P53742 | SWISS-MODEL Repository

P53742 (NOG2_YEAST) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

Nucleolar GTP-binding protein 2 UniProtKB InterPro STRING Interactive Modelling

It is possible new templates exist for this target since these models were created.

However, an attempt to improve models for this target was made on 2025-06-10. The outcome - failed for technical reasons.

Available Structures

20 Experimental Structures

Description	PDB ID	Oligo-state	Range	Seq id (%)	Ligands
Structure of the Nop53 pre-60S particle bound to the exosome nuclear cofactors	6ft6 PDBe PDBe-KB PDBj PDBsum RCSB SMTL	Heteromer P02406; P04456; P04650; P05737; P05738; P05740; P05743; P05744; P05745; P05748; P05749; P0C0W9; P0C2H6; P0C2H8; P0CX23; P0CX25; P0CX41; P0CX45; P0CX49; P0CX82; P0CX84; P10664; P14120; P14126; P17076; P25382; P26321; P26784; P33201; P36105; P36160; P38061; P38202; P38801; P40010; P40078; P47047; P49166; P49167; P53188; P53261; P87262; Q02326; Q02753; Q02892; Q03862; Q07915; Q08004; Q08746; Q12149; Q12522; Q12690;	2-472	100.0	4×ZN; 2×GTP; 2×MG;
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Cryo-EM structure of pre-60S ribosomal subunit, unmethylated G2922	7ug6 PDBe PDBe-KB PDBj PDBsum RCSB SMTL	Heteromer P02406; P04456; P04650; P05737; P05738; P05740; P05743; P05744; P05745; P05748; P05749; P0C0W9; P0C2H6; P0C2H8; P0CX23; P0CX25; P0CX41; P0CX45; P0CX49; P0CX53; P0CX82; P0CX84; P10664; P14120; P14126; P17076; P25382; P26321; P26784; P33201; P36105; P36160; P38061; P38202; P40010; P40078; P47019; P49166; P49167; P87262; Q02326; Q02753; Q02892; Q07915; Q08004; Q08746; Q12522; Q12690;	2-472	100.0	1×GDP; 1×MG;
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Nucleoplasmic pre-60S intermediate of the Nog2 containing pre-rotation state	7uoo PDBe PDBe-KB PDBj PDBsum RCSB SMTL	Heteromer P02406; P04456; P04650; P05737; P05738; P05740; P05743; P05744; P05745; P05748; P05749; P0C0W9; P0C2H6; P0C2H8; P0CX23; P0CX25; P0CX41; P0CX45; P0CX49; P0CX53; P0CX82; P0CX84; P10664; P14120; P14126; P17076; P25382; P26321; P26784; P33201; P36105; P36160; P38061; P38202; P38779; P40010; P40078; P40693; P47019; P49166; P49167; P53188; P53261; P53927; P87262; Q02326; Q02753; Q02892; Q03862; Q07915; Q08004; Q08746; Q12080; Q12522; Q12690;	2-472	100.0	81×MG; 3×B3P; 5×ZN; 1×GDP; 1×GTP; 1×K;
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Nog1-TAP associated immature ribosomal particle population C from S. cerevisiae	7ohq PDBe PDBe-KB PDBj PDBsum RCSB SMTL	Heteromer P02406; P04456; P04650; P05737; P05738; P05740; P05743; P05744; P05745; P05748; P05749; P0C0W9; P0C2H6; P0C2H8; P0CX23; P0CX25; P0CX41; P0CX45; P0CX49; P0CX82; P0CX84; P10664; P14120; P14126; P17076; P25382; P26321; P26784; P33201; P36105; P36160; P38061; P38202; P38779; P40010; P40078; P40693; P49166; P49167; P53188; P53261; P53927; P87262; Q02326; Q02753; Q02892; Q07915; Q08746; Q12080; Q12522; Q12690;	2-472	100.0	2×MG; 3×ZN;
