9EKH

Cryo-EM structure ONO3030297-bound prostaglandin D2 receptor (DP1)-bRIL-Fab complex

This is a non-PDB format compatible entry.

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A (A)	Prostaglandin D2 receptor,Soluble cytochrome b562	polymer	495	55687.9	1	UniProt (Q13258) UniProt (P0ABE7) Pfam (PF00001) Pfam (PF07361)	Homo sapiens (human)	PGD receptor,PGD2 receptor,Prostanoid DP receptor,Cytochrome b-562
2	B (H)	anti-BRIL Fab Heavy Chain	polymer	229	24321.1	1		synthetic construct
3	C (K)	anti-Fab Nanobody	polymer	123	13390.6	1		synthetic construct
4	D (L)	anti-BRIL Fab Light Chain	polymer	214	23353.9	1		synthetic construct
5	E (A)	2-acetamido-2-deoxy-beta-D-glucopyranose	non-polymer		221.2	1	Chemie (NAG)
6	F (A)	1-[2-chloro-5-(2,6-dimethyl-4-{[(2S)-4-methyl-3,4-dihydro-2H-1,4-benzoxazin-2-yl]methoxy}benzamido)phenyl]cyclopropane-1-carboxylic acid	non-polymer		521.0	1	Chemie (A1BI8)

Sequence modifications

A: 1 - 233 (UniProt: Q13258)

PDB	External Database	Details
Met -25	-	expression tag
Lys -24	-	expression tag
Thr -23	-	expression tag
Ile -22	-	expression tag
Ile -21	-	expression tag
Ala -20	-	expression tag
Leu -19	-	expression tag
Ser -18	-	expression tag
Tyr -17	-	expression tag
Ile -16	-	expression tag
Phe -15	-	expression tag
Cys -14	-	expression tag
Leu -13	-	expression tag
Val -12	-	expression tag
Phe -11	-	expression tag
Ala -10	-	expression tag
Asp -9	-	expression tag
Tyr -8	-	expression tag
Lys -7	-	expression tag
Asp -6	-	expression tag
Asp -5	-	expression tag
Asp -4	-	expression tag
Asp -3	-	expression tag
Gly -2	-	expression tag
Ala -1	-	expression tag
Pro 0	-	expression tag
Arg 130	Cys 130	engineered mutation

A: 1001 - 1106 (UniProt: P0ABE7)

PDB	External Database	Details
Trp 1007	Met 29	engineered mutation
Ile 1102	His 124	engineered mutation
Leu 1106	Arg 128	engineered mutation
Glu 1200	-	linker
Arg 1201	-	linker
Ala 1202	-	linker
Arg 1203	-	linker
Ser 1204	-	linker
Thr 1205	-	linker
Leu 1206	-	linker

A: 258 - 359 (UniProt: Q13258)

PDB	External Database	Details
Ala 263	His 263	engineered mutation
Asn 319	Asp 319	engineered mutation
Gly 360	-	expression tag
Arg 361	-	expression tag
Pro 362	-	expression tag
Leu 363	-	expression tag
Glu 364	-	expression tag
Val 365	-	expression tag
Leu 366	-	expression tag
Phe 367	-	expression tag
Gln 368	-	expression tag
Gly 369	-	expression tag
Pro 370	-	expression tag
His 371	-	expression tag
His 372	-	expression tag
His 373	-	expression tag
His 374	-	expression tag
His 375	-	expression tag
His 376	-	expression tag
His 377	-	expression tag
His 378	-	expression tag
His 379	-	expression tag
His 380	-	expression tag

Contents of the asymmetric unit

Polymers	Number of chains	4
	Total formula weight	116753.6
Non-Polymers*	Number of molecules	2
	Total formula weight	742.2
All*	Total formula weight	117495.8

*Water molecules are not included.