Structure Viewer: 7t3d

> Structure details

Cryoem Map of anchor 222-1C06 Fab and Lateral Patch 2B05 Fab Binding H1 Ha

PDB	7t3d
Species	HOMO SAPIENS
Method	ELECTRON MICROSCOPY
Resolution	3.2Å
Number of Fvs	6
In complex	True
Light chain type	Kappa
Has constant region	False

> Fv information

This PDB has 6 Fv(s).

Fv Details
Heavy chain	O
Light chain	Q
Heavy subgroup	IGHV3
Light subgroup	IGKV3
Species	HOMO SAPIENS
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	52A	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
E	V	Q	L	V	E	S	G	G	D	L	V	Q	P	G	G	S	L	R	L	S	C	V	V	S	G	F	T	F	S	T	Y	S	M	N	W	V	R	Q	A	P	G	K	G	L	E	W	V	S	Y	I	S	S	S	S	L	S	R	Y	Y	A	D	S	V	K	G	R	F	T	I	S	R	D	N	A	K	N	S	L	S	L	Q	L	N	S	L	R	A	E	D	T	A	V	Y	Y	C	V	R	G	S	I	T	W	P	T	E	Y	Y	L	D	Y	W	G	Q	G	T	L	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	95A	96	97	98	99	100	101	102	103	104	105	106	107
E	I	V	M	T	Q	S	P	A	T	L	S	V	S	P	G	E	R	A	T	L	S	C	R	A	S	Q	T	I	R	S	D	L	A	W	Y	Q	Q	K	P	G	Q	P	P	R	L	I	I	Y	G	A	S	T	R	A	T	G	I	P	A	R	F	S	G	S	G	S	G	T	E	F	T	L	T	I	S	S	L	Q	S	E	D	S	A	V	Y	F	C	Q	Q	Y	N	N	W	P	P	L	T	F	G	G	G	T	K	V	E	I	K

Antigen Details
Antigen chains	G
Antigen type	protein
Antigen name	hemagglutinin ha2 chain
Antigen species	INFLUENZA A VIRUS (A/CALIFORNIA/04/2009(H1N1))
Antigen sequence	GLFGAIAGFIEGGWTGMVDGWYGYHHQNEQGSGYAADLKSTQNAIDKITNKVNSVIEKMNTQFTAVGKEFNHLEKRIENLNKKVDDGFLDIWTYNAELLVLLENERTLDYHDSNVKNLYEKVRSQLKNNAKEIGNGCFEFYHKCDNTCMESVKNGTYDYPKYSEEAKLNREEID

CDR Sequences (chothia definition)
CDRH1	GFTFSTY
CDRH2	SSSSLS
CDRH3	GSITWPTEYYLDY
CDRL1	RASQTIRSDLA
CDRL2	GASTRAT
CDRL3	QQYNNWPPLT

Orientation Angles (from ABangle)
HL	-58.77°
HC1	74.13°
HC2	119.36°
LC1	120.95°
LC2	84.12°
dc	16.39Å

Fv Details
Heavy chain	H
Light chain	L
Heavy subgroup	IGHV3
Light subgroup	IGKV3
Species	HOMO SAPIENS
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	52A	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
E	V	Q	L	V	E	S	G	G	D	L	V	Q	P	G	G	S	L	R	L	S	C	V	V	S	G	F	T	F	S	T	Y	S	M	N	W	V	R	Q	A	P	G	K	G	L	E	W	V	S	Y	I	S	S	S	S	L	S	R	Y	Y	A	D	S	V	K	G	R	F	T	I	S	R	D	N	A	K	N	S	L	S	L	Q	L	N	S	L	R	A	E	D	T	A	V	Y	Y	C	V	R	G	S	I	T	W	P	T	E	Y	Y	L	D	Y	W	G	Q	G	T	L	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	95A	96	97	98	99	100	101	102	103	104	105	106	107
E	I	V	M	T	Q	S	P	A	T	L	S	V	S	P	G	E	R	A	T	L	S	C	R	A	S	Q	T	I	R	S	D	L	A	W	Y	Q	Q	K	P	G	Q	P	P	R	L	I	I	Y	G	A	S	T	R	A	T	G	I	P	A	R	F	S	G	S	G	S	G	T	E	F	T	L	T	I	S	S	L	Q	S	E	D	S	A	V	Y	F	C	Q	Q	Y	N	N	W	P	P	L	T	F	G	G	G	T	K	V	E	I	K

