Structure of PDB 8dyu Chain A

Receptor sequence

>8dyuA (length=2562) Species: 9606 (Homo sapiens)

KHFKKMFAGVSSILGISSREGEEVMFKTPLVEKEMRVTLAKLLAESVTEV
EIFGKATSIDPNTYITWIDKYQAQLVVLSAQIAWSENVETALSSAAPLHS
VLSNVEVTLNVLADSVLMEQPPLRRRKLEHLITELVHQRDVTRSLIKSKI
DNAKSFEWLSQMRFYFDPKQTDVLQQLSIQMANAKFNYGFEYLGVQDKLV
QTPLTDRCYLTMTQALEARLGGSPFGPAGTGKTESVKALGHQLGRFVLVF
NCDETFDFQAMGRIFVGLCQVGAWGCFDEFNRLEERMLSAVSQQVQCIQE
ALREHSNITCELLNKQVKVSPDMAIFITMNPGYAGRSNLPDNLKKLFRSL
AMTKPDRQLIAQVMLYSQGFRTAEVLANKIVPFFKLCDEQLSSQSHYDFG
LRALKSVLVSAGNVKRERIQKIAENLPEQEILIQSVCETMVPKLVAEDIP
LLFSLLSDVFPGVQYHRGEMTALREELKKVCQEMYLTYGDGEEVGGMWVE
KVLQLYQITQINHGLMMVGPSGSGKSMAWRVLLKALERLEGVEGVAHIID
PKAISKDHLYGTLDPNTREWTDGLFTHVLRKIIDSVRGELQKRQWIVFDG
DVDPEWVENLNSVLDDNKLLTLPNGERLSLPPNVRIMFEVQDLKYATLAT
VSRCGMVWFSEDVLSTDMIFNNFLARLRSIPLDEASPMLQIQRDAATIMQ
PYFTSNGLVTKALEHAFQLEHIMDLTRLRCLGSLFSMLHQACRNVAQYNA
NHPDFPMQIEQLERYIQRYLVYAILWSLSGDSRLKMRAELGEYIRRITTV
PLPTAPNIPIIDYEVSISGEWSPWQAKVPQIEVETHKVAAPDVVVPTLDT
VRHEALLYTWLAEHKPLVLCGPPGSGKTMTLFSALRALPDMEVVGLNFSS
ATTPELLLKTFDHYCEYRRTPNGVVLAPVQLGKWLVLFCDEINLPDMDKY
GTQRVISFIRQMVEHGGFYRTSDQTWVKLERIQFVGACNPPTDPGRKPLS
HRFLRHVPVVYVDYPGPASLTQIYGTFNRAMLRLIPSLRTYAEPLTAAMV
EFYTMSQERFTQDTQPHYIYSPREMTRWVRGIFEALRPLETLPVEGLIRI
WAHEALRLFQDRLVEDEERRWTDENIDTVALKHFPKAMSRPILYSNWLSK
DYIPVDQEELRDYVKARLKVFYEEELDVPLVLFNEVLDHVLRIDRIFRQP
QGHLLLIGVSGAGKTTLSRFVAWMNGLSVYQIKVHRKYTGEDFDEDLRTV
LRRSGCKNEKIAFIMDESNVLDSGFLERMNTLLANGEVPGLFEGDEYATL
MTQCKEGAQKEGLMLDSHEELYKWFTSQVIRNLHVVFTMNPSSEGLKDRA
ATSPALFNRCVLNWFGDWSTEALYQVGKEFTSKMDLEKPNYIVPDYMPVV
YDKLPQPPSHREAIVNSCVFVHQTLHQANARLAKRGGRTMAITPRHYLDF
INHYANLFHEKRSELEEQQMHLNVGLRKIKETVDQNRSTALLKSLSAERE
RWEKTSETFKNQMSTIAGDCLLSAAFIAYAGYFDQQMRQNLFTTWSHHLQ
QANIQFRTDIARTEYLSNADERLRWQASSLPADDLCTENAIMLKRFNRYP
LIIDPSGQATEFIMNEYKDRKITRTSFLDDAFRKNLESALRFGNPLLVQD
VESYDPVLNPVLNREVRRTGGRVLITLGDQDIDLSPSFVIFLSTRDPTVE
FPPDLCSRVTFVNFTVTRSSLQSQCLNEVLKAERPDVDEKRSDLLKLQGE
FQLRLRQLEKSLLQALNEVKGRILDDDTIITTLENLKREAAEVTRKVEET
DIVMQEVETVSQQYLPLSTACSSIYFTMESLKQIHFLYQYSLQFFLDIYH
NVLYENPNVTDHTQRLSIITKDLFQVAFNRVARGMLHQDHITFAMLLARI
KLTYDAEFQHFLRGNGLTVEQAEAVVRLSCLPAFKDLIAKVQADEQFGIW
LDSSSPEQTVPYLWTPATPIGQAIHRLLLIQAFRPDRLLAMAHMFVSTNL
GESFMSIMEQPLDLTHIVGTEVKPNTPVLMCSVPGYDASGHVEDLAAEQN
TQITSIAIGSAEGFNQADKAINTAVKSGRWVMLKNVHLAPGWLMQLEKKL
HSLQPHACFRLFLTMEINPKVPVNLLRAGRIFVFEPPPGVKANMLRTFSS
IPVSRICKSPNERARLYFLLAWFHAIIQERLRYAPLGWSKKYEFGESDLR
SACDTVDTWLDDTAKGRQNISPDKIPWSALKTLMAQSIYGGRVDNEFDQR
LLNTFLERLFTTRSFDSEFKLACDIQMPDGIRREEFVQWVELLPDTQTPS
WLGLPNNAERVLLTTQGVDMISKMLKMQTLHTTASNWLHLIPQTLSHLKR
IKDPLFRFFEREVKMGAKLLQDVRQDLADVVQVCEGKKKQTNYLRTLINE
LVKGILPRSWSHYTVPAGMTVIQWVSDFSERIKQLQNISLAAASKELKNI
HVCLGGLFVPEAYITATRQYVAQANSWSLEELCLEVNVFGVTGLKLQGAT
CNNNKLSLLPLTQLRWVKQSVVTLPVYLNFTRADLIFTVDFEIATKEDPR
SFYERGVAVLCT

3D structure

• PDB: 8dyu Structures of human dynein in complex with the lissencephaly 1 protein, LIS1.
• Chain: A
• Resolution: 4.0 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 V1880 A1908 G1909 G1911 K1912 E1914 I2049 L2090 R2091 K2094 R2358	L199 V200 A228 G229 G231 K232 E234 I360 L401 R402 K405 R653
BS02	ATP	A	L2191 W2203 S2226 G2227 G2229 K2230 S2231 M2232 L2369 M2373 I2374 R2726 R2729	L486 W498 S521 G522 G524 K525 S526 M527 L664 M668 I669 R1002 R1005
BS03	ADP	A	G2598 S2599 G2600 T2602 M2603 I2747	G874 S875 G876 T878 M879 I1023
BS04	ADP	A	L2909 S2939 G2940 A2941 G2942 K2943 T2944 T2945 W3097 R3174 L3177 N3650	L1180 S1210 G1211 A1212 G1213 K1214 T1215 T1216 W1368 R1445 L1448 N1663

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