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Protein

H/ACA ribonucleoprotein complex subunit 4

Gene

CBF5

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Plays a central role in ribosomal RNA processing. Probable catalytic subunit of H/ACA small nucleolar ribonucleoprotein (H/ACA snoRNP) complex, which catalyzes pseudouridylation of rRNA. This involves the isomerization of uridine such that the ribose is subsequently attached to C5, instead of the normal N1. Pseudouridine ('psi') residues may serve to stabilize the conformation of rRNAs. May function as a pseudouridine synthase. Binds in vitro to centromeres and microtubules. It is a centromeric DNA-CBF3-binding factor which is involved in mitotic chromosome segregation. Essential for cell growth.5 Publications

Catalytic activityi

RNA uridine = RNA pseudouridine.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei95NucleophileBy similarity1

GO - Molecular functioni

  • DNA binding Source: UniProtKB-KW
  • pseudouridine synthase activity Source: SGD
  • RNA binding Source: UniProtKB-KW

GO - Biological processi

  • box H/ACA snoRNA 3'-end processing Source: SGD
  • cell division Source: UniProtKB-KW
  • mitotic nuclear division Source: UniProtKB-KW
  • mRNA pseudouridine synthesis Source: SGD
  • rRNA modification Source: UniProtKB
  • rRNA processing Source: SGD
  • rRNA pseudouridine synthesis Source: SGD
  • snRNA pseudouridine synthesis Source: SGD
Complete GO annotation...

Keywords - Molecular functioni

Isomerase, Ribonucleoprotein

Keywords - Biological processi

Cell cycle, Cell division, Mitosis, Ribosome biogenesis, rRNA processing

Keywords - Ligandi

DNA-binding, RNA-binding

Enzyme and pathway databases

BioCyciYEAST:YLR175W-MONOMER.
ReactomeiR-SCE-171319. Telomere Extension By Telomerase.

Names & Taxonomyi

Protein namesi
Recommended name:
H/ACA ribonucleoprotein complex subunit 4 (EC:5.4.99.-)
Alternative name(s):
Centromere-binding factor 5
Centromere/microtubule-binding protein CBF5
H/ACA snoRNP protein CBF5
Small nucleolar RNP protein CBF5
p64'
Gene namesi
Name:CBF5
Ordered Locus Names:YLR175W
ORF Names:L9470.11
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XII

Organism-specific databases

EuPathDBiFungiDB:YLR175W.
SGDiS000004165. CBF5.

Subcellular locationi

GO - Cellular componenti

  • box H/ACA snoRNP complex Source: SGD
  • chromosome, centromeric region Source: UniProtKB-SubCell
  • cytoplasm Source: UniProtKB-KW
  • microtubule Source: UniProtKB-KW
  • nucleolus Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Centromere, Chromosome, Cytoplasm, Cytoskeleton, Microtubule, Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi65D → A: Reduced pseudouridylation of rRNA and reduced snoRNA levels. 1 Publication1
Mutagenesisi94L → A: Reduced pseudouridylation of rRNA. 1 Publication1
Mutagenesisi95D → A: Reduced pseudouridylation of rRNA. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001219821 – 483H/ACA ribonucleoprotein complex subunit 4Add BLAST483

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Cross-linki9Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)Combined sources
Modified residuei47PhosphoserineCombined sources1
Cross-linki267Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)Combined sources
Modified residuei378PhosphothreonineCombined sources1

Keywords - PTMi

Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

MaxQBiP33322.
PRIDEiP33322.

PTM databases

iPTMnetiP33322.

Interactioni

Subunit structurei

Component of the small nucleolar ribonucleoprotein particles containing H/ACA-type snoRNAs (H/ACA snoRNPs). The protein component of the H/ACA snoRNP contains CBF5, GAR1, NHP2 and NOP10. The complex contains a stable core composed of CBF5 and NOP10, to which GAR1 and NHP2 subsequently bind. Also interacts with NAF1 and SHQ1, which may be required for assembly of H/ACA snoRNP complexes. May also associate with the CBF3 110 kDa subunit (CBF2). Interacts with the trimethylguanosine synthase (TGS1) and with NOP53.6 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
NAF1P539196EBI-4105,EBI-28887
NHP2P3249512EBI-4105,EBI-12014

Protein-protein interaction databases

BioGridi31446. 166 interactors.
DIPiDIP-4472N.
IntActiP33322. 74 interactors.
MINTiMINT-501145.