Antigen Details
Antigen chains	B
Antigen type	protein
Antigen name	hemagglutinin ha2 chain
Antigen species	INFLUENZA A VIRUS (A/CALIFORNIA/04/2009(H1N1))
Antigen sequence	GLFGAIAGFIEGGWTGMVDGWYGYHHQNEQGSGYAADLKSTQNAIDKITNKVNSVIEKMNTQFTAVGKEFNHLEKRIENLNKKVDDGFLDIWTYNAELLVLLENERTLDYHDSNVKNLYEKVRSQLKNNAKEIGNGCFEFYHKCDNTCMESVKNGTYDYPKYSEEAKLNREEID

CDR Sequences (chothia definition)
CDRH1	GFTFSTY
CDRH2	SSSSLS
CDRH3	GSITWPTEYYLDY
CDRL1	RASQTIRSDLA
CDRL2	GASTRAT
CDRL3	QQYNNWPPLT

Orientation Angles (from ABangle)
HL	-58.77°
HC1	74.13°
HC2	119.36°
LC1	120.95°
LC2	84.12°
dc	16.39Å

Fv Details
Heavy chain	K
Light chain	N
Heavy subgroup	IGHV3
Light subgroup	IGKV1
Species	HOMO SAPIENS
In complex?	True
scFv?	False
Has constant domain?	False

Numbered Sequences (chothia)

Heavy chain

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	52A	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
V	Q	L	L	E	S	G	G	G	L	V	Q	P	G	G	S	L	S	L	S	C	A	A	S	G	F	T	F	S	S	F	A	M	S	W	V	R	Q	A	P	V	K	G	L	E	W	V	S	M	I	S	A	G	G	G	N	T	Y	Y	A	D	S	V	K	G	R	F	T	I	S	R	D	N	S	K	S	T	L	Y	L	Q	M	S	S	L	T	A	E	D	T	A	V	Y	Y	C	A	K	S	D	S	S	G	F	Q	Y	G	R	R	E	F	W	G	Q	G	T	L	V	T	V	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	Q	M	T	Q	S	P	S	S	L	S	A	F	V	G	D	R	V	T	I	A	C	Q	A	S	Q	D	I	R	I	H	L	N	W	Y	Q	Q	K	P	G	K	A	P	K	L	L	I	Y	D	A	S	N	L	E	A	G	V	P	S	R	F	S	G	S	G	S	G	T	D	F	T	F	T	I	S	S	L	Q	P	E	D	I	A	T	Y	Y	C	Q	H	Y	H	N	L	P	R	T	F	G	G	G	T	K	V	E	I	K

Antigen Details
Antigen chains	F
Antigen type	protein
Antigen name	hemagglutinin ha1 chain
Antigen species	INFLUENZA A VIRUS (A/CALIFORNIA/04/2009(H1N1))
Antigen sequence	ADPGDTLCIGYHANNSTDTVDTVLEKNVTVTHSVNLLEDKHNGKLCKLRGVAPLHLGKCNIAGWILGNPECESLSTASSWSYIVETPSSDNGTCYPGDFIDYEELREQLSSVSSFERFEIFPKTSSWPNHDSNKGVTAACPHAGAKSFYKNLIWLVKKGNSYPKLSKSYINDKGKEVLVLWGIHHPSTSADQQSLYQNADTYVFVGSSRYSKKFKPEIAIRPKVRDQEGRMNYYWTLVEPGDKITFEATGNLVVPRYAFAMERNAGSGIIISDTPVHDCNTTCQTPKGAINTSLPFQNIHPITIGKCPKYVKSTKLRLATGLRNIPSIQSR

CDR Sequences (chothia definition)
CDRH1	GFTFSSF
CDRH2	SAGGGN
CDRH3	SDSSGFQYGRREF
CDRL1	QASQDIRIHLN
CDRL2	DASNLEA
CDRL3	QHYHNLPRT

Orientation Angles (from ABangle)
HL	-60.23°
HC1	75.65°
HC2	116.37°
LC1	119.39°
LC2	82.96°
dc	16.21Å

