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Protein

Nuclear polyadenylated RNA-binding protein NAB2

Gene

NAB2

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

This essential protein binds to polyadenylated RNA and single-stranded DNA. It may be involved not only in RNA processing but also in transcription regulation. Believed to associate directly with nascent RNA polymerase II transcripts and remain associated during subsequent nuclear RNA processing reactions.

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri262 – 278C3H1-type 1Add BLAST17
Zinc fingeri283 – 300C3H1-type 2Add BLAST18
Zinc fingeri340 – 355C3H1-type 3Add BLAST16
Zinc fingeri371 – 386C3H1-type 4Add BLAST16
Zinc fingeri415 – 430C3H1-type 5Add BLAST16
Zinc fingeri437 – 452C3H1-type 6Add BLAST16
Zinc fingeri458 – 473C3H1-type 7Add BLAST16

GO - Molecular functioni

  • 5S rRNA binding Source: SGD
  • 7S RNA binding Source: SGD
  • metal ion binding Source: UniProtKB-KW
  • poly(A) binding Source: SGD
  • ribonuclease P RNA binding Source: SGD
  • tRNA binding Source: SGD

GO - Biological processi

  • mRNA polyadenylation Source: SGD
  • negative regulation of mRNA polyadenylation Source: GO_Central
  • negative regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay Source: SGD
  • poly(A)+ mRNA export from nucleus Source: SGD
  • positive regulation of transcription from RNA polymerase III promoter Source: SGD
  • regulation of mRNA stability Source: SGD
Complete GO annotation...

Keywords - Ligandi

Metal-binding, RNA-binding, Zinc

Enzyme and pathway databases

BioCyciYEAST:G3O-30619-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Nuclear polyadenylated RNA-binding protein NAB2
Gene namesi
Name:NAB2
Ordered Locus Names:YGL122C
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome VII

Organism-specific databases

EuPathDBiFungiDB:YGL122C.
SGDiS000003090. NAB2.

Subcellular locationi

GO - Cellular componenti

  • cytoplasm Source: SGD
  • nucleus Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000966871 – 525Nuclear polyadenylated RNA-binding protein NAB2Add BLAST525

Proteomic databases

MaxQBiP32505.
PRIDEiP32505.

PTM databases

iPTMnetiP32505.

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
GFD1Q048397EBI-11770,EBI-27549
HMT1P380742EBI-11770,EBI-8394
HRP1Q993833EBI-11770,EBI-11783
MLP1Q024554EBI-11770,EBI-11009

Protein-protein interaction databases

BioGridi33129. 2589 interactors.
DIPiDIP-1331N.
IntActiP32505. 17 interactors.
MINTiMINT-385635.

Structurei

Secondary structure

1525
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi7 – 18Combined sources12
Helixi28 – 40Combined sources13
Helixi45 – 55Combined sources11
Helixi61 – 79Combined sources19
Helixi84 – 93Combined sources10
Turni269 – 273Combined sources5
Turni293 – 295Combined sources3
Beta strandi297 – 299Combined sources3
Beta strandi301 – 303Combined sources3
Helixi305 – 326Combined sources22
Beta strandi328 – 330Combined sources3
Helixi343 – 345Combined sources3
Beta strandi353 – 355Combined sources3
Helixi374 – 376Combined sources3
Beta strandi384 – 387Combined sources4
Helixi390 – 393Combined sources4
Beta strandi412 – 414Combined sources3
Helixi418 – 420Combined sources3
Beta strandi427 – 429Combined sources3
Helixi440 – 442Combined sources3
Beta strandi455 – 457Combined sources3
Beta strandi470 – 472Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2JPSNMR-A1-105[»]
2LHNNMR-A409-483[»]
2V75X-ray1.80A1-104[»]
3LCNX-ray2.00A/B1-105[»]
3ZJ1NMR-A253-333[»]
3ZJ2NMR-A333-401[»]
4JLQX-ray3.04B205-242[»]
ProteinModelPortaliP32505.
SMRiP32505.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP32505.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Repeati121 – 12414
Repeati125 – 12824
Repeati129 – 13234
Repeati133 – 13644
Repeati137 – 14054
Repeati141 – 14464
Repeati145 – 14874
Repeati149 – 15284
Repeati153 – 15694
Repeati157 – 16010; approximate4

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni121 – 15610 X 4 AA tandem repeats of Q-Q-Q-PAdd BLAST36
Regioni209 – 228RNA-binding RGG-boxBy similarityAdd BLAST20

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi97 – 172Gln-richAdd BLAST76
Compositional biasi106 – 116Poly-GlnAdd BLAST11

Sequence similaritiesi

Belongs to the NAB2 family.Curated
Contains 7 C3H1-type zinc fingers.Curated

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri262 – 278C3H1-type 1Add BLAST17
Zinc fingeri283 – 300C3H1-type 2Add BLAST18
Zinc fingeri340 – 355C3H1-type 3Add BLAST16
Zinc fingeri371 – 386C3H1-type 4Add BLAST16
Zinc fingeri415 – 430C3H1-type 5Add BLAST16
Zinc fingeri437 – 452C3H1-type 6Add BLAST16
Zinc fingeri458 – 473C3H1-type 7Add BLAST16

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

HOGENOMiHOG000246536.
InParanoidiP32505.
OMAiVAEYIVL.
OrthoDBiEOG092C4V01.

