ENDA_ARCFU
ID ENDA_ARCFU Reviewed; 305 AA.
AC O29362;
DT 15-DEC-1998, integrated into UniProtKB/Swiss-Prot.
DT 01-JAN-1998, sequence version 1.
DT 03-AUG-2022, entry version 129.
DE RecName: Full=tRNA-splicing endonuclease {ECO:0000255|HAMAP-Rule:MF_01834};
DE EC=4.6.1.16 {ECO:0000255|HAMAP-Rule:MF_01834};
DE AltName: Full=tRNA-intron endonuclease {ECO:0000255|HAMAP-Rule:MF_01834};
GN Name=endA {ECO:0000255|HAMAP-Rule:MF_01834}; OrderedLocusNames=AF_0900;
OS Archaeoglobus fulgidus (strain ATCC 49558 / DSM 4304 / JCM 9628 / NBRC
OS 100126 / VC-16).
OC Archaea; Euryarchaeota; Archaeoglobi; Archaeoglobales; Archaeoglobaceae;
OC Archaeoglobus.
OX NCBI_TaxID=224325;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=ATCC 49558 / DSM 4304 / JCM 9628 / NBRC 100126 / VC-16;
RX PubMed=9389475; DOI=10.1038/37052;
RA Klenk H.-P., Clayton R.A., Tomb J.-F., White O., Nelson K.E., Ketchum K.A.,
RA Dodson R.J., Gwinn M.L., Hickey E.K., Peterson J.D., Richardson D.L.,
RA Kerlavage A.R., Graham D.E., Kyrpides N.C., Fleischmann R.D.,
RA Quackenbush J., Lee N.H., Sutton G.G., Gill S.R., Kirkness E.F.,
RA Dougherty B.A., McKenney K., Adams M.D., Loftus B.J., Peterson S.N.,
RA Reich C.I., McNeil L.K., Badger J.H., Glodek A., Zhou L., Overbeek R.,
RA Gocayne J.D., Weidman J.F., McDonald L.A., Utterback T.R., Cotton M.D.,
RA Spriggs T., Artiach P., Kaine B.P., Sykes S.M., Sadow P.W., D'Andrea K.P.,
RA Bowman C., Fujii C., Garland S.A., Mason T.M., Olsen G.J., Fraser C.M.,
RA Smith H.O., Woese C.R., Venter J.C.;
RT "The complete genome sequence of the hyperthermophilic, sulphate-reducing
RT archaeon Archaeoglobus fulgidus.";
RL Nature 390:364-370(1997).
RN [2]
RP X-RAY CRYSTALLOGRAPHY (2.8 ANGSTROMS).
RX PubMed=10986124; DOI=10.1006/jmbi.2000.3941;
RA Li H., Abelson J.;
RT "Crystal structure of a dimeric archaeal splicing endonuclease.";
RL J. Mol. Biol. 302:639-648(2000).
CC -!- FUNCTION: Endonuclease that removes tRNA introns. Cleaves pre-tRNA at
CC the 5'- and 3'-splice sites to release the intron. The products are an
CC intron and two tRNA half-molecules bearing 2',3' cyclic phosphate and
CC 5'-OH termini. Recognizes a pseudosymmetric substrate in which 2 bulged
CC loops of 3 bases are separated by a stem of 4 bp.
CC -!- CATALYTIC ACTIVITY:
CC Reaction=pretRNA = a 3'-half-tRNA molecule with a 5'-OH end + a 5'-
CC half-tRNA molecule with a 2',3'-cyclic phosphate end + an intron with
CC a 2',3'-cyclic phosphate and a 5'-hydroxyl terminus.; EC=4.6.1.16;
CC Evidence={ECO:0000255|HAMAP-Rule:MF_01834};
CC -!- SUBUNIT: Homodimer.
CC -!- SIMILARITY: Belongs to the tRNA-intron endonuclease family. Archaeal
CC long subfamily. {ECO:0000255|HAMAP-Rule:MF_01834}.
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DR EMBL; AE000782; AAB90338.1; -; Genomic_DNA.
DR PIR; D69362; D69362.
DR PDB; 1R0V; X-ray; 2.00 A; A/B/C/D=1-305.
DR PDB; 1R11; X-ray; 2.70 A; A/B=1-305.
DR PDB; 1RLV; X-ray; 3.00 A; A/B=1-305.
DR PDB; 2GJW; X-ray; 2.85 A; A/B/C/D=2-305.
DR PDB; 3P1Y; X-ray; 2.05 A; A/B/C/D=1-305.
DR PDBsum; 1R0V; -.
DR PDBsum; 1R11; -.
DR PDBsum; 1RLV; -.
DR PDBsum; 2GJW; -.
DR PDBsum; 3P1Y; -.
DR AlphaFoldDB; O29362; -.
DR SMR; O29362; -.
DR STRING; 224325.AF_0900; -.
DR EnsemblBacteria; AAB90338; AAB90338; AF_0900.
DR KEGG; afu:AF_0900; -.
DR eggNOG; arCOG01701; Archaea.
DR HOGENOM; CLU_791347_0_0_2; -.
DR OMA; GADFRTY; -.
DR PhylomeDB; O29362; -.
DR BRENDA; 4.6.1.16; 414.
DR EvolutionaryTrace; O29362; -.
DR Proteomes; UP000002199; Chromosome.
DR GO; GO:0016829; F:lyase activity; IEA:UniProtKB-KW.
DR GO; GO:0003676; F:nucleic acid binding; IEA:InterPro.
