Structure of PDB 6rla Chain A

Receptor sequence

>6rlaA (length=2750) Species: 9606 (Homo sapiens)

QGEVTIREALRELDLWGVGAVFTLIDYEDSQSRTMKLIKDWKDIVNQVGD
NRCLLQSLKDSPYYKGFEDKVSIWERKLAELDEYLQNLNHIQRKWVYLEP
IFGRGALPKEQTRFNRVDEDFRSIMTDIKKDNRVTTLTTHAGIRNSLLTI
LDQLQRCQRSLNEFLEEKRSAFPRFYFIGDDDLLEILGQSTNPSVIQSHL
KKLFAGINSVCFDEKSKHITAMKSLEGEVVPFKNKVPLSNNVETWLNDLA
LEMKKTLEQLLKECVTTGRSSQGAVDPSLFPSQILCLAEQIKFTEDVENA
IKDHSLHQIETQLVNKLEQYTNIDTSSEDPGNTESGILELKLKALILDII
HNIDVVKQLNQIQVHTTEDWAWKKQLRFYMKSDHTCCVQMVDSEFQYTYE
YQGNASKLVYTPLTDKCYLTLTQAMKMGLGGNPYGPAGTGKTESVKALGG
LLGRQVLVFNCDEGIDVKSMGRIFVGLVKCGAWGCFDEFNRLEESVLSAV
SMQIQTIQDALKNHRTVCELLGKEVEVNSNSGIFITMNPAGKGYGGRQKL
PDNLKQLFRPVAMSHPDNELIAEVILYSEGFKDAKVLSRKLVAIFNLSRE
LLTPQQHYDWGLRALKTVLRGSGNLLRQLNKSGTTQNANESHIVVQALRL
NTMSKFTFTDCTRFDALIKDVFPGIELKEVEYDELSAALKQVFEEANYEI
IPNQIKKALELYEQLCQRMGVVIVGPSGAGKSTLWRMLRAALCKTGKVVK
QYTMNPKAMPRYQLLGHIDMDTREWSDGVLTNSARQVVREPQDVSSWIIC
DGDIDPEWIESLNSVLDDNRLLTMPSGERIQFGPNVNFVFETHDLSCASP
ATISRMGMIFLSDEETDLNSLIKSWLRNQPAEYRNNLENWIGDYFEKALQ
WVLKQNDYVVETSLVGTVMNGLSHLHGCRDHDEFIINLIRGLGGNLNMKS
RLEFTKEVFHWARESPPDFHKPMDTYYDSTRGRLATYVLKKPEDLTADDF
SNGLTLPVIQTPDMQRGLDYFKPWLSSDTKQPFILVGPEGCGKGMLLRYA
FSQLRSTQIATVHCSAQTTSRHLLQKLSQTCMVISTNTGRVYRPKDCERL
VLYLKDINLPKLDKWGTSTLVAFLQQVLTYQGFYDENLEWVGLENIQIVA
SMSAGGRLGRHKLTTRFTSIVRLCSIDYPEREQLQTIYGAYLEPVLHKNL
KNHSIWGSSSKIYLLAGSMVQVYEQVRAKFTVDDYSHYFFTPCILTQWVL
GLFRYDLEGGSSNHPLDYVLEIVAYEARRLFRDKIVGAKELHLFDIILTS
VFQGDWGSDILDNMSDSFYVTWGARHNSGAPGQPLPPHGKPLGKLNSTDL
KDVIKKGLIHYGRDNQNLDILLFHEVLEYMSRIDRVLSFPGGSLLLAGRS
GVGRRTITSLVSHMHGAVLFSPKISRGYELKQFKNDLKHVLQLAGIEAQQ
VVLLLEDYQFVHPTFLEMINSLLSSGEVPGLYTLEELEPLLLPLKDQASQ
DGFFGPVFNYFTYRIQQNLHIVLIMDSANSNFMINCESNPALHKKCQVLW
MEGWSNSSMKKIPEMLFSEVDPDFLKSFLLIHESCKAYGATPSQYMTFLH
VYSAISSSKKKELLKRQSHLQAGVSKLNEAKALVDELNRKAGEQSVLLET
IKAAEVLINQLDREHKRWNAQVVEITEELATLPKRAQLAAAFITYLSAAP
ESLRKTCLEEWTKSAGLEKFDLRRFLCTESEQLIWKSEGLPSDDLSIENA
LVILQSRVCPFLIDPSSQATEWLKTHLKDSRLEVINQQDSNFITALELAV
RFGKTLIIQEMDGVEPVLYPLLRRDLVAQGPRYVVQIGDKIIDYNEEFRL
FLSTRNPNPFIPPDAASIVTEVNFTTTRSGLRGQLLALTIQHEKPDLEEQ
KTKLLQQEEDKKIQLAKLEESLLETLATSQGNILENKDLIESLNQTKASS
ALIQESLKESYKLQISLDQERDAYLPLAESASKMYFIISDLSKINNMYRF
SLAAFLRLFQRALQNKQDSENTEQRIQSLISSLQHMVYEYICRCLFKADQ
LMFALHFVRGMHPELFQENEWDTFTGVDQLPSWIDQERSWAVATLKIALP
SLYQTLCFEDAALWRTYYNNSMCEQEFPSILAKKVSLFQQILVVQVLRPD
RLQSAMALFACKTLGLKEVSPLPLNLKRLYKETLEIEPILIIISPGADPS
QELQELANAERSGECYHQVAMGQGQADLAIQMLKECARNGDWLCLKNLHL
VVSWLPVLEKELNTLQPKDTFRLWLTAEVHPNFTPILLQSSLKITYESPP
GLKKNLMRTYESWTPEQISKKDNTHRAHALFSLAWFHAACQERRNYIPQG
WTKFYEFSLSDLRAGYNIIDRLFDGAKDVQWEFVHGLLENAIYGGRIDNY
FDLRVLQSYLKQFFIFPYSVSLPQSCSILDYRAVIEKIPEDDKPSFFGLP
ANIARSSQRMISSQVISQLRILGRDREIWSNELSPVLNLWKKLNQNSNLI
HQKVPPPNDRQGSPILSFIILEQFNAIRLVQSVHQSLAALSKVIRGTTLL
SSEVQKLASALLNQKCPLAWQSKWEGPEDPLQYLRGLVARALAIQNWVDK
AEKQALLSETLDLSELFHPDTFLNALRQETARAVGRSVDSLKFVASWKGR
LQEAKLQIKISGLLLEGCSFDGNQLSENQLDSPSVSSVLPCFMGWIPQDA
CGPYSPDECISLPVYTSAERDRVVTNIDVPCGGNQDQWIQCGAALFLKNQ

