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Protein

Negative elongation factor C/D

Gene

NELFCD

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.2 Publications

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Repressor

Keywords - Biological processi

Transcription, Transcription regulation

Enzyme and pathway databases

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 C/D
Short name:
NELF-C/D
Alternative name(s):
TH1-like protein
Gene namesi
Name:NELFCD
Synonyms:NELFD, TH1, TH1L
ORF Names:HSPC130
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Unplaced

Organism-specific databases

HGNCiHGNC:15934. NELFCD.

Subcellular locationi

GO - Cellular componenti

  • membrane Source: UniProtKB
  • NELF complex Source: UniProtKB
  • nucleoplasm Source: Reactome
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

DisGeNETi51497.
PharmGKBiPA38055.

Polymorphism and mutation databases

DMDMi38372376.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000194561 – 590Negative elongation factor C/DAdd BLAST590

Proteomic databases

EPDiQ8IXH7.
MaxQBiQ8IXH7.
PaxDbiQ8IXH7.
PeptideAtlasiQ8IXH7.
PRIDEiQ8IXH7.

PTM databases

iPTMnetiQ8IXH7.
PhosphoSitePlusiQ8IXH7.

Expressioni

Tissue specificityi

Widely expressed. Expressed in heart, brain, lung, placenta, liver, skeletal and cardiac muscle, adrenal, thyroid, kidney and pancreas.2 Publications

Gene expression databases

BgeeiENSG00000101158.
GenevisibleiQ8IXH7. HS.

Organism-specific databases

HPAiHPA050641.
HPA066262.

Interactioni

Subunit structurei

The NELF complex is composed of NELFA, NELFB, NELFCD (isoform NELF-C or isoform NELF-D) and NELFE. Interacts with ARAF1.2 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
ARAFP103985EBI-536725,EBI-365961
NELFAQ9H3P24EBI-6109710,EBI-5461341

Protein-protein interaction databases

BioGridi119572. 44 interactors.
DIPiDIP-34061N.
IntActiQ8IXH7. 28 interactors.
MINTiMINT-260753.
STRINGi9606.ENSP00000342300.

Structurei

Secondary structure

1590
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi191 – 196Combined sources6
Helixi198 – 215Combined sources18
Turni216 – 219Combined sources4
Helixi220 – 231Combined sources12
Helixi235 – 248Combined sources14
Turni252 – 255Combined sources4
Helixi256 – 271Combined sources16
Helixi277 – 283Combined sources7
Helixi285 – 288Combined sources4
Helixi290 – 302Combined sources13
Helixi307 – 316Combined sources10
Beta strandi319 – 321Combined sources3
Helixi325 – 327Combined sources3
Helixi331 – 341Combined sources11
Beta strandi342 – 345Combined sources4
Turni350 – 352Combined sources3
Helixi353 – 365Combined sources13
Beta strandi367 – 373Combined sources7
Beta strandi375 – 379Combined sources5
Helixi383 – 399Combined sources17
Turni407 – 410Combined sources4
Helixi411 – 418Combined sources8
Helixi421 – 436Combined sources16
Beta strandi437 – 439Combined sources3
Helixi450 – 461Combined sources12
Helixi463 – 465Combined sources3
Helixi466 – 477Combined sources12
Beta strandi482 – 484Combined sources3
Helixi486 – 504Combined sources19
Turni505 – 507Combined sources3
Helixi509 – 521Combined sources13
Helixi527 – 538Combined sources12
Beta strandi541 – 543Combined sources3
Helixi547 – 557Combined sources11
Beta strandi558 – 560Combined sources3
Helixi574 – 585Combined sources12

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5L3XX-ray2.75B186-590[»]
ProteinModelPortaliQ8IXH7.
SMRiQ8IXH7.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the NELF-D family.Curated

Phylogenomic databases

eggNOGiENOG410IFGF. Eukaryota.
ENOG410XSDJ. LUCA.
HOVERGENiHBG052597.
InParanoidiQ8IXH7.
KOiK15181.
PhylomeDBiQ8IXH7.
TreeFamiTF324118.