Structurei

Secondary structure

1483
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi24 – 26Combined sources3
Helixi29 – 31Combined sources3
Beta strandi32 – 35Combined sources4
Helixi48 – 50Combined sources3
Helixi53 – 58Combined sources6
Beta strandi60 – 66Combined sources7
Beta strandi68 – 70Combined sources3
Helixi72 – 83Combined sources12
Beta strandi88 – 92Combined sources5
Beta strandi94 – 97Combined sources4
Beta strandi99 – 106Combined sources8
Helixi107 – 112Combined sources6
Helixi113 – 118Combined sources6
Beta strandi121 – 131Combined sources11
Helixi138 – 145Combined sources8
Beta strandi148 – 152Combined sources5
Beta strandi165 – 178Combined sources14
Turni179 – 182Combined sources4
Beta strandi183 – 190Combined sources8
Helixi196 – 207Combined sources12
Beta strandi211 – 221Combined sources11
Helixi233 – 246Combined sources14
Helixi250 – 255Combined sources6
Beta strandi256 – 258Combined sources3
Helixi259 – 263Combined sources5
Beta strandi268 – 271Combined sources4
Helixi273 – 275Combined sources3
Helixi276 – 282Combined sources7
Beta strandi283 – 286Combined sources4
Helixi287 – 289Combined sources3
Beta strandi290 – 293Combined sources4
Beta strandi302 – 306Combined sources5
Beta strandi312 – 320Combined sources9
Helixi322 – 327Combined sources6
Beta strandi329 – 339Combined sources11
Helixi355 – 365Combined sources11

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3U28X-ray1.90A3-394[»]
3UAIX-ray3.06A3-394[»]
3ZV0X-ray2.80C/D1-386[»]
ProteinModelPortaliP33322.
SMRiP33322.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini266 – 341PUAPROSITE-ProRule annotationAdd BLAST76
Repeati434 – 43613
Repeati437 – 43923
Repeati440 – 44233
Repeati443 – 44543
Repeati446 – 44853
Repeati449 – 45163
Repeati452 – 45473
Repeati455 – 45783
Repeati458 – 46093
Repeati461 – 463103

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni434 – 46310 X 3 AA tandem repeats of K-K-[DE]Add BLAST30

Sequence similaritiesi

Belongs to the pseudouridine synthase TruB family.Curated
Contains 1 PUA domain.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

GeneTreeiENSGT00510000047092.
HOGENOMiHOG000231224.
InParanoidiP33322.
KOiK11131.
OMAiYVDYNAK.
OrthoDBiEOG092C28F5.

Family and domain databases

Gene3Di2.30.130.10. 1 hit.
InterProiIPR012960. Dyskerin-like.
IPR020103. PsdUridine_synth_cat_dom.
IPR002501. PsdUridine_synth_N.
IPR002478. PUA.
IPR015947. PUA-like_domain.
IPR004802. tRNA_PsdUridine_synth_B_fam.
IPR032819. TruB_C.
IPR004521. Uncharacterised_CHP00451.
[Graphical view]
PANTHERiPTHR23127. PTHR23127. 1 hit.
PfamiPF08068. DKCLD. 1 hit.
PF01472. PUA. 1 hit.
PF16198. TruB_C_2. 1 hit.
PF01509. TruB_N. 1 hit.
[Graphical view]
SMARTiSM01136. DKCLD. 1 hit.
SM00359. PUA. 1 hit.
[Graphical view]
SUPFAMiSSF55120. SSF55120. 1 hit.
SSF88697. SSF88697. 1 hit.
TIGRFAMsiTIGR00425. CBF5. 1 hit.
TIGR00451. unchar_dom_2. 1 hit.
PROSITEiPS50890. PUA. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P33322-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSKEDFVIKP EAAGASTDTS EWPLLLKNFD KLLVRSGHYT PIPAGSSPLK
60 70 80 90 100
RDLKSYISSG VINLDKPSNP SSHEVVAWIK RILRCEKTGH SGTLDPKVTG
110 120 130 140 150
CLIVCIDRAT RLVKSQQGAG KEYVCIVRLH DALKDEKDLG RSLENLTGAL
160 170 180 190 200
FQRPPLISAV KRQLRVRTIY ESNLIEFDNK RNLGVFWASC EAGTYMRTLC
210 220 230 240 250
VHLGMLLGVG GHMQELRRVR SGALSENDNM VTLHDVMDAQ WVYDNTRDES
260 270 280 290 300
YLRSIIQPLE TLLVGYKRIV VKDSAVNAVC YGAKLMIPGL LRYEEGIELY
310 320 330 340 350
DEIVLITTKG EAIAVAIAQM STVDLASCDH GVVASVKRCI MERDLYPRRW
360 370 380 390 400
GLGPVAQKKK QMKADGKLDK YGRVNENTPE QWKKEYVPLD NAEQSTSSSQ
410 420 430 440 450
ETKETEEEPK KAKEDSLIKE VETEKEEVKE DDSKKEKKEK KDKKEKKEKK
460 470 480
EKKDKKEKKE KKEKKRKSED GDSEEKKSKK SKK
Length:483
Mass (Da):54,705
Last modified:February 1, 1994 - v1
Checksum:iD356B39FDCC32E2D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L12351 Genomic DNA. Translation: AAA34473.1.
U17246 Genomic DNA. Translation: AAB67463.1.
BK006945 Genomic DNA. Translation: DAA09495.1.
PIRiS41853.
RefSeqiNP_013276.1. NM_001182062.1.

