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Protein

Negative elongation factor E

Gene

NELFE

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Essential component of the NELF complex, a complex that negatively regulates the elongation of transcription by RNA polymerase II. The NELF complex, which acts via an association with the DSIF complex and causes transcriptional pausing, is counteracted by the P-TEFb kinase complex.3 Publications

GO - Molecular functioni

  • chromatin binding Source: Ensembl
  • nucleotide binding Source: InterPro
  • poly(A) RNA binding Source: UniProtKB
  • RNA binding Source: UniProtKB

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Repressor

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

BioCyciZFISH:ENSG00000168501-MONOMER.
ReactomeiR-HSA-112382. Formation of RNA Pol II elongation complex.
R-HSA-112387. Elongation arrest and recovery.
R-HSA-113418. Formation of the Early Elongation Complex.
R-HSA-167152. Formation of HIV elongation complex in the absence of HIV Tat.
R-HSA-167158. Formation of the HIV-1 Early Elongation Complex.
R-HSA-167200. Formation of HIV-1 elongation complex containing HIV-1 Tat.
R-HSA-167238. Pausing and recovery of Tat-mediated HIV elongation.
R-HSA-167242. Abortive elongation of HIV-1 transcript in the absence of Tat.
R-HSA-167243. Tat-mediated HIV elongation arrest and recovery.
R-HSA-167246. Tat-mediated elongation of the HIV-1 transcript.
R-HSA-167287. HIV elongation arrest and recovery.
R-HSA-167290. Pausing and recovery of HIV elongation.
R-HSA-674695. RNA Polymerase II Pre-transcription Events.
R-HSA-6796648. TP53 Regulates Transcription of DNA Repair Genes.
R-HSA-75955. RNA Polymerase II Transcription Elongation.

Names & Taxonomyi

Protein namesi
Recommended name:
Negative elongation factor E
Short name:
NELF-E
Alternative name(s):
RNA-binding protein RD
Gene namesi
Name:NELFE
Synonyms:RD, RDBP
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 6

Organism-specific databases

HGNCiHGNC:13974. NELFE.

Subcellular locationi

GO - Cellular componenti

  • NELF complex Source: UniProtKB
  • nucleoplasm Source: HPA
  • nucleus Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi295 – 299RNCAF → EQMAT: Abolishes interaction with RNA but not the interaction with other proteins of the NELF complex. 1 Publication5

Organism-specific databases

DisGeNETi7936.
OpenTargetsiENSG00000204356.
ENSG00000206268.
ENSG00000206357.
ENSG00000229363.
ENSG00000231044.
ENSG00000233801.
PharmGKBiPA134974984.

Polymorphism and mutation databases

BioMutaiNELFE.
DMDMi1350554.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000818021 – 380Negative elongation factor EAdd BLAST380

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei51PhosphoserineCombined sources1
Cross-linki78Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO1)Combined sources
Modified residuei113PhosphoserineCombined sources1
Modified residuei115PhosphoserineCombined sources1
Modified residuei131PhosphoserineCombined sources1
Modified residuei139PhosphoserineCombined sources1
Modified residuei165PhosphoserineCombined sources1
Modified residuei179PhosphoserineCombined sources1
Modified residuei181PhosphoserineCombined sources1
Modified residuei185PhosphoserineCombined sources1
Modified residuei249PhosphoserineCombined sources1
Modified residuei251PhosphoserineCombined sources1
Modified residuei272PhosphothreonineCombined sources1
Modified residuei274PhosphothreonineCombined sources1
Modified residuei281PhosphoserineCombined sources1
Modified residuei353PhosphoserineCombined sources1

Post-translational modificationi

Sumoylated.1 Publication

Keywords - PTMi

Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiP18615.
MaxQBiP18615.
PaxDbiP18615.
PeptideAtlasiP18615.
PRIDEiP18615.

PTM databases

iPTMnetiP18615.
PhosphoSitePlusiP18615.

Expressioni

Tissue specificityi

Widely expressed. Expressed in heart, brain, lung, placenta, liver, skeletal muscle, kidney and pancreas.1 Publication

Gene expression databases

BgeeiENSG00000204356.
CleanExiHS_RDBP.
ExpressionAtlasiP18615. baseline and differential.
GenevisibleiP18615. HS.

Organism-specific databases

HPAiHPA007187.
HPA007594.
HPA046502.