Family and domain databases

InterProiIPR006942. TH1.
[Graphical view]
PANTHERiPTHR12144. PTHR12144. 1 hit.
PfamiPF04858. TH1. 1 hit.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

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

Isoform NELF-C (identifier: Q8IXH7-1) [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
MAGAVPGAIM DEDYYGSAAE WGDEADGGQQ EDDSGEGEDD AEVQQECLHK
60 70 80 90 100
FSTRDYIMEP SIFNTLKRYF QAGGSPENVI QLLSENYTAV AQTVNLLAEW
110 120 130 140 150
LIQTGVEPVQ VQETVENHLK SLLIKHFDPR KADSIFTEEG ETPAWLEQMI
160 170 180 190 200
AHTTWRDLFY KLAEAHPDCL MLNFTVKLIS DAGYQGEITS VSTACQQLEV
210 220 230 240 250
FSRVLRTSLA TILDGGEENL EKNLPEFAKM VCHGEHTYLF AQAMMSVLAQ
260 270 280 290 300
EEQGGSAVRR IAQEVQRFAQ EKGHDASQIT LALGTAASYP RACQALGAML
310 320 330 340 350
SKGALNPADI TVLFKMFTSM DPPPVELIRV PAFLDLFMQS LFKPGARINQ
360 370 380 390 400
DHKHKYIHIL AYAASVVETW KKNKRVSINK DELKSTSKAV ETVHNLCCNE
410 420 430 440 450
NKGASELVAE LSTLYQCIRF PVVAMGVLKW VDWTVSEPRY FQLQTDHTPV
460 470 480 490 500
HLALLDEIST CHQLLHPQVL QLLVKLFETE HSQLDVMEQL ELKKTLLDRM
510 520 530 540 550
VHLLSRGYVL PVVSYIRKCL EKLDTDISLI RYFVTEVLDV IAPPYTSDFV
560 570 580 590
QLFLPILEND SIAGTIKTEG EHDPVTEFIA HCKSNFIMVN
Length:590
Mass (Da):66,247
Last modified:November 14, 2003 - v2
Checksum:i425437DC46DAF953
GO
Isoform 3 (identifier: Q8IXH7-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     178-201: LISDAGYQGEITSVSTACQQLEVF → VGRVLELRRKVFMNVYFWLLVCFL
     202-590: Missing.

Note: No experimental confirmation available.
Show »
Length:201
Mass (Da):22,903
Checksum:i28EA9E5A52CD68FF
GO
Isoform NELF-D (identifier: Q8IXH7-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-9: Missing.

Note: Produced by alternative initiation at Met-10 of isoform NELF-C.
Show »
Length:581
Mass (Da):65,479
Checksum:iDD20EFAF08DE67E8
GO

Sequence cautioni

The sequence AAF29094 differs from that shown. Reason: Frameshift at positions 462 and 464.Curated
The sequence BAA91618 differs from that shown. Reason: Erroneous initiation.Curated
The sequence BAB14519 differs from that shown. Reason: Erroneous initiation.Curated
The sequence CAB64339 differs from that shown. Reason: Erroneous initiation.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti117N → D in BAA91618 (PubMed:14702039).Curated1
Sequence conflicti306N → S in BAB14729 (PubMed:14702039).Curated1
Sequence conflicti430W → R in BAA91618 (PubMed:14702039).Curated1
Sequence conflicti497L → P in BAA91618 (PubMed:14702039).Curated1
Sequence conflicti573D → V in BAA91618 (PubMed:14702039).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0187691 – 9Missing in isoform NELF-D. Curated9
Alternative sequenceiVSP_008950178 – 201LISDA…QLEVF → VGRVLELRRKVFMNVYFWLL VCFL in isoform 3. 1 PublicationAdd BLAST24
Alternative sequenceiVSP_008951202 – 590Missing in isoform 3. 1 PublicationAdd BLAST389

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ238374 mRNA. Translation: CAB64337.1.
AJ238375 mRNA. Translation: CAB64373.1.
AJ238379 mRNA. Translation: CAB64339.1. Different initiation.
AF161479 mRNA. Translation: AAF29094.1. Frameshift.
AK001316 mRNA. Translation: BAA91618.1. Different initiation.
AK023310 mRNA. Translation: BAB14519.1. Different initiation.
AK023927 mRNA. Translation: BAB14729.1.
AK293410 mRNA. Translation: BAG56917.1.
AL109840 Genomic DNA. Translation: CAC09368.1.
BC014952 mRNA. Translation: AAH14952.1.
RefSeqiNP_945327.2. NM_198976.2.
UniGeneiHs.517148.

