Structure of PDB 7w0e Chain A

Receptor sequence

>7w0eA (length=1541) Species: 7227 (Drosophila melanogaster)

EDVEIKPRGYQLRLVDHLTKSNGIVYLPTGSGKTFVAILVLKRFSQDFDK
PIESGGKRALFMCNTVELARQQAMAVRRCTNFKVGFYVGEQGVDDWTRGM
WSDEIKKNQVLVGTAQVFLDMVTQTYVALSSLSVVIIDECHHGTGHHPFR
EFMRLFTIANQTKLPRVVGLTGVLIKGNEITNVATKLKELEITYRGNIIT
VSDTKEMENVMLYATKPTEVMVSFPHQEQVLTVTRLISAEIEKFYVSLDL
MNIGVQPIRRSKSLQCLRDPSKKSFVKQLFNDFLYQMKEYGIYAASIAII
SLIVEFDIKRRQAETLSVKLMHRTALTLCEKIRHLLVQKLQDMTYDDDDD
NVNTEEVIMNFSTPKVQRFLMSLKVSFADKDPKDICCLVFVERRYTCKCI
YGLLLNYIQSTPELRNVLTPQFMVGRNNISPDFESVLERKWQKSAIQQFR
DGNANLMICSSVLEEGIDVQACNHVFILDPVKTFNMYVQSKGRARTTEAK
FVLFTADKEREKTIQQIYQYRKAHNDIAEYLKDRVLEKTEPELYEIKGHF
QDDIDPFTNENGAVLLPNNALAILHRYCQTIPTDAFGFVIPWFHVLQEDE
RDRIFGVSAKGKHVISINMPVNCMLRDTIYSDPMDNVKTAKISAAFKACK
VLYSLGELNERFVPKTLKERVASIADVHFEHWNKYGDSVTATVNKADKSK
DRTYKTECPLEFYDALPRVGEICYAYEIFLEPQFESCEYTEHMYLNLQTP
RNYAILLRNKLPRLAEMPLFSNQGKLHVRVANAPLEVIIQNSEQLELLHQ
FHGMVFRDILKIWHPFFVLDRRSKENSYLVVPLILGAGEQKCFDWELMTN
FRRLPQSHGSNVQQREQQPAPRPEDFEGKIVTQWYANYDKPMLVTKVHRE
LTPLSYMEKNQQDKTYYEFTMSKYGNRIGDVVHKDKFMIEVRDLTEQLTF
YVHNRGKFNAKSKAKMKVILIPELCFNFNFPGDLWLKLIFLPSILNRMYF
LLHAEALRKRFNTYLNLHLLPFNGTDYMPRPLEIDYSLKGKVKPLLILQK
TVSKEHITPAEQGEFLAAITASSAADVFDMERLEILGNSFLKLSATLYLA
SKYSDWNEGTLTEVKSKLVSNRNLLFCLIDADIPKTLNTIQFTPRYTWLP
PGISLPHNVLALWRENPEFAKIIGPHNLRDLALGDEESLVKGNCSDINYN
RFVEGCRANGQSFYAGADFSSEVNFCVGLVTIPNKVIADTLEALLGVIVK
NYGLQHAFKMLEYFKICRADIDKPLTQLLNLELGGKKMRANVNTTEIDGF
LINHYYLEKNLGYTFKDRRYLLQALTHPSYPTNRITGSYQELEFIGNAIL
DFLISAYIFENNTKMNPGALTDLRSALVNNTTLACICVRHRLHFFILAEN
AKLSEIISKFVNFQESQGHRVTNMSTNVDVPKALGDVLEALIAAVYLDCR
DLQRTWEVIFNLFEPELQEFTRKVPINHIRQLVEHKHAKPVFSSPIVEGE
TVMVSCQFTCMEKTIKVYGFGSNKDQAKLSAAKHALQQLSK

3D structure

• PDB: 7w0e Structural insights into dsRNA processing by Drosophila Dicer-2-Loqs-PD.
• Chain: A
• Resolution: 4.03 Å

Enzymatic activity

• Enzyme Commision number: 3.1.26.3: ribonuclease III.

