Details for 4p2q

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Structure information

Crystal Structure of the 5Cc7 TCR in complex with 5C2/I-Ek

Item	Info
PDB	4p2q
Organism	MUS MUSCULUS
Method	X-RAY DIFFRACTION
Resolution	3.3Å
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	TRBV26/TRBJ1
VA IMGT details	TRAV4/TRAJ34
Species	mouse

Antigen Details:

Item	Info
Antigen Chain	C
Antigen Type	Peptide
Antigen Organism	SYNTHETIC CONSTRUCT
Antigen Sequence	ADGLAYFRSSFKGG
Antigen Length	14

MHC details:

Item	Info
MHC Chain	A \| B
MHC Type	MH2
MHC Species	mouse
MHC IMGT details	H2-EA / H2-EB1k

Numbered sequence

Chain type

Chain ID

FASTA/Annotation file

IMGT numbered sequence (Framework/CDR)

FASTA file

B1	B2	B3	B4	B5	B6	B7	B8
G	G	K	V	I	Q	T	P
B9	B10	B11	B12	B13	B14	B15	B16
R	Y	L	V	K	G	Q	G
B17	B18	B19	B20	B21	B22	B23	B24
Q	K	A	K	M	R	C	I
B25	B26	B27	B28	B29	B37	B38	B39
P	E	K	G	H	P	V	V
B40	B41	B42	B43	B44	B45	B46	B47
F	W	Y	Q	Q	N	K	N
B48	B49	B50	B51	B52	B53	B54	B55
N	E	F	K	F	L	I	N
B56	B57	B58	B63	B64	B65	B66	B67
F	Q	N	Q	E	V	L	Q
B68	B69	B70	B71	B72	B73	B74	B75
Q	I	D	M	T	E	K	R
B76	B77	B78	B79	B80	B81	B83	B84
F	S	A	E	C	P	S	N
B85	B86	B87	B88	B89	B90	B91	B92
S	P	C	S	L	E	I	Q
B93	B94	B95	B96	B97	B98	B99	B100
S	S	E	A	G	D	S	A
B101	B102	B103	B104	B105	B106	B107	B108
L	Y	L	C	A	S	S	L
B109	B110	B112	B113	B114	B115	B116	B117
N	N	A	N	S	D	Y	T
B118	B119	B120	B121	B122	B123	B124	B125
F	G	S	G	T	R	L	L
B126	B127
V	I

FASTA file

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

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	ASSLNNANSDYT	None	12
CDRB2	FQNQEV	None	6
CDRB1	KGHPV	None	5
CDRA3	AAEASNTNKVV	None	11
CDRA2	LASGT	None	5
CDRA1	TTMRA	None	5

Orientation and docking angles:

Angle	Value
BC2	93.07°
BC1	71.17°
BA	-62.96°
AC2	78.58°
AC1	120.63°
dc	16.55Å
Docking angle	31.74°

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
4p2r_ED	93.70°	71.00°	-63.39°	78.53°	121.02°	16.53Å	0.9
4p2r_ON	93.64°	71.61°	-63.23°	78.69°	120.05°	16.45Å	1.0
4p2r_JI	93.74°	71.57°	-63.19°	79.51°	121.03°	16.35Å	1.3
4p2r_TS	93.90°	70.96°	-62.23°	79.56°	121.61°	16.59Å	1.8
3qjh_DC	95.16°	71.23°	-62.76°	80.66°	120.31°	16.37Å	3.0

J / I

TCR Details:

Item	Info
VB chain	J
VA chain	I
VB IMGT details	TRBV26/TRBJ1
VA IMGT details	TRAV4/TRAJ34
Species	mouse

Antigen Details:

Item	Info
Antigen Chain	H
Antigen Type	Peptide
Antigen Organism	SYNTHETIC CONSTRUCT
Antigen Sequence	ADGLAYFRSSFKGG
Antigen Length	14

MHC details:

Item	Info
MHC Chain	F \| G
MHC Type	MH2
MHC Species	mouse
MHC IMGT details	H2-EA / H2-EB1k

Numbered sequence

Chain type

Chain ID

FASTA/Annotation file

IMGT numbered sequence (Framework/CDR)

