Analysis of EF-hand-containing proteins in Arabidopsis

Day, Irene S; Reddy, Vaka S; Shad Ali, Gul; Reddy, ASN

doi:10.1186/gb-2002-3-10-research0056

Table 1 EF-hand-containing proteins (excluding CPKs and CRKs) in Arabidopsis

From: Analysis of EF-hand-containing proteins in Arabidopsis

ID number^§	Size (amino acids)	Number of EF hands	Domains^*/remarks^†	Targeting^‡	Published name	References
Group I
At1g02150	638	1	PPR repeats, NLS	sc (.616)
At1g06220	987	2	Elongation factor aEF-2
At5g25230	973	1	ATP_GTP_A, EFG_C, GTP_EFTU(_D2)
At1g17090	93	1	-	sc (.944)
At1g55040	849	1	Zn-finger in Ranbp and others	ch (.823)
At1g74430	271	1	Myb DNA-binding domain
At2g03150	1276	1	-	mt (.870)
At5g40690	210	1	-	mt (.656)
At3g13500	110	1	-
At1g69030	320	1	-
At3g59820	755	1	-	mt (.666)
At1g73440	254	2	Josephin, UIM	ch (.941)
At3g07740	548	1	Zinc finger, Myb DNA-binding, GatC
At5g06260	424	1	-
At4g00140	257	1	-	ch (.792)
At1g20760	1019	2	EPS15 repeat, pfkB
At1g21630	1181	4	EPS15 repeat
At3g20290	485	2	ATP_GTP_A, EPS15, NLS_BP
At4g05520	514	1	EPS15 repeat, dynamin family
At1g47550	861	1	NLS_BP
At1g47560	1564	1	NLS_BP
At3g59270	335	1	-
At5g41840	540	1	F-box domain
Group II
At1g02270	484	1	-
At5g54130	232	1	-
At5g46830	511	1	bHLH
At1g05150	808	1	Zinc finger, TPR/put O-GlcNAc transferase
At2g32450	802	1	Zinc finger, TPR/put O-GlcNAc transferase
At2g35380	336	1	Plant peroxidase	sc (.960)
At1g20490	530	1	AMP-dependent synthetase and ligase
At1g20510	546	1	-	ch (.747)
At1g21540	550	1	AMP-dependent synthetase and ligase
At1g23160	578	1	-
At3g04860	289	1	-	ch (.666)
At5g28150	289	1	-	ch (.651)
At1g44780	471	1	NLS_BP
At3g01780	1192	1	-
At3g02270	676	1	eIF4-gamma/eIF
At5g64060	356	1	No apical meristem protein
At4g05110	394	1	Nucleoside_tran
At4g05120	418	1	Nucleoside_tran
At4g05140	419	1	Nucleoside_tran
At5g22840	538	1	Eukaryotic protein kinase
At5g12120	619	1	Ubiquitin-associated domain	ch (.811)
At1g64850	162	1	-
At3g46220	804	1	Biotin operon repressor
At3g44330	565	1	-	sc (.697)
At5g21130	281	1	ATP synthase alpha and beta subunit
At3g14270	1791	1	FYVE, PIP5K
At3g32010	603	1	ATHILA
At3g32880	503	1	ATHILA
At3g32970	289	1	ATHILA
At4g08080	561	1	-
At4g08050	1428	1	-
At4g03790	1064	1	ATHILA
At1g80680	1032	1	Aminoacyl-transfer RNA syn class II
At2g30110	1080	1	UBACT, ThiF_family
At5g46360	260	1	Potassium channel/KCO1-like
At5g46370	443	1	Potassium channel/KCO1-like
At5g55630	363	1^¶	Potassium channel	ch (.772)	KCO1	[31]
At2g35800	844	1	Mitoch_carrier
At5g07320	479	4	Mitoch_carrier, Graves disease
At5g51050	487	2	Mitoch_carrier, Adptrnslcase	ch (.621)
At5g61810	476	4	Mitoch_carrier
At1g33790	745	1	Jacalin-related lectin domain
At5g28340	390	2	PPR repeats
At5g28380	283	2	PPR repeats
At5g58670	559	1	PIPLC		AtPLC1	[29,42]
At4g26700	687	1	Calponin homology		ATFIM1	[25]
At5g55400	714	1	Calponin homology
Group III
At1g03960	534	1	/protein phosphatase 2A group
At5g44090	538	2	/protein phosphatase 2A group			[58]
At1g54450	535	2	/protein phosphatase 2A group
At5g28850	536	3	/protein phosphatase 2A group
At5g28900	536	3	/protein phosphatase 2A group
At5g18580	464	3	NLS_BP
At5g49480	160	3	/NaCl-inducible Ca2+ binding protein-like		AtCP1	[35]
At1g32410	1048	1	PPR repeats	sc (.813)
At3g18430	175	1	-
At1g64480	214	3	Recoverin		CBL8	[13]
At5g24270	222	3	-		CBL4	[51]
At4g33000	246	3	Recoverin/CBL-like	sc (.931)
At4g16350	227^¥	3^#	-		CBL6	[13]
At5g55990	226	3	-		CBL3	[23]
At4g26560	214	3	Recoverin		CBL7	[13]
At4g26570	226	3	-		CBL2	[23]
At4g17615	252	3	Recoverin		CBL1	[23]
At5g47100	213	2	Recoverin		CBL9	[13]
