c2pfam

AT2G17190.1 :

Domain Description Evalue Bits GA Start End
Ubiquitin_2 Ubiquitin-like domain 9.2E-05 13 23.10 18 86
Rad60-SLD Ubiquitin-2 like Rad60 SUMO-like 1.1E-10 32 23.70 20 87
ubiquitin Ubiquitin family 1.9E-25 79 20.70 20 87
UN_NPL4 Nuclear pore localisation protein NPL4 8.5E-05 13 21.90 21 64
Ubiquitin_5 Ubiquitin-like domain 7.9E-06 17 23.20 28 81
TBK1_ULD TANK binding kinase 1 ubiquitin-like domain 4.7E-06 17 31.00 31 72
DUF2407 Putative membrane protein (DUF2407) 1.5E-05 16 26.10 32 81
Rad60-SLD_2 Ubiquitin-2 like Rad60 SUMO-like 2.8E-05 15 23.00 37 87
RPN13_C UCH-binding domain 0.02 5 39.30 152 212
CSTF2_hinge Hinge domain of cleavage stimulation factor subunit 2 0.0044 8 27.00 153 207
DUF1400 Alpha/beta hydrolase of unknown function (DUF1400) 0.37 1 23.00 156 180
STI1 STI1 domain 0.0012 9 29.10 162 186
STI1 STI1 domain 0.00064 10 29.10 162 194
GerD Spore germination GerD central core domain 0.011 6 29.50 172 197
Mod_r Modifier of rudimentary (Mod(r)) protein 0.083 3 27.00 174 205
STI1 STI1 domain 0.12 3 29.10 188 199
RDM RFPL defining motif (RDM) 0.79 0 22.80 189 201
STI1 STI1 domain 1.5E-05 15 29.10 193 235
GerD Spore germination GerD central core domain 0.7 0 29.50 207 234
RPN13_C UCH-binding domain 0.0091 7 39.30 365 442
GerD Spore germination GerD central core domain 0.00039 11 29.50 367 396
STI1 STI1 domain 1.3E-05 15 29.10 367 405
CSTF2_hinge Hinge domain of cleavage stimulation factor subunit 2 0.0038 8 27.00 376 402
Mod_r Modifier of rudimentary (Mod(r)) protein 0.84 0 27.00 381 403
RDM RFPL defining motif (RDM) 0.00021 12 22.80 394 413
STI1 STI1 domain 0.0091 6 29.10 399 434
DUF1400 Alpha/beta hydrolase of unknown function (DUF1400) 0.0054 7 23.00 400 470
Mod_r Modifier of rudimentary (Mod(r)) protein 0.0014 9 27.00 410 449
GerD Spore germination GerD central core domain 0.21 2 29.50 411 439
UBA UBA/TS-N domain 2.6E-14 43 21.10 497 532
CUE CUE domain 1 -1 20.40 499 506
HOIP-UBA HOIP UBA domain pair 0.00033 11 22.40 499 532
CUE CUE domain 1.1E-05 15 20.40 513 533

538

Ubiquitin_2
Rad60-SLD
ubiquitin
UN_NPL4
Ubiquitin_5
TBK1_ULD
DUF2407
Rad60-SLD_2
RPN13_C
CSTF2_hinge
DUF1400
STI1
STI1
GerD
Mod_r
STI1
RDM
STI1
GerD
RPN13_C
GerD
STI1
CSTF2_hinge
Mod_r
RDM
STI1
DUF1400
Mod_r
GerD
UBA
CUE
HOIP-UBA
CUE

References:

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.

STI1

CUE
9388185 Role of Cue1p in ubiquitination and degradation at the ER surface. Science 1997;278:1806-1809.
11023840 Proteins of the endoplasmic-reticulum-associated degradation pathway: domain detection and function prediction. Biochem J 2000;351:527-535.
12573224 Ubiquitin Signals Protein Trafficking via Interaction with a Novel Ubiquitin Binding Domain in the Membrane Fusion Regulator, Vps9p. Curr Biol 2003;13:258-262.
12628920 A ubiquitin-binding motif required for intramolecular monoubiquitylation, the CUE domain. EMBO J 2003;22:1273-1281.
12787503 Solution structure of a CUE-ubiquitin complex reveals a conserved mode of ubiquitin binding. Cell 2003;113:621-630.