FASTA file

B1	B2	B3	B4	B5	B6	B7	B8
G	G	K	V	I	Q	T	P
B9	B10	B11	B12	B13	B14	B15	B16
R	Y	L	V	K	G	Q	G
B17	B18	B19	B20	B21	B22	B23	B24
Q	K	A	K	M	R	C	I
B25	B26	B27	B28	B29	B37	B38	B39
P	E	K	G	H	P	V	V
B40	B41	B42	B43	B44	B45	B46	B47
F	W	Y	Q	Q	N	K	N
B48	B49	B50	B51	B52	B53	B54	B55
N	E	F	K	F	L	I	N
B56	B57	B58	B63	B64	B65	B66	B67
F	Q	N	Q	E	V	L	Q
B68	B69	B70	B71	B72	B73	B74	B75
Q	I	D	M	T	E	K	R
B76	B77	B78	B79	B80	B81	B83	B84
F	S	A	E	C	P	S	N
B85	B86	B87	B88	B89	B90	B91	B92
S	P	C	S	L	E	I	Q
B93	B94	B95	B96	B97	B98	B99	B100
S	S	E	A	G	D	S	A
B101	B102	B103	B104	B105	B106	B107	B108
L	Y	L	C	A	S	S	L
B109	B110	B112	B113	B114	B115	B116	B117
N	N	A	N	S	D	Y	T
B118	B119	B120	B121	B122	B123	B124	B125
F	G	S	G	T	R	L	L
B126	B127
V	I

FASTA file

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

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	ASSLNNANSDYT	None	12
CDRB2	FQNQEV	None	6
CDRB1	KGHPV	None	5
CDRA3	AAEASNTNKVV	None	11
CDRA2	LASGT	None	5
CDRA1	TTMRA	None	5

Orientation and docking angles:

Angle	Value
BC2	93.29°
BC1	71.46°
BA	-62.62°
AC2	79.72°
AC1	121.00°
dc	16.37Å
Docking angle	31.50°

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
4p2r_JI	93.74°	71.57°	-63.19°	79.51°	121.03°	16.35Å	0.8
4p2r_TS	93.90°	70.96°	-62.23°	79.56°	121.61°	16.59Å	1.1
4p2r_ON	93.64°	71.61°	-63.23°	78.69°	120.05°	16.45Å	1.6
4p2r_ED	93.70°	71.00°	-63.39°	78.53°	121.02°	16.53Å	1.6
3qjh_DC	95.16°	71.23°	-62.76°	80.66°	120.31°	16.37Å	2.2

O / N

TCR Details:

Item	Info
VB chain	O
VA chain	N
VB IMGT details	TRBV26/TRBJ1
VA IMGT details	TRAV4/TRAJ34
Species	mouse

Antigen Details:

Item	Info
Antigen Chain	M
Antigen Type	Peptide
Antigen Organism	SYNTHETIC CONSTRUCT
Antigen Sequence	ADGLAYFRSSFKGG
Antigen Length	14

MHC details:

Item	Info
MHC Chain	K \| L
MHC Type	MH2
MHC Species	mouse
MHC IMGT details	H2-EA / H2-EB1k

Numbered sequence

Chain type

Chain ID

FASTA/Annotation file

IMGT numbered sequence (Framework/CDR)

FASTA file

B1	B2	B3	B4	B5	B6	B7	B8
G	G	K	V	I	Q	T	P
B9	B10	B11	B12	B13	B14	B15	B16
R	Y	L	V	K	G	Q	G
B17	B18	B19	B20	B21	B22	B23	B24
Q	K	A	K	M	R	C	I
B25	B26	B27	B28	B29	B37	B38	B39
P	E	K	G	H	P	V	V
B40	B41	B42	B43	B44	B45	B46	B47
F	W	Y	Q	Q	N	K	N
B48	B49	B50	B51	B52	B53	B54	B55
N	E	F	K	F	L	I	N
B56	B57	B58	B63	B64	B65	B66	B67
F	Q	N	Q	E	V	L	Q
B68	B69	B70	B71	B72	B73	B74	B75
Q	I	D	M	T	E	K	R
B76	B77	B78	B79	B80	B81	B83	B84
F	S	A	E	C	P	S	N
B85	B86	B87	B88	B89	B90	B91	B92
S	P	C	S	L	E	I	Q
B93	B94	B95	B96	B97	B98	B99	B100
S	S	E	A	G	D	S	A
B101	B102	B103	B104	B105	B106	B107	B108
L	Y	L	C	A	S	S	L
B109	B110	B112	B113	B114	B115	B116	B117
N	N	A	N	S	D	Y	T
B118	B119	B120	B121	B122	B123	B124	B125
F	G	S	G	T	R	L	L
B126	B127
V	I

