Structure of PDB 8xmd Chain B Binding Site BS02

Receptor Information
>8xmd 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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PDB8xmd Transcription of the Plant RNA polymerase IV is prone to backtracking
Resolution3.4 Å
Binding residue
(original residue number in PDB)		Y499 K1049 R1067 I1073 K1074
Binding residue
(residue number reindexed from 1)		Y436 K952 R970 I976 K977
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:8xmd, PDBe:8xmd, PDBj:8xmd
PDBsum8xmd
PubMed
UniProtQ9LK40|NRPD2_ARATH DNA-directed RNA polymerases IV and V subunit 2 (Gene Name=NRPD2)

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