tRNA 4-demethylwyosine synthase (AdoMet-dependent)

Quick info Localization Expansion Sequence features Structure Function Putative motif mimicry Homologs Download

Quick info

Protein:

Gene product:

Flavodoxin/Radical SAM superfamily/Wyosine base formation, putative

Species:

Leishmania donovani

UniProt:

A0A3S5H5J8_LEIDO

TriTrypDb:

LdBPK_050750.1 , LdCL_050012600 , LDHU3_05.0840

Length:

823

Localization

Secreted promastigote


Source	Evidence on protein	Close homologs
Cuervo et al.	no	yes: 0
Hassani et al.	no	yes: 0
Forrest at al. (metacyclic)	no	yes: 0
Forrest at al. (procyclic)	no	yes: 0
Silverman et al.	no	yes: 0
Pissara et al.	no	yes: 0

Secreted amastigote


Source	Evidence on protein	Close homologs
Pires et al.	no	yes: 0

Exosome


Source	Evidence on protein	Close homologs
Silverman et al.	no	yes: 0

Glycosome


Source	Evidence on protein	Close homologs
Jamdhade et al.	no	yes: 0

Predictions


Source	Evidence on protein	Close homologs
DeepLoc
SignalP6	no	yes: 0, no: 9
NetGPI	no	yes: 0, no: 9

Cellular components
Term	Name	Level	Count
GO:0005737	cytoplasm	2	10
GO:0110165	cellular anatomical entity	1	10
GO:0016020	membrane	2	3

Expansion

Sequence features

A0A3S5H5J8

Sequence

MSA

Disorder

Secondary

Topology

Domains

SignalP

GPI

Phosphorylations

ELMs

Structure

Predicted structure by AlphaFold2

Related structures:

AlphaFold database: A0A3S5H5J8

Function

Biological processes
Term	Name	Level	Count
GO:0006139	nucleobase-containing compound metabolic process	3	10
GO:0006396	RNA processing	6	10
GO:0006399	tRNA metabolic process	7	10
GO:0006725	cellular aromatic compound metabolic process	3	10
GO:0006807	nitrogen compound metabolic process	2	10
GO:0008033	tRNA processing	8	10
GO:0008152	metabolic process	1	10
GO:0009987	cellular process	1	10
GO:0016070	RNA metabolic process	5	10
GO:0034470	ncRNA processing	7	10
GO:0034641	cellular nitrogen compound metabolic process	3	10
GO:0034660	ncRNA metabolic process	6	10
GO:0043170	macromolecule metabolic process	3	10
GO:0044237	cellular metabolic process	2	10
GO:0044238	primary metabolic process	2	10
GO:0046483	heterocycle metabolic process	3	10
GO:0071704	organic substance metabolic process	2	10
GO:0090304	nucleic acid metabolic process	4	10
GO:1901360	organic cyclic compound metabolic process	3	10
GO:0006400	tRNA modification	6	1
GO:0009058	biosynthetic process	2	1
GO:0009451	RNA modification	5	1
GO:0031590	wybutosine metabolic process	4	1
GO:0031591	wybutosine biosynthetic process	5	1
GO:0043412	macromolecule modification	4	1
GO:1901135	carbohydrate derivative metabolic process	3	1
GO:1901137	carbohydrate derivative biosynthetic process	4	1
GO:1901564	organonitrogen compound metabolic process	3	1
GO:1901566	organonitrogen compound biosynthetic process	4	1
GO:1901576	organic substance biosynthetic process	3	1
GO:1901657	glycosyl compound metabolic process	4	1
GO:1901659	glycosyl compound biosynthetic process	5	1

Molecular functions
Term	Name	Level	Count
GO:0000166	nucleotide binding	3	10
GO:0003824	catalytic activity	1	10
GO:0005488	binding	1	10
GO:0010181	FMN binding	4	10
GO:0016829	lyase activity	2	10
GO:0032553	ribonucleotide binding	3	10
GO:0036094	small molecule binding	2	10
GO:0043167	ion binding	2	10
GO:0043168	anion binding	3	10
GO:0043169	cation binding	3	10
GO:0046872	metal ion binding	4	10
GO:0051536	iron-sulfur cluster binding	3	10
GO:0051539	4 iron, 4 sulfur cluster binding	4	10
GO:0051540	metal cluster binding	2	10
GO:0097159	organic cyclic compound binding	2	10
GO:0097367	carbohydrate derivative binding	2	10
GO:1901265	nucleoside phosphate binding	3	10
GO:1901363	heterocyclic compound binding	2	10

