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 major

UniProt:

Q4QJC7_LEIMA

TriTrypDb:

LmjF.05.0750 , LMJLV39_050012400 , LMJSD75_050012700

Length:

825

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: 8
NetGPI	no	yes: 0, no: 8

Cellular components
Term	Name	Level	Count
GO:0005737	cytoplasm	2	9
GO:0110165	cellular anatomical entity	1	9
GO:0016020	membrane	2	2

Expansion

Sequence features

Q4QJC7

Sequence

MSA

Disorder

Secondary

Topology

Domains

SignalP

GPI

Phosphorylations

ELMs

Structure

Predicted structure by AlphaFold2

Related structures:

AlphaFold database: Q4QJC7

Function

Biological processes
Term	Name	Level	Count
GO:0006139	nucleobase-containing compound metabolic process	3	9
GO:0006396	RNA processing	6	9
GO:0006399	tRNA metabolic process	7	9
GO:0006400	tRNA modification	6	2
GO:0006725	cellular aromatic compound metabolic process	3	9
GO:0006807	nitrogen compound metabolic process	2	9
GO:0008033	tRNA processing	8	9
GO:0008152	metabolic process	1	9
GO:0009058	biosynthetic process	2	2
GO:0009451	RNA modification	5	2
GO:0009987	cellular process	1	9
GO:0016070	RNA metabolic process	5	9
GO:0031590	wybutosine metabolic process	4	2
GO:0031591	wybutosine biosynthetic process	5	2
GO:0034470	ncRNA processing	7	9
GO:0034641	cellular nitrogen compound metabolic process	3	9
GO:0034660	ncRNA metabolic process	6	9
GO:0043170	macromolecule metabolic process	3	9
GO:0043412	macromolecule modification	4	2
GO:0044237	cellular metabolic process	2	9
GO:0044238	primary metabolic process	2	9
GO:0046483	heterocycle metabolic process	3	9
GO:0071704	organic substance metabolic process	2	9
GO:0090304	nucleic acid metabolic process	4	9
GO:1901135	carbohydrate derivative metabolic process	3	2
GO:1901137	carbohydrate derivative biosynthetic process	4	2
GO:1901360	organic cyclic compound metabolic process	3	9
GO:1901564	organonitrogen compound metabolic process	3	2
GO:1901566	organonitrogen compound biosynthetic process	4	2
GO:1901576	organic substance biosynthetic process	3	2
GO:1901657	glycosyl compound metabolic process	4	2
GO:1901659	glycosyl compound biosynthetic process	5	2

Molecular functions
Term	Name	Level	Count
GO:0000166	nucleotide binding	3	9
GO:0003824	catalytic activity	1	9
GO:0005488	binding	1	9
GO:0010181	FMN binding	4	9
GO:0016829	lyase activity	2	9
GO:0032553	ribonucleotide binding	3	9
GO:0036094	small molecule binding	2	9
GO:0043167	ion binding	2	9
GO:0043168	anion binding	3	9
GO:0043169	cation binding	3	9
GO:0046872	metal ion binding	4	9
GO:0051536	iron-sulfur cluster binding	3	9
GO:0051539	4 iron, 4 sulfur cluster binding	4	9
GO:0051540	metal cluster binding	2	9
GO:0097159	organic cyclic compound binding	2	9
GO:0097367	carbohydrate derivative binding	2	9
GO:1901265	nucleoside phosphate binding	3	9
GO:1901363	heterocyclic compound binding	2	9

