AT5G60600 : CHLOROPLAST BIOGENESIS 4
Query Information
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AGICode AT5G60600
Description 4-hydroxy-3-methylbut-2-enyl diphosphate synthase
Gene information
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  Gene Code Description / Information Gene name Correlation link
pcc 2.5% 97.5% PPI
1 AT5G60600 4-hydroxy-3-methylbut-2-enyl diphosphate synthase CHLOROPLAST BIOGENESIS 4,
CONSTITUTIVE SUBTILISIN 3, GCPE,
4-hydroxy-3-methylbut-2-enyl
diphosphate synthase, ISPG		 1 0.3 -0.33
2 AT4G37270 heavy metal atpase 1 ARABIDOPSIS THALIANA HEAVY METAL
ATPASE 1, heavy metal atpase 1		 0.84 0.29 -0.33
3 AT1G52510 alpha/beta-Hydrolases superfamily protein 0.84 0.32 -0.31
4 AT2G46580 Pyridoxamine 5'-phosphate oxidase family protein 0.83 0.31 -0.32
5 AT3G04870 zeta-carotene desaturase PIGMENT DEFECTIVE EMBRYO 181,
SPONTANEOUS CELL DEATH 1,
zeta-carotene desaturase		 0.81 0.3 -0.31
6 AT3G26085 CAAX amino terminal protease family protein 0.78 0.32 -0.33
7 AT1G73990 signal peptide peptidase signal peptide peptidase, SPPA1 0.78 0.32 -0.29
8 AT1G05200 glutamate receptor 3.4 glutamate receptor 3.4, glutamate
receptor 3.4, GLUR3		 0.78 0.3 -0.32
9 AT3G19900 unknown protein; FUNCTIONS IN: molecular_function unknown;
INVOLVED IN: biological_process unknown; LOCATED IN:
chloroplast; EXPRESSED IN: 23 plant structures; EXPRESSED
DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s:
Protein of unknown function DUF3067 (InterPro:IPR021420);
Has 276 Blast hits to 276 proteins in 83 species: Archae -
0; Bacteria - 112; Metazoa - 0; Fungi - 2; Plants - 59;
Viruses - 0; Other Eukaryotes - 103 (source: NCBI BLink).		 0.78 0.33 -0.31
10 AT3G05350 Metallopeptidase M24 family protein 0.77 0.31 -0.3
11 AT5G04440 Protein of unknown function (DUF1997) 0.77 0.33 -0.3
12 AT2G04700 ferredoxin thioredoxin reductase catalytic beta chain
family protein		 0.76 0.3 -0.32
13 AT2G26540 uroporphyrinogen-III synthase family protein DOMAIN OF UNKNOWN FUNCTION 724 3,
ARABIDOPSIS THALIANA
UROPORPHYRINOGEN III SYNTHASE,
DOMAIN OF UNKNOWN FUNCTION 724 3,
HEMD, UROPORPHYRINOGEN III
SYNTHASE		 0.76 0.32 -0.3
14 AT2G39080 NAD(P)-binding Rossmann-fold superfamily protein EMBRYO DEFECTIVE 2799 0.76 0.33 -0.32
15 AT1G65260 plastid transcriptionally active 4 plastid transcriptionally active
4, VESICLE-INDUCING PROTEIN IN
PLASTIDS 1		 0.75 0.31 -0.32
16 AT2G30950 FtsH extracellular protease family FTSH2, VARIEGATED 2 0.75 0.32 -0.31
17 AT2G04230 FBD, F-box and Leucine Rich Repeat domains containing
protein		 0.75 0.33 -0.32
18 AT3G01180 starch synthase 2 starch synthase 2, starch synthase
2		 0.75 0.31 -0.33
19 AT2G45990 unknown protein; FUNCTIONS IN: molecular_function unknown;
INVOLVED IN: biological_process unknown; LOCATED IN:
chloroplast, chloroplast stroma; EXPRESSED IN: 22 plant
structures; EXPRESSED DURING: 13 growth stages; Has 312
Blast hits to 312 proteins in 90 species: Archae - 0;
Bacteria - 131; Metazoa - 0; Fungi - 0; Plants - 67;
