STRINGSTRING
Cdk7 Cdk7 XRCC1 XRCC1 Xpd Xpd DNAlig1 DNAlig1 Ubi-p63E Ubi-p63E RfC4 RfC4 RpII215 RpII215 Usp7 Usp7 CG8142 CG8142 mrn mrn hay hay Tfb4 Tfb4 Rpb8 Rpb8 CycH CycH Ssl1 Ssl1 RpII18 RpII18 RpS27A RpS27A RfC3 RfC3 Rpb3 Rpb3 Rpb11 Rpb11 RPA2 RPA2 CG9667 CG9667 DNAlig3 DNAlig3 pic pic Rpb7 Rpb7 Rpb10 Rpb10 Prp19 Prp19 cyp33 cyp33 Tfb1 Tfb1 fand fand Mat1 Mat1 Gnf1 Gnf1 Rpb12 Rpb12 CG31368 CG31368 Tfb5 Tfb5 Cul4 Cul4 nej nej CG11839 CG11839 Roc1a Roc1a Rpb4 Rpb4 Rpb5 Rpb5 TfIIS TfIIS RpL40 RpL40 RPA3 RPA3 RpII140 RpII140 RfC38 RfC38 Ubi-p5E Ubi-p5E RpII15 RpII15
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splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.
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query proteins and first shell of interactors
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second shell of interactors
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proteins of unknown 3D structure
filled nodes:
a 3D structure is known or predicted
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Known Interactions
from curated databases
experimentally determined
Predicted Interactions
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Cdk7Cyclin-dependent kinase 7 (Cdk7) encodes a serine/threonine protein kinase whose activity depends on the regulatory subunits encoded by CycH and Mat1. This trimeric Cdk complex activates other Cdks by phosphorylation in their T-loop and is called Cdk activating kinase (CAK). CAK can also be part of TFIIH, where the product of Cdk7 phosphorylates different transcription substrates (e.g. CTD of Pol II). (353 aa)
XRCC1XRCC1 protein; Damaged DNA binding. It is involved in the biological process described with: base-excision repair; single strand break repair. (614 aa)
XpdXeroderma pigmentosum D (Xpd) encodes a DNA helicase that is a subunit of the basal transcription and DNA repair factor TFIIH. (769 aa)
DNAlig1DNA ligase 1; DNA ligase that seals nicks in double-stranded DNA during DNA replication, DNA recombination and DNA repair. (747 aa)
Ubi-p63EPolyubiquitin; Ubiquitin exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-48-linked is involved in protein degradatio [...] (763 aa)
RfC4Replication factor C subunit 2; The elongation of primed DNA templates by DNA polymerase delta and epsilon requires the action of the accessory proteins proliferating cell nuclear antigen (PCNA) and activator 1. Subunit 2 binds ATP. (331 aa)
RpII215DNA-directed RNA polymerase II subunit RPB1; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Largest and catalytic component of RNA polymerase II which synthesizes mRNA precursors and many functional non-coding RNAs. Forms the polymerase active center together with the second largest subunit. Pol II is the central component of the basal RNA polymerase II transcription machinery. It is composed of mobile elements that move relative to each other. RPB1 is part of the core element with the central large cl [...] (1887 aa)
Usp7Ubiquitin carboxyl-terminal hydrolase 7; Hydrolase that deubiquitinates target proteins. (1129 aa)
CG8142LD35209p; ATP binding; DNA clamp loader activity. It is involved in the biological process described with: DNA-dependent DNA replication; DNA repair. (353 aa)
mrnGeneral transcription factor IIH subunit 4; Component of the general transcription and DNA repair factor IIH (TFIIH) core complex which is involved in general and transcription-coupled nucleotide excision repair (NER) of damaged DNA. Belongs to the TFB2 family. (499 aa)
hayGeneral transcription and DNA repair factor IIH helicase subunit XPB; ATP-dependent 3'-5' DNA helicase, component of the general transcription and DNA repair factor IIH (TFIIH) core complex, which is involved in general and transcription-coupled nucleotide excision repair (NER) of damaged DNA and, when complexed to CAK, in RNA transcription by RNA polymerase II. In NER, TFIIH acts by opening DNA around the lesion to allow the excision of the damaged oligonucleotide and its replacement by a new DNA fragment. The ATPase activity of haywire/XPB/ERCC3, but not its helicase activity, is req [...] (798 aa)
Tfb4Transcription factor B4; RNA polymerase II CTD heptapeptide repeat kinase activity; DNA-dependent ATPase activity. (299 aa)
Rpb8DNA-directed RNA polymerases I, II, and III subunit RPABC3; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Common component of RNA polymerases I, II and III which synthesize ribosomal RNA precursors, mRNA precursors and many functional non- coding RNAs, and small RNAs, such as 5S rRNA and tRNAs, respectively. (149 aa)
CycHCyclin H homolog; Cyclin-dependent protein serine/threonine kinase regulator activity; RNA polymerase II CTD heptapeptide repeat kinase activity. It is involved in the biological process described with: regulation of cyclin-dependent protein serine/threonine kinase activity; transcription initiation from RNA polymerase II promoter; phosphorylation of RNA polymerase II C-terminal domain; regulation of transcription by RNA polymerase II; transcription by RNA polymerase II. (324 aa)
Ssl1General transcription factor IIH subunit; Zinc ion binding; nucleic acid binding. (438 aa)