RPN13_C

UBA
9846873 Structure of a human DNA repair protein UBA domain that interacts with HIV-1 Vpr. Nat Struct Biol 1998;5:1042-1047.
10413400 Comparative genomics of the Archaea (Euryarchaeota): evolution of conserved protein families, the stable core, and the variable shell. Genome Res 1999;9:608-628.
8596629 The structure of the Escherichia coli EF-Tu.EF-Ts complex at 2.5 A resolution. Nature 1996;379:511-518.

Ubiquitin_2

CSTF2_hinge

Ubiquitin_5

DUF1400

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.

DUF2407

GerD

Rad60-SLD_2

HOIP-UBA

TBK1_ULD

Mod_r
7651329 Modifier of rudimentary p1, mod(r)p1, a trans-acting regulatory mutation of rudimentary. Mol Gen Genet 1995;248:69-78.
15240819 The growth-regulatory protein HCRP1/hVps37A is a subunit of mammalian ESCRT-I and mediates receptor down-regulation. Mol Biol Cell 2004;15:4337-4346.

UN_NPL4
17491009 Detailed structural insights into the p97-Npl4-Ufd1 interface. J Biol Chem. 2007;282:21361-21369.

RDM
18656177 Evolutionary Forces Shape the Human RFPL1,2,3 Genes toward a Role in Neocortex Development. Am J Hum Genet. 2008; [Epub ahead of print]

Domain	Description	Evalue	Bits	GA	Start	End
Ubiquitin_2	Ubiquitin-like domain	9.2E-05	13	23.10	18	86
Rad60-SLD	Ubiquitin-2 like Rad60 SUMO-like	1.1E-10	32	23.70	20	87
ubiquitin	Ubiquitin family	1.9E-25	79	20.70	20	87
UN_NPL4	Nuclear pore localisation protein NPL4	8.5E-05	13	21.90	21	64
Ubiquitin_5	Ubiquitin-like domain	7.9E-06	17	23.20	28	81
TBK1_ULD	TANK binding kinase 1 ubiquitin-like domain	4.7E-06	17	31.00	31	72
DUF2407	Putative membrane protein (DUF2407)	1.5E-05	16	26.10	32	81
Rad60-SLD_2	Ubiquitin-2 like Rad60 SUMO-like	2.8E-05	15	23.00	37	87
RPN13_C	UCH-binding domain	0.02	5	39.30	152	212
CSTF2_hinge	Hinge domain of cleavage stimulation factor subunit 2	0.0044	8	27.00	153	207
DUF1400	Alpha/beta hydrolase of unknown function (DUF1400)	0.37	1	23.00	156	180
STI1	STI1 domain	0.0012	9	29.10	162	186
STI1	STI1 domain	0.00064	10	29.10	162	194
GerD	Spore germination GerD central core domain	0.011	6	29.50	172	197
Mod_r	Modifier of rudimentary (Mod(r)) protein	0.083	3	27.00	174	205
STI1	STI1 domain	0.12	3	29.10	188	199
RDM	RFPL defining motif (RDM)	0.79	0	22.80	189	201
STI1	STI1 domain	1.5E-05	15	29.10	193	235
GerD	Spore germination GerD central core domain	0.7	0	29.50	207	234
RPN13_C	UCH-binding domain	0.0091	7	39.30	365	442
GerD	Spore germination GerD central core domain	0.00039	11	29.50	367	396
STI1	STI1 domain	1.3E-05	15	29.10	367	405
CSTF2_hinge	Hinge domain of cleavage stimulation factor subunit 2	0.0038	8	27.00	376	402
Mod_r	Modifier of rudimentary (Mod(r)) protein	0.84	0	27.00	381	403
RDM	RFPL defining motif (RDM)	0.00021	12	22.80	394	413
STI1	STI1 domain	0.0091	6	29.10	399	434
DUF1400	Alpha/beta hydrolase of unknown function (DUF1400)	0.0054	7	23.00	400	470
Mod_r	Modifier of rudimentary (Mod(r)) protein	0.0014	9	27.00	410	449
GerD	Spore germination GerD central core domain	0.21	2	29.50	411	439
UBA	UBA/TS-N domain	2.6E-14	43	21.10	497	532
CUE	CUE domain	1	-1	20.40	499	506
HOIP-UBA	HOIP UBA domain pair	0.00033	11	22.40	499	532
CUE	CUE domain	1.1E-05	15	20.40	513	533