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 major

UniProt:

Q4Q4F2_LEIMA

TriTrypDb:

LmjF.33.0560 , LMJLV39_330012000 , LMJSD75_330012000

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	2
GO:0110165	cellular anatomical entity	1	2

Expansion

Sequence features

Q4Q4F2

Sequence

MSA

Disorder

Secondary

Topology

Domains

SignalP

GPI

Phosphorylations

ELMs

Structure

Predicted structure by AlphaFold2

Related structures:

AlphaFold database: Q4Q4F2

Function

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

Molecular functions
Term	Name	Level	Count
GO:0000166	nucleotide binding	3	12
GO:0003824	catalytic activity	1	12
GO:0003909	DNA ligase activity	4	2
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:0030145	manganese ion binding	6	2
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:0046914	transition metal ion binding	5	2
GO:0097159	organic cyclic compound binding	2	12
GO:0097367	carbohydrate derivative binding	2	12
GO:0140097	catalytic activity, acting on DNA	3	2
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

Putative motif mimicry


Leishmania	From	To	Domain/Motif	Score
CLV_C14_Caspase3-7	38	42	PF00656	0.455
CLV_NRD_NRD_1	104	106	PF00675	0.298
CLV_NRD_NRD_1	240	242	PF00675	0.251
CLV_NRD_NRD_1	284	286	PF00675	0.267
CLV_NRD_NRD_1	293	295	PF00675	0.253
CLV_NRD_NRD_1	309	311	PF00675	0.262
CLV_NRD_NRD_1	70	72	PF00675	0.328
CLV_PCSK_KEX2_1	104	106	PF00082	0.264
CLV_PCSK_KEX2_1	284	286	PF00082	0.267
CLV_PCSK_KEX2_1	292	294	PF00082	0.255
CLV_PCSK_KEX2_1	70	72	PF00082	0.324
CLV_PCSK_PC7_1	288	294	PF00082	0.262
CLV_PCSK_SKI1_1	242	246	PF00082	0.251
CLV_PCSK_SKI1_1	293	297	PF00082	0.258
CLV_PCSK_SKI1_1	344	348	PF00082	0.262
DEG_Nend_Nbox_1	1	3	PF02207	0.553
DEG_SCF_FBW7_1	189	195	PF00400	0.553
DOC_CKS1_1	189	194	PF01111	0.553
DOC_MAPK_gen_1	104	111	PF00069	0.500
DOC_MAPK_MEF2A_6	121	129	PF00069	0.440
DOC_MAPK_MEF2A_6	21	28	PF00069	0.462
DOC_MAPK_NFAT4_5	21	29	PF00069	0.538
DOC_PP2B_LxvP_1	139	142	PF13499	0.500
DOC_PP2B_LxvP_1	26	29	PF13499	0.512
DOC_SPAK_OSR1_1	294	298	PF12202	0.529
DOC_USP7_MATH_1	322	326	PF00917	0.515
DOC_WW_Pin1_4	188	193	PF00397	0.553
DOC_WW_Pin1_4	223	228	PF00397	0.529
DOC_WW_Pin1_4	316	321	PF00397	0.462
LIG_14-3-3_CanoR_1	241	249	PF00244	0.538
LIG_14-3-3_CanoR_1	292	298	PF00244	0.464
LIG_14-3-3_CanoR_1	46	50	PF00244	0.500
LIG_CaMK_CASK_1	236	241	PF00069	0.513
LIG_deltaCOP1_diTrp_1	164	172	PF00928	0.476
LIG_FHA_1	155	161	PF00498	0.402
LIG_FHA_1	302	308	PF00498	0.461
LIG_FHA_1	76	82	PF00498	0.538
LIG_FHA_2	229	235	PF00498	0.550
LIG_FHA_2	294	300	PF00498	0.476
LIG_FHA_2	7	13	PF00498	0.452
LIG_GBD_Chelix_1	339	347	PF00786	0.276
LIG_LIR_Gen_1	124	134	PF02991	0.462
LIG_LIR_Gen_1	191	200	PF02991	0.553
LIG_LIR_Gen_1	63	73	PF02991	0.534
LIG_LIR_Nem_3	124	129	PF02991	0.451
LIG_LIR_Nem_3	153	159	PF02991	0.451
LIG_LIR_Nem_3	191	196	PF02991	0.553
LIG_LIR_Nem_3	63	68	PF02991	0.495
LIG_PCNA_yPIPBox_3	168	182	PF02747	0.553
LIG_PCNA_yPIPBox_3	333	344	PF02747	0.465
LIG_Pex14_1	165	169	PF04695	0.451
LIG_Pex14_2	161	165	PF04695	0.538
LIG_SH2_STAT5	148	151	PF00017	0.443
LIG_SH2_STAT5	159	162	PF00017	0.444
LIG_SH2_STAT5	206	209	PF00017	0.451
LIG_SH2_STAT5	264	267	PF00017	0.451
LIG_SH2_STAT5	275	278	PF00017	0.451
LIG_SUMO_SIM_anti_2	251	256	PF11976	0.476
LIG_SUMO_SIM_anti_2	334	341	PF11976	0.464
LIG_SUMO_SIM_par_1	334	341	PF11976	0.553
LIG_UBA3_1	125	132	PF00899	0.460
MOD_CK1_1	271	277	PF00069	0.477
MOD_CK1_1	48	54	PF00069	0.500
MOD_CK2_1	228	234	PF00069	0.545
MOD_CK2_1	284	290	PF00069	0.462
MOD_Cter_Amidation	282	285	PF01082	0.276
MOD_GlcNHglycan	112	115	PF01048	0.251
MOD_GlcNHglycan	245	248	PF01048	0.251
MOD_GlcNHglycan	270	273	PF01048	0.300
MOD_GlcNHglycan	37	40	PF01048	0.267
MOD_GSK3_1	150	157	PF00069	0.550
MOD_GSK3_1	188	195	PF00069	0.505
MOD_GSK3_1	41	48	PF00069	0.500
MOD_NEK2_1	110	115	PF00069	0.448
MOD_NEK2_2	228	233	PF00069	0.544
MOD_PK_1	311	317	PF00069	0.500
MOD_PKA_1	284	290	PF00069	0.468
MOD_PKA_1	293	299	PF00069	0.453
MOD_PKA_1	310	316	PF00069	0.462
MOD_PKA_2	284	290	PF00069	0.468
MOD_PKA_2	293	299	PF00069	0.453
MOD_PKA_2	45	51	PF00069	0.500
MOD_Plk_1	24	30	PF00069	0.538
MOD_Plk_1	311	317	PF00069	0.561
MOD_Plk_1	4	10	PF00069	0.498
MOD_Plk_4	121	127	PF00069	0.449
MOD_Plk_4	260	266	PF00069	0.476
MOD_Plk_4	311	317	PF00069	0.500
MOD_Plk_4	338	344	PF00069	0.500
MOD_ProDKin_1	188	194	PF00069	0.553
MOD_ProDKin_1	223	229	PF00069	0.529
MOD_ProDKin_1	316	322	PF00069	0.462
TRG_ENDOCYTIC_2	323	326	PF00928	0.462
TRG_ER_diArg_1	103	105	PF00400	0.464
TRG_ER_diArg_1	209	212	PF00400	0.553
TRG_ER_diArg_1	284	286	PF00400	0.481
TRG_ER_diArg_1	292	294	PF00400	0.455
TRG_NES_CRM1_1	11	25	PF08389	0.452
TRG_Pf-PMV_PEXEL_1	174	179	PF00026	0.338