RpII18DNA-directed RNA polymerases I, II, and III subunit RPABC2; DNA-dependent RNA polymerases catalyze the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Common component of RNA polymerases I, II and III which synthesize ribosomal RNA precursors, mRNA precursors and many functional non- coding RNAs, and small RNAs, such as 5S rRNA and tRNAs, respectively. Pol II is the central component of the basal RNA polymerase II transcription machinery. Pols are composed of mobile elements that move relative to each other. In Pol II, RPB6 is part of the clamp [...] (131 aa)
RpS27AUbiquitin-40S ribosomal protein S27a; Ubiquitin exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-48-linked is involve [...] (156 aa)
RfC3Replication factor C subunit 3; ATP binding; DNA clamp loader activity. It is involved in the biological process described with: leading strand elongation; DNA repair; sister chromatid cohesion; DNA-dependent DNA replication. (332 aa)
Rpb3RNA polymerase II 33kD subunit; DNA-directed 5'-3' RNA polymerase activity; RNA polymerase II activity; protein dimerization activity; DNA binding. It is involved in the biological process described with: transcription by RNA polymerase II; cellular response to heat. (275 aa)
Rpb11DNA-directed RNA polymerase II subunit RPB11; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Component of RNA polymerase II which synthesizes mRNA precursors and many functional non-coding RNAs. Pol II is the central component of the basal RNA polymerase II transcription machinery. It is composed of mobile elements that move relative to each other. RPB11 is part of the core element with the central large cleft (By similarity). (117 aa)
RPA2Replication protein A2, isoform A; Single-stranded DNA binding. It is involved in the biological process described with: double-strand break repair via homologous recombination; DNA repair; DNA replication; nucleotide-excision repair. (246 aa)
CG9667RE31520p; RNA binding. It is involved in the biological process described with: generation of catalytic spliceosome for second transesterification step; mRNA 3'-splice site recognition; mRNA splicing, via spliceosome. (272 aa)
DNAlig3DNA ligase 3 (DNAlig3) encodes an ATP-dependent DNA ligase that is involved in the repair of nuclear and mitochondrial single- and double-strand DNA breaks. (806 aa)
picPiccolo (pic) encodes the Ddb1 protein, which functions to recruit substrate receptors to Cul4-based E3 ubiquitin ligase complexes, which catalyze the ubiquitylation and subsequent destruction of proteins that function in cell growth and proliferation as well as transcription, replication and repair of the genome. (1140 aa)
Rpb7IP02321p; Single-stranded DNA binding; DNA-directed 5'-3' RNA polymerase activity; protein binding; single-stranded RNA binding; translation initiation factor binding. It is involved in the biological process described with: positive regulation of translational initiation; positive regulation of nuclear-transcribed mRNA poly(A) tail shortening; transcription initiation from RNA polymerase II promoter; nuclear-transcribed mRNA catabolic process, exonucleolytic; transcription by RNA polymerase II. (173 aa)
Rpb10DNA-directed RNA polymerases I, II, and III subunit RPABC5; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Common component of RNA polymerases I, II and III which synthesize ribosomal RNA precursors, mRNA precursors and many functional non- coding RNAs, and a small RNAs, such as 5S rRNA and tRNAs, respectively. Pol II is the central component of the basal RNA polymerase II transcription machinery. Pols are composed of mobile elements that move relative to each other. In Pol II, RBP10 is part of the cor [...] (67 aa)
Prp19Pre-RNA processing factor 19 (Prp19) encodes a protein involved in chromatin organization and alternative mRNA splicing regulation. (505 aa)
cyp33Peptidyl-prolyl cis-trans isomerase E; PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides. Combines RNA-binding and PPIase activities (By similarity); Belongs to the cyclophilin-type PPIase family. PPIase E subfamily. (300 aa)
Tfb1General transcription factor IIH subunit 1; Component of the general transcription and DNA repair factor IIH (TFIIH) core complex, which is involved in general and transcription-coupled nucleotide excision repair (NER) of damaged DNA and, when complexed to CAK, in RNA transcription by RNA polymerase II. In NER, TFIIH acts by opening DNA around the lesion to allow the excision of the damaged oligonucleotide and its replacement by a new DNA fragment. In transcription, TFIIH has an essential role in transcription initiation. When the pre-initiation complex (PIC) has been established, TFII [...] (585 aa)
fandPre-mRNA-splicing factor syf1 homolog; Subunit of the NTC(Nineteen)/Prp19 complex, which is part of the spliceosome. The complex participates in spliceosome assembly, its remodeling and is required for efficient spliceosome activation. Essential for efficient pre-mRNA splicing. In embryos, efficient pre-mRNA splicing of zygotic transcripts is essential during dynamic cellular processes that require rapid division and/or dramatic changes in gene expression such as blastoderm cellularization, tracheal branching morphogenesis, Malpighian morphogenesis and epidermal development. Part of it [...] (883 aa)
Mat1CDK-activating kinase assembly factor MAT1; Menage a trois 1 (Mat1) encodes a RING finger protein involved in the activation of the kinase encoded by Cdk7. (320 aa)
