YTM1_CHATD
ID YTM1_CHATD Reviewed; 495 AA.
AC G0SFB5;
DT 13-APR-2016, integrated into UniProtKB/Swiss-Prot.
DT 19-OCT-2011, sequence version 1.
DT 25-MAY-2022, entry version 51.
DE RecName: Full=Ribosome biogenesis protein YTM1 {ECO:0000255|HAMAP-Rule:MF_03029};
GN Name=YTM1 {ECO:0000255|HAMAP-Rule:MF_03029};
GN ORFNames=CTHT_0061460 {ECO:0000312|EMBL:EGS18131.1};
OS Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719).
OC Eukaryota; Fungi; Dikarya; Ascomycota; Pezizomycotina; Sordariomycetes;
OC Sordariomycetidae; Sordariales; Chaetomiaceae; Chaetomium.
OX NCBI_TaxID=759272;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=DSM 1495 / CBS 144.50 / IMI 039719;
RX PubMed=21784248; DOI=10.1016/j.cell.2011.06.039;
RA Amlacher S., Sarges P., Flemming D., van Noort V., Kunze R., Devos D.P.,
RA Arumugam M., Bork P., Hurt E.;
RT "Insight into structure and assembly of the nuclear pore complex by
RT utilizing the genome of a eukaryotic thermophile.";
RL Cell 146:277-289(2011).
RN [2]
RP X-RAY CRYSTALLOGRAPHY (2.10 ANGSTROMS) IN COMPLEX WITH ERB1.
RX PubMed=26476442; DOI=10.1093/nar/gkv1043;
RA Wegrecki M., Rodriguez-Galan O., de la Cruz J., Bravo J.;
RT "The structure of Erb1-Ytm1 complex reveals the functional importance of a
RT high-affinity binding between two beta-propellers during the assembly of
RT large ribosomal subunits in eukaryotes.";
RL Nucleic Acids Res. 43:11017-11030(2015).
RN [3]
RP X-RAY CRYSTALLOGRAPHY (2.67 ANGSTROMS) IN COMPLEX WITH ERB1.
RX PubMed=26657628; DOI=10.1093/nar/gkv1365;
RA Thoms M., Ahmed Y.L., Maddi K., Hurt E., Sinning I.;
RT "Concerted removal of the Erb1-Ytm1 complex in ribosome biogenesis relies
RT on an elaborate interface.";
RL Nucleic Acids Res. 44:926-939(2016).
CC -!- FUNCTION: Component of the NOP7 complex, which is required for
CC maturation of the 25S and 5.8S ribosomal RNAs and formation of the 60S
CC ribosome. {ECO:0000255|HAMAP-Rule:MF_03029}.
CC -!- SUBUNIT: Component of the NOP7 complex, composed of ERB1, NOP7 and
CC YTM1. The complex is held together by ERB1, which interacts with NOP7
CC via its N-terminal domain and with YTM1 via a high-affinity interaction
CC between the seven-bladed beta-propeller domains of the 2 proteins. The
CC NOP7 complex associates with the 66S pre-ribosome (PubMed:26476442,
CC PubMed:26657628). Interacts (via UBL domain) with MDN1 (via VWFA/MIDAS
CC domain) (By similarity). {ECO:0000250|UniProtKB:Q12024,
CC ECO:0000255|HAMAP-Rule:MF_03029, ECO:0000269|PubMed:26476442,
CC ECO:0000269|PubMed:26657628}.
CC -!- SUBCELLULAR LOCATION: Nucleus, nucleolus {ECO:0000255|HAMAP-
CC Rule:MF_03029}. Nucleus, nucleoplasm {ECO:0000255|HAMAP-Rule:MF_03029}.
CC -!- SIMILARITY: Belongs to the WD repeat WDR12/YTM1 family.
CC {ECO:0000255|HAMAP-Rule:MF_03029}.
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DR EMBL; GL988046; EGS18131.1; -; Genomic_DNA.