Interactioni

Subunit structurei

The NELF complex is composed of NELFA, NELFB, NELFCD (isoform NELF-C or isoform NELF-D) and NELFE.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
CCDC57Q2TAC23EBI-348444,EBI-2808286
MTUS2Q5JR593EBI-348444,EBI-742948
NELFBQ8WX924EBI-348444,EBI-347721
TRIM27P143733EBI-348444,EBI-719493

Protein-protein interaction databases

BioGridi113662. 36 interactors.
DIPiDIP-32669N.
IntActiP18615. 19 interactors.
MINTiMINT-1033320.
STRINGi9606.ENSP00000364578.

Structurei

Secondary structure

1380
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi262 – 267Combined sources6
Helixi273 – 280Combined sources8
Turni281 – 283Combined sources3
Beta strandi286 – 292Combined sources7
Turni293 – 296Combined sources4
Beta strandi297 – 304Combined sources8
Helixi305 – 314Combined sources10
Turni315 – 317Combined sources3
Beta strandi318 – 320Combined sources3
Beta strandi323 – 328Combined sources6
Turni334 – 337Combined sources4

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1X5PNMR-A254-337[»]
2BZ2NMR-A244-343[»]
2JX2NMR-A244-343[»]
ProteinModelPortaliP18615.
SMRiP18615.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP18615.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Repeati184 – 18512
Repeati186 – 18722
Repeati188 – 18932
Repeati190 – 19142
Repeati192 – 1935; approximate2
Repeati194 – 19562
Repeati196 – 19772
Repeati198 – 19982
Repeati200 – 20192
Repeati202 – 203102
Repeati204 – 205112
Repeati206 – 207122
Repeati208 – 209132
Repeati210 – 211142
Repeati212 – 213152
Repeati214 – 215162
Repeati216 – 217172
Repeati218 – 219182
Repeati220 – 221192
Repeati222 – 223202
Repeati224 – 225212
Repeati226 – 227222
Repeati228 – 229232
Repeati230 – 231242
Repeati232 – 233252
Repeati234 – 235262
Repeati236 – 237272
Repeati238 – 239282
Repeati240 – 241292
Repeati242 – 243302
Domaini262 – 332RRMPROSITE-ProRule annotationAdd BLAST71

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni184 – 24330 X 2 AA approximate tandem repeats of R-[DSNE]Add BLAST60

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili7 – 36Sequence analysisAdd BLAST30

Domaini

The RRM domain interacts with RNA, and is essential for NELF complex function. It is however not required for the NELF complex formation.1 Publication

Sequence similaritiesi

Belongs to the RRM NELF-E family.Curated
Contains 1 RRM (RNA recognition motif) domain.PROSITE-ProRule annotation

Keywords - Domaini

Coiled coil, Repeat

Phylogenomic databases

eggNOGiENOG410IK4K. Eukaryota.
ENOG41101UX. LUCA.
GeneTreeiENSGT00630000089917.
HOGENOMiHOG000232089.
HOVERGENiHBG052598.
InParanoidiP18615.
KOiK15182.
OMAiVYIHFPS.
OrthoDBiEOG091G0I1Z.
PhylomeDBiP18615.
TreeFamiTF324087.

Family and domain databases

Gene3Di3.30.70.330. 1 hit.
InterProiIPR033102. NELFE.
IPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view]
PANTHERiPTHR17250:SF0. PTHR17250:SF0. 1 hit.
PfamiPF00076. RRM_1. 1 hit.
[Graphical view]
SMARTiSM00360. RRM. 1 hit.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 1 hit.
PROSITEiPS50102. RRM. 1 hit.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: P18615-1) [UniParc]FASTAAdd to basket

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
MLVIPPGLSE EEEALQKKFN KLKKKKKALL ALKKQSSSST TSQGGVKRSL
60 70 80 90 100
SEQPVMDTAT ATEQAKQLVK SGAISAIKAE TKNSGFKRSR TLEGKLKDPE
110 120 130 140 150
KGPVPTFQPF QRSISADDDL QESSRRPQRK SLYESFVSSS DRLRELGPDG
160 170 180 190 200
EEAEGPGAGD GPPRSFDWGY EERSGAHSSA SPPRSRSRDR SHERNRDRDR
210 220 230 240 250
DRERDRDRDR DRDRERDRDR DRDRDRDRER DRDRERDRDR DREGPFRRSD
260 270 280 290 300
SFPERRAPRK GNTLYVYGED MTPTLLRGAF SPFGNIIDLS MDPPRNCAFV
310 320 330 340 350
TYEKMESADQ AVAELNGTQV ESVQLKVNIA RKQPMLDAAT GKSVWGSLAV
360 370 380
QNSPKGCHRD KRTQIVYSDD VYKENLVDGF
Length:380
Mass (Da):43,240
Last modified:February 1, 1996 - v3
Checksum:i95EB422B5E07410B
GO
Isoform 2 (identifier: P18615-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-1: M → MVPKGATM

Note: No experimental confirmation available.
Show »
Length:387
Mass (Da):43,925
Checksum:iCF6DCF317D74A6ED
GO
Isoform 3 (identifier: P18615-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     135-164: Missing.

