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    TXNL4B thioredoxin like 4B [ Homo sapiens (human) ]

    Gene ID: 54957, updated on 27-Nov-2024

    Summary

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    Official Symbol
    TXNL4Bprovided by HGNC
    Official Full Name
    thioredoxin like 4Bprovided by HGNC
    Primary source
    HGNC:HGNC:26041
    See related
    Ensembl:ENSG00000140830 MIM:617722; AllianceGenome:HGNC:26041
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    DLP; Dim2
    Summary
    Predicted to be involved in mRNA splicing, via spliceosome. Located in cytosol and nucleoplasm. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in ovary (RPKM 7.1), testis (RPKM 6.7) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See TXNL4B in Genome Data Viewer
    Location:
    16q22.2
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (72084857..72094378, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (77901171..77912511, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (72118756..72128277, complement)

    Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene haptoglobin Neighboring gene haptoglobin-related protein Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11089 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11090 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11091 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:72132901-72133401 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr16:72141414-72142613 Neighboring gene DEAH-box helicase 38 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11093 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11092 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:72159455-72159956 Neighboring gene NANOG hESC enhancer GRCh37_chr16:72162293-72163093 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:72163923-72164424 Neighboring gene polyamine modulated factor 1 binding protein 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:72171124-72171624 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11094 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11095 Neighboring gene uncharacterized LOC105371341 Neighboring gene VISTA enhancer hs22 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr16:72257113-72258312 Neighboring gene uncharacterized LOC124903720 Neighboring gene MYC binding protein pseudogene

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. Overproduction, purification, crystallization and preliminary X-ray diffraction studies of the human spliceosomal protein TXNL4B. Jin T, et al. Acta Crystallogr Sect F Struct Biol Cryst Commun, 2005 Mar 1. PMID 16511018, Free PMC Article
    2. Biochemical characterization and crystal structure of a Dim1 family associated protein: Dim2. Simeoni F, et al. Biochemistry, 2005 Sep 13. PMID 16142897
    3. Biochemical and structural characterization of (South)-methanocarbathymidine that specifically inhibits growth of herpes simplex virus type 1 thymidine kinase-transduced osteosarcoma cells. Schelling P, et al. J Biol Chem, 2004 Jul 30. PMID 15163659
    4. High-resolution crystal structure of human Dim2/TXNL4B. Jin T, et al. Acta Crystallogr Sect F Struct Biol Cryst Commun, 2013 Mar 1. PMID 23519793, Free PMC Article
    5. The evolutionarily conserved Dim1 protein defines a novel branch of the thioredoxin fold superfamily. Zhang YZ, et al. Physiol Genomics, 1999 Nov 11. PMID 11015569

    See all (34) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. A crystal structure of TXNL4B was determined at 1.33 A resolution and refined to an Rwork of 0.13 and an Rfree of 0.18 with one native dimer in the asymmetric unit.
      Title: High-resolution crystal structure of human Dim2/TXNL4B.
    2. The human gene coding for the spliceosomal protein thioredoxin-like 4B (TXNL4B) was overexpressed in Escherichia coli and the encoded protein was purified and crystallized.
      Title: Overproduction, purification, crystallization and preliminary X-ray diffraction studies of the human spliceosomal protein TXNL4B.
    3. DLP is implicated in not only cell cycle progression but also in a more specific molecular process such as pre-mRNA splicing
      Title: DLP, a novel Dim1 family protein implicated in pre-mRNA splicing and cell cycle progression.
    4. crystal structure; in contrast to hDim1, hDim2 forms stable homodimers
      Title: Biochemical characterization and crystal structure of a Dim1 family associated protein: Dim2.
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

    Description
    A genome-wide association study identifies rs2000999 as a strong genetic determinant of circulating haptoglobin levels.
    EBI GWAS Catalog
    Biological, clinical and population relevance of 95 loci for blood lipids.
    EBI GWAS Catalog
    Discovery and refinement of loci associated with lipid levels.
    EBI GWAS Catalog
    Novel Loci for metabolic networks and multi-tissue expression studies reveal genes for atherosclerosis.
    EBI GWAS Catalog

