Types of inter-atomic interactions at the MHC-peptide interface: Identifying commonality from accumulated data

Adrian, Png Eak Hock; Rajaseger, Ganapathy; Mathura, Venkatarajan Subramanian; Sakharkar, Meena Kishore; Kangueane, Pandjassarame

doi:10.1186/1472-6807-2-2

BMC Structural Biology

Table 1 Class I MHC-peptide complexes in the protein databank

From: Types of inter-atomic interactions at the MHC-peptide interface: Identifying commonality from accumulated data

MHC source	PDB code	MHC alleles	Redundant peptide set	Non redundant peptide set	Peptide length	Peptide source	Resolution (Å)
Human	1HHJ	A^*0201	ILKEPVHGV	ILKEPVHGV	9	Synthetic	2.50
Human	1AKJ	A^*0201	Ilkepvhgv		9	HIV-1 RT	2.65
Human	1HHK	A^*0201	LLFGYPVYV	LLFGYPVYV	9	Synthetic	2.50
Human	1AO7	A^*0201	llfgypvyv		9	HTLV-1 Tax	2.60
Human	1BD2	A^*0201	llfgypvyv		9	HTLV-1 Tax	2.50
Human	1B0G	A^*0201	ALWGFFPVL	ALWGFFPVL	9	Human-peptide P1049	2.60
Human	1HHG	A^*0201	TLTSCNTSV	TLTSCNTSV	9	HIV-1 gp 120	2.60
Human	1HHI	A^*0201	GILGFVFTL	GILGFVFTL	9	Synthetic	2.50
Human	1B0R	A^*0201	gilgfvftcde		9	Influenza matrix	2.90
Human	2CLR	A^*0201	MLLSVPLLLG	MLLSVPLLLG	10	Synthetic	2.00
Human	1HHH	A^*0201	FLPSDFFPSV	FLPSDFFPSV	10	HBV nucleocapsid	3.00
Human	1TMC	A^*6801	EVAPPEYHRK	EVAPPEYHRK	10	Synthetic	2.30
Human	1AGB	B^*0801	GGRKKYKL	GGRKKYKL	8	HIV-1 gag	2.20
Human	1AGC	B^*0801	GGKKKYQL	GGKKKYQL	8	HIV-1 gag	2.10
Human	1AGD	B^*0801	GGKKKYKL	GGKKKYKL	8	HIV-1 gag	2.05
Human	1AGE	B^*0801	GGRKKYRL	GGRKKYRL	8	HIV-1 gag	2.30
Human	1AGF	B^*0801	GGKKRYKL	GGKKRYKL	8	HIV-1 gag	2.20
Human	1HSA	B^*2705	ARAAAAAAA	ARAAAAAAA	9	-	2.10
Human	1A1N	B^*3501	VPLRPMTY	VPLRPMTY	8	HIV-1 nef	2.00
Human	1A9E	B^*3501	LPPLDITPY	LPPLDITPY	9	EBV-Ebna3c	2.50
Human	1A9B	B^*3501	lpplditpy		9	EBNA-3C	3.20
Human	1A1M	B^*5301	TPYDINQML	TPYDINQML	9	HIV-2 gag	2.30
Human	1A1O	B^*5301	KPIVQYDNF	KPIVQYDNF	9	HIV-1 nef	2.30
Murine	1OSZ	H-2K^B	RGYLYQGL	RGYLYQGL	8	Vsv-nucleoprotein	2.10
Murine	2VAB	H-2K^B	RGYVYQGL	RGYVYQGL	8	SV nucleoprotein	2.50
Murine	1KBG	H-2K^B	RGYVYuGL		8	Synthetic	2.20
Murine	1VAC	H-2K^B	SIINFEKL	SIINFEKL	8	Ovalbumin	2.50
Murine	1VAD	H-2K^B	SRDHSRTPM	SRDHSRTPM	9	Yeast α-glucosidase	2.50
Murine	2VAA	H-2K^B	FAPGNYPAL	FAPGNYPAL	9	Vsv nucleoprotein	2.30
Murine	1BZ9	H-2D^B	FAPGVFPYM	FAPGVFPYM	9	Peptide P1027	2.80
Murine	1CE6	H-2D^B	FAPGNYPAL	FAPGNYPAL	9	SV nucleoprotein	2.90
Murine	1QLF	H-2D^B	FAPSNYPAL	FAPSNYPAL	9	SV-nucleoprotein	2.65
Murine	1BII	H-2D^D	RGPGRAFVTI	RGPGRAFVTI	10	HIV-1 P_18–110	2.40
Murine	1LDP	H-2L^D	APAAAAAAM	APAAAAAAM	9	Natural peptide	3.10

References: 1HHG, 1HHH, 1HHI, 1HHJ and 1HHK [43]; 1AKJ [44]; 1AO7 [45]; 1BD2 [46]; B0G, 1BZ9 [47]; 1B0R [48]; 2CLR [49]; 1TMC [50]; 1AGB, 1AGC, 1AGD, 1AGE and 1AGF [51]; 1HSA [52]; 1A1N [53]; 1A9E, 1A9B [54]; 1A1M, 1A1O [55], 1OSZ [56]; 2VAA, 2VAB [57]; 1KBG [58]; 1VAC, 1VAD [59]; 1CE6, 1QLF [60]; 1BII [61]; 1LDP [62].

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ISSN: 1472-6807

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