Viruses - 0; Other Eukaryotes - 114 (source: NCBI BLink).		 0.75 0.32 -0.33
20 AT1G17360 BEST Arabidopsis thaliana protein match is:
COP1-interacting protein-related (TAIR:AT1G72410.1); Has
9949 Blast hits to 7480 proteins in 576 species: Archae -
12; Bacteria - 1007; Metazoa - 3636; Fungi - 982; Plants -
444; Viruses - 50; Other Eukaryotes - 3818 (source: NCBI
BLink).		 0.74 0.34 -0.32
21 AT5G03880 Thioredoxin family protein 0.74 0.32 -0.32
22 AT4G37200 Thioredoxin superfamily protein HIGH CHLOROPHYLL FLUORESCENCE 164 0.74 0.33 -0.35
23 AT5G05200 Protein kinase superfamily protein 0.74 0.32 -0.3
24 AT3G27925 DegP protease 1 DegP protease 1, DegP protease 1 0.73 0.32 -0.32
25 AT2G35490 Plastid-lipid associated protein PAP / fibrillin family
protein		 0.73 0.3 -0.32
26 AT5G19855 Chaperonin-like RbcX protein AtRbcX2, homologue of
cyanobacterial RbcX 2		 0.73 0.3 -0.34
27 AT1G31800 cytochrome P450, family 97, subfamily A, polypeptide 3 cytochrome P450, family 97,
subfamily A, polypeptide 3, LUTEIN
DEFICIENT 5		 0.73 0.33 -0.32
28 AT3G09920 phosphatidyl inositol monophosphate 5 kinase phosphatidyl inositol
monophosphate 5 kinase		 0.73 0.31 -0.3
29 AT3G56140 Protein of unknown function (DUF399 and DUF3411) 0.73 0.3 -0.32
30 AT5G63060 Sec14p-like phosphatidylinositol transfer family protein 0.73 0.3 -0.33
31 AT2G30170 Protein phosphatase 2C family protein 0.73 0.32 -0.31
32 AT5G46240 potassium channel in Arabidopsis thaliana 1 potassium channel in Arabidopsis
thaliana 1		 0.73 0.34 -0.31
33 AT4G29670 atypical CYS HIS rich thioredoxin 2 atypical CYS HIS rich thioredoxin
2		 0.72 0.32 -0.33
34 AT1G67280 Glyoxalase/Bleomycin resistance protein/Dioxygenase
superfamily protein		 0.72 0.32 -0.32
35 AT5G03420 5'-AMP-activated protein kinase-related 0.72 0.3 -0.31
36 AT5G45170 Haloacid dehalogenase-like hydrolase (HAD) superfamily
protein		 0.72 0.31 -0.31
37 AT5G06130 chaperone protein dnaJ-related 0.72 0.31 -0.32
38 AT5G13520 peptidase M1 family protein -0.71 0.33 -0.32
39 AT1G25290 RHOMBOID-like protein 10 RHOMBOID-like protein 10,
RHOMBOID-like protein 10		 0.71 0.3 -0.31
40 AT3G09150 phytochromobilin:ferredoxin oxidoreductase, chloroplast /
phytochromobilin synthase (HY2)		 ARABIDOPSIS ELONGATED HYPOCOTYL 2,
GENOMES UNCOUPLED 3, ELONGATED
HYPOCOTYL 2		 0.71 0.32 -0.31
41 AT2G15530 RING/U-box superfamily protein 0.71 0.27 -0.32
42 AT2G21340 MATE efflux family protein 0.71 0.32 -0.32
43 AT2G35690 acyl-CoA oxidase 5 acyl-CoA oxidase 5 0.71 0.3 -0.32
44 AT4G29220 phosphofructokinase 1 phosphofructokinase 1 0.71 0.31 -0.3
45 AT1G75340 Zinc finger C-x8-C-x5-C-x3-H type family protein 0.7 0.32 -0.32
46 AT5G45390 CLP protease P4 CLP protease P4, NUCLEAR-ENCODED
CLP PROTEASE P4		 0.7 0.31 -0.33
47 AT2G43750 O-acetylserine (thiol) lyase B ARABIDOPSIS CYSTEINE SYNTHASE 1,
ARABIDOPSIS THALIANA CYSTEIN
SYNTHASE-B, CHLOROPLAST
O-ACETYLSERINE SULFHYDRYLASE 1,
O-acetylserine (thiol) lyase B		 0.7 0.29 -0.32
