eF-site ID 6az3-ABCDEFGHIJKLMNOPQRSTUVWXYZabcdefghijklmnop PDB Code 6az3 Chain A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X, Y, Z, a, b, c, d, e, f, g, h, i, j, k, l, m, n, o, p Title Cryo-EM structure of of the large subunit of Leishmania ribosome bound to paromomycin Classification RIBOSOME/ANTIBIOTIC Compound ribosomal protein uL2 Source ORGANISM_SCIENTIFIC: Leishmania donovani; Sequence A:  GKTVLSCRKGNGSVYQVHGHKRLGPAKLRILDYAERHGYM RGVVKSIEHEAGRGAALARVEFRHPYKFRRVKELMVAPEG MFTGQSVFCGQKAPLAIGNVLPLGQITEGCIVCNVEAKPG DRGTLARASGDYCIIISHNHETGRTRLKLPSGQKKSVPST SRAMIGIISGGGRIEKPVLKAGNSFYRFRGKRNCWPKVRG VARNPVEHPHGGGNHQHIGHPSTVSRHSPPGQKVGLIAAR RTGRIRGGKAVKGA B:  SHCKFEHPRHGHLGFLPRKRSRQIRGRARAFPKDDATQKP HLTSFMVFKAGMTHIVRDVDRPGSKVNKKEVVEPVTILEA PPMVIVGIVGYRQTPVGLKTIGTVWAHHTSVEFRRRYYKN WKQSAQLAFSRQKQFANTKEGKVAEARTLNAFAKKASVIR VIAHTQLRKLRNHRVGVKKAHVQEIQINGGNVAAKIALAK SLLEKEVRVDSVFQQSEACDVCSVTKGHGTEGVVKRWGVA CLPRKTHRGLRKVACIGAWHPARVMYTVARAGQHGYHHRT QLNKKIYQIGRSVAVEPNQATTTYDLTAKTITPMGGFVGY GTVRNDYVMLKGSVSGPRRRVMTLRRPMAPQTSRHLKEKI VLKFIDTSSKIGHGRFQTKKEKNQWFGPLKKDRIRREERL RK C:  RPSVSVYSASSDSVVGTCPLPAVFTAPIRNDIVKFVHTNM AKNSRQAYAVNRLSGMNHSAHSWGTGRAVARIPRISGGGT STSGAGAFGNMCRGGRMFAPTKIFRRWHRKINLHQKRFAV VSALAASSVPSLVMSRGHRIDNVPEVPLVVEDSIQGYEKT KEAMAFLKAIAAIDDVNRVNDSREIRAGRGKMRNRRYVAR RGPMLVMPNNKGTRAFRNIFGLDLANVSALNLLHLAPGGH VGRFVIWTKSAFEQLDKIFGTFTEASAVKKGFTLPAPMLT NTDVTRIMQSEEVRRVLKPKKLQAKKASRYQTPTNGIKNR RLRLRLNPYVKRETAAAKGMRNVANRDARRKAKMARVTKA KKAATK D:  ANPMREIVVKKLCINICVGESGDRLTRASKVLEQLCEQTP VLSRARLTVRTFGIRRNEKIAVHCTVRGKKAEELLEKGLK VKEFELKSYNFSDTGSFGFGIDEHIDLGIKYDPSTGIYGM DFYVVLGRRGERVAHRKRKCSRVGHSHHVTKEEAMKWFEK VHDGIIFQ E:  VKVKSLCTLQIPEGVTVDVKGRKVTVTGKRGTLTKDLTHL QLDLRVDKKNRTFTVIRWFGSKIPIACLNTTKAHVQNMIT GVTKGYRFKVRCAYAHFPINVSVDGQNIEVRNFLGEKRVR RQLVPSSVKVSQTDPSKVKDEIIFDGNDLEQVSREAAVLH QMCLVKKKDIRKFLDGIYVQTKTNIE F:  SRKSPEYTTLRKSCAPGVIAIILAGRFRGRRAVILKQLPH NGPLVVSGPMKYNGVPIRRIDSRYVIATSTKVDISSVDTA PITPEVFVSDARAQLQKKIDAALIAAIKKDAQGKEKAGYL RSVFTVKPGDAPHRWNW G:  HFAARPKNFGIGQDVPYARDLSRFMRWPTFVTMQRKKRVL QRRLKVPPALNQFTKVLDRASRNEALKLIKKYAPETRKAR RERLHKAAEEKKAPLAVVTGLQEVTRAIEKKQARMVVIAN NVDPVELVLWMPNLCRANKIPYAIVKDMARLGDAIGRKTA TCVAITDVNAEDEATLKNLIRSVNARFLSRSDVIRRQWGG LQLSLRSRAELRKKHARNAG H:  AFPSRKDASRAQRKSAKKHRPEIIVIDLKDHVLGRAAAVV AKQLLLGKKITVVRCEQLNIAGTEIRNKIKYLQYLRKRKL TNPTKGPFHHRAPSDVFVRTVRSMLPRYTKRGMKALNSLV