Structure of PDB 6kgx Chain J5 Binding Site BS01

Receptor Information

>6kgx Chain J5 (length=164) Species: 35688 (Porphyridium purpureum)

MKSVITTVVSAADAAGRFPSNSDLESIQGNIQRSAARLEAAEKLAGNHEA
VVKEAGDACFAKYAYLKNPGEAGENQEKINKCYRDVDHYMRLVNYCLVVG
GTGPLDEWGIAGAREVYRTLNLPTSAYVASIAYTRDRLCVPRDMSAQAGV
EFSAYLDYLINALS

Ligand information

• Ligand ID: PEB
• InChI: InChI=1S/C33H40N4O6/c1-7-20-19(6)32(42)37-27(20)14-25-18(5)23(10-12-31(40)41)29(35-25)15-28-22(9-11-30(38)39)17(4)24(34-28)13-26-16(3)21(8-2)33(43)36-26/h8,14-15,19-20,26,34H,2,7,9-13H2,1,3-6H3,(H,36,43)(H,37,42)(H,38,39)(H,40,41)/b27-14-,29-15-/t19-,20-,26-/m1/s1
• InChIKey: NKCBCVIFPXGHAV-WAVSMFBNSA-N
• SMILES:
  OpenEye OEToolkits 1.5.0: CCC1C(C(=O)NC1=CC2=NC(=Cc3c(c(c([nH]3)CC4C(=C(C(=O)N4)C=C)C)C)CCC(=O)O)C(=C2C)CCC(=O)O)C
  OpenEye OEToolkits 1.5.0: CC[C@@H]\1[C@H](C(=O)N/C1=C\C2=N/C(=C\c3c(c(c([nH]3)C[C@@H]4C(=C(C(=O)N4)C=C)C)C)CCC(=O)O)/C(=C2C)CCC(=O)O)C
  CACTVS 3.341: CC[C@@H]1[C@@H](C)C(=O)N\C1=C/C2=N\C(=C/c3[nH]c(C[C@H]4NC(=O)C(=C4C)C=C)c(C)c3CCC(O)=O)C(=C2C)CCC(O)=O
  CACTVS 3.341: CC[CH]1[CH](C)C(=O)NC1=CC2=NC(=Cc3[nH]c(C[CH]4NC(=O)C(=C4C)C=C)c(C)c3CCC(O)=O)C(=C2C)CCC(O)=O
• Formula: C33 H40 N4 O6
• Name: PHYCOERYTHROBILIN
• ZINC: ZINC000058633585
• PDB chain: 6kgx Chain J5 Residue 201

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6kgx Structural basis of energy transfer in Porphyridium purpureum phycobilisome.
• Resolution: 2.8 Å
• Binding residue (original residue number in PDB): A72 K81 C82 R84 D85 H88 Y89 L122 Y127
• Binding residue (residue number reindexed from 1): A72 K81 C82 R84 D85 H88 Y89 L122 Y127
• Annotation score: 4

Gene Ontology

Biological Process

• GO:0015979 photosynthesis

Cellular Component

• GO:0009507 chloroplast
• GO:0009535 chloroplast thylakoid membrane
• GO:0009579 thylakoid
• GO:0016020 membrane
• GO:0030089 phycobilisome

External links

• PDB: RCSB:6kgx, PDBe:6kgx, PDBj:6kgx
• PDBsum: 6kgx
• PubMed: 32076272
• UniProt: E2IH77