c2pfam

AT4G02890.1 :

Domain Description Evalue Bits GA Start End
Rad60-SLD Ubiquitin-2 like Rad60 SUMO-like 7.8E-19 58 23.70 1 71
Ubiquitin_4 Ubiquitin-like domain 0.017 6 22.80 1 32
Sde2_N_Ubi Silencing defective 2 N-terminal ubiquitin domain 0.0042 8 26.40 2 76
ubiquitin Ubiquitin family 2.2E-36 115 20.70 3 74
FlgD_ig FlgD Ig-like domain 0.037 5 27.00 7 35
Goodbye fungal STAND N-terminal Goodbye domain 0.2 3 24.80 7 35
Plexin_cytopl Plexin cytoplasmic RasGAP domain 0.043 3 20.10 8 32
Big_7 Bacterial Ig domain 0.065 5 24.10 8 34
DUF3861 Domain of Unknown Function with PDB structure (DUF3861) 0.016 6 27.00 9 50
ACT_5 ACT domain 0.022 6 27.00 11 30
Ubiquitin_2 Ubiquitin-like domain 1.3E-06 20 23.10 12 69
Tash_PEST Tash protein PEST motif 0.0072 8 22.40 12 21
DUF493 Protein of unknown function (DUF493) 0.15 4 21.90 12 35
ACT_4 ACT domain 0.08 5 27.00 12 36
PI3K_p85B PI3-kinase family, p85-binding domain 0.048 4 21.00 13 30
DUF2407 Putative membrane protein (DUF2407) 0.00035 12 26.10 13 59
Rad60-SLD_2 Ubiquitin-2 like Rad60 SUMO-like 0.00016 13 23.00 13 71
Ubiquitin_5 Ubiquitin-like domain 0.0001 14 23.20 14 73
TmoB Toluene-4-monooxygenase system protein B (TmoB) 0.0067 8 25.00 15 62
Cnl2_NKP2 Cnl2/NKP2 family protein 0.11 4 21.40 15 32
ProRS-C_2 Prolyl-tRNA synthetase, C-terminal 0.071 4 25.00 17 36
TBK1_ULD TANK binding kinase 1 ubiquitin-like domain 3.9E-05 15 31.00 17 51
Raf1_HTH Rubisco accumulation factor 1 helix turn helix domain 0.084 4 27.30 29 49
DUF969 Protein of unknown function (DUF969) 0.027 5 24.20 31 79
Ubiquitin_4 Ubiquitin-like domain 0.042 5 22.80 43 70
CFAP298 Cilia- and flagella-associated protein 298 0.062 5 21.50 43 65
UDP-g_GGTase UDP-glucose:Glycoprotein Glucosyltransferase 0.011 7 21.20 49 97
Plexin_cytopl Plexin cytoplasmic RasGAP domain 0.44 0 20.10 54 76
Methyltrans_RNA RNA methyltransferase 0.0019 8 21.00 60 118
Ubiquitin_4 Ubiquitin-like domain 0.017 6 22.80 77 108
Rad60-SLD Ubiquitin-2 like Rad60 SUMO-like 7.8E-19 58 23.70 77 147
Sde2_N_Ubi Silencing defective 2 N-terminal ubiquitin domain 0.0042 8 26.40 78 152
ubiquitin Ubiquitin family 2.2E-36 115 20.70 79 150
Plexin_cytopl Plexin cytoplasmic RasGAP domain 0.019 4 20.10 81 108
Goodbye fungal STAND N-terminal Goodbye domain 0.19 3 24.80 82 111
FlgD_ig FlgD Ig-like domain 0.035 5 27.00 83 111
Big_7 Bacterial Ig domain 0.061 5 24.10 83 110
DUF3861 Domain of Unknown Function with PDB structure (DUF3861) 0.015 7 27.00 85 126
Phage_sheath_1N Phage tail sheath protein beta-sandwich domain 0.13 4 31.40 85 99
ACT_5 ACT domain 0.02 6 27.00 86 106
Rad60-SLD_2 Ubiquitin-2 like Rad60 SUMO-like 0.00014 13 23.00 86 147
Ubiquitin_2 Ubiquitin-like domain 1.2E-06 20 23.10 87 145
NEAT Iron Transport-associated domain 0.00041 12 26.90 87 180
