Structure Viewer: 8jf7

> Structure details

Triheteromeric Nmda Receptor Glun1-Glun2a-Glun3a in complex with Glycine, Glutamate, a Glun1-Specific Fab,and a Glun2a-Specific Fab

PDB	8jf7
Species	MUS MUSCULUS
Method	ELECTRON MICROSCOPY
Resolution	7.73Å
Number of Fvs	5
In complex	True
Light chain type	NA,Kappa
Has constant region	True

> Fv information

This PDB has 5 Fv(s).

Fv Details
Heavy chain	J
Light chain	K
Heavy subgroup	IGHV8
Light subgroup	IGKV12
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	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	101	102	103	104	105	106	107	108	109	110	111	112	113
Q	V	T	L	K	E	S	G	P	G	I	L	Q	P	S	Q	T	L	S	L	T	C	S	F	S	G	F	S	L	S	S	S	G	V	G	V	G	W	I	R	Q	P	S	G	K	G	L	E	W	L	A	H	I	W	W	D	D	I	K	R	Y	N	P	A	L	K	S	R	L	T	I	S	K	D	T	S	S	S	Q	V	F	L	K	I	A	S	V	A	T	A	D	T	A	T	Y	Y	C	T	R	M	E	T	A	W	F	P	Y	W	G	Q	G	T	L	V	T	V	S	A

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

Antigen Details
Antigen chains	B
Antigen type	protein
Antigen name	glutamate receptor ionotropic, nmda 2a,enhanced greenfluorescent protein
Antigen species	RATTUS NORVEGICUS, MUROMEGALOVIRUS G4
Antigen sequence	MGRLGYWTLLVLPALLVWRDPAQNAAAEKGPPALNIAVLLGHSHDVTERELRNLWGPEQATGLPLDVNVVALLMNRTDPKSLITHVCDLMSGARIHGLVFGDDTDQEAVAQMLDFISSQTFIPILGIHGGASMIMADKDPTSTFFQFGASIQQQATVMLKIMQDYDWHVFSLVTTIFPGYRDFISFIKTTVDNSFVGWDMQNVITLDTSFEDAKTQVQLKKIHSSVILLYCSKDEAVLILSEARSLGLTGYDFFWIVPSLVSGNTELIPKEFPSGLISVSYDDWDYSLEARVRDGLGILTTAASSMLEKFSYIPEAKASCYGQAEKPETPLHTLHQFMVNVTWDGKDLSFTEEGYQVHPRLVVIVLNKDREWEKVGKWENQTLSLRHAVWPRYKSFSDCEPDDNHLSIVTLEEAPFVIVEDIDPLTETCVRNTVPCRKFVKINNSTNEGMNVKKCCKGFCIDILKKLSRTVKFTYDLYLVTNGKHGKKVNNVWNGMIGEVVYQRAVMAVGSLTINEERSEVVDFSVPFVETGISVMVSRSNGTVSPSAFLEPFSASVWVMMFVMLLIVSAIAVFVFEYFSPVGYNRNLAKGKAPHGPSFTIGKAIWLLWGLVFNNSVPVQNPKGTTSKIMVSVWAFFAVIFLASYTANLAAFMIQEEFVDQVTGLSDKKFQRPHDYSPPFRFGTVPNGSTERNIRNNYPYMHQYMTRFNQRGVEDALVSLKTGKLDAFIYDAAVLNYKAGRDEGCKLVTIGSGYIFASTGYGIALQKGSPWKRQIDLALLQFVGDGEMEELETLWLTGICHNEKNEVMSSQLDIDNMAGVFYMLAAAMALSLITFIWEHLFYKSRAEAKRMKGLEVLFQGPAAAAVSKGEELFTGVVPILVELDGDVNGHKFSVSGEGEGDATYGKLTLKFICTTGKLPVPWPTLVTTLTYGVQCFSRYPDHMKQHDFFKSAMPEGYVQERTIFFKDDGNYKTRAEVKFEGDTLVNRIELKGIDFKEDGNILGHKLEYNYNSHNVYIMADKQKNGIKVNFKIRHNIEDGSVQLADHYQQNTPIGDGPVLLPDNHYLSTQSKLSKDPNEKRDHMVLLEFVTAAGITLGMDELYKSGLRSHHHHHHHH