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    HIV-1 interactions

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    Replication interactions

    Interaction Pubs
    Knockdown of thioredoxin-like 4B (TXNL4B) by siRNA enhances the early stages of HIV-1 replication in HeLa-CD4 cells infected with viral pseudotypes HIV89.6R and HIV8.2N PubMed

    Go to the HIV-1, Human Interaction Database

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ20511

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in mRNA splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of U4/U6 x U5 tri-snRNP complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of U5 snRNP IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		  
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    		  
    part_of spliceosomal complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    thioredoxin-like protein 4B
    Names
    Dim1-like protein

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001142317.2 → NP_001135789.1  thioredoxin-like protein 4B isoform 1

      See identical proteins and their annotated locations for NP_001135789.1

      Status: VALIDATED

      Source sequence(s)
      AC009087, BC009646, DA499499
      Consensus CDS
      CCDS10906.1
      UniProtKB/Swiss-Prot
      D3DWS6, Q9NX01
      UniProtKB/TrEMBL
      Q53GP2
      Related
      ENSP00000408130.1, ENST00000423037.5
      Conserved Domains (1) summary
      cd02986
      Location:10 → 123
      DLP; Dim1 family, Dim1-like protein (DLP) subfamily; DLP is a novel protein which shares 38% sequence identity to Dim1. Like Dim1, it is also implicated in pre-mRNA splicing and cell cycle progression. DLP is located in the nucleus and has been shown to ...

    2. NM_001142318.2 → NP_001135790.1  thioredoxin-like protein 4B isoform 1

      See identical proteins and their annotated locations for NP_001135790.1

      Status: VALIDATED

      Source sequence(s)
      AC009087, BC009646, CD517462
      Consensus CDS
      CCDS10906.1
      UniProtKB/Swiss-Prot
      D3DWS6, Q9NX01
      UniProtKB/TrEMBL
      Q53GP2
      Related
      ENSP00000392310.2, ENST00000426362.6
      Conserved Domains (1) summary
      cd02986
      Location:10 → 123
      DLP; Dim1 family, Dim1-like protein (DLP) subfamily; DLP is a novel protein which shares 38% sequence identity to Dim1. Like Dim1, it is also implicated in pre-mRNA splicing and cell cycle progression. DLP is located in the nucleus and has been shown to ...

    3. NM_001324354.2 → NP_001311283.1  thioredoxin-like protein 4B isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC009087
      UniProtKB/TrEMBL
      H3BUL8
      Related
      ENSP00000457699.1, ENST00000569767.1
      Conserved Domains (1) summary
      cl00388
      Location:10 → 95
      Thioredoxin_like; Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold

    4. NM_001324355.2 → NP_001311284.1  thioredoxin-like protein 4B isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC009087, BM849401

    5. NM_017853.3 → NP_060323.1  thioredoxin-like protein 4B isoform 1

      See identical proteins and their annotated locations for NP_060323.1

      Status: VALIDATED

      Source sequence(s)
      AC009087, BC009646, BP355646
      Consensus CDS
      CCDS10906.1
      UniProtKB/Swiss-Prot
      D3DWS6, Q9NX01
      UniProtKB/TrEMBL
      Q53GP2
      Related
      ENSP00000268483.3, ENST00000268483.8
      Conserved Domains (1) summary
      cd02986
      Location:10 → 123
      DLP; Dim1 family, Dim1-like protein (DLP) subfamily; DLP is a novel protein which shares 38% sequence identity to Dim1. Like Dim1, it is also implicated in pre-mRNA splicing and cell cycle progression. DLP is located in the nucleus and has been shown to ...

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000016.10 Reference GRCh38.p14 Primary Assembly

      Range
      72084857..72094378 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060940.1 Alternate T2T-CHM13v2.0

      Range
      77901171..77912511 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054380589.1 → XP_054236564.1  thioredoxin-like protein 4B isoform X1

      UniProtKB/Swiss-Prot
      D3DWS6, Q9NX01
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9NX01.1 GenPept UniProtKB/Swiss-Prot:Q9NX01

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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