Structure of PDB 5vaj Chain B

Receptor sequence
>5vajB (length=136) Species: 272558 (Halalkalibacterium halodurans C-125) [Search protein sequence]
AKEEIIWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMG
EFLAIVHGLRYLKERNSRKPIYSNSQTAIKWVKDKKAKSTLVRNEETALI
WKLVDEAEEWLNTHTYETPILKWQTDKWGEIKADYG
3D structure
PDB5vaj Amide linkages mimic phosphates in RNA interactions with proteins and are well tolerated in the guide strand of short interfering RNAs.
ChainB
Resolution1.95 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 3.1.26.4: ribonuclease H.
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 D71 V72 G73 S74 Q75 G76 N105 E109 N132 Q134 K180 T183 D13 V14 G15 S16 Q17 G18 N47 E51 N74 Q76 K122 T125
BS02 dna B N77 P78 T104 N105 N106 K138 W139 S147 T148 N19 P20 T46 N47 N48 K80 W81 S89 T90
BS03 MG B D71 E109 N132 D13 E51 N74
BS04 MG B D71 D192 D13 D134
Gene Ontology
Molecular Function
GO:0003676 nucleic acid binding
GO:0004523 RNA-DNA hybrid ribonuclease activity

View graph for
Molecular Function
External links
PDB RCSB:5vaj, PDBe:5vaj, PDBj:5vaj
PDBsum5vaj
PubMed28854734
UniProtQ9KEI9|RNH1_HALH5 Ribonuclease H (Gene Name=rnhA)

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