CDR Sequences (chothia definition)
CDRH1	GFSLSSSGV
CDRH2	WWDDI
CDRH3	METAWFPY
CDRL1	RASENIYSNLA
CDRL2	ATTNLAD
CDRL3	QHFWGTPWT

Orientation Angles (from ABangle)
HL	-58.52°
HC1	73.89°
HC2	120.22°
LC1	120.33°
LC2	83.07°
dc	16.86Å

Fv Details
Heavy chain
Light chain	E
Heavy subgroup	NA
Light subgroup	IGKV3
Species	MUS MUSCULUS
In complex?	False
scFv?	False
Has constant domain?	True

Numbered Sequences (chothia)

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	30A	30B	30C	30D	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	A	S	L	A	V	S	L	G	Q	R	A	T	I	S	C	K	A	S	Q	S	V	D	Y	D	G	N	S	Y	M	N	W	Y	Q	Q	K	P	G	Q	P	P	K	L	L	I	Y	A	A	S	N	L	E	S	G	I	P	A	R	F	S	G	S	G	S	G	T	D	F	T	L	N	I	H	P	V	E	E	E	D	A	A	T	Y	Y	C	Q	Q	G	N	E	D	P	P	T	F	G	G	G	T	K	L	E	I	K

CDR Sequences (chothia definition)
CDRL1	KASQSVDYDGNSYMN
CDRL2	AASNLES
CDRL3	QQGNEDPPT

Fv Details
Heavy chain	F
Light chain
Heavy subgroup	IGHV3
Light subgroup	NA
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
D	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	Y	S	I	T	S	D	Y	A	W	N	W	I	R	Q	F	P	G	N	K	L	E	W	M	G	Y	I	S	Y	S	G	S	T	G	Y	N	P	S	L	K	S	R	I	S	I	T	R	D	T	S	K	N	Q	F	F	L	Q	L	N	S	V	T	T	E	D	T	A	T	Y	Y	C	A	R	L	Y	Y	G	F	Y	G	M	D	Y	W	G	Q	G	T	S	V	T	V	S	S

Antigen Details
Antigen chains	A
Antigen type	protein
Antigen name	glutamate receptor ionotropic, nmda 1
Antigen species	RATTUS NORVEGICUS
Antigen sequence	MSTMHLLTFALLFSCSFARAACDPKIVNIGAVLSTRKHEQMFREAVNQANKRHGSWKIQLNATSVTHKPNAIQMALSVCEDLISSQVYAILVSHPPTPNDHFTPTPVSYTAGFYRIPVLGLTTRMSIYSDKSIHLSFLRTVPPYSHQSSVWFEMMRVYNWNHIILLVSDDHEGRAAQKRLETLLEERESKAEKVLQFDPGTKNVTALLMEARELEARVIILSASEDDAATVYRAAAMLNMTGSGYVWLVGEREISGNALRYAPDGIIGLQLINGKNESAHISDAVGVVAQAVHELLEKENITDPPRGCVGNTNIWKTGPLFKRVLMSSKYADGVTGRVEFNEDGDRKFANYSIMNLQNRKLVQVGIYNGTHVIPNDRKIIWPGGETEKPRGYQMSTRLKIVTIHQEPFVYVKPTMSDGTCKEEFTVNGDPVKKVICTGPNDTSPGSPRHTVPQCCYGFCIDLLIKLARTMNFTYEVHLVADGKFGTQERVNNSNKKEWNGMMGELLSGQADMIVAPLTINNERAQYIEFSKPFKYQGLTILVKKEIPRSTLDSFMQPFQSTLWLLVGLSVHVVAVMLYLLDRFSPFGRFKVNSEEEEEDALTLSSAMWFSWGVLLNSGIGEGAPRSFSARILGMVWAGFAMIIVASYTANLAAFLVLDRPEERITGINDPRLRNPSDKFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRDNKLHAFIWDSAVLEFEASQKCDLVTTGELFFRSGFGIGMRKDSPWKQNVSLSILKSHENGFMEDLDKTWVRYQECDSRSNAPATLTFENMAGVFMLVAGGIVAGIFLIFIEIAYKRHKDARRKQ