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Cryo-em structure of eukaryotic pre-60S ribosomal subunits	3jct PDBe PDBe-KB PDBj PDBsum RCSB SMTL	Heteromer P02406; P04456; P04650; P05737; P05738; P05740; P05743; P05744; P05745; P05748; P05749; P0C0W9; P0C2H6; P0C2H8; P0CX23; P0CX25; P0CX41; P0CX45; P0CX49; P0CX82; P0CX84; P10664; P14120; P14126; P17076; P25382; P26321; P26784; P33201; P36105; P36160; P38061; P38202; P38779; P40010; P40078; P40693; P49166; P49167; P53188; P53261; P53927; P87262; Q02326; Q02753; Q02892; Q03862; Q07915; Q08004; Q08746; Q12080; Q12522; Q12690;	2-472	100.0	4×ZN; 2×GTP; 2×MG;
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Nucleoplasmic pre-60S intermediate of the Nog2 containing pre-rotation state from a SPB1 D52A strain	7uqz PDBe PDBe-KB PDBj PDBsum RCSB SMTL	Heteromer P02406; P04456; P04650; P05737; P05738; P05740; P05743; P05744; P05745; P05748; P05749; P0C0W9; P0C2H6; P0C2H8; P0CX23; P0CX25; P0CX41; P0CX45; P0CX49; P0CX53; P0CX82; P0CX84; P10664; P14120; P14126; P17076; P25382; P26321; P26784; P33201; P36105; P36160; P38061; P38202; P38779; P40010; P40078; P40693; P47019; P49166; P49167; P53188; P53261; P53927; P87262; Q02326; Q02753; Q02892; Q03862; Q07915; Q08004; Q08746; Q12080; Q12522; Q12690;	2-472	100.0	81×MG; 3×B3P; 5×ZN; 2×GDP; 1×K;
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Nucleoplasmic pre-60S intermediate of the Nog2 containing pre-rotation state from a Spb1 D52A suppr…	7v08 PDBe PDBe-KB PDBj PDBsum RCSB SMTL	Heteromer P02406; P04456; P04650; P05737; P05738; P05740; P05743; P05744; P05745; P05748; P05749; P0C0W9; P0C2H6; P0C2H8; P0CX23; P0CX25; P0CX41; P0CX45; P0CX49; P0CX53; P0CX82; P0CX84; P10664; P14120; P14126; P17076; P25382; P26321; P26784; P33201; P36105; P36160; P38061; P38202; P38779; P40010; P40078; P40693; P47019; P49166; P49167; P53188; P53261; P53927; P87262; Q02326; Q02753; Q02892; Q03862; Q07915; Q08004; Q08746; Q12080; Q12522; Q12690;	2-472	100.0	81×MG; 3×B3P; 5×ZN; 2×GDP; 1×K;
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Nog1-TAP associated immature ribosomal particle population B from S. cerevisiae	7oh3 PDBe PDBe-KB PDBj PDBsum RCSB SMTL	Heteromer P02406; P04456; P04650; P05737; P05738; P05740; P05743; P05744; P05745; P05748; P05749; P0C0W9; P0C2H6; P0C2H8; P0CX23; P0CX25; P0CX41; P0CX45; P0CX49; P0CX82; P0CX84; P10664; P14120; P14126; P17076; P25382; P26321; P26784; P33201; P36105; P36160; P38061; P38202; P40010; P40078; P49166; P49167; P53188; P87262; Q02326; Q02753; Q02892; Q07915; Q08746; Q12522; Q12690;	2-472	100.0	2×MG; 3×ZN;
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Nucleoplasmic pre-60S intermediate of the Nog2 containing pre-rotation state from a SPB1-D52A strai…	7uqb PDBe PDBe-KB PDBj PDBsum RCSB SMTL	Heteromer P02406; P04456; P04650; P05737; P05738; P05740; P05743; P05744; P05745; P05748; P05749; P0C0W9; P0C2H6; P0C2H8; P0CX23; P0CX25; P0CX41; P0CX45; P0CX49; P0CX53; P0CX82; P0CX84; P10664; P14120; P14126; P17076; P25382; P26321; P26784; P33201; P36105; P36160; P38061; P38202; P38779; P40010; P40078; P40693; P47019; P49166; P49167; P53188; P53261; P53927; P87262; Q02326; Q02753; Q02892; Q03862; Q07915; Q08004; Q08746; Q12080; Q12522; Q12690;	2-472	100.0	3×B3P; 81×MG; 5×ZN; 2×GDP; 1×ALF; 1×K;