Putative motif mimicry


Leishmania	From	To	Domain/Motif	Score
CLV_C14_Caspase3-7	174	178	PF00656	0.471
CLV_C14_Caspase3-7	365	369	PF00656	0.783
CLV_NRD_NRD_1	206	208	PF00675	0.297
CLV_NRD_NRD_1	360	362	PF00675	0.526
CLV_NRD_NRD_1	626	628	PF00675	0.221
CLV_NRD_NRD_1	810	812	PF00675	0.419
CLV_PCSK_KEX2_1	208	210	PF00082	0.322
CLV_PCSK_KEX2_1	604	606	PF00082	0.263
CLV_PCSK_PC1ET2_1	208	210	PF00082	0.322
CLV_PCSK_PC1ET2_1	604	606	PF00082	0.263
CLV_PCSK_SKI1_1	192	196	PF00082	0.297
CLV_PCSK_SKI1_1	447	451	PF00082	0.287
CLV_PCSK_SKI1_1	481	485	PF00082	0.245
CLV_PCSK_SKI1_1	583	587	PF00082	0.248
CLV_PCSK_SKI1_1	608	612	PF00082	0.245
CLV_PCSK_SKI1_1	631	635	PF00082	0.245
CLV_PCSK_SKI1_1	665	669	PF00082	0.245
CLV_PCSK_SKI1_1	753	757	PF00082	0.282
DEG_APCC_DBOX_1	53	61	PF00400	0.595
DEG_MDM2_SWIB_1	611	619	PF02201	0.445
DEG_MDM2_SWIB_1	756	764	PF02201	0.554
DEG_Nend_Nbox_1	1	3	PF02207	0.359
DOC_ANK_TNKS_1	348	355	PF00023	0.609
DOC_CKS1_1	708	713	PF01111	0.617
DOC_CYCLIN_yCln2_LP_2	12	18	PF00134	0.307
DOC_MAPK_DCC_7	498	508	PF00069	0.488
DOC_MAPK_gen_1	583	593	PF00069	0.442
DOC_MAPK_gen_1	627	638	PF00069	0.448
DOC_MAPK_MEF2A_6	500	508	PF00069	0.488
DOC_MAPK_MEF2A_6	583	591	PF00069	0.452
DOC_MAPK_MEF2A_6	79	88	PF00069	0.660
DOC_PP2B_LxvP_1	12	15	PF13499	0.307
DOC_PP2B_LxvP_1	239	242	PF13499	0.528
DOC_PP4_FxxP_1	244	247	PF00568	0.498
DOC_SPAK_OSR1_1	209	213	PF12202	0.480
DOC_USP7_MATH_1	102	106	PF00917	0.515
DOC_USP7_MATH_1	296	300	PF00917	0.760
DOC_USP7_MATH_1	316	320	PF00917	0.553
DOC_WW_Pin1_4	291	296	PF00397	0.718
DOC_WW_Pin1_4	470	475	PF00397	0.468
DOC_WW_Pin1_4	526	531	PF00397	0.445
DOC_WW_Pin1_4	596	601	PF00397	0.434
DOC_WW_Pin1_4	707	712	PF00397	0.623
DOC_WW_Pin1_4	71	76	PF00397	0.729
DOC_WW_Pin1_4	78	83	PF00397	0.728
DOC_WW_Pin1_4	786	791	PF00397	0.496
LIG_14-3-3_CanoR_1	202	206	PF00244	0.528
LIG_14-3-3_CanoR_1	261	271	PF00244	0.530
LIG_14-3-3_CanoR_1	273	277	PF00244	0.466
LIG_14-3-3_CanoR_1	444	450	PF00244	0.573
LIG_14-3-3_CanoR_1	567	572	PF00244	0.516
LIG_14-3-3_CanoR_1	617	625	PF00244	0.514
LIG_14-3-3_CanoR_1	635	639	PF00244	0.372
LIG_14-3-3_CanoR_1	815	820	PF00244	0.662
LIG_Actin_WH2_2	255	271	PF00022	0.573
LIG_Actin_WH2_2	588	606	PF00022	0.463
LIG_BRCT_BRCA1_1	183	187	PF00533	0.445
