3'-phosphate/5'-hydroxy nucleic acid ligase

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

Quick info

Protein:

Gene product:

tRNA-splicing ligase RtcB, putative

Species:

Leishmania mexicana

UniProt:

E9B3N5_LEIMU

TriTrypDb:

LmxM.32.0560

Length:

351

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: 11
NetGPI	no	yes: 0, no: 11

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

Expansion

Sequence features

E9B3N5

Sequence

MSA

Disorder

Secondary

Topology

Domains

SignalP

GPI

Phosphorylations

ELMs

Structure

Predicted structure by AlphaFold2

Related structures:

AlphaFold database: E9B3N5

Function

Biological processes
Term	Name	Level	Count
GO:0006139	nucleobase-containing compound metabolic process	3	12
GO:0006396	RNA processing	6	12
GO:0006725	cellular aromatic compound metabolic process	3	12
GO:0006807	nitrogen compound metabolic process	2	12
GO:0008152	metabolic process	1	12
GO:0009987	cellular process	1	12
GO:0016070	RNA metabolic process	5	12
GO:0034641	cellular nitrogen compound metabolic process	3	12
GO:0043170	macromolecule metabolic process	3	12
GO:0044237	cellular metabolic process	2	12
GO:0044238	primary metabolic process	2	12
GO:0046483	heterocycle metabolic process	3	12
GO:0071704	organic substance metabolic process	2	12
GO:0090304	nucleic acid metabolic process	4	12
GO:1901360	organic cyclic compound metabolic process	3	12
GO:0006259	DNA metabolic process	4	1
GO:0006281	DNA repair	5	1
GO:0006950	response to stress	2	1
GO:0006974	DNA damage response	4	1
GO:0033554	cellular response to stress	3	1
GO:0042245	RNA repair	6	1
GO:0044260	obsolete cellular macromolecule metabolic process	3	1
GO:0050896	response to stimulus	1	1
GO:0051716	cellular response to stimulus	2	1

Molecular functions
Term	Name	Level	Count
GO:0000166	nucleotide binding	3	12
GO:0003824	catalytic activity	1	12
GO:0005488	binding	1	12
GO:0005525	GTP binding	5	12
GO:0008452	RNA ligase activity	4	12
GO:0016874	ligase activity	2	12
GO:0016886	ligase activity, forming phosphoric ester bonds	3	12
GO:0017076	purine nucleotide binding	4	12
GO:0019001	guanyl nucleotide binding	5	12
GO:0032553	ribonucleotide binding	3	12
GO:0032555	purine ribonucleotide binding	4	12
GO:0032561	guanyl ribonucleotide binding	5	12
GO:0035639	purine ribonucleoside triphosphate binding	4	12
GO:0036094	small molecule binding	2	12
GO:0043167	ion binding	2	12
GO:0043168	anion binding	3	12
GO:0043169	cation binding	3	12
GO:0046872	metal ion binding	4	12
GO:0097159	organic cyclic compound binding	2	12
GO:0097367	carbohydrate derivative binding	2	12
GO:0140098	catalytic activity, acting on RNA	3	12
GO:0140640	catalytic activity, acting on a nucleic acid	2	12
GO:1901265	nucleoside phosphate binding	3	12
GO:1901363	heterocyclic compound binding	2	12
GO:0003909	DNA ligase activity	4	1
GO:0030145	manganese ion binding	6	1
GO:0046914	transition metal ion binding	5	1
GO:0140097	catalytic activity, acting on DNA	3	1

