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 NameCount
ATP binding559
Annotation ExtensionEvidenceWith/FromReference
ATPase activity239
Annotation ExtensionEvidenceWith/FromReference
iron-sulfur cluster binding43
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
cytoplasmic translational initiation41
Annotation ExtensionEvidenceWith/FromReference
ribosomal large subunit biogenesis46
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
cytoplasm4211
Annotation ExtensionEvidenceWith/FromReference
cytosol2302
Annotation ExtensionEvidenceWith/FromReference
cytosolic ribosome199
Annotation ExtensionEvidenceWith/FromReference
nucleus2692
Annotation ExtensionEvidenceWith/FromReference
FYPO Single-Allele Phenotypes
Gene Deletion Viability: Inviable

Population Phenotype

Term NameGenotypesCount
inviable vegetative cell populationrli1Δ1451

Cell Phenotype

Term NameGenotypesCount
inviable sporerli1Δ476
Target Of
OntologyRelationshipGeneProduct
GO substrate of ubp4 ubiquitin C-terminal hydrolase Ubp4
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons4164564..4164715, 4165153..4167261
Intron4164716..4165152
mRNA4164564..4167261
5' UTR4164564..4164658PMID:21511999
CDS4164659..4164715, 4165153..4166877
3' UTR4166878..4167261PMID:21511999
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
PF00037 Pfam IPR017896 4Fe-4S ferredoxin-type, iron-sulphur binding domain 50 70 1
PF04068 Pfam IPR007209 RNase L inhibitor RLI, possible metal-binding domain 6 37 2
PF00005 Pfam IPR003439 ABC transporter-like 101 247 19
PF00005 Pfam IPR003439 ABC transporter-like 371 484 19
SM00382 SMART IPR003593 AAA+ ATPase domain 374 534 70
SM00382 SMART IPR003593 AAA+ ATPase domain 102 296 70
PS00211 Prosite Patterns IPR017871 ABC transporter, conserved site 220 234 16
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
PS50893 Prosite Profiles IPR003439 ABC transporter-like 70 318 19
PS50893 Prosite Profiles IPR003439 ABC transporter-like 334 556 19
PS51379 Prosite Profiles IPR017896 4Fe-4S ferredoxin-type, iron-sulphur binding domain 46 75 3
PS51379 Prosite Profiles IPR017896 4Fe-4S ferredoxin-type, iron-sulphur binding domain 7 31 3
PTHR19248 HMMPANTHER IPR013283 ABC transporter ABCE 2 593 1
3.40.50.300 Gene3D IPR027417 P-loop containing nucleoside triphosphate hydrolase 101 293 288
3.40.50.300 Gene3D IPR027417 P-loop containing nucleoside triphosphate hydrolase 362 529 288
3.30.70.20 Gene3D Photosystem I protein PsaC 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 140 156 1
PR01868 PRINTS IPR013283 ABC transporter ABCE 52 76 1
PR01868 PRINTS IPR013283 ABC transporter ABCE 156 182 1
PR01868 PRINTS IPR013283 ABC transporter ABCE 79 99 1
PR01868 PRINTS IPR013283 ABC transporter ABCE 24 39 1
PR01868 PRINTS IPR013283 ABC transporter ABCE 107 132 1

View domain organization at Pfam

Protein Properties

Ave. residue weight 112.29 Da
Charge 12.50
Codon Adaptation Index 0.62
Isoelectric point 8.50
Molecular weight 66.59 kDa
Number of residues 593
Modifications

Protein Modifications

Term NameResidueCount
O-phospho-L-serine 1676
present during cellular response to thiabendazoleS340
Annotation ExtensionEvidenceResidueReference
present during cellular response to thiabendazole IDA S340 PMID:18257517
ubiquitinylated lysineK15, K19 512
Annotation ExtensionEvidenceResidueReference
mass spectrometry evidence K19 PMID:26412298
mass spectrometry evidence K15 PMID:26412298
IDA PMID:26412298
Sequence
Gene Expression

Qualitative Gene Expression

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

Quantitative Gene Expression

View graphical display of gene expression data for rli1 (SPBC14F5.06)

Protein Level

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

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
12during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
1.8during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
Taxonomic Conservation
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3092
conserved in fungi4606
conserved in eukaryotes4516
conserved in metazoa3424
conserved in vertebrates3399
conserved in eukaryotes only2506
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Load genes that interact physically with SPBC14F5.06 into the Query Builder
View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
modified bydsk1SR protein-specific kinase Dsk1 Biochemical ActivityPMID:26167880
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)
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
SYSGRO SPBC14F5.06 Fission yeast phenotypic data & analysis
Cyclebase SPBC14F5.06.1 Cell Cycle Data
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

Literature for rli1

Search: Europe PMC or PubMed

Release Version: PomBase:30_59 - 12 Apr 2016