Putative motif mimicry


Leishmania	From	To	Domain/Motif	Score
CLV_C14_Caspase3-7	175	179	PF00656	0.311
CLV_C14_Caspase3-7	366	370	PF00656	0.597
CLV_NRD_NRD_1	207	209	PF00675	0.305
CLV_NRD_NRD_1	812	814	PF00675	0.498
CLV_PCSK_KEX2_1	209	211	PF00082	0.324
CLV_PCSK_KEX2_1	606	608	PF00082	0.230
CLV_PCSK_PC1ET2_1	209	211	PF00082	0.324
CLV_PCSK_PC1ET2_1	606	608	PF00082	0.230
CLV_PCSK_SKI1_1	193	197	PF00082	0.251
CLV_PCSK_SKI1_1	449	453	PF00082	0.291
CLV_PCSK_SKI1_1	483	487	PF00082	0.206
CLV_PCSK_SKI1_1	534	538	PF00082	0.228
CLV_PCSK_SKI1_1	585	589	PF00082	0.222
CLV_PCSK_SKI1_1	610	614	PF00082	0.206
CLV_PCSK_SKI1_1	633	637	PF00082	0.214
CLV_PCSK_SKI1_1	667	671	PF00082	0.240
CLV_PCSK_SKI1_1	755	759	PF00082	0.291
DEG_MDM2_SWIB_1	613	621	PF02201	0.406
DEG_MDM2_SWIB_1	758	766	PF02201	0.369
DEG_Nend_Nbox_1	1	3	PF02207	0.471
DOC_CKS1_1	710	715	PF01111	0.449
DOC_CYCLIN_yCln2_LP_2	12	18	PF00134	0.406
DOC_MAPK_DCC_7	500	510	PF00069	0.473
DOC_MAPK_gen_1	286	293	PF00069	0.416
DOC_MAPK_gen_1	629	640	PF00069	0.408
DOC_MAPK_MEF2A_6	502	510	PF00069	0.473
DOC_MAPK_MEF2A_6	585	593	PF00069	0.412
DOC_MAPK_MEF2A_6	79	88	PF00069	0.540
DOC_PIKK_1	389	397	PF02985	0.536
DOC_PP2B_LxvP_1	12	15	PF13499	0.413
DOC_PP2B_LxvP_1	240	243	PF13499	0.334
DOC_PP4_FxxP_1	245	248	PF00568	0.344
DOC_SPAK_OSR1_1	210	214	PF12202	0.263
DOC_USP7_MATH_1	102	106	PF00917	0.333
DOC_USP7_MATH_1	297	301	PF00917	0.648
DOC_USP7_MATH_1	317	321	PF00917	0.393
DOC_USP7_MATH_1	373	377	PF00917	0.657
DOC_USP7_UBL2_3	625	629	PF12436	0.406
DOC_WW_Pin1_4	292	297	PF00397	0.596
DOC_WW_Pin1_4	472	477	PF00397	0.286
DOC_WW_Pin1_4	528	533	PF00397	0.406
DOC_WW_Pin1_4	585	590	PF00397	0.432
DOC_WW_Pin1_4	598	603	PF00397	0.394
DOC_WW_Pin1_4	709	714	PF00397	0.460
DOC_WW_Pin1_4	71	76	PF00397	0.616
DOC_WW_Pin1_4	788	793	PF00397	0.308
DOC_WW_Pin1_4	80	85	PF00397	0.534
DOC_WW_Pin1_4	88	93	PF00397	0.370
LIG_14-3-3_CanoR_1	203	207	PF00244	0.334
LIG_14-3-3_CanoR_1	262	272	PF00244	0.352
LIG_14-3-3_CanoR_1	274	278	PF00244	0.275
LIG_14-3-3_CanoR_1	446	452	PF00244	0.394
LIG_14-3-3_CanoR_1	534	541	PF00244	0.446
LIG_14-3-3_CanoR_1	569	574	PF00244	0.489
LIG_14-3-3_CanoR_1	619	627	PF00244	0.462
LIG_14-3-3_CanoR_1	637	641	PF00244	0.341
LIG_14-3-3_CanoR_1	817	822	PF00244	0.582
LIG_Actin_WH2_2	256	272	PF00022	0.396
LIG_Actin_WH2_2	590	608	PF00022	0.430
