Details for 8d5p

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Structure information

Mouse TCR Tg6

Item	Info
PDB	8d5p
Organism	MUS MUSCULUS
Method	X-RAY DIFFRACTION
Resolution	2.75Å
Number of TCRs	2

Paired chains information

This PDB has 2 TCR(s).

B / A

TCR Details:

Item	Info
VB chain	B
VA chain	A
VB IMGT details	TRBV1/TRBJ2
VA IMGT details	TRAV6/TRAJ52
Species	mouse

Numbered sequence

Chain type

Chain ID

FASTA/Annotation file

IMGT numbered sequence (Framework/CDR)

FASTA file

B1	B2	B3	B4	B5	B6	B7	B8
M	T	L	L	E	Q	N	P
B9	B10	B11	B12	B13	B14	B15	B16
R	W	R	L	V	P	R	G
B17	B18	B19	B20	B21	B22	B23	B24
Q	A	V	N	L	R	C	I
B25	B26	B27	B28	B29	B36	B37	B38
L	K	N	S	Q	Y	P	W
B39	B40	B41	B42	B43	B44	B45	B46
M	S	W	Y	Q	Q	D	L
B47	B48	B49	B50	B51	B52	B53	B54
Q	K	Q	L	Q	W	L	F
B55	B56	B57	B58	B63	B64	B65	B66
T	L	R	S	P	G	D	K
B67	B68	B69	B70	B71	B72	B73	B74
E	V	K	S	L	P	G	A
B75	B76	B77	B78	B79	B80	B81	B83
D	Y	L	A	T	R	V	T
B84	B85	B86	B87	B88	B89	B90	B91
D	T	E	L	R	L	Q	V
B92	B93	B94	B95	B98	B99	B100	B101
A	N	M	S	Q	G	R	T
B102	B103	B104	B105	B106	B107	B108	B109
L	Y	C	T	C	S	A	G
B110	B111	B112	B113	B114	B115	B116	B117
R	G	G	Y	A	E	Q	F
B118	B119	B120	B121	B122	B123	B124	B125
F	G	P	G	T	R	L	T
B126	B127
V	L

FASTA file

A1	A2	A3	A4	A5	A6	A7	A8
M	D	S	V	T	Q	T	E
A9	A10	A11	A12	A13	A14	A15	A16
G	Q	V	A	L	S	E	E
A17	A18	A19	A20	A21	A22	A23	A24
D	F	L	T	I	H	C	N
A25	A26	A27	A28	A29	A36	A37	A38
Y	S	A	S	G	Y	P	A
A39	A40	A41	A42	A43	A44	A45	A46
L	F	W	Y	V	Q	Y	P
A47	A48	A49	A50	A51	A52	A53	A54
G	E	G	P	Q	F	L	F
A55	A56	A57	A58	A59	A63	A64	A65
R	A	S	R	D	K	E	K
A66	A67	A68	A74	A75	A76	A77	A78
G	S	S	R	G	F	E	A
A79	A80	A81	A82	A83	A84	A85	A86
T	Y	N	K	E	T	T	S
A87	A88	A89	A90	A91	A92	A93	A94
F	H	L	Q	K	A	S	V
A95	A96	A97	A98	A99	A100	A101	A102
Q	E	S	D	S	A	V	Y
A103	A104	A105	A106	A107	A108	A109	A110
Y	C	A	L	G	D	P	T
A111	A112A	A112	A113	A114	A115	A116	A117
G	A	N	T	G	K	L	T
A118	A119	A120	A121	A122	A123	A124	A125
F	G	H	G	T	I	L	R
A126	A127	A128
V	H	P

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	TCSAGRGGYAEQF	None	13
CDRB2	LRSPGD	B2-6-C	6
CDRB1	NSQYPW	B1-6-A	6
CDRA3	ALGDPTGANTGKLT	None	14
CDRA2	ASRDKEK	None	7
CDRA1	ASGYPA	None	6

Orientation and docking angles:

Angle	Value
BC2	110.43°
BC1	79.01°
BA	-55.92°
AC2	82.81°
AC1	125.03°
dc	15.68Å

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
3uts_JI	108.87°	79.90°	-58.16°	82.82°	121.85°	15.91Å	4.3
3uts_ED	109.15°	79.11°	-59.05°	83.20°	121.82°	15.95Å	4.7
1kb5_BA	109.22°	77.68°	-59.58°	80.82°	123.64°	15.94Å	4.8
5c0b_ED	111.82°	79.76°	-60.18°	82.23°	122.29°	15.88Å	5.3
5c08_JI	111.51°	79.52°	-60.13°	81.85°	122.01°	15.86Å	5.4

Antibodies with similar orientations:

Antibody PDB	HC2	HC1	HL	LC2	LC1	dc	ABangle Distance
3ngb_JK	113.58°	76.57°	-58.29°	82.12°	126.52°	15.32Å	4.9
4jkp_HL	113.93°	77.37°	-58.92°	82.11°	124.47°	15.16Å	5.0
3u7y_HL	113.61°	76.93°	-60.36°	81.15°	125.35°	15.13Å	6.1
1j05_BA	112.63°	74.17°	-55.51°	81.57°	122.31°	15.88Å	6.1
4s1r_HL	114.56°	75.71°	-58.94°	83.32°	124.49°	16.28Å	6.2

