Sequence Description Alias PCC hrr AMTR_s00119p00060890 Zinc finger protein VAR3, chloroplastic OS=Arabidopsis thaliana VAR3, evm_27.TU.AmTr_v1.0_scaffold00119.41 0.9541969625332211 1 AMTR_s00072p00084990 Photosynthesis.photophosphorylation.cytochrome b6/f complex.Rieske iron-sulfur component PetC PGR1, PETC, evm_27.TU.AmTr_v1.0_scaffold00072.37 0.9432305127641488 9 AMTR_s00049p00119540 Redox homeostasis.chloroplast redox homeostasis.F-type thioredoxin ATF1, TRXF1, evm_27.TU.AmTr_v1.0_scaffold00049.94 0.9413705903794991 3 AMTR_s00001p00191890 Photosynthesis.photophosphorylation.cyclic electron flow.PGR5/PGRL1 complex.PGRL1-like component PGR5-LIKE A, evm_27.TU.AmTr_v1.0_scaffold00001.191 0.9388060324695426 9 AMTR_s00058p00182650 Enzyme classification.EC_1 oxidoreductases.EC_1.3 oxidoreductase acting on CH-CH group of donor evm_27.TU.AmTr_v1.0_scaffold00058.174 0.938318445012183 5 AMTR_s00002p00203960 Monooxygenase 2 OS=Arabidopsis thaliana CTF2A, evm_27.TU.AmTr_v1.0_scaffold00002.199 0.9356008596114264 6 AMTR_s00071p00149740 Photosynthesis.photophosphorylation.photosystem II.photoprotection.MPH1 protein evm_27.TU.AmTr_v1.0_scaffold00071.135 0.931758510021642 26 AMTR_s00002p00256470 Protein modification.protein folding and quality control.protein folding catalyst activities.FKBP protein folding catalyst evm_27.TU.AmTr_v1.0_scaffold00002.408 0.9303870114157106 13 AMTR_s00099p00023240 evm_27.TU.AmTr_v1.0_scaffold00099.10 0.928372826373086 9 AMTR_s00019p00236430 Coenzyme metabolism.iron-sulfur cluster assembly machineries.plastidial SUF system.transfer phase.NFU1/2/3 component ATCNFU3, NFU3, evm_27.TU.AmTr_v1.0_scaffold00019.332 0.9256774169301333 10 AMTR_s00012p00257120 RNA biosynthesis.organelle machineries.RNA polymerase activities.plastid-encoded RNA polymerase (PEP) complex.regulatory co-factors.TAC16 component PTAC16, evm_27.TU.AmTr_v1.0_scaffold00012.301 0.9255338495380501 31 AMTR_s00044p00143330 Photosynthesis.photophosphorylation.photosystem II.assembly and maintenance.LPA3 protein LPA3, evm_27.TU.AmTr_v1.0_scaffold00044.141 0.9247865127960433 14 AMTR_s00002p00197820 RNA-binding protein CP33, chloroplastic OS=Arabidopsis thaliana evm_27.TU.AmTr_v1.0_scaffold00002.183 0.9242801886663297 13 AMTR_s00018p00255680 Beta-carotene isomerase D27, chloroplastic OS=Arabidopsis thaliana evm_27.TU.AmTr_v1.0_scaffold00018.171 0.9237286213039224 14 AMTR_s00010p00265920 Photosynthesis.photophosphorylation.chlororespiration.NADH dehydrogenase-like (NDH) complex.subcomplex B.PnsB4/NDF6 component NDF6, evm_27.TU.AmTr_v1.0_scaffold00010.515 0.9234259323086246 15 AMTR_s00092p00018230 Pentatricopeptide repeat-containing protein At4g31850, chloroplastic OS=Arabidopsis thaliana evm_27.TU.AmTr_v1.0_scaffold00092.4 0.9214232886454363 20 AMTR_s00049p00176170 Photosynthesis.calvin cycle.ribulose-1,5-bisphosphat carboxylase/oxygenase (RuBisCo) activity.regulation.CbbY xylulose-1,5-bisphosphate phosphatase evm_27.TU.AmTr_v1.0_scaffold00049.168 0.9172212496908533 24 AMTR_s00002p00210720 Protein biosynthesis.organelle translation machineries.plastidial ribosome.large subunit proteome.psRPL19 component evm_27.TU.AmTr_v1.0_scaffold00002.217 0.9172100198630234 19 AMTR_s00029p00239610 Photosynthesis.photophosphorylation.photosystem