Structure of PDB 8ro1 Chain A

Receptor sequence

>8ro1A (length=1982) 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
LGMLSMGHVLIPQSDLRWMQQTEAGGVTHFRSLIPNLYRYIQPWEAEFVD
SVRVWAEYALKRQEANAQNRRLTLEDLDDSWDRGIPRINTLFQKDRHTLA
YDKGWRVRTEFKAYQILKQNPFWWTHQRHDGKLWNLNNYRTDMIQALGGV
EGILEHTLFRGTYFPTWEGLFWERASGFEESMKFKKLTNAQRSGLNQIPN
RRFTLWWSPTINRANVYVGFQVQLDLTGIFMHGKIPTLKISLIQIFRAHL
WQKIHESVVMDLCQVFDQELDALEIQTVQKETIHPRKSYKMNSSCADVLL
FAQYKWNVSRPSLMADSKDVMDNTTTQKYWLDVQLRWGDYDSHDVERYAR
AKFLDYTTDNMSIYPSPTGVLIAIDLAYNLYSAYGNWFPGMKPLIRQAMA
KIIKANPAFYVLRERIRKGLQLYSSENYGELFSNQIIWFVDDTNVYRVTI
HKTFEGNLTTKPINGAIFIFNPRTGQLFLKIIHTSVWAGQKRLSQLAKWK
TAEEVAALIRSLPVEEQPRQIIVTRKAMLDPLEVHLLDFPNIVIKGSELM
LPFQAIMKVEKFGDLILKATEPQMVLFNLYDDWLKTISSYTAFSRVVLIM
RGMHINPDKTKVILKPDKTTITEPHHIWPTLSDDDWIKVELALKDMILAD
YGKKNNVNVASLTQSEVRDIILGMEISAPSQQ

3D structure

• PDB: 8ro1 Mechanism for the initiation of spliceosome disassembly.
• Chain: A
• Resolution: 3.0 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	rna	A	D674 R678 K694 Q703 W709 K713 K766 R770 R773 N849 R853 K1012 D1013	D658 R662 K678 Q687 W693 K697 K750 R754 R757 N833 R837 K996 D997
BS02	rna	A	K40 G42 H87 I122 P212 T213 R215 K256 E269 L271 R401 R409 R411 R412 D415 P417 K420 N449 H453 R454 P456 K457 P458 Q459 K460 R461 R466 K469 Y586 K587 Y588 K589 Q593 R627 F631 F632 R634 G635 P638 L639 K666 V759 S1245 K1286 R1290 I1293	K24 G26 H71 I106 P196 T197 R199 K240 E253 L255 R385 R393 R395 R396 D399 P401 K404 N433 H437 R438 P440 K441 P442 Q443 K444 R445 R450 K453 Y570 K571 Y572 K573 Q577 R611 F615 F616 R618 G619 P622 L623 K650 V743 S1229 K1270 R1274 I1277
BS03	rna	A	K38 K503 K528 R531 F532 N534 A535 W643 N646 R650 R655 K658 K662 T663 Q667 R668 S671 L675	K22 K487 K512 R515 F516 N518 A519 W627 N630 R634 R639 K642 K646 T647 Q651 R652 S655 L659
BS04	rna	A	R72 K75	R56 K59
BS05	IHP	A	K434 H576 K601 H602 Y605 K615 G616	K418 H560 K585 H586 Y589 K599 G600

External links

• PDB: RCSB:8ro1, PDBe:8ro1, PDBj:8ro1
• PDBsum: 8ro1
• PubMed: 38925148
• UniProt: P34369|PRP8_CAEEL Pre-mRNA-splicing factor 8 homolog (Gene Name=prp-8)