Structure of PDB 8fd6 Chain A

Receptor sequence

>8fd6A (length=2747) Species: 9606,300852

RWVYLEGIFTGSADIKHLLPVETQRFQLLGKIQKALGEYLERERSSFPRF
YFVGDEDLLEIIGNSKNVAKLQKHFKKMFAGVSSIILNEDNSVVLGISSR
EGEEVMFKTPVSITEHPKINEWLTLVEKEMRVTLAKLLAESVTEVEIFGK
ATSIDPNTYITWIDKYQAQLVVLSAQIAWSENVETALSSMGGGGDAAPLH
SVLSNVEVTLNVLADSVLMEQPPLRRRKLEHLITELVHQRDVTRSLIKSK
IDNAKSFEWLSQMRFYFDPKQTDVLQQLSIQMANAKFNYGFEYLGVQDKL
VQTPLTDRCYLTMTQALEARLGGSPFGPAGTGKTESVKALGHQLGRFVLV
FNCDETFDFQAMGRIFVGLCQVGAWGCFDEFNRLEERMLSAVSQQVQCIQ
EALREHSNPITCELLNKQVKVSPDMAIFITMNPGYAGRSNLPDNLKKLFR
SLAMTKPDRQLIAQVMLYSQGFRTAEVLANKIVPFFKLCDEQLSSQSHYD
FGLRALKSVLVSAGNVKRERIQKIKREIAENLPEQEILIQSVCETMVPKL
VAEDIPLLFSLLSDVFPGVQYHRGEMTALREELKKVCQEMYLTYGDGEEV
GGMWVEKVLQLYQITQINHGLMMVGPSGSGKSMAWRVLLKALERLEGVEG
VAHIIDPKAISKDHLYGTLDPNTREWTDGLFTHVLRKIIDSVRGELQKRQ
WIVFDGDVDPEWVENLNSVLDDNKLLTLPNGERLSLPPNVRIMFEVQDLK
YATLATVSRCGMVWFSEDVLSTDMIFNNFLARLRSIPLSPMLQIQRDAAT
IMQPYFTSNGLVTKALEHAFQLEHIMDLTRLRCLGSLFSMLHQACRNVAQ
YNANHPDFPMQIEQLERYIQRYLVYAILWSLSGDSRLKMRAELGEYIRRI
TTVPLPTAPNIPIIDYEVSISGEWSPWQAKVPQIEVETHKVAAPDVVVPT
LDTVRHEALLYTWLAEHKPLVLCGPPGSGKTMTLFSALRALPDMEVVGLN
FSSATTPELLLKTFDHYCEYRRTPNGVVLAPVQLGKWLVLFCDEINLPDM
DKYGTQRVISFIRQMVEHGGFYRTSDQTWVKLERIQFVGACNPPTDPGRK
PLSHRFLRHVPVVYVDYPGPASLTQIYGTFNRAMLRLIPSLRTYAEPLTA
AMVEFYTMSQERFTQDTQPHYIYSPREMTRWVRGIFEALRPLETLPVEGL
IRIWAHEALRLFQDRLVEDEERRWTDENIDTVALKHFPNIDREKAMSRPI
LYSNWLSKDYIPVDQEELRDYVKARLKVFYEEELDVPLVLFNEVLDHVLR
IDRIFRQPQGHLLLIGVSGAGKTTLSRFVAWMNGLSVYQIKVHRKYTGED
FDEDLRTVLRRSGCKNEKIAFIMDESNVLDSGFLERMNTLLANGEVPGLF
EGDEYATLMTQCKEGAQKEGLMLDSHEELYKWFTSQVIRNLHVVFTMNPS
SEGLKDRAATSPALFNRCVLNWFGDWSTEALYQVGKEFTSKMDLEKPNYI
VPDYMPVVYDKLPQPPSHREAIVNSCVFVHQTLHQANARLAKRGGRTMAI
TPRHYLDFINHYANLFHEKRSELEEQQMHLNVGLRKIKETVDQVEELRRK
VNRSTALLKSLSAERERWEKTSETFKNQMSTIAGDCLLSAAFIAYAGYFD
QQMRQNLFTTWSHHLQQANIQFRTDIARTEYLSNADERLRWQASSLPADD
LCTENAIMLKRFNRYPLIIDPSGQATEFIMNEYKDRKITRTSFLDDAFRK
NLESALRFGNPLLVQDVESYDPVLNPVLNREVRRTGGRVLITLGDQDIDL
SPSFVIFLSTRDPTVEFPPDLCSRVTFVNFTVTRSSLQSQCLNEVLKAER
PDVDEKRSDLLKLQGEFQLRLRQLEKSLLQALNEVKGRILDDDTIITTLE
NLKREAAEVTRKVEETDIVMQEVETVSQQYLPLSTACSSIYFTMESLKQI
HFLYQYSLQFFLDIYHNVLYENPNLKGVTDHTQRLSIITKDLFQVAFNRV
ARGMLHQDHITFAMLLARIKLKGTVGEPTYDAEFQHFLRGNEIVLSAGST
PRIQGLTVEQAEAVVRLSCLPAFKDLIAKVQADEQFGIWLDSSSPEQTVP
YLWSEETPATPIGQAIHRLLLIQAFRPDRLLAMAHMFVSTNLGESFMSIM
EQPLDLTHIVGTEVKPNTPVLMCSVPGYDASGHVEDLAAEQNTQITSIAI
GSAEGFNQADKAINTAVKSGRWVMLKNVHLAPGWLMQLEKKLHSLQPHAC
FRLFLTMEINPKVPVNLLRAGRIFVFEPPPGVKANMLRTFSSIPVSRICK
SPNERARLYFLLAWFHAIIQERLRYAPLGWSKKYEFGESDLRSACDTVDT
WLDDTAKGRQNISPDKIPWSALKTLMAQSIYGGRVDNEFDQRLLNTFLER
LFTTRSFDSEFKLACKVDGHKDIQMPDGIRREEFVQWVELLPDTQTPSWL
GLPNNAERVLLTTQGVDMISKMLKMQAWMRTLHTTASNWLHLIPQTLSHL
KRTVENIKDPLFRFFEREVKMGAKLLQDVRQDLADVVQVCEGKKKQTNYL
RTLINELVKGILPRSWSHYTVPAGMTVIQWVSDFSERIKQLQNISLAAAS
GGAKELKNIHVCLGGLFVPEAYITATRQYVAQANSWSLEELCLEVNVTTS
QGATLDACSFGVTGLKLQGATCNNNKLSLSNAISTALPLTQLRWVKQTNT
EKKASVVTLPVYLNFTRADLIFTVDFEIATKEDPRSFYERGVAVLCT