48 AT1G53670 methionine sulfoxide reductase B 1 ATMSRB1, methionine sulfoxide
reductase B 1		 0.7 0.3 -0.32
49 AT1G78200 Protein phosphatase 2C family protein 0.7 0.34 -0.31
50 AT4G14910 HISTIDINE BIOSYNTHESIS 5B HISTIDINE BIOSYNTHESIS 5B 0.69 0.31 -0.31
51 AT4G02120 CTP synthase family protein 0.69 0.3 -0.32
52 AT1G70610 transporter associated with antigen processing protein 1 ATP-binding cassette B26,
transporter associated with
antigen processing protein 1,
transporter associated with
antigen processing protein 1		 0.69 0.33 -0.32
53 AT2G38780 unknown protein; FUNCTIONS IN: molecular_function unknown;
INVOLVED IN: biological_process unknown; LOCATED IN:
chloroplast; EXPRESSED IN: 21 plant structures; EXPRESSED
DURING: 13 growth stages; Has 58 Blast hits to 58 proteins
in 23 species: Archae - 0; Bacteria - 4; Metazoa - 1; Fungi
- 0; Plants - 44; Viruses - 0; Other Eukaryotes - 9
(source: NCBI BLink).		 0.69 0.3 -0.29
54 AT1G33330 Class I peptide chain release factor 0.69 0.31 -0.32
55 AT1G79600 Protein kinase superfamily protein 0.69 0.34 -0.31
56 AT2G24820 translocon at the inner envelope membrane of chloroplasts
55-II		 translocon at the inner envelope
membrane of chloroplasts 55,
translocon at the inner envelope
membrane of chloroplasts 55,
translocon at the inner envelope
membrane of chloroplasts 55-II		 0.69 0.33 -0.34
57 AT2G14850 unknown protein; BEST Arabidopsis thaliana protein match
is: unknown protein (TAIR:AT4G33890.2); Has 140 Blast hits
to 132 proteins in 17 species: Archae - 0; Bacteria - 0;
Metazoa - 1; Fungi - 2; Plants - 133; Viruses - 0; Other
Eukaryotes - 4 (source: NCBI BLink).		 0.69 0.31 -0.3
58 AT2G36290 alpha/beta-Hydrolases superfamily protein -0.69 0.3 -0.32
59 AT1G79470 Aldolase-type TIM barrel family protein -0.69 0.32 -0.31
60 AT4G26630 DEK domain-containing chromatin associated protein 0.69 0.32 -0.32
61 AT3G56460 GroES-like zinc-binding alcohol dehydrogenase family
protein		 0.69 0.32 -0.3
62 AT2G23420 nicotinate phosphoribosyltransferase 2 nicotinate
phosphoribosyltransferase 2		 0.68 0.31 -0.31
63 AT1G07700 Thioredoxin superfamily protein 0.68 0.33 -0.32
64 AT4G33490 Eukaryotic aspartyl protease family protein 0.68 0.31 -0.31
65 AT4G18130 phytochrome E phytochrome E 0.68 0.29 -0.32
66 AT2G23840 HNH endonuclease 0.68 0.31 -0.33
67 AT3G54860 Sec1/munc18-like (SM) proteins superfamily ATVPS33, VACUOLAR PROTEIN SORTING
33		 0.68 0.33 -0.3
68 AT4G28025 unknown protein; FUNCTIONS IN: molecular_function unknown;
INVOLVED IN: biological_process unknown; LOCATED IN:
chloroplast thylakoid membrane; EXPRESSED IN: 23 plant
structures; EXPRESSED DURING: 13 growth stages; Has 30201
Blast hits to 17322 proteins in 780 species: Archae - 12;
Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants -
5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI
BLink).		 0.68 0.31 -0.31
69 AT3G23400 Plastid-lipid associated protein PAP / fibrillin family
protein		 fibrillin 4 0.68 0.32 -0.31
