Structure of PDB 6jwi Chain E

Receptor sequence

>6jwiE (length=459) Species: 559292 (Saccharomyces cerevisiae S288C)

SIKELAVDEELEKEDGLIPRQKSKLCKHGDRGMCEYCSPLPPWDKEYHEK
NKIKHISFHSYLKKLNENANYISPLSEPDFRINKRCHNGHEPWPRGICSK
CQPSAITLQQQEFRMVDHVEFQKSEIINEFIQAWRYTGMQRFGYMYGSYS
KYDNTPLGIKAVVEAIYEPPQHDEQDGLTMDVEQVKNEMLQIDRQAQEMG
LSRIGLIFTDLSDAGAGDGSVFCKRHKDSFFLSSLEVIMAARHQTRHPNV
SKYSEQGFFSSKFVTCVISGNLEGEIDISSYQVSTEAEALVTADMISGST
FPSMAYINDTTDERYVPEIFYMKSNITVKENAKPAFPVDYLLVTLTHGFP
NTDTETNSKFVSSTGFPWSNRQAMGQSQDYQELKKYLFNVASSGDFNLLH
EKISNFHLLLYINSLQILSPDEWKLLIESAVKNEWEESLLKLVSSAGWQT
LVMILQESG

3D structure

• PDB: 6jwi Structural insights into ubiquitin recognition and Ufd1 interaction of Npl4.
• Chain: E
• Resolution: 2.55 Å

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	GLC	E	D294 G295 L296 F326 L353 E354	D176 G177 L178 F208 L235 E236
BS02	GLC	E	L296 T297 M298 D299 L353 M357	L178 T179 M180 D181 L235 M239
BS03	GLC	E	V118 E121 S268	V7 E10 S150
BS04	GLC	E	N272 N472	N154 N351
BS05	GLC	E	S242 E243 T473	S124 E125 T352
BS06	GLC	E	N246 H468 F470	N128 H347 F349
BS07	ZN	E	C204 H208 C216 C219	C86 H90 C98 C101
BS08	ZN	E	C137 H139 C145 C148	C26 H28 C34 C37

Gene Ontology

Biological Process

• GO:0006511 ubiquitin-dependent protein catabolic process

External links

• PDB: RCSB:6jwi, PDBe:6jwi, PDBj:6jwi
• PDBsum: 6jwi
• PubMed: 31836717
• UniProt: P33755|NPL4_YEAST Nuclear protein localization protein 4 (Gene Name=NPL4)