DR RefSeq; XP_006696462.1; XM_006696399.1.
DR PDB; 5CXB; X-ray; 2.10 A; A=1-495.
DR PDB; 5CXC; X-ray; 3.10 A; A=1-495.
DR PDB; 5CYK; X-ray; 3.00 A; A=1-495.
DR PDB; 5EM2; X-ray; 2.67 A; B/D=1-495.
DR PDB; 6QTB; X-ray; 1.89 A; B/E=8-98.
DR PDBsum; 5CXB; -.
DR PDBsum; 5CXC; -.
DR PDBsum; 5CYK; -.
DR PDBsum; 5EM2; -.
DR PDBsum; 6QTB; -.
DR AlphaFoldDB; G0SFB5; -.
DR SMR; G0SFB5; -.
DR STRING; 759272.G0SFB5; -.
DR EnsemblFungi; EGS18131; EGS18131; CTHT_0061460.
DR GeneID; 18260184; -.
DR KEGG; cthr:CTHT_0061460; -.
DR eggNOG; KOG0313; Eukaryota.
DR HOGENOM; CLU_000288_57_0_1; -.
DR OrthoDB; 1540178at2759; -.
DR Proteomes; UP000008066; Unassembled WGS sequence.
DR GO; GO:0005730; C:nucleolus; IEA:UniProtKB-SubCell.
DR GO; GO:0005654; C:nucleoplasm; IEA:UniProtKB-SubCell.
DR GO; GO:0030687; C:preribosome, large subunit precursor; IEA:UniProtKB-UniRule.
DR GO; GO:0043021; F:ribonucleoprotein complex binding; IEA:UniProtKB-UniRule.
DR GO; GO:0000466; P:maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA); IEA:UniProtKB-UniRule.
DR GO; GO:0000463; P:maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA); IEA:UniProtKB-UniRule.
DR Gene3D; 2.130.10.10; -; 1.
DR HAMAP; MF_03029; WDR12; 1.
DR InterPro; IPR020472; G-protein_beta_WD-40_rep.
DR InterPro; IPR012972; NLE.
DR InterPro; IPR015943; WD40/YVTN_repeat-like_dom_sf.
DR InterPro; IPR001680; WD40_repeat.
DR InterPro; IPR019775; WD40_repeat_CS.
DR InterPro; IPR036322; WD40_repeat_dom_sf.
DR InterPro; IPR028599; WDR12/Ytm1.
DR Pfam; PF08154; NLE; 1.
DR Pfam; PF00400; WD40; 3.
DR PRINTS; PR00320; GPROTEINBRPT.
DR SMART; SM00320; WD40; 6.
DR SUPFAM; SSF50978; SSF50978; 1.
DR PROSITE; PS00678; WD_REPEATS_1; 2.
DR PROSITE; PS50082; WD_REPEATS_2; 3.
DR PROSITE; PS50294; WD_REPEATS_REGION; 1.
PE 1: Evidence at protein level;
KW 3D-structure; Nucleus; Reference proteome; Repeat; Ribosome biogenesis;
KW rRNA processing; WD repeat.
