FlyBase Gene Report: Dmel\Tim13

General Information

Symbol

Dmel\Tim13

Species

D. melanogaster

Name

Tim13

Annotation Symbol

CG11611

Feature Type

protein_coding_gene

FlyBase ID

FBgn0036204

Gene Model Status

Current

Stock Availability

2 publicly available

Gene Summary

Mitochondrial intermembrane chaperone that participates in the import and insertion of some multi-pass transmembrane proteins into the mitochondrial inner membrane. Also required for the transfer of beta-barrel precursors from the TOM complex to the sorting and assembly machinery (SAM complex) of the outer membrane. Acts as a chaperone-like protein that protects the hydrophobic precursors from aggregation and guide them through the mitochondrial intermembrane space. The Tim8-Tim13 complex mediates the import of some proteins while the predominant Tim9-Tim10 70 kDa complex mediates the import of much more proteins (By similarity). (UniProt, Q9VTN3)

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Gene Group
UniProtKB
Interactive Fly

Key Links

Genomic Location

Cytogenetic map

68D4-68D4

Sequence location

3L:11,774,060..11,774,501 [-]

Recombination map

3-36

RefSeq locus

NT_037436 REGION:11774060..11774501

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse

Other Genome Views

The following external sites may use different assemblies or annotations than FlyBase.

Function

Gene Ontology (GO) Annotations (4 terms)

Molecular Function (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

enables protein transporter activity

inferred from sequence or structural similarity with UniProtKB:P53299

(Gene Ontology Curators, 2002-)

Biological Process (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

involved_in protein insertion into mitochondrial inner membrane

inferred from biological aspect of ancestor with PANTHER:PTN000451189

(GO Reference Genome Project, 2011-)

inferred from sequence or structural similarity with UniProtKB:P53299

(Gene Ontology Curators, 2002-)

Cellular Component (2 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

part_of mitochondrial intermembrane space protein transporter complex

inferred from sequence or structural similarity with UniProtKB:P53299

(Gene Ontology Curators, 2002-)

inferred from biological aspect of ancestor with PANTHER:PTN000451189

(GO Reference Genome Project, 2011-)

is_active_in mitochondrial intermembrane space

inferred from sequence or structural similarity with UniProtKB:P53299

(Gene Ontology Curators, 2002-)

Gene Group (FlyBase)

TIM8-TIM13 COMPLEX - TIM13 VARIANT (TESTIS)

Protein Family (UniProt)

Belongs to the small Tim family. (Q9VTN3)

Protein Signatures (InterPro)

Summaries

Gene Group (FlyBase)

TIM8-TIM13 COMPLEX - TIM13 VARIANT (TESTIS) -: The Tim8-Tim13 complex is a mitochondrial intermembrane space chaperone that is required for the import and insertion of a subset of multipass transmembrane proteins and beta-barrel proteins into the mitochondrial inner membrane. (Adapted from PMID:11875042 and PMID:18706423.)

Protein Function (UniProtKB)

(UniProt, Q9VTN3)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Tim13 for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)

Isoform displayed:

Pfam protein domains

InterPro name

classification

start

end

Protein Domains (via SMART)

Isoform displayed:

SMART protein domains

InterPro name

classification

start

end

Structure

Protein 3D structure (Predicted by AlphaFold) (AlphaFold entry Q9VTN3)

If you don't see a structure in the viewer, refresh your browser.

Model Confidence:

Very high (pLDDT > 90)
Confident (90 > pLDDT > 70)
Low (70 > pLDDT > 50)
Very low (pLDDT < 50)

AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Some regions with low pLDDT may be unstructured in isolation.

Experimentally Determined Structures

Crossreferences

Comments on Gene Model

Gene model reviewed during 5.45

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Tim13-RA

FBtr0076089

NM_140248

442

Additional Transcript Data and Comments

Reported size (kB)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

UniProt

RefSeq ID

GenBank

Tim13-PA

FBpp0075820

10.7

8.65

Q9VTN3

NP_648505

AAF50014

Polypeptides with Identical Sequences

There is only one protein coding transcript and one polypeptide associated with this gene

Additional Polypeptide Data and Comments

Reported size (kDa)

Comments

External Data

Subunit Structure (UniProtKB)

Heterohexamer; composed of 3 copies of Tim8 and 3 copies of Tim13, named soluble 70 kDa complex. Associates with the TIM22 complex, whose core is composed of Tim22 (By similarity).

