Structure of PDB 7oik Chain A Binding Site BS04

Receptor Information

>7oik Chain A (length=4426) Species: 10090 (Mus musculus)

KELLKGKKQAAVVMLDRIFSVLQPWSDINLQSFMTQFLQFYSVVQYEEKE
VWTNLWEHVKKQMAPFLEGKLTLGLSILFMVEAAEFTVPKKDLDSLCYLL
IPSAGSPEALHSDLSPVLRIRQRWRIYLTNLCLRCIDERCDRWLGILPLL
HTCMQKSPPKKNSKSQPEDTWAGLEGISFSEFRDKAPTRSQPLQFMQSKM
ALLRVDEYLFRSWLSVVPLESLSSYLENSIDYLSDVPVRVLDCLQGISYR
LPGLRKISNQNMKKDVENVFKMLMHLVDIYQHRIFGENLLQIYLTECLTL
HETVCNITANHQFFEIPALSAELICKLLELSPPGEKSYEDLVTSTLQEAL
ATTRNWLRSLFKSRMLSISSAYVRLTYSEEMAVWRRLVEIGFPEKHGWKG
SLLGDMEGRLKQEPPRLQISFFCSSQCRDGGLHDSVSRSFEKCVIEAVSS
ACQSQTSVLEGLSCQDLQKFGTLLSAVITKSWPVHNGEPVFDVDEIFKYL
LKWPDVRQLFELCGTNEKIIDNITEEGRQLMATAESVFQKVAGELENGTI
VVGQLELILEHQSQFLDIWNLNRRRDVRSLLKRRRDDLLFLKQEKRYVES
LLRQLGRVKHLVQVDFGNIEIIHSQDLSNKKLNEAVIKLSYKRETHYCLS
PDIREMASKLDSLKDSHIFQDFWQETAESLNELKVSLPEVLEYLYNPCYD
NFYTLYENLKSGKITFAEVDAIFKDFVDKYDELKNDLKFMCTMNPQDQKG
WISERVGQIKEYHTLHQAVSSAKVILQVRRALGVTGDFSVLNPLLNFADS
FEDFGNESPQFIKAKQLLQDISEPRQRCLEELARQTELVAWLHKALEDIN
ELKVFVDLASISAGENDIDVDRVACFHDAVQGYASLLYKMDERTNFSDFM
NHLQELWRALDNDQHLPDKLKDSARNLEWLKTVKESHGSVELSSLSLATA
INSRGVYVIEAPKDGQKISPDTVLRLLLPDPEALRTYSTEELKELLNKLM
LMSGKKDHNSNTEVEKFSEVFSNMQRLVHVFIKLHCAGNMLFRTWTAKVY
CCPDGGIFMNFGLELLSQLTEKGDVIQLLGALCRQMEDFLDNWKTVVAQK
RAEHFYLNFYTAEQLVYLSSELRKPRPSEAALMMLSFIKGKCTVQDLVQA
TSACESKADRYCLREVMKKLPQQLLSEPSLMGKLQVIMMQSLVYMSAFLP
HCLDLDALGRCLAHLATMGGTPVERPLPKGLQAGQPNLILCGHSEVLPAA
LAIYMQAPRQPLPTFDEVLLCTPATTIEEVELLLRRCLTSGSQGHKVYSL
LFADQLSYEVGCQAEEFFQSLCTRAHREDYQLVILCDAAREHCYIPSTFS
QYKVPLVPQAPLPNIQAYLQSHYQVPKRLLSAATVFRDGLCVGIVTSERA
GVGKSLYVNTLHTKLKAKLRDETVPLKIIRLTEPHLDENQVLSALLPFLK
EKYQKMPVIFHIDISTSVQTGIPIFLFKLLILQYLMDINGKIWRRSPGHL
YLVEIPQPLFKFLDLFPKVTCRPPKEVIDMEPAMDPVEFCSEAFQRPYQY
LKRFHQQQNLDTFQYEKGSVEGSPEECLQHFLIYCGLINPSWSELRNFAW
FLNCQLKDCEASIFCKSAFTGDTLRGFKNFVVTFMILMARDFATPTEEDL
APFSLRKRWESEPHPYVFFNGDHMTMTFIGFHLETNNNGYVDAINPSNGK
VIKKDVMTKELFDGLRLQRVPFNIDFDNLPRYEKLERLCLALGIEWPIDP
DETYELTTDNMLKILAIEMRFRCGIPVIIMGETGCGKTRLIKFLSDLKRG
SVEAETMKLVKVHGGTTPSMIYSKVKEAERTAFSNKAQHKLDTILFFDEA
NTTEAVSCIKEILCDRTVDGEHLHEDSGLHIIAACNPYRKHSQEMILRLE
SAGLGYRVSAEETADRLGSIPLRQLVYRVHALPPSLIPLVWDFGQLNDSA
EKLYIQQIVQRLVDSVSVNPSETCVIADVLSASQMFMRKRENECGFVSLR
DVERCVKVFRWFHDHSDMLLKELDKFLHESSDSTHTFERDPVLWSLVMAI
GVCYHASLEEKASYRTAIARCFPKPYNSSRAILDEVTHVQDLFLRGAPIR
TNIARNLALKENVFMMVICIELKIPLFLVGKPGSSKSLAKIIVADAMQGQ
