Details for 1kj2

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Structure information

Murine alloreactive Scfv TCR-Peptide-MHC Class I Molecule complex

Item	Info
PDB	1kj2
Organism	MUS MUSCULUS
Method	X-RAY DIFFRACTION
Resolution	2.71Å
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	TRAV14/TRAJ15
Species	mouse

Antigen Details:

Item	Info
Antigen Chain	P
Antigen Type	Peptide
Antigen Organism	SYNTHETIC CONSTRUCT
Antigen Sequence	KVITFIDL
Antigen Length	8

MHC details:

Item	Info
MHC Chain	H \| L
MHC Type	MH1
MHC Species	mouse
MHC IMGT details	MH1-K1b

Numbered sequence

Chain type

Chain ID

FASTA/Annotation file

IMGT numbered sequence (Framework/CDR)

FASTA file

B1	B2	B3	B4	B5	B6	B7	B8
V	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	A
B110	B111	B111A	B112B	B112A	B112	B113	B114
P	D	W	G	A	S	A	E
B115	B116	B117	B118	B119	B120	B121	B122
T	L	Y	F	G	S	G	T
B123	B124	B125	B126	B127
R	L	T	V	L

FASTA file

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

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	TCSAAPDWGASAETLY	None	16
CDRB2	LRSPGD	B2-6-C	6
CDRB1	NSQYPW	B1-6-A	6
CDRA3	AARYQGGRALI	None	11
CDRA2	IRSVSDK	None	7
CDRA1	DSTFNY	None	6

Orientation and docking angles:

Angle	Value
BC2	108.32°
BC1	85.39°
BA	-51.99°
AC2	82.20°
AC1	121.44°
dc	15.47Å
Docking angle	31.00°

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
3to4_DC	107.02°	83.63°	-53.43°	83.97°	121.57°	15.42Å	3.2
3uts_JI	108.87°	79.90°	-58.16°	82.82°	121.85°	15.91Å	8.3
8d5p_BA	110.43°	79.01°	-55.92°	82.81°	125.03°	15.68Å	8.6
6dfq_FE	106.35°	79.02°	-57.24°	81.44°	120.30°	15.27Å	8.6
6fur_DC	106.56°	78.07°	-51.28°	78.27°	122.54°	16.32Å	8.6

E / D

TCR Details:

Item	Info
VB chain	E
VA chain	D
VB IMGT details	TRBV1/TRBJ2
VA IMGT details	TRAV14/TRAJ15
Species	mouse

Antigen Details:

Item	Info
Antigen Chain	Q
Antigen Type	Peptide
Antigen Organism	SYNTHETIC CONSTRUCT
Antigen Sequence	KVITFIDL
Antigen Length	8

MHC details:

Item	Info
MHC Chain	I \| M
MHC Type	MH1
MHC Species	mouse
MHC IMGT details	MH1-K1b

Numbered sequence

Chain type

Chain ID

FASTA/Annotation file

IMGT numbered sequence (Framework/CDR)

FASTA file

B1	B2	B3	B4	B5	B6	B7	B8
V	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	A
B110	B111	B111A	B112B	B112A	B112	B113	B114
P	D	W	G	A	S	A	E
B115	B116	B117	B118	B119	B120	B121	B122
T	L	Y	F	G	S	G	T
B123	B124	B125	B126	B127
R	L	T	V	L

FASTA file

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

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	TCSAAPDWGASAETLY	None	16
CDRB2	LRSPGD	B2-6-C	6
CDRB1	NSQYPW	B1-6-A	6
CDRA3	AARYQGGRALI	None	11
CDRA2	IRSVSDK	None	7
CDRA1	DSTFNY	None	6

Orientation and docking angles:

Angle	Value
BC2	110.30°
BC1	84.69°
BA	-50.38°
AC2	82.85°
AC1	122.32°
dc	15.59Å
Docking angle	30.45°

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
3to4_DC	107.02°	83.63°	-53.43°	83.97°	121.57°	15.42Å	4.8
8d5p_BA	110.43°	79.01°	-55.92°	82.81°	125.03°	15.68Å	8.4
6fur_DC	106.56°	78.07°	-51.28°	78.27°	122.54°	16.32Å	9.0
6fup_BA	106.85°	77.85°	-51.68°	77.92°	122.43°	16.36Å	9.2
3uts_JI	108.87°	79.90°	-58.16°	82.82°	121.85°	15.91Å	9.3

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