GapMind for catabolism of small carbon sources

 

Clusters of Characterized Proteins

Clustering the characterized proteins for paaH (3-hydroxyadipyl-CoA dehydrogenase) in L-phenylalanine catabolism

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Definition of paaH

Fetched 37 sequences

Running BLASTp

Found similarities, at above 30% identity and 75% coverage, for 35 of these sequences

Found 7 clusters of similar sequences. Another 2 sequences are not clustered. Download as table or as draft rules or view by organism

Cluster 1 706-729 amino acids (3/14 heteromeric)

ECHP_RAT / P07896 Peroxisomal bifunctional enzyme; PBE; PBFE; EC 4.2.1.17; EC 5.3.3.8; EC 1.1.1.35 from Rattus norvegicus (Rat)
P07896 enoyl-CoA hydratase (EC 4.2.1.17) from Rattus norvegicus
RF|NP_598290.1 noyl-CoA hydratase/3,2-trans-enoyl-CoA isomerase/3-hydroxyacyl-CoA dehydrogenase; EC 1.1.1.35; EC 4.2.1.17; EC 5.3.3.8 from Rattus norvegicus
PFams: ECH_1, ECH_2, 3HCDH_N, 3HCDH, 3HCDH
722 amino acids: PaperBLAST, CDD, Compare to cluster

MFP2_ARATH / Q9ZPI5 Peroxisomal fatty acid beta-oxidation multifunctional protein MFP2; AtMPF2; EC 4.2.1.17; EC 5.1.2.3; EC 5.3.3.8; EC 1.1.1.35 from Arabidopsis thaliana (Mouse-ear cress)
Q9ZPI5 enoyl-CoA hydratase (EC 4.2.1.17) from Arabidopsis thaliana
PFams: ECH_1, ECH_2, 3HCDH_N, 3HCDH
725 amino acids: PaperBLAST, CDD, Compare to cluster

b2341 3-hydroxyacyl-CoA dehydrogenase FadJ (EC 1.1.1.35; EC 1.1.1.211; EC 4.2.1.17; EC 5.1.2.3; EC 5.3.3.8) from Escherichia coli K-12 substr. MG1655
FADJ_ECOLI / P77399 Fatty acid oxidation complex subunit alpha; EC 4.2.1.17; EC 5.1.2.3; EC 1.1.1.35 from Escherichia coli (strain K12)
P77399 3-hydroxyacyl-CoA dehydrogenase FadJ (EC 1.1.1.35; EC 4.2.1.17; EC 5.1.2.3; EC 5.3.3.8) from Escherichia coli (strain K12)
RF|NP_416843 fatty acid oxidation complex subunit alpha; EC 1.1.1.35; EC 4.2.1.17; EC 5.1.2.3 from Escherichia coli K12
PFams: ECH_1, ECH_2, 3HCDH_N, 3HCDH, 3HCDH
Heteromeric, 714 amino acids: PaperBLAST, CDD, Compare to cluster

b3846 dodecenoyl-CoA δ-isomerase, enoyl-CoA hydratase, 3-hydroxybutyryl-CoA epimerase, 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35; EC 1.1.1.211; EC 4.2.1.17; EC 5.3.3.8; EC 5.1.2.3) from Escherichia coli K-12 substr. MG1655
FADB_ECOLI / P21177 Fatty acid oxidation complex subunit alpha; EC 4.2.1.17; EC 5.1.2.3; EC 5.3.3.8; EC 1.1.1.35 from Escherichia coli (strain K12)
P21177 dodecenoyl-CoA δ-isomerase, enoyl-CoA hydratase, 3-hydroxybutyryl-CoA epimerase, 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35; EC 4.2.1.17; EC 5.3.3.8; EC 5.1.2.3) from Escherichia coli (strain K12)
PFams: ECH_1, ECH_2, 3HCDH_N, 3HCDH, 3HCDH
Heteromeric, 729 amino acids: PaperBLAST, CDD, Compare to cluster

FADB_PSEFR / P28793 Fatty acid oxidation complex subunit alpha; EC 4.2.1.17; EC 5.1.2.3; EC 5.3.3.8; EC 1.1.1.35 from Pseudomonas fragi
PFams: ECH_1, ECH_2, 3HCDH_N, 3HCDH
Heteromeric, 715 amino acids: PaperBLAST, CDD, Compare to cluster

