Cryo-EM structure of SUCR1 in complex with succinate and Gi protein
Resolution: 2.97 Å
EM Method: Single-particle
Fitted PDBs: 8wog
Q-score: 0.556
Cell Rep (2024) 43 pp. 114381-114381 [ DOI: doi:10.1016/j.celrep.2024.114381 Pubmed: 38923454 ]
- Succinate receptor 1 (35 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- Cryo-em structure of sucr1 in complex with succinate and gi protein (Complex from Homo sapiens)
- Succinic acid (118 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (6 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
Cryo-EM structure of SUCR1 in complex with cis-epoxysuccinic acid and Gi proteins
Resolution: 3.15 Å
EM Method: Single-particle
Fitted PDBs: 8wp1
Q-score: 0.555
Cell Rep (2024) 43 pp. 114381-114381 [ DOI: doi:10.1016/j.celrep.2024.114381 Pubmed: 38923454 ]
- Water (18 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- Succinate receptor 1 (35 kDa, Protein from Homo sapiens)
- Cryo-em structure of sucr1 in complex with cis-epoxysuccinic acid and gi proteins (Complex from Homo sapiens)
- (2r,3s)-oxirane-2,3-dicarboxylic acid (132 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (6 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
Liu A, Liu Y, Chen G, Lyu W, Ye F, Wang J, Liao Q, Zhu L, Du Y, Ye RD
PLoS Biol (2024) 22 pp. e3002838-e3002838 [ DOI: doi:10.1371/journal.pbio.3002838 Pubmed: 39466725 ]
- Scfv16 (26 kDa, Protein from Mus musculus)
- Chemerin-like receptor 2 (34 kDa, Protein from Homo sapiens)
- Retinoic acid receptor responder protein 2 (1 kDa, Protein from Homo sapiens)
- Gpr1-c9-gi-scfv16 (Complex from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (6 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
Cryo-EM structure of human GPR1 bound to chemerin
Liu A, Liu Y, Chen G, Lyu W, Ye F, Wang J, Liao Q, Zhu L, Du Y, Ye RD
PLoS Biol (2024) 22 pp. e3002838-e3002838 [ DOI: doi:10.1371/journal.pbio.3002838 Pubmed: 39466725 ]
- G-protein coupled receptor 1 (35 kDa, Protein from Homo sapiens)
- Human gpr1 in complex with chemerin and heterotrimeric gi proteins (Complex from Homo sapiens)
- Guanine nucleotide-binding protein subunit gamma (6 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- Retinoic acid receptor responder protein 2 (15 kDa, Protein from Homo sapiens)
- Scfv16 (26 kDa, Protein from Vicugna pacos)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
Resolution: 3.01 Å
EM Method: Single-particle
Fitted PDBs: 8k4o
Q-score: 0.536
Liu A, Liu Y, Llinas Del Torrent Masachs C, Zhang W, Pardo L, Ye RD
PNAS (2024) 121 pp. e2403217121-e2403217121 [ DOI: doi:10.1073/pnas.2403217121 Pubmed: 39378089 ]
- Guanine nucleotide-binding protein subunit gamma (6 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (39 kDa, Protein from Homo sapiens)
- Kaposi's sarcoma-associated herpesvirus-g protein-coupled receptor (kshv-gpcr)in complex with cxc chemokine cxcl1 and gi protein (Complex from Homo sapiens)
- Growth-regulated alpha protein (6 kDa, Protein from Homo sapiens)
- G protein-coupled receptor (37 kDa, Protein from Human gammaherpesvirus 8)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (36 kDa, Protein from Homo sapiens)
Resolution: 2.81 Å
EM Method: Single-particle
Fitted PDBs: 8k4p
Q-score: 0.555
Liu A, Liu Y, Llinas Del Torrent Masachs C, Zhang W, Pardo L, Ye RD
PNAS (2024) 121 pp. e2403217121-e2403217121 [ DOI: doi:10.1073/pnas.2403217121 Pubmed: 39378089 ]
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- An active kaposi's sarcoma-associated herpesvirus-g protein-coupled receptor (kshv-gpcr) in complex with gi protein (Complex from Human gammaherpesvirus 8)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein subunit gamma (6 kDa, Protein from Homo sapiens)
- G protein-coupled receptor (33 kDa, Protein from Human gammaherpesvirus 8)
Cryo-EM structure of CXCR4 in complex with CXCL12
Resolution: 2.81 Å
EM Method: Single-particle
Fitted PDBs: 8k3z
Q-score: 0.593
Liu Y, Liu A, Li X, Liao Q, Zhang W, Zhu L, Ye RD
Cell Rep (2024) 43 pp. 114578-114578 [ DOI: doi:10.1016/j.celrep.2024.114578 Pubmed: 39093700 ]
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- Cxcr4-cxcl12-gi-scfv16 complex (Complex from Homo sapiens)
- Scfv16 (26 kDa, Protein from Vicugna pacos)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (6 kDa, Protein from Homo sapiens)
- Stromal cell-derived factor 1 (7 kDa, Protein from Homo sapiens)
- C-x-c chemokine receptor type 4 (33 kDa, Protein from Homo sapiens)
Xin J, Min Z, Yu L, Yuan X, Liu A, Wu W, Zhang X, He H, Wu J, Xin Y, Blankenship RE, Tian C, Xu X