Gnf1Replication factor C subunit 1; The elongation of primed DNA templates by DNA polymerase delta and epsilon requires the action of the accessory proteins proliferating cell nuclear antigen (PCNA) and activator 1. This subunit binds to the primer-template junction (By similarity). (1008 aa)
Rpb12GEO11084p1; RNA polymerase I activity; RNA polymerase II activity; DNA binding; RNA polymerase III activity; zinc ion binding. It is involved in the biological process described with: transcription by RNA polymerase I; transcription by RNA polymerase II; tRNA transcription by RNA polymerase III. (57 aa)
CG31368Uncharacterized protein, isoform D; mRNA binding; RNA binding. It is involved in the biological process described with: mRNA splicing, via spliceosome. (1486 aa)
Tfb5Transcription factor B5 (Tfb5) encodes a subunit of the basal transcription and DNA repair factor TFIIH, which operates in transcription and DNA repair. (73 aa)
Cul4Cullin 4 (Cul4) encodes the molecular scaffold for the CRL4 E3 ubiquitin ligase complex, which catalyzes the ubiquitylation and subsequent destruction of proteins that function in cell growth and proliferation as well as transcription, replication and repair of the genome; Belongs to the cullin family. (821 aa)
nejNejire, isoform C; Nejire (nej) encodes the transcriptional co-activator CBP. It acetylates several nuclear proteins, including the histone encoded by His3 on K18, K27, and H4 on K8. By regulating gene expression, the product of nej has roles in cell proliferation, cell signaling and differentiation, and in developmental patterning. (3282 aa)
CG11839Uncharacterized protein; Zinc ion binding; nucleic acid binding. It is involved in the biological process described with: mitotic cell cycle; replication fork protection; mitotic DNA replication checkpoint; nuclear DNA replication; mitotic DNA damage checkpoint. (254 aa)
Roc1aRING-box protein 1A; Core component of multiple SCF (SKP1-CUL1-F-box protein) E3 ubiquitin-protein ligase complexes which mediate the ubiquitination of proteins involved in cell cycle progression, signal transduction and transcription. Through the RING-type zinc finger, seems to recruit the E2 ubiquitination enzyme to the complex and brings it into close proximity to the substrate. Required for the specific SCF-dependent proteolysis of CI, but not that of ARM, suggesting that it also participates in the selection of substrates inside the SCF complex. During early metamorphosis, part of [...] (136 aa)
Rpb4DNA-directed RNA polymerase II subunit Rpb4; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Associates with POLR2G. (139 aa)
Rpb5Rpb5, isoform A; DNA-directed 5'-3' RNA polymerase activity; RNA polymerase III activity; RNA polymerase II activity; RNA polymerase I activity; DNA binding. It is involved in the biological process described with: tRNA transcription by RNA polymerase III; transcription by RNA polymerase II; transcription by RNA polymerase I. (210 aa)
TfIISTranscription elongation factor S-II; Necessary for efficient RNA polymerase II transcription elongation past template-encoded arresting sites. The arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by S-II allows the resumption of elongation from the new 3'-terminus. (313 aa)
RpL40Ubiquitin-60S ribosomal protein L40; [Ubiquitin]: exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-48-linked is invol [...] (128 aa)
RPA3Replication protein A3 (RPA3) encodes a protein involved in the maintenance of the neuronal stem cell population. (112 aa)
RpII140DNA-directed RNA polymerase II subunit RPB2; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Second largest component of RNA polymerase II which synthesizes mRNA precursors and many functional non-coding RNAs. Proposed to contribute to the polymerase catalytic activity and forms the polymerase active center together with the largest subunit. Pol II is the central component of the basal RNA polymerase II transcription machinery. It is composed of mobile elements that move relative to each other. RPB2 is [...] (1176 aa)
RfC38Replication factor C 38kD subunit, isoform A; DNA clamp loader activity. It is involved in the biological process described with: DNA-dependent DNA replication; sister chromatid cohesion; DNA repair; leading strand elongation. (356 aa)
Ubi-p5EUbiquitin-5E, isoform A; Protein tag; ubiquitin protein ligase binding. It is involved in the biological process described with: ubiquitin-dependent protein catabolic process; protein ubiquitination; modification-dependent protein catabolic process; cellular protein modification process. (534 aa)
RpII15DNA-directed RNA polymerase II subunit RPB9; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Component of RNA polymerase II which synthesizes mRNA precursors and many functional non-coding RNAs. Pol II is the central component of the basal RNA polymerase II transcription machinery. It is composed of mobile elements that move relative to each other. RPB9 is part of the upper jaw surrounding the central large cleft and thought to grab the incoming DNA template (By similarity); Belongs to the archaeal RpoM [...] (129 aa)
Your Current Organism:
Drosophila melanogaster
NCBI taxonomy Id: 7227
Other names: D. melanogaster, Diptera sp. DNAS-2A9-224646, Sophophora melanogaster, fruit fly
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