Fv Details
Heavy chain	P
Light chain	R
Heavy subgroup	IGHV3
Light subgroup	IGKV3
Species	HOMO SAPIENS
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	52A	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
E	V	Q	L	V	E	S	G	G	D	L	V	Q	P	G	G	S	L	R	L	S	C	V	V	S	G	F	T	F	S	T	Y	S	M	N	W	V	R	Q	A	P	G	K	G	L	E	W	V	S	Y	I	S	S	S	S	L	S	R	Y	Y	A	D	S	V	K	G	R	F	T	I	S	R	D	N	A	K	N	S	L	S	L	Q	L	N	S	L	R	A	E	D	T	A	V	Y	Y	C	V	R	G	S	I	T	W	P	T	E	Y	Y	L	D	Y	W	G	Q	G	T	L	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	95A	96	97	98	99	100	101	102	103	104	105	106	107
E	I	V	M	T	Q	S	P	A	T	L	S	V	S	P	G	E	R	A	T	L	S	C	R	A	S	Q	T	I	R	S	D	L	A	W	Y	Q	Q	K	P	G	Q	P	P	R	L	I	I	Y	G	A	S	T	R	A	T	G	I	P	A	R	F	S	G	S	G	S	G	T	E	F	T	L	T	I	S	S	L	Q	S	E	D	S	A	V	Y	F	C	Q	Q	Y	N	N	W	P	P	L	T	F	G	G	G	T	K	V	E	I	K

Antigen Details
Antigen chains	I
Antigen type	protein
Antigen name	hemagglutinin ha2 chain
Antigen species	INFLUENZA A VIRUS (A/CALIFORNIA/04/2009(H1N1))
Antigen sequence	GLFGAIAGFIEGGWTGMVDGWYGYHHQNEQGSGYAADLKSTQNAIDKITNKVNSVIEKMNTQFTAVGKEFNHLEKRIENLNKKVDDGFLDIWTYNAELLVLLENERTLDYHDSNVKNLYEKVRSQLKNNAKEIGNGCFEFYHKCDNTCMESVKNGTYDYPKYSEEAKLNREEID

CDR Sequences (chothia definition)
CDRH1	GFTFSTY
CDRH2	SSSSLS
CDRH3	GSITWPTEYYLDY
CDRL1	RASQTIRSDLA
CDRL2	GASTRAT
CDRL3	QQYNNWPPLT

Orientation Angles (from ABangle)
HL	-58.77°
HC1	74.13°
HC2	119.36°
LC1	120.95°
LC2	84.12°
dc	16.39Å

Fv Details
Heavy chain	J
Light chain	M
Heavy subgroup	IGHV3
Light subgroup	IGKV1
Species	HOMO SAPIENS
In complex?	True
scFv?	False
Has constant domain?	False

Numbered Sequences (chothia)

Heavy chain

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	52A	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
V	Q	L	L	E	S	G	G	G	L	V	Q	P	G	G	S	L	S	L	S	C	A	A	S	G	F	T	F	S	S	F	A	M	S	W	V	R	Q	A	P	V	K	G	L	E	W	V	S	M	I	S	A	G	G	G	N	T	Y	Y	A	D	S	V	K	G	R	F	T	I	S	R	D	N	S	K	S	T	L	Y	L	Q	M	S	S	L	T	A	E	D	T	A	V	Y	Y	C	A	K	S	D	S	S	G	F	Q	Y	G	R	R	E	F	W	G	Q	G	T	L	V	T	V	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	Q	M	T	Q	S	P	S	S	L	S	A	F	V	G	D	R	V	T	I	A	C	Q	A	S	Q	D	I	R	I	H	L	N	W	Y	Q	Q	K	P	G	K	A	P	K	L	L	I	Y	D	A	S	N	L	E	A	G	V	P	S	R	F	S	G	S	G	S	G	T	D	F	T	F	T	I	S	S	L	Q	P	E	D	I	A	T	Y	Y	C	Q	H	Y	H	N	L	P	R	T	F	G	G	G	T	K	V	E	I	K

