Structure of PDB 8dyv Chain A

Receptor sequence

>8dyvA (length=2549) Species: 9606 (Homo sapiens)

LGISSREGEEVMFKTPLVEKEMRVTLAKLLAESVTEVEIFGKATSIDPNT
YITWIDKYQAQLVVLSAQIAWSENVETALSSAAPLHSVLSNVEVTLNVLA
DSVLMEQPPLRRRKLEHLITELVHQRDVTRSLIKSKIDNAKSFEWLSQMR
FYFDPKQTDVLQQLSIQMANAKFNYGFEYLGVQDKLVQTPLTDRCYLTMT
QALEARLGGSPFGPAGTGKTESVKALGHQLGRFVLVFNCDETFDFQAMGR
IFVGLCQVGAWGCFDEFNRLEERMLSAVSQQVQCIQEALREHSNITCELL
NKQVKVSPDMAIFITMNPGYAGRSNLPDNLKKLFRSLAMTKPDRQLIAQV
MLYSQGFRTAEVLANKIVPFFKLCDEQLSSQSHYDFGLRALKSVLVSAGN
VKRERIQKIAENLPEQEILIQSVCETMVPKLVAEDIPLLFSLLSDVFPGV
QYHRGEMTALREELKKVCQEMYLTYGDGEEVGGMWVEKVLQLYQITQINH
GLMMVGPSGSGKSMAWRVLLKALERLEGVEGVAHIIDPKAISKDHLYGTL
DPNTREWTDGLFTHVLRKIIDSVRGELQKRQWIVFDGDVDPEWVENLNSV
LDDNKLLTLPNGERLSLPPNVRIMFEVQDLKYATLATVSRCGMVWFSEDV
LSTDMIFNNFLARLRSIPLDEASPMLQIQRDAATIMQPYFTSNGLVTKAL
EHAFQLEHIMDLTRLRCLGSLFSMLHQACRNVAQYNANHPDFPMQIEQLE
RYIQRYLVYAILWSLSGDSRLKMRAELGEYIRRITTVPLPTAPNIPIIDY
EVSISGEWSPWQAKVPQIEVETHKVAAPDVVVPTLDTVRHEALLYTWLAE
HKPLVLCGPPGSGKTMTLFSALRALPDMEVVGLNFSSATTPELLLKTFDH
YCEYRRTPNGVVLAPVQLGKWLVLFCDEINLPDMDKYGTQRVISFIRQMV
EHGGFYRTSDQTWVKLERIQFVGACNPPTDPGRKPLSHRFLRHVPVVYVD
YPGPASLTQIYGTFNRAMLRLIPSLRTYAEPLTAAMVEFYTMSQERFTQD
TQPHYIYSPREMTRWVRGIFEALRPLETLPVEGLIRIWAHEALRLFQDRL
VEDEERRWTDENIDTVALKHFPKAMSRPILYSNWLSKDYIPVDQEELRDY
VKARLKVFYEEELDVPLVLFNEVLDHVLRIDRIFRQPQGHLLLIGVSGAG
KTTLSRFVAWMNGLSVYQIKVHRKYTGEDFDEDLRTVLRRSGCKNEKIAF
IMDESNVLDSGFLERMNTLLANGEVPGLFEGDEYATLMTQCKEGAQKEGL
MLDSHEELYKWFTSQVIRNLHVVFTMNPSSEGLKDRAATSPALFNRCVLN
WFGDWSTEALYQVGKEFTSKMDLEKPNYIVPDYMPVVYDKLPQPPSHREA
IVNSCVFVHQTLHQANARLAKRGGRTMAITPRHYLDFINHYANLFHEKRS
ELEEQQMHLNVGLRKIKETVDQNRSTALLKSLSAERERWEKTSETFKNQM
STIAGDCLLSAAFIAYAGYFDQQMRQNLFTTWSHHLQQANIQFRTDIART
EYLSNADERLRWQASSLPADDLCTENAIMLKRFNRYPLIIDPSGQATEFI
MNEYKDRKITRTSFLDDAFRKNLESALRFGNPLLVQDVESYDPVLNPVLN
REVRRTGGRVLITLGDQDIDLSPSFVIFLSTRDPTVEFPPDLCSRVTFVN
FTVTRSSLQSQCLNEVLKAERPDVDEKRSDLLKLQGEFQLRLRQLEKSLL
QALNILDDDTIITTLENLKREAAEVTRKVEETDIVMQEVETVSQQYLPLS
TACSSIYFTMESLKQIHFLYQYSLQFFLDIYHNVLYENPNTDHTQRLSII
TKDLFQVAFNRVARGMLHQDHITFAMLLARIKLPTYDAEFQHFLRGNGLT
VEQAEAVVRLSCLPAFKDLIAKVQADEQFGIWLDSSSPEQTVPYLWTPAT
PIGQAIHRLLLIQAFRPDRLLAMAHMFVSTNLGESFMSIMEQPLDLTHIV
GTEVKPNTPVLMCSVPGYDASGHVEDLAAEQNTQITSIAIGSAEGFNQAD
KAINTAVKSGRWVMLKNVHLAPGWLMQLEKKLHSLQPHACFRLFLTMEIN
PKVPVNLLRAGRIFVFEPPPGVKANMLRTFSSIPVSRICKSPNERARLYF
LLAWFHAIIQERLRYAPLGWSKKYEFGESDLRSACDTVDTWLDDTAKGRQ
NISPDKIPWSALKTLMAQSIYGGRVDNEFDQRLLNTFLERLFTTRSFDSE
FKLACKVDGHKDIQMPDGIRREEFVQWVELLPDTQTPSWLGLPNNAERVL
LTTQGVDMISKMLKMQTLHTTASNWLHLIPQTLSHLKRIKDPLFRFFERE
VKMGAKLLQDVRQDLADVVQVCEGKKKQTNYLRTLINELVKGILPRSWSH
YTVPAGMTVIQWVSDFSERIKQLQNISLAAASKELKNIHVCLGGLFVPEA
YITATRQYVAQANSWSLEELCLEVNVFGVTGLKLQGATCNNNKLSLLPLT
QLRWVKQSVVTLPVYLNFTRADLIFTVDFEIATKEDPRSFYERGVAVLC

