RNA ligase (ATP)

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

Quick info

Protein:

RNA ligase (ATP)

Gene product:

mitochondrial RNA ligase 2

Species:

Leishmania donovani

UniProt:

A0A3S5H791_LEIDO

TriTrypDb:

LdBPK_201700.1 , LdCL_200021800 , LDHU3_20.2070

Length:

418

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: 22
NetGPI	no	yes: 0, no: 22

Cellular components
Term	Name	Level	Count
GO:0031019	mitochondrial mRNA editing complex	3	1
GO:0032991	protein-containing complex	1	1
GO:0045293	mRNA editing complex	3	1
GO:0098798	mitochondrial protein-containing complex	2	1
GO:1902494	catalytic complex	2	1

Expansion

Sequence features

A0A3S5H791

Sequence

MSA

Disorder

Secondary

Topology

Domains

SignalP

GPI

Phosphorylations

ELMs

Structure

Predicted structure by AlphaFold2

Related structures:

AlphaFold database: A0A3S5H791

Function

Biological processes
Term	Name	Level	Count
GO:0006139	nucleobase-containing compound metabolic process	3	1
GO:0006725	cellular aromatic compound metabolic process	3	1
GO:0006807	nitrogen compound metabolic process	2	1
GO:0008152	metabolic process	1	1
GO:0009451	RNA modification	5	1
GO:0009987	cellular process	1	1
GO:0016070	RNA metabolic process	5	1
GO:0034641	cellular nitrogen compound metabolic process	3	1
GO:0043170	macromolecule metabolic process	3	1
GO:0043412	macromolecule modification	4	1
GO:0044237	cellular metabolic process	2	1
GO:0044238	primary metabolic process	2	1
GO:0046483	heterocycle metabolic process	3	1
GO:0071704	organic substance metabolic process	2	1
GO:0090304	nucleic acid metabolic process	4	1
GO:1901360	organic cyclic compound metabolic process	3	1

Molecular functions
Term	Name	Level	Count
GO:0000166	nucleotide binding	3	23
GO:0003824	catalytic activity	1	23
GO:0003972	RNA ligase (ATP) activity	5	23
GO:0005488	binding	1	23
GO:0005524	ATP binding	5	23
GO:0008452	RNA ligase activity	4	23
GO:0016874	ligase activity	2	23
GO:0016886	ligase activity, forming phosphoric ester bonds	3	23
GO:0017076	purine nucleotide binding	4	23
GO:0030554	adenyl nucleotide binding	5	23
GO:0032553	ribonucleotide binding	3	23
GO:0032555	purine ribonucleotide binding	4	23
GO:0032559	adenyl ribonucleotide binding	5	23
GO:0035639	purine ribonucleoside triphosphate binding	4	23
GO:0036094	small molecule binding	2	23
GO:0043167	ion binding	2	23
GO:0043168	anion binding	3	23
GO:0097159	organic cyclic compound binding	2	23
GO:0097367	carbohydrate derivative binding	2	23
GO:0140098	catalytic activity, acting on RNA	3	23
GO:0140640	catalytic activity, acting on a nucleic acid	2	23
GO:1901265	nucleoside phosphate binding	3	23
GO:1901363	heterocyclic compound binding	2	23