ECHP_HUMAN / Q08426 Peroxisomal bifunctional enzyme; PBE; PBFE; EC 4.2.1.17; EC 5.3.3.8; EC 1.1.1.35 from Homo sapiens (Human)
Q08426 peroxisomal bifunctional enzyme (EC 4.2.1.17; EC 1.1.1.35) from Homo sapiens
PFams: ECH_1, ECH_2, 3HCDH_N, 3HCDH, 3HCDH
723 amino acids: PaperBLAST, CDD, Compare to cluster

MFPA_CUCSA / Q39659 Glyoxysomal fatty acid beta-oxidation multifunctional protein MFP-a; EC 4.2.1.17; EC 5.1.2.3; EC 5.3.3.8; EC 1.1.1.35 from Cucumis sativus (Cucumber)
PFams: ECH_1, ECH_2, 3HCDH_N, 3HCDH
725 amino acids: PaperBLAST, CDD, Compare to cluster

MFP_ORYSJ / Q8W1L6 Peroxisomal fatty acid beta-oxidation multifunctional protein; MFP; EC 4.2.1.17; EC 5.1.2.3; EC 5.3.3.8; EC 1.1.1.35 from Oryza sativa subsp. japonica (Rice)
PFams: ECH_1, ECH_2, 3HCDH_N, 3HCDH
726 amino acids: PaperBLAST, CDD, Compare to cluster

AIM1_ARATH / Q9ZPI6 Peroxisomal fatty acid beta-oxidation multifunctional protein AIM1; Protein ABNORMAL INFLORESCENCE MERISTEM 1; AtAIM1; EC 4.2.1.17; EC 5.1.2.3; EC 5.3.3.8; EC 1.1.1.35 from Arabidopsis thaliana (Mouse-ear cress)
Q9ZPI6 peroxisomal fatty acid β-oxidation multifunctional protein AIM1 (EC 4.2.1.17) from Arabidopsis thaliana
PFams: ECH_1, ECH_2, 3HCDH_N, 3HCDH
721 amino acids: PaperBLAST, CDD, Compare to cluster

Q88L02 FadB (EC 5.3.3.8; EC 1.1.1.35; EC 5.1.2.3; EC 4.2.1.17; EC 1.1.1.36) from Pseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)
PFams: ECH_1, ECH_2, 3HCDH_N, 3HCDH
715 amino acids: PaperBLAST, CDD, Compare to cluster

Q9HZJ2 fatty acid oxidation complex α subunit (EC 1.1.1.35; EC 4.2.1.17) from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)
PFams: ECH_1, ECH_2, 3HCDH_N, 3HCDH
715 amino acids: PaperBLAST, CDD, Compare to cluster

Shewana3_0024 Enoyl-CoA hydratase (EC 4.2.1.17); 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35) from Shewanella sp. ANA-3
PFams: ECH_1, ECH_2, 3HCDH_N, 3HCDH
716 amino acids: PaperBLAST, CDD, Compare to cluster

BPHYT_RS13545 3-hydroxyadipyl-CoA dehydrogenase (EC 1.1.1.35) from Burkholderia phytofirmans PsJN
PFams: ECH_1, ECH_2, 3HCDH_N, 3HCDH
706 amino acids: PaperBLAST, CDD, Compare to cluster

Sama_0032 Enoyl-CoA hydratase (EC 4.2.1.17); 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35) from Shewanella amazonensis SB2B
PFams: ECH_1, ECH_2, 3HCDH_N, 3HCDH
716 amino acids: PaperBLAST, CDD, Compare to cluster

Cluster 2 279-314 amino acids (not heteromeric)

C4IEM5 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35) from Clostridium butyricum
PFams: 3HCDH_N, 3HCDH
282 amino acids: PaperBLAST, CDD, Compare to cluster

P34439 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35) from Caenorhabditis elegans
PFams: 3HCDH_N, NAD_binding_2, 3HCDH
298 amino acids: PaperBLAST, CDD, Compare to cluster

FADB2_MYCTU / P9WNP7 3-hydroxybutyryl-CoA dehydrogenase; Beta-hydroxybutyryl-CoA dehydrogenase; BHBD; EC 1.1.1.157 from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
P9WNP7 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35) from Mycobacterium tuberculosis
PFams: 3HCDH_N, 3HCDH
286 amino acids: PaperBLAST, CDD, Compare to cluster

Q0KEY8 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35) from Cupriavidus necator
PFams: 3HCDH_N, 3HCDH
284 amino acids: PaperBLAST, CDD, Compare to cluster