LIG_BRCT_BRCA1_1	493	497	PF00533	0.463
LIG_Clathr_ClatBox_1	748	752	PF01394	0.538
LIG_deltaCOP1_diTrp_1	757	763	PF00928	0.554
LIG_FHA_1	1	7	PF00498	0.295
LIG_FHA_1	118	124	PF00498	0.560
LIG_FHA_1	174	180	PF00498	0.545
LIG_FHA_1	254	260	PF00498	0.530
LIG_FHA_1	263	269	PF00498	0.479
LIG_FHA_1	279	285	PF00498	0.554
LIG_FHA_1	316	322	PF00498	0.661
LIG_FHA_1	398	404	PF00498	0.532
LIG_FHA_1	471	477	PF00498	0.445
LIG_FHA_1	488	494	PF00498	0.445
LIG_FHA_1	642	648	PF00498	0.445
LIG_FHA_1	805	811	PF00498	0.655
LIG_FHA_2	156	162	PF00498	0.518
LIG_FHA_2	172	178	PF00498	0.402
LIG_FHA_2	363	369	PF00498	0.671
LIG_FHA_2	597	603	PF00498	0.445
LIG_FHA_2	760	766	PF00498	0.479
LIG_FHA_2	779	785	PF00498	0.428
LIG_GBD_Chelix_1	17	25	PF00786	0.398
LIG_LIR_Gen_1	184	195	PF02991	0.445
LIG_LIR_Gen_1	222	232	PF02991	0.458
LIG_LIR_Gen_1	660	669	PF02991	0.455
LIG_LIR_Gen_1	765	773	PF02991	0.488
LIG_LIR_Gen_1	778	788	PF02991	0.497
LIG_LIR_Nem_3	222	228	PF02991	0.478
LIG_LIR_Nem_3	258	263	PF02991	0.526
LIG_LIR_Nem_3	416	422	PF02991	0.527
LIG_LIR_Nem_3	460	464	PF02991	0.494
LIG_LIR_Nem_3	660	664	PF02991	0.455
LIG_LIR_Nem_3	762	766	PF02991	0.466
LIG_LIR_Nem_3	767	773	PF02991	0.488
LIG_LIR_Nem_3	778	783	PF02991	0.507
LIG_LIR_Nem_3	784	788	PF02991	0.494
LIG_LIR_Nem_3	789	795	PF02991	0.458
LIG_LYPXL_S_1	418	422	PF13949	0.330
LIG_LYPXL_S_1	552	556	PF13949	0.245
LIG_LYPXL_yS_3	419	422	PF13949	0.537
LIG_LYPXL_yS_3	553	556	PF13949	0.445
LIG_MAD2	808	816	PF02301	0.628
LIG_Pex14_2	611	615	PF04695	0.445
LIG_Pex14_2	756	760	PF04695	0.564
LIG_PTB_Apo_2	572	579	PF02174	0.445
LIG_SH2_CRK	165	169	PF00017	0.432
LIG_SH2_CRK	431	435	PF00017	0.492
LIG_SH2_CRK	516	520	PF00017	0.528
LIG_SH2_CRK	708	712	PF00017	0.636
LIG_SH2_CRK	785	789	PF00017	0.488
LIG_SH2_NCK_1	770	774	PF00017	0.534
LIG_SH2_NCK_1	785	789	PF00017	0.455
LIG_SH2_STAP1	165	169	PF00017	0.488
LIG_SH2_STAP1	22	26	PF00017	0.614
LIG_SH2_STAP1	250	254	PF00017	0.556
LIG_SH2_STAP1	650	654	PF00017	0.445
LIG_SH2_STAP1	766	770	PF00017	0.561
LIG_SH2_STAT3	101	104	PF00017	0.486
LIG_SH2_STAT5	175	178	PF00017	0.445
LIG_SH2_STAT5	592	595	PF00017	0.445
LIG_SH2_STAT5	669	672	PF00017	0.445
LIG_SH3_3	131	137	PF00018	0.563
LIG_SH3_3	176	182	PF00018	0.497
LIG_SH3_3	242	248	PF00018	0.508
LIG_SH3_3	544	550	PF00018	0.445