II.LHC-II complex.LHCb4-type component LHCB4.2, evm_27.TU.AmTr_v1.0_scaffold00029.405 0.9170428546528957 40 AMTR_s00046p00146170 evm_27.TU.AmTr_v1.0_scaffold00046.79 0.9150736752301513 38 AMTR_s00077p00129020 Methylesterase 17 OS=Arabidopsis thaliana ATMES17, MES17, evm_27.TU.AmTr_v1.0_scaffold00077.122 0.9144623718252591 21 AMTR_s00061p00120110 Carbohydrate metabolism.starch metabolism.synthesis.ADP-glucose pyrophosphorylase ADG1, APS1, evm_27.TU.AmTr_v1.0_scaffold00061.96 0.9102947300220597 22 AMTR_s00078p00084050 evm_27.TU.AmTr_v1.0_scaffold00078.57 0.909956607642624 23 AMTR_s00117p00058770 Secondary metabolism.terpenoids.terpenoid synthesis.carotenoid metabolism.xanthophyll synthesis.VDE violaxanthin de-epoxidase NPQ1, AVDE1, evm_27.TU.AmTr_v1.0_scaffold00117.15 0.9089519047211868 24 AMTR_s00027p00217960 Rhodanese-like domain-containing protein 14, chloroplastic OS=Arabidopsis thaliana evm_27.TU.AmTr_v1.0_scaffold00027.81 0.9089459500785443 25 AMTR_s00059p00183340 Photosynthesis.photophosphorylation.cytochrome b6/f complex.assembly.HCF164 thioredoxin-like factor HCF164, evm_27.TU.AmTr_v1.0_scaffold00059.198 0.9086510919156472 26 AMTR_s00142p00060790 Coenzyme metabolism.iron-sulfur cluster assembly machineries.plastidial SUF system.transfer phase.HCF101 component HCF101, evm_27.TU.AmTr_v1.0_scaffold00142.34 0.9082050618711712 38 AMTR_s00006p00252810 External stimuli response.temperature.Hsp (heat-shock-responsive protein) families.Hsp90 family.Hsp90 protein EMB1956, Hsp88.1, HSP90.5, AtHsp90.5, CR88, evm_27.TU.AmTr_v1.0_scaffold00006.165 0.9070242377333965 36 AMTR_s00012p00252840 Photosynthesis.photophosphorylation.photosystem II.LHC-related protein groups.one-helix LHC-related protein group.OHP1 protein evm_27.TU.AmTr_v1.0_scaffold00012.263 0.9066587138681396 29 AMTR_s00092p00149880 Uncharacterized oxidoreductase At1g06690, chloroplastic OS=Arabidopsis thaliana evm_27.TU.AmTr_v1.0_scaffold00092.118 0.9064699442222086 30 AMTR_s00099p00159350 Coenzyme metabolism.tetrapyrrol biosynthesis.chlorophyll metabolism.chlorophyll breakdown.chlorophyll dephytylase (CLD) evm_27.TU.AmTr_v1.0_scaffold00099.158 0.9052627674929399 31 AMTR_s00010p00265990 Photosynthesis.photophosphorylation.chlororespiration.NADH dehydrogenase-like (NDH) complex.lumen subcomplex L.PnsL2/PQL1 component PQL1, PQL2, evm_27.TU.AmTr_v1.0_scaffold00010.518 0.9048979978087826 32 AMTR_s00065p00210500 Photosynthesis.photophosphorylation.chlororespiration.NADH dehydrogenase-like (NDH) complex.subcomplex B.PnsB1/NDF1 component NDH48, NDF1, evm_27.TU.AmTr_v1.0_scaffold00065.208 0.9045582980310093 33 AMTR_s00039p00114830 evm_27.TU.AmTr_v1.0_scaffold00039.71 0.9040827498207117 34 AMTR_s00055p00165940 Protein biosynthesis.aminoacyl-tRNA synthetase activities.threonine-tRNA ligase EMB2761, evm_27.TU.AmTr_v1.0_scaffold00055.86 0.9038119344756115 35 AMTR_s00029p00122880 Disease resistance protein RPS5 OS=Arabidopsis thaliana RPS5, evm_27.TU.AmTr_v1.0_scaffold00029.137 0.9038042640940592 44 AMTR_s00059p00166490 Protein translocation.chloroplast.inner envelope TIC translocation system.Tic62 component evm_27.TU.AmTr_v1.0_scaffold00059.157 0.9037856515177082 37 AMTR_s00095p00128730 Coenzyme metabolism.tetrapyrrol biosynthesis.chlorophyll