Structure of PDB 5iyb Chain B

Receptor sequence
>5iybB (length=1165) Species: 9606 (Homo sapiens) [Search protein sequence]
YDEDDDEITPDLWQEACWIVISSYFDEKGLVRQQLDSFDEFIQMSVQRIV
EDAPPIDLQAEAQHASGEVEEPPRYLLKFEQIYLSKPTHWERDGAPSPMM
PNEARLRNLTYSAPLYVDITKTVIKEGEEQLQTQHQKTFIGKIPIMLRST
YCLLNGLTDRDLCELNECPLDPGGYFIINGSEKVLIAQEKMATNTVYVFA
KKDSKYAYTGECRSCLENSSRPTSTIWVSMLARGGQGAKKSAIGQRIVAT
LPYIKQEVPIIIVFRALGFVSDRDILEHIIYDFEDPEMMEMVKPSLDEAF
VIQEQNVALNFIGSRGAKPGVTKEKRIKYAKEVLQKEMLPHVGVSDFCET
KKAYFLGYMVHRLLLAALGRRELDDRDHYGNKRLDLAGPLLAFLFRGMFK
NLLKEVRIYAQKFIDRGKDFNLELAIKTRIISDGLKYSLATGNWGDQKKA
HQARAGVSQVLNRLTFASTLSHLRRLNSPIGRDGKLAKPRQLHNTLWGMV
CPAETPEGHAVGLVKNLALMAYISVGSQPSPILEFLEEWSMENLEEISPA
AIADATKIFVNGCWVGIHKDPEQLMNTLRKLRRQMDIIVSEVSMIRDIRE
REIRIYTDAGRICRPLLIVEKQKLLLKKRHIDQLKEREYNNYSWQDLVAS
GVVEYIDTLEEETVMLAMTPDDLQEKEVAYCSTYTHCEIHPSMILGVCAS
IIPFPDHNQSPRNTYQSAMGKQAMGVYITNFHVRMDTLAHVLYYPQKPLV
TTRSMEYLRFRELPAGINSIVAIASYTGYNQEDSVIMNRSAVDRGFFRSV
FYRSYKEQESKKGFDQEEVFEKPTRETCQGMRHAIYDKLDDDGLIAPGVR
VSGDDVIIGKTVTLPENEDELESTNRRYTKRDCSTFLRTSETGIVDQVMV
TLNQEGYKFCKIRVRSVRIPQIGDKFASRHGQKGTCGIQYRQEDMPFTCE
GITPDIIINPHAIPSRMTIGHLIECLQGKVSANKGEIGDATPFNDAVNVQ
KISNLLSDYGYHLRGNEVLYNGFTGRKITSQIFIGPTYYQRLKHMVDDKI
HSRARGPIQILNRQPMEGRSRDGGLRFGEMERDCQIAHGAAQFLRERLFE
ASDPYQVHVCNLCGIMAIANTRTHTYECRGCRNKTQISLVRMPYACKLLF
QELMSMSIAPRMMSV
3D structure
PDB5iyb Near-atomic resolution visualization of human transcription promoter opening.
ChainB
Resolution3.9 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 2.7.7.48: RNA-directed RNA polymerase.
2.7.7.6: DNA-directed RNA polymerase.
3.1.13.-
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 B T232 Y262 A462 K494 T223 Y253 A453 K485
BS02 dna B R438 D442 K445 Y446 K1052 R1085 R429 D433 K436 Y437 K1043 R1076
BS03 ZN B C1119 C1140 C1110 C1131
Gene Ontology
Molecular Function
GO:0001055 RNA polymerase II activity
GO:0003677 DNA binding
GO:0003682 chromatin binding
GO:0003723 RNA binding
GO:0003899 DNA-directed 5'-3' RNA polymerase activity
GO:0003968 RNA-dependent RNA polymerase activity
GO:0005515 protein binding
GO:0016787 hydrolase activity
GO:0032549 ribonucleoside binding
GO:0034062 5'-3' RNA polymerase activity
GO:0046872 metal ion binding
Biological Process
GO:0001172 RNA-templated transcription
GO:0006351 DNA-templated transcription
GO:0006366 transcription by RNA polymerase II
Cellular Component
GO:0000428 DNA-directed RNA polymerase complex
GO:0000781 chromosome, telomeric region
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005665 RNA polymerase II, core complex
GO:0016020 membrane

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:5iyb, PDBe:5iyb, PDBj:5iyb
PDBsum5iyb
PubMed27193682
UniProtP30876|RPB2_HUMAN DNA-directed RNA polymerase II subunit RPB2 (Gene Name=POLR2B)

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