At4g01420	192	3	-		CBL5	[13]
At1g54530	127	1	-
At2g44310	142	2	-
At5g28830	324	2	-
At5g22760	1516	1	PHD-finger, DDT domain
At4g38810	375	2	-
At4g13440	154	2	-
At4g32060	498	4	-
At4g39420	781	1	-
At1g29020	1062	4	-	sc (.939)
At2g34020	462	2		sc (.965)
At2g34030	423	2		mt (.648)
At1g53210	574	2	-	sc (.907)
At4g25970	628	2	PS_Dcrbxylase, Porpobil_deam	ch (.849)
At5g57190	615	4	PS_Dcrbxylase, Porpobil_deam
At2g46600	135^f	1	-		KIC	Unpublished
At4g27280	130	1	-
At5g54490	127	1	-
At3g17470	570	2	-
At5g62250	549	1	-
At4g27790	345	6	ER_TARGET	sc (.941)
At5g08580	391	4	-	sc (.631)
Group IV
At1g05990	150	4	-
At4g03290	154	4	-
At2g43290	169	4	-
At3g59440	195	4	-	sc (.844)
At3g59450	148	1	-
At3g07490	153	4	-
At4g12860	152	4	-
At1g18210	170	4	-
At1g73630	163	4	-
At1g66400	157	4	Calflagin
At5g37770	161	4	-		TCH2	[20]
At2g36180	146	4	-
At5g17470	146	4	Calflagin
At3g03400	137	3	-
At3g03410	131	4	-
At2g15680	187	4	Recoverin	ch (.725)
At1g21550	155	3	-
At4g20780	191	3	-
At5g44460	181	3	-
At1g12310	148	3	-
At1g62820	148	3	-
At1g66410	149	4	EPS15 repeat		CaM4	[17]
At5g37780	149	4	-		CaM1	[16]
At2g27030	149	4	EPS15 repeat		CaM5	[17]
At2g41110	149	4	EPS15 repeat		CaM2	[16]
At3g56800	149	4	EPS15 repeat		CaM3	[15]
At3g43810	149	4	EPS15 repeat		CaM7	[18]
N/A	149	4	EPS15 repeat		CaM6	[17]
At2g41090	191	4	-		CaBP-22	[17]
At3g22930	173	4	-	mt (.702)
At4g14640	151	4	-		CaM8	[18]
At2g41100	324	6	-		TCH-3	[20]
At3g51920	151	4	-		CaM9	[18]
At3g50360	169	4	-	mt (.609)	Centrin	[21]
At4g37010	167	4	/caltractin(centrin)-like	mt (.809)
At1g18530	157	4	Calflagin
At3g25600	161	4	Calflagin
At1g32250	166	4	Calflagin, recoverin
At3g03000	165	4	Calflagin
At2g41410	216	4	-	ch (.770)	PM129	[64]
At3g10190	209	4	-
At3g03430	83	2	Recoverin/pollen allergenBra r II
At5g17480	83	2	/Calcium-binding protein in pollen		APC1	[36]
At1g76640	159	4	-
At1g76650	177	3	-
At3g01830	146	2	-
At3g50770	205	4	-	ch (.970)
At5g42380	185	3	-	ch (.742)
At3g29000	194	2	S-100/ICaBP type CBP	sc (.954)
At5g39670	193	2	-	sc (.877)
At3g47480	183	2	Recoverin	sc (.956)
At1g24620	186	4	Calflagin
At3g24110	229	2	-
At4g26470	248	4	-
Group V
At2g27480	186	2	-
At3g10300	330	2	-
At5g04170	354	2	-
Group VI
At1g09090	838	2	Cytb-245 hc, Ferric_reduct/rboh-like		RbohB	[26]
At4g25090	863	2	Cytb-245 hc, Ferric_reduct/rboh-like
At5g51060	905	1	Cytb-245 hc, Ferric_reduct/rboh-like		RbohC	[26]
At5g07390	902	1	Cytb-245 hc, Ferric_reduct/rboh-like		RbohA	[26]
At5g47910	921	2	Cytb-245 hc, Ferric_reduct/rboh-like		RbohD	[26]
At1g64060	929	1	Cytb-245 hc, Ferric_reduct/rboh-like		RbohF	[26,27]
At1g19230	926	1	Cytb-245 hc, Ferric_reduct/rboh-like		RbohE	[26]
At3g45810	835	1	Cytb-245 hc, Ferric_reduct/rboh-like
At5g60010	839	2	Cytb-245 hc, Ferric_reduct/rboh-like
At2g47860	635	1	PTM, NPH3	ch (.809)
At3g44820	661	1	BTB/POZ domain
At5g05180	432	1	-
At5g13260	576	1	-	ch (.666)
At5g13960	624	1	SET-domain of transcriptional regulators
At3g05310	648	2	Small GTPase
At5g27540	648	2	Small GTPase
At3g63150	676	1	Small GTPase
At2g20800	582	1	Pyr_redox
At4g05020	583	1	FAD_pyr_redox
At4g28220	559	1	Pyr_redox	mt (.880)
At4g08000	609	1	En/Spm-like transposon proteins
At4g03560	724	2	Cation (ca, na) pore region, HLH_Myc
At1g02960	553	1	PTS_HPR_SER, NLS
At5g59230	186	1	-
At4g39560	343	1	F-box, Kelch repeat
At4g26080	434	1	Protein phosphatase 2C subfamily		ABI1	[34,78]
At5g07440	411	1	NAD-binding site, GLFV_dehydrog	mt (.680)	GDH2	[32]
At1g76250	434	1	-	sc (.648)
At5g44620	519	1	Cytochrome P450 enzyme, HLH_Myc
At1g01280	510	1	Cytochrome P450 enzyme	sc (.725)