metabolism.Mg-protoporphyrin IX monomethylester cyclase complex.CRD1 catalytic component ACSF, CHL27, CRD1, evm_27.TU.AmTr_v1.0_scaffold00095.88 0.9032311504107812 43 AMTR_s00135p00117490 Lipid metabolism.fatty acid synthesis.fatty acid desaturation and elongation.fatty acid elongation.fatty acid elongation complex.KCS 3-ketoacyl-CoA synthase evm_27.TU.AmTr_v1.0_scaffold00135.68 0.9025138962633151 39 AMTR_s00025p00126870 Photosynthesis.photophosphorylation.photosystem II.assembly and maintenance.Psb32 protein TLP18.3, evm_27.TU.AmTr_v1.0_scaffold00025.118 0.9024662309887006 63 AMTR_s00002p00271180 Carbohydrate metabolism.oxidative pentose phosphate pathway.non-oxidative phase.ribose 5-phosphate isomerase evm_27.TU.AmTr_v1.0_scaffold00002.613 0.9023287583334575 41 AMTR_s00029p00095840 Large ribosomal RNA subunit accumulation protein YCED homolog 2, chloroplastic OS=Arabidopsis thaliana evm_27.TU.AmTr_v1.0_scaffold00029.88 0.9019818826083623 42 AMTR_s00149p00054540 Photosynthesis.photorespiration.glycine cleavage system.H-protein lipoamide-containing component evm_27.TU.AmTr_v1.0_scaffold00149.34 0.8998944687303414 71 AMTR_s00049p00157390 Photosynthesis.photophosphorylation.photosystem II.PS-II complex.component PsbY YCF32, PSBY, evm_27.TU.AmTr_v1.0_scaffold00049.142 0.8998296428385905 57 AMTR_s00007p00219480 Coenzyme metabolism.tetrapyrrol biosynthesis.protoporphyrin IX formation.uroporphyrinogen III decarboxylase HEME2, evm_27.TU.AmTr_v1.0_scaffold00007.207 0.8996185697466437 51 AMTR_s00061p00196800 Enzyme classification.EC_2 transferases.EC_2.1 transferase transferring one-carbon group evm_27.TU.AmTr_v1.0_scaffold00061.232 0.8993216642085163 78 AMTR_s00062p00189550 Cellular respiration.glycolysis.plastidial glycolysis.phosphoglycerate kinase PGK1, evm_27.TU.AmTr_v1.0_scaffold00062.192 0.8989593583598354 58 AMTR_s00025p00042290 Carbohydrate metabolism.starch metabolism.synthesis.ADP-glucose pyrophosphorylase APL1, ADG2, evm_27.TU.AmTr_v1.0_scaffold00025.21 0.8985368513285389 50 AMTR_s00098p00154060 Photosynthesis.photophosphorylation.chlororespiration.NADH dehydrogenase-like (NDH) complex.lumen subcomplex L.PnsL3/PQL2 component PQL1, PQL2, evm_27.TU.AmTr_v1.0_scaffold00098.43 0.8979982153900304 49 AMTR_s00041p00009900 evm_27.TU.AmTr_v1.0_scaffold00041.2 0.897563469280936 50 AMTR_s00022p00112770 Photosynthesis.photophosphorylation.photosystem II.LHC-II complex.LHCq component evm_27.TU.AmTr_v1.0_scaffold00022.100 0.8968378996604851 51 AMTR_s00093p00107560 Photosynthesis.photophosphorylation.chlororespiration.NADH dehydrogenase-like (NDH) complex.assembly and stabilization.protein factor CRR3 evm_27.TU.AmTr_v1.0_scaffold00093.37 0.8965608144422932 52 AMTR_s00008p00223050 Protein OBERON 3 OS=Arabidopsis thaliana evm_27.TU.AmTr_v1.0_scaffold00008.141 0.8963453554710799 53 AMTR_s00029p00225980 Solute transport.carrier-mediated transport.MFS superfamily.PHT4 phosphate transporter ANTR2, PHT4;4, evm_27.TU.AmTr_v1.0_scaffold00029.352 0.8951695510147104 54 AMTR_s00058p00147520 Probable 2-carboxy-D-arabinitol-1-phosphatase OS=Arabidopsis thaliana evm_27.TU.AmTr_v1.0_scaffold00058.114 0.8943864330284131 60 AMTR_s00004p00145140 evm_27.TU.AmTr_v1.0_scaffold00004.142 0.8931078769799107 56 AMTR_s00040p00202990 