AAFSELFRCLKQVHLVSFQCSPHSTPQGIISTFKQCARFQQGKDLGQYVS
VVVLDEVGLAEDSPKMPLKTLHPLLEDGCIEDDPAPYKKVGFVGISNWAL
DPAKMNRGIFVSRGSPNEKELIESAEGICSSDRLVQDKIRGYFAPFAKAY
ETVCQKQDKEFFGLRDYYSLIKMVFAKAKASKRGLSPQDITHAVLRNFSG
KDNIQALSIFTASLPEARYKEEVSTVELIKQNIYPGPQASSRGLDGAESR
YLLVLTRNYVALQILQQTFFEGQQPEIIFGSSFPQDQEYTQICRNINRVK
ICMETGKMVVLLNLQNLYESLYDALNQYYVYLGGQKYVDLGLGTHRVKCR
VHTAFRLIVIEEKDVVYKQFPVPLINRLEKHYLDMNTVLQPWQKSIVQEL
QQWAHEFADVKADQFIARHKYSPADVFIGYHSDACASVVLQAVERQGCRD
LTEELYRKVSEEARSILLDCATPDAVVRLSGSSLGSFTAKQLSQEYYYAQ
QHNSFVDFLQAHLRMTHHECRAVFTEITTFSRLLTGNDCDVLASELRGLA
SKPVVLSLQQYDTEYSFLKDVRSWLTNPGKRKVLVIQADFDDGTRSAQLV
ASAKYTAINEINKTQGTKDFVFVYFVTKLSRMGSGTSYVGFHGGLWRSVH
IDDLRRSTIMASDVTKLQNVTISQLFKPESQFLDTTRLVQSCVQGAVGML
RDQNESCARNMRRVTILLDLLNEDNTRNASFLRESKMRLHVLLNKQEENQ
VRSLKEWVTREAANQDALQEAGTFRHTLWKRVQDVVTPILASMIAHIDRD
GNLELLAQPDSPAWVQDLWMFIYSDIKFLNISLVSFILVQSHMNLLKDAY
NAVPFSWRIRDYLEELWVQAQYITDTEGLSKKFVEIFQKTPLGVFLAQFP
VAQQQKLLQSYLKDFLLLTMKVSSREELMFLQMALWSCLRELQEASGTPD
ETYKFPLSLPWVHLAFQHFRTRLQNFSRILTIHPQVLSSLSQAAEKHSLA
GCEMTLDAFAAMACAEMLKGDLLKPSPKAWLQLVKNLSTPLELVCSEGYL
CDSGSMTRSVIQEVRALWNRIFSIALFVEHVLLGTESHIPELSPLVTTYV
SLLDKCLEEDSNLKTCRPFVAVMTTLCDCKDKASKKFSRFGIQPCFICHG
DAQDPVCLPCDHVYCLRCIQTWLIPGQMMCPYCLTDLPDKFSPTVSQDHR
KAIEKHAQFRHMCNSFFVDLVSTMCFKDNTPPEKSVIDTLLSLLFVQKEL
LHREHTKSLSPFDDVVDQTPVIRSVLLKLLLKYSFHEVKDYIQNYLTQLE
KKAFLTEDKTELYLLFISCLEDSVHQKTSAGCRNLEQVLREEGHFLRTYS
PGLQGQEPVRIASVEYLQEVARVRLCLDLAADFLSELQEGSELAEDKRRF
LKHVEEFCTRVNNDWHRVYLVRKLSSQRGMEFVQSFSKQGHPCQWVFPRK
VIAQQKDHVSLMDRYLVHGNEYKAVRDATAKAVLECKTLDIGNALMACRS
PKPQQTAYLLLALYTEVAALYRSPNGSLHPEAKQLEAVNKFIKESKILSD
PNIRCFARSLVDNTLPLLKIRSANSILKGTVTEMAVHVATILLCGHNQIL
KPLRNLAFYPVNMANAFLPTMPEDTQTGHVLGSPQSSGVAEVSDRGQSPV
VFILTRLLTHLAMLVGATHNPQALTVIIKPWVQDPQGFLQQHIQRDLEQL
TKMLGRSADETIHVVHLILSSLLRVQSHGVLNFNAELSTKGCRNNWEKHF
ETLLLRELKHLDKNLPAINALISQDERISSNPVTKIIYGDPATFLPHLPQ
KSIIHCSKIWSCRRKITVEYLQHIVEQKNGKETVPVLWHFLQKEAELRLV
KFLPEILALQRDLVKQFQNVSRVEYSSIRGFIHSHSSDGLRKLLHDRITI
FLSTWNALRRSLETNGEIKLPKDYCCSDLDLDAEFEVILPRRQGLGLCGT
ALVSYLISLHNNMVYTVQKFSNEDNSYSVDISEVADLHVISYEVERDLNP
LILSNCQYQVQQGGETSQEFDLEKIQRQISSRFLQGKPRLTLKGIPTLVY
RRDWNYEHLFMDIKNKMAQSSLPNLAISTISGQLQSYSDACEALSIIEIT
LGFLSTAGGDPGMDLNVYIEEVLRMCDQTAQVLKAFSRCQLRHIIALWQF
LSAHKSEQRLRLNKELFREIDVQYKEELSTQHQRLLGTFLNEAGLDAFLL
ELHEMIVLKLKGPRAANSFNPNWSLKDTLVSYMETKDSDILSEVESQFPE
EILMSSCISVWKIAATRKWDRQSRGG

