Details for 3c6l

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Structure information

Crystal Structure of Mouse MHC Class Ii I-ab/3K Peptide complexed with Mouse TCR 2W20

Item	Info
PDB	3c6l
Organism	MUS MUSCULUS
Method	X-RAY DIFFRACTION
Resolution	3.4Å
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/TRAJ31
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

B3	B4	B5	B6	B7	B8	B9	B10
A	V	T	Q	S	P	R	N
B11	B12	B13	B14	B15	B16	B17	B18
K	V	A	V	T	G	G	K
B19	B20	B21	B22	B23	B24	B25	B26
V	T	L	S	C	N	Q	T
B27	B28	B29	B37	B38	B39	B40	B41
N	N	H	N	N	M	Y	W
B42	B43	B44	B45	B46	B47	B48	B49
Y	R	Q	D	T	G	H	G
B50	B51	B52	B53	B54	B55	B56	B57
L	R	L	I	H	Y	S	Y
B58	B63	B64	B65	B66	B67	B68	B69
G	A	G	S	T	E	K	G
B70	B71	B72	B74	B75	B76	B77	B78
D	I	P	D	G	Y	K	A
B79	B80	B81	B83	B84	B85	B86	B87
S	R	P	S	Q	E	N	F
B88	B89	B90	B91	B92	B93	B94	B95
S	L	I	L	E	L	A	T
B96	B97	B98	B99	B100	B101	B102	B103
P	S	Q	T	S	V	Y	F
B104	B105	B106	B107	B108	B109	B110	B113
C	A	S	G	D	A	W	G
B114	B115	B116	B117	B118	B119	B120	B121
Y	E	Q	Y	F	G	P	G
B122	B123	B124	B125	B126	B127
T	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	D	Y	F
A40	A41	A42	A43	A44	A45	A46	A47
P	W	Y	H	Q	F	P	G
A48	A49	A50	A51	A52	A53	A54	A55
E	S	P	A	L	L	I	A
A56	A57	A58	A59	A63	A64	A65	A66
I	R	P	V	S	N	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	F
A88	A89	A90	A91	A92	A93	A94	A95
S	L	H	I	A	D	S	Q
A96	A97	A98	A99	A100	A101	A102	A103
P	G	D	S	A	T	Y	F
A104	A105	A106	A107	A108	A114	A115	A116
C	A	A	S	D	N	R	I
A117	A118	A119	A120	A121	A122	A123	A124
F	F	G	D	G	T	Q	L
A125	A126	A127	A128
V	V	K	P

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	ASGDAWGYEQY	None	11
CDRB2	SYGAGS	None	6
CDRB1	NNHNN	None	5
CDRA3	AASDNRIF	None	8
CDRA2	IRPVSNK	None	7
CDRA1	DSTFDY	None	6

Orientation and docking angles:

Angle	Value
BC2	111.75°
BC1	72.89°
BA	-59.46°
AC2	75.44°
AC1	123.92°
dc	16.61Å
Docking angle	40.94°

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
5e6i_BA	109.82°	71.78°	-59.43°	74.78°	123.96°	16.82Å	2.3
5e6i_LF	110.43°	71.17°	-60.84°	72.67°	125.00°	17.08Å	4.0
2q86_BA	109.01°	73.63°	-59.77°	78.68°	124.18°	16.58Å	4.3
5e6i_QP	109.25°	70.24°	-60.47°	72.87°	123.00°	17.20Å	4.7
2nx5_ED	108.26°	71.73°	-60.30°	78.17°	124.77°	16.81Å	4.7

Antibodies with similar orientations:

Antibody PDB	HC2	HC1	HL	LC2	LC1	dc	ABangle Distance
1fbi_QP	113.29°	73.42°	-61.95°	78.25°	123.04°	15.83Å	4.3
3wih_IM	112.74°	73.69°	-62.39°	76.91°	120.77°	15.54Å	4.8
4jj5_BA	113.30°	75.08°	-58.94°	79.43°	123.53°	16.49Å	4.9
2vxt_HL	112.53°	71.75°	-60.55°	78.20°	120.37°	16.05Å	4.9
4osu_HL	113.36°	71.18°	-59.13°	79.75°	123.24°	15.69Å	5.1