LIG_SH3_3	83	89	PF00018	0.769
LIG_SH3_4	586	593	PF00018	0.426
LIG_SUMO_SIM_anti_2	722	727	PF11976	0.648
LIG_SUMO_SIM_par_1	747	752	PF11976	0.537
LIG_TRAF2_1	599	602	PF00917	0.463
LIG_TRAF2_1	727	730	PF00917	0.647
LIG_TYR_ITIM	20	25	PF00017	0.539
LIG_TYR_ITIM	417	422	PF00017	0.525
LIG_TYR_ITIM	551	556	PF00017	0.445
LIG_TYR_ITIM	783	788	PF00017	0.580
LIG_UBA3_1	748	753	PF00899	0.544
LIG_WRC_WIRS_1	1	6	PF05994	0.410
LIG_WRC_WIRS_1	568	573	PF05994	0.467
LIG_WW_1	247	250	PF00397	0.508
LIG_WW_3	180	184	PF00397	0.528
MOD_CDK_SPxK_1	526	532	PF00069	0.445
MOD_CK1_1	105	111	PF00069	0.542
MOD_CK1_1	117	123	PF00069	0.565
MOD_CK1_1	173	179	PF00069	0.445
MOD_CK1_1	272	278	PF00069	0.583
MOD_CK1_1	28	34	PF00069	0.624
MOD_CK1_1	319	325	PF00069	0.752
MOD_CK1_1	673	679	PF00069	0.445
MOD_CK1_1	775	781	PF00069	0.535
MOD_CK2_1	155	161	PF00069	0.528
MOD_CK2_1	296	302	PF00069	0.736
MOD_CK2_1	379	385	PF00069	0.734
MOD_CK2_1	596	602	PF00069	0.445
MOD_CMANNOS	760	763	PF00535	0.257
MOD_Cter_Amidation	205	208	PF01082	0.263
MOD_GlcNHglycan	298	301	PF01048	0.503
MOD_GlcNHglycan	309	312	PF01048	0.419
MOD_GlcNHglycan	321	324	PF01048	0.554
MOD_GlcNHglycan	437	440	PF01048	0.267
MOD_GlcNHglycan	63	66	PF01048	0.496
MOD_GlcNHglycan	67	70	PF01048	0.483
MOD_GlcNHglycan	774	777	PF01048	0.323
MOD_GSK3_1	249	256	PF00069	0.527
MOD_GSK3_1	298	305	PF00069	0.730
MOD_GSK3_1	312	319	PF00069	0.595
MOD_GSK3_1	405	412	PF00069	0.602
MOD_GSK3_1	487	494	PF00069	0.463
MOD_GSK3_1	567	574	PF00069	0.445
MOD_GSK3_1	61	68	PF00069	0.704
MOD_GSK3_1	665	672	PF00069	0.445
MOD_GSK3_1	775	782	PF00069	0.595
MOD_GSK3_1	815	822	PF00069	0.596
MOD_N-GLC_1	316	321	PF02516	0.545
MOD_N-GLC_1	464	469	PF02516	0.354
MOD_N-GLC_1	674	679	PF02516	0.205
MOD_N-GLC_2	152	154	PF02516	0.394
MOD_N-GLC_2	480	482	PF02516	0.245
MOD_NEK2_1	170	175	PF00069	0.489
MOD_NEK2_1	20	25	PF00069	0.442
MOD_NEK2_1	290	295	PF00069	0.685
MOD_NEK2_1	345	350	PF00069	0.736
MOD_NEK2_1	433	438	PF00069	0.479
MOD_NEK2_1	571	576	PF00069	0.445
MOD_NEK2_1	634	639	PF00069	0.445
MOD_NEK2_1	772	777	PF00069	0.511
MOD_NEK2_1	8	13	PF00069	0.408
MOD_NEK2_2	280	285	PF00069	0.626
MOD_NEK2_2	457	462	PF00069	0.469
MOD_OFUCOSY	739	745	PF10250	0.268
MOD_PIKK_1	100	106	PF00454	0.529
MOD_PIKK_1	181	187	PF00454	0.463
MOD_PIKK_1	253	259	PF00454	0.572
