Clusters of Characterized Proteins

GapMind for Amino acid biosynthesis

Clusters of Characterized Proteins

Clustering the characterized proteins for pre-dehydr (prephenate dehydrogenase) in L-tyrosine biosynthesis

Or see other characterized proteins similar to pre-dehydr

Or see all steps for L-tyrosine biosynthesis

Or cluster curated proteins matching a keyword

Definition of pre-dehydr

Curated proteins or TIGRFams with EC 1.3.1.12
Curated proteins or TIGRFams with EC 1.3.1.13
UniProt sequence Q8A0T8_BACTN: SubName: Full=Chorismate mutase/prephenate dehydratase (TyrA) {ECO:0000313|EMBL:AAO79038.1};
Curated sequence 209400: prephenate and/or arogenate dehydrogenase
UniProt sequence D8IR44_HERSS: SubName: Full=Prephenate dehydrogenase protein {ECO:0000313|EMBL:ADJ65170.1}; EC=1.3.1.12 {ECO:0000313|EMBL:ADJ65170.1};
UniProt sequence A0A1L6J750: SubName: Full=Prephenate dehydrogenase {ECO:0000313|EMBL:PJI88995.1};
Ignore hits to items matching EC 1.3.1.78 when looking for 'other' hits
Ignore hits to items matching EC 1.3.1.43 when looking for 'other' hits
Ignore hits to items matching EC 1.3.1.78 when looking for 'other' hits
UniProt sequence D4GXG3: SubName: Full=Prephenate dehydrogenase {ECO:0000313|EMBL:ADE03239.1}; EC=1.3.1.12 {ECO:0000313|EMBL:ADE03239.1};
Ignore hits to P06959 when looking for 'other' hits (pyruvate dehydrogenase system (EC 1.2.1.104); prephenate dehydrogenase (EC 1.3.1.12); dihydrolipoyllysine-residue acetyltransferase (EC 2.3.1.12). pyruvate dehydrogenase, dihydrolipoyltransacetylase component E2. dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex; EC 2.3.1.12. pyruvate dehydrogenase, E2 subunit (EC 2.3.1.12). pyruvate dehydrogenase E2 subunit (EC 2.3.1.12))
UniProt sequence Q92MG1: SubName: Full=Cyclohexadienyl dehydrogenase and ADH prephenate dehydrogenase {ECO:0000313|EMBL:CAC47240.1};
Predicted: UniProt sequence E1QE65: SubName: Full=Prephenate dehydrogenase {ECO:0000313|EMBL:ADK83851.1};
Comment: prephenate dehydrogenase and arogenate dehydrogenase are difficult to distinguish. 1.3.1.12 and 1.3.1.13 vary by NAD(P)H cofactor. BT3933 (Q8A0T8_BACTN), DVU0464 (Q72EV4_DESVH), HSERO_RS18425 (D8IR44_HERSS), and Ga0059261_2298 (A0A1L6J750) are auxotrophic and have prephenate dehydrogenase domains (PF02153), but their specificity is unclear. HVO_1312 (D4GXG3) is auxotrophic for tyrosine and is probably a prephenate dehydrogenase (PMC4300041). P06959 is misannotated in BRENDA and is ignored. Ac3H11_2575 (A0A162F6L0) has auxotrophic phenotypes but its specificity is unclear. Q92MG1 was confirmed by binding tyrosine in a crystal structure (PDB:4wji). In Desulfarculus, the enzyme is a bit diverged (E1QE65), but has conserved tyrosine binding residues and is in a conserved operon with aromatic amino acid biosynthesis genes.

Fetched 25 sequences

Running BLASTp

Found similarities, at above 30% identity and 75% coverage, for 20 of these sequences

Found 4 clusters of similar sequences. Another 8 sequences are not clustered. Download as table or as draft rules or view by organism

Cluster 1 287-378 amino acids (not heteromeric)

TYRC_ZYMMO / Q04983 Cyclohexadienyl dehydrogenase; Arogenate dehydrogenase; ADH; Prephenate dehydrogenase; PDH; EC 1.3.1.43; EC 1.3.1.12 from Zymomonas mobilis subsp. mobilis (strain ATCC 31821 / ZM4 / CP4)
PFams: 2-Hacid_dh_C, IlvN, F420_oxidored, NAD_binding_2, PDH_N, PDH_C
293 amino acids: PaperBLAST, CDD, Compare to cluster

J9XQS6 prephenate dehydrogenase (EC 1.3.1.12) from uncultured bacterium
PFams: PDH_N, PDH_C
287 amino acids: PaperBLAST, CDD, Compare to cluster

O67636 prephenate dehydrogenase (EC 1.3.1.12) from Aquifex aeolicus
PFams: NAD_binding_2, PDH_N, PDH_C
311 amino acids: PaperBLAST, CDD, Compare to cluster

Q81P63 prephenate dehydrogenase (EC 1.3.1.12) from Bacillus anthracis
PFams: Rossmann-like, F420_oxidored, PDH_N, PDH_C, ACT
378 amino acids: PaperBLAST, CDD, Compare to cluster

Q8DUW0 prephenate dehydrogenase (EC 1.3.1.12) from Streptococcus mutans
PFams: F420_oxidored, NAD_binding_2, PDH_N, PDH_C
368 amino acids: PaperBLAST, CDD, Compare to cluster

