Details for 4p5t

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Structure information

14.C6 TCR complexed with MHC Class Ii I-ab/3K Peptide

Item	Info
PDB	4p5t
Organism	HOMO SAPIENS
Method	X-RAY DIFFRACTION
Resolution	3.263Å
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	TRAV14/TRAJ16
Species	mouse

MHC details:

Item	Info
MHC Chain	C \| D
MHC Type	MH2
MHC Species	mouse
MHC IMGT details	MH2-AA / H2-AB1*01

Numbered sequence

Chain type

Chain ID

FASTA/Annotation file

IMGT numbered sequence (Framework/CDR)

FASTA file

B2	B3	B4	B5	B6	B7	B8	B9
M	A	V	T	Q	S	P	R
B10	B11	B12	B13	B14	B15	B16	B17
N	K	V	A	V	T	G	G
B18	B19	B20	B21	B22	B23	B24	B25
K	V	T	L	S	C	N	Q
B26	B27	B28	B29	B37	B38	B39	B40
T	N	N	H	N	N	M	Y
B41	B42	B43	B44	B45	B46	B47	B48
W	Y	R	Q	D	T	G	H
B49	B50	B51	B52	B53	B54	B55	B56
G	L	R	L	I	H	Y	S
B57	B58	B63	B64	B65	B66	B67	B68
Y	G	A	G	S	T	E	K
B69	B70	B71	B72	B74	B75	B76	B77
G	D	I	P	D	G	Y	K
B78	B79	B80	B81	B83	B84	B85	B86
A	S	R	P	S	Q	E	N
B87	B88	B89	B90	B91	B92	B93	B94
F	S	L	I	L	E	L	A
B95	B96	B97	B98	B99	B100	B101	B102
T	P	S	Q	T	S	V	Y
B103	B104	B105	B106	B107	B108	B109	B110
F	C	A	S	G	D	F	W
B113	B114	B115	B116	B117	B118	B119	B120
G	D	T	L	Y	F	G	A
B121	B122	B123	B124	B125	B126	B127
G	T	R	L	S	V	L

FASTA file

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

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	ASGDFWGDTLY	None	11
CDRB2	SYGAGS	None	6
CDRB1	NNHNN	None	5
CDRA3	AASRDSGQKLV	None	11
CDRA2	IRSVSDK	None	7
CDRA1	NSAFDY	None	6

Orientation and docking angles:

Angle	Value
BC2	108.71°
BC1	72.59°
BA	-63.65°
AC2	75.17°
AC1	122.54°
dc	16.55Å
Docking angle	44.57°

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
4mxq_DC	107.70°	72.07°	-64.15°	75.68°	123.06°	16.76Å	1.5
3c60_BA	107.87°	72.85°	-62.87°	74.17°	122.49°	16.41Å	1.6
3c60_FE	107.89°	72.90°	-62.78°	74.22°	122.48°	16.41Å	1.6
4n0c_DC	109.77°	71.54°	-64.83°	74.82°	122.75°	16.47Å	1.9
3tfk_DC	107.12°	71.92°	-64.14°	75.40°	123.45°	16.86Å	2.0

Antibodies with similar orientations:

Antibody PDB	HC2	HC1	HL	LC2	LC1	dc	ABangle Distance
4yfl_FI	106.92°	71.36°	-64.48°	73.60°	120.95°	15.85Å	3.3
2vxu_IM	110.96°	71.68°	-62.78°	78.60°	119.89°	16.17Å	5.1
3wih_IM	112.74°	73.69°	-62.39°	76.91°	120.77°	15.54Å	5.1
1jv5_BA	111.45°	73.74°	-67.77°	74.39°	122.07°	15.49Å	5.3
4uil_HL	109.73°	69.62°	-65.41°	77.88°	119.52°	16.24Å	5.4

F / E

TCR Details:

Item	Info
VB chain	F
VA chain	E
VB IMGT details	TRBV13/TRBJ2
VA IMGT details	TRAV14/TRAJ16
Species	mouse

MHC details:

Item	Info
MHC Chain	G \| H
MHC Type	MH2
MHC Species	mouse
MHC IMGT details	MH2-AA / H2-AB1*01

Numbered sequence

Chain type

Chain ID

FASTA/Annotation file

IMGT numbered sequence (Framework/CDR)

FASTA file

B2	B3	B4	B5	B6	B7	B8	B9
M	A	V	T	Q	S	P	R
B10	B11	B12	B13	B14	B15	B16	B17
N	K	V	A	V	T	G	G
B18	B19	B20	B21	B22	B23	B24	B25
K	V	T	L	S	C	N	Q
B26	B27	B28	B29	B37	B38	B39	B40
T	N	N	H	N	N	M	Y
B41	B42	B43	B44	B45	B46	B47	B48
W	Y	R	Q	D	T	G	H
B49	B50	B51	B52	B53	B54	B55	B56
G	L	R	L	I	H	Y	S
B57	B58	B63	B64	B65	B66	B67	B68
Y	G	A	G	S	T	E	K
B69	B70	B71	B72	B74	B75	B76	B77
G	D	I	P	D	G	Y	K
B78	B79	B80	B81	B83	B84	B85	B86
A	S	R	P	S	Q	E	N
B87	B88	B89	B90	B91	B92	B93	B94
F	S	L	I	L	E	L	A
B95	B96	B97	B98	B99	B100	B101	B102
T	P	S	Q	T	S	V	Y
B103	B104	B105	B106	B107	B108	B109	B110
F	C	A	S	G	D	F	W
B113	B114	B115	B116	B117	B118	B119	B120
G	D	T	L	Y	F	G	A
B121	B122	B123	B124	B125	B126	B127
G	T	R	L	S	V	L

FASTA file

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

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	ASGDFWGDTLY	None	11
CDRB2	SYGAGS	None	6
CDRB1	NNHNN	None	5
CDRA3	AASRDSGQKLV	None	11
CDRA2	IRSVSDK	None	7
CDRA1	NSAFDY	None	6

Orientation and docking angles:

Angle	Value
BC2	108.86°
BC1	72.42°
BA	-64.20°
AC2	75.08°
AC1	122.58°
dc	16.54Å
Docking angle	45.70°

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
4n0c_DC	109.77°	71.54°	-64.83°	74.82°	122.75°	16.47Å	1.4
4mxq_DC	107.70°	72.07°	-64.15°	75.68°	123.06°	16.76Å	1.5
1u3h_BA	109.33°	71.68°	-64.54°	73.89°	122.91°	16.82Å	1.6
3c60_BA	107.87°	72.85°	-62.87°	74.17°	122.49°	16.41Å	1.9
3c60_FE	107.89°	72.90°	-62.78°	74.22°	122.48°	16.41Å	2.0

Antibodies with similar orientations:

Antibody PDB	HC2	HC1	HL	LC2	LC1	dc	ABangle Distance
4yfl_FI	106.92°	71.36°	-64.48°	73.60°	120.95°	15.85Å	3.2
1jv5_BA	111.45°	73.74°	-67.77°	74.39°	122.07°	15.49Å	4.8
2vxu_IM	110.96°	71.68°	-62.78°	78.60°	119.89°	16.17Å	5.2
4uil_HL	109.73°	69.62°	-65.41°	77.88°	119.52°	16.24Å	5.2
3wih_IM	112.74°	73.69°	-62.39°	76.91°	120.77°	15.54Å	5.3

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