c2pfam

AT5G35970.1 :

Domain Description Evalue Bits GA Start End
DUF4116 Domain of unknown function (DUF4116) 0.002 9 24.90 97 115
UvrD_C UvrD-like helicase C-terminal domain 0.68 0 25.60 182 253
Bacillus_HBL Bacillus haemolytic enterotoxin (HBL) 0.0031 8 25.00 197 272
TrwB_AAD_bind Type IV secretion-system coupling protein DNA-binding domain 0.73 -1 19.90 217 239
AAA_16 AAA ATPase domain 0.62 1 32.60 217 314
UPF0184 Uncharacterised protein family (UPF0184) 0.00055 11 20.90 258 299
AAA_11 AAA domain 0 179 27.00 487 703
AAA_30 AAA domain 1.1E-15 49 27.00 488 700
T2SSE Type II/IV secretion system protein 0.00018 12 24.90 490 537
AAA_19 AAA domain 3.4E-13 41 25.10 491 632
DEAD DEAD/DEAH box helicase 6.5E-06 17 20.60 491 557
UvrD-helicase UvrD/REP helicase 2.1E-06 18 20.30 491 581
TrwB_AAD_bind Type IV secretion-system coupling protein DNA-binding domain 2.7E-05 14 19.90 495 545
ResIII Type III restriction enzyme, res subunit 1E-07 23 20.90 495 679
AAA_7 P-loop containing dynein motor region 0.00063 10 25.80 496 534
AAA_16 AAA ATPase domain 9.6E-05 14 32.60 499 538
PIF1 PIF1-like helicase 1.1E-05 16 28.50 499 543
DAP3 Mitochondrial ribosomal death-associated protein 3 0.00022 11 23.10 500 539
TsaE Threonylcarbamoyl adenosine biosynthesis protein TsaE 0.0016 9 26.60 501 554
Flavi_DEAD Flavivirus DEAD domain 1.2E-05 16 20.70 501 556
AAA_22 AAA domain 0.00015 13 27.00 502 551
ATPase KaiC 6.9E-06 17 26.60 502 593
ATPase_2 ATPase domain predominantly from Archaea 0.0001 13 33.20 502 631
cobW CobW/HypB/UreG, nucleotide-binding domain 0.0002 12 20.70 504 536
DUF2075 Uncharacterized conserved protein (DUF2075) 0.0038 7 20.30 505 527
AAA ATPase family associated with various cellular activities (AAA) 0.00049 12 20.80 506 527
NTPase_1 NTPase 0.01 7 23.90 507 532
Viral_helicase1 Viral (Superfamily 1) RNA helicase 0.016 6 20.90 507 532
Helicase_RecD Helicase 4.2E-06 18 22.70 508 551
UvrD-helicase UvrD/REP helicase 0.64 0 20.30 582 670
Helicase_RecD Helicase 0.01 7 22.70 615 671
DUF1788 Domain of unknown function (DUF1788) 0.0024 9 21.80 616 658
Bacillus_HBL Bacillus haemolytic enterotoxin (HBL) 0.6 1 25.00 620 664
DEAD DEAD/DEAH box helicase 0.033 5 20.60 626 671
NTPase_1 NTPase 0.11 3 23.90 637 672
cobW CobW/HypB/UreG, nucleotide-binding domain 0.16 2 20.70 654 688
Viral_helicase1 Viral (Superfamily 1) RNA helicase 0.042 5 20.90 660 697
PIF1 PIF1-like helicase 0.04 4 28.50 684 702
AAA_12 AAA domain 0 161 27.00 712 916
UvrD_C UvrD-like helicase C-terminal domain 0.0018 9 25.60 843 912
Viral_helicase1 Viral (Superfamily 1) RNA helicase 0.00021 12 20.90 859 912
UvrD_C_2 UvrD-like helicase C-terminal domain 1.9E-06 19 27.40 863 913
Flavi_DEAD Flavivirus DEAD domain 0.62 1 20.70 918 933