DR GO; GO:0000213; F:tRNA-intron endonuclease activity; IEA:UniProtKB-UniRule.
DR GO; GO:0006388; P:tRNA splicing, via endonucleolytic cleavage and ligation; IEA:UniProtKB-UniRule.
DR Gene3D; 3.40.1350.10; -; 1.
DR HAMAP; MF_01834; EndA_long; 1.
DR InterPro; IPR011856; tRNA_endonuc-like_dom_sf.
DR InterPro; IPR036167; tRNA_intron_Endo_cat-like_sf.
DR InterPro; IPR006677; tRNA_intron_Endonuc_cat-like.
DR InterPro; IPR006678; tRNA_intron_Endonuc_N.
DR InterPro; IPR036740; tRNA_intron_Endonuc_N_sf.
DR InterPro; IPR006676; tRNA_splic.
DR InterPro; IPR023516; tRNA_splic_arch_long.
DR PANTHER; PTHR21227; PTHR21227; 1.
DR Pfam; PF01974; tRNA_int_endo; 1.
DR Pfam; PF02778; tRNA_int_endo_N; 1.
DR SUPFAM; SSF53032; SSF53032; 2.
DR SUPFAM; SSF55267; SSF55267; 2.
DR TIGRFAMs; TIGR00324; endA; 1.
PE 1: Evidence at protein level;
KW 3D-structure; Lyase; Reference proteome; tRNA processing.
FT CHAIN 1..305
FT /note="tRNA-splicing endonuclease"
FT /id="PRO_0000109484"
FT ACT_SITE 246
FT /evidence="ECO:0000255|HAMAP-Rule:MF_01834"
FT ACT_SITE 257
FT /evidence="ECO:0000255|HAMAP-Rule:MF_01834"
FT ACT_SITE 287
FT /evidence="ECO:0000255|HAMAP-Rule:MF_01834"
FT STRAND 4..10
FT /evidence="ECO:0007829|PDB:3P1Y"
FT HELIX 13..18
FT /evidence="ECO:0007829|PDB:3P1Y"
FT STRAND 21..24
FT /evidence="ECO:0007829|PDB:3P1Y"
FT STRAND 27..30
FT /evidence="ECO:0007829|PDB:3P1Y"
FT HELIX 32..40
FT /evidence="ECO:0007829|PDB:3P1Y"
FT HELIX 49..59
FT /evidence="ECO:0007829|PDB:3P1Y"
FT STRAND 60..62
FT /evidence="ECO:0007829|PDB:2GJW"
FT HELIX 63..75
FT /evidence="ECO:0007829|PDB:1R0V"
FT STRAND 81..83
FT /evidence="ECO:0007829|PDB:1R0V"
FT STRAND 86..97
FT /evidence="ECO:0007829|PDB:1R0V"
FT HELIX 104..110
FT /evidence="ECO:0007829|PDB:1R0V"
FT TURN 111..113
FT /evidence="ECO:0007829|PDB:1R0V"
FT STRAND 118..122
FT /evidence="ECO:0007829|PDB:1R0V"
FT STRAND 128..134
FT /evidence="ECO:0007829|PDB:1R0V"
FT STRAND 149..154
FT /evidence="ECO:0007829|PDB:1R0V"
FT STRAND 157..161
FT /evidence="ECO:0007829|PDB:1R0V"
FT HELIX 164..167
FT /evidence="ECO:0007829|PDB:1R0V"
FT STRAND 172..175
FT /evidence="ECO:0007829|PDB:1R0V"
FT STRAND 178..181
FT /evidence="ECO:0007829|PDB:1R0V"
FT HELIX 183..191
FT /evidence="ECO:0007829|PDB:1R0V"
FT STRAND 195..197
FT /evidence="ECO:0007829|PDB:1R0V"
FT HELIX 202..212
FT /evidence="ECO:0007829|PDB:1R0V"
FT HELIX 216..228
FT /evidence="ECO:0007829|PDB:1R0V"
FT STRAND 232..235
FT /evidence="ECO:0007829|PDB:1R0V"
FT HELIX 237..239
FT /evidence="ECO:0007829|PDB:1R0V"
FT STRAND 241..247
FT /evidence="ECO:0007829|PDB:1R0V"
FT HELIX 252..257
FT /evidence="ECO:0007829|PDB:1R0V"
FT STRAND 259..264
FT /evidence="ECO:0007829|PDB:1R0V"
FT HELIX 272..284
FT /evidence="ECO:0007829|PDB:1R0V"
FT STRAND 288..293
FT /evidence="ECO:0007829|PDB:1R0V"
FT STRAND 296..303
FT /evidence="ECO:0007829|PDB:1R0V"
SQ SEQUENCE 305 AA; 35959 MW; DC0B5A5DEBD99E35 CRC64;
MIGGDFAVVK AKKSLERRGF GVKRGDKIYL HPLEVVYLQI KGIESFGELE DVLSWAESRM
EDFSTYYFVY EDLRDRGNKV KIQGEFLLTK KPYLPISERK TIRMEEIAEK ARNFDELRLA
VVDEESEITY FRVYEPDMMG EQKEELPEIA GILSDEYVIT KQTEIFSRYF YGSEKGDLVT
LSLIESLYLL DLGKLNLLNA DREELVKRAR EVERNFDRRY EVYRNLKERG FVVKTGFKFG
SEFRVYRKVE SVDDLPHSEY LVDIADSREI RLIDLARAVR LAQNVRKRMV FAYGKNYLCF
ERVKV