2-carboxy-D-arabinitol-1-phosphatase OS=Triticum aestivum evm_27.TU.AmTr_v1.0_scaffold00040.206 0.8926054122116055 82 AMTR_s00007p00263960 Redox homeostasis.chloroplast redox homeostasis.2-Cys peroxiredoxin activities.atypical 2-Cys peroxiredoxin (PrxQ) ATPRX Q, evm_27.TU.AmTr_v1.0_scaffold00007.343 0.8911353287442778 58 AMTR_s00040p00174940 Flagellar radial spoke protein 5 OS=Chlamydomonas reinhardtii evm_27.TU.AmTr_v1.0_scaffold00040.165 0.8893616347495417 72 AMTR_s00059p00156080 Photosynthesis.photophosphorylation.cytochrome b6/f complex.assembly.CCS cytochrome f/c6 maturation system (system II).CcsB component evm_27.TU.AmTr_v1.0_scaffold00059.142 0.8880715762078053 77 AMTR_s00003p00211760 RNA processing.organelle machineries.ribonuclease activities.CSP41 endoribonuclease CRB, HIP1.3, CSP41B, evm_27.TU.AmTr_v1.0_scaffold00003.202 0.8874427176499211 61 AMTR_s00109p00146830 Photosynthesis.photophosphorylation.chlororespiration.NADH dehydrogenase-like (NDH) complex.subcomplex B.PnsB3/NDF4 component NDF4, evm_27.TU.AmTr_v1.0_scaffold00109.159 0.8871170282262361 63 AMTR_s00044p00105130 evm_27.TU.AmTr_v1.0_scaffold00044.75 0.8870652546431766 69 AMTR_s00001p00272260 Protein CURVATURE THYLAKOID 1B, chloroplastic OS=Arabidopsis thaliana PTAC8, TMP14, PSI-P, PSAP, evm_27.TU.AmTr_v1.0_scaffold00001.510 0.8863635614149921 66 AMTR_s00087p00141000 Photosynthesis.photophosphorylation.photosystem I.PS-I complex.component PsaL PSAL, evm_27.TU.AmTr_v1.0_scaffold00087.44 0.8856629208779506 67 AMTR_s00002p00267790 Photosynthesis.photophosphorylation.chlororespiration.NADH dehydrogenase-like (NDH) complex.subcomplex B.PnsB5/NDH18 component NDH18, evm_27.TU.AmTr_v1.0_scaffold00002.530 0.8849315130448592 68 AMTR_s00060p00116070 Nutrient uptake.nitrogen assimilation.ammonium assimilation.glutamine synthetase ATGSR1, GLN1;1, ATGLN1;1, GSR 1, evm_27.TU.AmTr_v1.0_scaffold00060.55 0.8845835444523998 69 AMTR_s00078p00073300 evm_27.TU.AmTr_v1.0_scaffold00078.44 0.8829890900812359 70 AMTR_s00066p00057600 Protein modification.dephosphorylation.aspartate-based protein phosphatase superfamily.CIN phosphatase PGLP1, ATPGLP1, evm_27.TU.AmTr_v1.0_scaffold00066.32 0.8827462942282747 71 AMTR_s00025p00041760 Carbohydrate metabolism.starch metabolism.synthesis.ADP-glucose pyrophosphorylase APL1, ADG2, evm_27.TU.AmTr_v1.0_scaffold00025.20 0.882621706493725 72 AMTR_s00022p00232380 Photosynthesis.photophosphorylation.ATP synthase complex.peripheral CF1 subcomplex.subunit delta ATPD, evm_27.TU.AmTr_v1.0_scaffold00022.315 0.8826197651027382 73 AMTR_s00038p00072170 Protein CURVATURE THYLAKOID 1A, chloroplastic OS=Arabidopsis thaliana evm_27.TU.AmTr_v1.0_scaffold00038.31 0.8823156796341002 75 AMTR_s00025p00246210 RNA processing.organelle machineries.ribonuclease activities.CSP41 endoribonuclease CSP41A, evm_27.TU.AmTr_v1.0_scaffold00025.394 0.8814128029096886 76 AMTR_s00175p00040360 Photosynthesis.photophosphorylation.photosystem I.LHC-I complex.LHCa1-type component LHCA1, evm_27.TU.AmTr_v1.0_scaffold00175.14 0.8812882455020401 77 AMTR_s00002p00254720 Solute transport.channels.CorA family.MRS/MGT metal cation transporter MGT10, GMN10, MRS2-11, ATMGT10, evm_27.TU.AmTr_v1.0_scaffold00002.387 0.8804056223745514 78 AMTR_s00329p00011770 Solute transport.carrier-mediated