70 AT3G57470 Insulinase (Peptidase family M16) family protein 0.67 0.32 -0.32
71 AT5G13020 Emsy N Terminus (ENT)/ plant Tudor-like domains-containing
protein		 AtEML3, EMSY-like 3 0.67 0.32 -0.31
72 AT2G01220 Nucleotidylyl transferase superfamily protein 0.67 0.31 -0.3
73 AT5G20950 Glycosyl hydrolase family protein -0.67 0.31 -0.31
74 AT5G54680 basic helix-loop-helix (bHLH) DNA-binding superfamily
protein		 basic Helix-Loop-Helix 105,
iaa-leucine resistant3		 0.67 0.31 -0.32
75 AT3G17920 Outer arm dynein light chain 1 protein 0.67 0.29 -0.34
76 AT4G09340 SPla/RYanodine receptor (SPRY) domain-containing protein 0.67 0.3 -0.33
77 AT5G18560 Integrase-type DNA-binding superfamily protein PUCHI -0.67 0.33 -0.29
78 AT3G02300 Regulator of chromosome condensation (RCC1) family protein 0.66 0.33 -0.33
79 AT2G27490 dephospho-CoA kinase family ATCOAE 0.66 0.32 -0.3
80 AT3G02290 RING/U-box superfamily protein 0.66 0.32 -0.33
81 AT5G16210 HEAT repeat-containing protein 0.66 0.33 -0.3
82 AT2G23430 Cyclin-dependent kinase inhibitor family protein ICK1, KIP-RELATED PROTEIN 1 0.66 0.31 -0.31
83 AT5G44870 Disease resistance protein (TIR-NBS-LRR class) family LAZARUS 5, tolerance to Tobacco
ringspot virus 1		 0.66 0.34 -0.34
84 AT5G10490 MSCS-like 2 MSCS-like 2 0.66 0.32 -0.32
85 AT1G07010 Calcineurin-like metallo-phosphoesterase superfamily
protein		 AtSLP1, Shewenella-like protein
phosphatase 1		 0.66 0.33 -0.31
86 AT4G25700 beta-hydroxylase 1 B1, BETA CAROTENOID HYDROXYLASE 1,
beta-hydroxylase 1, chy1		 0.66 0.33 -0.31
87 AT4G32870 Polyketide cyclase/dehydrase and lipid transport
superfamily protein		 -0.66 0.3 -0.31
88 AT1G08490 chloroplastic NIFS-like cysteine desulfurase ATCPNIFS, ATNFS2, ATSUFS,
chloroplastic NIFS-like cysteine
desulfurase, SUFS		 0.66 0.33 -0.34
89 AT1G13970 Protein of unknown function (DUF1336) -0.65 0.31 -0.3
90 AT5G58200 Calcineurin-like metallo-phosphoesterase superfamily
protein		 0.65 0.31 -0.29
91 AT5G40840 Rad21/Rec8-like family protein Sister chromatid cohesion 1 (SCC1)
protein homolog 2, SYN2		 -0.65 0.33 -0.33
92 AT1G59520 CW7 CW7 0.65 0.31 -0.33
93 AT5G56270 WRKY DNA-binding protein 2 ARABIDOPSIS THALIANA WRKY
DNA-BINDING PROTEIN 2, WRKY
DNA-binding protein 2		 0.65 0.32 -0.29
94 AT5G62810 peroxin 14 ATPEX14, PEROXISOME DEFECTIVE 2,
peroxin 14		 0.65 0.34 -0.32
95 AT1G19600 pfkB-like carbohydrate kinase family protein -0.65 0.35 -0.33
96 AT2G17300 unknown protein; FUNCTIONS IN: molecular_function unknown;
INVOLVED IN: biological_process unknown; LOCATED IN:
chloroplast; EXPRESSED IN: 20 plant structures; EXPRESSED
DURING: 13 growth stages; BEST Arabidopsis thaliana protein
match is: unknown protein (TAIR:AT4G35320.1); Has 42 Blast
hits to 42 proteins in 10 species: Archae - 0; Bacteria -
0; Metazoa - 0; Fungi - 0; Plants - 42; Viruses - 0; Other
Eukaryotes - 0 (source: NCBI BLink).		 0.65 0.31 -0.29
97 AT1G24490 OxaA/YidC-like membrane insertion protein ALBINA 4, ARABIDOPSIS THALIANA
ENVELOPE MEMBRANE INTEGRASE		 0.65 0.31 -0.32