AYEGIPPNVVRTGGRVVIPRAQRHVCYRSERPYTVLGNMC KHVGWKYSDVVANLEKARVEKASRHHEKQAKLREAWKAAR KEALAKMPKHNVEVLKKFGYA I:  PKGNNAIPHVHQKKHWNPCSSQKGNVKVFLNQPAQKHRRR RLRLLKAKKVFPRPLKALRPQVNCPTVRHNMKRRLGRGFS PAELKAAGLNPQYAATIGIRVDSRRKNKSEEGMNVNVQRL KTYMSKLVLFPMNHKKVQKGEASEEEVKAATQDRSRFGDA AVGAVVYPSAETPRAVSAEEKSMCVYAFLKKNHSAVRFFG ARSARAARKEAA J:  ANVKGCRFRVSVALPVGAVVNCADNTGAKNLYVISVKGYH GRLNRLPSAALGDMVMCSVKKGKPELRKKVLNAVIIRQRK SWRRKDGTVIYFEDNAGVIVNPKGEMKGSGIAGPVAKESA DLWPKISTHAPAIV K:  KSHYICAGRLVRILRGPRQDRVGVIVDIVDANRVLVENPE DAKMWRHVQNLKNVEPLKYCVSVSRNCSAKALKDALASSK ALEKYAKTRTAARVEAKKACAASTDFERYQLRVARRSRAH WARKVFDEKDAKTPVSWHKVALKKMQKKA L:  PTRFKKCRHQRGSTFCGYGRVGKHRKHESGRGNAGGMHHH RINFDKYHPGYFGKLGMDHYHRKKNPMWKPTINLNNLSRL IAAEEAAKATKGGTLPVVDLQSSGYAKLLGNGHIQVPCIV KARYVSKLADKKIRKAGGAVVLQA M:  GAFMYLNELWKKKSSDVMRFIQRIRSWEFRHQHTVVRLRR PTRPEKARMLGYKTKQGFCVFRVRVRRGGRKRPVHKGITY GKPKTSGVLGMKLNKNNQAVAEQRLGKRFGNLRVLNSYWV NMDSTFKWYEVIAVDPMCKTIRRDPRINWIVNSVHKHREQ RGLTSAGRKHRGLRHKGHKASKLRPSYRAAWRRNNRIVFL RKR N:  ARRPSRCYRFCKNKPYPKSRFCRGVPDPKIRNFDIGRRRA TVDEFPVCIHVVSRELEQIASEALEAARIQANKYMVKRAN KDVFHMRTRAHPFHVLRINKGMRGAFGKPNGVCARVRIGQ ILLSMRTKEAYVPQAFEALRRAKMKFPGRQIIVMSKYWGF TNILRTEYEALRDAGKLEQRGTHCKLIAPK O:  FVKVVKNKAYFKRFQVKYRRRREGKTDYHARRQMVLQDKT KFGSPKYRLVVRITNKDIIAQIVQAKIVGDEVVMAAYAHE LPAFGIEHGLTNYAAAYATGLLLARRTLAKLGIADKFQGA KEADGSYSAVRTKKDERFPFKAILDVGLARTTTGARVFGV LKGAVDGGMAVPHRPNRFPGYNKEKSSLDAKVHRDRIFGK HVAEYLKQVKEEASSNPVQFSRYMAAKVLPESIEGMYKKA HAAIRADPSKSL P:  GVDLTGISKKSRVIRHHTYSTNPYIKLLIKLYKFLAKRTS SGFNKVVYQRLIKSRSNRAPISLSRIAVVMKRKAVFTAKS KAAPIAVVVGDVLDDVRMARIPAMRVCALRFSKSARQSIV AAGGECLTFDQLAMIAPTGKNTYLLRGRKSGRESVRHFGA SGVPGSHSKPYATNRGKETKRGRRTGRSYKRKAFRHV Q:  VSLKLQARLASSILGCGRARVWLDPNEAVEIQNANSRKSV RKLIKDGFIIRKPVKVHSRARWRKMKEAKDMGRHNGVGRR EGSREARMPSKELWMRRLRILRRLLRKYRADKKIDRHVYR DLYVRAKGNVFRNKRNLVEHIHKIKNEKKKERQLAEQLAA KHLRDEQNRNKARKQELRKREKERERARR R:  VKPHLRHYQVVGRESPSEKNPEPTVYKFEVFAPNFVVAKS RFWRMMRVKNKVKATHGDVLSCKVVKDAKLVARNYLVDIA YYSQRCGYTRMVKEFRDVSKTGAVSQAYHDLASRHRARYH NIEVLNVKSIPDHEVKHLSIAQYHAPNLSFPLLQRRIKAA RKDRAIFVKKNTKRAVVA S:  VHSYGYKSGTRHLFAKKFRKHGAPSVSTILTNIKVGDYVD VVADSAVREGMPHKYYHGRTGIVWNVTPRGVGVIINKPVR TRTLRKRICVRFEHVRKSRCQEAFKAKEHQFQAYLAAKKA GKALPPLKKSSRMGGIVRPKNVEVLARRVADYEA T:  THYSRKPQVSSKSAKAKVSDLRCHYKNTFETANVINGMPL RKAQQLYRQVLAKTRCIPFKRYNGKIGRTAQAKEWGQTKG RWPRKSVVAMMSLLKNAEANAIEKGLDPNQMVIKHVQVDQ AARMRRRTYRAHGRITPYMCSPCHVQLFMSEKKE