Replicase polyprotein 1ab

Severe acute respiratory syndrome coronavirus 2 · seed P0DTD1 · 7096 aa · family defined as ≥30% identity to that seed · compiled 07 October 2026

Open in CODSWALLOP UniProt P0DTD1 RCSB by accession PDBe-KB AlphaFold DB InterPro CATH 2.40.10.10 CATH 1.10.1840.10 CATH 3.40.50.300 SCOP 8092569 SCOP 8092568 SCOP 8092567 SCOP 8092431 SCOP 8092559 SCOP 8092436 SCOP 8092437 RCSB 9M29 PDBe

CATH and SCOP identifiers come from the RCSB's own structure annotations, which the Domains panel already reads, so these are looked up rather than guessed at.

Every figure here is counted over the whole family rather than quoted from one entry.

The reference structure

9M29, the structure every other member of this family is superposed onto. Rendered by the RCSB and embedded here: the live app shows an interactive viewport, which a document that fetches nothing cannot.

Which residues anyone has ever seen

How many of this family's constructs contain each residue of the seed. A trough is a stretch nobody has put in a construct, which is a construct-design answer rather than a disorder one.

Constructs, most-used first

252 distinct constructs across 1,960 entries. 2,000 polymer entities differ from the UniProt canonical sequence in some way, 16 carry a recognised expression tag and 0 carry a fusion partner.

"Differs from canonical" is not the same as "engineered". The canonical sequence is the full gene product, so a secreted protein whose structures all start after its signal peptide counts every one of them as different: lysozyme's most-used construct, residues 19–147 on 1,239 entities, is simply the mature protein. Read the construct column below for what was actually done, rather than this count.

Showing the 25 most-used of 252.

What it assembles into

1,531 entries have the depositor's assembly corroborated by PISA, 414 carry the depositor's word alone and 13 were assigned by PISA where the depositor gave none. The middle figure is not a disagreement: PISA may have returned nothing or never run. 4 entries carry more than one assembly with different chain counts, so they have no single answer to quote: 6XG3, 8WZ0, 9J8T, 9J8U.

Domain architecture

Every source's own domains on the seed axis, one row each. They are not merged: Pfam, CATH, SCOP and InterPro disagree about boundaries, and a merged track would state a consensus none of them gave.

What binds it

4WI33 entries ADP13 entries K3611 entries V2M11 entries UED10 entries 1N710 entries 7ON9 entries AF39 entries X778 entries ALD8 entries SAH7 entries O6K7 entries

How it crystallises

Parsed from the free text 1,834 depositors typed into _exptl_crystal_grow.pdbx_details, out of 1,834 entries that recorded anything at all. Median pH 6.5 (range 3.5 to 9.0).

Precipitants

Buffers

Which entries to trust

1,953 entries carry a wwPDB validation report: 941 clean, 855 worth a check and 157 with something to explain. Median clashscore 3.59, median RSRZ outliers 4.93%, median R-free minus R-work 0.038. 1,953 have released structure factors.

Across species

Seed sequence

7096 residues, numbered every ten. Every identity figure in this document is measured against this sequence.

active or binding site modified residue or glycosylation disulphide cysteine transmembrane or signal the 15 most-substituted positions

Sites are UniProt's curated features where the seed is a UniProt accession; the substituted positions are measured from this family's own alignment rather than annotated, and only the fifteen most substituted are marked: every position carrying a minority substitution would be most of the protein, because the family holds orthologues. A residue can carry more than one and is drawn with the first that applies, in the order of the key above.

Primary citations

One record per paper, not per entry.