Structure of PDB 8agz Chain e

Receptor sequence
>8agze (length=1527) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence]
SFGGINTFQQYNTDLGLGHNGVRISLNYFDGLPDPSLLNSLYSNELKLIF
KSLLKRDETTKEKALMDLSNLISDFNQNEYFFNDIFLLCWSQIYAKLIIS
DYKVIRLQSHQITIMLVKSLRKKISKFLKDFIPLILLGTCELDYSVSKPS
LNELTECFNKDPAKINALWAVFQEQLLNLVKEIVVNENEDTISDERYSSK
EESEFRYHRVIASAVLLLIKLFVHNKDVSERNSSSLKVILSDESIWKLLN
LKNGQNTNAYETVLRLIDVLYTRGYMPSHKNIMKLAVKKLLKSLTHITSK
NILKVCPVLPSILNLLATLDDYEDGTIWSYDKSSKEKVLKFLSVSRTSPS
PGFFNAVFALYSSTKRHSFLDYYLEWLPFWQKSVQRLNEKGFSARNSAEV
LNEFWTNFLKFAEDSSEERVKKMVESEIFNSLSCGKSLSEYTKLNQTLSG
VFPPDKWEREIEDYFTSDEDIRKIKVSFEKNLFALLVTSPNNESAISRLF
DFFVQLIETDPSNVFNKYDGVYDALNYFLDSDMIFLNGKIGKFINEIPTL
VQESTYQNFAGIMAQYSNSKFFKMNTDAITSLEDFFIVALSFNLPKTIIL
ATMNELDNDIYQQLMKSDSLELELYIEDFMKNYKFDDSGEIFKGNNKFLN
QRTITTLYRSAVANGQVEQFCAVLSKLDETFFSTLLLNTDFLSCALYEVS
EDTNEKLFKLSLQLAKGNSEIANKLAQVILQHAQVYFSPGAKEKYVTHAV
ELINGCNDTSQIFFPANAIEVFARYMPAIDYRSSLVSSLSTNTHLLLTDD
KPINLKNMQKLIRYALFLDALLDALPERVNNHIVAFITVVSELVTDYNCL
SEEPNDLYYDFGHTFFKHGKVNLNFSDIVGNVIQPANGGDAMLTFDIAES
NSVYFFYYSRVLYKVLLNSIDTVSSTTLNGLLASVESFVTKTVRDQKSTD
KDYLLCAILLLMFNRSNSKDEITKLRTLLASQLIGIREVELVDQEFKSLA
LLNNLLDIPQADKQFVPIAPQRLNMIFRSILKWLDSDLAYEPSFSTVRLL
LLDFFTKLMRFEGVRDMGITAFELSERLLADSLSMCQIDDTLYLLELRSS
CLNLYETLSQEYGDEIQENLIELMFLNFNQERNNQVSTLFYQKLYKVISS
MELKKLESQYKRIFEVVLNDKDIGSNINQSRLLTTLLGSLVVKTQQDIII
EYELRINSKFKLPQKLLQKVTDEVPKEYLEYENKNSFIKYLWYWHLILMY
FKDTSYNMRQIFIEQLKEAGLINRMFDFITDQIDLRDTEFWKQVDTKEIS
EYNIVGNNFSPYKEDIFEECKKLLGHTLYQLFNNVGCLTSIWWLNIKDRT
LQNDIEKFVSEFISPILIKNEFDDINSKMDRLTALTIKLNNITNEVKASY
LIDDQKLEISFKLPKNYPLTNIQVNGVSRVGISEQKWKQWIMSTQHVITG
MNGSVLDSLELFTKNVHLQFSGFEECAICYSILHAVDRKLPSKTCPTCKN
KFHGACLYKWFRSSGNNTCPLCRSEIP
3D structure
PDB8agz Molecular basis of eIF5A-dependent CAT tailing in eukaryotic ribosome-associated quality control.
Chaine
Resolution2.6 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 2.3.2.27: RING-type E3 ubiquitin transferase.
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 e K56 D58 T60 T61 K64 K1375 D1376 R1377 K55 D57 T59 T60 K63 K1347 D1348 R1349
BS02 ZN e C1527 C1530 C1551 C1554 C1495 C1498 C1519 C1522
BS03 ZN e C1508 C1511 H1535 C1538 C1476 C1479 H1503 C1506
Gene Ontology
Molecular Function
GO:0004842 ubiquitin-protein transferase activity
GO:0008270 zinc ion binding
GO:0016740 transferase activity
GO:0043023 ribosomal large subunit binding
GO:0046872 metal ion binding
GO:0061630 ubiquitin protein ligase activity
Biological Process
GO:0006325 chromatin organization
GO:0006511 ubiquitin-dependent protein catabolic process
GO:0010498 proteasomal protein catabolic process
GO:0016567 protein ubiquitination
GO:0030163 protein catabolic process
GO:0031509 subtelomeric heterochromatin formation
GO:0072344 rescue of stalled ribosome
GO:1990116 ribosome-associated ubiquitin-dependent protein catabolic process
Cellular Component
GO:0000781 chromosome, telomeric region
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0022626 cytosolic ribosome
GO:1990112 RQC complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:8agz, PDBe:8agz, PDBj:8agz
PDBsum8agz
PubMed36804914
UniProtQ04781|LTN1_YEAST E3 ubiquitin-protein ligase listerin (Gene Name=RKR1)

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