U:  VAVRAKVGSRSYVRQKQLAKGKKVFKIDCSIPAADGIFSE DVLGNFEQFFQDNTKLNGRKGKLSDKVRLSMNDNVLTIST TMAYRKKYFKYLTKKFLKKKDLRDWIRILATGKGTYQLKY F V:  AKSYTRPQFRRPHTYRKPAMAKPSNRVTVESKDIAAFSVI RYPLTTDKAMKKIEENNTLTFIVDSRANKTEIKKAMRKLY QVKAVKVNTLIRPDGLKKAYIRLSAAHDALDTANKIGL W:  ASIKCGSRRKARRAHFQAPSHVRRVLMSAPLSKELRAKYN VRAMPVRKDDEVIVKRGTFKGREGKVTACYRLKWVILIDK VNREKANGSTVAVGIHPSNVEITKLKLTHHRKSILERKDR S X:  MRTIECEFSHFAVHPGHGRRYVPFAFLSTKPVLTFSRPKC FALYMRKKNPRFIPWTRTYRRIHRK Y:  KFLKPGKVVIVTAGRYAGHKAVIVQNSDIATKERPYGRAL LAGIKKYPKKVVRGMSKQTIARRSQVGVFLRVVNHKHFLP TRYNVDMSKELRGKINVSDASKRSRSKRLVRHVFQARYNA GSSMWFFQRLRF Z:  SHSVDLQWILVRQNSRFLQKRGGIRMSNDPFNNNGNWTKR HCGFLNEKAAVVKPAKGGAICVTVKDGSSNNKPRQTYRKT VHAAGVRASDVSRAVAAVRPDLADVSFRRARRMACIASRT AKVAAARKARSEKIKFSRKS a:  SHHMKIKDLREKSKDDLLKTLTEYKKELSQLRVVQQTGGA ETRLGRIRPIRKSIARILTVLNQNERSNLKMFYADRKLRC KTPKVLRAKLTHRRRLALKENEKNRKTSRQMRQAHKFPKR VYAVK b:  AKSKNHTNHNQSSKNHRNGIKGPMPLHLHNSKRGSWLPAL VNARRVRKHNQKAALKKRRERIAAFAAK c:  AAFKQQQTENFKKAVVARKAAKAALKKTAYLRARKYSREY RGAEKKLVTLRRQAASHGNYYLEAKPKVAVVTRIRGIAKV NPKQRKILQLLRLRQIFNTVFVKMNKPMENMLRAVEPYIA YGYPSLATVRAMVYKRGYLKINGQRVKITDNQMIKDKYNN ADIVCAEDMVNQIYTCGKHFRTVTHGMWPFKLAPPAGGMR QKRRHFVEGGDYGNRDTLINRFLARMI d:  VDTINAKLQLVMKSGKYVLGTQQALTTLRQGRSKLIVISN NCPPIRRAEVEYYCTLSKTPIHHYSGNNLDLGTACGKHFR TCVLSVTNVGDS e:  TRASLRKRTGRKPDAVSMEATIHLSKLLKKKTFSKRAPLA IKRIKAFVGRLMKTKDNRIDASLNTYIWHKGVKGVPGRVR VLIQRKSETTEGNKHKHFYTVISNVPVASFKGLTTKTVE f:  VKPTVSKAIVKKRTKRFTRHRYELFPQLSSSWRKPRGEDS PVRRRYKGQKAMPNKGYGSDRATKYITPSGFRSFPINNVE DLYMLVMQNRKYAGVISHTVGARKRKAIARKAMELDVRLA NGNAKLRKIA g:  KTSRVNRNRKAPRLYMKGTLAGYTRGLHGQTKQTALVRVE NVNTREDATWYVGKRVCYVYHGKKVKRCVRWSKAPARRST TRALWGRVTRPHGNAGMMRVKFNGASVPASAIGRRIRVYL YPSQI h:  CPRVQYRRRMHYATRGNRMKMVRTPGNKLVMQKRAKRSQG IHTPWVLGHKRLGGTKALRHIDARLASRHEKSVSRAYGGV LSHDQVRDRVVRAFLVEEQRIVKQALKEHSKMKLSHKRTA NKKKS i:  APTPRTGIIAGFNKGHVTTRRPRQPSPNDRFAVPHKHLRA VKAIIADLVGLSPLEKRVQEFLRVGKEKRALKYCKKRLGD FTAAKKKRSKMEEALRH j:  TKGTTSMGQRHGRTHILCRRCGRNSYHVQWERCAACAYPR ASRRRYNWSVKAIKRRRTGTGRCRYLKVVNRRIANHFKTP k:  PREIKTLKEFLAICSRKDARCVKVKHNPSATKFKVRCSRY LYTLVVNDKKKADKIERSIHPSVKKIAVTARSHAKT l:  GRFKPLAVKKKYAKKMNQNKPVPYWIRLRTGNRIKWNEKR RHWRRTKLNY m:  MEPTLVALAKKYNWEKKVCRRCYARLPVRATNCRKKACGH CSNLRMKKKL n:  GTVSRPRGMRPKWHKKRIKRLKLRRRRMRQRSK o:  AKRTVKMGVMGRYGTRYGANPRKRAKKLEVSQHAKHFCSF CGKFAFRRKAVGIWRCDGCSKTVAGGAYTLSTPNNSTVRS TVRRLRELAK p:  