Structure of PDB 6ah3 Chain B

Receptor sequence

>6ah3B (length=784) Species: 559292 (Saccharomyces cerevisiae S288C)

GSKLNVDQFISSRQFEVKQLQLAMHNSKAASSTRIFQALPRKLRRRTASH
NVRRIPKRMRNRALREMRKSDAHGLNAKQLYKARMSIKLLRLASKSTSMK
LSMPPEVTSSNCHVRQKIKTLKRMIKESSTANPNIKLLNNRMGSYDCTGV
NELAPIPKGRVKYTKRQKHFAWLPTHIWNAKRSHMMKRWGYQMVWAPTQK
CFKLTHRLGGDTCSSDGALCMDSSYIGTIIVKDKSNDSEGDFLKSIIGKL
TAERANLRKYREGQVLFQGLIYSFNEENGEDSTKPLGPCDVFWVQKDTAI
IRLHPSIYTQVFNILLQHKEKLTVQDCRYSLASVTLKGAKALESLASCLR
STEYSKSFEQFKMVSMITDHNALPQRCTFAFEAIDPRHLAAPKKLNDSQR
KTVNSDDILSLHENYPQDEINAVFNELCDPESRTQSYNNQNTLKEISARR
YKLLTATKTTVPFKESDDPSIPLVIIRRLKTRDWIVVLPWFWLLPLWHLL
NRIPRMYHIGLRQFQQIQYENKQLYFPDDYPFTQLGYIENSFYKKEASKT
KWDRKPMGKRINFEKIKDIHNTKLPAYSGEIGDFFSSDWRFLQILRNGID
YLQRNDKTLELMDGVRDINCVNDVLEFCKDYEAKTKAMSLSIEENIPVAL
CKNRKCQFRTSFSLTFFPRCIIAVSCTLLERGHPKDNARIYQVPEKDLEH
WLQLAKGVYRPNGRKDHDLKIPLPEVHDLIGFITSGTYHLNCGNGMGIGF
IDHHAAIRQPTRYVLIRNVGTNTYRLGEWSKISV

3D structure

• PDB: 6ah3 Structural insight into precursor tRNA processing by yeast ribonuclease P.
• Chain: B
• Resolution: 3.48 Å

Enzymatic activity

• Enzyme Commision number: 3.1.26.5: ribonuclease P.

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	K81 P93 R94 K95 R97 R98 R99 T100 N104 R106 R107 P109 R111 R113 A139 L142 N143 K145 Q146 Y148 K149 R151 K155 L156 L157 R158 K162 H180 R182 Q183 K186 M209 R227 K229 Y230 K232 R233 W239 I244 A247 K248 R249 H251 K254 T265 K267 F269 K270 R274 D278 T279 C280 S281 R454 K460 K468 T509 L510 K511 S514 L566 H570 R574 P576 R577 R626 K631 I633 N634 K637 R772 G773 H774 R805 K806 Y829 L831 N832 C833 G834 Y854 T862 R866	K28 P40 R41 K42 R44 R45 R46 T47 N51 R53 R54 P56 R58 R60 A72 L75 N76 K78 Q79 Y81 K82 R84 K88 L89 L90 R91 K95 H113 R115 Q116 K119 M142 R160 K162 Y163 K165 R166 W172 I177 A180 K181 R182 H184 K187 T198 K200 F202 K203 R207 D211 T212 C213 S214 R387 K393 K401 T442 L443 K444 S447 L494 H498 R502 P504 R505 R554 K559 I561 N562 K565 R681 G682 H683 R714 K715 Y738 L740 N741 C742 G743 Y763 T771 R775
BS02	rna	B	R87 S102 R115 E119 K122 S123 D124	R34 S49 R62 E66 K69 S70 D71

Gene Ontology

Molecular Function

• GO:0000171 ribonuclease MRP activity
• GO:0003723 RNA binding
• GO:0004526 ribonuclease P activity
• GO:0005515 protein binding
• GO:0016787 hydrolase activity

Biological Process

• GO:0000294 nuclear-transcribed mRNA catabolic process, RNase MRP-dependent
• GO:0000460 maturation of 5.8S rRNA
• GO:0001682 tRNA 5'-leader removal
• GO:0006364 rRNA processing
• GO:0008033 tRNA processing
• GO:0034965 intronic box C/D snoRNA processing

Cellular Component

• GO:0000172 ribonuclease MRP complex
• GO:0005634 nucleus
• GO:0005655 nucleolar ribonuclease P complex
• GO:0005697 telomerase holoenzyme complex
• GO:0005737 cytoplasm

External links

• PDB: RCSB:6ah3, PDBe:6ah3, PDBj:6ah3
• PDBsum: 6ah3
• PubMed: 30262633
• UniProt: P41812|POP1_YEAST Ribonucleases P/MRP protein subunit POP1 (Gene Name=POP1)