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Protein

CTD small phosphatase-like protein

Gene

CTDSPL

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Recruited by REST to neuronal genes that contain RE-1 elements, leading to neuronal gene silencing in non-neuronal cells (By similarity). Preferentially catalyzes the dephosphorylation of 'Ser-5' within the tandem 7 residue repeats in the C-terminal domain (CTD) of the largest RNA polymerase II subunit POLR2A. Negatively regulates RNA polymerase II transcription, possibly by controlling the transition from initiation/capping to processive transcript elongation.By similarity1 Publication

Catalytic activityi

[a protein]-serine/threonine phosphate + H2O = [a protein]-serine/threonine + phosphate.

Cofactori

Mg2+By similarityNote: Binds 1 Mg2+ ion per monomer.By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei1124-aspartylphosphate intermediateBy similarity1
Metal bindingi112MagnesiumBy similarity1
Active sitei114Proton donorBy similarity1
Metal bindingi114Magnesium; via carbonyl oxygenBy similarity1
Sitei168Transition state stabilizerBy similarity1
Sitei206Transition state stabilizerBy similarity1
Metal bindingi223MagnesiumBy similarity1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionHydrolase, Protein phosphatase
LigandMagnesium, Metal-binding

Enzyme and pathway databases

SIGNORiO15194

Names & Taxonomyi

Protein namesi
Recommended name:
CTD small phosphatase-like protein (EC:3.1.3.16)
Short name:
CTDSP-like
Alternative name(s):
Carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 3
NIF-like protein
Nuclear LIM interactor-interacting factor 1
Short name:
NLI-interacting factor 1
Protein YA22
Short name:
hYA22
RBSP3
Small C-terminal domain phosphatase 3
Short name:
SCP3
Short name:
Small CTD phosphatase 3
Gene namesi
Name:CTDSPL
Synonyms:C3orf8, NIF1, NIFL, SCP3, YA22
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 3

Organism-specific databases

EuPathDBiHostDB:ENSG00000144677.14
HGNCiHGNC:16890 CTDSPL
MIMi608592 gene
neXtProtiNX_O15194

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

DisGeNETi10217
OpenTargetsiENSG00000144677
PharmGKBiPA128394571

Polymorphism and mutation databases

BioMutaiCTDSPL

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002125691 – 276CTD small phosphatase-like proteinAdd BLAST276

Proteomic databases

EPDiO15194
MaxQBiO15194
PaxDbiO15194
PeptideAtlasiO15194
PRIDEiO15194
ProteomicsDBi48498
48499 [O15194-2]

PTM databases

DEPODiO15194
iPTMnetiO15194
PhosphoSitePlusiO15194
SwissPalmiO15194

Expressioni

Tissue specificityi

Expression is restricted to non-neuronal tissues.1 Publication

Gene expression databases

BgeeiENSG00000144677 Expressed in 240 organ(s), highest expression level in metanephric glomerulus
CleanExiHS_CTDSPL
ExpressionAtlasiO15194 baseline and differential
GenevisibleiO15194 HS

Organism-specific databases

HPAiHPA048325

Interactioni

Subunit structurei

Interacts with REST (By similarity). Monomer.By similarity1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
SMAD1Q157972EBI-12544034,EBI-1567153

Protein-protein interaction databases

BioGridi115512, 86 interactors
DIPiDIP-61247N
IntActiO15194, 4 interactors
STRINGi9606.ENSP00000273179

Structurei

Secondary structure

1276
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliO15194
SMRiO15194
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO15194

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini102 – 260FCP1 homologyPROSITE-ProRule annotationAdd BLAST159

Phylogenomic databases

eggNOGiKOG1605 Eukaryota
COG5190 LUCA
GeneTreeiENSGT00390000017194
HOGENOMiHOG000236379
HOVERGENiHBG053298
InParanoidiO15194
KOiK15731
OrthoDBiEOG091G0J49
PhylomeDBiO15194
TreeFamiTF313556