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Cryo-EM structure of pre-60S ribosome from Saccharomyces cerevisiae rpl4delta63-87 strain at 3.22 A…	7btb PDBe PDBe-KB PDBj PDBsum RCSB SMTL	Heteromer P02406; P04456; P05737; P05738; P05740; P05743; P05744; P05745; P05748; P05749; P0C0W9; P0C2H6; P0C2H8; P0CX23; P0CX25; P0CX41; P0CX45; P0CX49; P0CX82; P0CX84; P10664; P14120; P14126; P17076; P25382; P26321; P26784; P33201; P36105; P36160; P38061; P38202; P38779; P40078; P40693; P49166; P49167; P53261; P53927; P87262; Q02326; Q02753; Q02892; Q07915; Q08746; Q12080; Q12522; Q12690;	2-472	100.0	2×GTP; 2×MG; 3×ZN;
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Nog1-TAP associated immature ribosomal particles from S. cerevisiae after rpL2 expression shut down…	7oht PDBe PDBe-KB PDBj PDBsum RCSB SMTL	Heteromer P05737; P05738; P05744; P0C0W9; P0CX23; P0CX41; P0CX49; P10664; P14126; P25382; P26321; P26784; P33201; P36105; P36160; P38061; P40078; Q02326; Q02753; Q02892; Q07915; Q08746; Q12522;	2-469	100.0	2×MG; 1×ZN;
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Rix1-Rea1 pre-60S particle - 60S core, body 1 (rigid body refinement)	6ylg PDBe PDBe-KB PDBj PDBsum RCSB SMTL	Heteromer P02406; P04456; P04650; P05737; P05738; P05740; P05743; P05744; P05745; P05748; P05749; P0C0W9; P0C2H6; P0C2H8; P0CX23; P0CX25; P0CX41; P0CX43; P0CX45; P0CX49; P0CX53; P0CX82; P0CX84; P10664; P14120; P14126; P17076; P25382; P26321; P26784; P33201; P36105; P38061; P38202; P38803; P40010; P40078; P47019; P49166; P49167; P53188; P53313; P87262; Q02326; Q02753; Q02892; Q03862; Q07915; Q08004; Q12522; Q12690;	3-469	100.0	4×ZN; 2×GTP; 2×MG;
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Rix1-Rea1 pre-60S particle - full composite structure	6ylh PDBe PDBe-KB PDBj PDBsum RCSB SMTL	Heteromer P02406; P04456; P04650; P05737; P05738; P05740; P05743; P05744; P05745; P05748; P05749; P0C0W9; P0C2H6; P0C2H8; P0CX23; P0CX25; P0CX41; P0CX43; P0CX45; P0CX49; P0CX53; P0CX82; P0CX84; P10664; P14120; P14126; P17076; P25382; P26321; P26784; P33201; P36105; P38061; P38202; P38803; P38883; P40010; P40078; P47019; P49166; P49167; P53188; P53313; P53877; P87262; Q02326; Q02753; Q02892; Q03862; Q07915; Q08004; Q12019; Q12522; Q12690;	3-469	100.0	4×ZN; 2×GTP; 2×MG;
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Cryo-EM structure of late nuclear (LN) pre-60S ribosomal subunit	6n8j PDBe PDBe-KB PDBj PDBsum RCSB SMTL	Heteromer P02406; P04456; P04650; P05737; P05738; P05740; P05743; P05744; P05745; P05747; P05748; P05749; P0C0W9; P0C2H6; P0C2H8; P0CX23; P0CX25; P0CX27; P0CX41; P0CX45; P0CX49; P0CX53; P0CX82; P0CX84; P10664; P14120; P14126; P17076; P26321; P26784; P33201; P36105; P38061; P38202; P40078; P49166; P49167; P87262; Q02326; Q02753; Q02892; Q07915; Q08004; Q12522; Q12690;	2-468	100.0	2×GTP; 2×MG;
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Nog1-TAP associated immature ribosomal particle population A from S. cerevisiae	7of1 PDBe PDBe-KB PDBj PDBsum RCSB SMTL	Heteromer P02406; P04456; P04650; P05737; P05738; P05740; P05743; P05744; P05745; P05748; P05749; P0C2H6; P0C2H8; P0CX23; P0CX25; P0CX41; P0CX45; P0CX49; P0CX82; P0CX84; P10664; P14120; P14126; P17076; P26784; P33201; P36105; P38061; P40078; P49166; P49167; P87262; Q02326; Q02753; Q02892; Q07915; Q12522; Q12690;	2-468	100.0	2×MG;
