c2pfam

AT3G04260.1 :

Domain Description Evalue Bits GA Start End
PPR_long Pentacotripeptide-repeat region of PRORP 4E-05 13 27.00 85 171
PPR_3 Pentatricopeptide repeat domain 0.31 1 25.00 146 171
Vps54_N Vacuolar-sorting protein 54, of GARP complex 0.05 3 27.00 150 198
PPR_2 PPR repeat family 0.74 0 30.00 182 200
PPR_long Pentacotripeptide-repeat region of PRORP 1.3E-06 18 27.00 210 344
PPR_2 PPR repeat family 0.29 1 30.00 215 241
PPR_1 PPR repeat 1 -1 23.80 218 234
Vps54_N Vacuolar-sorting protein 54, of GARP complex 0.00083 8 27.00 218 305
PPR PPR repeat 0.38 1 25.00 223 241
PPR_3 Pentatricopeptide repeat domain 0.18 2 25.00 223 256
PPR_3 Pentatricopeptide repeat domain 0.00056 10 25.00 237 294
PPR_2 PPR repeat family 2.4E-06 18 30.00 247 294
PPR PPR repeat 0.98 0 25.00 249 274
PPR_1 PPR repeat 0.0065 6 23.80 280 297
PPR_3 Pentatricopeptide repeat domain 8.4E-05 12 25.00 280 334
PPR_2 PPR repeat family 2.2E-06 18 30.00 282 334
PPR PPR repeat 0.33 1 25.00 286 305
Rcd1 Cell differentiation family, Rcd1-like 0.00014 11 27.60 298 348
PPR_1 PPR repeat 0.04 4 23.80 319 336
PPR_2 PPR repeat family 0.064 3 30.00 373 397
PPR PPR repeat 0.014 6 25.00 374 396
PPR_1 PPR repeat 0.065 3 23.80 376 385
DUF3368 Domain of unknown function (DUF3368) 0.067 3 27.30 377 395
SAP SAP domain 1.7E-11 34 22.60 537 569
CDC27 DNA polymerase subunit Cdc27 0.0047 6 24.40 627 750
NOA36 NOA36 protein 0.0088 5 25.00 641 676
CDC45 CDC45-like protein 0.0028 6 26.70 641 729
PPR PPR repeat 0.076 3 25.00 742 756
PPR_2 PPR repeat family 0.46 1 30.00 743 757
PPR_long Pentacotripeptide-repeat region of PRORP 0.069 2 27.00 835 878
PPR_2 PPR repeat family 0.032 4 30.00 849 880
PPR_3 Pentatricopeptide repeat domain 0.013 5 25.00 849 878
PPR PPR repeat 0.75 0 25.00 853 876
DUF3368 Domain of unknown function (DUF3368) 0.0099 6 27.30 854 889

910

PPR_long
PPR_3
Vps54_N
PPR_2
PPR_long
PPR_2
PPR_1
Vps54_N
PPR
PPR_3
PPR_3
PPR_2
PPR
PPR_1
PPR_3
PPR_2
PPR
Rcd1
PPR_1
PPR_2
PPR
PPR_1
DUF3368
SAP
CDC27
NOA36
CDC45
PPR
PPR_2
PPR_long
PPR_2
PPR_3
PPR
DUF3368

References:

Rcd1
9671458 An RNA binding protein negatively controlling differentiation in fission yeast. Mol Cell Biol 1998;18:4488-4498.
9447985 Novel factor highly conserved among eukaryotes controls sexual development in fission yeast. Mol Cell Biol 1998;18:887-895.
12356739 Mammalian Rcd1 is a novel transcriptional cofactor that mediates retinoic acid-induced cell differentiation. EMBO J 2002;21:5235-5244.

SAP
10694879 SAP - a putative DNA-binding motif involved in chromosomal organization. Trends Biochem Sci 2000;25:112-114.
16797182 Conserved ribonuclease, Eri1, negatively regulates heterochromatin assembly in fission yeast. Curr Biol. 2006;16:1459-1464.

