9UHA | pdb_00009uha

human Ribonuclease MRP state 2

PDB DOI: https://doi.org/10.2210/pdb9UHA/pdb
NAKB: 9UHA
EM Map EMD-64160: EMDB EMDataResource

Classification: RNA BINDING PROTEIN/RNA
Organism(s): Homo sapiens
Mutation(s): No

Deposited: 2025-04-14 Released: 2026-04-22
Deposition Author(s): Zhou, B., Lan, P., Wu, J., Lei, M.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.93 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Structural insights into the evolution of RNase P and RNase MRP ribonucleoprotein complexes

Zhou, B., Lan, P., Wu, J., Lei, M.

To be published.

Macromolecule Content

Total Structure Weight: 517.93 kDa
Atom Count: 27,442
Modeled Residue Count: 3,011
Deposited Residue Count: 4,109
Unique protein chains: 11
Unique nucleic acid chains: 1

Macromolecules

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| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Ribonucleases P/MRP protein subunit POP1	B	1,024	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q99575 (Homo sapiens) Explore Q99575 Go to UniProtKB: Q99575
PHAROS: Q99575 GTEx: ENSG00000104356
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q99575
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Ribonuclease P protein subunit p38	C	283	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for P78345 (Homo sapiens) Explore P78345 Go to UniProtKB: P78345
PHAROS: P78345 GTEx: ENSG00000152464
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P78345
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Ribonuclease P protein subunit p29	D	220	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for O95707 (Homo sapiens) Explore O95707 Go to UniProtKB: O95707
PHAROS: O95707 GTEx: ENSG00000105171
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O95707
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
Ribonuclease P/MRP protein subunit POP5	E	163	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q969H6 (Homo sapiens) Explore Q969H6 Go to UniProtKB: Q969H6
PHAROS: Q969H6 GTEx: ENSG00000167272
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q969H6
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
Ribonuclease P protein subunit p25	F	199	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BUL9 (Homo sapiens) Explore Q9BUL9 Go to UniProtKB: Q9BUL9
PHAROS: Q9BUL9 GTEx: ENSG00000178718
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9BUL9
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Reference Sequence

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Entity ID: 7
Molecule	Chains	Sequence Length	Organism	Details	Image
Ribonuclease P protein subunit p20	G	140	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for O75817 (Homo sapiens) Explore O75817 Go to UniProtKB: O75817
PHAROS: O75817 GTEx: ENSG00000172336
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O75817
Sequence Annotations Expand
Reference Sequence

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Entity ID: 8
Molecule	Chains	Sequence Length	Organism	Details	Image
Ribonuclease P protein subunit p14	H	124	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for O95059 (Homo sapiens) Explore O95059 Go to UniProtKB: O95059
PHAROS: O95059 GTEx: ENSG00000163684
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O95059
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Reference Sequence

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| 3D Structure

Entity ID: 9
Molecule	Chains	Sequence Length	Organism	Details	Image
Ribonuclease P protein subunit p30	I, J	268	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for P78346 (Homo sapiens) Explore P78346 Go to UniProtKB: P78346
PHAROS: P78346 GTEx: ENSG00000148688
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P78346
Sequence Annotations Expand
Reference Sequence

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Entity ID: 10
Molecule	Chains	Sequence Length	Organism	Details	Image
UPF0711 protein C18orf21	K	220	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q32NC0 (Homo sapiens) Explore Q32NC0 Go to UniProtKB: Q32NC0
PHAROS: Q32NC0 GTEx: ENSG00000141428
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q32NC0
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Reference Sequence

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Entity ID: 11
Molecule	Chains	Sequence Length	Organism	Details	Image
Ribonuclease P protein subunit p40	L	363	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for O75818 (Homo sapiens) Explore O75818 Go to UniProtKB: O75818
PHAROS: O75818 GTEx: ENSG00000124787
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O75818
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 12
Molecule	Chains	Sequence Length	Organism	Details	Image
Nucleolus and neural progenitor protein	M	567	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q6NW34 (Homo sapiens) Explore Q6NW34 Go to UniProtKB: Q6NW34
PHAROS: Q6NW34 GTEx: ENSG00000163608
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q6NW34
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Reference Sequence

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(by identity cutoff)

Molecule	Chains	Length	Organism
Entity ID: 1
RNA (270-MER)	A	270	Homo sapiens
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ZN Query on ZN Download:Ideal Coordinates CCD File SDF format, chain N [auth K] MOL2 format, chain N [auth K] mmCIF format, chain N [auth K]	N [auth K]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain N [auth K] Interactions & Density Focus chain N [auth K]