Structure of PDB 8pvl Chain CH

Receptor sequence

>8pvlCH (length=627) Species: 759272 (Thermochaetoides thermophila DSM 1495) [Search protein sequence]

TGWKDIPPVPTAQEFIDIVLSRTQRRLPTQIRPGFKISRIRAFYTRKVKF
TQETCSEKFGAIISSFPVLSDQHPFHRDLMNILYDADHFKVALGQISTAK
NLIETISRDYVRLLKYAQSLYQCKQLKRAALGRMATLIKRLKDPLIYLDQ
VRQHLARLPDINPTTRTLLVAGFPNVGKSSFVRSVTRADTPVEPYAFTTK
SLFVGHLDYKYLRYQVIDTPGILDHPLEEMNTIEMQSVTALAHLRAAVLY
FMDISEQCGFSLKAQINLFKSIKPLFANKMVFIVLNKMDIKKFEELDPEM
QQEINDLTKSGEVEILRASCATQEGVQEVKNHVCERLLVERVSQKLKAGT
HSNGNIGTRLQEVMARIHVATPMDGTTRETFIPEAVKNLKKYDKNDPNRR
VLARDIEEANGGAGVFNVDLRKDWILENPEWKYDKIPEIFDGKNVYDYID
PDIDAKLQALEEEEERLEKEGFYDEDDEEEEEILQKAEYIREQHALIRNE
AKMRKSLKNRAIIPRKAVKKPLSQLEDHLDQLGVDTEAIGLRARAQTSAK
ERLARSRSRARSVAATNRLQDGVQGTTLRSKAERQAKLAQRKMNRMARQG
EADRHIHASMPKHLFSGKRTIGKTDRR

3D structure

PDB

8pvl Structural insights into coordinating 5S RNP rotation with ITS2 pre-RNA processing during ribosome formation.

Chain

Resolution

2.19 Å

3D
structure

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Enzymatic activity

Enzyme Commision number

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)
BS01	rna	CH	K5 D18 I19 L21 R23 Q25 R26 R27 L28 P29 T30 Q31 I32 R33 P34 G35 F36 K37 S39 R40 R42 Y45 R47 K48 P68 V69 D88 K91 V92 L94 G95 S98 T99 N102 R113 K116 Y117 Y122 K125 K128 R129 A130 G133 R134 Q154 R158 D161 R188 Y196 F198 V205 H207 R214 N232 I234 G415 V416 H499 R503 R509 K510 S511 K513 N514 R515 I517 P519 R520 K521 R595 A598 T600 N601 R602 R618 Q619 K621 Q624 R625 N628 R629 A631 R632 Q633 R638 H639 A642 H647 K652 R653 I655 G656 K657 T658 D659 R660 R661	K4 D17 I18 L20 R22 Q24 R25 R26 L27 P28 T29 Q30 I31 R32 P33 G34 F35 K36 S38 R39 R41 Y44 R46 K47 P67 V68 D87 K90 V91 L93 G94 S97 T98 N101 R112 K115 Y116 Y121 K124 K127 R128 A129 G132 R133 Q153 R157 D160 R187 Y195 F197 V204 H206 R213 N231 I233 G414 V415 H494 R498 R504 K505 S506 K508 N509 R510 I512 P514 R515 K516 R561 A564 T566 N567 R568 R584 Q585 K587 Q590 R591 N594 R595 A597 R598 Q599 R604 H605 A608 H613 K618 R619 I621 G622 K623 T624 D625 R626 R627
BS02	rna	CH	D605 G606 Q608	D571 G572 Q574
BS03	GTP	CH	N176 G178 K179 S180 S181 V193 E194 P195 T200 D219 K288 D290 I291 S320 C321 A322	N175 G177 K178 S179 S180 V192 E193 P194 T199 D218 K287 D289 I290 S319 C320 A321
BS04	MG	CH	N176 E194 Y196 T199	N175 E193 Y195 T198

Gene Ontology

	Molecular Function
GO:0003723	RNA binding
GO:0003924	GTPase activity
GO:0005525	GTP binding
GO:0046872	metal ion binding

	Biological Process
GO:0042254	ribosome biogenesis
GO:0042273	ribosomal large subunit biogenesis

	Cellular Component
GO:0005634	nucleus
GO:0005730	nucleolus

View graph for
Molecular Function

View graph for
Biological Process

View graph for
Cellular Component

External links

PDB	RCSB:8pvl, PDBe:8pvl, PDBj:8pvl
PDBsum	8pvl
PubMed	37921038
UniProt	G0S8F1\|NOG1_CHATD Nucleolar GTP-binding protein 1 (Gene Name=NOG1)

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