3D structure

• PDB: 8dyv Structures of human dynein in complex with the lissencephaly 1 protein, LIS1.
• Chain: A
• Resolution: 3.97 Å

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	ADP	A	L1879 A1908 G1909 G1911 K1912 T1913 E1914 I2049 L2090 R2091 K2094 R2358	L186 A215 G216 G218 K219 T220 E221 I347 L388 R389 K392 R640
BS02	ADP	A	G2598 S2599 G2600 T2602 M2603 P2739 I2747 R2797 T2800	G861 S862 G863 T865 M866 P1002 I1010 R1060 T1063
BS03	ATP	A	L2191 W2203 S2226 G2227 G2229 K2230 S2231 M2232 E2344 L2369 M2373 I2374 N2377 L2452 R2726 R2729	L473 W485 S508 G509 G511 K512 S513 M514 E626 L651 M655 I656 N659 L715 R989 R992
BS04	ADP	A	L2909 V2910 G2940 A2941 G2942 K2943 T2944 T2945 W3097 R3174 N3650 E3652	L1167 V1168 G1198 A1199 G1200 K1201 T1202 T1203 W1355 R1432 N1650 E1652

Gene Ontology

Molecular Function

• GO:0005524 ATP binding
• GO:0008569 minus-end-directed microtubule motor activity
• 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

Cellular Component

• GO:0030286 dynein complex

External links

• PDB: RCSB:8dyv, PDBe:8dyv, PDBj:8dyv
• PDBsum: 8dyv
• PubMed: 36692009
• UniProt: Q14204|DYHC1_HUMAN Cytoplasmic dynein 1 heavy chain 1 (Gene Name=DYNC1H1)