Details for 8en8

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Structure information

Cross-Reactive 3180 TCR Recognition of HLA-B*35:01-Np4 Epitope From 1972 influenza Strain

Item	Info
PDB	8en8
Organism	HOMO SAPIENS
Method	X-RAY DIFFRACTION
Resolution	2.70001Å
Number of TCRs	2

Paired chains information

This PDB has 2 TCR(s).

E / D

TCR Details:

Item	Info
VB chain	E
VA chain	D
VB IMGT details	TRBV20/TRBJ2
VA IMGT details	TRAV13/TRAJ28
Species	human

Antigen Details:

Item	Info
Antigen Chain	C
Antigen Type	Peptide
Antigen Organism	INFLUENZA A VIRUS (STRAIN A/MEMPHIS/101/1972H3N2)
Antigen Sequence	LPFDKSTIM
Antigen Length	9

MHC details:

Item	Info
MHC Chain	A \| B
MHC Type	MH1
MHC Species	human
MHC IMGT details	HLA-B*3501

Numbered sequence

Chain type

Chain ID

FASTA/Annotation file

IMGT numbered sequence (Framework/CDR)

FASTA file

B3	B4	B5	B6	B7	B8	B9	B10
V	V	S	Q	H	P	S	R
B11	B12	B13	B14	B15	B16	B17	B18
V	I	C	K	S	G	T	S
B19	B20	B21	B22	B23	B24	B25	B26
V	K	I	E	C	R	S	L
B27	B28	B29	B36	B37	B38	B39	B40
D	F	Q	A	T	T	M	F
B41	B42	B43	B44	B45	B46	B47	B48
W	Y	R	Q	F	P	K	Q
B49	B50	B51	B52	B53	B54	B55	B56
S	L	M	L	M	A	T	S
B57	B58	B59	B63	B64	B65	B66	B67
N	E	G	S	K	A	T	Y
B68	B69	B70	B71	B72	B73	B74	B75
E	Q	G	V	E	K	D	K
B76	B77	B78	B79	B80	B81	B83	B84
F	L	I	N	H	A	S	L
B85	B86	B87	B88	B89	B90	B91	B92
T	L	S	T	L	T	V	T
B93	B94	B95	B96	B97	B98	B99	B100
S	A	H	P	E	D	S	S
B101	B102	B103	B104	B105	B106	B107	B108
F	Y	I	C	S	A	G	P
B109	B110	B111	B112	B113	B114	B115	B116
T	S	G	R	T	D	T	Q
B117	B118	B119	B120	B121	B122	B123	B124
Y	F	G	P	G	T	R	L
B125	B126	B127
T	V	L

FASTA file

A1	A2	A3	A4	A5	A6	A7	A8
G	E	N	V	E	Q	H	P
A9	A10	A11	A12	A13	A14	A15	A16
S	T	L	S	V	Q	E	G
A17	A18	A19	A20	A21	A22	A23	A24
D	S	A	V	I	K	C	T
A25	A26	A27	A28	A29	A36	A37	A38
Y	S	D	S	A	S	N	Y
A39	A40	A41	A42	A43	A44	A45	A46
F	P	W	Y	K	Q	E	L
A47	A48	A49	A50	A51	A52	A53	A54
G	K	R	P	Q	L	I	I
A55	A56	A57	A58	A59	A63	A64	A65
D	I	R	S	N	V	G	E
A66	A67	A68	A74	A75	A76	A77	A78
K	K	D	Q	R	I	A	V
A79	A80	A81	A82	A83	A84	A85	A86
T	L	N	K	T	A	K	H
A87	A88	A89	A90	A91	A92	A93	A94
F	S	L	H	I	T	E	T
A95	A96	A97	A98	A99	A100	A101	A102
Q	P	E	D	S	A	V	Y
A103	A104	A105	A106	A107	A108	A109	A110
F	C	A	A	D	G	G	A
A112	A113	A114	A115	A116	A117	A118	A119
G	S	Y	Q	L	T	F	G
A120	A121	A122	A123	A124	A125	A126	A127
K	G	T	K	L	S	V	I
A128
P

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	SAGPTSGRTDTQY	None	13
CDRB2	SNEGSKA	None	7
CDRB1	DFQATT	None	6
CDRA3	AADGGAGSYQLT	None	12
CDRA2	IRSNVGE	None	7
CDRA1	DSASNY	None	6

Orientation and docking angles:

Angle	Value
BC2	99.32°
BC1	66.55°
BA	-48.01°
AC2	80.60°
AC1	128.61°
dc	17.34Å
Docking angle	41.97°

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
8eo8_JI	99.78°	66.91°	-47.34°	81.05°	128.79°	17.46Å	1.0
8eo8_ON	99.21°	66.73°	-47.23°	81.93°	129.12°	17.51Å	1.6
8eo8_TS	98.73°	66.45°	-47.32°	82.04°	129.10°	17.47Å	1.8
8eo8_ED	99.44°	67.05°	-46.51°	81.67°	128.90°	17.38Å	1.9
8enh_JI	100.05°	66.85°	-46.52°	81.14°	129.31°	17.53Å	1.9