Ligand information

• Ligand ID: ZN
• InChI: InChI=1S/Zn/q+2
• InChIKey: PTFCDOFLOPIGGS-UHFFFAOYSA-N
• SMILES:
  CACTVS 3.341: [Zn++]
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Zn+2]
• Formula: Zn
• Name: ZINC ION
• ChEMBL: CHEMBL1236970
• DrugBank: DB14532
• PDB chain: 7oik Chain A Residue 5204

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7oik E3 ubiquitin ligase RNF213 employs a non-canonical zinc finger active site and is allosterically regulated by ATP
• Resolution: 3.5 Å
• Binding residue (original residue number in PDB): C3947 C3950 C3967 C3970
• Binding residue (residue number reindexed from 1): C3295 C3298 C3315 C3318
• Annotation score: 1

Enzymatic activity

• Enzyme Commision number: 2.3.2.-
  2.3.2.27: RING-type E3 ubiquitin transferase.
  3.6.4.-

Gene Ontology

Molecular Function

• GO:0004842 ubiquitin-protein transferase activity
• GO:0005524 ATP binding
• GO:0016740 transferase activity
• GO:0016787 hydrolase activity
• GO:0016887 ATP hydrolysis activity
• GO:0046872 metal ion binding
• GO:0061630 ubiquitin protein ligase activity

Biological Process

• GO:0001525 angiogenesis
• GO:0002040 sprouting angiogenesis
• GO:0002376 immune system process
• GO:0006511 ubiquitin-dependent protein catabolic process
• GO:0006629 lipid metabolic process
• GO:0016567 protein ubiquitination
• GO:0019216 regulation of lipid metabolic process
• GO:0042742 defense response to bacterium
• GO:0051865 protein autoubiquitination
• GO:0070534 protein K63-linked ubiquitination
• GO:0098792 xenophagy
• GO:0120323 lipid ubiquitination
• GO:0140042 lipid droplet formation
• GO:2000051 negative regulation of non-canonical Wnt signaling pathway

Cellular Component

• GO:0005737 cytoplasm
• GO:0005811 lipid droplet
• GO:0005829 cytosol

External links

• PDB: RCSB:7oik, PDBe:7oik, PDBj:7oik
• PDBsum: 7oik
• UniProt: E9Q555|RN213_MOUSE E3 ubiquitin-protein ligase RNF213 (Gene Name=Rnf213)