LIG_BRCT_BRCA1_1	184	188	PF00533	0.240
LIG_BRCT_BRCA1_1	495	499	PF00533	0.430
LIG_Clathr_ClatBox_1	750	754	PF01394	0.348
LIG_deltaCOP1_diTrp_1	759	765	PF00928	0.369
LIG_FHA_1	118	124	PF00498	0.403
LIG_FHA_1	167	173	PF00498	0.282
LIG_FHA_1	175	181	PF00498	0.360
LIG_FHA_1	255	261	PF00498	0.342
LIG_FHA_1	264	270	PF00498	0.283
LIG_FHA_1	280	286	PF00498	0.395
LIG_FHA_1	317	323	PF00498	0.535
LIG_FHA_1	473	479	PF00498	0.240
LIG_FHA_1	490	496	PF00498	0.406
LIG_FHA_1	586	592	PF00498	0.385
LIG_FHA_1	644	650	PF00498	0.417
LIG_FHA_1	807	813	PF00498	0.576
LIG_FHA_2	157	163	PF00498	0.334
LIG_FHA_2	173	179	PF00498	0.207
LIG_FHA_2	364	370	PF00498	0.541
LIG_FHA_2	599	605	PF00498	0.406
LIG_FHA_2	762	768	PF00498	0.296
LIG_FHA_2	781	787	PF00498	0.210
LIG_GBD_Chelix_1	17	25	PF00786	0.482
LIG_LIR_Gen_1	185	196	PF02991	0.240
LIG_LIR_Gen_1	223	233	PF02991	0.264
LIG_LIR_Gen_1	662	671	PF02991	0.259
LIG_LIR_Gen_1	767	775	PF02991	0.299
LIG_LIR_Gen_1	780	790	PF02991	0.309
LIG_LIR_Nem_3	185	191	PF02991	0.200
LIG_LIR_Nem_3	223	229	PF02991	0.309
LIG_LIR_Nem_3	259	264	PF02991	0.318
LIG_LIR_Nem_3	418	424	PF02991	0.356
LIG_LIR_Nem_3	462	466	PF02991	0.306
LIG_LIR_Nem_3	662	666	PF02991	0.259
LIG_LIR_Nem_3	764	768	PF02991	0.288
LIG_LIR_Nem_3	769	775	PF02991	0.311
LIG_LIR_Nem_3	780	785	PF02991	0.325
LIG_LIR_Nem_3	786	790	PF02991	0.305
LIG_LIR_Nem_3	791	797	PF02991	0.259
LIG_LYPXL_S_1	420	424	PF13949	0.360
LIG_LYPXL_S_1	554	558	PF13949	0.206
LIG_LYPXL_yS_3	421	424	PF13949	0.369
LIG_LYPXL_yS_3	555	558	PF13949	0.406
LIG_Pex14_2	613	617	PF04695	0.406
LIG_Pex14_2	758	762	PF04695	0.384
LIG_PTB_Apo_2	574	581	PF02174	0.406
LIG_SH2_CRK	433	437	PF00017	0.342
LIG_SH2_CRK	518	522	PF00017	0.473
LIG_SH2_CRK	710	714	PF00017	0.485
LIG_SH2_CRK	787	791	PF00017	0.297
LIG_SH2_NCK_1	772	776	PF00017	0.352
LIG_SH2_NCK_1	787	791	PF00017	0.257
LIG_SH2_STAP1	166	170	PF00017	0.274
LIG_SH2_STAP1	22	26	PF00017	0.467
LIG_SH2_STAP1	251	255	PF00017	0.431
LIG_SH2_STAP1	652	656	PF00017	0.406
LIG_SH2_STAP1	768	772	PF00017	0.380
LIG_SH2_STAT3	101	104	PF00017	0.303
LIG_SH2_STAT5	176	179	PF00017	0.240
LIG_SH2_STAT5	594	597	PF00017	0.406
LIG_SH2_STAT5	671	674	PF00017	0.240
LIG_SH3_3	131	137	PF00018	0.412
LIG_SH3_3	177	183	PF00018	0.305
LIG_SH3_3	243	249	PF00018	0.356
LIG_SH3_3	290	296	PF00018	0.444
LIG_SH3_3	546	552	PF00018	0.406