DUF493 Protein of unknown function (DUF493) 0.15 4 21.90 88 111
ACT_4 ACT domain 0.08 5 27.00 88 112
Tash_PEST Tash protein PEST motif 0.0072 8 22.40 88 97
PI3K_p85B PI3-kinase family, p85-binding domain 0.048 4 21.00 89 106
DUF2407 Putative membrane protein (DUF2407) 0.00026 13 26.10 89 135
Ubiquitin_5 Ubiquitin-like domain 9.6E-05 14 23.20 90 149
TmoB Toluene-4-monooxygenase system protein B (TmoB) 0.0067 8 25.00 91 138
Cnl2_NKP2 Cnl2/NKP2 family protein 0.11 4 21.40 91 108
ProRS-C_2 Prolyl-tRNA synthetase, C-terminal 0.071 4 25.00 93 112
TBK1_ULD TANK binding kinase 1 ubiquitin-like domain 3.7E-05 15 31.00 93 127
Raf1_HTH Rubisco accumulation factor 1 helix turn helix domain 0.084 4 27.30 105 125
DUF969 Protein of unknown function (DUF969) 0.027 5 24.20 107 155
Ubiquitin_4 Ubiquitin-like domain 0.042 5 22.80 119 146
CFAP298 Cilia- and flagella-associated protein 298 0.062 5 21.50 119 141
UDP-g_GGTase UDP-glucose:Glycoprotein Glucosyltransferase 0.011 7 21.20 125 173
Methyltrans_RNA RNA methyltransferase 0.0017 9 21.00 136 194
Ubiquitin_4 Ubiquitin-like domain 0.017 6 22.80 153 184
Rad60-SLD Ubiquitin-2 like Rad60 SUMO-like 7.8E-19 58 23.70 153 223
Sde2_N_Ubi Silencing defective 2 N-terminal ubiquitin domain 0.0045 8 26.40 154 228
ubiquitin Ubiquitin family 2.2E-36 115 20.70 155 226
Plexin_cytopl Plexin cytoplasmic RasGAP domain 0.02 4 20.10 157 184
Goodbye fungal STAND N-terminal Goodbye domain 0.19 3 24.80 158 187
FlgD_ig FlgD Ig-like domain 0.035 5 27.00 159 187
Big_7 Bacterial Ig domain 0.061 5 24.10 159 186
DUF3861 Domain of Unknown Function with PDB structure (DUF3861) 0.016 7 27.00 161 201
ACT_5 ACT domain 0.02 6 27.00 162 182
Rad60-SLD_2 Ubiquitin-2 like Rad60 SUMO-like 0.00014 13 23.00 162 223
Ubiquitin_2 Ubiquitin-like domain 1.2E-06 20 23.10 163 221
DUF493 Protein of unknown function (DUF493) 0.15 4 21.90 164 187
ACT_4 ACT domain 0.08 5 27.00 164 188
Tash_PEST Tash protein PEST motif 0.0072 8 22.40 164 173
PI3K_p85B PI3-kinase family, p85-binding domain 0.048 4 21.00 165 182
DUF2407 Putative membrane protein (DUF2407) 0.0004 12 26.10 165 211
Ubiquitin_5 Ubiquitin-like domain 0.00012 13 23.20 166 224
TmoB Toluene-4-monooxygenase system protein B (TmoB) 0.0067 8 25.00 167 214
Cnl2_NKP2 Cnl2/NKP2 family protein 0.11 4 21.40 167 184
ProRS-C_2 Prolyl-tRNA synthetase, C-terminal 0.071 4 25.00 169 188
TBK1_ULD TANK binding kinase 1 ubiquitin-like domain 3.8E-05 15 31.00 169 203
Raf1_HTH Rubisco accumulation factor 1 helix turn helix domain 0.084 4 27.30 181 201
DUF969 Protein of unknown function (DUF969) 0.25 2 24.20 183 227
Ubiquitin_4 Ubiquitin-like domain 0.042 5 22.80 195 222
CFAP298 Cilia- and flagella-associated protein 298 0.064 5 21.50 195 216