Note: No experimental confirmation available.
Show »
Length:350
Mass (Da):40,216
Checksum:iD3066C12B041493F
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti119D → DD in AAA36308 (PubMed:2612324).Curated1
Sequence conflicti174S → M in CAA34231 (PubMed:2119325).Curated1
Sequence conflicti265Y → YD in AAA36308 (PubMed:2612324).Curated1
Sequence conflicti312V → A in AAA36308 (PubMed:2612324).Curated1
Sequence conflicti327V → D in AAA36308 (PubMed:2612324).Curated1
Sequence conflicti347S → A in AAA36308 (PubMed:2612324).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0561511M → MVPKGATM in isoform 2. 1 Publication1
Alternative sequenceiVSP_056152135 – 164Missing in isoform 3. 1 PublicationAdd BLAST30

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M33231
, M32274, M32275, M32276, M33230 Genomic DNA. Translation: AAA36308.1.
L03411 mRNA. Translation: AAC37523.1.
AF019413 Genomic DNA. Translation: AAB67979.1.
AK300717 mRNA. Translation: BAG62393.1.
AK302652 mRNA. Translation: BAG63891.1.
AL049547 Genomic DNA. Translation: CAB89308.1.
AL662849 Genomic DNA. Translation: CAI17457.1.
AL844853 Genomic DNA. Translation: CAI41861.1.
BX005143 Genomic DNA. Translation: CAM25865.1.
CR759782 Genomic DNA. Translation: CAQ07114.1.
CR388219, CR753845 Genomic DNA. Translation: CAQ07466.1.
AL645922 Genomic DNA. Translation: CAQ09275.1.
CR753845, CR388219 Genomic DNA. Translation: CAQ10906.1.
CH471081 Genomic DNA. Translation: EAX03553.1.
BC025235 mRNA. Translation: AAH25235.1.
BC050617 mRNA. Translation: AAH50617.1.
X16105 mRNA. Translation: CAA34231.1.
CCDSiCCDS4730.1. [P18615-1]
PIRiS36789.
RefSeqiNP_002895.3. NM_002904.5. [P18615-1]
UniGeneiHs.423935.

Genome annotation databases

EnsembliENST00000375425; ENSP00000364574; ENSG00000204356. [P18615-3]
ENST00000375429; ENSP00000364578; ENSG00000204356. [P18615-1]
ENST00000383174; ENSP00000372660; ENSG00000206268. [P18615-1]
ENST00000383343; ENSP00000372834; ENSG00000206357. [P18615-1]
ENST00000429857; ENSP00000403623; ENSG00000231044. [P18615-1]
ENST00000444811; ENSP00000388400; ENSG00000204356. [P18615-4]
ENST00000448628; ENSP00000394879; ENSG00000229363. [P18615-1]
ENST00000457397; ENSP00000393005; ENSG00000233801. [P18615-1]
GeneIDi7936.
KEGGihsa:7936.
UCSCiuc003nyk.4. human. [P18615-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M33231
, M32274, M32275, M32276, M33230 Genomic DNA. Translation: AAA36308.1.
L03411 mRNA. Translation: AAC37523.1.
AF019413 Genomic DNA. Translation: AAB67979.1.
AK300717 mRNA. Translation: BAG62393.1.
AK302652 mRNA. Translation: BAG63891.1.
AL049547 Genomic DNA. Translation: CAB89308.1.
AL662849 Genomic DNA. Translation: CAI17457.1.
AL844853 Genomic DNA. Translation: CAI41861.1.
BX005143 Genomic DNA. Translation: CAM25865.1.
CR759782 Genomic DNA. Translation: CAQ07114.1.
CR388219, CR753845 Genomic DNA. Translation: CAQ07466.1.
AL645922 Genomic DNA. Translation: CAQ09275.1.
CR753845, CR388219 Genomic DNA. Translation: CAQ10906.1.
CH471081 Genomic DNA. Translation: EAX03553.1.
BC025235 mRNA. Translation: AAH25235.1.
BC050617 mRNA. Translation: AAH50617.1.
X16105 mRNA. Translation: CAA34231.1.
CCDSiCCDS4730.1. [P18615-1]
PIRiS36789.
RefSeqiNP_002895.3. NM_002904.5. [P18615-1]
UniGeneiHs.423935.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1X5PNMR-A254-337[»]
2BZ2NMR-A244-343[»]
2JX2NMR-A244-343[»]
ProteinModelPortaliP18615.
SMRiP18615.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi113662. 36 interactors.
DIPiDIP-32669N.
IntActiP18615. 19 interactors.
MINTiMINT-1033320.
STRINGi9606.ENSP00000364578.

