I'm getting an error from Annotation::select() from a single specific UniProt accession. Other accesions passed to the code do not cause error. Copying and pasting the accession key to uniprot.org search works fine. Accession is a valid key. Oddly, I've been running this code many time over the last weeks and have not seen this error until today. Simplified code and stack trace follow.

PIG<-org.Ss.eg.db
input_keys="A0A287BB68"
validated="UNIPROT"
output_fields="UNIPROT"
AnnotationDbi::select(PIG, keys=input_keys, keytype=validated, columns=output_fields)

Error in .testForValidKeys(x, keys, keytype, fks) : 
  None of the keys entered are valid keys for 'UNIPROT'. Please use the keys method to see a listing of valid arguments.
8.
stop(msg)
7.
.testForValidKeys(x, keys, keytype, fks)
6.
testSelectArgs(x, keys = keys, cols = cols, keytype = keytype,
fks = fks, skipValidKeysTest = skipValidKeysTest)
5.
.select(x, keys, columns, keytype, jointype = jointype, ...)
4.
AnnotationDbi::select(db, keys = input_keys, keytype = validated,
columns = output_fields)
3.
AnnotationDbi::select(db, keys = input_keys, keytype = validated,
columns = output_fields)
2.
withCallingHandlers(expr, message = function(c) if (inherits(c,
classes)) tryInvokeRestart("muffleMessage"))
1.
suppressMessages(out_tbl <- AnnotationDbi::select(db, keys = input_keys,
keytype = validated, columns = output_fields))


sessionInfo( )
R version 4.5.1 (2025-06-13 ucrt)
Platform: x86_64-w64-mingw32/x64
Running under: Windows 11 x64 (build 22631)

Matrix products: default
  LAPACK version 3.12.1

locale:
[1] LC_COLLATE=English_United States.utf8  LC_CTYPE=English_United States.utf8    LC_MONETARY=English_United States.utf8
[4] LC_NUMERIC=C                           LC_TIME=English_United States.utf8    

time zone: America/Los_Angeles
tzcode source: internal

attached base packages:
[1] stats4    stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
 [1] UniProt.ws_2.48.0    org.Hs.eg.db_3.21.0  org.Ss.eg.db_3.21.0  AnnotationDbi_1.70.0 IRanges_2.42.0      
 [6] S4Vectors_0.46.0     Biobase_2.68.0       BiocGenerics_0.54.0  generics_0.1.4       elasticnet_1.3      
[11] lars_1.3             edgeR_4.6.3          limma_3.64.3         BiocManager_1.30.26  caret_7.0-1         
[16] lattice_0.22-7       sparseLDA_0.1-9      ggrepel_0.9.6        MASS_7.3-65          scales_1.4.0        
[21] stringi_1.8.7        openxlsx_4.2.8       readxl_1.4.5         lubridate_1.9.4      forcats_1.0.0       
[26] stringr_1.5.1        dplyr_1.1.4          purrr_1.1.0          readr_2.1.5          tidyr_1.3.1         
[31] tibble_3.3.0         ggplot2_3.5.2        tidyverse_2.0.0     

loaded via a namespace (and not attached):
 [1] DBI_1.2.3               pROC_1.19.0.1           httr2_1.2.1             AnVILBase_1.2.0         rlang_1.1.6            
 [6] magrittr_2.0.3          compiler_4.5.1          RSQLite_2.4.3           png_0.1-8               vctrs_0.6.5            
[11] reshape2_1.4.4          pkgconfig_2.0.3         crayon_1.5.3            fastmap_1.2.0           dbplyr_2.5.0           
[16] XVector_0.48.0          utf8_1.2.6              prodlim_2025.04.28      tzdb_0.5.0              UCSC.utils_1.4.0       
[21] bit_4.6.0               cachem_1.1.0            GenomeInfoDb_1.44.2     jsonlite_2.0.0          progress_1.2.3         
[26] recipes_1.3.1           blob_1.2.4              prettyunits_1.2.0       parallel_4.5.1          R6_2.6.1               
[31] RColorBrewer_1.1-3      parallelly_1.45.1       rpart_4.1.24            cellranger_1.1.0        Rcpp_1.1.0             
[36] iterators_1.0.14        future.apply_1.20.0     BiocBaseUtils_1.10.0    Matrix_1.7-3            splines_4.5.1          
[41] nnet_7.3-20             timechange_0.3.0        tidyselect_1.2.1        rstudioapi_0.17.1       timeDate_4041.110      
[46] codetools_0.2-20        curl_7.0.0              rjsoncons_1.3.2         listenv_0.9.1           plyr_1.8.9             
[51] withr_3.0.2             KEGGREST_1.48.1         future_1.67.0           survival_3.8-3          BiocFileCache_2.16.1   
[56] zip_2.3.3               Biostrings_2.76.0       filelock_1.0.3          pillar_1.11.0           foreach_1.5.2          
[61] hms_1.1.3               globals_0.18.0          class_7.3-23            glue_1.8.0              mda_0.5-5              
[66] tools_4.5.1             data.table_1.17.8       ModelMetrics_1.2.2.2    gower_1.0.2             locfit_1.5-9.12        
[71] grid_4.5.1              ipred_0.9-15            nlme_3.1-168            GenomeInfoDbData_1.2.14 cli_3.6.5              
[76] rappdirs_0.3.3          lava_1.8.1              gtable_0.3.6            digest_0.6.37           farver_2.1.2           
[81] memoise_2.0.1           lifecycle_1.0.4         hardhat_1.4.2           httr_1.4.7              statmod_1.5.0          
[86] bit64_4.6.0-1

Apparently it's been over-ridden by a different UniProtKB ID

> select(org.Ss.eg.db, "MYH11", "UNIPROT", "SYMBOL")
 'select()' returned 1:1 mapping between keys and columns
   SYMBOL    UNIPROT
 1  MYH11 A0A480PTG0

And both of those UniProt IDs are Myosin-11

https://www.uniprot.org/uniprotkb/A0A287BB68/entry

https://www.uniprot.org/uniprotkb/A0A480PTG0/entry

I don't know where the mapping comes from though, as the OrgDb packages are NCBI Gene ID-centric, and apparently there is no Gene ID for either of these UniProt KB IDs

> library(UniProt.ws)
>  ws <- UniProt.ws("9823")
>  select(ws, c("A0A287BB68","A0A480PTG0") , "xref_geneid", "UniProtKB")
   (\) waiting for query completion.......... 00:01:49
         From      Entry GeneID
 1 A0A287BB68 A0A287BB68   <NA>
 2 A0A480PTG0 A0A480PTG0   <NA>

## try mapping to gene symbol
> select(ws, c("A0A287BB68","A0A480PTG0") , "gene_names", "UniProtKB")
         From      Entry Gene.Names
 1 A0A287BB68 A0A287BB68      MYH11
 2 A0A480PTG0 A0A480PTG0       <NA>

So maybe it's via the SYMBOL?

Anyway, if you want to map UniProt IDs, it's better to go directly to the source, using the UniProt.ws package rather than relying on fraught mappings from NCBI to UniProt.