LIG_SH3_3	83	89	PF00018	0.697
LIG_Sin3_3	188	195	PF02671	0.174
LIG_SUMO_SIM_anti_2	724	729	PF11976	0.502
LIG_SUMO_SIM_par_1	749	754	PF11976	0.347
LIG_TRAF2_1	601	604	PF00917	0.430
LIG_TRAF2_1	729	732	PF00917	0.515
LIG_TRAF2_2	581	586	PF00917	0.404
LIG_TYR_ITIM	20	25	PF00017	0.491
LIG_TYR_ITIM	419	424	PF00017	0.353
LIG_TYR_ITIM	553	558	PF00017	0.406
LIG_TYR_ITIM	785	790	PF00017	0.403
LIG_UBA3_1	750	755	PF00899	0.356
LIG_WRC_WIRS_1	1	6	PF05994	0.528
LIG_WRC_WIRS_1	570	575	PF05994	0.406
LIG_WW_1	248	251	PF00397	0.332
LIG_WW_3	181	185	PF00397	0.334
MOD_CDK_SPxK_1	528	534	PF00069	0.406
MOD_CK1_1	105	111	PF00069	0.353
MOD_CK1_1	117	123	PF00069	0.364
MOD_CK1_1	174	180	PF00069	0.240
MOD_CK1_1	273	279	PF00069	0.412
MOD_CK1_1	28	34	PF00069	0.513
MOD_CK1_1	320	326	PF00069	0.650
MOD_CK1_1	675	681	PF00069	0.240
MOD_CK1_1	777	783	PF00069	0.375
MOD_CK2_1	156	162	PF00069	0.431
MOD_CK2_1	297	303	PF00069	0.622
MOD_CK2_1	381	387	PF00069	0.741
MOD_CK2_1	598	604	PF00069	0.406
MOD_CMANNOS	762	765	PF00535	0.256
MOD_Cter_Amidation	206	209	PF01082	0.261
MOD_GlcNHglycan	299	302	PF01048	0.590
MOD_GlcNHglycan	310	313	PF01048	0.483
MOD_GlcNHglycan	322	325	PF01048	0.655
MOD_GlcNHglycan	349	352	PF01048	0.604
MOD_GlcNHglycan	373	376	PF01048	0.592
MOD_GlcNHglycan	439	442	PF01048	0.281
MOD_GlcNHglycan	63	66	PF01048	0.543
MOD_GlcNHglycan	67	70	PF01048	0.554
MOD_GlcNHglycan	776	779	PF01048	0.348
MOD_GSK3_1	166	173	PF00069	0.239
MOD_GSK3_1	250	257	PF00069	0.364
MOD_GSK3_1	299	306	PF00069	0.611
MOD_GSK3_1	316	323	PF00069	0.422
MOD_GSK3_1	489	496	PF00069	0.430
MOD_GSK3_1	569	576	PF00069	0.408
MOD_GSK3_1	61	68	PF00069	0.581
MOD_GSK3_1	667	674	PF00069	0.278
MOD_GSK3_1	777	784	PF00069	0.427
MOD_GSK3_1	817	824	PF00069	0.528
MOD_N-GLC_1	317	322	PF02516	0.516
MOD_N-GLC_1	381	386	PF02516	0.568
MOD_N-GLC_1	466	471	PF02516	0.373
MOD_N-GLC_2	153	155	PF02516	0.459
MOD_N-GLC_2	482	484	PF02516	0.206
MOD_NEK2_1	171	176	PF00069	0.268
MOD_NEK2_1	20	25	PF00069	0.457
MOD_NEK2_1	291	296	PF00069	0.556
MOD_NEK2_1	346	351	PF00069	0.737
MOD_NEK2_1	435	440	PF00069	0.287
MOD_NEK2_1	573	578	PF00069	0.408
MOD_NEK2_1	636	641	PF00069	0.406
MOD_NEK2_1	774	779	PF00069	0.332
MOD_NEK2_1	8	13	PF00069	0.493
MOD_NEK2_2	166	171	PF00069	0.258
MOD_NEK2_2	281	286	PF00069	0.479
MOD_NEK2_2	459	464	PF00069	0.271
MOD_OFUCOSY	741	747	PF10250	0.280
