Structure of PDB 8ro0 Chain A

Receptor sequence

>8ro0A (length=2231) Species: 6239 (Caenorhabditis elegans)

DSILEEKSRKWKQLQGKRYSEKKKFGMSDTQKEEMPPEHVRKVIRDHGDM
TSRKYRHDKRVYLGALKYMPHAVLKLLENMPMPWEQIRDVKVLYHITGAI
TFVNDIPRVIEPVYMAQWGTMWIMMRREKRDRRHFKRMRFPPFDDEEPPL
DYADNILDVEPLEPIQMELDPEEDGAVAEWFYDHKPLATTRFVNGPTYRK
WAFSIPQMSTLYRLANQLLTDLVDDNYFYLFDMKSFFTAKALNVAIPGGP
KFEPLVKDLHTDEDWNEFNDINKVIIRAPIRTEYRIAFPFMYNNLISSLP
VQVSWYHTPSVVFIKTEDPDLPAFYYDPLINPIVLSNLKATEENLPEGEE
EDEWELPEDVRPIFEDVPLYTDNTANGLALLWAPRPFNLRSGRTRRAVDV
PLVKSWYREHCPAGMPVKVRVSYQKLLKVFVLNALKHRPPKPQKRRYLFR
SFKATKFFQTTTLDWVEAGLQVLRQGYNMLNLLIHRKNLNYLHLDYNFNL
KPVKTLTTKERKKSRFGNAFHLCREILRLTKLVVDAHVQYRLNNVDAYQL
ADGLQYIFAHVGQLTGMYRYKYKLMRQVRMCKDLKHLIYYRFNTGPVGKG
PGCGFWAPGWRVWLFFLRGITPLLERWLGNLLSRQFEGRHSKGVAKTVTK
QRVESHFDLELRAAVMHDILDMMPDGIKQNKARVILQHLSEAWRCWKANI
PWKVPGLPTPVENMILRYVKAKADWWTNSAHYNRERVRRGATVDKTVCKK
NLGRLTRLYLKSEQERQHNYLKDGPYISAEEAVAIYTTTVHWLESRRFSP
IPFPPLSYKHDTKLLILALERLKESYSVKNRLNQSQREELALIEQAYDNP
HEALSRIKRHMLTQRAFKEVGIEFMDLYTHLIPVYDIEPLEKVTDAYLDQ
YLWYEADKRRLFPAWVKPGDTEPPPLLTYKWCQGLNNLQDVWETSEGECN
VIMETKLEKIAEKMDLTLLNRLLRLIVDHNIADYMTSKNNVLINYKDMNH
TNSFGIIRGLQFASFIVQFYGLVLDLLVLGLRRASEIAGPPQCPNEFLQF
QDVATEIGHPIRLYCRYIDRVWIMFRFSADEARDLIQRYLTEHPDPNNEN
IVGYNNKKCWPRDARMRLMKHDVNLGRAVFWDIKNRLPRSITTVEWENSF
VSVYSKDNPNMLFDMSGFECRILPKCRTANEEFVHRDGVWNLQNEVTKER
TAQCFLKVDEESLSKFHNRIRQILMSSGSTTFTKIVNKWNTALIGLMTYF
REAVVNTQELLDLLVKCENKIQTRIKIGLNSKMPSRFPPVVFYTPKEIGG
LGMLSMGHVLIPQSDLRWMQQTEAGGVTHFRSQLIPNLYRYIQPWEAEFV
DSVRVWAEYALKRQEANAQNRRLTLEDLDDSWDRGIPRINTLFQKDRHTL
AYDKGWRVRTEFKAYQILKQNPFWWTHQRHDGKLWNLNNYRTDMIQALGG
VEGILEHTLFRGTYFPTWEGLFWERASGFEESMKFKKLTNAQRSGLNQIP
NRRFTLWWSPTINRANVYVGFQVQLDLTGIFMHGKIPTLKISLIQIFRAH
LWQKIHESVVMDLCQVFDQELDALEIQTVQKETIHPRKSYKMNSSCADVL
LFAQYKWNVSRPSLMADSKDVMDNTTTQKYWLDVQLRWGDYDSHDVERYA
RAKFLDYTTDNMSIYPSPTGVLIAIDLAYNLYSAYGNWFPGMKPLIRQAM
AKIIKANPAFYVLRERIRKGLQLYSSENYGELFSNQIIWFVDDTNVYRVT
IHKTFEGNLTTKPINGAIFIFNPRTGQLFLKIIHTSVWAGQKRLSQLAKW
KTAEEVAALIRSLPVEEQPRQIIVTRKAMLDPLEVHLLDFPNIVIKGSEL
MLPFQAIMKVEKFGDLILKATEPQMVLFNLYDDWLKTISSYTAFSRVVLI
MRGMHINPDKTKVILKPDKTTITEPHHIWPTLSDDDWIKVELALKDMILA
DYGKKNNVNVASLTQSEVRDIILGMEISAPSQQEWRVRAISSTNLHLRTQ
HIYVNSDDVKDTGYTYILPKNILKKFITISDLRTQIAGFMYGVSPPDNPQ
VKEIRCIVLVPQTGSHQQVNLPTQLPDHELLRDFEPLGWMHTQPNELPQL
SPQDVTTHAKLLTDNISWDGEKTVMITCSFTPGSVSLTAYKLTPSGYEWG
KANTDKGNNPKGYMPTHYEKVQMLLSDRFLGYFMVPSNGVWNYNFQGQRW
SPAMKFDVCLSNPKEYYHEDHRPVHFHNFKA

3D structure

• PDB: 8ro0 Mechanism for the initiation of spliceosome disassembly.
• Chain: A
• Resolution: 2.9 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	rna	A	D674 R678 R699 Q703 K713 K766 R770 R773 N849 K1012	D658 R662 R683 Q687 K697 K750 R754 R757 N833 K996
BS02	rna	A	K40 G42 M43 Q47 H87 K91 I122 P212 T213 R215 K256 E269 R401 R409 R411 R412 D415 P417 K420 N449 H453 R454 P456 K457 P458 K460 R461 R462 R466 K587 Y588 K589 R592 Q593 R627 F631 F632 R634 G635 P638 L639 K666 K761 K1286 I1293	K24 G26 M27 Q31 H71 K75 I106 P196 T197 R199 K240 E253 R385 R393 R395 R396 D399 P401 K404 N433 H437 R438 P440 K441 P442 K444 R445 R446 R450 K571 Y572 K573 R576 Q577 R611 F615 F616 R618 G619 P622 L623 K650 K745 K1270 I1277
BS03	rna	A	Q29 K38 K503 K528 R531 F532 G533 A535 W643 N646 R650 R655 K658 K662 T663 Q667 R668 S671	Q13 K22 K487 K512 R515 F516 G517 A519 W627 N630 R634 R639 K642 K646 T647 Q651 R652 S655
BS04	rna	A	R69 K75 R502	R53 K59 R486
BS05	IHP	A	K434 K601 N1539	K418 K585 N1516

External links

• PDB: RCSB:8ro0, PDBe:8ro0, PDBj:8ro0
• PDBsum: 8ro0
• PubMed: 38925148
• UniProt: P34369|PRP8_CAEEL Pre-mRNA-splicing factor 8 homolog (Gene Name=prp-8)