HCDH_HUMAN / Q16836 Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial; HCDH; Medium and short-chain L-3-hydroxyacyl-coenzyme A dehydrogenase; Short-chain 3-hydroxyacyl-CoA dehydrogenase; EC 1.1.1.35 from Homo sapiens (Human)
Q16836 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35) from Homo sapiens
Q16836 Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial (EC 1.1.1.35) from Homo sapiens
PFams: 3HCDH_N, UDPG_MGDP_dh_N, 3HCDH
314 amino acids: PaperBLAST, CDD, Compare to cluster

HBD_CLOAB / P52041 3-hydroxybutyryl-CoA dehydrogenase; Beta-hydroxybutyryl-CoA dehydrogenase; BHBD; EC 1.1.1.157 from Clostridium acetobutylicum (strain ATCC 824 / DSM 792 / JCM 1419 / LMG 5710 / VKM B-1787)
P52041 3-hydroxybutyryl-CoA dehydrogenase (EC 1.1.1.35) from Clostridium acetobutylicum (strain ATCC 824 / DSM 792 / JCM 1419 / LMG 5710 / VKM B-1787)
CH_091789 3-hydroxybutyryl-CoA dehydrogenase; EC 1.1.1.157 from Clostridium acetobutylicum
PFams: 3HCDH_N, UDPG_MGDP_dh_N, 3HCDH
282 amino acids: PaperBLAST, CDD, Compare to cluster

HCDH_PIG / P00348 Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial; HCDH; Medium and short-chain L-3-hydroxyacyl-coenzyme A dehydrogenase; Short-chain 3-hydroxyacyl-CoA dehydrogenase; EC 1.1.1.35 from Sus scrofa (Pig)
PFams: Pyr_redox_2, 3HCDH_N, Pyr_redox, 3HCDH
314 amino acids: PaperBLAST, CDD, Compare to cluster

HBD_SYNWW / Q0AVM2 3-hydroxybutyryl-CoA dehydrogenase; EC 1.1.1.35 from Syntrophomonas wolfei subsp. wolfei (strain DSM 2245B / Goettingen)
PFams: 3HCDH_N, 3HCDH
279 amino acids: PaperBLAST, CDD, Compare to cluster

Q8RMI3 3-hydroxybutyryl-CoA dehydrogenase subunit (EC 1.1.1.35) from Clostridium beijerinckii
PFams: 3HCDH_N, 3HCDH
282 amino acids: PaperBLAST, CDD, Compare to cluster

A2SP28 (S)-3-hydroxybutanoyl-CoA dehydrogeanse (EC 1.1.1.35) from Methylibium petroleiphilum (strain ATCC BAA-1232 / LMG 22953 / PM1)
PFams: 3HCDH_N, 3HCDH
285 amino acids: PaperBLAST, CDD, Compare to cluster

Cluster 3 255-261 amino acids (not heteromeric)

HCD2_HUMAN / Q99714 3-hydroxyacyl-CoA dehydrogenase type-2; 17-beta-hydroxysteroid dehydrogenase 10; 17-beta-HSD 10; 2-methyl-3-hydroxybutyryl-CoA dehydrogenase; MHBD; 3-hydroxy-2-methylbutyryl-CoA dehydrogenase; 3-hydroxyacyl-CoA dehydrogenase type II; Endoplasmic reticulum-associated amyloid beta-peptide-binding protein; Mitochondrial ribonuclease P protein 2; Mitochondrial RNase P protein 2; Short chain dehydrogenase/reductase family 5C member 1; Short-chain type dehydrogenase/reductase XH98G2; Type II HADH; EC 1.1.1.35; EC 1.1.1.51; EC 1.1.1.178 from Homo sapiens (Human)
Q99714 GDP-6-deoxy-D-talose 4-dehydrogenase (EC 1.1.1.135); 3-hydroxy-2-methylbutyryl-CoA dehydrogenase (EC 1.1.1.178) from Bos taurus
Q99714 3-hydroxy-2-methylbutyryl-CoA dehydrogenase subunit (EC 1.1.1.35) from Homo sapiens
PFams: adh_short, KR, adh_short_C2
261 amino acids: PaperBLAST, CDD, Compare to cluster

HCD2_MOUSE / O08756 3-hydroxyacyl-CoA dehydrogenase type-2; 17-beta-hydroxysteroid dehydrogenase 10; 17-beta-HSD 10; 3-hydroxy-2-methylbutyryl-CoA dehydrogenase; 3-hydroxyacyl-CoA dehydrogenase type II; Endoplasmic reticulum-associated amyloid beta-peptide-binding protein; Mitochondrial ribonuclease P protein 2; Mitochondrial RNase P protein 2; Type II HADH; EC 1.1.1.35; EC 1.1.1.51; EC 1.1.1.178 from Mus musculus (Mouse)
PFams: adh_short, KR, adh_short_C2
261 amino acids: PaperBLAST, CDD, Compare to cluster

