Structure of PDB 8srd Chain B Binding Site BS05

Receptor Information

>8srd Chain B (length=1368) Species: 946362 (Salpingoeca rosetta)

SVAAKTLLIENEDGKGSTRMEVQDFMKRFHMHASEDDKTGSPSTAWGTLR
FPTKEATAPYLRLSVNDDPEDALLFVKAMLAQKYGETYDRPSLILSVTGG
ARNFTLPPRLETAIAKGLRLAAQRTNAWVVTGGTNTGVMKLTGQIMEALS
KTQSHFIPPTIGIATYGVIIGGDDMTRGEPPKIGLEYEMHKKDPPKTTPL
DDNHNLFLLVDDGSTNKFGKEIKFRAAFENAAGQAFAAPVVTIVVQGGPG
TLGTALQAVRQGTPIVVVDGSGLAADVLAYAYNFMHNPLTRFKSYTIDDL
RQKVAQTFNPKSSQQLTNLLDSALECVQDPNLVVVYSLQESGIDEFDDCI
LKAIFSSQGKLGNKLKQAMYFDQLDVAKRALSEASKNGQHNEIAACINDN
LMAAMMHNKPHFVELYLGFDAKIYELKPSEEVAKTNITALDELPSFALAI
EELYKREAKKPHSHVQRLVSLSNTDVLGRHYRVRDLANTRAYNVLRMDQI
FARLVSKDFSVNRDFTIYDSKYDKVPGIQFRRTAQASHMLFLWAICLDRF
RMARHFWLIGDQSIINALVASRILERLSTHRALQGPHLAEERAKMQHNAK
KFEELAVGVLGECHGSDSHMASEMLHSKNDMFNKKNAINIAYDAKSLAFL
SHPATQSVINADWYGHLKSVTSFWAVLFAFFFPFFVLPFINFSGAHRLRR
KFAKFYSAPYTRFISDLLSHFVLCVVTSYFVLDKLEDTISAIEWILLVWF
VALLLEELRQMIFCDGIAEYISDTWNRLDLIMITLFFVGFFTHASDPSNQ
DSKVVSKGIHAFLVVVLWLRFMRYYALSKNLGPKLIMMMEMMKDVSTFVF
LLLIFLIGYGVAAQSLLSPDEDFSSRTFIGVLFRPYFQIYGELFLDDLNS
EANCLGDTPFTECSRETVRMVPFFLAVYILGSNVLLVNLLIAMFNDTYMK
VQEAAEDLWRKQNYELCAEYKDRPFLPAPFILLAHVHMLFMRLLRLCGVH
TQEHEKIQDDETKRKITTFEELNTDKFLRRWERERQEMLEARVKMTNDNV
VQAMGMMDQLLEHMISFRFSLDQQATKNRLNSAVAVHGHTAEAAEWYVPP
EEYPKSGGVKRYLIDASMVPLSIMCPSYDPVEYTHPSVAAQPVWADPADP
RKIKFNVKDEVNGKVVDRTSCHPSGISIDSNTGRPINPWGRTGMTGRGLL
GKWGVNQAADTVVTRWKRSPDGSILERDGKKVLEFVAIQRQDNKMWAIPG
GFVDNGEDVALTSGREFMEEALGMGSAESKDSLAALFSSGTIVARIYCED
PRNTDNAWVETTCVNFHDESGRHAARLKLQGGDDAEHARWMMVHGGLNLF
ASHRTLLQHVTSALNAYF

Ligand information

• Ligand ID: APR
• InChI: InChI=1S/C15H23N5O14P2/c16-12-7-13(18-3-17-12)20(4-19-7)14-10(23)8(21)5(32-14)1-30-35(26,27)34-36(28,29)31-2-6-9(22)11(24)15(25)33-6/h3-6,8-11,14-15,21-25H,1-2H2,(H,26,27)(H,28,29)(H2,16,17,18)/t5-,6-,8-,9-,10-,11-,14-,15-/m1/s1
• InChIKey: SRNWOUGRCWSEMX-KEOHHSTQSA-N
• SMILES:
  ACDLabs 10.04: O=P(O)(OCC3OC(n1c2ncnc(N)c2nc1)C(O)C3O)OP(=O)(O)OCC4OC(O)C(O)C4O
  OpenEye OEToolkits 1.5.0: c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@](=O)(O)O[P@](=O)(O)OC[C@@H]4[C@H]([C@H]([C@@H](O4)O)O)O)O)O)N
  OpenEye OEToolkits 1.5.0: c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=O)(O)OCC4C(C(C(O4)O)O)O)O)O)N
  CACTVS 3.341: Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(=O)OC[CH]4O[CH](O)[CH](O)[CH]4O)[CH](O)[CH]3O
  CACTVS 3.341: Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P@@](O)(=O)O[P@@](O)(=O)OC[C@H]4O[C@@H](O)[C@H](O)[C@@H]4O)[C@@H](O)[C@H]3O
• Formula: C15 H23 N5 O14 P2
• Name: ADENOSINE-5-DIPHOSPHORIBOSE
• ChEMBL: CHEMBL1231026
• ZINC: ZINC000017654550
• PDB chain: 8srd Chain B Residue 1708

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8srd Coupling enzymatic activity and gating in an ancient TRPM chanzyme and its molecular evolution
• Resolution: 2.91 Å
• Binding residue (original residue number in PDB): W1264 G1321 N1326 D1330 G1370 G1371 F1372 E1390 C1424 D1426 R1428
• Binding residue (residue number reindexed from 1): W1144 G1201 N1206 D1210 G1250 G1251 F1252 E1270 C1298 D1300 R1302
• Annotation score: 1

Gene Ontology

Molecular Function

• GO:0005216 monoatomic ion channel activity
• GO:0005261 monoatomic cation channel activity
• GO:0005262 calcium channel activity

Biological Process

• GO:0006811 monoatomic ion transport
• GO:0055085 transmembrane transport
• GO:0070588 calcium ion transmembrane transport
• GO:0098655 monoatomic cation transmembrane transport

Cellular Component

• GO:0005886 plasma membrane
• GO:0016020 membrane

External links

• PDB: RCSB:8srd, PDBe:8srd, PDBj:8srd
• PDBsum: 8srd
• UniProt: F2UB89