Putative motif mimicry


Leishmania	From	To	Domain/Motif	Score
CLV_NRD_NRD_1	12	14	PF00675	0.475
CLV_NRD_NRD_1	141	143	PF00675	0.313
CLV_NRD_NRD_1	179	181	PF00675	0.211
CLV_NRD_NRD_1	255	257	PF00675	0.371
CLV_NRD_NRD_1	283	285	PF00675	0.541
CLV_NRD_NRD_1	296	298	PF00675	0.388
CLV_NRD_NRD_1	3	5	PF00675	0.520
CLV_NRD_NRD_1	38	40	PF00675	0.414
CLV_NRD_NRD_1	385	387	PF00675	0.357
CLV_NRD_NRD_1	397	399	PF00675	0.354
CLV_PCSK_KEX2_1	12	14	PF00082	0.475
CLV_PCSK_KEX2_1	140	142	PF00082	0.374
CLV_PCSK_KEX2_1	179	181	PF00082	0.171
CLV_PCSK_KEX2_1	255	257	PF00082	0.305
CLV_PCSK_KEX2_1	283	285	PF00082	0.564
CLV_PCSK_KEX2_1	296	298	PF00082	0.366
CLV_PCSK_KEX2_1	3	5	PF00082	0.520
CLV_PCSK_KEX2_1	38	40	PF00082	0.400
CLV_PCSK_KEX2_1	385	387	PF00082	0.351
CLV_PCSK_KEX2_1	397	399	PF00082	0.353
CLV_PCSK_KEX2_1	79	81	PF00082	0.276
CLV_PCSK_PC1ET2_1	140	142	PF00082	0.374
CLV_PCSK_PC1ET2_1	79	81	PF00082	0.275
CLV_PCSK_SKI1_1	102	106	PF00082	0.347
CLV_PCSK_SKI1_1	108	112	PF00082	0.238
CLV_PCSK_SKI1_1	152	156	PF00082	0.391
CLV_PCSK_SKI1_1	22	26	PF00082	0.588
CLV_PCSK_SKI1_1	264	268	PF00082	0.349
CLV_PCSK_SKI1_1	320	324	PF00082	0.330
CLV_PCSK_SKI1_1	363	367	PF00082	0.276
CLV_PCSK_SKI1_1	390	394	PF00082	0.283
CLV_PCSK_SKI1_1	4	8	PF00082	0.647
DEG_APCC_DBOX_1	211	219	PF00400	0.369
DEG_APCC_DBOX_1	3	11	PF00400	0.665
DEG_Nend_Nbox_1	1	3	PF02207	0.535
DOC_CKS1_1	378	383	PF01111	0.398
DOC_CYCLIN_RxL_1	1	8	PF00134	0.445
DOC_CYCLIN_RxL_1	102	113	PF00134	0.411
DOC_CYCLIN_RxL_1	9	21	PF00134	0.370
DOC_MAPK_gen_1	140	147	PF00069	0.294
DOC_MAPK_gen_1	296	302	PF00069	0.473
DOC_MAPK_gen_1	9	18	PF00069	0.553
DOC_PP1_RVXF_1	388	395	PF00149	0.373
DOC_USP7_MATH_1	78	82	PF00917	0.311
DOC_USP7_MATH_2	346	352	PF00917	0.264
DOC_USP7_UBL2_3	363	367	PF12436	0.274
DOC_WW_Pin1_4	115	120	PF00397	0.369
DOC_WW_Pin1_4	350	355	PF00397	0.294
DOC_WW_Pin1_4	377	382	PF00397	0.372
LIG_14-3-3_CanoR_1	12	16	PF00244	0.544
LIG_14-3-3_CanoR_1	179	186	PF00244	0.264
LIG_14-3-3_CanoR_1	320	327	PF00244	0.407
LIG_14-3-3_CanoR_1	334	339	PF00244	0.315
LIG_APCC_ABBA_1	15	20	PF00400	0.409
LIG_BIR_III_4	262	266	PF00653	0.231
LIG_FHA_1	110	116	PF00498	0.317
LIG_FHA_1	119	125	PF00498	0.294
LIG_FHA_1	321	327	PF00498	0.392
LIG_FHA_1	378	384	PF00498	0.402
LIG_FHA_1	54	60	PF00498	0.278
LIG_FHA_1	6	12	PF00498	0.571
LIG_FHA_2	179	185	PF00498	0.373
LIG_FHA_2	351	357	PF00498	0.304
LIG_LIR_Gen_1	183	194	PF02991	0.267
LIG_LIR_Gen_1	27	35	PF02991	0.363
LIG_LIR_Gen_1	274	282	PF02991	0.452
LIG_LIR_LC3C_4	247	251	PF02991	0.278
LIG_LIR_Nem_3	168	174	PF02991	0.303
LIG_LIR_Nem_3	23	29	PF02991	0.403
LIG_LIR_Nem_3	274	279	PF02991	0.421
LIG_LIR_Nem_3	402	407	PF02991	0.410
LIG_LIR_Nem_3	88	93	PF02991	0.280
LIG_NRBOX	356	362	PF00104	0.265
LIG_Pex14_2	49	53	PF04695	0.294
LIG_PTB_Apo_2	156	163	PF02174	0.364
LIG_SH2_CRK	93	97	PF00017	0.281
LIG_SH2_NCK_1	133	137	PF00017	0.278
LIG_SH2_NCK_1	29	33	PF00017	0.413
LIG_SH2_SRC	133	136	PF00017	0.294
LIG_SH2_STAP1	172	176	PF00017	0.278
LIG_SH2_STAP1	191	195	PF00017	0.120
LIG_SH2_STAP1	206	210	PF00017	0.154
LIG_SH2_STAP1	87	91	PF00017	0.213
LIG_SH2_STAT3	103	106	PF00017	0.396
LIG_SH2_STAT5	103	106	PF00017	0.162
LIG_SH2_STAT5	165	168	PF00017	0.437
LIG_SH2_STAT5	186	189	PF00017	0.354
LIG_SH2_STAT5	391	394	PF00017	0.333
LIG_SH2_STAT5	399	402	PF00017	0.365
LIG_SH3_1	133	139	PF00018	0.288
LIG_SH3_2	136	141	PF14604	0.411
LIG_SH3_3	133	139	PF00018	0.288
LIG_SH3_3	302	308	PF00018	0.408
LIG_SH3_3	375	381	PF00018	0.271
LIG_TRAF2_1	181	184	PF00917	0.411
LIG_TRAF2_1	275	278	PF00917	0.402
LIG_TRAF2_1	291	294	PF00917	0.361
LIG_UBA3_1	96	105	PF00899	0.444
MOD_CK1_1	118	124	PF00069	0.371
MOD_CK1_1	337	343	PF00069	0.369
MOD_CK2_1	178	184	PF00069	0.314
MOD_CK2_1	27	33	PF00069	0.472
MOD_CK2_1	350	356	PF00069	0.417
MOD_GlcNHglycan	201	204	PF01048	0.231
MOD_GlcNHglycan	302	305	PF01048	0.405
MOD_GlcNHglycan	80	83	PF01048	0.285
MOD_GSK3_1	296	303	PF00069	0.406
MOD_GSK3_1	337	344	PF00069	0.257
MOD_GSK3_1	346	353	PF00069	0.229
MOD_NEK2_1	226	231	PF00069	0.278
MOD_NEK2_1	271	276	PF00069	0.358
MOD_PIKK_1	346	352	PF00454	0.368
MOD_PK_1	296	302	PF00069	0.399
MOD_PK_1	334	340	PF00069	0.369
MOD_PKA_1	296	302	PF00069	0.408
MOD_PKA_2	11	17	PF00069	0.539
MOD_PKA_2	178	184	PF00069	0.264
MOD_PKA_2	27	33	PF00069	0.383
MOD_PKA_2	296	302	PF00069	0.390
MOD_PKB_1	150	158	PF00069	0.264
MOD_Plk_1	355	361	PF00069	0.325
MOD_Plk_2-3	27	33	PF00069	0.406
MOD_Plk_4	118	124	PF00069	0.294
MOD_Plk_4	264	270	PF00069	0.294
MOD_Plk_4	309	315	PF00069	0.382
MOD_Plk_4	334	340	PF00069	0.369
MOD_Plk_4	356	362	PF00069	0.255
MOD_ProDKin_1	115	121	PF00069	0.369
MOD_ProDKin_1	350	356	PF00069	0.294
MOD_ProDKin_1	377	383	PF00069	0.368
MOD_SUMO_rev_2	14	24	PF00179	0.412
MOD_SUMO_rev_2	258	266	PF00179	0.422
MOD_SUMO_rev_2	368	378	PF00179	0.411
TRG_DiLeu_BaEn_1	356	361	PF01217	0.437
TRG_DiLeu_BaLyEn_6	378	383	PF01217	0.487
TRG_ENDOCYTIC_2	186	189	PF00928	0.262
TRG_ENDOCYTIC_2	29	32	PF00928	0.363
TRG_ENDOCYTIC_2	391	394	PF00928	0.315
TRG_ENDOCYTIC_2	87	90	PF00928	0.292
TRG_ENDOCYTIC_2	93	96	PF00928	0.272
TRG_ER_diArg_1	11	13	PF00400	0.487
TRG_ER_diArg_1	178	180	PF00400	0.171
TRG_ER_diArg_1	2	4	PF00400	0.528
TRG_ER_diArg_1	295	297	PF00400	0.369
TRG_ER_diArg_1	38	40	PF00400	0.416
TRG_ER_diArg_1	384	386	PF00400	0.442
TRG_ER_diArg_1	397	399	PF00400	0.312
TRG_NLS_MonoExtN_4	139	144	PF00514	0.430
TRG_Pf-PMV_PEXEL_1	108	113	PF00026	0.375