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	H147 H148 K177 N179 R260 S272 K310 Q313 L438 K441 T484 Y740 N773 K966 T1241 N1476 S1504 N1508 N1509 E1617 N1655	H146 H147 K176 N178 R259 S271 K309 Q312 L437 K440 T483 Y739 N772 K965 T1112 N1347 S1375 N1379 N1380 E1439 N1477
BS02	rna	A	T66 V67 G90 E91 D95 Q117 S262 S264 Q266 R269 Q279 E393 R394 R395 G426 R427 V463 Y925 R956 K958 K968 V969 I970 I1214 N1217 K1221 N1250 P1457 S1458 N1462 T1500 R1503 N1529 K1531 R1658 E1662 N1701 K1702	T65 V66 G89 E90 D94 Q116 S261 S263 Q265 R268 Q278 E392 R393 R394 G425 R426 V462 Y924 R955 K957 K967 V968 I969 I1085 N1088 K1092 N1121 P1328 S1329 N1333 T1371 R1374 N1400 K1402 R1480 E1484 N1523 K1524
BS03	peptide	A	E220 V221 M222 V223 P226 V231 L232 G292 I293 N361 F362 Q368 R369 M372 V376 I515 R522	E219 V220 M221 V222 P225 V230 L231 G291 I292 N360 F361 Q367 R368 M371 V375 I514 R521
BS04	MG	A	D1614 E1617	D1436 E1439
BS05	ADP	A	R9 G31 S32 G33 K34 T35 F36 Y214	R8 G30 S31 G32 K33 T34 F35 Y213

Gene Ontology

Molecular Function

• GO:0003676 nucleic acid binding
• GO:0003723 RNA binding
• GO:0003730 mRNA 3'-UTR binding
• GO:0004386 helicase activity
• GO:0004518 nuclease activity
• GO:0004521 RNA endonuclease activity
• GO:0004525 ribonuclease III activity
• GO:0004530 deoxyribonuclease I activity
• GO:0005515 protein binding
• GO:0005524 ATP binding
• GO:0008186 ATP-dependent activity, acting on RNA
• GO:0016887 ATP hydrolysis activity
• GO:0016891 RNA endonuclease activity, producing 5'-phosphomonoesters
• GO:0035197 siRNA binding

Biological Process

• GO:0002230 positive regulation of defense response to virus by host
• GO:0006309 apoptotic DNA fragmentation
• GO:0006396 RNA processing
• GO:0007626 locomotory behavior
• GO:0009047 dosage compensation by hyperactivation of X chromosome
• GO:0009597 detection of virus
• GO:0009616 RNAi-mediated antiviral immune response
• GO:0030422 siRNA processing
• GO:0031047 regulatory ncRNA-mediated gene silencing
• GO:0031054 pre-miRNA processing
• GO:0031507 heterochromatin formation
• GO:0033227 dsRNA transport
• GO:0035194 regulatory ncRNA-mediated post-transcriptional gene silencing
• GO:0045089 positive regulation of innate immune response
• GO:0045752 positive regulation of Toll signaling pathway
• GO:0051607 defense response to virus
• GO:0070922 RISC complex assembly
• GO:0098586 cellular response to virus
• GO:0098795 global gene silencing by mRNA cleavage
• GO:0110064 lncRNA catabolic process

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0016442 RISC complex
• GO:0036464 cytoplasmic ribonucleoprotein granule
• GO:0048471 perinuclear region of cytoplasm
• GO:0070578 RISC-loading complex

External links

• PDB: RCSB:7w0e, PDBe:7w0e, PDBj:7w0e
• PDBsum: 7w0e
• PubMed: 35768513
• UniProt: A1ZAW0|DCR2_DROME Endoribonuclease Dcr-2 (Gene Name=Dcr-2)