Family and domain databases

InterProiIPR021083. Nab2_N.
[Graphical view]
PfamiPF11517. Nab2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P32505-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSQEQYTENL KVIVAEKLAG IPNFNEDIKY VAEYIVLLIV NGGTVESVVD
60 70 80 90 100
ELASLFDSVS RDTLANVVQT AFFALEALQQ GESAENIVSK IRMMNAQSLG
110 120 130 140 150
QSDIAQQQQQ QQQQQQPDIA QQQPQQQPQQ QPQQQPQQQP QQQPQQQPQQ
160 170 180 190 200
QPQQQPQLQP LQPQLGTQNA MQTDAPATPS PISAFSGVVN AAAPPQFAPV
210 220 230 240 250
DNSQRFTQRG GGAVGKNRRG GRGGNRGGRN NNSTRFNPLA KALGMAGESN
260 270 280 290 300
MNFTPTKKEG RCRLFPHCPL GRSCPHAHPT KVCNEYPNCP KPPGTCEFLH
310 320 330 340 350
PNEDEELMKE MERTREEFQK RKADLLAAKR KPVQTGIVLC KFGALCSNPS
360 370 380 390 400
CPFGHPTPAN EDAKVIDLMW CDKNLTCDNP ECRKAHSSLS KIKEVKPISQ
410 420 430 440 450
KKAAPPPVEK SLEQCKFGTH CTNKRCKYRH ARSHIMCREG ANCTRIDCLF
460 470 480 490 500
GHPINEDCRF GVNCKNIYCL FRHPPGRVLP EKKGAAPNSN VPTNERPFAL
510 520
PENAIIENAP PQTSFTHQEQ DTEMN
Length:525
Mass (Da):58,321
Last modified:October 1, 1993 - v1
Checksum:i40335C3D4658DD91
GO

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural varianti130 – 157Missing in YJA512. Add BLAST28

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L10288 Genomic DNA. Translation: AAA34819.1.
L08079 Genomic DNA. Translation: AAA34820.1.
Z72644 Genomic DNA. Translation: CAA96830.1.
AY723810 Genomic DNA. Translation: AAU09727.1.
BK006941 Genomic DNA. Translation: DAA07987.1.
PIRiB48058.
RefSeqiNP_011393.3. NM_001180987.3.

Genome annotation databases

EnsemblFungiiYGL122C; YGL122C; YGL122C.
GeneIDi852755.
KEGGisce:YGL122C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L10288 Genomic DNA. Translation: AAA34819.1.
L08079 Genomic DNA. Translation: AAA34820.1.
Z72644 Genomic DNA. Translation: CAA96830.1.
AY723810 Genomic DNA. Translation: AAU09727.1.
BK006941 Genomic DNA. Translation: DAA07987.1.
PIRiB48058.
RefSeqiNP_011393.3. NM_001180987.3.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2JPSNMR-A1-105[»]
2LHNNMR-A409-483[»]
2V75X-ray1.80A1-104[»]
3LCNX-ray2.00A/B1-105[»]
3ZJ1NMR-A253-333[»]
3ZJ2NMR-A333-401[»]
4JLQX-ray3.04B205-242[»]
ProteinModelPortaliP32505.
SMRiP32505.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi33129. 2589 interactors.
DIPiDIP-1331N.
IntActiP32505. 17 interactors.
MINTiMINT-385635.

PTM databases

iPTMnetiP32505.

Proteomic databases

MaxQBiP32505.
PRIDEiP32505.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYGL122C; YGL122C; YGL122C.
GeneIDi852755.
KEGGisce:YGL122C.

Organism-specific databases

EuPathDBiFungiDB:YGL122C.
SGDiS000003090. NAB2.

Phylogenomic databases

HOGENOMiHOG000246536.
InParanoidiP32505.
OMAiVAEYIVL.
OrthoDBiEOG092C4V01.

Enzyme and pathway databases

BioCyciYEAST:G3O-30619-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP32505.
PROiP32505.

Family and domain databases

InterProiIPR021083. Nab2_N.
[Graphical view]
PfamiPF11517. Nab2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiNAB2_YEAST
AccessioniPrimary (citable) accession number: P32505
Secondary accession number(s): D6VU26
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1993
Last sequence update: October 1, 1993
Last modified: November 2, 2016
This is version 149 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 9670 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

3D-structure, Complete proteome, 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 VII
    Yeast (Saccharomyces cerevisiae) chromosome VII: 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.