PANDIT+

KeywordFamilyClanGene   

Entry: Prothymosin (PF03247)

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Pfam summary

Description

Prothymosin/parathymosin family

Prothymosin alpha and parathymosin are two ubiquitous small acidic nuclear proteins that are thought to be involved in cell cycle progression, proliferation, and cell differentiation [1].
 
Literature1. Vareli K, Frangou-Lazaridis M, van der Kraan I, Tsolas O, van Driel R; Exp Cell Res 2000;257:152-161.Nuclear distribution of prothymosin alpha and parathymosin: evidence that prothymosin alpha is associated with RNA synthesis processing and parathymosin with early DNA replication. PUBMED:10854063
 
 
InterPro entry IPR004931
 

Alignment

New Hampshire tree

The seed alignment for this family in the PANDIT database contains 2 aligned sequences:

  Q9UMZ1_HUMAN/2-101   THYA_RAT/1-111  

The full alignment for this family in the Pfam database contains 63 aligned sequences

Species in the seed alignment

List of species covered in the seed alignment. The number in brackets denotes the number of sequences taken from each organism.

  Homo sapiens (1);   Rattus norvegicus (1);  

The full alignment covers 16 species.

Pre-computed estimates from Markov codon substitution models (explanation)

Following are maximum-likelihood estimates and log-likelihood scores from codon models M0, M1, M2, M7 and M8, implemented in PAML v.4.1

Model name  

Model M0

Model M1

Model M2

Model M7

Model M8

Log-likelihood score  

-438.37-438.372379-438.372378-438.375335-438.365728

Tree Length  

0.450.451750.451750.451750.45175

κ  

3.053.0457733.0457693.0482693.064022

ω-ratio  

ω=0.16973p0=0.999999 ~ ω0=0.169734
p1=1.00000000002876e-06 ~ ω1=1
p0=1 ~ ω0=0.169735
p1=0 ~ ω1=1
p2=0 ~ ω2=1
ω~Β(20.37415,99)p0=0.998668 ~ ω~Β(21.017358,99)
p1=0.001332 ~ ω=20.609502

P-value for testing  
positive selection  

M1 vs M2: P-value=0.999999
family classification: conserved
M7 vs M8: P-value=0.990439
family classification: conserved

Maximum-likelihood estimates and log-likelihood scores from codon models Nonsynonymous and Dual implemented in HYPHY

Model name  

Model Nonsynonymous

Model Dual

Log-likelihood score  

-471.56558-471.55003

Mean ω-ratio  

ω = 0.20645ω = 22776539.01489

Coeff. of variation  
of ω-ratio  

CVω = 0CVω = 2.60346
 

Annotations

InteractionsThis family has 0 known interactions:

StructuresThis family has 1 structure:
Notation: PDB_ID (PDB chain, PDB residues)

Gene Ontologies

KEGG Pathways - for genes coding for sequences from full alignment
Metabolism
Carbohydrate Metabolism
Starch and sucrose metabolism [KEGG]
Nucleotide Metabolism
Purine metabolism [KEGG]
Pyrimidine metabolism [KEGG]
Metabolism of Cofactors and Vitamins
Porphyrin and chlorophyll metabolism [KEGG]
Genetic Information Processing
Transcription
RNA polymerase [KEGG]
Basal transcription factors [KEGG]
Translation
Ribosome [KEGG]
Folding, Sorting and Degradation
Type II secretion system [KEGG]
Ubiquitin mediated proteolysis [KEGG]
Replication and Repair
DNA replication [KEGG]
Base excision repair [KEGG]
Nucleotide excision repair [KEGG]
Mismatch repair [KEGG]
Homologous recombination [KEGG]
Non-homologous end-joining [KEGG]
Environmental Information Processing
Signal Transduction
Two-component system [KEGG]
MAPK signaling pathway [KEGG]
Wnt signaling pathway [KEGG]
Cellular Processes
Cell Growth and Death
Cell cycle [KEGG]
Cell cycle - yeast [KEGG]
Cell Communication
Tight junction [KEGG]

DisProt- disorder annotation inferred from homologous DisProt sequences
DP00058
Intrinsically disordered region starting at position 1 with length 111 (whole protein)
 

Expression data (explanation)

 
Bgee expression data - for genes coding for sequences from seed alignment     Click here for overview of Bgee data

none


HumanProteinpedia expression data - for human genes coding for sequences from full alignment     Click here for overview of Human Proteinpedia data

The numbers in brackets correspond to the number of human genes that are associated with the selected family and are expressed in the corresponding tissue. Click on the tissue to see all the families that possibly have function in that tissue and click on the genes to see the corresponding genes.

Healthy tissues
Disease tissues

Human disease association

 
Genetic Association Database - data for human genes coding for sequences from full alignment
 
Associated diseases and disorders

Links to OMIM - for human genes coding for sequences from full alignment
 
607755 (1) 188390 (1) 168440 (1) 601674 (1)