Structure of PDB 7vbb Chain A

Receptor sequence

>7vbbA (length=1473) Species: 9606 (Homo sapiens)

NMPWRRLQGISFGMYSAEELKKLSVKSITNPRYLDSLGNPSANGLYDLAL
GPADSKEVCSTCVQDFSNCSGHLGHIELPLTVYNPLLFDKLYLLLRGSCL
NCHMLTCPRAVIHLLLCQLRVLEVGALQAVYELERILNRFIREELEQYTT
EIVQNNLLGSQGAHVKNVCESKSKLIALFWKAHMNAKRCPHCKTGRSVVR
KEHNSKLTITFRGYLTPTSAREHLSALWKNEGFFLNYLFSRFNPSVFFLD
FLVVPPSRYRPVSRLGDQMFTNGQTVNLQAVMKDVVLIRKLLALMAQEQS
LIDKLYNIWIRLQSHVNIVFDSEMDKLMMDKYPGIRQILEKKEGLFRKHM
MGKRVDYAARSVICPDMYINTNEIGIPMVFATKLTYPQPVTPWNVQELRQ
AVINGPNVHPGASMVINEDGSRTALSAVDMTQREAVAKQLLTQGTKIVCR
HVKNGDILLLNRQPTLHRPSIQAHRARILPEEKVLRLHYANCKAYNADFD
GDEMNAHFPQSELGRAEAYVLACTDQQYLVPKDGQPLAGLIQDHMVSGAS
MTTRGCFFTREHYMELVYRGLTDKVGRVKLLSPSILKPFPLWTGKQVVST
LLINIIPEDHIPLNLSGKAKITGKAWVKETPRSVPGFNPDSMCESQVIIR
EGELLCGVLDKAHYGSSAYGLVHCCYEIYGGETSGKVLTCLARLFTAYLQ
LYRGFTLGVEDILVKPKADVKRQRIIEESTHCGPQAVRAALNLPEAASYD
EVRGKWQDAHLGKDQRDFNMIDLKFKEEVNHYSNEINKACMPFGLHRQFP
ENSLQMMVQSGAKGSTVNTMQISCLLGQIELEGRRPPLMASGKSLPCFEP
YEFTPRAGGFVTGRFLTGIKPPEFFFHCMAGREGLVDTAVKTSRSGYLQR
CIIKHLEGLVVQYDLTVRDSDGSVVQFLYGEDGLDIPKTQFLQPKQFPFL
ASNYEVIMKSQHLHEVLSRADPKKALHHFRAIKKWQSKHPNTLLRRGAFL
SYSQKIQEAVKALKLESENRNGRSPGTQEMLRMWYELDEESRRKYQKKAA
ACPDPSLSVWRPDIYFASVSETFETKVDDYSQEWAAQTEKSYEKSELSLD
RLRTLLQLKWQRSLCEPGEAVGLLAAQSIGEPSTQMMNVTLGIPRLREIL
MVASANIKTPMMSVPVLNTKKALKRVKSLKKQLTRVCLGEVLQKIDVQEQ
VYQLRFQFLPHAYYQQEKCLRPEDILRFMETRFFKLLMESIKKKNNKASE
AMERRVQAVREIHPFIDDYQYDTEESLWCQVTVKLPLMKINFDMSSLVVS
LAHGAVIYATKGITRCLLNETTNNKNEKELVLNTEGINLPELFKYAEVLD
LRRLYSNDIHAIANTYGIEAALRVIEKEIKDVFAVYGIAVDPRHLSLVAD
YMCFEGVYKPLNRFGIRSNSSPLQQMTFETSFQFLKQATMLGSHDELRSP
SACLVVGKVVRGGTGLFELKQPL

3D structure

• PDB: 7vbb Structure of the human RNA polymerase I elongation complex.
• Chain: A
• Resolution: 2.81 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	dna	A	R314 R418 E422 K423 K424 R429 R436 Q553 T982 S983 G986 E1675 T1676	R264 R336 E340 K341 K342 R347 R354 Q463 T892 S893 G896 E1429 T1430
BS02	dna	A	V1254 F1660	V1152 F1414
BS03	ZN	A	C64 C67 H77	C59 C62 H72
BS04	ZN	A	C104 C107 C205	C99 C102 C189

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:7vbb, PDBe:7vbb, PDBj:7vbb
• PDBsum: 7vbb
• PubMed: 34671025
• UniProt: O95602|RPA1_HUMAN DNA-directed RNA polymerase I subunit RPA1 (Gene Name=POLR1A)