MOD_PIKK_1	339	345	PF00454	0.726
MOD_PIKK_1	464	470	PF00454	0.553
MOD_PIKK_1	47	53	PF00454	0.558
MOD_PKA_1	285	291	PF00069	0.656
MOD_PKA_2	201	207	PF00069	0.488
MOD_PKA_2	272	278	PF00069	0.547
MOD_PKA_2	443	449	PF00069	0.494
MOD_PKA_2	566	572	PF00069	0.463
MOD_PKA_2	634	640	PF00069	0.445
MOD_PKA_2	814	820	PF00069	0.605
MOD_Plk_1	316	322	PF00069	0.702
MOD_Plk_1	674	680	PF00069	0.405
MOD_Plk_1	778	784	PF00069	0.589
MOD_Plk_1	804	810	PF00069	0.601
MOD_Plk_2-3	779	785	PF00069	0.579
MOD_Plk_4	155	161	PF00069	0.521
MOD_Plk_4	255	261	PF00069	0.546
MOD_Plk_4	316	322	PF00069	0.774
MOD_Plk_4	445	451	PF00069	0.589
MOD_Plk_4	457	463	PF00069	0.497
MOD_Plk_4	542	548	PF00069	0.445
MOD_Plk_4	567	573	PF00069	0.467
MOD_Plk_4	634	640	PF00069	0.445
MOD_Plk_4	759	765	PF00069	0.466
MOD_ProDKin_1	291	297	PF00069	0.719
MOD_ProDKin_1	470	476	PF00069	0.448
MOD_ProDKin_1	526	532	PF00069	0.445
MOD_ProDKin_1	596	602	PF00069	0.434
MOD_ProDKin_1	707	713	PF00069	0.619
MOD_ProDKin_1	71	77	PF00069	0.730
MOD_ProDKin_1	78	84	PF00069	0.726
MOD_ProDKin_1	786	792	PF00069	0.495
MOD_SUMO_rev_2	596	606	PF00179	0.456
MOD_SUMO_rev_2	660	667	PF00179	0.445
TRG_DiLeu_BaEn_1	413	418	PF01217	0.545
TRG_ENDOCYTIC_2	165	168	PF00928	0.432
TRG_ENDOCYTIC_2	22	25	PF00928	0.694
TRG_ENDOCYTIC_2	419	422	PF00928	0.537
TRG_ENDOCYTIC_2	431	434	PF00928	0.492
TRG_ENDOCYTIC_2	516	519	PF00928	0.528
TRG_ENDOCYTIC_2	553	556	PF00928	0.445
TRG_ENDOCYTIC_2	592	595	PF00928	0.445
TRG_ENDOCYTIC_2	650	653	PF00928	0.445
TRG_ENDOCYTIC_2	766	769	PF00928	0.482
TRG_ENDOCYTIC_2	770	773	PF00928	0.488
TRG_ENDOCYTIC_2	785	788	PF00928	0.493
TRG_ER_diArg_1	207	210	PF00400	0.480
TRG_ER_diArg_1	450	453	PF00400	0.484
TRG_ER_diArg_1	731	734	PF00400	0.550
TRG_NES_CRM1_1	133	147	PF08389	0.465
TRG_Pf-PMV_PEXEL_1	230	234	PF00026	0.328
TRG_Pf-PMV_PEXEL_1	608	612	PF00026	0.245

Homologs


Protein	Taxonomy	Sequence identity	Coverage
A0A0N1I710	Leptomonas seymouri	65%	93%
A0A3S5IRA8	Trypanosoma rangeli	55%	100%
A4H4B8	Leishmania braziliensis	81%	98%
A4HSJ7	Leishmania infantum	100%	100%
C9ZU99	Trypanosoma brucei gambiense (strain MHOM/CI/86/DAL972)	54%	99%
E9AKI1	Leishmania mexicana (strain MHOM/GT/2001/U1103)	89%	97%
Q4QJC7	Leishmania major	94%	100%
V5AVD9	Trypanosoma cruzi	53%	100%