Structure of PDB 8xmc Chain A Binding Site BS02

Receptor Information

>8xmc Chain A (length=1167) Species: 3702 (Arabidopsis thaliana)

LQVPVGTLTSIGFSISNNNDRDKMSVLEVEAPNQVTDSRLGLPNPDSVCR
TCGSKDRKVCEGHFGVINFAYSIINPYFLKEVAALLNKICPGCKYICRYC
TLNTGYPLMKFRVTTKEVFRRSGIVVEVNEESLMKLKKRGVLTLPPDYWS
FLPQDSNIDESCLKPTRRIITHAQVYALLLGIDQRLIKKDIPMFNSLGLT
SFPVTPNGYRERTRIYKKLVGFEGNTLELSSRVMECMQYSRLFSETPKLC
GLRFMKDVLLGKRSDHTFRTVVVGDPSLKLNEIGIPESIAKRLQVSEHLI
FRSLMDGDTVLMNRPPSIHQHSLIAMTVRILPTTSVVSLNPICCLPFRGD
FDGDCLHGYVPQSIQAKVELDELVALDKQLINRQNGRNLLSLGQDSLTAA
YLVNVEKNCYLNRAQMQQLQMYCPFQLPPPAIIKASPSSTEPQWTGMQLF
GMLFPPGFDYTYPLNNVVVSNGELLSFSEGSAWLRDGEGNFIERLLKHDK
GKVLDIIYSAQEMLSQWLLMRGLSVSLADLYLSSDLQSRKNLTEEISYGL
REAEQVCNKQQLMVESWRDFLAVNGEDKEEDSVSDLARFCYERQKSATLS
ELAVSAFKDAYRDVQALAYRYGDQSNSFLIMSKAGSKGNIGKLVQHSMCI
GLQNSAVSLSFGFPRELTCAAWNDPNSPLRGAKGKTTTESYVPYGVIENS
FLTGLNPLESFVHSVTSRDSSFSGNADLPGTLSRRLMFFMRDIYAAYDGT
VRNSFGNQLVQFTYETDGPVEDITGEALGSLSACALSEAAYSALDQPISL
LETSPLLNLKNVLECGSKKGQREQTMSLYLSEYLSKKKHGFEYGSLEIKN
HLEKLSFSEIVSTSMIIFSPSSNTKVPLSPWVCHFHISEKVLKRKQLSAE
SVVSSLNEQYKSRNRELKLDIVDLDIQNTNHCSSDDQAMKDDNVCITVTV
VEASKHSVLELDAIRLVLIPFLLDSPVKGDQGIKKVNILWTDRPKAPKRN
GNHLAGELYLKVTMYGDRGKRNCWTALLETCLPIMDMIDWGRSHPDNIRQ
CCSVYGIDAGRSIFVANLESAVSDTGKEILREHLLLVADSLSVTGEFVAL
NAKGWSKQRQVESTPAPFTQACFSSPSQCFLKAAKEGVRDDLQGSIDALA
WGKVPGFGTGDQFEIII

Ligand information

>8xmc Chain O (length=10)

ucgagaggua

..........

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8xmc Transcription of the Plant RNA polymerase IV is prone to backtracking
• Resolution: 3.1 Å
• Binding residue (original residue number in PDB): T300 P301 K302 R411 D451
• Binding residue (residue number reindexed from 1): T246 P247 K248 R314 D354

Gene Ontology

Molecular Function

• GO:0003899 DNA-directed 5'-3' RNA polymerase activity
• GO:0005515 protein binding
• GO:0016779 nucleotidyltransferase activity
• GO:0034062 5'-3' RNA polymerase activity
• GO:0046872 metal ion binding

Biological Process

• GO:0010495 siRNA-mediated long-distance post-transcriptional gene silencing
• GO:0030422 siRNA processing
• GO:0031047 regulatory ncRNA-mediated gene silencing

Cellular Component

• GO:0000418 RNA polymerase IV complex
• GO:0000428 DNA-directed RNA polymerase complex
• GO:0005634 nucleus
• GO:0005654 nucleoplasm

External links

• PDB: RCSB:8xmc, PDBe:8xmc, PDBj:8xmc
• PDBsum: 8xmc
• UniProt: Q9LQ02|NRPD1_ARATH DNA-directed RNA polymerase IV subunit 1 (Gene Name=NRPD1)