Family and domain databases

Gene3Di3.40.50.1000, 1 hit
InterProiView protein in InterPro
IPR011948 Dullard_phosphatase
IPR004274 FCP1_dom
IPR036412 HAD-like_sf
IPR023214 HAD_sf
IPR040078 RNA_Pol_CTD_Phosphatase
PfamiView protein in Pfam
PF03031 NIF, 1 hit
SFLDiSFLDG01124 C0.1:_RNA_Pol_CTD_Phosphatase_, 1 hit
SMARTiView protein in SMART
SM00577 CPDc, 1 hit
SUPFAMiSSF56784 SSF56784, 1 hit
TIGRFAMsiTIGR02251 HIF-SF_euk, 1 hit
PROSITEiView protein in PROSITE
PS50969 FCP1, 1 hit

Sequences (2+)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

This entry has 2 described isoforms and 4 potential isoforms that are computationally mapped.Show allAlign All

Isoform 1 (identifier: O15194-1) [UniParc]FASTAAdd to basket
Also known as: HYA22B

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide
        10         20         30         40         50
MDGPAIITQV TNPKEDEGRL PGAGEKASQC NVSLKKQRSR SILSSFFCCF
60 70 80 90 100
RDYNVEAPPP SSPSVLPPLV EENGGLQKGD QRQVIPIPSP PAKYLLPEVT
110 120 130 140 150
VLDYGKKCVV IDLDETLVHS SFKPISNADF IVPVEIDGTI HQVYVLKRPH
160 170 180 190 200
VDEFLQRMGQ LFECVLFTAS LAKYADPVAD LLDRWGVFRA RLFRESCVFH
210 220 230 240 250
RGNYVKDLSR LGRELSKVII VDNSPASYIF HPENAVPVQS WFDDMTDTEL
260 270
LDLIPFFEGL SREDDVYSML HRLCNR
Length:276
Mass (Da):31,129
Last modified:August 31, 2004 - v2
Checksum:i5C7B32A1127B0F59
GO
Isoform 2 (identifier: O15194-2) [UniParc]FASTAAdd to basket
Also known as: HYA22A

The sequence of this isoform differs from the canonical sequence as follows:
     79-89: Missing.

Show »
Length:265
Mass (Da):29,937
Checksum:iD19C4461386C1C2F
GO

Computationally mapped potential isoform sequencesi

There are 4 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
H7C2S4H7C2S4_HUMAN
CTD small phosphatase-like protein
CTDSPL
196Annotation score:
H7C353H7C353_HUMAN
CTD small phosphatase-like protein
CTDSPL
103Annotation score:
H7C2B9H7C2B9_HUMAN
CTD small phosphatase-like protein
CTDSPL
93Annotation score:
F8WED2F8WED2_HUMAN
CTD small phosphatase-like protein
CTDSPL
55Annotation score:

Sequence cautioni

The sequence BAA21667 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_019683121S → P1 Publication1
Natural variantiVAR_019684127N → S1 PublicationCorresponds to variant dbSNP:rs1341429725Ensembl.1
Natural variantiVAR_019685132V → G1 Publication1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_01154179 – 89Missing in isoform 2. 4 PublicationsAdd BLAST11

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D88153 mRNA Translation: BAA21667.1 Different initiation.
AY279532 mRNA Translation: AAP34400.1
AJ575644 mRNA Translation: CAE11804.1
AJ575645 mRNA Translation: CAE11805.1
AY364238 mRNA Translation: AAQ76797.1
CCDSiCCDS33734.1 [O15194-1]
CCDS33735.1 [O15194-2]
PIRiJC5707
RefSeqiNP_001008393.1, NM_001008392.1 [O15194-1]
NP_005799.2, NM_005808.2 [O15194-2]
UniGeneiHs.475963