98 AT5G07730 unknown protein; BEST Arabidopsis thaliana protein match
is: unknown protein (TAIR:AT5G61360.1); Has 30201 Blast
hits to 17322 proteins in 780 species: Archae - 12;
Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants -
5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI
BLink).		 0.65 0.31 -0.29
99 AT4G13260 Flavin-binding monooxygenase family protein YUCCA2 0.65 0.33 -0.31
100 AT4G36960 RNA-binding (RRM/RBD/RNP motifs) family protein 0.65 0.29 -0.34
101 AT3G26750 CONTAINS InterPro DOMAIN/s: Ubiquitin-conjugating enzyme
E2C-binding protein (InterPro:IPR019193); Has 26 Blast hits
to 25 proteins in 9 species: Archae - 0; Bacteria - 0;
Metazoa - 0; Fungi - 0; Plants - 26; Viruses - 0; Other
Eukaryotes - 0 (source: NCBI BLink).		 -0.65 0.32 -0.3
102 AT1G76930 extensin 4 EXTENSIN 1, extensin 4, extensin
1, extensin 4, OBP3-RESPONSIVE
GENE 5		 -0.64 0.32 -0.31
103 AT2G26480 UDP-glucosyl transferase 76D1 UDP-glucosyl transferase 76D1 -0.63 0.32 -0.29
104 AT2G19990 pathogenesis-related protein-1-like pathogenesis-related
protein-1-like		 -0.62 0.3 -0.3
105 AT3G50300 HXXXD-type acyl-transferase family protein -0.62 0.31 -0.31
106 AT2G32280 Protein of unknown function (DUF1218) -0.62 0.32 -0.31
107 AT2G41810 Protein of unknown function, DUF642 -0.61 0.34 -0.31
108 AT2G35270 Predicted AT-hook DNA-binding family protein GIANT KILLER -0.61 0.31 -0.34
109 AT2G25980 Mannose-binding lectin superfamily protein -0.61 0.32 -0.32
110 AT5G40780 lysine histidine transporter 1 lysine histidine transporter 1 -0.61 0.33 -0.31
111 AT3G20840 Integrase-type DNA-binding superfamily protein PLETHORA 1 -0.61 0.32 -0.31
112 AT5G05960 Bifunctional inhibitor/lipid-transfer protein/seed storage
2S albumin superfamily protein		 -0.61 0.32 -0.31
113 AT2G47460 myb domain protein 12 MYB DOMAIN PROTEIN 12, myb domain
protein 12, PRODUCTION OF FLAVONOL
GLYCOSIDES 1		 -0.6 0.31 -0.31
114 AT1G79580 NAC (No Apical Meristem) domain transcriptional regulator
superfamily protein		 Arabidopsis NAC domain containing
protein 33, SOMBRERO		 -0.6 0.32 -0.33
115 AT3G14280 unknown protein; Has 51 Blast hits to 51 proteins in 13
species: Archae - 0; Bacteria - 0; Metazoa - 0; Fungi - 0;
Plants - 51; Viruses - 0; Other Eukaryotes - 0 (source:
NCBI BLink).		 -0.6 0.34 -0.32
116 AT3G48410 alpha/beta-Hydrolases superfamily protein -0.6 0.3 -0.33
117 AT4G33100 CONTAINS InterPro DOMAIN/s: Mitochondrial
distribution/morphology family 35/apoptosis
(InterPro:IPR007918); Has 214 Blast hits to 214 proteins in
102 species: Archae - 0; Bacteria - 0; Metazoa - 110; Fungi
- 69; Plants - 29; Viruses - 0; Other Eukaryotes - 6
(source: NCBI BLink).		 -0.6 0.34 -0.32
118 AT4G35030 Protein kinase superfamily protein -0.6 0.31 -0.33
119 AT3G50640 unknown protein; BEST Arabidopsis thaliana protein match
is: unknown protein (TAIR:AT5G66800.1); Has 67 Blast hits
to 67 proteins in 10 species: Archae - 0; Bacteria - 0;
Metazoa - 0; Fungi - 0; Plants - 67; Viruses - 0; Other