FT CHAIN 1..495
FT /note="Ribosome biogenesis protein YTM1"
FT /id="PRO_0000435844"
FT REPEAT 129..168
FT /note="WD 1"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_03029"
FT REPEAT 175..213
FT /note="WD 2"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_03029"
FT REPEAT 223..262
FT /note="WD 3"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_03029"
FT REPEAT 264..295
FT /note="WD 4"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_03029"
FT REPEAT 296..337
FT /note="WD 5"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_03029"
FT REPEAT 386..426
FT /note="WD 6"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_03029"
FT REPEAT 458..495
FT /note="WD 7"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_03029"
FT REGION 15..97
FT /note="Ubiquitin-like (UBL) domain"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_03029,
FT ECO:0000305|PubMed:26476442"
FT STRAND 14..20
FT /evidence="ECO:0007829|PDB:6QTB"
FT HELIX 24..26
FT /evidence="ECO:0007829|PDB:6QTB"
FT HELIX 30..32
FT /evidence="ECO:0007829|PDB:6QTB"
FT STRAND 33..38
FT /evidence="ECO:0007829|PDB:6QTB"
FT HELIX 43..51
FT /evidence="ECO:0007829|PDB:6QTB"
FT TURN 53..56
FT /evidence="ECO:0007829|PDB:6QTB"
FT STRAND 63..67
FT /evidence="ECO:0007829|PDB:6QTB"
FT HELIX 76..82
FT /evidence="ECO:0007829|PDB:6QTB"
FT STRAND 87..89
FT /evidence="ECO:0007829|PDB:5EM2"
FT STRAND 91..97
FT /evidence="ECO:0007829|PDB:6QTB"
FT STRAND 103..109
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 114..120
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 122..124
FT /evidence="ECO:0007829|PDB:5EM2"
FT HELIX 125..131
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 134..136
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 145..150
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 155..159
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 164..167
FT /evidence="ECO:0007829|PDB:5CXB"
FT HELIX 171..173
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 176..178
FT /evidence="ECO:0007829|PDB:5CYK"
FT STRAND 180..187
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 190..195
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 198..211
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 213..222
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 228..234
FT /evidence="ECO:0007829|PDB:5CXB"
FT TURN 235..238
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 239..244
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 249..253
FT /evidence="ECO:0007829|PDB:5CXB"
FT TURN 256..258
FT /evidence="ECO:0007829|PDB:5CXB"
FT HELIX 264..266
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 285..287
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 290..293
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 300..305
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 312..317
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 320..326
FT /evidence="ECO:0007829|PDB:5CXB"
FT TURN 327..329
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 332..337
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 342..348
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 357..362
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 367..370
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 372..374
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 382..384
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 391..396
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 401..408
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 413..417
FT /evidence="ECO:0007829|PDB:5CXB"
FT HELIX 426..428
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 432..435
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 437..441
FT /evidence="ECO:0007829|PDB:5CXB"
FT HELIX 444..447
FT /evidence="ECO:0007829|PDB:5CXB"
FT TURN 448..450
FT /evidence="ECO:0007829|PDB:5CXB"
FT HELIX 456..458
FT /evidence="ECO:0007829|PDB:5CXB"
FT TURN 459..461
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 463..469
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 472..477
FT /evidence="ECO:0007829|PDB:5CXB"
FT STRAND 480..486
FT /evidence="ECO:0007829|PDB:5CXB"
SQ SEQUENCE 495 AA; 52939 MW; 88115FB91CB1B37F CRC64;
MDAPMEDAPA PVAQVKVIFT TTEPDLELPE SKRQLLVPAD IRRYGLSRIL NSESMLDTGS
IPFDFLINGS FLRSSLEDYL TSNGLSLETT LTLQYVRSLI PPVYEASFEH DDWVSAVDVL
SATSPAGRWS SAANSSAAVQ PGQERVLSAS YDGLLRIWNA SGSVIATSPS GSHGGHTASI
KAAKFLTSDR LASAGMDRTV RVWKYTESDH FTGELKPTLE LYGHTGSVDW LDVDGHSKHI
LTASADGAIG FWSASKASAP EPDASLLPGA HVSKRRKATS SVSTAQRGPL GLWSIHTAPA
TAAIFDPRDR TVAYSASQDH TVRTLDLTTG QVVSTLTLTH PLLSLSALTR AGTTSPLLAA
GTSARHITMV DPRASSATTS VMTLRGHANK VVSLSPSPEN EYSLVSGSHD GTCRVWDLRS
VRPATKEEGS LGGVSEPVYV IERESWASKG KKKRPVAGDG CKVFSVVWDK LGIFSGGEDK
KVQVNRGRNI VTEQK
