Q08C92

PR
Gene name
tyw1 (rsafd1, zgc:153368)
Protein name
S-adenosyl-L-methionine-dependent tRNA 4-demethylwyosine synthase TYW1
Names
Radical S-adenosyl methionine and flavodoxin domain-containing protein 1, tRNA wybutosine-synthesizing protein 1 homolog, tRNA-yW-synthesizing protein
Species
Danio rerio (Zebrafish) (Brachydanio rerio)
KEGG Pathway
dre:562076
EC number
4.1.3.44: Oxo-acid-lyases
Protein Class

Descriptions

The autoinhibited protein was predicted that may have potential autoinhibitory elements via cis-regPred.

Autoinhibitory domains (AIDs)

13-103 (Predicted disordered autoinhibitory region) PR

Target domain

Relief mechanism

Assay

cis-regPred

Accessory elements

No accessory elements

References

Autoinhibited structure

Activated structure

1 structures for Q08C92

Entry ID Method Resolution Chain Position Source
AF-Q08C92-F1 Predicted AlphaFoldDB

No variants for Q08C92

Variant ID(s) Position Change Description Diseaes Association Provenance
No variants for Q08C92

2 associated diseases with Q08C92

[MIM: 300387]: Intellectual developmental disorder, X-linked 63 (XLID63)

A disorder characterized by significantly below average general intellectual functioning associated with impairments in adaptive behavior and manifested during the developmental period. Intellectual deficiency is the only primary symptom of non-syndromic X-linked intellectual disability, while syndromic forms presents with associated physical, neurological and/or psychiatric manifestations. {ECO:0000269|PubMed:11889465}. Note=The disease is caused by variants affecting the gene represented in this entry.

[MIM: 300194]: AMME complex (ATS-MR)

An X-linked contiguous gene deletion syndrome characterized by glomerulonephritis, sensorineural hearing loss, intellectual disability, midface hypoplasia and elliptocytosis. {ECO:0000269|PubMed:9480748}. Note=The gene represented in this entry may be involved in disease pathogenesis.

Without disease ID
  • A disorder characterized by significantly below average general intellectual functioning associated with impairments in adaptive behavior and manifested during the developmental period. Intellectual deficiency is the only primary symptom of non-syndromic X-linked intellectual disability, while syndromic forms presents with associated physical, neurological and/or psychiatric manifestations. {ECO:0000269|PubMed:11889465}. Note=The disease is caused by variants affecting the gene represented in this entry.
  • An X-linked contiguous gene deletion syndrome characterized by glomerulonephritis, sensorineural hearing loss, intellectual disability, midface hypoplasia and elliptocytosis. {ECO:0000269|PubMed:9480748}. Note=The gene represented in this entry may be involved in disease pathogenesis.

5 regional properties for Q08C92

Type Name Position InterPro Accession
active_site Thiolase, active site 377 - 390 IPR020610
conserved_site Thiolase, conserved site 342 - 358 IPR020613
active_site Thiolase, acyl-enzyme intermediate active site 88 - 106 IPR020615
domain Thiolase, N-terminal 7 - 266 IPR020616
domain Thiolase, C-terminal 274 - 394 IPR020617

Functions

Description
EC Number 4.1.3.44 Oxo-acid-lyases
Subcellular Localization
PANTHER Family
PANTHER Subfamily
PANTHER Protein Class
PANTHER Pathway Category No pathway information available

No GO annotations of cellular component

Name Definition
No GO annotations for cellular component

4 GO annotations of molecular function

Name Definition
4 iron, 4 sulfur cluster binding Binding to a 4 iron, 4 sulfur (4Fe-4S) cluster; this cluster consists of four iron atoms, with the inorganic sulfur atoms found between the irons and acting as bridging ligands.
FMN binding Binding to flavin mono nucleotide. Flavin mono nucleotide (FMN) is the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes.
metal ion binding Binding to a metal ion.
tRNA-4-demethylwyosine synthase activity Catalysis of the reaction: pyruvate + S-adenosyl-L-methionine + N1-methylguanine37 in tRNAPhe = L-methionine + 5'-deoxyadenosine + carbon dioxide + H2O + 4-demethylwyosine37 in tRNAPhe.

1 GO annotations of biological process

Name Definition
wybutosine biosynthetic process The chemical reactions and pathways resulting in the formation of wybutosine, 3H-imidazopurine-7-butanoic acid, 4,9-dihydro- alpha-[(methoxycarbonyl)amino]- 4,6-dimethyl-9-oxo- 3-beta-D-ribofuranosyl methyl ester, a modified nucleoside found in some tRNA molecules.

3 homologous proteins in AiPD

UniProt AC Gene Name Protein Name Species Evidence Code
Q6NUM6 TYW1B S-adenosyl-L-methionine-dependent tRNA 4-demethylwyosine synthase TYW1B Homo sapiens (Human) PR
Q9NV66 TYW1 S-adenosyl-L-methionine-dependent tRNA 4-demethylwyosine synthase TYW1 Homo sapiens (Human) PR
Q8BJM7 Tyw1 S-adenosyl-L-methionine-dependent tRNA 4-demethylwyosine synthase TYW1 Mus musculus (Mouse) PR
10 20 30 40 50 60
MSGVLNDVRD YTEGYLQVLW QNRLYVYSTA AVLIGVWFTV NMLFKKKKMV HPVSPLASKS
70 80 90 100 110 120
VKKQEPASEA KKVIYVSGVK VFYGSQTGTA KGFAKELAED VIAQGIQCEV IDMKDFDPED
130 140 150 160 170 180
RLAEECTSKI ICVFLVATYT DGQPTESAEW FCKWLEEAST DFRYGKTYLK GMRYAVFGLG
190 200 210 220 230 240
NSVYVGHFNT VSKSIDKWLW MLSAARIMTR GEGDCNVVKS RHGSVQADFQ VWKGKFLNRL
250 260 270 280 290 300
QALAKGEKKA CSGNCKKASC KNKKKHKEEA EDNHSLAEKN NSEEELMESS SDEESSSEDE
310 320 330 340 350 360
KSHGSVIDME DLGNVMNHMK KAKQRMEEDE EDSQRVKQNG ERKSECEEER REMITPALRD
370 380 390 400 410 420
SLTKQGYKLI GSHSGVKLRR WTKSMLRGRG GCYKHTFYGI ESHRCMETTP SLACANKCVF
430 440 450 460 470 480
CWRHHTNPVG TEWRWKMDPA EKIIQEAMEN HRNMIRQFRG VPGVRPERFE EGLTVKHCAL
490 500 510 520 530 540
SLVGEPIMYP EINSFLKLLH QQNISSFLVT NAQFPEEIRS LVPVTQLYVS VDASTKDSLK
550 560 570 580 590 600
KIDRPLFKDF WQRFLDSLRA LGEKQQRTVY RLTLVKAWNV DELKAYADLI ALGQPDFIEV
610 620 630 640 650 660
KGVTYCGESS ASSLTMANVP WHEEVIYFVQ QLANLLPDYE IACEHEHSNC LLLANHKFKV
670 680 690 700 710 720
DGEWWTWIDY ERFQELIQQY EESGGTKNFS AMDYMAKTPS WAVFGAGERG FDPTDTRFQR
KNKTKDISGC