Structure of PDB 8xme Chain B Binding Site BS01

Receptor Information
>8xme Chain B (length=1061) Species: 3702 (Arabidopsis thaliana) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
NLSELGEGFLQSFCKKAATSFFDKYGLISHQLNSYNYFIEHGLQNVFQSF
GEMLVEPSWRYATVKFGEVTVEKPTFFSDDKELEFLPWHARLQNMTYSAR
IKVNVQVEVFDILIGSIPVMVKSILCKTSEKGKENCKKGDCAFDQGGYFV
IKGAEKVFIAQEQMCTKRLWISNSPWTVSFRSENKRNRFIVRLSENEKAE
DYKRREKVLTVYFLSTEIPVWLLFFALGVSSDKEAMDLIAFDGDDASITN
SLIASIHVADAVCEAFRCGNNALTYVEQQIKSTKFPPAESVDECLHLYLF
PGLQSLKKKARFLGYMVKCLLNSYAGKRKCENRDSFRNKRIELAGELLER
EIRVHLAHARRKMTRAMQKHLSGKPIEHYLDASVITNGLSRAFSTGAWSH
PFRKMERVSGVVANLGRANPLQTLIDLRRTRQQVLYTGKVGDARYPHPSH
WGRVCFLSTPDGENCGLVKNMSLLGLVSTQSLESVVEKLFACGMEELMDD
TCTPLFGKHKVLLNGDWVGLCADSESFVAELKSRRRQSELPREMEIKRDK
DDNEVRIFTDAGRLLRPLLVVENLQKLKQEQYPFDHLLDHGILELIGIEE
EEDCNTAWGIKQLLKEPKIYTHCELDLSFLLGVSCAVVPFANHDHGRRVL
YQSQKHCQQAIGFSSTNPNIRCDTLSQQLFYPQKPLFKTLASECLKKEVL
FNGQNAIVAVNVHLGYNQEDSIVMNKASLERGMFRSEQIRSYKAEVDVQF
GKTHDSLEDDGFPFIGANMSTGDIVIGRCHSIKLKHTERGIVQKVVLSSN
DEGKNFAAVSLRQVRSPCLGDKFSSMHGQKGVLGYLEEQQNFPFTIQGIV
PDIVINPHAFPSRQTPGQLLEAALSKGIACPIQAYTKLTRHATPFSTPGV
TEITEQLHRAGFSRWGNERVYNGRSGEMMRSMIFMGPTFYQRLVHMSEDK
VKFRNTGPVHPLTRQPVADRKRFGGIKFGEMERDCLIAHGASANLHERLF
TLSDSSQMHICRKCKTYANGPYCRVCVSSDHVVRVYVPYGAKLLCQELFS
MGITLNFDTKL
Ligand information
Receptor-Ligand Complex Structure
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PDB8xme Transcription of the Plant RNA polymerase IV is prone to backtracking
Resolution3.1 Å
Binding residue
(original residue number in PDB)		R245 R247 I249 F344 R420 F465 R466 K467 L498 Y499
Binding residue
(residue number reindexed from 1)		R186 R188 I190 F285 R361 F402 R403 K404 L435 Y436
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:0030422 siRNA processing
GO:0031047 regulatory ncRNA-mediated gene silencing
GO:0035194 regulatory ncRNA-mediated post-transcriptional gene silencing
GO:0050776 regulation of immune response
GO:0050832 defense response to fungus
GO:0080188 gene silencing by siRNA-directed DNA methylation
GO:0141007 siRNA-mediated retrotransposon silencing by heterochromatin formation
Cellular Component
GO:0000418 RNA polymerase IV complex
GO:0000419 RNA polymerase V complex
GO:0000428 DNA-directed RNA polymerase complex
GO:0000792 heterochromatin
GO:0005634 nucleus
GO:0030880 RNA polymerase complex

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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
UniProtQ9LK40|NRPD2_ARATH DNA-directed RNA polymerases IV and V subunit 2 (Gene Name=NRPD2)

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