The table is arranged by groups.^*Domains as identified by InterProScan [40]. ^†Remarks are from MAtDB [39] or the reference. ^‡Based on TargetP predictions [44]. Only signals with scores of 0.600 or above were included. mt, mitochondria; ch, chloroplast; sc, secretory pathway. ^§EF-hand motifs identified by only one database in InterProScan are in bold. ^¶Only one EF-hand found by InterProScan but two identified by Czempinski et al. [31]. ^¥Kudla et al. [23] report different protein sequence whose size and number of EF-hand domains varies from the MIPS database information. ^#There is a discrepancy between the MIPS database sequence and the experimentally determined size. N/A, not available; Adptrnslcase, adenine nucleotide translocator 1; ATHILA, Arabidopsis retrotransposon (ATHILA) ORF-1; ATP_GTP_A, ATP/GTP-binding site motif A; bHLH, basic helix-loop-helix dimerization domain; Calflagin, flagellar calcium-binding protein; Cytb-245 hc, cytochrome B-245 heavy chain; EFG_C, elongation factor G, carboxyl terminus; ER_TARGET, endoplasmic reticulum targeting seq; FAD_pyr_redox, FAD-dependent pyridine nucleotide-disulfide oxidoreductase; Ferric_reduct, ferric reductase-like transmembrane component; FYVE, FYVE An-finger, rabphilin/VPS27/FABI type; GatC, glutamyl-tRNA amidotransferase C subunit; GLFV_dehydrog, glutamate/leucine/phenylalanine/valine dehydrogenase; GTP_EFTU_D2, elongation factor Tu domain 2; HLH_Myc, Myc-type helix-loop-helix dimerization domain; Mitoch_carrier, mitochondrial energy transfer proteins; NLS_BP, nuclear localization signal, bipartite; Nucleoside_tran, delayed-early response protein/equilibrative nucleoside transporter; PIP5K, phosphatidylinositol-4-phosphate-5-kinase; PIPLC, phosphatidylinositol-specific phospholipase; pfkB, pfkB family of carbohydrate kinases; Porpobil_deam, porphobilinogen deaminase; PS_Dcrbxylase, phosphatidylserine decarboxylase; PTM, phosphopantetheine attachment site; PTS_HPR_SER, serine phosphorylation site in HPr protein; Pyr_redox, pyridine nucleotide-disulfide oxidoreductase; TM, transmembrane; ThiF_family, UBA/THIF-type NAD/FAD-binding fold; TPR, tetratricopeptide repeat; UBACT, ubiquitin-activating enzyme; UIM, ubiquitin-interacting motif.

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