VNYPKKKVMHCGDARCNAHKSFKVVQYKAGKARLFARGKR RYDRKQSGYGGQTKPVFHKKAKTTKKIVLKLQCSGCKSIR QVVLKRTKHFELNDKK Description Functional site 1) chain P residue 66 type sequence R description binding site for residue PAR 1 1801 source : AC1 2) chain P residue 149 type sequence R description binding site for residue PAR 1 1801 source : AC1 3) chain P residue 157 type sequence R description binding site for residue PAR 1 1801 source : AC1 4) chain C residue 109 type sequence R description binding site for residue PAR 1 1802 source : AC2 5) chain M residue 204 type sequence R description binding site for residue PAR 1 1802 source : AC2 6) chain P residue 9 type sequence S description binding site for residue PAR 1 1803 source : AC3 7) chain P residue 10 type sequence K description binding site for residue PAR 1 1803 source : AC3 8) chain P residue 12 type sequence S description binding site for residue PAR 1 1803 source : AC3 9) chain g residue 123 type sequence G description binding site for residue PAR 1 1804 source : AC4 10) chain C residue 98 type sequence G description binding site for residue MG 1 1806 source : AC6 11) chain C residue 59 type sequence M description binding site for residue MG 1 1823 source : AE2 12) chain j residue 19 type BINDING sequence C description BINDING => ECO:0000250 source Swiss-Prot : SWS_FT_FI2 13) chain j residue 22 type BINDING sequence C description BINDING => ECO:0000250 source Swiss-Prot : SWS_FT_FI2 14) chain j residue 34 type BINDING sequence C description BINDING => ECO:0000250 source Swiss-Prot : SWS_FT_FI2 15) chain j residue 37 type BINDING sequence C description BINDING => ECO:0000250 source Swiss-Prot : SWS_FT_FI2 16) chain j residue 19-37 type ZN_FING sequence CRRCGRNSYHVQWERCAAC description C4-type => ECO:0000255 source Swiss-Prot : SWS_FT_FI1 17) chain S residue 37-62 type prosite sequence GDYVDVVADSAVREGMPHKYYHGRTG description RIBOSOMAL_L21E Ribosomal protein L21e signature. GDyVdvvadsavre.GmpHkyYhGrTG source prosite : PS01171 18) chain c residue 112-144 type prosite sequence ILQLLRLRQIFNTVFVKMNKPMENMLRAVEPYI description RIBOSOMAL_L30 Ribosomal protein L30 signature. ILqlLrLrQifNtVfvkmnkpmenMLraVepYI source prosite : PS00634 19) chain A residue 197-208 type prosite sequence PKVRGVARNPVE description RIBOSOMAL_L2 Ribosomal protein L2 signature. PkvRGVArNPvE source prosite : PS00467 20) chain l