Genome annotation databases

EnsemblFungiiYLR175W; YLR175W; YLR175W.
GeneIDi850872.
KEGGisce:YLR175W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L12351 Genomic DNA. Translation: AAA34473.1.
U17246 Genomic DNA. Translation: AAB67463.1.
BK006945 Genomic DNA. Translation: DAA09495.1.
PIRiS41853.
RefSeqiNP_013276.1. NM_001182062.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3U28X-ray1.90A3-394[»]
3UAIX-ray3.06A3-394[»]
3ZV0X-ray2.80C/D1-386[»]
ProteinModelPortaliP33322.
SMRiP33322.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi31446. 166 interactors.
DIPiDIP-4472N.
IntActiP33322. 74 interactors.
MINTiMINT-501145.

PTM databases

iPTMnetiP33322.

Proteomic databases

MaxQBiP33322.
PRIDEiP33322.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYLR175W; YLR175W; YLR175W.
GeneIDi850872.
KEGGisce:YLR175W.

Organism-specific databases

EuPathDBiFungiDB:YLR175W.
SGDiS000004165. CBF5.

Phylogenomic databases

GeneTreeiENSGT00510000047092.
HOGENOMiHOG000231224.
InParanoidiP33322.
KOiK11131.
OMAiYVDYNAK.
OrthoDBiEOG092C28F5.

Enzyme and pathway databases

BioCyciYEAST:YLR175W-MONOMER.
ReactomeiR-SCE-171319. Telomere Extension By Telomerase.

Miscellaneous databases

PROiP33322.

Family and domain databases

Gene3Di2.30.130.10. 1 hit.
InterProiIPR012960. Dyskerin-like.
IPR020103. PsdUridine_synth_cat_dom.
IPR002501. PsdUridine_synth_N.
IPR002478. PUA.
IPR015947. PUA-like_domain.
IPR004802. tRNA_PsdUridine_synth_B_fam.
IPR032819. TruB_C.
IPR004521. Uncharacterised_CHP00451.
[Graphical view]
PANTHERiPTHR23127. PTHR23127. 1 hit.
PfamiPF08068. DKCLD. 1 hit.
PF01472. PUA. 1 hit.
PF16198. TruB_C_2. 1 hit.
PF01509. TruB_N. 1 hit.
[Graphical view]
SMARTiSM01136. DKCLD. 1 hit.
SM00359. PUA. 1 hit.
[Graphical view]
SUPFAMiSSF55120. SSF55120. 1 hit.
SSF88697. SSF88697. 1 hit.
TIGRFAMsiTIGR00425. CBF5. 1 hit.
TIGR00451. unchar_dom_2. 1 hit.
PROSITEiPS50890. PUA. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiCBF5_YEAST
AccessioniPrimary (citable) accession number: P33322
Secondary accession number(s): D6VYH9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1994
Last sequence update: February 1, 1994
Last modified: November 30, 2016
This is version 162 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 33600 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
  3. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  4. Yeast chromosome XII
    Yeast (Saccharomyces cerevisiae) chromosome XII: entries and gene names

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.