Structure of PDB 8pdv Chain A Binding Site BS01

Receptor Information
>8pdv Chain A (length=1027) Species: 7668 (Strongylocentrotus purpuratus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
AHAPKVIVFISGSCLFGAISRSLFKKLPIPYTVVLLILGAILGVVASNVP
LVEEHTRDVAHMDPHVLLQIFLPVLIFESAFAMDVHTFMRSFSQVCILAL
FGLVVASVLTAVLAMNLFNYNWNFSEAMMFGAIMSATDPVAVVALLKDLG
ASKQLGTIIEGESLLNDGCAIVIFNVFMKMVFFPQLTSTVGQNVLYFLQV
AVAGPLWGYAVAKVTVFFLSHIFNDALVEITITLAATYLTYYIGDIWLEV
SGVLAVVVLGLIVNAEKTSISPEVEVFLHRFWEMLAYLANTLIFMMVGVV
VTQKALVAVDKMDWFYLIILYLAITIIRGMVISLFSPILSRIGYGLTWRN
AVIMTWGGLRGAVGLALALVVENLAGNDVIGSKFLFHTAGIVVLTLVINA
TTIQTLLRILGMSDISIPKRLAMAGAVRRIHEGQNRTLNMLKSDRFLADA
DWDIATAACEISDPYSPSPREFADMMEEARLRMLKAEKISYWKQFEHGML
AREALRLLVQHAEVAADEKDQFILVDDLKKSWQIKGIYPWLKRKLEDLIS
EKKIAKLMYKICHHMAFEVTINIAIVLNIVPIIMEFVVQDKMALQKIEDA
LRISNYVFFVIYAIEAIVKILGLGRHYIVSHWNKFDAFILVVALVDIIII
KVVKLFRLLRGLRMLRLTKALIPKLILVVNGKINNQLSLGYDVGKGYIIG
EEEVGKIIDRMVDNKKILRELKHISETGRLQVVKELGLLQREHPGIAVSV
KTRQAIRTILNHSRETIHELQGAGLLDEMEAHKLELTVEIKMKRLMNAPS
SIPPPPPENLLKNVSWLAGDMKLIDFIKARASLLHFDYGEVIVREGDESD
GLFLIVSGLVKLYGKVFEDYLTVGNVIGEMGVLTKKPRNATVTCETTVQV
YFITAEDMNIAIDTFTLYPSLEYRLWRVVAIRIATPLIMEQMAFQGWTQE
KVKLHLERGYLVDLAESHFQFNIDATLEDVILINGTAYNAHTREEIRSPC
LISRTVHKLTFQYTATEEPRLFVVRNA
Ligand information
Ligand IDPCG
InChIInChI=1S/C10H12N5O7P/c11-10-13-7-4(8(17)14-10)12-2-15(7)9-5(16)6-3(21-9)1-20-23(18,19)22-6/h2-3,5-6,9,16H,1H2,(H,18,19)(H3,11,13,14,17)/t3-,5-,6-,9-/m1/s1
InChIKeyZOOGRGPOEVQQDX-UUOKFMHZSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0c1nc2c(n1C3C(C4C(O3)COP(=O)(O4)O)O)N=C(NC2=O)N
ACDLabs 10.04O=C4NC(=Nc1c4ncn1C3OC2COP(=O)(OC2C3O)O)N
OpenEye OEToolkits 1.5.0c1nc2c(n1[C@H]3[C@@H]([C@H]4C(O3)CO[P@](=O)(O4)O)O)N=C(NC2=O)N
CACTVS 3.341NC1=Nc2n(cnc2C(=O)N1)[C@@H]3O[C@@H]4CO[P@](O)(=O)O[C@H]4[C@H]3O
CACTVS 3.341NC1=Nc2n(cnc2C(=O)N1)[CH]3O[CH]4CO[P](O)(=O)O[CH]4[CH]3O
FormulaC10 H12 N5 O7 P
NameCYCLIC GUANOSINE MONOPHOSPHATE
ChEMBLCHEMBL395336
DrugBankDB02315
ZINCZINC000004095501
PDB chain8pdv Chain A Residue 1401 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB8pdv Structures of a sperm-specific solute carrier gated by voltage and cAMP.
Resolution3.26 Å
Binding residue
(original residue number in PDB)		F1032 I1042 G1043 E1044 M1045 R1053 N1054 R1097
Binding residue
(residue number reindexed from 1)		F867 I877 G878 E879 M880 R888 N889 R932
Annotation score1
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0015297 antiporter activity
GO:0015385 sodium:proton antiporter activity
Biological Process
GO:0006812 monoatomic cation transport
GO:0055085 transmembrane transport
GO:1902600 proton transmembrane transport
Cellular Component
GO:0016020 membrane

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:8pdv, PDBe:8pdv, PDBj:8pdv
PDBsum8pdv
PubMed37880361
UniProtA3RL54|SL9C1_STRPU Sperm-specific sodium:proton exchanger (Gene Name=SLC9C1)

[Back to BioLiP]