Structure of PDB 4lgt Chain D

Receptor sequence

>4lgtD (length=247) Species: 83333 (Escherichia coli K-12)

MSEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKI
RIDGHLISVRESICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARW
IAVGRLDVNTCGLLLFTTDGELANRLMHPSREVEREYAVRVFGQVDDAKL
RDLSRGVQLEDGPAAFKTIKFSGGEGINQWYNVTLTEGRNREVRRLWEAV
GVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLRELVELPPET

3D structure

• PDB: 4lgt The mechanism of pseudouridine synthases from a covalent complex with RNA, and alternate specificity for U2605 versus U2604 between close homologs.
• Chain: D
• Resolution: 1.3 Å

Enzymatic activity

• Enzyme Commision number: 5.4.99.22: 23S rRNA pseudouridine(2605) synthase.

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	D	D150 R154	D147 R151
BS02	rna	D	K4 Q6 K7 S16 R17 R18 E21 L38 G39 D40 R41 T81 R82 R88 R102 I104 G107 R108 L109 D110 V111 T113 G123 N127 M130 H131 P132 S133 R138 Y140 G191 N193 R194 V196 L210 R212 Y215	K4 Q6 K7 S16 R17 R18 E21 L38 G39 D40 R41 T78 R79 R85 R99 I101 G104 R105 L106 D107 V108 T110 G120 N124 M127 H128 P129 S130 R135 Y137 G188 N190 R191 V193 L207 R209 Y212

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0009982 pseudouridine synthase activity
• GO:0016866 intramolecular transferase activity

Biological Process

• GO:0001522 pseudouridine synthesis
• GO:0009451 RNA modification

External links

• PDB: RCSB:4lgt, PDBe:4lgt, PDBj:4lgt
• PDBsum: 4lgt
• PubMed: 24214967
• UniProt: P37765|RLUB_ECOLI Ribosomal large subunit pseudouridine synthase B (Gene Name=rluB)