FASTA file

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

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	ASSLNNANSDYT	None	12
CDRB2	FQNQEV	None	6
CDRB1	KGHPV	None	5
CDRA3	AAEASNTNKVV	None	11
CDRA2	LASGT	None	5
CDRA1	TTMRA	None	5

Orientation and docking angles:

Angle	Value
BC2	93.32°
BC1	71.51°
BA	-62.87°
AC2	78.60°
AC1	119.84°
dc	16.51Å
Docking angle	32.40°

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
4p2r_ON	93.64°	71.61°	-63.23°	78.69°	120.05°	16.45Å	0.5
4p2r_ED	93.70°	71.00°	-63.39°	78.53°	121.02°	16.53Å	1.4
4p2r_JI	93.74°	71.57°	-63.19°	79.51°	121.03°	16.35Å	1.6
4p2r_TS	93.90°	70.96°	-62.23°	79.56°	121.61°	16.59Å	2.3
3qiu_DC	93.79°	71.99°	-63.21°	79.00°	117.68°	15.64Å	2.5

T / S

TCR Details:

Item	Info
VB chain	T
VA chain	S
VB IMGT details	TRBV26/TRBJ1
VA IMGT details	TRAV4/TRAJ34
Species	mouse

Antigen Details:

Item	Info
Antigen Chain	R
Antigen Type	Peptide
Antigen Organism	SYNTHETIC CONSTRUCT
Antigen Sequence	ADGLAYFRSSFKGG
Antigen Length	14

MHC details:

Item	Info
MHC Chain	P \| Q
MHC Type	MH2
MHC Species	mouse
MHC IMGT details	H2-EA / H2-EB1k

Numbered sequence

Chain type

Chain ID

FASTA/Annotation file

IMGT numbered sequence (Framework/CDR)

FASTA file

B1	B2	B3	B4	B5	B6	B7	B8
G	G	K	V	I	Q	T	P
B9	B10	B11	B12	B13	B14	B15	B16
R	Y	L	V	K	G	Q	G
B17	B18	B19	B20	B21	B22	B23	B24
Q	K	A	K	M	R	C	I
B25	B26	B27	B28	B29	B37	B38	B39
P	E	K	G	H	P	V	V
B40	B41	B42	B43	B44	B45	B46	B47
F	W	Y	Q	Q	N	K	N
B48	B49	B50	B51	B52	B53	B54	B55
N	E	F	K	F	L	I	N
B56	B57	B58	B63	B64	B65	B66	B67
F	Q	N	Q	E	V	L	Q
B68	B69	B70	B71	B72	B73	B74	B75
Q	I	D	M	T	E	K	R
B76	B77	B78	B79	B80	B81	B83	B84
F	S	A	E	C	P	S	N
B85	B86	B87	B88	B89	B90	B91	B92
S	P	C	S	L	E	I	Q
B93	B94	B95	B96	B97	B98	B99	B100
S	S	E	A	G	D	S	A
B101	B102	B103	B104	B105	B106	B107	B108
L	Y	L	C	A	S	S	L
B109	B110	B112	B113	B114	B115	B116	B117
N	N	A	N	S	D	Y	T
B118	B119	B120	B121	B122	B123	B124	B125
F	G	S	G	T	R	L	L
B126	B127
V	I

FASTA file

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

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	ASSLNNANSDYT	None	12
CDRB2	FQNQEV	None	6
CDRB1	KGHPV	None	5
CDRA3	AAEASNTNKVV	None	11
CDRA2	LASGT	None	5
CDRA1	TTMRA	None	5

Orientation and docking angles:

Angle	Value
BC2	93.51°
BC1	71.24°
BA	-62.08°
AC2	79.42°
AC1	121.27°
dc	16.63Å
Docking angle	31.00°

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
4p2r_TS	93.90°	70.96°	-62.23°	79.56°	121.61°	16.59Å	0.6
4p2r_JI	93.74°	71.57°	-63.19°	79.51°	121.03°	16.35Å	1.2
4p2r_ED	93.70°	71.00°	-63.39°	78.53°	121.02°	16.53Å	1.6
4p2r_ON	93.64°	71.61°	-63.23°	78.69°	120.05°	16.45Å	1.9
3qjh_DC	95.16°	71.23°	-62.76°	80.66°	120.31°	16.37Å	2.4

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