TYRA_MYCTU / O69721 Prephenate dehydrogenase; PDH; EC 1.3.1.12 from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
PFams: F420_oxidored, PDH_N, PDH_C
323 amino acids: PaperBLAST, CDD, Compare to cluster

D8IR44_HERSS Prephenate dehydrogenase protein; EC=1.3.1.12
295 amino acids: PaperBLAST, CDD, Compare to cluster

Q92MG1 Cyclohexadienyl dehydrogenase and ADH prephenate dehydrogenase
307 amino acids: PaperBLAST, CDD, Compare to cluster

Cluster 2 249-377 amino acids (not heteromeric)

A0A101IGG2 prephenate dehydrogenase (NADP+) (EC 1.3.1.13) from Methanothrix harundinacea
PFams: 2-Hacid_dh_C, F420_oxidored, NAD_binding_2, PDH_N, PDH_C
310 amino acids: PaperBLAST, CDD, Compare to cluster

P43902 prephenate dehydrogenase (EC 1.3.1.12) from Haemophilus influenzae
PFams: CM_2, PDH_N, PDH_C
377 amino acids: PaperBLAST, CDD, Compare to cluster

A0A1L6J750 Prephenate dehydrogenase
249 amino acids: PaperBLAST, CDD, Compare to cluster

Ga0059261_2298 prephenate and/or arogenate dehydrogenase (EC 1.3.1.13) from Sphingomonas koreensis DSMZ 15582
PFams: IlvN, F420_oxidored, NAD_binding_2, PDH_N
249 amino acids: PaperBLAST, CDD, Compare to cluster

Cluster 3 431-491 amino acids (not heteromeric)

A0A386QX79 prephenate dehydrogenase (EC 1.3.1.12) from Pleurotus ostreatus
PFams: F420_oxidored, NAD_binding_2
491 amino acids: PaperBLAST, CDD, Compare to cluster

TYR1_SCHPO / O60078 Probable prephenate dehydrogenase [NADP(+)]; PRDH; EC 1.3.1.13 from Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
CH_124806 prephenate dehydrogenase [NADP+] Tyr1 (predicted); EC 1.3.1.13 from Schizosaccharomyces pombe
PFams: F420_oxidored, NAD_binding_2
431 amino acids: PaperBLAST, CDD, Compare to cluster

TYR1_YEAST / P20049 Prephenate dehydrogenase [NADP(+)]; PRDH; EC 1.3.1.13 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
PFams: F420_oxidored, NAD_binding_2
452 amino acids: PaperBLAST, CDD, Compare to cluster

Cluster 4 257-257 amino acids (not heteromeric)

Q8A0T8_BACTN Chorismate mutase/prephenate dehydratase (TyrA)
257 amino acids: PaperBLAST, CDD, Compare to cluster

BT3933 prephenate dehydrogenase (EC 1.3.1.13) from Bacteroides thetaiotaomicron VPI-5482
PFams: PDH_N
257 amino acids: PaperBLAST, CDD, Compare to cluster

Singletons (0/8 heteromeric)

A8AAX2 prephenate dehydrogenase (NADP+) (EC 1.3.1.13) from Ignicoccus hospitalis
PFams: CM_2, Rossmann-like, F420_oxidored, NAD_binding_2, PDH_N, PDH_C
348 amino acids: PaperBLAST, CDD

G7J2E9 prephenate dehydrogenase (NADP+) (EC 1.3.1.13) from Medicago truncatula
PFams: F420_oxidored, PDH_N
268 amino acids: PaperBLAST, CDD
(similar to UniProt::A0A1L6J750 from Cluster 2, but similarity to seed sequence is below thresholds)

O30012 prephenate dehydrogenase (EC 1.3.1.12); prephenate dehydratase (EC 4.2.1.51); chorismate mutase (EC 5.4.99.5) from Archaeoglobus fulgidus
PFams: PDH_N, PDH_C, CM_2, PDT, ACT
620 amino acids: PaperBLAST, CDD

D4GXG3 Prephenate dehydrogenase; EC=1.3.1.12
272 amino acids: PaperBLAST, CDD
(similar to UniProt::A0A1L6J750 from Cluster 2, but similarity to seed sequence is below thresholds)

E1QE65 Prephenate dehydrogenase
259 amino acids: PaperBLAST, CDD

b2600 fused chorismate mutase/prephenate dehydrogenase (EC 5.4.99.5; EC 1.3.1.12) from Escherichia coli K-12 substr. MG1655
P07023 fused chorismate mutase/prephenate dehydrogenase (EC 5.4.99.5; EC 1.3.1.12) from Escherichia coli (strain K12)
PFams: CM_2, PDH_N, PDH_C
373 amino acids: PaperBLAST, CDD
(similar to BRENDA::P43902 from Cluster 2, but similarity to seed sequence is below thresholds)

Q9L9G2 prephenate dehydrogenase (EC 1.3.1.12) from Streptomyces niveus
PFams: PDH_N
362 amino acids: PaperBLAST, CDD

DVU0464 prephenate and/or arogenate dehydrogenase from Desulfovibrio vulgaris Hildenborough JW710
PFams: PDH_N
255 amino acids: PaperBLAST, CDD