residue 30-46 type prosite sequence RTGNRIKWNEKRRHWRR description RIBOSOMAL_L39E Ribosomal protein L39e signature. RTgnrIkwNekrRHWRR source prosite : PS00051 21) chain j residue 4-23 type prosite sequence GTTSMGQRHGRTHILCRRCG description RIBOSOMAL_L37E Ribosomal protein L37e signature. GTtSmGqRhgrt.HilCrRCG source prosite : PS01077 22) chain T residue 126-150 type prosite sequence RRRTYRAHGRITPYMCSPCHVQLFM description RIBOSOMAL_L22 Ribosomal protein L22 signature. RrrTyRAhGRitpymcspCHVQLfM source prosite : PS00464 23) chain E residue 162-183 type prosite sequence QMCLVKKKDIRKFLDGIYVQTK description RIBOSOMAL_L6_2 Ribosomal protein L6 signature 2. QmclVkkKdiRkFlDGIYVqtK source prosite : PS00700 24) chain B residue 214-237 type prosite sequence FQQSEACDVCSVTKGHGTEGVVKR description RIBOSOMAL_L3 Ribosomal protein L3 signature. FqqseacDvcSvTkGHGteGvvkR source prosite : PS00474 25) chain V residue 123-138 type prosite sequence KKAYIRLSAAHDALDT description RIBOSOMAL_L23 Ribosomal protein L23 signature. KKAYIRLSaahdaldT source prosite : PS00050 26) chain C residue 115-141 type prosite sequence NLHQKRFAVVSALAASSVPSLVMSRGH description RIBOSOMAL_L1E Ribosomal protein L1e signature. NlhqKrfAVvSALaASSvpslvmsRGH source prosite : PS00939 27) chain J residue 78-104 type prosite sequence AVIIRQRKSWRRKDGTVIYFEDNAGVI description RIBOSOMAL_L14 Ribosomal protein L14 signature. AVIIrqrkswrrk.DGtviyFedNagVI source prosite : PS00049 28) chain F residue 72-90 type prosite sequence NGVPIRRIDSRYVIATSTK description RIBOSOMAL_L6E Ribosomal protein L6e signature. NgvPIRRidsrYVIATSt.K source prosite : PS01170 29) chain p residue 63-74 type prosite sequence KTTKKIVLKLQC description RIBOSOMAL_L44E Ribosomal protein L44e signature. KtTKKivLKlqC source prosite : PS01172 30) chain D residue 39-55 type prosite sequence LEQLCEQTPVLSRARLT description RIBOSOMAL_L5 Ribosomal protein L5 signature. LeqLCEQtpVlSrARlT source prosite : PS00358 31) chain d residue 22-46 type prosite sequence SGKYVLGTQQALTTLRQGRSKLIVI description RIBOSOMAL_L30E_1 Ribosomal protein L30e signature 1. SgkyvlGtQqaLTtlRqGrsKlIVI source prosite : PS00709 32) chain d residue 78-98 type prosite sequence DLGTACGKHFRTCVLSVTNVG description RIBOSOMAL_L30E_2 Ribosomal protein L30e signature 2. DLGTacGKhfrtcvLsVtNvG source prosite : PS00993

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