SynDB Home Page
SynDB Home Page
Browse
Search
Download
Help
People
links

blue bulletSynDB protein details  


Parse error: syntax error, unexpected T_VARIABLE in /home/kongl/syndb/www/sdb_nats.php on line 52
0TDRKH_HUMAN*   SwissProt (?) | Description Local Annotation Link Reference
General Information
NameTDRKH
DescriptionTudor and kh domain containing protein.
SpeciesHomo sapiens (NCBI taxonomy ID: 9606)
GON/A
Domain Architecture (Details)
InterPro domains unassigned to SynO:
There are multiple copies of this domain in the Drosophila melanogaster tudor protein and ithas been identified in several RNA-binding proteins . Although thefunction of this domain is unknown.n Drosophila melanogaster the tudor protein is requiredduring oogenesis for the formation of primordial germ cells and for normalabdominal segmentation .
  IPR008191:Maternal tudor protein
The K homology (KH) domain was first identified in the human heterogeneousnuclear ribonucleoprotein (hnRNP) K. It is a domain of around 70 amino acidsthat is present in a wide variety of quite diverse nucleic acid-bindingproteins . It has been shown to bind RNA . Like many other RNA-binding motifs.H motifs are found in one or multiple copies (14 copies in chicken vigilin) and.t least for hnRNP K (three copies) and FMR-1 (two copies).ach motif is necessary for in vitro RNA binding activity.uggesting that they may function cooperatively or.n the case of single KH motif proteins (for example.er1p).ndependently .According to structural analysis the KH domain can be separated in two groups. The first group or type-1 contain a beta-alpha-alpha-beta-beta-alpha structure.hereas in the type-2 the two last beta-sheet are located in the N terminal part of the domain (alpha-beta-beta-alpha-alpha-beta). Sequence similarity between these two folds are limited to a short region (VIGXXGXXI) in the RNA binding motif. This motif is located between helice 1 and 2 in type-1 and between helice 2 and 3 in type-2. Proteins known to contain a type-1 KH domain include bacterial polyribonucleotide nucleotidyltransferases (); vertebrate fragile X mental retardation protein 1 (FMR1); eukaryotic heterogeneous nuclear ribonucleoprotein K (hnRNP K).ne of at least 20 major proteins that are part of hnRNP particles in mammalian cells; mammalian poly(rC) binding proteins; Artemia salina glycine-rich protein GRP33; yeast PAB1-binding protein 2 (PBP2); vertebrate vigilin; and human high-density lipoprotein binding protein (HDL-binding protein).
  IPR004088:KH, type 1
The K homology (KH) domain was first identified in the human heterogeneousnuclear ribonucleoprotein (hnRNP) K. It is an evolutionarily conservedsequence of around 70 amino acids that is present in a wide variety of quitediverse nucleic acid-binding proteins. Although it is not strictly proven theKH domain is suspected to bind RNA. Like many other RNA-binding motifs.Hmotifs are found in one or multiple copies (14 copies in chicken vigilin) and.t least for hnRNP K (three KH domains) and FMR-1 (two KH domains).ach motifis necessary for in vitro RNA binding activity.uggesting that they mayfunction cooperatively or.n the case of single KH motif proteins (forexample.er1p).ndependently . The domain has been found in a number of proteins including eukaryotic and prokaryotic RS3 ribosomal proteins; vertebrate fragile X mental retardation protein 1 (FMR1); yeast Pab1-binding protein 2 PBP2; human high-density lipoprotein binding protein; and human onconeural ventral antigen-1 (NOVA-1).The solution structure of the first KH domain of FMR1 and of theC-terminal KH domain of hnRNP K determined by nuclear magnetic resonance(NMR) revealed a beta-alpha-alpha-beta-beta-alpha structure.
  IPR004087:KH
The drosophila tudor protein is encoded by a posterior group gene.hich when mutated disrupt normal abdominal segmentation and polecell formation. Another drosophila gene.omeless.s required forRNA localization during oogenesis. The tudor protein containsmultiple repeats of a domain which is also found in homeless .The tudor domain is found in many proteins that colocalize withribonucleoprotein or single-strand DNA-associated complexes in thenucleus.n the mitochondrial membrane.r at kinetochores.It is not known whether the domain binds directly to RNA and ssDNA.rcontrols interactions with the nucleoprotein complexes. At least onetudor-containing protein.omeless.lso contains a zinc fingertypical of RNA-binding proteins .
  IPR002999:Tudor
IPR008191:TUDOR 
Evalue:-36.7958793640137 
Location:302-423IPR004088:KH_1 
Evalue:-20.6575775146484 
Location:54-115IPR004088:KH_1 
Evalue:-17.3565464019775 
Location:126-190
SequencesProtein: TDRKH_HUMAN (606 aa)
mRNA: BC032690
Local Annotation
Synapse Ontology
Calcium release from RyR (Ryanodine Receptor) in the SR (Sarcoplasmic Reticulum) is activated by the calcium induced-calcium-release
sdb:0325 RyR-CICR  (Evidence:keywords)
KO assignmentNot mapped to KEGG
Loci Structure (Details)Loci index, Chromosomal location, Length, Possible relational loci clusterExon1: 43 residues, 150010960-150011086Exon2: 32 residues, 150013512-150013604Exon3: 34 residues, 150013809-150013906Exon4: 36 residues, 150014164-150014266Exon5: 52 residues, 150014491-150014643Exon6: 23 residues, 150014919-150014984Exon7: 59 residues, 150015195-150015368Exon8: 55 residues, 150015538-150015699Exon9: 109 residues, 150017784-150018106Exon10: 48 residues, 150018202-150018342Exon11: 65 residues, 150019050-150019240Exon12: 37 residues, 150020580-150020687Exon13: 52 residues, 150021998-150022149Exon14: 22 residues, 150029479-150029541Exon15: 2 residues, -Jump to TDRKH_HUMAN  
Tune and view alternative isoforms
Loci Cluster (Details)Loci: 2548 149493820-149506576 ~-13K 2556(PSMD4)(+)Loci: 3831 149531036-149566511 ~-35K 2560(PIK4CB)(-)Loci: 2549 149851285-149938183 ~-87K 2579(SNX27)(+)Loci: 3832 150010960-150029541 ~-19K 2590(TDRKH)(-)Loci: 3830 149370788-149385728 ~-15K 2543(SEMA6C)(-)Link out to UCSC