(UniProt, Q9VTN3)

Domain

The twin CX3C motif contains 4 conserved Cys residues that form 2 disulfide bonds in the mitochondrial intermembrane space. However, during the transit of Tim13 from cytoplasm into mitochondrion, the Cys residues probably coordinate zinc, thereby preventing folding and allowing its transfer across mitochondrial outer membrane (By similarity).

(UniProt, Q9VTN3)

Crossreferences

InterPro - A database of protein families, domains and functional sites

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

Q9VTN3

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Tim13 using the Feature Mapper tool.

External Data

Crossreferences

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

Tim13_1

Linkouts

Expression Data

Testis-specificity index

The testis specificity index was calculated from modENCODE tissue expression data by Vedelek et al., 2018 to indicate the degree of testis enrichment compared to other tissues. Scores range from -2.52 (underrepresented) to 5.2 (very high testis bias).

5.01

Transcript Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\Tim13 in JBrowse

RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region

View exonic expression by developmental stage for Dmel\Tim13

View exonic expression by tissue for Dmel\Tim13

Bulk Downloads

RNA-Seq RPKM values for all genes

Reference

See Gelbart and Emmert, 2013 for analysis details and data files for all genes.

Developmental Proteome: Life Cycle

Developmental Proteome: Embryogenesis

External Data and Images

Linkouts

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

39327/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0036204

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0036204

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0036204

Flygut - An atlas of the Drosophila adult midgut

FBgn0036204

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 0 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 2 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Tim13

Transgenic constructs containing regulatory region of Tim13

Aberrations (Deficiencies and Duplications) ( 0 )

Inferred from experimentation ( 0 )

Inferred from location ( 5 )

Variants

Variant Molecular Consequences

Alleles Representing Disease-Implicated Variants

Phenotypes

For more details about a specific phenotype click on the relevant allele symbol.

Lethality

Allele

viable, with Dcr-2^UAS.cDa, Scer\GAL4^elav.PLu

Tim13^GD15191

viable, with Scer\GAL4^Mef2.PR

Tim13^GD15191

viable, with Scer\GAL4^pnr-MD237

Tim13^GD15191

viable, with Scer\GAL4^tin.CΔ4

Tim13^GD15191

Phenotype manifest in

Allele

Orthologs

Downloads

Download All DIOPT Orthologs

Human Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Homo sapiens (Human) (6)

Hsap\TIMM13

14 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (8)

Rnor\Timm13

14 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Mus musculus (laboratory mouse) (7)

Mmus\Timm13

13 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Xenopus tropicalis (Western clawed frog) (4)

Xtro\timm13

7 of 13

Yes

Xtro\timm8b

1 of 13

Xtro\timm9

1 of 13

Xtro\timm10

1 of 13

Danio rerio (Zebrafish) (6)

Drer\timm13

14 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Caenorhabditis elegans (Nematode, roundworm) (5)

Cele\tin-13

13 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

Anopheles gambiae (African malaria mosquito) (5)

Agam\AgaP_AGAP002277

12 of 12

Yes

1 of 12

1 of 12

1 of 12

1 of 12

Arabidopsis thaliana (thale-cress) (4)

Atha\TIM13

11 of 13

Yes

Atha\TIM8

1 of 13

Atha\TIM9

1 of 13

Atha\TIM10

1 of 13

Saccharomyces cerevisiae (Brewer's yeast) (5)

Scer\TIM13

12 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

Schizosaccharomyces pombe (Fission yeast) (4)

Spom\tim13

11 of 12

Yes

Spom\tim8

1 of 12

Spom\tim9

1 of 12

Spom\tim10

1 of 12

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:Tim13. Refer to their site for version information.

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v9.1)

Gene Symbol

Score

Source

Alignment

Drosophila melanogaster (Fruit fly) (6)

13 of 13

9 of 13

2 of 13

1 of 13

1 of 13

1 of 13

Human Disease Associations

FlyBase Human Disease Model Reports

Disease Ontology (DO) Annotations

Models Based on Experimental Evidence ( 0 )

Allele

Disease

Evidence

References

Potential Models Based on Orthology ( 0 )

Human Ortholog

Disease

Evidence

References

Modifiers Based on Experimental Evidence ( 0 )

Allele

Disease

Interaction

References

Disease Associations of Human Orthologs (via DIOPT v9.1 and OMIM)

Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.