961

DUF4116
UvrD_C
Bacillus_HBL
TrwB_AAD_bind
AAA_16
UPF0184
AAA_11
AAA_30
T2SSE
AAA_19
DEAD
UvrD-helicase
TrwB_AAD_bind
ResIII
AAA_7
AAA_16
PIF1
DAP3
TsaE
Flavi_DEAD
AAA_22
ATPase
ATPase_2
cobW
DUF2075
AAA
NTPase_1
Viral_helicase1
Helicase_RecD
UvrD-helicase
Helicase_RecD
DUF1788
Bacillus_HBL
DEAD
NTPase_1
cobW
Viral_helicase1
PIF1
AAA_12
UvrD_C
Viral_helicase1
UvrD_C_2
Flavi_DEAD

References:

TrwB_AAD_bind
11214325 The bacterial conjugation protein TrwB resembles ring helicases and F1-ATPase. Nature. 2001;409:637-641.
11748238 Conjugative plasmid protein TrwB, an integral membrane type IV secretion system coupling protein. Detailed structural features and mapping of the active site cleft. J Biol Chem. 2002;277:7556-7566.

AAA
7646486 A 200-amino acid ATPase module in search of a basic function. Bioessays 1995;17:639-650.
9927482 AAA+: A class of chaperone-like ATPases associated with the assembly, operation, and disassembly of protein complexes. Genome Res 1999;9:27-43.

UPF0184

TsaE

DUF2075

UvrD-helicase
9288744 Major domain swiveling revealed by the crystal structures of complexes of E. coli Rep helicase bound to single-stranded DNA and ADP. Cell 1997;90:635-647.

Bacillus_HBL
12039781 Enterotoxin production in natural isolates of Bacillaceae outside the Bacillus cereus group. Appl Environ Microbiol 2002;68:3147-3151.

PIF1

ResIII

DEAD
10322435 Unwinding RNA in Saccharomyces cerevisiae: DEAD-box proteins and related families. Trends Biochem Sci 1999;24:192-198.
9862990 The DEAD box RNA helicase family in Arabidopsis thaliana. Nucleic Acids Res 1999;27:628-636.

ATPase_2

ATPase

Flavi_DEAD

NTPase_1

AAA_7

Viral_helicase1
8269709 Evolution and taxonomy of positive-strand RNA viruses: implications of comparative analysis of amino acid sequences. Crit Rev Biochem Mol Biol 1993;28:375-430.
10217401 RNA helicase activity of Semliki Forest virus replicase protein NSP2. FEBS Lett 1999;448:19-22.
8057461 ATPase and GTPase activities associated with Semliki Forest virus nonstructural protein nsP2. J Virol 1994;68:5804-5810.
10982322 Helicase and capping enzyme active site mutations in brome mosaic virus protein 1a cause defects in template recruitment, negative-strand RNA synthesis, and viral RNA capping. J Virol 2000;74:8803-8811.

DUF1788

Helicase_RecD

AAA_30

DUF4116

T2SSE

AAA_22

AAA_19

AAA_16

UvrD_C_2

AAA_12

AAA_11

DAP3
9889192 Structure-function analysis of an evolutionary conserved protein, DAP3, which mediates TNF-alpha- and Fas-induced cell death. EMBO J. 1999;18:353-362.
11017876 The apoptosis mediator mDAP-3 is a novel member of a conserved family of mitochondrial proteins. J Cell Sci. 2000;113:3603-3612.

cobW
9140970 The HypB protein from Bradyrhizobium japonicum can store nickel and is required for the nickel-dependent transcriptional regulation of hydrogenase. Mol Microbiol 1997;24:119-128.
9209019 Characterization of UreG, identification of a UreD-UreF-UreG complex, and evidence suggesting that a nucleotide-binding site in UreG is required for in vivo metallocenter assembly of Klebsiella aerogenes urease. J Bacteriol 1997;179:4081-4086.
8423137 The product of the hypB gene, which is required for nickel incorporation into hydrogenases, is a novel guanine nucleotide-binding protein. J Bacteriol 1993;175:630-635.
1624427 Klebsiella aerogenes urease gene cluster: sequence of ureD and demonstration that four accessory genes (ureD, ureE, ureF, and ureG) are involved in nickel metallocenter biosynthesis. J Bacteriol 1992;174:4324-4330.
1655697 Nucleotide sequence and genetic analysis of a 13.1-kilobase-pair Pseudomonas denitrificans DNA fragment containing five cob genes and identification of structural genes encoding Cob(I)alamin adenosyltransferase, cobyric acid synthase, and bifunctional cob J Bacteriol 1991;173:6074-6087.