Homologs


Protein	Taxonomy	Sequence identity	Coverage
A0A0N0P711	Leptomonas seymouri	74%	74%
A0A0S4JN45	Bodo saltans	53%	82%
A0A1X0P1C5	Trypanosomatidae	64%	75%
A0A3S7X6D5	Leishmania donovani	95%	100%
A0A422N518	Trypanosoma rangeli	63%	77%
A4HL93	Leishmania braziliensis	90%	100%
A4I8R9	Leishmania infantum	95%	100%
A4S3S3	Ostreococcus lucimarinus (strain CCE9901)	28%	68%
A7RKF6	Nematostella vectensis	27%	70%
A8JC00	Chlamydomonas reinhardtii	26%	74%
A8QC60	Brugia malayi	27%	70%
A9CB42	Papio anubis	28%	70%
A9UXG6	Monosiga brevicollis	28%	71%
B0WCT9	Culex quinquefasciatus	28%	69%
B0XKF3	Culex quinquefasciatus	29%	70%
B3L4K9	Plasmodium knowlesi (strain H)	24%	69%
B3RID0	Trichoplax adhaerens	26%	69%
B8LBM8	Thalassiosira pseudonana	26%	73%
C1E9Y5	Micromonas commoda (strain RCC299 / NOUM17 / CCMP2709)	28%	68%
C1MI97	Micromonas pusilla (strain CCMP1545)	28%	69%
C3YN79	Branchiostoma floridae	28%	69%
C4M244	Entamoeba histolytica	24%	67%
D0A4R1	Trypanosoma brucei gambiense (strain MHOM/CI/86/DAL972)	59%	72%
E9B3N5	Leishmania mexicana (strain MHOM/GT/2001/U1103)	96%	100%
O27634	Methanothermobacter thermautotrophicus (strain ATCC 29096 / DSM 1053 / JCM 10044 / NBRC 100330 / Delta H)	29%	73%
O29399	Archaeoglobus fulgidus (strain ATCC 49558 / DSM 4304 / JCM 9628 / NBRC 100126 / VC-16)	28%	73%
P46850	Escherichia coli (strain K12)	50%	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	27%	68%
Q17FP1	Aedes aegypti	28%	69%
Q19PY3	Sus scrofa	28%	70%
Q4R6X4	Macaca fascicularis	28%	70%
Q4YUZ9	Plasmodium berghei (strain Anka)	24%	70%
Q54Y09	Dictyostelium discoideum	27%	69%
Q561P3	Xenopus tropicalis	29%	70%
Q5E9T9	Bos taurus	28%	70%
Q5JCZ1	Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)	27%	73%
Q6AYT3	Rattus norvegicus	28%	70%
Q6LXF9	Methanococcus maripaludis (strain S2 / LL)	25%	73%
Q6NZS4	Danio rerio	28%	70%
Q74MJ0	Nanoarchaeum equitans (strain Kin4-M)	27%	74%
Q7Q412	Anopheles gambiae	27%	69%
Q7RI54	Plasmodium yoelii yoelii	25%	69%
Q8IIU6	Plasmodium falciparum (isolate 3D7)	25%	69%
Q8ZY09	Pyrobaculum aerophilum (strain ATCC 51768 / DSM 7523 / JCM 9630 / CIP 104966 / NBRC 100827 / IM2)	28%	73%
Q99LF4	Mus musculus	28%	70%
Q9VIW7	Drosophila melanogaster	29%	69%
Q9Y3I0	Homo sapiens	28%	70%
Q9YB37	Aeropyrum pernix (strain ATCC 700893 / DSM 11879 / JCM 9820 / NBRC 100138 / K1)	26%	73%
V5B6Y6	Trypanosoma cruzi	62%	78%