D / C

TCR Details:

Item	Info
VB chain	D
VA chain	C
VB IMGT details	TRBV1/TRBJ2
VA IMGT details	TRAV6/TRAJ52
Species	mouse

Numbered sequence

Chain type

Chain ID

FASTA/Annotation file

IMGT numbered sequence (Framework/CDR)

FASTA file

B1	B2	B3	B4	B5	B6	B7	B8
M	T	L	L	E	Q	N	P
B9	B10	B11	B12	B13	B14	B15	B16
R	W	R	L	V	P	R	G
B17	B18	B19	B20	B21	B22	B23	B24
Q	A	V	N	L	R	C	I
B25	B26	B27	B28	B29	B36	B37	B38
L	K	N	S	Q	Y	P	W
B39	B40	B41	B42	B43	B44	B45	B46
M	S	W	Y	Q	Q	D	L
B47	B48	B49	B50	B51	B52	B53	B54
Q	K	Q	L	Q	W	L	F
B55	B56	B57	B58	B63	B64	B65	B66
T	L	R	S	P	G	D	K
B67	B68	B69	B70	B71	B72	B73	B74
E	V	K	S	L	P	G	A
B75	B76	B77	B78	B79	B80	B81	B83
D	Y	L	A	T	R	V	T
B84	B85	B86	B87	B88	B89	B90	B91
D	T	E	L	R	L	Q	V
B92	B93	B94	B95	B98	B99	B100	B101
A	N	M	S	Q	G	R	T
B102	B103	B104	B105	B106	B107	B108	B109
L	Y	C	T	C	S	A	G
B110	B111	B112	B113	B114	B115	B116	B117
R	G	G	Y	A	E	Q	F
B118	B119	B120	B121	B122	B123	B124	B125
F	G	P	G	T	R	L	T
B126	B127
V	L

FASTA file

A1	A2	A3	A4	A5	A6	A7	A8
M	D	S	V	T	Q	T	E
A9	A10	A11	A12	A13	A14	A15	A16
G	Q	V	A	L	S	E	E
A17	A18	A19	A20	A21	A22	A23	A24
D	F	L	T	I	H	C	N
A25	A26	A27	A28	A29	A36	A37	A38
Y	S	A	S	G	Y	P	A
A39	A40	A41	A42	A43	A44	A45	A46
L	F	W	Y	V	Q	Y	P
A47	A48	A49	A50	A51	A52	A53	A54
G	E	G	P	Q	F	L	F
A55	A56	A57	A58	A59	A63	A64	A65
R	A	S	R	D	K	E	K
A66	A67	A68	A74	A75	A76	A77	A78
G	S	S	R	G	F	E	A
A79	A80	A81	A82	A83	A84	A85	A86
T	Y	N	K	E	T	T	S
A87	A88	A89	A90	A91	A92	A93	A94
F	H	L	Q	K	A	S	V
A95	A96	A97	A98	A99	A100	A101	A102
Q	E	S	D	S	A	V	Y
A103	A104	A105	A106	A107	A108	A109	A110
Y	C	A	L	G	D	P	T
A111	A112A	A112	A113	A114	A115	A116	A117
G	A	N	T	G	K	L	T
A118	A119	A120	A121	A122	A123	A124	A125
F	G	H	G	T	I	L	R
A126	A127	A128
V	H	P

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	TCSAGRGGYAEQF	None	13
CDRB2	LRSPGD	B2-6-C	6
CDRB1	NSQYPW	B1-6-A	6
CDRA3	ALGDPTGANTGKLT	None	14
CDRA2	ASRDKEK	None	7
CDRA1	ASGYPA	None	6

Orientation and docking angles:

Angle	Value
BC2	110.20°
BC1	78.67°
BA	-57.64°
AC2	81.97°
AC1	124.77°
dc	15.75Å

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
1kb5_BA	109.22°	77.68°	-59.58°	80.82°	123.64°	15.94Å	2.9
3uts_JI	108.87°	79.90°	-58.16°	82.82°	121.85°	15.91Å	3.6
3uts_ED	109.15°	79.11°	-59.05°	83.20°	121.82°	15.95Å	3.7
5c0a_ED	110.76°	79.27°	-60.64°	81.16°	122.52°	15.82Å	3.9
5c08_JI	111.51°	79.52°	-60.13°	81.85°	122.01°	15.86Å	4.0

Antibodies with similar orientations:

Antibody PDB	HC2	HC1	HL	LC2	LC1	dc	ABangle Distance
4jkp_HL	113.93°	77.37°	-58.92°	82.11°	124.47°	15.16Å	4.2
3ngb_JK	113.58°	76.57°	-58.29°	82.12°	126.52°	15.32Å	4.4
3u7y_HL	113.61°	76.93°	-60.36°	81.15°	125.35°	15.13Å	4.8
4s1s_HL	113.28°	75.84°	-59.86°	79.98°	125.57°	15.71Å	5.2
4s1r_HL	114.56°	75.71°	-58.94°	83.32°	124.49°	16.28Å	5.6

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