Antigen Details
Antigen chains	E
Antigen type	protein
Antigen name	hemagglutinin ha1 chain
Antigen species	INFLUENZA A VIRUS (A/CALIFORNIA/04/2009(H1N1))
Antigen sequence	ADPGDTLCIGYHANNSTDTVDTVLEKNVTVTHSVNLLEDKHNGKLCKLRGVAPLHLGKCNIAGWILGNPECESLSTASSWSYIVETPSSDNGTCYPGDFIDYEELREQLSSVSSFERFEIFPKTSSWPNHDSNKGVTAACPHAGAKSFYKNLIWLVKKGNSYPKLSKSYINDKGKEVLVLWGIHHPSTSADQQSLYQNADTYVFVGSSRYSKKFKPEIAIRPKVRDQEGRMNYYWTLVEPGDKITFEATGNLVVPRYAFAMERNAGSGIIISDTPVHDCNTTCQTPKGAINTSLPFQNIHPITIGKCPKYVKSTKLRLATGLRNIPSIQSR

CDR Sequences (chothia definition)
CDRH1	GFTFSSF
CDRH2	SAGGGN
CDRH3	SDSSGFQYGRREF
CDRL1	QASQDIRIHLN
CDRL2	DASNLEA
CDRL3	QHYHNLPRT

Orientation Angles (from ABangle)
HL	-60.23°
HC1	75.65°
HC2	116.37°
LC1	119.39°
LC2	82.96°
dc	16.21Å

Fv Details
Heavy chain	C
Light chain	D
Heavy subgroup	IGHV3
Light subgroup	IGKV1
Species	HOMO SAPIENS
In complex?	True
scFv?	False
Has constant domain?	False

Numbered Sequences (chothia)

Heavy chain

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	52A	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
V	Q	L	L	E	S	G	G	G	L	V	Q	P	G	G	S	L	S	L	S	C	A	A	S	G	F	T	F	S	S	F	A	M	S	W	V	R	Q	A	P	V	K	G	L	E	W	V	S	M	I	S	A	G	G	G	N	T	Y	Y	A	D	S	V	K	G	R	F	T	I	S	R	D	N	S	K	S	T	L	Y	L	Q	M	S	S	L	T	A	E	D	T	A	V	Y	Y	C	A	K	S	D	S	S	G	F	Q	Y	G	R	R	E	F	W	G	Q	G	T	L	V	T	V	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	Q	M	T	Q	S	P	S	S	L	S	A	F	V	G	D	R	V	T	I	A	C	Q	A	S	Q	D	I	R	I	H	L	N	W	Y	Q	Q	K	P	G	K	A	P	K	L	L	I	Y	D	A	S	N	L	E	A	G	V	P	S	R	F	S	G	S	G	S	G	T	D	F	T	F	T	I	S	S	L	Q	P	E	D	I	A	T	Y	Y	C	Q	H	Y	H	N	L	P	R	T	F	G	G	G	T	K	V	E	I	K

Antigen Details
Antigen chains	A
Antigen type	protein
Antigen name	hemagglutinin ha1 chain
Antigen species	INFLUENZA A VIRUS (A/CALIFORNIA/04/2009(H1N1))
Antigen sequence	ADPGDTLCIGYHANNSTDTVDTVLEKNVTVTHSVNLLEDKHNGKLCKLRGVAPLHLGKCNIAGWILGNPECESLSTASSWSYIVETPSSDNGTCYPGDFIDYEELREQLSSVSSFERFEIFPKTSSWPNHDSNKGVTAACPHAGAKSFYKNLIWLVKKGNSYPKLSKSYINDKGKEVLVLWGIHHPSTSADQQSLYQNADTYVFVGSSRYSKKFKPEIAIRPKVRDQEGRMNYYWTLVEPGDKITFEATGNLVVPRYAFAMERNAGSGIIISDTPVHDCNTTCQTPKGAINTSLPFQNIHPITIGKCPKYVKSTKLRLATGLRNIPSIQSR

CDR Sequences (chothia definition)
CDRH1	GFTFSSF
CDRH2	SAGGGN
CDRH3	SDSSGFQYGRREF
CDRL1	QASQDIRIHLN
CDRL2	DASNLEA
CDRL3	QHYHNLPRT

Orientation Angles (from ABangle)
HL	-60.23°
HC1	75.65°
HC2	116.37°
LC1	119.39°
LC2	82.96°
dc	16.21Å

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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