3D structure

• PDB: 8fd6 Microtubule-binding-induced allostery triggers LIS1 dissociation from dynein prior to cargo transport.
• Chain: A
• Resolution: 2.9 Å

Enzymatic activity

• Enzyme Commision number: 6.1.1.11: serine--tRNA ligase.

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	ATP	A	L736 T737 W748 G772 S773 G774 K775 M777 E889 L914 M918 N922 R1271	L592 T593 W604 G628 S629 G630 K631 M633 E745 L770 M774 N778 R1105
BS02	ADP	A	V1114 G1143 S1144 G1145 K1146 T1147 M1148 I1292 T1345	V948 G977 S978 G979 K980 T981 M982 I1126 T1179
BS03	ADP	A	V1452 V1455 S1484 G1485 G1487 K1488 T1489 T1490 W1642 L1722	V1286 V1289 S1318 G1319 G1321 K1322 T1323 T1324 W1476 L1556
BS04	ADP	A	V425 G454 T455 G456 K457 T458 E459 I594 L635 R636 D866	V301 G330 T331 G332 K333 T334 E335 I462 L503 R504 D722

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• 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:8fd6, PDBe:8fd6, PDBj:8fd6
• PDBsum: 8fd6
• PubMed: 37322240
• UniProt: Q14204|DYHC1_HUMAN Cytoplasmic dynein 1 heavy chain 1 (Gene Name=DYNC1H1);
  Q5SJX7