Structure of PDB 7mi3 Chain A

Receptor sequence

>7mi3A (length=1192) Species: 10665,559292

SKAIVQCLKDAGQRSGFSMSEEFLKKCMQFYYMQKTQQALILVGKAGCGK
TATWKTVIDAMAIFDGHANVVYVIDTKVLTKESLYGSMLKATLEWRDGLF
TSILRRVNDDITGTFKNSRIWVVFDSDLDPEYVEAMNSVLDDNKILTLPN
GERLPIPPNFRILFETDNLDHTTPATITRCGLLWFSTDVCSISSKIDHLL
NKSYEALDNKLSMFELDKLKDLISDSFDMASLTNIFTCSNDLVHILGVRT
FNKLETAVQLAVHLISSYRQWFQNLDDKSLKDVITLLIKRSLLYALAGDS
TGESQRAFIQTINTYFGHDSQELSDYSTIVIANDKLSFSSFCSEIPSVSL
EAHEVMRPDIVIPTIDTIKHEKIFYDLLNSKRGIILCGPPGSGKTMIMNN
ALRNSSLYDVVGINFSKDTTTEHILSALHRHTNYVTTSKGLTLLPKSDIK
NLVLFCDEINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIH
IVGACNPPTDPGRIPMSERFTRHAAILYLGYPSGKSLSQIYEIYYKAIFK
LVPEFRSYTEPFARASVHLYNECKARYSTGLQSHYLFSPRELTRLVRGVY
TAINTGPRQTLRSLIRLWAYEAWRIFADRLVGVKEKNSFEQLLYETVDKY
LPNQDLGNISSTSLLFSGLLSLDFKEVNKTDLVNFIEERFKTFCDEELEV
PMVIHESMVDHILRIDRALKQVQGHMMLIGASRTGKTILTRFVAWLNGLK
IVQPKIHRHSNLSDFDMILKKAISDCSLKESRTCLIIDESNILETAFLER
MNTLLANADIPDLFQGEEYDKLLNNLRNKTRSLGLLLDTEQELYDWFVGE
IAKNLHVVFTICDPTNNKSSAMISSPALFNRCIINWMGDWDTKTMSQVAN
NMVDVIPMEFTDFIVPEVNKELVFTEPIQTIRDAVVNILIHFDRNFYQKM
KVGVNPRSPGYFIDGLRALVKLVTAKYQDLQFSKTSQELIGNCIISSIYE
TYFGHLNERERADMLVILKRLLGKFAVKYDVNYRFIDYLVTLDEKMKWLE
CGLDKNDYFLENMSIVMNSQDAVPFLLDPSSHMITVISNYYGNKTVLLSF
LEEGFVKRLENAIRFGSVVIIQDGEFFDPIISRLISREFNHAGNRVTVEI
GDHEVDVSGDFKLFIHSCDPSGDIPIFLRSRVRLVHFVTNKE

3D structure

• PDB: 7mi3 Targeting allostery in the Dynein motor domain with small molecule inhibitors.
• Chain: A
• Resolution: 3.5 Å

Enzymatic activity

• Enzyme Commision number:
  3.2.1.17: lysozyme.

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	ZG7	A	V2730 M2732 V2733 A2761 R2763 T2764 G2765 K2766 T2767 I2768 W2920 I2993 R3512	V700 M702 V703 A731 R733 T734 G735 K736 T737 I738 W890 I963 R1181
BS02	ZG7	A	V2391 I2392 P2420 G2421 S2422 G2423 T2425 M2426 I2570 Y2571 R2620 T2623	V361 I362 P390 G391 S392 G393 T395 M396 I540 Y541 R590 T593
BS03	ATP	A	F2047 S2048 G2077 C2078 G2079 K2080 T2081 C2220 H2228 R2549 R2552	F17 S18 G47 C48 G49 K50 T51 C190 H198 R519 R522
BS04	MG	A	T2081 E2195	T51 E165

Gene Ontology

Molecular Function

• GO:0003796 lysozyme activity
• GO:0005524 ATP binding
• GO:0008569 minus-end-directed microtubule motor activity
• GO:0016798 hydrolase activity, acting on glycosyl bonds
• GO:0016887 ATP hydrolysis activity
• GO:0045505 dynein intermediate chain binding
• GO:0051959 dynein light intermediate chain binding

Biological Process

• GO:0007018 microtubule-based movement
• GO:0009253 peptidoglycan catabolic process
• GO:0016998 cell wall macromolecule catabolic process
• GO:0031640 killing of cells of another organism
• GO:0042742 defense response to bacterium
• GO:0044659 viral release from host cell by cytolysis

Cellular Component

• GO:0030286 dynein complex
• GO:0030430 host cell cytoplasm

External links

• PDB: RCSB:7mi3, PDBe:7mi3, PDBj:7mi3
• PDBsum: 7mi3
• PubMed: 34015309
• UniProt: P00720|ENLYS_BPT4 Endolysin (Gene Name=E);
  P36022|DYHC_YEAST Dynein heavy chain, cytoplasmic (Gene Name=DYN1)