MOD_PIKK_1	100	106	PF00454	0.316
MOD_PIKK_1	182	188	PF00454	0.274
MOD_PIKK_1	254	260	PF00454	0.410
MOD_PIKK_1	340	346	PF00454	0.676
MOD_PIKK_1	466	472	PF00454	0.371
MOD_PKA_1	286	292	PF00069	0.512
MOD_PKA_2	202	208	PF00069	0.334
MOD_PKA_2	273	279	PF00069	0.420
MOD_PKA_2	445	451	PF00069	0.306
MOD_PKA_2	568	574	PF00069	0.436
MOD_PKA_2	636	642	PF00069	0.406
MOD_PKA_2	816	822	PF00069	0.519
MOD_Plk_1	317	323	PF00069	0.597
MOD_Plk_1	780	786	PF00069	0.417
MOD_Plk_2-3	781	787	PF00069	0.401
MOD_Plk_4	156	162	PF00069	0.391
MOD_Plk_4	166	172	PF00069	0.246
MOD_Plk_4	256	262	PF00069	0.350
MOD_Plk_4	317	323	PF00069	0.646
MOD_Plk_4	447	453	PF00069	0.332
MOD_Plk_4	459	465	PF00069	0.229
MOD_Plk_4	544	550	PF00069	0.406
MOD_Plk_4	569	575	PF00069	0.433
MOD_Plk_4	636	642	PF00069	0.416
MOD_Plk_4	761	767	PF00069	0.268
MOD_ProDKin_1	292	298	PF00069	0.597
MOD_ProDKin_1	472	478	PF00069	0.257
MOD_ProDKin_1	528	534	PF00069	0.406
MOD_ProDKin_1	585	591	PF00069	0.432
MOD_ProDKin_1	598	604	PF00069	0.394
MOD_ProDKin_1	709	715	PF00069	0.453
MOD_ProDKin_1	71	77	PF00069	0.617
MOD_ProDKin_1	788	794	PF00069	0.307
MOD_ProDKin_1	80	86	PF00069	0.534
MOD_ProDKin_1	88	94	PF00069	0.359
MOD_SUMO_rev_2	598	608	PF00179	0.431
MOD_SUMO_rev_2	662	669	PF00179	0.240
TRG_DiLeu_BaEn_1	415	420	PF01217	0.393
TRG_ENDOCYTIC_2	22	25	PF00928	0.587
TRG_ENDOCYTIC_2	421	424	PF00928	0.369
TRG_ENDOCYTIC_2	433	436	PF00928	0.305
TRG_ENDOCYTIC_2	518	521	PF00928	0.473
TRG_ENDOCYTIC_2	555	558	PF00928	0.406
TRG_ENDOCYTIC_2	594	597	PF00928	0.406
TRG_ENDOCYTIC_2	652	655	PF00928	0.406
TRG_ENDOCYTIC_2	768	771	PF00928	0.293
TRG_ENDOCYTIC_2	772	775	PF00928	0.317
TRG_ENDOCYTIC_2	787	790	PF00928	0.496
TRG_ER_diArg_1	208	211	PF00400	0.283
TRG_ER_diArg_1	452	455	PF00400	0.282
TRG_ER_diArg_1	733	736	PF00400	0.377
TRG_NES_CRM1_1	586	598	PF08389	0.404
TRG_Pf-PMV_PEXEL_1	231	235	PF00026	0.334
TRG_Pf-PMV_PEXEL_1	610	614	PF00026	0.206

Homologs


Protein	Taxonomy	Sequence identity	Coverage
A0A0N1I710	Leptomonas seymouri	67%	93%
A0A3S5H5J8	Leishmania donovani	94%	100%
A0A3S5IRA8	Trypanosoma rangeli	54%	100%
A4H4B8	Leishmania braziliensis	80%	98%
A4HSJ7	Leishmania infantum	95%	100%
C9ZU99	Trypanosoma brucei gambiense (strain MHOM/CI/86/DAL972)	54%	99%
E9AKI1	Leishmania mexicana (strain MHOM/GT/2001/U1103)	89%	100%
Q8BJM7	Mus musculus	43%	100%