Structure of PDB 8bdr Chain B

Receptor sequence

>8bdrB (length=726) Species: 1601067 (Influenza B virus (B/Memphis/13/2003))

GMNINPYFLFIDVPIQAAISTTFPYTGVPPYSHGTGTGYTIDTVIRTHEY
SNKGKQYISDVTGCTMVDPTNGPLPEDNEPSAYAQLDCVLEALDRMDEEH
PGLFQAASQNAMETLMVTTVDKLTQGRQTFDWTVCRNQPAATALNTTITS
FRLNDLNGADKGGLIPFCQDIIDSLDRPEMTFFSVKNIKKKLPAFLIKRI
PMKVKDKITKVEYIKRALSLNTMTKDAERGKLKRRAIATAGIQIRGFVLV
VENLAKNICENLEQSGLPVGGNEKKAKLSNAVAKMLSNCPPGGISMTVTG
DNTKWNECLNPRIFLAMTERITRDSPIWFRDFCSIAPVLFSNKIARLGKG
FMITSKTKRLKAQIPCPDLFSIPLERYNEETRAKLKKLKPFFNEEGTASL
SPGMMMGMFNMLSTVLGVAALGIKNIGNKEYLWDGLQSSDDFALFVNAKD
EETCMEGINDFYRTCKLLGINMSKKKSYCNETGMFEFTSMFYRDGFVSNF
AMELPSFGVAGVNESADMAIGMTIIKNNMINNGMGPATAQTAIQLFIADY
RYTYKCHRGDSKVEGKRMKIIKELWENTKGRDGLLVADGGPNIYNLRNLH
IPEIVLKYNLMDPEYKGRLLHPQNPFVGHLSDYDAVSGTHSWRTKRNRSI
LNTDQRNMILEEQCYAKCCNLFEACFNSASYRKPVGQHSMLEAMAHRLRM
DARLDYESGRMSKDDFEKAMAHLGEI

3D structure

• PDB: 8bdr Direct observation of backtracking by influenza A and B polymerases upon consecutive incorporation of the nucleoside analog T1106.
• Chain: B
• Resolution: 2.7 Å

Enzymatic activity

• Enzyme Commision number: 2.7.7.48: RNA-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	B	H32 G33 T34 L200 K237 K365 L674 N675	H33 G34 T35 L196 K233 K361 L651 N652
BS02	rna	B	G125 R126 Q127 N136 K229 D230 I241 A242 T243 R249 P272 G274 G411 N414 M415 T527 N531	G126 R127 Q128 N137 K225 D226 I237 A238 T239 R245 P268 G270 G407 N410 M411 T523 N527
BS03	rna	B	Y24 Y38 T42 R45 Q124 R126 K237 R238 R239 A240 K308 N310 D444 T492 M506 P509	Y25 Y39 T43 R46 Q125 R127 K233 R234 R235 A236 K304 N306 D440 T488 M502 P505
BS04	MG	B	G304 D445	G300 D441

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0003723 RNA binding
• GO:0003968 RNA-dependent RNA polymerase activity
• 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:0019083 viral transcription
• GO:0039523 symbiont-mediated suppression of host mRNA transcription via inhibition of RNA polymerase II activity
• GO:0039694 viral RNA genome replication

Cellular Component

• GO:0030430 host cell cytoplasm
• GO:0042025 host cell nucleus

External links

• PDB: RCSB:8bdr, PDBe:8bdr, PDBj:8bdr
• PDBsum: 8bdr
• PubMed: 36596301
• UniProt: Q5V8Y6