Plant Cell (2024) 36 pp. 4212-4233 [ DOI: doi:10.1093/plcell/koae029 Pubmed: 38299372 ]
- Polysulphide reductase nrfd (55 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- [(2~{r})-3-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-2-tetradecanoyloxy-propyl] hexadecanoate (663 Da, Ligand)
- Alternative complex iii (Complex from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Quinol:cytochrome c oxidoreductase membrane protein (19 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Fe-s-cluster-containing hydrogenase components 1-like protein (113 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Quinol:cytochrome c oxidoreductase quinone-binding subunit 2 (45 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Heme c (618 Da, Ligand)
- 1,3-bis(13-methyltetradecanoyloxy)propan-2-yl pentadecanoate (765 Da, Ligand)
- Unknown (4 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- [(2s)-2-octadecanoyloxypropyl] octadecanoate (609 Da, Ligand)
- Fe3-s4 cluster (295 Da, Ligand)
- [(2~{r})-3-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-2-pentadecanoyloxy-propyl] pentadecanoate (663 Da, Ligand)
- Cytochrome c7-like domain-containing protein (25 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Cytochrome c domain-containing protein (23 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Iron/sulfur cluster (351 Da, Ligand)
- Uncharacterized protein (12 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
Xin J, Min Z, Yu L, Yuan X, Liu A, Wu W, Zhang X, He H, Wu J, Xin Y, Blankenship RE, Tian C, Xu X
Plant Cell (2024) 36 pp. 4212-4233 [ DOI: doi:10.1093/plcell/koae029 Pubmed: 38299372 ]
- Polysulphide reductase nrfd (55 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Hypothetical protein (12 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- [(2~{r})-3-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-2-tetradecanoyloxy-propyl] hexadecanoate (663 Da, Ligand)
- Alternative complex iii (Complex from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Quinol:cytochrome c oxidoreductase membrane protein (19 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Fe-s-cluster-containing hydrogenase components 1-like protein (113 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Quinol:cytochrome c oxidoreductase quinone-binding subunit 2 (45 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Heme c (618 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- 1,3-bis(13-methyltetradecanoyloxy)propan-2-yl pentadecanoate (765 Da, Ligand)
- Unknown (4 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Fe3-s4 cluster (295 Da, Ligand)
- [(2~{r})-3-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-2-pentadecanoyloxy-propyl] pentadecanoate (663 Da, Ligand)
- Cytochrome c7-like domain-containing protein (25 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Cytochrome c domain-containing protein (23 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Iron/sulfur cluster (351 Da, Ligand)
Xin J, Min Z, Yu L, Yuan X, Liu A, Wu W, Zhang X, He H, Wu J, Xin Y, Blankenship RE, Tian C, Xu X
Plant Cell (2024) 36 pp. 4212-4233 [ DOI: doi:10.1093/plcell/koae029 Pubmed: 38299372 ]
- Polysulphide reductase nrfd (55 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- [(2~{r})-3-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-2-tetradecanoyloxy-propyl] hexadecanoate (663 Da, Ligand)
- Alternative complex iii (Complex from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Quinol:cytochrome c oxidoreductase membrane protein (19 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Fe-s-cluster-containing hydrogenase components 1-like protein (113 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Quinol:cytochrome c oxidoreductase quinone-binding subunit 2 (45 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Heme c (618 Da, Ligand)
- 1,3-bis(13-methyltetradecanoyloxy)propan-2-yl pentadecanoate (765 Da, Ligand)
- Unknown (4 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Fe3-s4 cluster (295 Da, Ligand)
- 2-heptyl-4-hydroxy quinoline n-oxide (259 Da, Ligand)
- [(2~{r})-3-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-2-pentadecanoyloxy-propyl] pentadecanoate (663 Da, Ligand)
- Cytochrome c7-like domain-containing protein (25 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Cytochrome c domain-containing protein (23 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Iron/sulfur cluster (351 Da, Ligand)
- Uncharacterized protein (12 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))