Putative motif mimicry


Leishmania	From	To	Domain/Motif	Score
CLV_C14_Caspase3-7	38	42	PF00656	0.463
CLV_NRD_NRD_1	103	105	PF00675	0.293
CLV_NRD_NRD_1	240	242	PF00675	0.252
CLV_NRD_NRD_1	284	286	PF00675	0.269
CLV_NRD_NRD_1	293	295	PF00675	0.254
CLV_NRD_NRD_1	309	311	PF00675	0.263
CLV_NRD_NRD_1	70	72	PF00675	0.329
CLV_PCSK_KEX2_1	284	286	PF00082	0.268
CLV_PCSK_KEX2_1	292	294	PF00082	0.256
CLV_PCSK_KEX2_1	58	60	PF00082	0.158
CLV_PCSK_KEX2_1	70	72	PF00082	0.345
CLV_PCSK_PC1ET2_1	58	60	PF00082	0.158
CLV_PCSK_PC7_1	288	294	PF00082	0.263
CLV_PCSK_SKI1_1	242	246	PF00082	0.249
CLV_PCSK_SKI1_1	293	297	PF00082	0.263
CLV_PCSK_SKI1_1	344	348	PF00082	0.263
DEG_Nend_Nbox_1	1	3	PF02207	0.554
DEG_SCF_FBW7_1	189	195	PF00400	0.554
DOC_CKS1_1	189	194	PF01111	0.554
DOC_MAPK_gen_1	104	111	PF00069	0.501
DOC_MAPK_MEF2A_6	104	111	PF00069	0.466
DOC_MAPK_MEF2A_6	121	129	PF00069	0.463
DOC_MAPK_MEF2A_6	21	28	PF00069	0.463
DOC_MAPK_NFAT4_5	21	29	PF00069	0.539
DOC_PP2B_LxvP_1	139	142	PF13499	0.501
DOC_PP2B_LxvP_1	26	29	PF13499	0.539
DOC_SPAK_OSR1_1	294	298	PF12202	0.530
DOC_USP7_MATH_1	322	326	PF00917	0.447
DOC_WW_Pin1_4	188	193	PF00397	0.554
DOC_WW_Pin1_4	316	321	PF00397	0.463
LIG_14-3-3_CanoR_1	241	249	PF00244	0.539
LIG_14-3-3_CanoR_1	292	298	PF00244	0.465
LIG_14-3-3_CanoR_1	46	50	PF00244	0.501
LIG_CaMK_CASK_1	236	241	PF00069	0.514
LIG_deltaCOP1_diTrp_1	164	172	PF00928	0.477
LIG_FHA_1	302	308	PF00498	0.462
LIG_FHA_1	76	82	PF00498	0.517
LIG_FHA_2	294	300	PF00498	0.477
LIG_FHA_2	7	13	PF00498	0.453
LIG_GBD_Chelix_1	339	347	PF00786	0.277
LIG_LIR_Gen_1	124	134	PF02991	0.463
LIG_LIR_Gen_1	191	200	PF02991	0.554
LIG_LIR_Nem_3	124	129	PF02991	0.448
LIG_LIR_Nem_3	153	159	PF02991	0.452
LIG_LIR_Nem_3	191	196	PF02991	0.554
LIG_LIR_Nem_3	63	68	PF02991	0.480
LIG_PCNA_yPIPBox_3	168	182	PF02747	0.554
LIG_PCNA_yPIPBox_3	333	344	PF02747	0.466
LIG_Pex14_1	165	169	PF04695	0.452
LIG_Pex14_2	161	165	PF04695	0.539
LIG_SH2_STAT5	148	151	PF00017	0.452
LIG_SH2_STAT5	159	162	PF00017	0.452
LIG_SH2_STAT5	206	209	PF00017	0.477
LIG_SH2_STAT5	264	267	PF00017	0.452
LIG_SH2_STAT5	275	278	PF00017	0.452
LIG_SUMO_SIM_anti_2	251	256	PF11976	0.477
LIG_SUMO_SIM_anti_2	334	341	PF11976	0.465
LIG_SUMO_SIM_par_1	334	341	PF11976	0.554
LIG_UBA3_1	125	132	PF00899	0.461
MOD_CK1_1	271	277	PF00069	0.478
MOD_CK1_1	48	54	PF00069	0.570
MOD_CK2_1	284	290	PF00069	0.463
MOD_Cter_Amidation	282	285	PF01082	0.277
MOD_GlcNHglycan	112	115	PF01048	0.252
MOD_GlcNHglycan	224	227	PF01048	0.307
MOD_GlcNHglycan	245	248	PF01048	0.251
MOD_GlcNHglycan	270	273	PF01048	0.341
MOD_GlcNHglycan	37	40	PF01048	0.265
MOD_GSK3_1	150	157	PF00069	0.551
MOD_GSK3_1	188	195	PF00069	0.518
MOD_GSK3_1	41	48	PF00069	0.539
MOD_NEK2_1	110	115	PF00069	0.444
MOD_PK_1	311	317	PF00069	0.501
MOD_PKA_1	284	290	PF00069	0.469
MOD_PKA_1	293	299	PF00069	0.454
MOD_PKA_1	310	316	PF00069	0.463
MOD_PKA_2	284	290	PF00069	0.469
MOD_PKA_2	293	299	PF00069	0.454
MOD_PKA_2	45	51	PF00069	0.501
MOD_Plk_1	311	317	PF00069	0.501
MOD_Plk_1	4	10	PF00069	0.486
MOD_Plk_4	121	127	PF00069	0.452
MOD_Plk_4	260	266	PF00069	0.477
MOD_Plk_4	311	317	PF00069	0.501
MOD_Plk_4	338	344	PF00069	0.501
MOD_ProDKin_1	188	194	PF00069	0.554
MOD_ProDKin_1	316	322	PF00069	0.463
MOD_SUMO_rev_2	63	68	PF00179	0.450
TRG_ENDOCYTIC_2	323	326	PF00928	0.463
TRG_ER_diArg_1	209	212	PF00400	0.554
TRG_ER_diArg_1	284	286	PF00400	0.482
TRG_ER_diArg_1	292	294	PF00400	0.456
TRG_NES_CRM1_1	11	25	PF08389	0.453
TRG_Pf-PMV_PEXEL_1	174	179	PF00026	0.339
TRG_Pf-PMV_PEXEL_1	59	63	PF00026	0.158

