Details for 2q86

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Structure information

Structure of the Mouse invariant Nkt Cell Receptor Valpha14

Item	Info
PDB	2q86
Organism	MUS MUSCULUS
Method	X-RAY DIFFRACTION
Resolution	1.85Å
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	TRBV13/TRBJ2
VA IMGT details	TRAV11/TRAJ18
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
E	A	A	V	T	Q	S	P
B9	B10	B11	B12	B13	B14	B15	B16
R	N	K	V	A	V	T	G
B17	B18	B19	B20	B21	B22	B23	B24
G	K	V	T	L	S	C	N
B25	B26	B27	B28	B29	B37	B38	B39
Q	T	N	N	H	N	N	M
B40	B41	B42	B43	B44	B45	B46	B47
Y	W	Y	R	Q	D	T	G
B48	B49	B50	B51	B52	B53	B54	B55
H	G	L	R	L	I	H	Y
B56	B57	B58	B63	B64	B65	B66	B67
S	Y	G	A	G	S	T	E
B68	B69	B70	B71	B72	B74	B75	B76
K	G	D	I	P	D	G	Y
B77	B78	B79	B80	B81	B83	B84	B85
K	A	S	R	P	S	Q	E
B86	B87	B88	B89	B90	B91	B92	B93
N	F	S	L	I	L	E	L
B94	B95	B96	B97	B98	B99	B100	B101
A	T	P	S	Q	T	S	V
B102	B103	B104	B105	B106	B107	B108	B109
Y	F	C	A	S	G	G	G
B114	B115	B116	B117	B118	B119	B120	B121
G	T	L	Y	F	G	A	G
B122	B123	B124	B125	B126	B127
T	R	L	S	V	L

FASTA file

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

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	ASGGGGTLY	None	9
CDRB2	SYGAGS	None	6
CDRB1	NNHNN	None	5
CDRA3	VVGDRGSAL	None	9
CDRA2	LVDQKDK	A2-7-C	7
CDRA1	VTPDNH	None	6

Orientation and docking angles:

Angle	Value
BC2	109.01°
BC1	73.63°
BA	-59.77°
AC2	78.68°
AC1	124.18°
dc	16.58Å

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
8dnt_IH	107.67°	72.60°	-59.28°	77.90°	124.75°	16.64Å	2.0
8dnt_PM	107.67°	71.80°	-59.96°	78.60°	124.64°	16.70Å	2.3
2nx5_ED	108.26°	71.73°	-60.30°	78.17°	124.77°	16.81Å	2.3
8i5c_YX	106.49°	73.15°	-60.25°	78.11°	124.04°	16.56Å	2.7
7na5_ED	107.65°	72.03°	-60.43°	77.41°	125.33°	16.45Å	2.8

Antibodies with similar orientations:

Antibody PDB	HC2	HC1	HL	LC2	LC1	dc	ABangle Distance
4jj5_BA	113.30°	75.08°	-58.94°	79.43°	123.53°	16.49Å	4.7
3w14_PQ	112.54°	71.65°	-60.45°	80.80°	123.36°	16.03Å	4.7
1ghf_HL	110.63°	71.68°	-61.52°	81.98°	122.12°	16.05Å	5.0
1fbi_QP	113.29°	73.42°	-61.95°	78.25°	123.04°	15.83Å	5.0
4s1s_HL	113.28°	75.84°	-59.86°	79.98°	125.57°	15.71Å	5.2

D / C

TCR Details:

Item	Info
VB chain	D
VA chain	C
VB IMGT details	TRBV13/TRBJ2
VA IMGT details	TRAV11/TRAJ18
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
E	A	A	V	T	Q	S	P
B9	B10	B11	B12	B13	B14	B15	B16
R	N	K	V	A	V	T	G
B17	B18	B19	B20	B21	B22	B23	B24
G	K	V	T	L	S	C	N
B25	B26	B27	B28	B29	B37	B38	B39
Q	T	N	N	H	N	N	M
B40	B41	B42	B43	B44	B45	B46	B47
Y	W	Y	R	Q	D	T	G
B48	B49	B50	B51	B52	B53	B54	B55
H	G	L	R	L	I	H	Y
B56	B57	B58	B63	B64	B65	B66	B67
S	Y	G	A	G	S	T	E
B68	B69	B70	B71	B72	B74	B75	B76
K	G	D	I	P	D	G	Y
B77	B78	B79	B80	B81	B83	B84	B85
K	A	S	R	P	S	Q	E
B86	B87	B88	B89	B90	B91	B92	B93
N	F	S	L	I	L	E	L
B94	B95	B96	B97	B98	B99	B100	B101
A	T	P	S	Q	T	S	V
B102	B103	B104	B105	B106	B107	B108	B109
Y	F	C	A	S	G	G	G
B114	B115	B116	B117	B118	B119	B120	B121
G	T	L	Y	F	G	A	G
B122	B123	B124	B125	B126	B127
T	R	L	S	V	L

FASTA file

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

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	ASGGGGTLY	None	9
CDRB2	SYGAGS	None	6
CDRB1	NNHNN	None	5
CDRA3	VVGDRGSAL	None	9
CDRA2	LVDQKDK	A2-7-C	7
CDRA1	VTPDNH	None	6

Orientation and docking angles:

Angle	Value
BC2	104.79°
BC1	75.52°
BA	-52.30°
AC2	78.86°
AC1	123.56°
dc	16.37Å

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
6fur_BA	105.02°	77.58°	-51.11°	79.04°	122.74°	16.24Å	2.5
6frb_BA	105.40°	77.64°	-51.43°	78.73°	122.77°	16.23Å	2.5
6frc_BA	105.70°	77.45°	-51.44°	78.36°	122.62°	16.30Å	2.5
6fr9_BA	105.34°	77.72°	-51.57°	78.78°	122.45°	16.33Å	2.6
3mbe_DC	105.96°	75.46°	-53.75°	79.63°	121.96°	15.91Å	2.6

Antibodies with similar orientations:

Antibody PDB	HC2	HC1	HL	LC2	LC1	dc	ABangle Distance
3mnw_BA	107.15°	71.13°	-53.34°	82.80°	121.51°	16.47Å	6.8
3mnz_BA	108.41°	71.26°	-53.27°	82.05°	121.70°	16.38Å	6.8
1fj1_DC	109.78°	71.11°	-51.69°	80.11°	123.02°	16.12Å	6.8
4yfl_HL	109.78°	73.75°	-56.79°	79.59°	122.71°	16.13Å	7.0
1mlc_DC	111.18°	74.81°	-53.86°	82.25°	119.71°	16.04Å	8.4

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