Genome annotation databases

EnsembliENST00000344018; ENSP00000342300; ENSG00000101158.
GeneIDi51497.
KEGGihsa:51497.
UCSCiuc061ydt.1. human. [Q8IXH7-1]

Keywords - Coding sequence diversityi

Alternative initiation, Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ238374 mRNA. Translation: CAB64337.1.
AJ238375 mRNA. Translation: CAB64373.1.
AJ238379 mRNA. Translation: CAB64339.1. Different initiation.
AF161479 mRNA. Translation: AAF29094.1. Frameshift.
AK001316 mRNA. Translation: BAA91618.1. Different initiation.
AK023310 mRNA. Translation: BAB14519.1. Different initiation.
AK023927 mRNA. Translation: BAB14729.1.
AK293410 mRNA. Translation: BAG56917.1.
AL109840 Genomic DNA. Translation: CAC09368.1.
BC014952 mRNA. Translation: AAH14952.1.
RefSeqiNP_945327.2. NM_198976.2.
UniGeneiHs.517148.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5L3XX-ray2.75B186-590[»]
ProteinModelPortaliQ8IXH7.
SMRiQ8IXH7.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi119572. 44 interactors.
DIPiDIP-34061N.
IntActiQ8IXH7. 28 interactors.
MINTiMINT-260753.
STRINGi9606.ENSP00000342300.

PTM databases

iPTMnetiQ8IXH7.
PhosphoSitePlusiQ8IXH7.

Polymorphism and mutation databases

DMDMi38372376.

Proteomic databases

EPDiQ8IXH7.
MaxQBiQ8IXH7.
PaxDbiQ8IXH7.
PeptideAtlasiQ8IXH7.
PRIDEiQ8IXH7.

Protocols and materials databases

DNASUi51497.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000344018; ENSP00000342300; ENSG00000101158.
GeneIDi51497.
KEGGihsa:51497.
UCSCiuc061ydt.1. human. [Q8IXH7-1]

Organism-specific databases

CTDi51497.
DisGeNETi51497.
GeneCardsiNELFCD.
H-InvDBHIX0138057.
HGNCiHGNC:15934. NELFCD.
HPAiHPA050641.
HPA066262.
MIMi605297. gene.
neXtProtiNX_Q8IXH7.
PharmGKBiPA38055.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410IFGF. Eukaryota.
ENOG410XSDJ. LUCA.
HOVERGENiHBG052597.
InParanoidiQ8IXH7.
KOiK15181.
PhylomeDBiQ8IXH7.
TreeFamiTF324118.

Enzyme and pathway databases

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

GeneWikiiTH1L.
GenomeRNAii51497.
PROiQ8IXH7.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000101158.
GenevisibleiQ8IXH7. HS.

Family and domain databases

InterProiIPR006942. TH1.
[Graphical view]
PANTHERiPTHR12144. PTHR12144. 1 hit.
PfamiPF04858. TH1. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiNELFD_HUMAN
AccessioniPrimary (citable) accession number: Q8IXH7
Secondary accession number(s): B4DE06
, Q9BYL2, Q9H405, Q9H888, Q9H8T3, Q9NVX5, Q9P029, Q9UGN1, Q9UGN2, Q9UGN3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 14, 2003
Last sequence update: November 14, 2003
Last modified: November 30, 2016
This is version 141 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, Direct protein sequencing, Reference proteome

Documents

  1. Human chromosome 20
    Human chromosome 20: 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.