229

Rad60-SLD
Ubiquitin_4
Sde2_N_Ubi
ubiquitin
FlgD_ig
Goodbye
Plexin_cytopl
Big_7
DUF3861
ACT_5
Ubiquitin_2
Tash_PEST
DUF493
ACT_4
PI3K_p85B
DUF2407
Rad60-SLD_2
Ubiquitin_5
TmoB
Cnl2_NKP2
ProRS-C_2
TBK1_ULD
Raf1_HTH
DUF969
Ubiquitin_4
CFAP298
UDP-g_GGTase
Plexin_cytopl
Methyltrans_RNA
Ubiquitin_4
Rad60-SLD
Sde2_N_Ubi
ubiquitin
Plexin_cytopl
Goodbye
FlgD_ig
Big_7
DUF3861
Phage_sheath_1N
ACT_5
Rad60-SLD_2
Ubiquitin_2
NEAT
DUF493
ACT_4
Tash_PEST
PI3K_p85B
DUF2407
Ubiquitin_5
TmoB
Cnl2_NKP2
ProRS-C_2
TBK1_ULD
Raf1_HTH
DUF969
Ubiquitin_4
CFAP298
UDP-g_GGTase
Methyltrans_RNA
Ubiquitin_4
Rad60-SLD
Sde2_N_Ubi
ubiquitin
Plexin_cytopl
Goodbye
FlgD_ig
Big_7
DUF3861
ACT_5
Rad60-SLD_2
Ubiquitin_2
DUF493
ACT_4
Tash_PEST
PI3K_p85B
DUF2407
Ubiquitin_5
TmoB
Cnl2_NKP2
ProRS-C_2
TBK1_ULD
Raf1_HTH
DUF969
Ubiquitin_4
CFAP298

References:

DUF2407

ProRS-C_2
12578991 The structural basis of cysteine aminoacylation of tRNAPro by prolyl-tRNA synthetases. Proc Natl Acad Sci U S A. 2003;100:1673-1678.

Goodbye

UDP-g_GGTase
12649273 The UDP-glucose:Glycoprotein Glucosyltransferase Is Organized in at Least Two Tightly Bound Domains from Yeast to Mammals. J Biol Chem 2003;278:20540-20546.

DUF3861

DUF969

Rad60-SLD
15660128 Structures of the SUMO E1 provide mechanistic insights into SUMO activation and E2 recruitment to E1. EMBO J. 2005;24:439-451.
19363481 Molecular mimicry of SUMO promotes DNA repair. Nat Struct Mol Biol. 2009;16:509-516.

Cnl2_NKP2
17035632 Reconstruction of the kinetochore during meiosis in fission yeast Schizosaccharomyces pombe. Mol Biol Cell. 2006;17:5173-5184.

ubiquitin
3041007 Structure of ubiquitin refined at 1.8 A resolution. J Mol Biol 1987;194:531-544.
8107144 Structure of tetraubiquitin shows how multiubiquitin chains can be formed. J Mol Biol 1994;236:601-609.
9654451 Structure determination of the small ubiquitin-related modifier SUMO-1. J Mol Biol 1998;280:275-286.
9857030 Crystal structure of the human ubiquitin-like protein NEDD8 and interactions with ubiquitin pathway enzymes. J Biol Chem 1998;273:34983-34991.
12826399 A potential proteasome-interacting motif within the ubiquitin-like domain of parkin and other proteins. Trends Biochem Sci 2003;28:280-283.

TmoB
1885512 Cloning and characterization of a Pseudomonas mendocina KR1 gene cluster encoding toluene-4-monooxygenase. J Bacteriol 1991;173:5315-5327.

FlgD_ig

Phage_sheath_1N

DUF493

ACT_5

ACT_4

CFAP298

Ubiquitin_5

Ubiquitin_4

Ubiquitin_2

NEAT
12225586 NEAT: a domain duplicated in genes near the components of a putative Fe3+ siderophore transporter from Gram-positive pathogenic bacteria. Genome Biol 2002;3:RESEARCH0047

Methyltrans_RNA
16431987 Identification and characterization of RsmE, the founding member of a new RNA base methyltransferase family. RNA. 2006;12:426-434.

TBK1_ULD

Raf1_HTH

Rad60-SLD_2

Sde2_N_Ubi

Tash_PEST
11683409 Characterisation of a cluster of genes encoding Theileria annulata AT hook DNA-binding proteins and evidence for localisation to the host cell nucleus. J Cell Sci 2001;114:2747-2754.
15075278 A Theileria annulata DNA binding protein localized to the host cell nucleus alters the phenotype of a bovine macrophage cell line. Eukaryot Cell 2004;3:495-505.

