S	V	S	S	A	V	A	W	Y	Q	Q	K	P	G	K	A	P	K	L	L	I	Y	S	A	S	S	L	Y	S	G	V	P	S	R	F	S	G	S	R	S	G	T	D	Y	T	L	T	I	S	S	L	Q	P	E	D	F	A	T	Y	Y	C	Q	Q	D	G	W	S	L	I	T	F	G	Q	G	T	K	V	E	I	K

CDR Sequences (chothia definition)
CDRL1	RASQSVSSAVA
CDRL2	SASSLYS
CDRL3	QQDGWSLIT

Fv Details
Heavy chain	J
Light chain
Heavy subgroup	IGHV4
Light subgroup	NA
Species	HOMO SAPIENS
In complex?	False
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	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	101	102	103	104	105	106	107	108	109	110	111	112	113
A	V	Q	L	E	Q	S	G	P	G	L	V	R	P	S	Q	T	L	S	L	T	C	T	V	S	G	T	S	F	D	D	Y	Y	W	T	W	V	R	Q	P	P	G	R	G	L	E	W	I	G	Y	V	F	Y	T	G	T	T	L	L	D	P	S	L	R	G	R	V	T	M	L	V	N	T	S	K	N	Q	F	S	L	R	L	S	S	V	T	A	A	D	T	A	V	Y	Y	C	A	R	N	L	I	A	G	G	I	D	V	W	G	Q	G	S	L	V	T	V	S	S

CDR Sequences (chothia definition)
CDRH1	GTSFDDY
CDRH2	FYTGT
CDRH3	NLIAGGIDV

Fv Details
Heavy chain
Light chain	L
Heavy subgroup	NA
Light subgroup	IGKV1
Species	HOMO SAPIENS
In complex?	False
scFv?	False
Has constant domain?	True

Numbered Sequences (chothia)

Light chain

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	83	84	85	86	87	88	89	90	91	92	93	94	95	96	97	98	99	100	101	102	103	104	105	106	107
Q	M	T	Q	S	P	S	S	L	S	A	S	V	G	D	R	V	T	I	T	C	R	A	S	Q	S	V	S	S	A	V	A	W	Y	Q	Q	K	P	G	K	A	P	K	L	L	I	Y	S	A	S	S	L	Y	S	G	V	P	S	R	F	S	G	S	R	S	G	T	D	Y	T	L	T	I	S	S	L	Q	P	E	D	F	A	T	Y	Y	C	Q	Q	D	G	W	S	L	I	T	F	G	Q	G	T	K	V	E	I	K

CDR Sequences (chothia definition)
CDRL1	RASQSVSSAVA
CDRL2	SASSLYS
CDRL3	QQDGWSLIT

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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