Structure of PDB 7ob9 Chain A

Receptor sequence

>7ob9A (length=1535) Species: 9606 (Homo sapiens)

SKNMPWRRLQGISFGMYSAEELKKLSVKSITNPRYLDSLGNPSANGLYDL
ALGPADSKEVCSTCVQDFSNCSGHLGHIELPLTVYNPLLFDKLYLLLRGS
CLNCHMLTCPRAVIHLLLCQLRVLEVGALQAVYELERILNRFLEENPDPS
ASEIREELEQYTTEIVQNNLLGSQGAHVKNVCESKSKLIALFWKAHMNAK
RCPHCKTGRSVVRKEHNSKLTITFPAGYLTPTSAREHLSALWKNEGFFLN
YLFSGMDDDGMESRFNPSVFFLDFLVVPPSRYRPVSRLGDQMFTNGQTVN
LQAVMKDVVLIRKLLALMAQEQKIDRSFLSTLPGQSLIDKLYNIWIRLQS
HVNIVFDSEMDKLMMDKYPGIRQILEKKEGLFRKHMMGKRVDYAARSVIC
PDMYINTNEIGIPMVFATKLTYPQPVTPWNVQELRQAVINGPNVHPGASM
VINEDGSRTALSAVDMTQREAVAKQLLTPATGAPKPQGTKIVCRHVKNGD
ILLLNRQPTLHRPSIQAHRARILPEEKVLRLHYANCKAYNADFDGDEMNA
HFPQSELGRAEAYVLACTDQQYLVPKDGQPLAGLIQDHMVSGASMTTRGC
FFTREHYMELVYRGLTDKVGRVKLLSPSILKPFPLWTGKQVVSTLLINII
PEDHIPLNLSGKAKITGKAWVKETPRSVPGFNPDSMCESQVIIREGELLC
GVLDKAHYGSSAYGLVHCCYEIYGGETSGKVLTCLARLFTAYLQLYRGFT
LGVEDILVKPKADVKRQRIIEESTHCGPQAVRAALNLPEAASYDEVRGKW
QDAHLGKDQRDFNMIDLKFKEEVNHYSNEINKACMPFGLHRQFPENSLQM
MVQSGAKGSTVNTMQISCLLGQIELEGRRPPLMASGKSLPCFEPYEFTPR
AGGFVTGRFLTGIKPPEFFFHCMAGREGLVDTAVKTSRSGYLQRCIIKHL
EGLVVQYDLTVRDSDGSVVQFLYGEDGLDIPKTQFLQPKQFPFLASNYEV
IMKSQHLHEVLSRADPKKALHHFRAIKKWQSKHPNTLLRRGAFLSYSQKI
QEAVKALKLESENRNGRSPGTQEMLRMWYELDEESRRKYQKKAAACPDPS
LSVWRPDIYFASVSETFETKVDDYSQEWAAQTEKSYEKSELSLDRLRTLL
QLKWQRSLCEPGEAVGLLAAQSIGEPSTQMTLNTFHFAGRGEMNVTLGIP
RLREILMVASANIKTPMMSVPVLNTKKALKRVKSLKKQLTRVCLGEVLQK
IDVQESFCMEEKQNKFQVYQLRFQFLPHAYYQQEKCLRPEDILRFMETRF
FKLLMESIKKKNNKERRVQAVREIHPFIDDYQYDTEESLWCQVTVKLPLM
KINFDMSSLVVSLAHGAVIYATKGITRCLLNETTNNKNEKELVLNTEGIN
LPELFKYAEVLDLRRLYSNDIHAIANTYGIEAALRVIEKEIKDVFAVYGI
AVDPRHLSLVADYMCFEGVYKPLNRFGIRSNSSPLQQMTFETSFQFLKQA
TMLGSHDELRSPSACLVVGKVVRGGTGLFELKQPL

3D structure

• PDB: 7ob9 Cryo-EM structures of human RNA polymerase I.
• Chain: A
• Resolution: 2.7 Å

Enzymatic activity

• Enzyme Commision number: 2.7.7.6: DNA-directed RNA polymerase.

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	S313 L315 D590 D592	S286 L288 D544 D546
BS02	dna	A	R1249 F1660	R1203 F1476
BS03	dna	A	R204 F320 R418 K424 R429 R436 R442 Q553 T982 S983 Y987 E1675 T1676	R201 F293 R372 K378 R383 R390 R396 Q507 T936 S937 Y941 E1491 T1492
BS04	ZN	A	C64 H77	C61 H74
BS05	ZN	A	C104 C107 C205 C208	C101 C104 C202 C205
BS06	MG	A	D588 D590 D592	D542 D544 D546

Gene Ontology

Molecular Function

• GO:0000287 magnesium ion binding
• GO:0001054 RNA polymerase I activity
• GO:0003677 DNA binding
• GO:0003682 chromatin binding
• GO:0003899 DNA-directed 5'-3' RNA polymerase activity
• GO:0005515 protein binding
• GO:0008270 zinc ion binding
• GO:0016779 nucleotidyltransferase activity
• GO:0034062 5'-3' RNA polymerase activity
• GO:0046872 metal ion binding
• GO:0071667 DNA/RNA hybrid binding

Biological Process

• GO:0006351 DNA-templated transcription
• GO:0006360 transcription by RNA polymerase I
• GO:1904750 negative regulation of protein localization to nucleolus

Cellular Component

• GO:0000428 DNA-directed RNA polymerase complex
• GO:0005634 nucleus
• GO:0005654 nucleoplasm
• GO:0005694 chromosome
• GO:0005730 nucleolus
• GO:0005736 RNA polymerase I complex

External links

• PDB: RCSB:7ob9, PDBe:7ob9, PDBj:7ob9
• PDBsum: 7ob9
• PubMed: 34887565
• UniProt: O95602|RPA1_HUMAN DNA-directed RNA polymerase I subunit RPA1 (Gene Name=POLR1A)