Structure of PDB 6d6r Chain K

Receptor sequence

>6d6rK (length=853) Species: 9606 (Homo sapiens) [Search protein sequence]

MLKSKTFLKKTRAGGVMKIVREHYLRDDIGCGAPGCAACGGAHEGPALEP
QPQDPQPHYLLPDTNVLLHQIDVLEDPAIRNVIVLQTVLQEVRNRSAPVY
KRIRDVTNNQEKHFYTFTNEHHRETYVEQEQGENANDRNNRAIRVAAKWY
NEHLKKMSADNQLQVIFITNDRRNKEKAIEEGIPAFTCEEYVKSLTANPE
LIDRLAIIFSEHLPLSKLQQGIKSGTYLQGTFRASRENYLEATVWIHKEI
ILQGLKHLNRAVHEDIVAVELLPKSQWKPTGRVVGIIKRNWRPYCGMLSK
SDIKESRRHLFTPADKRIPRIRIETRQASTLEGRRIIVAIDGWPRNSRYP
NGHFVRNLGDVGEKETETEVLLLEHDVPHQPFSQAVLSFLPKMPWSITEK
DMKNREDLRHLCICSVDPPGCTDINDALHCRELENGNLEVGVHIADVSHF
IRPGNALDQESARRGTTVYLCEKRIDMVPELLSSNLCSLKCDVDRLAFSC
IWEMNHNAEILKTKFTKSVINSKASLTYAEAQLRIDSANMNDDITTSLRG
LNKLAKILKKRRIEKGALTLSSPEVRFHPIDLQTKELRETNSMVEEFMLL
ANISVAKKIHEEFSEHALLRKHPAPPPSNYEILVKAARSRNLEIKTDTAK
SLAESLDQAESPTFPYLNTLLRILATRCMMQAVYFCSGMDNDFHHYGLAS
PIYTHFTSPIRRYADVIVHRLLAVAIGADCTYPELTDKHKLADICKNLNF
RHKMAQYAQRASVAFHTQLFFKSNGIVSEEAYILFVRKNAIVVLIPKYGL
EGTVFFEQLIYDDEIPSLKIEDTVFHVFDKVKVKIMLDSSNLQHQKIRMS
LVE

3D structure

PDB

6d6r Helicase-Dependent RNA Decay Illuminated by a Cryo-EM Structure of a Human Nuclear RNA Exosome-MTR4 Complex.

Chain

Resolution

3.45 Å

3D
structure

Catalytic site residues are labeled in the structure
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Enzymatic activity

Catalytic site (original residue number in PDB)	D479 D485 N487 D488 Y590 R780
Catalytic site (residue number reindexed from 1)	D417 D423 N425 D426 Y528 R711
Enzyme Commision number	3.1.13.- 3.1.26.-

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	K	K9 R12 I19 R21 A103 R255 Y258 S363 R370 P375 D377 K378 I380 R382 R410 Y411 P480 C483 D485 I486 N487 D488 Y531 N660 E664 R689 T745 R746 A751 H764 Y772 H774 T776 R780 R829 F874 K922	K9 R12 I19 R21 A97 R236 Y239 S301 R308 P313 D315 K316 I318 R320 R348 Y349 P418 C421 D423 I424 N425 D426 Y469 N591 E595 R620 T676 R677 A682 H695 Y703 H705 T707 R711 R760 F805 K846
BS02	ZN	K	C31 C36 C39 H159	C31 C36 C39 H153

Gene Ontology

	Molecular Function
GO:0000175	3'-5'-RNA exonuclease activity
GO:0003723	RNA binding
GO:0004519	endonuclease activity
GO:0004527	exonuclease activity
GO:0004540	RNA nuclease activity
GO:0005085	guanyl-nucleotide exchange factor activity
GO:0005515	protein binding

	Biological Process
GO:0000288	nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay
GO:0006364	rRNA processing
GO:0006396	RNA processing
GO:0006401	RNA catabolic process
GO:0016075	rRNA catabolic process
GO:0071031	nuclear mRNA surveillance of mRNA 3'-end processing
GO:0071034	CUT catabolic process

	Cellular Component
GO:0000176	nuclear exosome (RNase complex)
GO:0000177	cytoplasmic exosome (RNase complex)
GO:0000178	exosome (RNase complex)
GO:0005634	nucleus
GO:0005654	nucleoplasm
GO:0005730	nucleolus
GO:0005737	cytoplasm
GO:0005829	cytosol
GO:0016020	membrane

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Molecular Function

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Biological Process

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Cellular Component

External links

PDB	RCSB:6d6r, PDBe:6d6r, PDBj:6d6r
PDBsum	6d6r
PubMed	29906447
UniProt	Q9Y2L1\|RRP44_HUMAN Exosome complex exonuclease RRP44 (Gene Name=DIS3)

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