PTM databases

iPTMnetiP18615.
PhosphoSitePlusiP18615.

Polymorphism and mutation databases

BioMutaiNELFE.
DMDMi1350554.

Proteomic databases

EPDiP18615.
MaxQBiP18615.
PaxDbiP18615.
PeptideAtlasiP18615.
PRIDEiP18615.

Protocols and materials databases

DNASUi7936.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000375425; ENSP00000364574; ENSG00000204356. [P18615-3]
ENST00000375429; ENSP00000364578; ENSG00000204356. [P18615-1]
ENST00000383174; ENSP00000372660; ENSG00000206268. [P18615-1]
ENST00000383343; ENSP00000372834; ENSG00000206357. [P18615-1]
ENST00000429857; ENSP00000403623; ENSG00000231044. [P18615-1]
ENST00000444811; ENSP00000388400; ENSG00000204356. [P18615-4]
ENST00000448628; ENSP00000394879; ENSG00000229363. [P18615-1]
ENST00000457397; ENSP00000393005; ENSG00000233801. [P18615-1]
GeneIDi7936.
KEGGihsa:7936.
UCSCiuc003nyk.4. human. [P18615-1]

Organism-specific databases

CTDi7936.
DisGeNETi7936.
GeneCardsiNELFE.
HGNCiHGNC:13974. NELFE.
HPAiHPA007187.
HPA007594.
HPA046502.
MIMi154040. gene.
neXtProtiNX_P18615.
OpenTargetsiENSG00000204356.
ENSG00000206268.
ENSG00000206357.
ENSG00000229363.
ENSG00000231044.
ENSG00000233801.
PharmGKBiPA134974984.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410IK4K. Eukaryota.
ENOG41101UX. LUCA.
GeneTreeiENSGT00630000089917.
HOGENOMiHOG000232089.
HOVERGENiHBG052598.
InParanoidiP18615.
KOiK15182.
OMAiVYIHFPS.
OrthoDBiEOG091G0I1Z.
PhylomeDBiP18615.
TreeFamiTF324087.

Enzyme and pathway databases

BioCyciZFISH:ENSG00000168501-MONOMER.
ReactomeiR-HSA-112382. Formation of RNA Pol II elongation complex.
R-HSA-112387. Elongation arrest and recovery.
R-HSA-113418. Formation of the Early Elongation Complex.
R-HSA-167152. Formation of HIV elongation complex in the absence of HIV Tat.
R-HSA-167158. Formation of the HIV-1 Early Elongation Complex.
R-HSA-167200. Formation of HIV-1 elongation complex containing HIV-1 Tat.
R-HSA-167238. Pausing and recovery of Tat-mediated HIV elongation.
R-HSA-167242. Abortive elongation of HIV-1 transcript in the absence of Tat.
R-HSA-167243. Tat-mediated HIV elongation arrest and recovery.
R-HSA-167246. Tat-mediated elongation of the HIV-1 transcript.
R-HSA-167287. HIV elongation arrest and recovery.
R-HSA-167290. Pausing and recovery of HIV elongation.
R-HSA-674695. RNA Polymerase II Pre-transcription Events.
R-HSA-6796648. TP53 Regulates Transcription of DNA Repair Genes.
R-HSA-75955. RNA Polymerase II Transcription Elongation.

Miscellaneous databases

EvolutionaryTraceiP18615.
GeneWikiiRDBP.
GenomeRNAii7936.
PROiP18615.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000204356.
CleanExiHS_RDBP.
ExpressionAtlasiP18615. baseline and differential.
GenevisibleiP18615. HS.

Family and domain databases

Gene3Di3.30.70.330. 1 hit.
InterProiIPR033102. NELFE.
IPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view]
PANTHERiPTHR17250:SF0. PTHR17250:SF0. 1 hit.
PfamiPF00076. RRM_1. 1 hit.
[Graphical view]
SMARTiSM00360. RRM. 1 hit.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 1 hit.
PROSITEiPS50102. RRM. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiNELFE_HUMAN
AccessioniPrimary (citable) accession number: P18615
Secondary accession number(s): A2BE08
, B4DUN1, B4DYX9, Q5JP74, Q5JP75, Q96F56, Q9NPK2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1990
Last sequence update: February 1, 1996
Last modified: November 30, 2016
This is version 192 of the entry and version 3 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, Direct protein sequencing, Reference proteome

Documents

  1. Human chromosome 6
    Human chromosome 6: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. 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.