Genome annotation databases

EnsembliENST00000273179; ENSP00000273179; ENSG00000144677 [O15194-1]
ENST00000443503; ENSP00000398288; ENSG00000144677 [O15194-2]
GeneIDi10217
KEGGihsa:10217
UCSCiuc003chg.4 human [O15194-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D88153 mRNA Translation: BAA21667.1 Different initiation.
AY279532 mRNA Translation: AAP34400.1
AJ575644 mRNA Translation: CAE11804.1
AJ575645 mRNA Translation: CAE11805.1
AY364238 mRNA Translation: AAQ76797.1
CCDSiCCDS33734.1 [O15194-1]
CCDS33735.1 [O15194-2]
PIRiJC5707
RefSeqiNP_001008393.1, NM_001008392.1 [O15194-1]
NP_005799.2, NM_005808.2 [O15194-2]
UniGeneiHs.475963

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2HHLX-ray2.10A/B/C/D82-265[»]
ProteinModelPortaliO15194
SMRiO15194
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi115512, 86 interactors
DIPiDIP-61247N
IntActiO15194, 4 interactors
STRINGi9606.ENSP00000273179

PTM databases

DEPODiO15194
iPTMnetiO15194
PhosphoSitePlusiO15194
SwissPalmiO15194

Polymorphism and mutation databases

BioMutaiCTDSPL

Proteomic databases

EPDiO15194
MaxQBiO15194
PaxDbiO15194
PeptideAtlasiO15194
PRIDEiO15194
ProteomicsDBi48498
48499 [O15194-2]

Protocols and materials databases

DNASUi10217
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000273179; ENSP00000273179; ENSG00000144677 [O15194-1]
ENST00000443503; ENSP00000398288; ENSG00000144677 [O15194-2]
GeneIDi10217
KEGGihsa:10217
UCSCiuc003chg.4 human [O15194-1]

Organism-specific databases

CTDi10217
DisGeNETi10217
EuPathDBiHostDB:ENSG00000144677.14
GeneCardsiCTDSPL
HGNCiHGNC:16890 CTDSPL
HPAiHPA048325
MIMi608592 gene
neXtProtiNX_O15194
OpenTargetsiENSG00000144677
PharmGKBiPA128394571
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG1605 Eukaryota
COG5190 LUCA
GeneTreeiENSGT00390000017194
HOGENOMiHOG000236379
HOVERGENiHBG053298
InParanoidiO15194
KOiK15731
OrthoDBiEOG091G0J49
PhylomeDBiO15194
TreeFamiTF313556

Enzyme and pathway databases

SIGNORiO15194

Miscellaneous databases

ChiTaRSiCTDSPL human
EvolutionaryTraceiO15194
GeneWikiiCTDSPL
GenomeRNAii10217
PROiPR:O15194
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000144677 Expressed in 240 organ(s), highest expression level in metanephric glomerulus
CleanExiHS_CTDSPL
ExpressionAtlasiO15194 baseline and differential
GenevisibleiO15194 HS

Family and domain databases

Gene3Di3.40.50.1000, 1 hit
InterProiView protein in InterPro
IPR011948 Dullard_phosphatase
IPR004274 FCP1_dom
IPR036412 HAD-like_sf
IPR023214 HAD_sf
IPR040078 RNA_Pol_CTD_Phosphatase
PfamiView protein in Pfam
PF03031 NIF, 1 hit
SFLDiSFLDG01124 C0.1:_RNA_Pol_CTD_Phosphatase_, 1 hit
SMARTiView protein in SMART
SM00577 CPDc, 1 hit
SUPFAMiSSF56784 SSF56784, 1 hit
TIGRFAMsiTIGR02251 HIF-SF_euk, 1 hit
PROSITEiView protein in PROSITE
PS50969 FCP1, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiCTDSL_HUMAN
AccessioniPrimary (citable) accession number: O15194
Secondary accession number(s): Q3ZTU0, Q70KI4, Q7Z5Q2
Entry historyiIntegrated into UniProtKB/Swiss-Prot: December 13, 2001
Last sequence update: August 31, 2004
Last modified: November 7, 2018
This is version 140 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 3
    Human chromosome 3: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
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Main funding by: National Institutes of Health

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