HCD2_DROME / O18404 3-hydroxyacyl-CoA dehydrogenase type-2; 17-beta-hydroxysteroid dehydrogenase 10; 17-beta-HSD 10; 3-hydroxy-2-methylbutyryl-CoA dehydrogenase; 3-hydroxyacyl-CoA dehydrogenase type II; Mitochondrial ribonuclease P protein 2; Mitochondrial RNase P protein 2; Scully protein; Type II HADH; EC 1.1.1.35; EC 1.1.1.51; EC 1.1.1.178 from Drosophila melanogaster (Fruit fly)
PFams: KR, adh_short, Epimerase, adh_short_C2
255 amino acids: PaperBLAST, CDD, Compare to cluster

Cluster 4 475-506 amino acids (not heteromeric)

b1395 3-hydroxyadipyl-CoA dehydrogenase (EC 1.1.1.35) from Escherichia coli K-12 substr. MG1655
PAAH_ECOLI / P76083 3-hydroxyadipyl-CoA dehydrogenase; EC 1.1.1.- from Escherichia coli (strain K12)
P76083 3-hydroxyadipyl-CoA dehydrogenase (EC 1.1.1.35) from Escherichia coli (strain K12)
PFams: 3HCDH_N, NAD_binding_2, 3HCDH, 3HCDH_RFF, 3HCDH
475 amino acids: PaperBLAST, CDD, Compare to cluster

HP15_2693 3-hydroxyacyl-CoA dehydrogenase PaaC (EC 1.1.1.-) from Marinobacter adhaerens HP15
PFams: 3HCDH_N, 3HCDH, 3HCDH_RFF, 3HCDH
506 amino acids: PaperBLAST, CDD, Compare to cluster

Cluster 5 319-319 amino acids (not heteromeric)

Q84X95 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35) from Brassica napus
PFams: adh_short, KR, adh_short_C2
319 amino acids: PaperBLAST, CDD, Compare to cluster

Q84X96 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35) from Brassica napus
PFams: adh_short, KR, adh_short_C2
319 amino acids: PaperBLAST, CDD, Compare to cluster

Cluster 6 651-658 amino acids (not heteromeric)

A4YDS4 3-hydroxybutyryl-CoA dehydrogenase (EC 1.1.1.157); 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35); short-chain-enoyl-CoA hydratase (EC 4.2.1.150) from Metallosphaera sedula
A4YDS4 crotonyl-CoA hydratase/(S)-3-hydroxybutyryl-CoA dehydrogenase (EC 1.1.1.35; EC 4.2.1.150) from Metallosphaera sedula (strain ATCC 51363 / DSM 5348 / JCM 9185 / NBRC 15509 / TH2)
PFams: 3HCDH_N, NAD_binding_2, 3HCDH, 3HCDH, ECH_1, ECH_2
651 amino acids: PaperBLAST, CDD, Compare to cluster

D3RXI4 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35); 3-hydroxybutyryl-CoA dehydratase (EC 4.2.1.55) from Ferroglobus placidus
PFams: 3HCDH_N, NAD_Gly3P_dh_N, NAD_binding_2, F420_oxidored, 3HCDH, 3HCDH, ECH_1, ECH_2
658 amino acids: PaperBLAST, CDD, Compare to cluster

Cluster 7 789-807 amino acids (not heteromeric)

Q0KEG0 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35); enoyl-CoA hydratase (EC 4.2.1.17) from Cupriavidus necator
PFams: 3HCDH_N, 3HCDH, ECH_1, ECH_2
807 amino acids: PaperBLAST, CDD, Compare to cluster

FADN_BACSU / O32178 Probable 3-hydroxyacyl-CoA dehydrogenase; EC 1.1.1.35 from Bacillus subtilis (strain 168)
PFams: 3HCDH_N, 3HCDH, 3HCDH, ECH_1, ECH_2
789 amino acids: PaperBLAST, CDD, Compare to cluster

Singletons (0/2 heteromeric)

Q72M90 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35) from Leptospira interrogans serovar Copenhageni
PFams: 3HCDH_N, 3HCDH
436 amino acids: PaperBLAST, CDD

MFEA_DICDI / Q9NKW1 Peroxisomal multifunctional enzyme A; MFE-A; MFE-1; EC 1.1.1.35 from Dictyostelium discoideum (Slime mold)
PFams: adh_short, KR, adh_short_C2, SCP2
441 amino acids: PaperBLAST, CDD