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Coffea arabica

coffee

taxon 13443

Indigenous / local names

Genome browser

Sequence records

genome (fasta)

mirrored

Origin: hub

Source: NCBI GCA_036785775.1 · View at source ↗

publiccc0AFDSI-SEQ-6

GoaT: Chromosome assembly · 1.32 Gb · scaffold N50 47,362,295 · 22 chromosomes · View at source ↗

Publicly accessible — no request needed.

Proteins (50)

TPS1 — 606 aa

TPS2 — 572 aa

TPS3 — 596 aa

psbA — 353 aa

DXMT2 — 384 aa

MXMT1 — 378 aa

DXMT1 — 384 aa

XMT1 — 372 aa

rbcL — 481 aa

MXMT2 — 384 aa

genome (fasta)

mirrored

Origin: hub

Source: NCBI GCA_036785885.1 · View at source ↗

publiccc0AFDSI-SEQ-9

GoaT: Chromosome assembly · 1.32 Gb · scaffold N50 47,362,295 · 22 chromosomes · View at source ↗

Publicly accessible — no request needed.

transcriptome (fasta)

mirrored

Origin: hub

Source: ENA AJ420083 · View at source ↗

publiccc0AFDSI-SEQ-30

Publicly accessible — no request needed.

AlphaFold DB proteome: UP001652660 ↗

Proteomics (external sources)

PRIDE— project-level reference (metadata only; no per-protein identifications are available via PRIDE's public API)

Characterization of extracellular vesicles from cell suspension 2 cultures of Coffea arabica L. (PXD071909) ↗AFDSI-PROJREF-1

Proteomics coupled machine learning—innovative approach in geographical origin authentication of green Coffea arabica (PXD059982) ↗AFDSI-PROJREF-2

Differences in the abundance of auxin homeostasis proteins suggest a central role for in vitro tissue differentiation in Coffea arabica (PXD029928) ↗AFDSI-PROJREF-3

Proteomic analyses of coffea arabica subjected to various conditions_Part 2 (PXD019830) ↗AFDSI-PROJREF-4

Proteomic analyses of coffea arabica subjected to various conditions (PXD019474) ↗AFDSI-PROJREF-5

Primary metabolism is distinctly modulated by plant resistance inducers in Coffea arabica leaves infected by Hemileia vastatrix (PXD016012) ↗AFDSI-PROJREF-6

Seed comparative genomics in three coffee species evidence desiccation tolerance mechanisms among intermediate seeds (PXD015806) ↗AFDSI-PROJREF-7

Proteome profile of coffee embryogenic cell suspensions (PXD002963) ↗AFDSI-PROJREF-8

Chemical Profiles (external sources)

ChEMBL rows are compounds active against a protein target from this organism — not confirmed as compounds the species itself produces, unlike ANPDB's.

ChEMBL: CHEMBL176209 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Inhibition 50.0 %AFDSI-METABOLOMICS-1

ChEMBL: CHEMBL175901 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Inhibition 50.0 %AFDSI-METABOLOMICS-2

ChEMBL: CHEMBL369297 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Inhibition 50.0 %AFDSI-METABOLOMICS-3

ChEMBL: DEOXYMANNOJIRIMYCIN (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Inhibition 50.0 %AFDSI-METABOLOMICS-4

ChEMBL: CHEMBL179085 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Inhibition 50.0 %AFDSI-METABOLOMICS-5

ChEMBL: CHEMBL179347 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Inhibition 50.0 %AFDSI-METABOLOMICS-6

ChEMBL: CHEMBL179409 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Inhibition 50.0 %AFDSI-METABOLOMICS-7

ChEMBL: CHEMBL370592 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; ActivityAFDSI-METABOLOMICS-8

ChEMBL: CHEMBL269329 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; ActivityAFDSI-METABOLOMICS-9

ChEMBL: CHEMBL200592 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; ActivityAFDSI-METABOLOMICS-10

ChEMBL: CHEMBL80254 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Inhibition 50.0 %AFDSI-METABOLOMICS-20

ChEMBL: CHEMBL470467 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Inhibition 50.0 %AFDSI-METABOLOMICS-21

ChEMBL: CHEMBL458368 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Inhibition 50.0 %AFDSI-METABOLOMICS-22

ChEMBL: CHEMBL502230 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Inhibition 50.0 %AFDSI-METABOLOMICS-23

ChEMBL: IMINORIBITOL (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Inhibition 50.0 %AFDSI-METABOLOMICS-24

ChEMBL: CHEMBL470268 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Inhibition 50.0 %AFDSI-METABOLOMICS-25

ChEMBL: CHEMBL443158 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Inhibition 50.0 %AFDSI-METABOLOMICS-26

ChEMBL: CHEMBL247666 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; IC50 700000.0 nMAFDSI-METABOLOMICS-27

ChEMBL: CHEMBL449851 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Inhibition 50.0 %AFDSI-METABOLOMICS-28

ChEMBL: CHEMBL511823 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Inhibition 50.0 %AFDSI-METABOLOMICS-29

Metabolic Profiles (external sources)

KEGG: KEGG genome-based metabolic profile (carb) (View at source ↗) — Genome-based pathway inference (KEGG) — reflects which metabolic pathways this species' annotated genes place it in, not experimentally measured metabolite presenceAFDSI-METABPROF-11

MetaboLights: Comprehensive lipid analysis of green Arabica coffee beans by LC-HRMS/MS (View at source ↗)AFDSI-METABPROF-1

Protein Structures

TPS1 — v1

pLDDT confidence: 88.9

Auto-synced from AlphaFold DB AF-A0A6P6W6H5-F1 · View at source ↗

publiccc_byAFDSI-STRUCT-51-V1

TPS2 — v1

pLDDT confidence: 84.4

Auto-synced from AlphaFold DB AF-R4YXW8-F1 · View at source ↗

publiccc_byAFDSI-STRUCT-52-V1

TPS3 — v1

pLDDT confidence: 85.4

Auto-synced from AlphaFold DB AF-R4YZC3-F1 · View at source ↗

publiccc_byAFDSI-STRUCT-53-V1

psbA — v1

pLDDT confidence: 94.6

Auto-synced from AlphaFold DB AF-A0A315-F1 · View at source ↗

publiccc_byAFDSI-STRUCT-54-V1

DXMT2 — v1

pLDDT confidence: 90.8

Auto-synced from AlphaFold DB AF-Q8H0D3-F1 · View at source ↗

publiccc_byAFDSI-STRUCT-55-V1

Field & Specimen Imaging

camera_trap at Madagascar · Source: GBIF 6131409128 (View at source ↗)AFDSI-IMG-16

camera_trap at Ethiopia · Source: GBIF 6171048754 (View at source ↗)AFDSI-IMG-17

camera_trap at Benin · Source: GBIF 6320152442 (View at source ↗)AFDSI-IMG-18

camera_trap at Tanzania, United Republic of · Source: GBIF 6320190812 (View at source ↗)AFDSI-IMG-19

camera_trap at Uganda · Source: GBIF 6320397122 (View at source ↗)AFDSI-IMG-20

Geographic range (Africa)

2,629 real GBIF-recorded occurrences across Africa — see this species on GBIF ↗.