Homologs


Protein	Taxonomy	Sequence identity	Coverage
A0A0N1HTX0	Leptomonas seymouri	76%	100%
A0A0N1IKD9	Leptomonas seymouri	42%	81%
A0A0S4IH84	Bodo saltans	40%	85%
A0A0S4JRM1	Bodo saltans	57%	82%
A0A1X0NW43	Trypanosomatidae	69%	100%
A0A1X0P2V9	Trypanosomatidae	41%	90%
A0A3R7NWI2	Trypanosoma rangeli	70%	100%
A0A422NFE4	Trypanosoma rangeli	42%	91%
A0A451EJB4	Leishmania donovani	39%	99%
A4H382	Leishmania braziliensis	39%	100%
A4HRI2	Leishmania infantum	39%	100%
A4HZ02	Leishmania infantum	100%	100%
C9ZIM1	Trypanosoma brucei gambiense (strain MHOM/CI/86/DAL972)	66%	100%
C9ZXL1	Trypanosoma brucei gambiense (strain MHOM/CI/86/DAL972)	41%	89%
E9AC50	Leishmania major	39%	100%
E9AIM1	Leishmania braziliensis	89%	100%
E9AJE6	Leishmania mexicana (strain MHOM/GT/2001/U1103)	38%	100%
E9AUV4	Leishmania mexicana (strain MHOM/GT/2001/U1103)	97%	100%
P32277	Enterobacteria phage T4	25%	100%
P86924	Trypanosoma brucei brucei	66%	100%
P86925	Trypanosoma brucei brucei (strain 927/4 GUTat10.1)	66%	100%
P86926	Trypanosoma brucei brucei	41%	89%
P86927	Trypanosoma brucei brucei (strain 927/4 GUTat10.1)	41%	89%
Q6T452	Leishmania major	96%	100%
V5ASZ3	Trypanosoma cruzi	69%	100%
V5DD75	Trypanosoma cruzi	42%	84%