Structure of PDB 8xme Chain A

Receptor sequence
>8xmeA (length=1176) Species: 3702 (Arabidopsis thaliana) [Search protein sequence]
LQVPVGTLTSIGFSISNNNDRDKMSVLEVEAPNQVTDSRLGLPNPDSVCR
TCGSKDRKVCEGHFGVINFAYSIINPYFLKEVAALLNKICPGCKYICRYC
TLNTGYPLMKFRVTTKEVFRRSGIVVEVNEESLMKLKKRGVLTLPPDYWS
FLPQDSNIDESCLKPTRRIITHAQVYALLLGIDQRLIKKDIPMFNSLGLT
SFPVTPNGYRVTEIVHQFNGARLIFDERTRIYKKLVGFEGNTLELSSRVM
ECMQYSRLFSEKLCGLRFMKDVLLGKRSDHTFRTVVVGDPSLKLNEIGIP
ESIAKRLQVSEHLIFRSLMDGDTVLMNRPPSIHQHSLIAMTVRILPTTSV
VSLNPICCLPFRGDFDGDCLHGYVPQSIQAKVELDELVALDKQLINRQNG
RNLLSLGQDSLTAAYLVNVEKNCYLNRAQMQQLQMYCPFQLPPPAIIKAS
PSSTEPQWTGMQLFGMLFPPGFDYTYPLNNVVVSNGELLSFSEGSAWLRD
GEGNFIERLLKHDKGKVLDIIYSAQEMLSQWLLMRGLSVSLADLYLSSDL
QSRKNLTEEISYGLREAEQVCNKQQLMVESWRDFLAVNGEDKEEDSVSDL
ARFCYERQKSATLSELAVSAFKDAYRDVQALAYRYGDQSNSFLIMSKAGS
KGNIGKLVQHSMCIGLQNSAVSLSFGFPRELTCAAWNDPNSPLRGAKGKT
TTESYVPYGVIENSFLTGLNPLESFVHSVTSRDSSFSGNADLPGTLSRRL
MFFMRDIYAAYDGTVRNSFGNQLVQFTYETDGPVEDITGEALGSLSACAL
SEAAYSALDQPISLLETSPLLNLKNVLECGSKKGQREQTMSLYLSEYLSK
KKHGFEYGSLEIKNHLEKLSFSEIVSTSMIIFSPVPLSPWVCHFHISEKV
LKRKQLSAESVVSSLNEQYKSRNRELKLDIVDLDIQNTNHCSSDDQAMKD
DNVCITVTVVEASKHSVLELDAIRLVLIPFLLDSPVKGDQGIKKVNILWT
DRPKAPKRNGNHLAGELYLKVTMYGDRGKRNCWTALLETCLPIMDMIDWG
RSHPDNIRQCCSVYGIDAGRSIFVANLESAVSDTGKEILREHLLLVADSL
SVTGEFVALNAKGWSKQRQVESTPAPFTQACFSSPSQCFLKAAKEGVRDD
LQGSIDALAWGKVPGFGTGDQFEIII
3D structure
PDB8xme Transcription of the Plant RNA polymerase IV is prone to backtracking
ChainA
Resolution3.1 Å
3D
structure
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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 A H237 Q238 R411 D451 H216 Q217 R328 D368
BS02 dna A R307 P412 A825 D826 S1223 Q1227 R267 P329 A740 D741 S1133 Q1137
BS03 ZN A C59 H70 C52 H63
BS04 MG A D447 D449 D364 D366
BS05 ZN A H983 H985 C1031 C1044 H893 H895 C941 C954
BS06 ZN A C97 C100 C118 C90 C93 C97
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

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:8xme, PDBe:8xme, PDBj:8xme
PDBsum8xme
PubMed
UniProtQ9LQ02|NRPD1_ARATH DNA-directed RNA polymerase IV subunit 1 (Gene Name=NRPD1)

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