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Protein

CTD small phosphatase-like protein

Gene

CTDSPL

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-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

Complete GO annotation...

Keywords - Molecular functioni

Hydrolase, Protein phosphatase

Keywords - Ligandi

Magnesium, Metal-binding

Enzyme and pathway databases

BioCyciZFISH:ENSG00000144677-MONOMER.
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

HGNCiHGNC:16890. CTDSPL.

Subcellular locationi

GO - Cellular componenti

  • extracellular exosome Source: UniProtKB
  • nucleus Source: UniProtKB-SubCell
Complete GO annotation...

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

MaxQBiO15194.
PaxDbiO15194.
PeptideAtlasiO15194.
PRIDEiO15194.

PTM databases

DEPODiO15194.
iPTMnetiO15194.
PhosphoSitePlusiO15194.
SwissPalmiO15194.

Expressioni

Tissue specificityi

Expression is restricted to non-neuronal tissues.1 Publication

Gene expression databases

BgeeiENSG00000144677.
CleanExiHS_CTDSPL.
ExpressionAtlasiO15194. baseline and differential.
GenevisibleiO15194. HS.

Organism-specific databases

HPAiHPA048325.

Interactioni

Subunit structurei

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

Protein-protein interaction databases

BioGridi115512. 7 interactors.
DIPiDIP-61247N.
IntActiO15194. 2 interactors.
STRINGi9606.ENSP00000273179.

Structurei

Secondary structure

1276
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi93 – 96Combined sources4
Helixi101 – 103Combined sources3
Beta strandi108 – 111Combined sources4
Turni115 – 117Combined sources3
Beta strandi118 – 123Combined sources6
Beta strandi129 – 136Combined sources8
Beta strandi139 – 147Combined sources9
Helixi151 – 161Combined sources11
Beta strandi162 – 167Combined sources6
Helixi172 – 182Combined sources11
Beta strandi188 – 192Combined sources5
Helixi194 – 196Combined sources3
Beta strandi198 – 200Combined sources3
Beta strandi203 – 205Combined sources3
Helixi208 – 210Combined sources3
Beta strandi211 – 213Combined sources3
Helixi215 – 217Combined sources3
Beta strandi218 – 223Combined sources6
Helixi225 – 228Combined sources4
Helixi232 – 234Combined sources3
Beta strandi235 – 237Combined sources3
Helixi249 – 261Combined sources13

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...

Miscellaneous databases

EvolutionaryTraceiO15194.

Family & Domainsi

Domains and Repeats

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

Sequence similaritiesi

Contains 1 FCP1 homology domain.PROSITE-ProRule annotation

Phylogenomic databases

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

Family and domain databases

Gene3Di3.40.50.1000. 1 hit.
InterProiIPR011948. Dullard_phosphatase.
IPR004274. FCP1_dom.
IPR023214. HAD-like_dom.
[Graphical view]
PfamiPF03031. NIF. 1 hit.
[Graphical view]
SMARTiSM00577. CPDc. 1 hit.
[Graphical view]
SUPFAMiSSF56784. SSF56784. 1 hit.
TIGRFAMsiTIGR02251. HIF-SF_euk. 1 hit.
PROSITEiPS50969. FCP1. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

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

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

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 → P.1 Publication1
Natural variantiVAR_019684127N → S.1 Publication1
Natural variantiVAR_019685132V → G.1 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

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. 7 interactors.
DIPiDIP-61247N.
IntActiO15194. 2 interactors.
STRINGi9606.ENSP00000273179.

PTM databases

DEPODiO15194.
iPTMnetiO15194.
PhosphoSitePlusiO15194.
SwissPalmiO15194.

Polymorphism and mutation databases

BioMutaiCTDSPL.

Proteomic databases

MaxQBiO15194.
PaxDbiO15194.
PeptideAtlasiO15194.
PRIDEiO15194.

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.
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

BioCyciZFISH:ENSG00000144677-MONOMER.
SIGNORiO15194.

Miscellaneous databases

ChiTaRSiCTDSPL. human.
EvolutionaryTraceiO15194.
GeneWikiiCTDSPL.
GenomeRNAii10217.
PROiO15194.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000144677.
CleanExiHS_CTDSPL.
ExpressionAtlasiO15194. baseline and differential.
GenevisibleiO15194. HS.

Family and domain databases

Gene3Di3.40.50.1000. 1 hit.
InterProiIPR011948. Dullard_phosphatase.
IPR004274. FCP1_dom.
IPR023214. HAD-like_dom.
[Graphical view]
PfamiPF03031. NIF. 1 hit.
[Graphical view]
SMARTiSM00577. CPDc. 1 hit.
[Graphical view]
SUPFAMiSSF56784. SSF56784. 1 hit.
TIGRFAMsiTIGR02251. HIF-SF_euk. 1 hit.
PROSITEiPS50969. FCP1. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiCTDSL_HUMAN
AccessioniPrimary (citable) accession number: O15194
Secondary accession number(s): Q3ZTU0, Q70KI4, Q7Z5Q2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 13, 2001
Last sequence update: August 31, 2004
Last modified: November 30, 2016
This is version 129 of the entry and version 2 of the sequence. [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
  6. SIMILARITY comments
    Index of protein domains and families

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.