Details for 3pqy

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Structure information

Crystal Structure of 6218 TCR in complex with the H2Db-Pa224

Item	Info
PDB	3pqy
Organism	CHIMERIC HOMO SAPIENS/MUS MUSCULUS
Method	X-RAY DIFFRACTION
Resolution	3.192Å
Number of TCRs	4

Paired chains information

This PDB has 4 TCR(s).

E / D

TCR Details:

Item	Info
VB chain	E
VA chain	D
VB IMGT details	TRBV29/TRBJ2
VA IMGT details	TRAV21/TRAJ53
Species	mouse

Antigen Details:

Item	Info
Antigen Chain	C
Antigen Type	Peptide
Antigen Organism	SYNTHETIC CONSTRUCT
Antigen Sequence	SSLENFRAYV
Antigen Length	10

MHC details:

Item	Info
MHC Chain	A \| B
MHC Type	MH1
MHC Species	mouse
MHC IMGT details	H2-D1b

Numbered sequence

Chain type

Chain ID

FASTA/Annotation file

IMGT numbered sequence (Framework/CDR)

FASTA file

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

FASTA file

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

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	ASSFGREQY	None	9
CDRB2	SYDVDS	None	6
CDRB1	MSHET	None	5
CDRA3	ILSGGSNYKLT	None	11
CDRA2	GLQQN	None	5
CDRA1	TISGNEY	None	7

Orientation and docking angles:

Angle	Value
BC2	107.20°
BC1	69.52°
BA	-58.40°
AC2	89.24°
AC1	131.57°
dc	18.08Å
Docking angle	50.55°

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
7n5c_ED	105.57°	71.00°	-59.85°	87.94°	130.75°	17.78Å	3.1
7n4k_ED	105.07°	69.54°	-58.83°	91.75°	131.98°	18.15Å	3.3
7n5p_ED	104.77°	69.71°	-58.12°	91.83°	131.57°	18.06Å	3.6
4z7u_HG	108.35°	73.51°	-58.43°	88.99°	131.96°	17.40Å	4.2
4z7u_FE	107.76°	73.67°	-57.94°	88.53°	131.88°	17.47Å	4.3

Antibodies with similar orientations:

Antibody PDB	HC2	HC1	HL	LC2	LC1	dc	ABangle Distance
4ydl_HL	108.56°	70.76°	-54.72°	85.96°	123.49°	15.98Å	9.9
2w60_AB	111.29°	72.16°	-56.81°	86.34°	123.74°	16.34Å	9.9

J / I

TCR Details:

Item	Info
VB chain	J
VA chain	I
VB IMGT details	TRBV29/TRBJ2
VA IMGT details	TRAV21/TRAJ53
Species	mouse

Antigen Details:

Item	Info
Antigen Chain	H
Antigen Type	Peptide
Antigen Organism	SYNTHETIC CONSTRUCT
Antigen Sequence	SSLENFRAYV
Antigen Length	10

MHC details:

Item	Info
MHC Chain	F \| G
MHC Type	MH1
MHC Species	mouse
MHC IMGT details	H2-D1b

Numbered sequence

Chain type

Chain ID

FASTA/Annotation file

IMGT numbered sequence (Framework/CDR)

FASTA file

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

FASTA file

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

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	ASSFGREQY	None	9
CDRB2	SYDVDS	None	6
CDRB1	MSHET	None	5
CDRA3	ILSGGSNYKLT	None	11
CDRA2	GLQQN	None	5
CDRA1	TISGNEY	None	7

Orientation and docking angles:

Angle	Value
BC2	107.68°
BC1	69.73°
BA	-56.20°
AC2	90.17°
AC1	132.20°
dc	18.07Å
Docking angle	48.23°

