Structure of PDB 7zdl Chain D Binding Site BS01

Receptor Information
>7zdl Chain D (length=580) Species: 83333 (Escherichia coli K-12) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
RQKELTRWLKQQSVISQRWLNISRLLGFVSGILIIAQAWFMARILQHMIM
ENIPREALLLPFTLLVLTFVLRAWVVWLRERVGYHAGQHIRFAIRRQVLD
RLQQAGPAWIQGKPAGSWATLVLEQIDDMHDYYARYLPQMALAVSVPLLI
VVAIFPSNWAAALILLGTAPLIPLFMALVGMGAADANRRNFLALARLSGH
FLDRLRGMETLRIFGRGEAEIESIRSASEDFRQRTMEVLRLAFLSSGILE
FFTSLSIALVAVYFGFSYLGELDFGHYDTGVTLAAGFLALILAPEFFQPL
RDLGTFYHAKAQAVGAADSLKTFMETPLAHPQRGEAELASTDPVTIEAEE
LFITSPEGKTLAGPLNFTLPAGQRAVLVGRSGSGKSSLLNALSGFLSYQG
SLRINGIELRDLSPESWRKHLSWVGQNPQLPAATLRDNVLLARPDASEQE
LQAALDNAWVSEFLPLLPQGVDTPVQAARLSVGQAQRVAVARALLNPCSL
LLLDEPAASLDAHSEQRVMEALNAASLRQTTLMVTHQLEDLADWDVIWVM
QDGRIIEQGRYAELSVAGGPFATLLAHRQE
Ligand information
Ligand IDHEB
InChIInChI=1S/C34H36N4O4.Fe/c1-7-21-17(3)25-13-26-19(5)23(9-11-33(39)40)31(37-26)16-32-24(10-12-34(41)42)20(6)28(38-32)15-30-22(8-2)18(4)27(36-30)14-29(21)35-25;/h8,13-16H,2,7,9-12H2,1,3-6H3,(H4,35,36,37,38,39,40,41,42);/q;+2/p-2/b25-13-,26-13-,27-14-,28-15-,29-14-,30-15-,31-16-,32-16-;
InChIKeyNEGHHAJBRZGUAY-RGGAHWMASA-L
SMILES
SoftwareSMILES
CACTVS 3.385CCC1=C(C)C2=NC1=Cc3n4[Fe][N]5C(=C2)C(=C(CCC(O)=O)C5=CC6=NC(=Cc4c(C=C)c3C)C(=C6CCC(O)=O)C)C
CACTVS 3.385CCC1=C(C)C2=NC1=Cc3n4[Fe][N@@]5C(=C2)C(=C(CCC(O)=O)C5=CC6=NC(=Cc4c(C=C)c3C)C(=C6CCC(O)=O)C)C
OpenEye OEToolkits 2.0.7CCC1=C(C2=[N]3C1=Cc4c(c(c5n4[Fe]36[N]7=C(C=C8N6C(=C2)C(=C8CCC(=O)O)C)C(=C(C7=C5)C)CCC(=O)O)C=C)C)C
FormulaC34 H34 Fe N4 O4
NameHEME B/C;
HYBRID BETWEEN B AND C TYPE HEMES (PROTOPORPHYRIN IX CONTAINING FE)
ChEMBL
DrugBank
ZINC
PDB chain7zdl Chain C Residue 601 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB7zdl IF(heme/coordinated) conformation of CydDC in AMP-PNP(CydC)/AMP-PNP(CydD) bound state (Dataset-8)
Resolution3.35 Å
Binding residue
(original residue number in PDB)		F247 S250 T309 H312
Binding residue
(residue number reindexed from 1)		F243 S246 T305 H308
Annotation score1
Enzymatic activity
Enzyme Commision number 7.4.2.-
Gene Ontology
Molecular Function
GO:0005524 ATP binding
GO:0015439 ABC-type heme transporter activity
GO:0016887 ATP hydrolysis activity
GO:0034040 ATPase-coupled lipid transmembrane transporter activity
GO:0140359 ABC-type transporter activity
Biological Process
GO:0006865 amino acid transport
GO:0006869 lipid transport
GO:0033228 cysteine export across plasma membrane
GO:0034775 glutathione transmembrane transport
GO:0035351 heme transmembrane transport
GO:0042883 cysteine transport
GO:0045454 cell redox homeostasis
GO:0055085 transmembrane transport
GO:1903605 cytochrome biosynthetic process
Cellular Component
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0043190 ATP-binding cassette (ABC) transporter complex
GO:0055051 ATP-binding cassette (ABC) transporter complex, integrated substrate binding

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:7zdl, PDBe:7zdl, PDBj:7zdl
PDBsum7zdl
PubMed37095238
UniProtP29018|CYDD_ECOLI Glutathione/L-cysteine transport system ATP-binding/permease protein CydD (Gene Name=cydD)

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