PI3K_p85B

Plexin_cytopl
15239959 Semaphorin-plexin signaling guides patterning of the developing vasculature. Dev Cell 2004;7:117-123.
11959816 Caenorhabditis elegans PlexinA, PLX-1, interacts with transmembrane semaphorins and regulates epidermal morphogenesis. Development 2002;129:2053-2063.
8570614 A family of transmembrane proteins with homology to the MET-hepatocyte growth factor receptor. Proc Natl Acad Sci U S A 1996;93:674-678.
12559962 Plexin-A1 and plexin-B1 specifically interact at their cytoplasmic domains. Biochem Biophys Res Commun 2003;300:927-931.
11108845 The semaphorin 3A receptor may directly regulate the activity of small GTPases. FEBS Lett. 2000;486:68-72.

Big_7

Domain	Description	Evalue	Bits	GA	Start	End
Rad60-SLD	Ubiquitin-2 like Rad60 SUMO-like	7.8E-19	58	23.70	1	71
Ubiquitin_4	Ubiquitin-like domain	0.017	6	22.80	1	32
Sde2_N_Ubi	Silencing defective 2 N-terminal ubiquitin domain	0.0042	8	26.40	2	76
ubiquitin	Ubiquitin family	2.2E-36	115	20.70	3	74
FlgD_ig	FlgD Ig-like domain	0.037	5	27.00	7	35
Goodbye	fungal STAND N-terminal Goodbye domain	0.2	3	24.80	7	35
Plexin_cytopl	Plexin cytoplasmic RasGAP domain	0.043	3	20.10	8	32
Big_7	Bacterial Ig domain	0.065	5	24.10	8	34
DUF3861	Domain of Unknown Function with PDB structure (DUF3861)	0.016	6	27.00	9	50
ACT_5	ACT domain	0.022	6	27.00	11	30
Ubiquitin_2	Ubiquitin-like domain	1.3E-06	20	23.10	12	69
Tash_PEST	Tash protein PEST motif	0.0072	8	22.40	12	21
DUF493	Protein of unknown function (DUF493)	0.15	4	21.90	12	35
ACT_4	ACT domain	0.08	5	27.00	12	36
PI3K_p85B	PI3-kinase family, p85-binding domain	0.048	4	21.00	13	30
DUF2407	Putative membrane protein (DUF2407)	0.00035	12	26.10	13	59
Rad60-SLD_2	Ubiquitin-2 like Rad60 SUMO-like	0.00016	13	23.00	13	71
Ubiquitin_5	Ubiquitin-like domain	0.0001	14	23.20	14	73
TmoB	Toluene-4-monooxygenase system protein B (TmoB)	0.0067	8	25.00	15	62
Cnl2_NKP2	Cnl2/NKP2 family protein	0.11	4	21.40	15	32
ProRS-C_2	Prolyl-tRNA synthetase, C-terminal	0.071	4	25.00	17	36
TBK1_ULD	TANK binding kinase 1 ubiquitin-like domain	3.9E-05	15	31.00	17	51
Raf1_HTH	Rubisco accumulation factor 1 helix turn helix domain	0.084	4	27.30	29	49
DUF969	Protein of unknown function (DUF969)	0.027	5	24.20	31	79
Ubiquitin_4	Ubiquitin-like domain	0.042	5	22.80	43	70
CFAP298	Cilia- and flagella-associated protein 298	0.062	5	21.50	43	65
UDP-g_GGTase	UDP-glucose:Glycoprotein Glucosyltransferase	0.011	7	21.20	49	97
Plexin_cytopl	Plexin cytoplasmic RasGAP domain	0.44	0	20.10	54	76
Methyltrans_RNA	RNA methyltransferase	0.0019	8	21.00	60	118
Ubiquitin_4	Ubiquitin-like domain	0.017	6	22.80	77	108
Rad60-SLD	Ubiquitin-2 like Rad60 SUMO-like	7.8E-19	58	23.70	77	147
Sde2_N_Ubi	Silencing defective 2 N-terminal ubiquitin domain	0.0042	8	26.40	78	152
ubiquitin	Ubiquitin family	2.2E-36	115	20.70	79	150
Plexin_cytopl	Plexin cytoplasmic RasGAP domain	0.019	4	20.10	81	108
Goodbye	fungal STAND N-terminal Goodbye domain	0.19	3	24.80	82	111
FlgD_ig	FlgD Ig-like domain	0.035	5	27.00	83	111
Big_7	Bacterial Ig domain	0.061	5	24.10	83	110
