8VSP

Cryo-EM structure of human invariant chain in complex with HLA-DQ

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A, D, G (A, D, G)	HLA class II histocompatibility antigen, DQ alpha 1 chain	polymer	288	31599.9	3	UniProt (P01909) Pfam (PF00993) Pfam (PF07654)	Homo sapiens (human)	DC-1 alpha chain,DC-alpha,HLA-DCA,MHC class II DQA1
2	B, E, H (B, E, H)	HLA class II histocompatibility antigen, DQ beta 1 chain	polymer	295	33798.3	3	UniProt (P01920) Pfam (PF00969) Pfam (PF07654)	Homo sapiens (human)	MHC class II antigen DQB1
3	C, F, I (C, F, I)	HLA class II histocompatibility antigen gamma chain	polymer	308	34901.9	3	UniProt (P04233) Pfam (PF09307) Pfam (PF08831) Pfam (PF00086)	Homo sapiens (human)	HLA-DR antigens-associated invariant chain,Ia antigen-associated invariant chain,Ii
4	J, K, L (A, D, G)	2-acetamido-2-deoxy-beta-D-glucopyranose	non-polymer		221.2	3	Chemie (NAG)

Sequence modifications

A, D, G: -22 - 231 (UniProt: P01909)

PDB	External Database	Details
Ala 232	-	expression tag
Ala 233	-	expression tag
Ala 234	-	expression tag
Leu 235	-	expression tag
Glu 236	-	expression tag
Val 237	-	expression tag
Leu 238	-	expression tag
Phe 239	-	expression tag
Gln 240	-	expression tag
Gly 241	-	expression tag
Pro 242	-	expression tag
Gly 243	-	expression tag
Ala 244	-	expression tag
Ala 245	-	expression tag
Glu 246	-	expression tag
Asp 247	-	expression tag
Gln 248	-	expression tag
Val 249	-	expression tag
Asp 250	-	expression tag
Pro 251	-	expression tag
Arg 252	-	expression tag
Leu 253	-	expression tag
Ile 254	-	expression tag
Asp 255	-	expression tag
Gly 256	-	expression tag
Lys 257	-	expression tag
His 258	-	expression tag
His 259	-	expression tag
His 260	-	expression tag
His 261	-	expression tag
His 262	-	expression tag
His 263	-	expression tag
His 264	-	expression tag
His 265	-	expression tag

B, E, H: -31 - 229 (UniProt: P01920)

PDB	External Database	Details
Ala 230	-	expression tag
Ala 231	-	expression tag
Ala 232	-	expression tag
Leu 233	-	expression tag
Glu 234	-	expression tag
Val 235	-	expression tag
Leu 236	-	expression tag
Phe 237	-	expression tag
Gln 238	-	expression tag
Gly 239	-	expression tag
Pro 240	-	expression tag
Gly 241	-	expression tag
Ala 242	-	expression tag
Ala 243	-	expression tag
Glu 244	-	expression tag
Asp 245	-	expression tag
Gln 246	-	expression tag
Val 247	-	expression tag
Asp 248	-	expression tag
Pro 249	-	expression tag
Arg 250	-	expression tag
Leu 251	-	expression tag
Ile 252	-	expression tag
Asp 253	-	expression tag
Gly 254	-	expression tag
Lys 255	-	expression tag
His 256	-	expression tag
His 257	-	expression tag
His 258	-	expression tag
His 259	-	expression tag
His 260	-	expression tag
His 261	-	expression tag
His 262	-	expression tag
His 263	-	expression tag

C, F, I: 2 - 296 (UniProt: P04233)

PDB	External Database	Details
Met -11	-	initiating methionine
Asp -10	-	expression tag
Tyr -9	-	expression tag
Lys -8	-	expression tag
Asp -7	-	expression tag
Asp -6	-	expression tag
Asp -5	-	expression tag
Asp -4	-	expression tag
Ala -3	-	expression tag
Gly -2	-	expression tag
Thr -1	-	expression tag
Ser 0	-	expression tag
Arg 1	-	expression tag

Contents of the asymmetric unit

Polymers	Number of chains	9
	Total formula weight	300900.5
Non-Polymers*	Number of molecules	3
	Total formula weight	663.6
All*	Total formula weight	301564.1

*Water molecules are not included.