transport.MEX maltose transporter MEX1, RCP1, evm_27.TU.AmTr_v1.0_scaffold00329.2 0.8801768327604771 79 AMTR_s00029p00233910 Protein modification.peptide maturation.plastid.EGY protease ATEGY2, EGY2, evm_27.TU.AmTr_v1.0_scaffold00029.376 0.8801706138676123 90 AMTR_s00025p00146930 Carbohydrate metabolism.gluconeogenesis.pyruvate orthophosphate dikinase activity.pyruvate orthophosphate dikinase PPDK, evm_27.TU.AmTr_v1.0_scaffold00025.163 0.8795163253701626 81 AMTR_s00016p00074040 Photosynthesis.photophosphorylation.cytochrome b6/f complex.assembly.CCB cytochrome b6 maturation system (system IV).CCB1 component CCB1, evm_27.TU.AmTr_v1.0_scaffold00016.38 0.8788560798759432 82 AMTR_s00107p00035950 Protein biosynthesis.organelle translation machineries.plastidial ribosome.large subunit proteome.psRPL1 component evm_27.TU.AmTr_v1.0_scaffold00107.14 0.8786501368452913 87 AMTR_s00001p00271310 Secondary metabolism.terpenoids.terpenoid synthesis.carotenoid metabolism.xanthophyll synthesis.carotenoid epsilon ring hydroxylase CYP97C1, LUT1, evm_27.TU.AmTr_v1.0_scaffold00001.484 0.8781383728267331 84 AMTR_s00019p00236310 evm_27.TU.AmTr_v1.0_scaffold00019.330 0.8776723573578988 85 AMTR_s00077p00134480 Protein modification.phosphorylation.CMGC kinase superfamily.STN kinase STN8, evm_27.TU.AmTr_v1.0_scaffold00077.129 0.8774393433051859 87 AMTR_s00063p00191490 Nutrient uptake.nitrogen assimilation.ammonium assimilation.glutamate synthase activities.Fd-dependent glutamate synthase GLU1, FD-GOGAT, GLS1, GLUS, evm_27.TU.AmTr_v1.0_scaffold00063.73 0.8769046793994143 88 AMTR_s00021p00213260 Solute transport.carrier-mediated transport.DMT superfamily.NST-TPT group.TPT phosphometabolite transporter TPT, APE2, evm_27.TU.AmTr_v1.0_scaffold00021.188 0.8767189783875204 89 AMTR_s00083p00031040 Photosynthesis.photorespiration.aminotransferases.glutamate-glyoxylate transaminase GGAT1, GGT1, AOAT1, evm_27.TU.AmTr_v1.0_scaffold00083.7 0.8764525265764976 90 AMTR_s00036p00206170 evm_27.TU.AmTr_v1.0_scaffold00036.123 0.8759763435494778 94 AMTR_s00058p00193720 Protein modification.dephosphorylation.tyrosine protein phosphatase (PTP) superfamily.dual-specificity phosphatase families.LSF phosphoglucan phosphatase LSF1, evm_27.TU.AmTr_v1.0_scaffold00058.193 0.8752894672782692 92 AMTR_s00048p00138890 Photosynthesis.calvin cycle.phosphoribulokinase PRK, evm_27.TU.AmTr_v1.0_scaffold00048.87 0.8752371352680095 93 AMTR_s00013p00180670 Photosynthesis.photophosphorylation.photosystem I.LHC-I complex.LHCa2-type component LHCA2, evm_27.TU.AmTr_v1.0_scaffold00013.107 0.8748089398829445 94 AMTR_s00101p00121540 PsbP domain-containing protein 6, chloroplastic OS=Arabidopsis thaliana evm_27.TU.AmTr_v1.0_scaffold00101.95 0.8745953408742858 95 AMTR_s00025p00248060 RNA biosynthesis.organelle machineries.transcription.Sigma-type basal transcription factor SIGD, SIG4, evm_27.TU.AmTr_v1.0_scaffold00025.401 0.8743923998389747 96 AMTR_s00007p00094450 Protein SMAX1-LIKE 7 OS=Arabidopsis thaliana evm_27.TU.AmTr_v1.0_scaffold00007.53 0.8743451135781388 97 AMTR_s00068p00047550 Photosynthesis.photophosphorylation.photosystem II.photoprotection.non-photochemical quenching (NPQ).FLAP1 NPQ-regulator protein evm_27.TU.AmTr_v1.0_scaffold00068.17 0.8732107489587188 99