DUF3861	Domain of Unknown Function with PDB structure (DUF3861)	0.015	7	27.00	85	126
Phage_sheath_1N	Phage tail sheath protein beta-sandwich domain	0.13	4	31.40	85	99
ACT_5	ACT domain	0.02	6	27.00	86	106
Rad60-SLD_2	Ubiquitin-2 like Rad60 SUMO-like	0.00014	13	23.00	86	147
Ubiquitin_2	Ubiquitin-like domain	1.2E-06	20	23.10	87	145
NEAT	Iron Transport-associated domain	0.00041	12	26.90	87	180
DUF493	Protein of unknown function (DUF493)	0.15	4	21.90	88	111
ACT_4	ACT domain	0.08	5	27.00	88	112
Tash_PEST	Tash protein PEST motif	0.0072	8	22.40	88	97
PI3K_p85B	PI3-kinase family, p85-binding domain	0.048	4	21.00	89	106
DUF2407	Putative membrane protein (DUF2407)	0.00026	13	26.10	89	135
Ubiquitin_5	Ubiquitin-like domain	9.6E-05	14	23.20	90	149
TmoB	Toluene-4-monooxygenase system protein B (TmoB)	0.0067	8	25.00	91	138
Cnl2_NKP2	Cnl2/NKP2 family protein	0.11	4	21.40	91	108
ProRS-C_2	Prolyl-tRNA synthetase, C-terminal	0.071	4	25.00	93	112
TBK1_ULD	TANK binding kinase 1 ubiquitin-like domain	3.7E-05	15	31.00	93	127
Raf1_HTH	Rubisco accumulation factor 1 helix turn helix domain	0.084	4	27.30	105	125
DUF969	Protein of unknown function (DUF969)	0.027	5	24.20	107	155
Ubiquitin_4	Ubiquitin-like domain	0.042	5	22.80	119	146
CFAP298	Cilia- and flagella-associated protein 298	0.062	5	21.50	119	141
UDP-g_GGTase	UDP-glucose:Glycoprotein Glucosyltransferase	0.011	7	21.20	125	173
Methyltrans_RNA	RNA methyltransferase	0.0017	9	21.00	136	194
Ubiquitin_4	Ubiquitin-like domain	0.017	6	22.80	153	184
Rad60-SLD	Ubiquitin-2 like Rad60 SUMO-like	7.8E-19	58	23.70	153	223
Sde2_N_Ubi	Silencing defective 2 N-terminal ubiquitin domain	0.0045	8	26.40	154	228
ubiquitin	Ubiquitin family	2.2E-36	115	20.70	155	226
Plexin_cytopl	Plexin cytoplasmic RasGAP domain	0.02	4	20.10	157	184
Goodbye	fungal STAND N-terminal Goodbye domain	0.19	3	24.80	158	187
FlgD_ig	FlgD Ig-like domain	0.035	5	27.00	159	187
Big_7	Bacterial Ig domain	0.061	5	24.10	159	186
DUF3861	Domain of Unknown Function with PDB structure (DUF3861)	0.016	7	27.00	161	201
ACT_5	ACT domain	0.02	6	27.00	162	182
Rad60-SLD_2	Ubiquitin-2 like Rad60 SUMO-like	0.00014	13	23.00	162	223
Ubiquitin_2	Ubiquitin-like domain	1.2E-06	20	23.10	163	221
DUF493	Protein of unknown function (DUF493)	0.15	4	21.90	164	187
ACT_4	ACT domain	0.08	5	27.00	164	188
Tash_PEST	Tash protein PEST motif	0.0072	8	22.40	164	173
PI3K_p85B	PI3-kinase family, p85-binding domain	0.048	4	21.00	165	182
DUF2407	Putative membrane protein (DUF2407)	0.0004	12	26.10	165	211
Ubiquitin_5	Ubiquitin-like domain	0.00012	13	23.20	166	224
TmoB	Toluene-4-monooxygenase system protein B (TmoB)	0.0067	8	25.00	167	214
Cnl2_NKP2	Cnl2/NKP2 family protein	0.11	4	21.40	167	184
ProRS-C_2	Prolyl-tRNA synthetase, C-terminal	0.071	4	25.00	169	188
TBK1_ULD	TANK binding kinase 1 ubiquitin-like domain	3.8E-05	15	31.00	169	203
Raf1_HTH	Rubisco accumulation factor 1 helix turn helix domain	0.084	4	27.30	181	201
DUF969	Protein of unknown function (DUF969)	0.25	2	24.20	183	227
Ubiquitin_4	Ubiquitin-like domain	0.042	5	22.80	195	222
CFAP298	Cilia- and flagella-associated protein 298	0.064	5	21.50	195	216