J / I

TCR Details:

Item	Info
VB chain	J
VA chain	I
VB IMGT details	TRBV20/TRBJ2
VA IMGT details	TRAV13/TRAJ28
Species	human

Antigen Details:

Item	Info
Antigen Chain	H
Antigen Type	Peptide
Antigen Organism	INFLUENZA A VIRUS (STRAIN A/MEMPHIS/101/1972H3N2)
Antigen Sequence	LPFDKSTIM
Antigen Length	9

MHC details:

Item	Info
MHC Chain	F \| G
MHC Type	MH1
MHC Species	human
MHC IMGT details	HLA-B*3501

Numbered sequence

Chain type

Chain ID

FASTA/Annotation file

IMGT numbered sequence (Framework/CDR)

FASTA file

B3	B4	B5	B6	B7	B8	B9	B10
V	V	S	Q	H	P	S	R
B11	B12	B13	B14	B15	B16	B17	B18
V	I	C	K	S	G	T	S
B19	B20	B21	B22	B23	B24	B25	B26
V	K	I	E	C	R	S	L
B27	B28	B29	B36	B37	B38	B39	B40
D	F	Q	A	T	T	M	F
B41	B42	B43	B44	B45	B46	B47	B48
W	Y	R	Q	F	P	K	Q
B49	B50	B51	B52	B53	B54	B55	B56
S	L	M	L	M	A	T	S
B57	B58	B59	B63	B64	B65	B66	B67
N	E	G	S	K	A	T	Y
B68	B69	B70	B71	B72	B73	B74	B75
E	Q	G	V	E	K	D	K
B76	B77	B78	B79	B80	B81	B83	B84
F	L	I	N	H	A	S	L
B85	B86	B87	B88	B89	B90	B91	B92
T	L	S	T	L	T	V	T
B93	B94	B95	B96	B97	B98	B99	B100
S	A	H	P	E	D	S	S
B101	B102	B103	B104	B105	B106	B107	B108
F	Y	I	C	S	A	G	P
B109	B110	B111	B112	B113	B114	B115	B116
T	S	G	R	T	D	T	Q
B117	B118	B119	B120	B121	B122	B123	B124
Y	F	G	P	G	T	R	L
B125	B126	B127
T	V	L

FASTA file

A1	A2	A3	A4	A5	A6	A7	A8
G	E	N	V	E	Q	H	P
A9	A10	A11	A12	A13	A14	A15	A16
S	T	L	S	V	Q	E	G
A17	A18	A19	A20	A21	A22	A23	A24
D	S	A	V	I	K	C	T
A25	A26	A27	A28	A29	A36	A37	A38
Y	S	D	S	A	S	N	Y
A39	A40	A41	A42	A43	A44	A45	A46
F	P	W	Y	K	Q	E	L
A47	A48	A49	A50	A51	A52	A53	A54
G	K	R	P	Q	L	I	I
A55	A56	A57	A58	A59	A63	A64	A65
D	I	R	S	N	V	G	E
A66	A67	A68	A74	A75	A76	A77	A78
K	K	D	Q	R	I	A	V
A79	A80	A81	A82	A83	A84	A85	A86
T	L	N	K	T	A	K	H
A87	A88	A89	A90	A91	A92	A93	A94
F	S	L	H	I	T	E	T
A95	A96	A97	A98	A99	A100	A101	A102
Q	P	E	D	S	A	V	Y
A103	A104	A105	A106	A107	A108	A109	A110
F	C	A	A	D	G	G	A
A112	A113	A114	A115	A116	A117	A118	A119
G	S	Y	Q	L	T	F	G
A120	A121	A122	A123	A124	A125	A126	A127
K	G	T	K	L	S	V	I
A128
P

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	SAGPTSGRTDTQY	None	13
CDRB2	SNEGSKA	None	7
CDRB1	DFQATT	None	6
CDRA3	AADGGAGSYQLT	None	12
CDRA2	IRSNVGE	None	7
CDRA1	DSASNY	None	6

Orientation and docking angles:

Angle	Value
BC2	99.10°
BC1	66.80°
BA	-45.73°
AC2	83.58°
AC1	129.37°
dc	17.46Å
Docking angle	41.85°

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
8enh_TS	98.70°	66.39°	-46.25°	82.78°	129.52°	17.52Å	1.1
8enh_ON	99.38°	66.72°	-46.36°	82.45°	129.26°	17.57Å	1.3
8eo8_ED	99.44°	67.05°	-46.51°	81.67°	128.90°	17.38Å	2.2
8eo8_ON	99.21°	66.73°	-47.23°	81.93°	129.12°	17.51Å	2.2
8enh_ED	99.71°	67.01°	-46.00°	81.48°	129.32°	17.41Å	2.2

Available downloads

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

Item	Link
IMGT-numbered structure	Link
Non-annotated structure from the PDB	Link
Summary file for this TCR	Link
Link in the PDB	Link