F / E

TCR Details:

Item	Info
VB chain	F
VA chain	E
VB IMGT details	TRBV13/TRBJ2
VA IMGT details	TRAV14/TRAJ31
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

B3	B4	B5	B6	B7	B8	B9	B10
A	V	T	Q	S	P	R	N
B11	B12	B13	B14	B15	B16	B17	B18
K	V	A	V	T	G	G	K
B19	B20	B21	B22	B23	B24	B25	B26
V	T	L	S	C	N	Q	T
B27	B28	B29	B37	B38	B39	B40	B41
N	N	H	N	N	M	Y	W
B42	B43	B44	B45	B46	B47	B48	B49
Y	R	Q	D	T	G	H	G
B50	B51	B52	B53	B54	B55	B56	B57
L	R	L	I	H	Y	S	Y
B58	B63	B64	B65	B66	B67	B68	B69
G	A	G	S	T	E	K	G
B70	B71	B72	B74	B75	B76	B77	B78
D	I	P	D	G	Y	K	A
B79	B80	B81	B83	B84	B85	B86	B87
S	R	P	S	Q	E	N	F
B88	B89	B90	B91	B92	B93	B94	B95
S	L	I	L	E	L	A	T
B96	B97	B98	B99	B100	B101	B102	B103
P	S	Q	T	S	V	Y	F
B104	B105	B106	B107	B108	B109	B110	B113
C	A	S	G	D	A	W	G
B114	B115	B116	B117	B118	B119	B120	B121
Y	E	Q	Y	F	G	P	G
B122	B123	B124	B125	B126	B127
T	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	D	Y	F
A40	A41	A42	A43	A44	A45	A46	A47
P	W	Y	H	Q	F	P	G
A48	A49	A50	A51	A52	A53	A54	A55
E	S	P	A	L	L	I	A
A56	A57	A58	A59	A63	A64	A65	A66
I	R	P	V	S	N	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	F
A88	A89	A90	A91	A92	A93	A94	A95
S	L	H	I	A	D	S	Q
A96	A97	A98	A99	A100	A101	A102	A103
P	G	D	S	A	T	Y	F
A104	A105	A106	A107	A108	A114	A115	A116
C	A	A	S	D	N	R	I
A117	A118	A119	A120	A121	A122	A123	A124
F	F	G	D	G	T	Q	L
A125	A126	A127	A128
V	V	K	P

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	ASGDAWGYEQY	None	11
CDRB2	SYGAGS	None	6
CDRB1	NNHNN	None	5
CDRA3	AASDNRIF	None	8
CDRA2	IRPVSNK	None	7
CDRA1	DSTFDY	None	6

Orientation and docking angles:

Angle	Value
BC2	111.86°
BC1	72.92°
BA	-59.42°
AC2	75.57°
AC1	123.91°
dc	16.62Å
Docking angle	42.80°

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
5e6i_BA	109.82°	71.78°	-59.43°	74.78°	123.96°	16.82Å	2.5
5e6i_LF	110.43°	71.17°	-60.84°	72.67°	125.00°	17.08Å	4.1
2q86_BA	109.01°	73.63°	-59.77°	78.68°	124.18°	16.58Å	4.3
2nx5_ED	108.26°	71.73°	-60.30°	78.17°	124.77°	16.81Å	4.8
8dnt_IH	107.67°	72.60°	-59.28°	77.90°	124.75°	16.64Å	4.9

Antibodies with similar orientations:

Antibody PDB	HC2	HC1	HL	LC2	LC1	dc	ABangle Distance
1fbi_QP	113.29°	73.42°	-61.95°	78.25°	123.04°	15.83Å	4.2
4jj5_BA	113.30°	75.08°	-58.94°	79.43°	123.53°	16.49Å	4.7
2vxt_HL	112.53°	71.75°	-60.55°	78.20°	120.37°	16.05Å	4.8
3wih_IM	112.74°	73.69°	-62.39°	76.91°	120.77°	15.54Å	4.8
4osu_HL	113.36°	71.18°	-59.13°	79.75°	123.24°	15.69Å	4.9

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