3D structure

• PDB: 6rla Structure of the dynein-2 complex and its assembly with intraflagellar transport trains.
• Chain: A
• Resolution: 3.9 Å

Enzymatic activity

• Enzyme Commision number:
  2.1.1.63: methylated-DNA--[protein]-cysteine S-methyltransferase.

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	L1662 V1663 G1692 G1694 K1695 T1696 E1697 L1866 R1867 D2072	L408 V409 G438 G440 K441 T442 E443 L612 R613 D818
BS02	ATP	A	Y1952 E1953 Q1958 S1981 G1982 G1984 K1985 S1986 T1987 E2095 L2125	Y698 E699 Q704 S727 G728 G730 K731 S732 T733 E841 L871
BS03	MG	A	S1986 E2095	S732 E841
BS04	ADP	A	M2268 G2294 C2295 G2296 K2297 G2298 M2299 K2359 I2441 T2500	M1014 G1040 C1041 G1042 K1043 G1044 M1045 K1105 I1187 T1246
BS05	ADP	A	L2628 V2659 G2660 R2661 R2662 T2663	L1371 V1402 G1403 R1404 R1405 T1406

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0003824 catalytic activity
• GO:0003908 methylated-DNA-[protein]-cysteine S-methyltransferase activity
• GO:0005524 ATP binding
• GO:0008168 methyltransferase activity
• GO:0008569 minus-end-directed microtubule motor activity
• GO:0016887 ATP hydrolysis activity
• GO:0045505 dynein intermediate chain binding
• GO:0046872 metal ion binding
• GO:0051959 dynein light intermediate chain binding

Biological Process

• GO:0006259 DNA metabolic process
• GO:0006281 DNA repair
• GO:0007018 microtubule-based movement
• GO:0030030 cell projection organization
• GO:0032259 methylation

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0005856 cytoskeleton
• GO:0005874 microtubule
• GO:0005886 plasma membrane
• GO:0030286 dynein complex

External links

• PDB: RCSB:6rla, PDBe:6rla, PDBj:6rla
• PDBsum: 6rla
• PubMed: 31451806
• UniProt: B0I1S0;
  E5BBQ0