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
7sg2_ED	106.67°	69.23°	-53.38°	88.19°	132.97°	18.09Å	3.7
7n5p_ED	104.77°	69.71°	-58.12°	91.83°	131.57°	18.06Å	3.9
7n4k_ED	105.07°	69.54°	-58.83°	91.75°	131.98°	18.15Å	4.0
3o6f_HG	104.58°	69.75°	-54.07°	87.97°	132.76°	17.81Å	4.4
4z7u_HG	108.35°	73.51°	-58.43°	88.99°	131.96°	17.40Å	4.6

O / N

TCR Details:

Item	Info
VB chain	O
VA chain	N
VB IMGT details	TRBV29/TRBJ2
VA IMGT details	TRAV21/TRAJ53
Species	mouse

Antigen Details:

Item	Info
Antigen Chain	M
Antigen Type	Peptide
Antigen Organism	SYNTHETIC CONSTRUCT
Antigen Sequence	SSLENFRAYV
Antigen Length	10

MHC details:

Item	Info
MHC Chain	K \| L
MHC Type	MH1
MHC Species	mouse
MHC IMGT details	H2-D1b

Numbered sequence

Chain type

Chain ID

FASTA/Annotation file

IMGT numbered sequence (Framework/CDR)

FASTA file

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

FASTA file

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

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	ASSFGREQY	None	9
CDRB2	SYDVDS	None	6
CDRB1	MSHET	None	5
CDRA3	ILSGGSNYKLT	None	11
CDRA2	GLQQN	None	5
CDRA1	TISGNEY	None	7

Orientation and docking angles:

Angle	Value
BC2	107.82°
BC1	69.20°
BA	-57.40°
AC2	90.47°
AC1	131.73°
dc	18.14Å
Docking angle	45.66°

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
7n4k_ED	105.07°	69.54°	-58.83°	91.75°	131.98°	18.15Å	3.4
7n5p_ED	104.77°	69.71°	-58.12°	91.83°	131.57°	18.06Å	3.5
8vd2_ED	108.51°	70.82°	-55.99°	93.57°	129.47°	17.24Å	4.5
7n5c_ED	105.57°	71.00°	-59.85°	87.94°	130.75°	17.78Å	4.7
4z7u_HG	108.35°	73.51°	-58.43°	88.99°	131.96°	17.40Å	4.8

T / S

TCR Details:

Item	Info
VB chain	T
VA chain	S
VB IMGT details	TRBV29/TRBJ2
VA IMGT details	TRAV21/TRAJ53
Species	mouse

Antigen Details:

Item	Info
Antigen Chain	R
Antigen Type	Peptide
Antigen Organism	SYNTHETIC CONSTRUCT
Antigen Sequence	SSLENFRAYV
Antigen Length	10

MHC details:

Item	Info
MHC Chain	P \| Q
MHC Type	MH1
MHC Species	mouse
MHC IMGT details	H2-D1b

Numbered sequence

Chain type

Chain ID

FASTA/Annotation file

IMGT numbered sequence (Framework/CDR)

FASTA file

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

FASTA file

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

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	ASSFGREQY	None	9
CDRB2	SYDVDS	None	6
CDRB1	MSHET	None	5
CDRA3	ILSGGSNYKLT	None	11
CDRA2	GLQQN	None	5
CDRA1	TISGNEY	None	7

Orientation and docking angles:

Angle	Value
BC2	105.91°
BC1	69.89°
BA	-57.66°
AC2	90.05°
AC1	131.38°
dc	18.13Å
Docking angle	50.05°

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
7n5p_ED	104.77°	69.71°	-58.12°	91.83°	131.57°	18.06Å	2.2
7n4k_ED	105.07°	69.54°	-58.83°	91.75°	131.98°	18.15Å	2.3
7n5c_ED	105.57°	71.00°	-59.85°	87.94°	130.75°	17.78Å	3.3
4z7u_FE	107.76°	73.67°	-57.94°	88.53°	131.88°	17.47Å	4.6
3o6f_HG	104.58°	69.75°	-54.07°	87.97°	132.76°	17.81Å	4.6

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