PPR_long

PPR_3

PPR_2

PPR_1

NOA36

Vps54_N

CDC45
9660782 The human homolog of Saccharomyces cerevisiae CDC45. J Biol Chem 1998;273:18205-18209.

CDC27
15579205 Mapping and mutation of the conserved DNA polymerase interaction motif (DPIM) located in the C-terminal domain of fission yeast DNA polymerase delta subunit Cdc27. BMC Mol Biol. 2004;5:21.

PPR
7664742 The product of the nuclear gene PET309 is required for translation of mature mRNA and stability or production of intron-containing RNAs derived from the mitochondrial COX1 locus of Saccharomyces cerevisiae. EMBO J 1995;14:4031-4043.
8039510 A nuclear mutation in maize blocks the processing and translation of several chloroplast mRNAs and provides evidence for the differential translation of alternative mRNA forms. EMBO J 1994;13:3170-3181.
10664580 The PPR motif - a TPR-related motif prevalent in plant organellar proteins. Trends Biochem Sci 2000;25:45-47.

DUF3368

Domain	Description	Evalue	Bits	GA	Start	End
PPR_long	Pentacotripeptide-repeat region of PRORP	4E-05	13	27.00	85	171
PPR_3	Pentatricopeptide repeat domain	0.31	1	25.00	146	171
Vps54_N	Vacuolar-sorting protein 54, of GARP complex	0.05	3	27.00	150	198
PPR_2	PPR repeat family	0.74	0	30.00	182	200
PPR_long	Pentacotripeptide-repeat region of PRORP	1.3E-06	18	27.00	210	344
PPR_2	PPR repeat family	0.29	1	30.00	215	241
PPR_1	PPR repeat	1	-1	23.80	218	234
Vps54_N	Vacuolar-sorting protein 54, of GARP complex	0.00083	8	27.00	218	305
PPR	PPR repeat	0.38	1	25.00	223	241
PPR_3	Pentatricopeptide repeat domain	0.18	2	25.00	223	256
PPR_3	Pentatricopeptide repeat domain	0.00056	10	25.00	237	294
PPR_2	PPR repeat family	2.4E-06	18	30.00	247	294
PPR	PPR repeat	0.98	0	25.00	249	274
PPR_1	PPR repeat	0.0065	6	23.80	280	297
PPR_3	Pentatricopeptide repeat domain	8.4E-05	12	25.00	280	334
PPR_2	PPR repeat family	2.2E-06	18	30.00	282	334
PPR	PPR repeat	0.33	1	25.00	286	305
Rcd1	Cell differentiation family, Rcd1-like	0.00014	11	27.60	298	348
PPR_1	PPR repeat	0.04	4	23.80	319	336
PPR_2	PPR repeat family	0.064	3	30.00	373	397
PPR	PPR repeat	0.014	6	25.00	374	396
PPR_1	PPR repeat	0.065	3	23.80	376	385
DUF3368	Domain of unknown function (DUF3368)	0.067	3	27.30	377	395
SAP	SAP domain	1.7E-11	34	22.60	537	569
CDC27	DNA polymerase subunit Cdc27	0.0047	6	24.40	627	750
NOA36	NOA36 protein	0.0088	5	25.00	641	676
CDC45	CDC45-like protein	0.0028	6	26.70	641	729
PPR	PPR repeat	0.076	3	25.00	742	756
PPR_2	PPR repeat family	0.46	1	30.00	743	757
PPR_long	Pentacotripeptide-repeat region of PRORP	0.069	2	27.00	835	878
PPR_2	PPR repeat family	0.032	4	30.00	849	880
PPR_3	Pentatricopeptide repeat domain	0.013	5	25.00	849	878
PPR	PPR repeat	0.75	0	25.00	853	876
DUF3368	Domain of unknown function (DUF3368)	0.0099	6	27.30	854	889