rli1 (SPBC14F5.06)


Gene Standard Namerli1 Characterisation Statusbiological_role_inferred
Systematic IDSPBC14F5.06 Feature Typeprotein coding
Synonyms Name Description
Productiron-sulfur ATPase involved in ribosome biogenesis and translation Rli1 (predicted) Product Size593aa, 66.59 kDa
Genomic Location Chromosome II, 4164564-4167261 (2698nt); CDS:4164659-4166877 (2219nt)

Ensembl Gene Location
GO Molecular Function
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005524ATP bindingIEAUniProtKB-KW:KW-0067GO_REF:0000037558
GO:0016887ATPase activityIEAIPR003439GO_REF:0000002232
GO:0051536iron-sulfur cluster bindingISMPFAM:PF00037GO_REF:000002442
GO:0003743translation initiation factor activityIEAUniProtKB-KW:KW-0396GO_REF:000003738
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0002183cytoplasmic translational initiationNASGO_REF:000005141
GO:0042273ribosomal large subunit biogenesisISOSGD:S000002498GO_REF:000002441
GO:0006413translational initiationISOSGD:S000002498GO_REF:000002449
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005737cytoplasmISOSGD:S000002498GO_REF:00000244204
GO:0005829cytosolIDAPMID:168233722319
GO:0022626cytosolic ribosome200
colocalizes_withISOSGD:S000002498GO_REF:0000024
GO:0005634nucleusISOSGD:S000002498GO_REF:00000242737
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002061inviable vegetative cell populationMicroscopyrli1ΔNullPMID:204732891337
Microscopyrli1ΔNullPECO:0000005, PECO:0000137PMID:23697806

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002151inviable spore462
penetrance FYPO_EXT:0000001Microscopyrli1ΔNullPECO:0000005, PECO:0000137PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
141645644164715
241651534167261
Protein Features

Graphical View

Ensembl protein image with mapped locations of structural domains

Protein Families and Domains

Feature ID Database InterPro Description Start End Count
PF00005 Pfam IPR003439 ABC transporter-like 101 247 19
PF00005 Pfam IPR003439 ABC transporter-like 371 484 19
PF04068 Pfam IPR007209 RNase L inhibitor RLI, possible metal-binding domain 7 37 2
PF00037 Pfam IPR001450 4Fe-4S binding domain 50 70 1
SM00382 SMART IPR003593 AAA+ ATPase domain 374 534 70
SM00382 SMART IPR003593 AAA+ ATPase domain 102 296 70
PS00198 Prosite Patterns IPR017900 4Fe-4S ferredoxin, iron-sulphur binding, conserved site 55 66 2
PS00211 Prosite Patterns IPR017871 ABC transporter, conserved site 456 470 16
PS00211 Prosite Patterns IPR017871 ABC transporter, conserved site 220 234 16
PS50893 Prosite Profiles IPR003439 ABC transporter-like 70 318 19
PS51379 Prosite Profiles IPR017896 4Fe-4S ferredoxin-type, iron-sulphur binding domain 7 31 3
PS51379 Prosite Profiles IPR017896 4Fe-4S ferredoxin-type, iron-sulphur binding domain 46 75 3
PS50893 Prosite Profiles IPR003439 ABC transporter-like 334 556 19
PTHR19248:SF6 HMMPANTHER 1 593 1
PTHR19248 HMMPANTHER 1 593 1
3.40.50.300 Gene3D 362 529 288
3.40.50.300 Gene3D 101 293 288
3.30.70.20 Gene3D 10 78 1
SSF54862 SuperFamily 7 145 2
SSF52540 SuperFamily IPR027417 P-loop containing nucleoside triphosphate hydrolase 372 530 294
SSF52540 SuperFamily IPR027417 P-loop containing nucleoside triphosphate hydrolase 101 160 294
SSF52540 SuperFamily IPR027417 P-loop containing nucleoside triphosphate hydrolase 189 294 294
PR01868 PRINTS IPR013283 ABC transporter, ABCE 52 76 1
PR01868 PRINTS IPR013283 ABC transporter, ABCE 156 182 1
PR01868 PRINTS IPR013283 ABC transporter, ABCE 140 156 1
PR01868 PRINTS IPR013283 ABC transporter, ABCE 79 99 1
PR01868 PRINTS IPR013283 ABC transporter, ABCE 107 132 1
PR01868 PRINTS IPR013283 ABC transporter, ABCE 24 39 1

View domain organization at Pfam

Protein Properties

Ave. residue weight 112.29 Da
Charge 12.50
Isoelectric point 8.50
Molecular weight 66.59 kDa
Number of residues 593
Modifications

Protein Modifications

Term IDTerm NameEvidenceResidueReferenceCount
MOD:00046O-phospho-L-serineIDAS340PMID:182575171670
present during cellular response to thiabendazole
MOD:00696phosphorylated residueNASPMID:182575171922
Sequence
Gene Expression

Qualitative Gene Expression

DescriptionLevelEvidenceReference
RNA leveldecreased in presence of methyl methanesulfonate expression microarray evidencePMID:12529438
decreased during GO:0034605expression microarray evidencePMID:12529438
decreased during GO:0071470expression microarray evidencePMID:12529438
decreased in presence of cadmium sulfate expression microarray evidencePMID:12529438
decreased during GO:0034599expression microarray evidencePMID:12529438

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
30405during GO:0000080PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
30649during GO:0000084PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
30489during GO:0000085PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
29735during GO:0000087PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
30059during GO:0072690PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
17564.2during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
9148.64during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
12during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
1.8during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
Species Distribution
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3092
conserved in fungi4599
conserved in eukaryotes4514
conserved in metazoa3428
conserved in vertebrates3402
conserved in eukaryotes only2498
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
epe1Jmjc domain chromatin associated protein Epe1 Affinity Capture-MSPMID:24013502
hhp2serine/threonine protein kinase Hhp2 Affinity Capture-MSPMID:24055157
External References
Database Identifier Description
NBRP SPBC14F5.06 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC14F5.06 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBC14F5.06 BioGRID Interaction Datasets
Expression Viewer SPBC14F5.06 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBC14F5.06 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBC14F5.06 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBC14F5.06 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBC14F5.06 Polyadenylation Viewer (Gullerova lab)
pombeTV SPBC14F5.06 Transcriptome Viewer (Bähler Lab)
Cyclebase SPBC14F5.06 Cell Cycle Data
GEO SPBC14F5.06 GEO profiles
PInt SPBC14F5.06 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPBC14F5.06 Peptides identified in tandem mass spectrometry proteomics experiments
SPD / RIKEN46/46F12Orfeome Localization Data
UniProtKB/SwissProtO60102Translation initiation factor rli1
ModBaseO60102Database of comparative protein structure models
STRINGO60102Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_596732iron-sulfur ATPase involved in ribosome biogenesis Rli1 (predicted)
RefSeq mRNANM_001022658972h- iron-sulfur ATPase involved in ribosome biogenesis Rli1 (predicted) (rli1), mRNA
European Nucleotide ArchiveCAA19324.1ENA Protein Mapping
UniParcUPI000006B0D2UniProt Archive

Literature for rli1

Search: Europe PMC or PubMed

Release Version: PomBase:23_46 - 30 Aug 2014