Structure of PDB 8xme Chain A Binding Site BS02

Receptor Information

>8xme Chain A (length=1176) Species: 3702 (Arabidopsis thaliana)

LQVPVGTLTSIGFSISNNNDRDKMSVLEVEAPNQVTDSRLGLPNPDSVCR
TCGSKDRKVCEGHFGVINFAYSIINPYFLKEVAALLNKICPGCKYICRYC
TLNTGYPLMKFRVTTKEVFRRSGIVVEVNEESLMKLKKRGVLTLPPDYWS
FLPQDSNIDESCLKPTRRIITHAQVYALLLGIDQRLIKKDIPMFNSLGLT
SFPVTPNGYRVTEIVHQFNGARLIFDERTRIYKKLVGFEGNTLELSSRVM
ECMQYSRLFSEKLCGLRFMKDVLLGKRSDHTFRTVVVGDPSLKLNEIGIP
ESIAKRLQVSEHLIFRSLMDGDTVLMNRPPSIHQHSLIAMTVRILPTTSV
VSLNPICCLPFRGDFDGDCLHGYVPQSIQAKVELDELVALDKQLINRQNG
RNLLSLGQDSLTAAYLVNVEKNCYLNRAQMQQLQMYCPFQLPPPAIIKAS
PSSTEPQWTGMQLFGMLFPPGFDYTYPLNNVVVSNGELLSFSEGSAWLRD
GEGNFIERLLKHDKGKVLDIIYSAQEMLSQWLLMRGLSVSLADLYLSSDL
QSRKNLTEEISYGLREAEQVCNKQQLMVESWRDFLAVNGEDKEEDSVSDL
ARFCYERQKSATLSELAVSAFKDAYRDVQALAYRYGDQSNSFLIMSKAGS
KGNIGKLVQHSMCIGLQNSAVSLSFGFPRELTCAAWNDPNSPLRGAKGKT
TTESYVPYGVIENSFLTGLNPLESFVHSVTSRDSSFSGNADLPGTLSRRL
MFFMRDIYAAYDGTVRNSFGNQLVQFTYETDGPVEDITGEALGSLSACAL
SEAAYSALDQPISLLETSPLLNLKNVLECGSKKGQREQTMSLYLSEYLSK
KKHGFEYGSLEIKNHLEKLSFSEIVSTSMIIFSPVPLSPWVCHFHISEKV
LKRKQLSAESVVSSLNEQYKSRNRELKLDIVDLDIQNTNHCSSDDQAMKD
DNVCITVTVVEASKHSVLELDAIRLVLIPFLLDSPVKGDQGIKKVNILWT
DRPKAPKRNGNHLAGELYLKVTMYGDRGKRNCWTALLETCLPIMDMIDWG
RSHPDNIRQCCSVYGIDAGRSIFVANLESAVSDTGKEILREHLLLVADSL
SVTGEFVALNAKGWSKQRQVESTPAPFTQACFSSPSQCFLKAAKEGVRDD
LQGSIDALAWGKVPGFGTGDQFEIII

Ligand information

>8xme Chain Q (length=30)

tctaccgataagcacaactacctctcctat

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8xme Transcription of the Plant RNA polymerase IV is prone to backtracking
• Resolution: 3.1 Å
• Binding residue (original residue number in PDB): R307 P412 A825 D826 S1223 Q1227
• Binding residue (residue number reindexed from 1): R267 P329 A740 D741 S1133 Q1137

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