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Cryo-Em structure of eukaryotic pre-60S ribosome subunit from Saccharomyces cerevisiae rpf2 delta 2…	6m62 PDBe PDBe-KB PDBj PDBsum RCSB SMTL	Heteromer P02406; P04456; P04650; P05737; P05738; P05740; P05743; P05744; P05745; P05748; P05749; P0C0W9; P0C2H6; P0C2H8; P0CX23; P0CX25; P0CX41; P0CX45; P0CX49; P0CX82; P0CX84; P10664; P14120; P14126; P17076; P25382; P26321; P26784; P33201; P36105; P36160; P38061; P38202; P38779; P40010; P40078; P40693; P49166; P49167; P53188; P53261; P53927; P87262; Q02326; Q02753; Q02892; Q03862; Q07915; Q08004; Q08746; Q12080; Q12522; Q12690;	18-472	100.0	4×ZN; 2×GTP; 2×MG;
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Cryo-EM structure of pre-60S ribosome from Saccharomyces cerevisiae rpl4delta63-87 strain at 3.12 A…	7bt6 PDBe PDBe-KB PDBj PDBsum RCSB SMTL	Heteromer P02406; P04456; P05737; P05738; P05740; P05743; P05744; P05745; P05748; P05749; P0C0W9; P0C2H6; P0C2H8; P0CX23; P0CX25; P0CX41; P0CX45; P0CX49; P0CX82; P0CX84; P10664; P14120; P14126; P17076; P25382; P26321; P26784; P33201; P36105; P36160; P38061; P38202; P40078; P49166; P49167; P87262; Q02326; Q02753; Q02892; Q07915; Q08746; Q12522; Q12690;	19-472	100.0	2×GTP; 2×MG; 3×ZN;
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NPC-trapped pre-60S particle	8hfr PDBe PDBe-KB PDBj PDBsum RCSB SMTL	Heteromer P02406; P04456; P04650; P05737; P05738; P05740; P05743; P05744; P05745; P05747; P05748; P05749; P0C0W9; P0C2H6; P0C2H8; P0CX23; P0CX25; P0CX27; P0CX41; P0CX43; P0CX45; P0CX49; P0CX53; P0CX82; P0CX84; P10664; P14120; P14126; P17076; P26321; P26784; P33201; P34232; P36105; P38061; P38202; P38861; P39715; P40078; P47019; P49166; P49167; P87262; Q02326; Q02753; Q02892; Q03862; Q07915; Q08004; Q08687; Q12522; Q12690; Q99257;	157-465	100.0	237×MG;
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State NE1 nucleolar 60S ribosome biogenesis intermediate - Overall model	7u0h PDBe PDBe-KB PDBj PDBsum RCSB SMTL	Heteromer P02406; P04456; P05737; P05738; P05740; P05743; P05744; P05745; P05748; P05749; P0C2H6; P0C2H8; P0CX23; P0CX25; P0CX41; P0CX45; P0CX49; P0CX82; P0CX84; P10664; P14120; P14126; P17076; P25582; P26784; P33201; P36105; P38061; P38202; P38779; P40010; P40078; P40693; P49166; P49167; P53261; P53927; P87262; Q02326; Q02753; Q02892; Q07915; Q12080; Q12522; Q12690;	156-164	100	1×MG; 4×ZN;
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Nucleoplasmic pre-60S intermediate of the Nog2 containing post-rotation state from a SPB1 D52A stra…	7uui PDBe PDBe-KB PDBj PDBsum RCSB SMTL	monomer	2-470	100.0	1×MG; 1×K; 1×GDP;
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1 SWISS-MODEL model

	Template	Oligo-state	QMEANDisCo	Range	Ligands	Trg-Tpl Seq id (%)
	7v08.1.j	monomer	0.84	2-472	1×MG; 1×K;	100.00
	Download ModelCIF format PDB format Model report Compare Structure Assessment

	Model ID	Oligo-state	Avg pLDDT	Range	Trg-Mdl Seq Id (%)

	Model ID	Oligo-state	Avg Confidence	Range	Trg-Mdl Seq id (%)

P53742 (NOG2_YEAST) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

Nucleolar GTP-binding protein 2 UniProtKBInterProSTRINGInteractive Modelling

Available Structures

20 Experimental Structures

1 SWISS-MODEL model

Alignments

Background

Resolution

Nucleolar GTP-binding protein 2 UniProtKB InterPro STRING Interactive Modelling