Structure of PDB 7mi6 Chain A

Receptor sequence

>7mi6A (length=2419) Species: 10665,559292

FVIEKSLNRIKKFWKEAQYEVIEHSSGLKLVREWDVLEQACKEDLEELVS
MKASNYYKIFEQDCLDLESKLTKLSEIQVNWVEVQFYWLDLYGILGENLD
IQNFLPLETSKFKSLTSEYKMITTRAFQLDTTIEVIHIPNFDTTLKLTID
SLKMIKSSLSTFLERQRRQFPRFYFLGNDDLLKIIGSGKHHDQVSKFMKK
MFGSIESIIFLEDFITGVRSVEGEVLNLNEKIELKDSIQAQEWLNILDTE
IKLSVFTQFRDCLGQLKDGTDIEVVVSKYIFQAILLSAQVMWTELVEKCL
QTNQFSKYWKEVDMKIKGLLDKLNKSSDNVKKKIEALLVEYLHFNNVIGQ
LKNCSTKEEARLLWAKVQKFYQKNDTLDDLNSVFISQSGYLLQYKFEYIG
IPERLIYTPLLLIGFATLTDSLHQKYGGCFFGPAGTGKTETVKAFGQNLG
RVVVVFNCDDSFDYQVLSRLLVGITQIGAWGCFDQFNRLDEKVLSAVSAN
IQQIQNGLQVGKSHITLLEEETPLSPHTAVFITLNPGYNGRSELPENLKK
SFREFSMKSPQSGTIAEMILQIMGFEDSKSLASKIVHFLELLSSKCSSMN
HYHFGLRTLKGVLRNCSPLISEFGEGEKTVVESLKRVILPSLGDTDELVF
KDELSKIFDSAGTPLNSKAIVQCLKDAGQRSGFSMSEEFLKKCMQFYYMQ
KTQQALILVGKAGCGKTATWKTVIDAMAIFDGHANVVYVIDTKVLTKESL
YGSMLKATLEWRDGLFTSILRRVNDDITGTFKNSRIWVVFDSDLDPEYVE
AMNSVLDDNKILTLPNGERLPIPPNFRILFETDNLDHTTPATITRCGLLW
FSTDVCSISSKIDHLLNKSYEALDNKLSMFELDKLKDLISDSFDMASLTN
IFTCSNDLVHILGVRTFNKLETAVQLAVHLISSYRQWFQNLDDKSLKDVI
TLLIKRSLLYALAGDSTGESQRAFIQTINTYFGHDSQELSDYSTIVIAND
KLSFSSFCSEIPSVSLEAHEVMRPDIVIPTIDTIKHEKIFYDLLNSKRGI
ILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTTTEHILSALHRHTNY
VTTSKGLTLLPKSDIKNLVLFCDEINLPKLDKYGSQNVVLFLRQLMEKQG
FWKTPENKWVTIERIHIVGACNPPTDPGRIPMSERFTRHAAILYLGYPSG
KSLSQIYEIYYKAIFKLVPEFRSYTEPFARASVHLYNECKARYSTGLQSH
YLFSPRELTRLVRGVYTAINTGPRQTLRSLIRLWAYEAWRIFADRLVGVK
EKNSFEQLLYETVDKYLPNQDLGNISSTSLLFSGLLSLDFKEVNKTDLVN
FIEERFKTFCDEELEVPMVIHESMVDHILRIDRALKQVQGHMMLIGASRT
GKTILTRFVAWLNGLKIVQPKIHRHSNLSDFDMILKKAISDCSLKESRTC
LIIDESNILETAFLERMNTLLANADIPDLFQGEEYDKLLNNLRNKTRSLG
LLLDTEQELYDWFVGEIAKNLHVVFTICDPTNNKSSAMISSPALFNRCII
NWMGDWDTKTMSQVANNMVDVIPMEFTDFIVPEVNKELVFTEPIQTIRDA
VVNILIHFDRNFYQKMKVGVNPRSPGYFIDGLRALVKLVTAKYQDLQENQ
RFVNVGLERWLNTTKQFSKTSQELIGNCIISSIYETYFGHLNERERADML
VILKRLLGKFAVKYDVNYRFIDYLVTLDEKMKWLECGLDKNDYFLENMSI
VMNSQDAVPFLLDPSSHMITVISNYYGNKTVLLSFLEEGFVKRLENAIRF
GSVVIIQDGEFFDPIISRLISREFNHAGNRVTVEIGDHEVDVSGDFKLFI
HSCDPSGDIPIFLRSRVRLVHFVTNKESIETRIFDITLTEENAEMQRKRE
DLIKLNTEYKLKLKNLEKRLLETLNNLKKEAMNIEKKLSESEEFFPQFDN
LVEEYSIIGKHSVKIFSMLEKFGQFHWFYGISIGQFLSCFKRVFITRVDE
ILWLLYQEVYCQFSTALDKKFKMIMAMTMFCLYKFDIESEQYKEAVLTMI
GVLSESSDGVPKLTVDTNDDLRYLWDYVTTKSYISALNWFKNEFFVDEWN
IADVVANSENNYFTMASERDVDGTFKLIELAKASKESLKIIPLGSIENLN
YAQEEISKSKIEGGWILLQNIQMSLSWVKTYLHKHVEETKAAEEHEKFKM
FMTCHLTGDKLPAPLLQRTDRVVYEDIPGILDTVKDLWGSQFFTGKISGV
WSVYCTFLLSWFHALITARTRLVPHGFSKKYYFNDCDFQFASVYLENVLA
TNSTNNIPWAQVRDHIATIVYGGKIDEEKDLEVVAKLCAHVFCGSDNLQI
VPGVRIPQPLLQQSEEEERARLTAILSNTIEPADSLSSWLQLPRESILDY
ERLQAKEVASSTEQLLQEM

3D structure

• PDB: 7mi6 Targeting allostery in the Dynein motor domain with small molecule inhibitors.
• Chain: A
• Resolution: 3.9 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	V2391 I2392 P2420 G2421 S2422 G2423 K2424 T2425 M2426 I2570 Y2571 R2620 T2623	V1027 I1028 P1056 G1057 S1058 G1059 K1060 T1061 M1062 I1206 Y1207 R1256 T1259
BS02	ZG7	A	M2732 V2733 A2761 R2763 T2764 G2765 K2766 T2767 I2768 W2920 I2993 R3512	M1368 V1369 A1397 R1399 T1400 G1401 K1402 T1403 I1404 W1556 I1629 R1866
BS03	ATP	A	F2047 S2048 F2053 A2076 G2077 C2078 G2079 K2080 T2081 V2219 C2220 K2225 R2549 R2552	F683 S684 F689 A712 G713 C714 G715 K716 T717 V855 C856 K861 R1185 R1188
BS04	MG	A	T2081 E2195	T717 E831

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:7mi6, PDBe:7mi6, PDBj:7mi6
• PDBsum: 7mi6
• PubMed: 34015309
• UniProt: P00720|ENLYS_BPT4 Endolysin (Gene Name=E);
  P36022|DYHC_YEAST Dynein heavy chain, cytoplasmic (Gene Name=DYN1)