CDR Sequences (chothia definition)
CDRH1	GYSITSDY
CDRH2	SYSGS
CDRH3	LYYGFYGMDY

Fv Details
Heavy chain
Light chain	G
Heavy subgroup	NA
Light subgroup	IGKV3
Species	MUS MUSCULUS
In complex?	False
scFv?	False
Has constant domain?	True

Numbered Sequences (chothia)

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	30A	30B	30C	30D	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	A	S	L	A	V	S	L	G	Q	R	A	T	I	S	C	K	A	S	Q	S	V	D	Y	D	G	N	S	Y	M	N	W	Y	Q	Q	K	P	G	Q	P	P	K	L	L	I	Y	A	A	S	N	L	E	S	G	I	P	A	R	F	S	G	S	G	S	G	T	D	F	T	L	N	I	H	P	V	E	E	E	D	A	A	T	Y	Y	C	Q	Q	G	N	E	D	P	P	T	F	G	G	G	T	K	L	E	I	K

CDR Sequences (chothia definition)
CDRL1	KASQSVDYDGNSYMN
CDRL2	AASNLES
CDRL3	QQGNEDPPT

Fv Details
Heavy chain	H
Light chain
Heavy subgroup	IGHV3
Light subgroup	NA
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
D	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	Y	S	I	T	S	D	Y	A	W	N	W	I	R	Q	F	P	G	N	K	L	E	W	M	G	Y	I	S	Y	S	G	S	T	G	Y	N	P	S	L	K	S	R	I	S	I	T	R	D	T	S	K	N	Q	F	F	L	Q	L	N	S	V	T	T	E	D	T	A	T	Y	Y	C	A	R	L	Y	Y	G	F	Y	G	M	D	Y	W	G	Q	G	T	S	V	T	V	S	S

Antigen Details
Antigen chains	C
Antigen type	protein
Antigen name	glutamate receptor ionotropic, nmda 1
Antigen species	RATTUS NORVEGICUS
Antigen sequence	MSTMHLLTFALLFSCSFARAACDPKIVNIGAVLSTRKHEQMFREAVNQANKRHGSWKIQLNATSVTHKPNAIQMALSVCEDLISSQVYAILVSHPPTPNDHFTPTPVSYTAGFYRIPVLGLTTRMSIYSDKSIHLSFLRTVPPYSHQSSVWFEMMRVYNWNHIILLVSDDHEGRAAQKRLETLLEERESKAEKVLQFDPGTKNVTALLMEARELEARVIILSASEDDAATVYRAAAMLNMTGSGYVWLVGEREISGNALRYAPDGIIGLQLINGKNESAHISDAVGVVAQAVHELLEKENITDPPRGCVGNTNIWKTGPLFKRVLMSSKYADGVTGRVEFNEDGDRKFANYSIMNLQNRKLVQVGIYNGTHVIPNDRKIIWPGGETEKPRGYQMSTRLKIVTIHQEPFVYVKPTMSDGTCKEEFTVNGDPVKKVICTGPNDTSPGSPRHTVPQCCYGFCIDLLIKLARTMNFTYEVHLVADGKFGTQERVNNSNKKEWNGMMGELLSGQADMIVAPLTINNERAQYIEFSKPFKYQGLTILVKKEIPRSTLDSFMQPFQSTLWLLVGLSVHVVAVMLYLLDRFSPFGRFKVNSEEEEEDALTLSSAMWFSWGVLLNSGIGEGAPRSFSARILGMVWAGFAMIIVASYTANLAAFLVLDRPEERITGINDPRLRNPSDKFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRDNKLHAFIWDSAVLEFEASQKCDLVTTGELFFRSGFGIGMRKDSPWKQNVSLSILKSHENGFMEDLDKTWVRYQECDSRSNAPATLTFENMAGVFMLVAGGIVAGIFLIFIEIAYKRHKDARRKQ

CDR Sequences (chothia definition)
CDRH1	GYSITSDY
CDRH2	SYSGS
CDRH3	LYYGFYGMDY

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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