UvrD_C

Domain	Description	Evalue	Bits	GA	Start	End
DUF4116	Domain of unknown function (DUF4116)	0.002	9	24.90	97	115
UvrD_C	UvrD-like helicase C-terminal domain	0.68	0	25.60	182	253
Bacillus_HBL	Bacillus haemolytic enterotoxin (HBL)	0.0031	8	25.00	197	272
TrwB_AAD_bind	Type IV secretion-system coupling protein DNA-binding domain	0.73	-1	19.90	217	239
AAA_16	AAA ATPase domain	0.62	1	32.60	217	314
UPF0184	Uncharacterised protein family (UPF0184)	0.00055	11	20.90	258	299
AAA_11	AAA domain	0	179	27.00	487	703
AAA_30	AAA domain	1.1E-15	49	27.00	488	700
T2SSE	Type II/IV secretion system protein	0.00018	12	24.90	490	537
AAA_19	AAA domain	3.4E-13	41	25.10	491	632
DEAD	DEAD/DEAH box helicase	6.5E-06	17	20.60	491	557
UvrD-helicase	UvrD/REP helicase	2.1E-06	18	20.30	491	581
TrwB_AAD_bind	Type IV secretion-system coupling protein DNA-binding domain	2.7E-05	14	19.90	495	545
ResIII	Type III restriction enzyme, res subunit	1E-07	23	20.90	495	679
AAA_7	P-loop containing dynein motor region	0.00063	10	25.80	496	534
AAA_16	AAA ATPase domain	9.6E-05	14	32.60	499	538
PIF1	PIF1-like helicase	1.1E-05	16	28.50	499	543
DAP3	Mitochondrial ribosomal death-associated protein 3	0.00022	11	23.10	500	539
TsaE	Threonylcarbamoyl adenosine biosynthesis protein TsaE	0.0016	9	26.60	501	554
Flavi_DEAD	Flavivirus DEAD domain	1.2E-05	16	20.70	501	556
AAA_22	AAA domain	0.00015	13	27.00	502	551
ATPase	KaiC	6.9E-06	17	26.60	502	593
ATPase_2	ATPase domain predominantly from Archaea	0.0001	13	33.20	502	631
cobW	CobW/HypB/UreG, nucleotide-binding domain	0.0002	12	20.70	504	536
DUF2075	Uncharacterized conserved protein (DUF2075)	0.0038	7	20.30	505	527
AAA	ATPase family associated with various cellular activities (AAA)	0.00049	12	20.80	506	527
NTPase_1	NTPase	0.01	7	23.90	507	532
Viral_helicase1	Viral (Superfamily 1) RNA helicase	0.016	6	20.90	507	532
Helicase_RecD	Helicase	4.2E-06	18	22.70	508	551
UvrD-helicase	UvrD/REP helicase	0.64	0	20.30	582	670
Helicase_RecD	Helicase	0.01	7	22.70	615	671
DUF1788	Domain of unknown function (DUF1788)	0.0024	9	21.80	616	658
Bacillus_HBL	Bacillus haemolytic enterotoxin (HBL)	0.6	1	25.00	620	664
DEAD	DEAD/DEAH box helicase	0.033	5	20.60	626	671
NTPase_1	NTPase	0.11	3	23.90	637	672
cobW	CobW/HypB/UreG, nucleotide-binding domain	0.16	2	20.70	654	688
Viral_helicase1	Viral (Superfamily 1) RNA helicase	0.042	5	20.90	660	697
PIF1	PIF1-like helicase	0.04	4	28.50	684	702
AAA_12	AAA domain	0	161	27.00	712	916
UvrD_C	UvrD-like helicase C-terminal domain	0.0018	9	25.60	843	912
Viral_helicase1	Viral (Superfamily 1) RNA helicase	0.00021	12	20.90	859	912
UvrD_C_2	UvrD-like helicase C-terminal domain	1.9E-06	19	27.40	863	913
Flavi_DEAD	Flavivirus DEAD domain	0.62	1	20.70	918	933