Homo sapiens (Human)

Gene name

Score

OMIM

OMIM Phenotype

DO term

Complementation?

Transgene?

TIMM13; translocase of inner mitochondrial membrane 13

14 of 14

607383

Functional Complementation Data

Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.

Interactions

Summary of Physical Interactions

esyN Network Diagram

Other Interaction Browsers

Summary of Genetic Interactions

esyN Network Diagram

Show/hide secondary interactors
(data from AllianceMine provided by esyN)

esyN Network Key:

Suppression

Enhancement

Other Interaction Browsers

View in FlyBase Interactions Browser View in MIST tool (external link)

Please look at the allele data for full details of the genetic interactions

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Pink1

enhanceable

Tim13

(Gehrke et al., 2015)

External Data

Subunit Structure (UniProtKB)

Heterohexamer; composed of 3 copies of Tim8 and 3 copies of Tim13, named soluble 70 kDa complex. Associates with the TIM22 complex, whose core is composed of Tim22 (By similarity).

(UniProt, Q9VTN3 )

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0036204

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

Class of Gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-36

Cytogenetic map

68D4-68D4

Sequence location

3L:11,774,060..11,774,501 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

68D4-68D4

Limits computationally determined from genome sequence between P{PZ}l(3)01239⁰¹²³⁹&P{lacW}l(3)01239^j9B4 and P{PZ}CycA⁰²⁴⁶¹&P{PZ}CycA⁰³⁹⁴⁶

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

3-36

(FlyBase, 2016)

3-30.1

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (2)

Aberrations including deletions of this gene Aberrations including duplications of this gene

VDRC

v100776

P{KK108559}VIE-260B

v39157

w¹¹¹⁸; P{GD15191}v39157

Genomic Clones (17)

Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete

cDNA Clones (1)

Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see JBrowse for alignment of the cDNAs and ESTs to the gene model.

cDNA clones, fully sequenced

BDGP DGC clones

Other clones

IP20580

Drosophila Genomics Resource Center cDNA clones

For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

FBgn0036204

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0036204

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

Relationship to Other Genes

Source for database merge of

Additional comments

The Tim13 gene may have been derived from the CG34132 gene by retroposition.

(Langille and Clark, 2007)

Nomenclature History

Source for database identify of

Source for identity of: Tim13 CG11611

(Swiss-Prot Project Members, 2000.10.1)

Nomenclature comments

Etymology

Synonyms and Secondary IDs (2)

Reported As

Symbol Synonym

CG11611

(Keleman et al., 2009.8.5)

Tim13

(Zhang et al., 2016, Gehrke et al., 2015, dos Santos, 2014, Langille and Clark, 2007, Langille and Clark, 2007, Rehmsmeier et al., 2004)

Name Synonyms

Tim13

(Rehmsmeier et al., 2004)

Secondary FlyBase IDs

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 23 )

Sequence Crossreferences

NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.

39327

GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.

AAF50014

RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.

UniProt/GCRP - The gene-centric reference proteome (GCRP) provides a 1:1 mapping between genes and UniProt accessions in which a single 'canonical' isoform represents the product(s) of each protein-coding gene.

Q9VTN3

UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information

Q9VTN3

Other crossreferences

AlphaFold DB - AlphaFold provides open access to protein structure predictions for the human proteome and other key proteins of interest, to accelerate scientific research.

Q9VTN3

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

39327/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0036204

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0036204

FlyMine - An integrated database for Drosophila genomics

FBgn0036204

InterPro - A database of protein families, domains and functional sites

KEGG Genes - Molecular building blocks of life in the genomic space.

dme:Dmel_CG11611

MARRVEL_MODEL - MARRVEL (model organism gene)

39327

Linkouts

Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones

FBgn0036204

DroID - A comprehensive database of gene and protein interactions.

FBgn0036204

DRSC - Results frm RNAi screens

FBgn0036204

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

Tim13_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0036204

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0036204

Flygut - An atlas of the Drosophila adult midgut

FBgn0036204

iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)

TC000046

References (24)

The following external sites may use different assemblies or annotations than FlyBase.

5.01

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