Loading
PDBj
English日本語简体中文繁體中文한국어
✖
MenuPDBj@FacebookPDBj@X(formerly Twitter)PDBj@BlueSkyPDBj@YouTubewwPDB FoundationwwPDBDonate
RCSB PDBPDBeBMRBAdv. SearchSearch help
SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

9UPU

Cryo-EM strucutre of CXCR4 complexed with agonist SDV1a

Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1A
(B)		Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1polymer38442005.91UniProt (P62873)
Pfam (PF25391)		Homo sapiens (human)Transducin beta chain 1
2B
(C)		Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2polymer717861.11UniProt (P59768)
Pfam (PF00631)		Homo sapiens (human)G gamma-I
3C
(A)		Guanine nucleotide-binding protein G(i) subunit alpha-1polymer35440445.11UniProt (P63096)
Pfam (PF00503)		Homo sapiens (human)Adenylate cyclase-inhibiting G alpha protein
4D
(S)		single-chain variable fragment scFv16polymer25927784.91Homo sapiens
5E
(J)		Stromal cell-derived factor 1polymer8951.11UniProt (P48061)Homo sapiensSDF-1,hSDF-1,C-X-C motif chemokine 12,Intercrine reduced in hepatomas,IRH,hIRH,Pre-B cell growth-stimulating factor,PBSF
6F
(R)		Soluble cytochrome b562,C-X-C chemokine receptor type 4,Oplophorus-luciferin 2-monooxygenase catalytic subunitpolymer64872689.61UniProt (P0ABE7)
UniProt (P61073)
UniProt (Q9GV45)
Pfam (PF12109)
Pfam (PF00001)		Escherichia coliCytochrome b-562,CXC-R4,CXCR-4,FB22,Fusin,HM89,LCR1,Leukocyte-derived seven transmembrane domain receptor,LESTR,Lipopolysaccharide-associated protein 3,LAP-3,LPS-associated protein 3,NPYRL,Stromal cell-derived factor 1 receptor,SDF-1 receptor,19kOLase
7G
(R)		CHOLESTEROLnon-polymer386.71Chemie (CLR)
PubChem (5997)
Sequence modifications
B: 2 - 340 (UniProt: P62873)
PDBExternal DatabaseDetails
His -20-expression tag
His -19-expression tag
His -18-expression tag
His -17-expression tag
His -16-expression tag
His -15-expression tag
His -14-expression tag
His -13-expression tag
His -12-expression tag
His -11-expression tag
Leu -10-expression tag
Glu -9-expression tag
Val -8-expression tag
Leu -7-expression tag
Phe -6-expression tag
Gln -5-expression tag
Gly -4-expression tag
Pro -3-expression tag
Gly -2-expression tag
Ser -1-expression tag
Ser 0-expression tag
Gly 1-expression tag
Gly 341-expression tag
Ala 342-expression tag
Ser 343-expression tag
Gly 344-expression tag
Ala 345-expression tag
Ser 346-expression tag
Gly 347-expression tag
Ala 348-expression tag
Ser 349-expression tag
Gly 350-expression tag
Ala 351-expression tag
Ser 352-expression tag
Val 353-expression tag
Ser 354-expression tag
Gly 355-expression tag
Trp 356-expression tag
Arg 357-expression tag
Leu 358-expression tag
Phe 359-expression tag
Lys 360-expression tag
Lys 361-expression tag
Ile 362-expression tag
Ser 363-expression tag
A: 1 - 354 (UniProt: P63096)
PDBExternal DatabaseDetails
Ala 203Gly 203engineered mutation
Ser 326Ala 326engineered mutation
R: -111 - -7 (UniProt: P0ABE7)
PDBExternal DatabaseDetails
Met -137-initiating methionine
Lys -136-expression tag
Thr -135-expression tag
Ile -134-expression tag
Ile -133-expression tag
Ala -132-expression tag
Leu -131-expression tag
Ser -130-expression tag
Tyr -129-expression tag
Ile -128-expression tag
Phe -127-expression tag
Cys -126-expression tag
Leu -125-expression tag
Val -124-expression tag
Phe -123-expression tag
Ala -122-expression tag
Asp -121-expression tag
Tyr -120-expression tag
Lys -119-expression tag
Asp -118-expression tag
Asp -117-expression tag
Asp -116-expression tag
Asp -115-expression tag
Lys -114-expression tag
Gly -113-expression tag
Ser -112-expression tag
Trp -105Met 29engineered mutation
Ile -10His 124engineered mutation
Leu -6-linker
Leu -5-linker
Val -4-linker
Pro -3-linker
Arg -2-linker
Gly -1-linker
Ser 0-linker
R: 1 - 337 (UniProt: P61073)
PDBExternal DatabaseDetails
Ser 119Asn 119conflict
Ser 338-linker
Ser 339-linker
Val 340-linker
Ser 341-linker
Thr 342-linker
Glu 343-linker
Ser 344-linker
Glu 345-linker
Ser 346-linker
Ser 347-linker
Ser 348-linker
Phe 349-linker
His 350-linker
Ser 351-linker
Ser 352-linker
Val 353-linker
Phe 354-linker
Thr 355-linker
Leu 356-linker
Glu 357-linker
R: 358 - 509 (UniProt: Q9GV45)
PDBExternal DatabaseDetails
Glu 364Gln 38engineered mutation
Ala 368Gly 42engineered mutation
Leu 371Gln 45engineered mutation
Val 380Leu 54engineered mutation
Leu 384Phe 58engineered mutation
Asn 386Ala 60engineered mutation
Ala 388Gly 62engineered mutation
Arg 396Lys 70engineered mutation
Ile 397Val 71engineered mutation
Arg 399Leu 73engineered mutation
Ala 404Gly 78engineered mutation
Ile 407Ala 81engineered mutation
Ala 420Gly 94engineered mutation
Asp 421Phe 95engineered mutation
Ala 424Gly 98engineered mutation
Gln 425Leu 99engineered mutation
Glu 428Met 102engineered mutation
Val 429Ile 103engineered mutation
Val 443Ile 117engineered mutation
Pro 446His 120engineered mutation
Leu 460Ile 134engineered mutation
Asn 461Asp 135engineered mutation
Glu 468Pro 142engineered mutation
Lys 477Gln 151engineered mutation
Ile 491Tyr 165engineered mutation
Thr 497Asn 171engineered mutation
Met 502Leu 176engineered mutation
Ser 510-expression tag
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains6
Total formula weight191737.8
Non-Polymers*Number of molecules1
Total formula weight386.7
All*Total formula weight192124.4
*Water molecules are not included.

254917

PDB entries from 2026-06-10

PDB statisticsPDBj update infoContact PDBjnumon