Structure of PDB 4pmw Chain B

Receptor sequence

>4pmwB (length=691) Species: 10090 (Mus musculus) [Search protein sequence]

IFETYMSKEDVSEGLKRGTLIQGVLRINPKKFHEAFIPSPDGDRDIFIDG
VVARNRALNGDLVVVKLLPEKSAKVVYILEKKHSRAATGILKLLFKKYAL
FSPSDHRVPRIYVPLKDCPQDFMTRPKDFANTLFICRIIDWKEDCNFALG
QLAKSLGQAGEIEPETEGILTEYGVDFSDFSSEVLECLPQSLPWTIPPDE
VGKRRDLRKDCIFTIDPSTARDLNDALACRRLTDGTFEVGVHIADVSYFV
PEGSSLDKVAAERATSVYLVQKVVPMLPRLLCEELCSLNPMTDKLTFSVI
WKLTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENPTEKIPEEELPPIS
PEHSVEEVHQAVLNLHSIAKQLRRQRFVDGALRLDQLKLAFTLDHETGLP
QGCHIYEYRDSNKLVEEFMLLANMAVAHKIFRTFPEQALLRRHPPPQTKM
LSDLVEFCDQMGLPMDVSSAGALNKSLTKTFGDDKYSLARKEVLTNMYSR
PMQMALYFCSGMLQDQEQFRHYALNVPLYTHFTSPIRRFADVIVHRLLAA
ALGYSEQPDVEPDTLQKQADHCNDRRMASKRVQELSIGLFFAVLVKESGP
LESEAMVMGVLNQAFDVLVLRFGVQKRIYCNALALRSYSFQKVGKKPELT
LVWEPDDLEEEPTQQVITIFSLVDVVLQAEATALKYSAILK

3D structure

PDB

4pmw Mechanism of Dis3l2 substrate recognition in the Lin28-let-7 pathway.

Chain

Resolution

2.95 Å

3D
structure

Catalytic site residues are labeled in the structure
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Enzymatic activity

Catalytic site (original residue number in PDB)	D381 D387 N389 D390 Y492 R702
Catalytic site (residue number reindexed from 1)	D216 D222 N224 D225 Y327 R537
Enzyme Commision number	3.1.13.-

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	B	R74 N76 P77 K78 F80 F84 D93 H271 R275 D381 P382 A385 D387 L388 N389 D390 Y433 Y492 L549 D550 Q551 K553 Y573 E581 M584 R606 H608 Q612 M615 S664 R665 M667 M669 A670 H686 Y694 H696 T698 S699 R702 R741 K745 R746 L776 N777 Q778 Q790 R792 Y794 N796	R26 N28 P29 K30 F32 F36 D45 H106 R110 D216 P217 A220 D222 L223 N224 D225 Y268 Y327 L384 D385 Q386 K388 Y408 E416 M419 R441 H443 Q447 M450 S499 R500 M502 M504 A505 H521 Y529 H531 T533 S534 R537 R576 K580 R581 L611 N612 Q613 Q625 R627 Y629 N631	PDBbind-CN: Kd=9pM
BS02	MG	B	D381 D390	D216 D225

Gene Ontology

	Molecular Function
GO:0000175	3'-5'-RNA exonuclease activity
GO:0003723	RNA binding
GO:0004540	RNA nuclease activity

View graph for
Molecular Function

External links

PDB	RCSB:4pmw, PDBe:4pmw, PDBj:4pmw
PDBsum	4pmw
PubMed	25119025
UniProt	Q8CI75\|DI3L2_MOUSE DIS3-like exonuclease 2 (Gene Name=Dis3l2)

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