Structure of PDB 7p3b Chain A

Receptor sequence
>7p3bA (length=490) Species: 9606 (Homo sapiens) [Search protein sequence]
RSYNDELQFLEKINKNCWRIKKGFVPNMQVEGVFYVNDALEKLMFEELRN
ACRGGFLPAMKQIGNVAALPGIVHRSIGLPDVHSGYGFAIGNMAAFDMND
PEAVVSPGGVGFDINCGVRLLRTNLDESDVQPVKEQLAQAMFDHIPVGVG
SKGVIPMNAKDLEEALEMGVDWSLREGYAWAEDKEHCEEYGRMLQADPNK
VSARAKKRGLPQLGTLGAGNHYAEIQVVDEIFNEYAAKKMGIDHKGQVCV
MIHSGSRGLGHQVATDALVAMEKAMKRDKIIVNDRQLACARIASPEGQDY
LKGMAAAGNYAWVNRSSMTFLTRQAFAKVFNTTPDDLDLHVIYDVSHNIA
KVEQHVVDGKERTLLVHRKGSTRAFPPHHPLIAVDYQLTGQPVLIGGTMG
TCSYVLTGTEQGMTETFGTTCHGAGRALDFQDVLDKLADMGIAIRVASPK
LVMEEAPESYKNVTDVVNTCHDAGISKKAIKLRPIAVIKG
3D structure
PDB7p3b Molecular architecture of the human tRNA ligase complex.
ChainA
Resolution2.3 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 6.5.1.8: 3'-phosphate/5'-hydroxy nucleic acid ligase.
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 5GP A N226 Y228 E230 H259 G402 G403 T404 M405 H428 A430 Y475 K504 N220 Y222 E224 H253 G396 G397 T398 M399 H422 A424 Y460 K489
BS02 CO A C122 H259 H353 C116 H253 H347
BS03 CO A D119 C122 H227 D113 C116 H221
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0003972 RNA ligase (ATP) activity
GO:0005515 protein binding
GO:0005525 GTP binding
GO:0008452 RNA ligase activity
GO:0016874 ligase activity
GO:0016886 ligase activity, forming phosphoric ester bonds
GO:0017166 vinculin binding
GO:0046872 metal ion binding
GO:0170057 RNA ligase (GTP) activity
Biological Process
GO:0001701 in utero embryonic development
GO:0001890 placenta development
GO:0006388 tRNA splicing, via endonucleolytic cleavage and ligation
GO:0006396 RNA processing
GO:0008033 tRNA processing
Cellular Component
GO:0005634 nucleus
GO:0005635 nuclear envelope
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005789 endoplasmic reticulum membrane
GO:0005829 cytosol
GO:0043231 intracellular membrane-bounded organelle
GO:0072669 tRNA-splicing ligase complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:7p3b, PDBe:7p3b, PDBj:7p3b
PDBsum7p3b
PubMed34854379
UniProtQ9Y3I0|RTCB_HUMAN RNA-splicing ligase RtcB homolog (Gene Name=RTCB)

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