Homologs


Protein	Taxonomy	Sequence identity	Coverage
A0A0N0P711	Leptomonas seymouri	74%	74%
A0A0S4JN45	Bodo saltans	53%	82%
A0A1X0P1C5	Trypanosomatidae	64%	75%
A0A3S7X6D5	Leishmania donovani	96%	100%
A0A422N518	Trypanosoma rangeli	64%	77%
A4HL93	Leishmania braziliensis	91%	100%
A4I8R9	Leishmania infantum	96%	100%
A4S3S3	Ostreococcus lucimarinus (strain CCE9901)	28%	68%
A7RKF6	Nematostella vectensis	28%	70%
A8JC00	Chlamydomonas reinhardtii	25%	74%
A8QC60	Brugia malayi	28%	70%
A9CB42	Papio anubis	27%	70%
A9UXG6	Monosiga brevicollis	25%	71%
B0WCT9	Culex quinquefasciatus	28%	69%
B0XKF3	Culex quinquefasciatus	29%	70%
B3L4K9	Plasmodium knowlesi (strain H)	25%	69%
B3RID0	Trichoplax adhaerens	28%	69%
B8LBM8	Thalassiosira pseudonana	25%	73%
C1E9Y5	Micromonas commoda (strain RCC299 / NOUM17 / CCMP2709)	28%	68%
C1MI97	Micromonas pusilla (strain CCMP1545)	26%	69%
C3YN79	Branchiostoma floridae	27%	69%
C4M244	Entamoeba histolytica	23%	67%
D0A4R1	Trypanosoma brucei gambiense (strain MHOM/CI/86/DAL972)	58%	72%
O27634	Methanothermobacter thermautotrophicus (strain ATCC 29096 / DSM 1053 / JCM 10044 / NBRC 100330 / Delta H)	30%	73%
O29399	Archaeoglobus fulgidus (strain ATCC 49558 / DSM 4304 / JCM 9628 / NBRC 100126 / VC-16)	29%	73%
P46850	Escherichia coli (strain K12)	51%	86%
P59975	Mycobacterium bovis (strain ATCC BAA-935 / AF2122/97)	30%	81%
P90838	Caenorhabditis elegans	26%	70%
P9WGW4	Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh)	30%	81%
P9WGW5	Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)	30%	81%
Q00ZY2	Ostreococcus tauri	28%	68%
Q17FP1	Aedes aegypti	27%	69%
Q19PY3	Sus scrofa	27%	70%
Q4Q4F2	Leishmania major	96%	100%
Q4R6X4	Macaca fascicularis	27%	70%
Q4YUZ9	Plasmodium berghei (strain Anka)	25%	70%
Q54Y09	Dictyostelium discoideum	27%	69%
Q561P3	Xenopus tropicalis	29%	70%
Q5E9T9	Bos taurus	27%	70%
Q5JCZ1	Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)	28%	73%
Q6AYT3	Rattus norvegicus	27%	70%
Q6LXF9	Methanococcus maripaludis (strain S2 / LL)	26%	73%
Q6NZS4	Danio rerio	28%	70%
Q74MJ0	Nanoarchaeum equitans (strain Kin4-M)	28%	74%
Q7Q412	Anopheles gambiae	26%	69%
Q7RI54	Plasmodium yoelii yoelii	25%	69%
Q8IIU6	Plasmodium falciparum (isolate 3D7)	26%	69%
Q8ZY09	Pyrobaculum aerophilum (strain ATCC 51768 / DSM 7523 / JCM 9630 / CIP 104966 / NBRC 100827 / IM2)	27%	73%
Q99LF4	Mus musculus	27%	70%
Q9VIW7	Drosophila melanogaster	28%	69%
Q9Y3I0	Homo sapiens	27%	70%
Q9YB37	Aeropyrum pernix (strain ATCC 700893 / DSM 11879 / JCM 9820 / NBRC 100138 / K1)	26%	73%
V5B6Y6	Trypanosoma cruzi	62%	78%