Eukaryotes - 0 (source: NCBI BLink).		 -0.59 0.33 -0.32
120 AT1G67760 TCP-1/cpn60 chaperonin family protein -0.59 0.31 -0.3
121 AT5G12970 Calcium-dependent lipid-binding (CaLB domain) plant
phosphoribosyltransferase family protein		 -0.58 0.32 -0.31
122 AT5G27000 kinesin 4 kinesin 4, KINESIN-LIKE PROTEIN IN
ARABIDOPSIS THALIANA D		 -0.58 0.31 -0.31
123 AT5G54020 Cysteine/Histidine-rich C1 domain family protein -0.58 0.32 -0.33
124 AT3G26760 NAD(P)-binding Rossmann-fold superfamily protein -0.57 0.31 -0.31
125 AT5G38700 unknown protein; FUNCTIONS IN: molecular_function unknown;
INVOLVED IN: biological_process unknown; LOCATED IN:
mitochondrion; EXPRESSED IN: 10 plant structures; EXPRESSED
DURING: LP.04 four leaves visible, LP.10 ten leaves
visible, petal differentiation and expansion stage, LP.08
eight leaves visible, LP.12 twelve leaves visible; BEST
Arabidopsis thaliana protein match is: unknown protein
(TAIR:AT4G02170.1); Has 64 Blast hits to 64 proteins in 13
species: Archae - 0; Bacteria - 0; Metazoa - 0; Fungi - 0;
Plants - 64; Viruses - 0; Other Eukaryotes - 0 (source:
NCBI BLink).		 -0.57 0.31 -0.31
126 AT1G74500 activation-tagged BRI1(brassinosteroid-insensitive
1)-suppressor 1		 activation-tagged
BRI1(brassinosteroid-insensitive
1)-suppressor 1, activation-tagged
BRI1(brassinosteroid-insensitive
1)-suppressor 1, TARGET OF
MONOPTEROS 7		 -0.57 0.32 -0.3
127 AT1G56020 unknown protein; BEST Arabidopsis thaliana protein match
is: unknown protein (TAIR:AT3G12970.1); Has 3011 Blast hits
to 958 proteins in 192 species: Archae - 0; Bacteria - 193;
Metazoa - 479; Fungi - 286; Plants - 158; Viruses - 8;
Other Eukaryotes - 1887 (source: NCBI BLink).		 -0.56 0.3 -0.31
128 AT3G46720 UDP-Glycosyltransferase superfamily protein -0.56 0.34 -0.31
129 AT4G22250 RING/U-box superfamily protein -0.56 0.29 -0.33
130 AT1G34110 Leucine-rich receptor-like protein kinase family protein -0.56 0.32 -0.32
131 AT1G78100 F-box family protein auxin up-regulated f-box protein 1 -0.55 0.33 -0.32
132 AT2G25160 cytochrome P450, family 82, subfamily F, polypeptide 1 cytochrome P450, family 82,
subfamily F, polypeptide 1		 -0.55 0.31 -0.3
133 AT2G23060 Acyl-CoA N-acyltransferases (NAT) superfamily protein -0.55 0.33 -0.31
134 AT5G18070 phosphoglucosamine mutase-related DNA-DAMAGE-REPAIR/TOLERATION 101 -0.55 0.31 -0.32
135 AT2G47140 NAD(P)-binding Rossmann-fold superfamily protein AtSDR5, short-chain dehydrogenase
reductase 5		 -0.55 0.32 -0.31
136 AT5G07190 seed gene 3 seed gene 3 -0.55 0.31 -0.32
Metabolite information
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  CID Metabolite name Pathway Information Correlation link
Compound name Stereochemistry Aracyc name pcc 2.5% 97.5% PPI
137 C0035 4-Methoxyindol-3-ylmethylglucosinolate - 4-Methoxy-3-indolylmethyl glucosinolate glucosinolate biosynthesis from tryptophan,
indole glucosinolate breakdown (active in intact plant cell) 		-0.79 0.46 -0.42 C0035
138 C0121 Isoheptylglucosinolate - - - -0.7 0.44 -0.44