Details for 7ndt

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Structure information

Ul40:01 TCR in complex with HLA-E with a Non-Natural amino acid

Item	Info
PDB	7ndt
Organism	SYNTHETIC CONSTRUCT
Method	X-RAY DIFFRACTION
Resolution	2.999Å
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	TRBV14/TRBJ2
VA IMGT details	TRAV26/TRAJ37
Species	human

Antigen Details:

Item	Info
Antigen Chain	C
Antigen Type	Peptide
Antigen Organism	SYNTHETIC CONSTRUCT
Antigen Sequence	VMAPRTLIL
Antigen Length	9

MHC details:

Item	Info
MHC Chain	A \| B
MHC Type	MH1
MHC Species	human
MHC IMGT details	HLA-E*0103

Numbered sequence

Chain type

Chain ID

FASTA/Annotation file

IMGT numbered sequence (Framework/CDR)

FASTA file

B1	B2	B3	B4	B5	B6	B7	B8
E	A	G	V	T	Q	F	P
B9	B10	B11	B12	B13	B14	B15	B16
S	H	S	V	I	E	K	G
B17	B18	B19	B20	B21	B22	B23	B24
Q	T	V	T	L	R	C	D
B25	B26	B27	B28	B29	B37	B38	B39
P	I	S	G	H	D	N	L
B40	B41	B42	B43	B44	B45	B46	B47
Y	W	Y	R	R	V	M	G
B48	B49	B50	B51	B52	B53	B54	B55
K	E	I	K	F	L	L	H
B56	B57	B58	B63	B64	B65	B66	B67
F	V	K	E	S	K	Q	D
B68	B69	B70	B71	B72	B73	B74	B75
E	S	G	M	P	N	N	R
B76	B77	B78	B79	B80	B81	B83	B84
F	L	A	E	R	T	G	G
B85	B86	B87	B88	B89	B90	B91	B92
T	Y	S	T	L	K	V	Q
B93	B94	B95	B96	B97	B98	B99	B100
P	A	E	L	E	D	S	G
B101	B102	B103	B104	B105	B106	B107	B108
V	Y	F	C	A	S	S	Q
B109	B113	B114	B115	B116	B117	B118	B119
D	R	D	T	Q	Y	F	G
B120	B121	B122	B123	B124	B125	B126	B127
P	G	T	R	L	T	V	L

FASTA file

A1	A2	A3	A4	A5	A6	A8	A9
A	A	K	T	T	Q	P	P
A10	A11	A12	A13	A14	A15	A16	A17
S	M	D	V	A	E	G	R
A18	A19	A20	A21	A22	A23	A24	A25
A	A	N	L	P	C	N	H
A26	A27	A28	A29	A30	A36	A37	A38
S	T	I	S	G	N	E	Y
A39	A40	A41	A42	A43	A44	A45	A46
V	Y	W	Y	R	Q	I	H
A47	A48	A49	A50	A51	A52	A53	A54
S	Q	G	P	Q	Y	I	I
A55	A56	A57	A58	A64	A65	A66	A67
H	G	L	K	N	N	E	T
A68	A74	A75	A76	A77	A78	A79	A80
N	E	M	A	S	L	I	I
A81	A82	A83	A84	A85	A86	A87	A88
T	E	D	R	K	S	S	T
A89	A90	A91	A92	A93	A94	A95	A96
L	I	L	P	H	A	T	L
A97	A98	A99	A100	A101	A102	A103	A104
R	D	T	A	V	Y	Y	C
A105	A106	A107	A108	A109	A110	A112	A113
I	V	V	R	S	S	N	T
A114	A115	A116	A117	A118	A119	A120	A121
G	K	L	I	F	G	Q	G
A122	A123	A124	A125	A126	A127	A128
T	T	L	Q	V	K	P

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	ASSQDRDTQY	None	10
CDRB2	FVKESK	None	6
CDRB1	SGHDN	None	5
CDRA3	IVVRSSNTGKLI	None	12
CDRA2	GLKNN	None	5
CDRA1	TISGNEY	None	7

Orientation and docking angles:

Angle	Value
BC2	107.81°
BC1	73.60°
BA	-63.54°
AC2	93.10°
AC1	128.98°
dc	17.20Å
Docking angle	36.80°

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
2esv_ED	107.82°	72.93°	-61.63°	93.92°	130.54°	17.31Å	2.7
7byd_ED	106.28°	72.10°	-62.40°	91.36°	127.86°	17.61Å	3.2
4z7v_HG	111.21°	73.03°	-62.36°	92.92°	131.88°	17.12Å	4.7
4z7v_FE	111.26°	73.06°	-61.69°	93.39°	131.70°	17.14Å	4.8
7byd_JI	106.07°	72.70°	-61.58°	89.23°	128.67°	17.41Å	4.8

Antibodies with similar orientations:

Antibody PDB	HC2	HC1	HL	LC2	LC1	dc	ABangle Distance
4jpw_HL	112.65°	71.66°	-58.66°	89.39°	123.36°	16.92Å	9.8

J / I

TCR Details:

Item	Info
VB chain	J
VA chain	I
VB IMGT details	TRBV14/TRBJ2
VA IMGT details	TRAV26/TRAJ37
Species	human

Antigen Details:

Item	Info
Antigen Chain	H
Antigen Type	Peptide
Antigen Organism	SYNTHETIC CONSTRUCT
Antigen Sequence	VMAPRTLIL
Antigen Length	9

MHC details:

Item	Info
MHC Chain	F \| G
MHC Type	MH1
MHC Species	human
MHC IMGT details	HLA-E*0103

Numbered sequence

Chain type

Chain ID

FASTA/Annotation file

IMGT numbered sequence (Framework/CDR)

FASTA file

B1	B2	B3	B4	B5	B6	B7	B8
E	A	G	V	T	Q	F	P
B9	B10	B11	B12	B13	B14	B15	B16
S	H	S	V	I	E	K	G
B17	B18	B19	B20	B21	B22	B23	B24
Q	T	V	T	L	R	C	D
B25	B26	B27	B28	B29	B37	B38	B39
P	I	S	G	H	D	N	L
B40	B41	B42	B43	B44	B45	B46	B47
Y	W	Y	R	R	V	M	G
B48	B49	B50	B51	B52	B53	B54	B55
K	E	I	K	F	L	L	H
B56	B57	B58	B63	B64	B65	B66	B67
F	V	K	E	S	K	Q	D
B68	B69	B70	B71	B72	B73	B74	B75
E	S	G	M	P	N	N	R
B76	B77	B78	B79	B80	B81	B83	B84
F	L	A	E	R	T	G	G
B85	B86	B87	B88	B89	B90	B91	B92
T	Y	S	T	L	K	V	Q
B93	B94	B95	B96	B97	B98	B99	B100
P	A	E	L	E	D	S	G
B101	B102	B103	B104	B105	B106	B107	B108
V	Y	F	C	A	S	S	Q
B109	B113	B114	B115	B116	B117	B118	B119
D	R	D	T	Q	Y	F	G
B120	B121	B122	B123	B124	B125	B126	B127
P	G	T	R	L	T	V	L

FASTA file

A1	A2	A3	A4	A5	A6	A8	A9
A	A	K	T	T	Q	P	P
A10	A11	A12	A13	A14	A15	A16	A17
S	M	D	V	A	E	G	R
A18	A19	A20	A21	A22	A23	A24	A25
A	A	N	L	P	C	N	H
A26	A27	A28	A29	A30	A36	A37	A38
S	T	I	S	G	N	E	Y
A39	A40	A41	A42	A43	A44	A45	A46
V	Y	W	Y	R	Q	I	H
A47	A48	A49	A50	A51	A52	A53	A54
S	Q	G	P	Q	Y	I	I
A55	A56	A57	A58	A64	A65	A66	A67
H	G	L	K	N	N	E	T
A68	A74	A75	A76	A77	A78	A79	A80
N	E	M	A	S	L	I	I
A81	A82	A83	A84	A85	A86	A87	A88
T	E	D	R	K	S	S	T
A89	A90	A91	A92	A93	A94	A95	A96
L	I	L	P	H	A	T	L
A97	A98	A99	A100	A101	A102	A103	A104
R	D	T	A	V	Y	Y	C
A105	A106	A107	A108	A109	A110	A112	A113
I	V	V	R	S	S	N	T
A114	A115	A116	A117	A118	A119	A120	A121
G	K	L	I	F	G	Q	G
A122	A123	A124	A125	A126	A127	A128
T	T	L	Q	V	K	P

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	ASSQDRDTQY	None	10
CDRB2	FVKESK	None	6
CDRB1	SGHDN	None	5
CDRA3	IVVRSSNTGKLI	None	12
CDRA2	GLKNN	None	5
CDRA1	TISGNEY	None	7

Orientation and docking angles:

Angle	Value
BC2	108.10°
BC1	73.44°
BA	-65.10°
AC2	92.34°
AC1	128.92°
dc	17.26Å
Docking angle	38.73°

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
7byd_ED	106.28°	72.10°	-62.40°	91.36°	127.86°	17.61Å	3.8
2esv_ED	107.82°	72.93°	-61.63°	93.92°	130.54°	17.31Å	4.2
4gg6_HG	110.99°	73.29°	-63.02°	90.06°	131.30°	16.97Å	4.9
4z7v_HG	111.21°	73.03°	-62.36°	92.92°	131.88°	17.12Å	5.1
3kps_ED	108.71°	71.81°	-63.92°	89.41°	132.56°	17.63Å	5.1

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