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Protein

Transcriptional regulator ATRX homolog

Gene

xnp-1

Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Required for embryonic development and gonadogenesis. Also, functions redundantly with the transcriptional repressor lin-35 to regulate somatic gonad development.2 Publications

Catalytic activityi

ATP + H2O = ADP + phosphate.

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi496 – 503ATPPROSITE-ProRule annotation8

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionDNA-binding, Helicase, Hydrolase
Biological processDNA damage, DNA repair
LigandATP-binding, Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Transcriptional regulator ATRX homolog (EC:3.6.4.12)
Alternative name(s):
ATP-dependent helicase xnp-1
X-linked nuclear protein 1
Gene namesi
Name:xnp-1Imported
ORF Names:B0041.7Imported
OrganismiCaenorhabditis elegans
Taxonomic identifieri6239 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
Proteomesi
  • UP000001940 Componenti: Chromosome I

Organism-specific databases

WormBaseiB0041.7 ; CE17314 ; WBGene00006961 ; xnp-1

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

Disruption phenotypei

Temperature-sensitive with 38% embryonic lethality at 25 degrees Celsius (PubMed:15649460). A large proportion of surviving animals are sterile. Surviving animals also have gonad developmental defects such as defective gonadal arm growth and as a result irregular distal tip cell migration, and 24% of animals had a protruding vulva phenotype (PubMed:15649460). Reduced brood size (PubMed:15328017). Double knockout with lin-35 results in 43% embryonic lethality (PubMed:15328017). Surviving animals develop slowly, are small, sterile and display male and female gonad developmental defects characterized by shorter gonadal arms, fewer germ cells, an everted vulva phenotype, and failed formation of sheath and spermathecal cells (PubMed:15328017). RNAi-mediated knockdown of lin-35 or hpl-2 results in larval arrest at 25 degrees Celsius in an xpn-1 mutant background (PubMed:15649460).2 Publications

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi1130R → K in fd2; viable. Gonad morphological defects in a lin-35 RNAi background. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000743081 – 1359Transcriptional regulator ATRX homologAdd BLAST1359

Proteomic databases

EPDiQ9U7E0
PaxDbiQ9U7E0
PeptideAtlasiQ9U7E0
PRIDEiQ9U7E0

PTM databases

iPTMnetiQ9U7E0

Expressioni

Developmental stagei

Expressed in most cells during embryonic development (PubMed:15328017, PubMed:15649460). First expressed at around the 100-200 cell stage of embryogenesis (PubMed:15328017, PubMed:15649460). Expression was absent or reduced in intestinal cell lineages during this time. Highly expressed in neuronal cells of the head, ventral nerve cord and tail during the late stages of embryogenesis (PubMed:15328017). Highly expressed in all dividing cells after hatching (PubMed:15649460). Highly expressed in the P lineage during the L1 stage of larval development (PubMed:15649460). During larval development, mainly expressed in the neurons, but there is also high expression in the junctional cells of the spermatheca and uterus, and weak expression in cells of the somatic gonad including the distal tip cells (PubMed:15328017).2 Publications

Gene expression databases

BgeeiWBGene00006961 Expressed in 5 organ(s), highest expression level in multi-cellular organism

Interactioni

Protein-protein interaction databases

STRINGi6239.B0041.7

Structurei

3D structure databases

ProteinModelPortaliQ9U7E0
SMRiQ9U7E0
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini483 – 685Helicase ATP-bindingPROSITE-ProRule annotationAdd BLAST203
Domaini951 – 1134Helicase C-terminalPROSITE-ProRule annotationAdd BLAST184

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi636 – 639DEAH box4

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi67 – 70Poly-Asp4
Compositional biasi266 – 272Poly-Glu7
Compositional biasi276 – 281Poly-Lys6
Compositional biasi372 – 375Poly-Lys4
Compositional biasi603 – 608Poly-Lys6
Compositional biasi859 – 862Poly-Lys4

Sequence similaritiesi

Belongs to the SNF2/RAD54 helicase family.Curated

Phylogenomic databases

eggNOGiKOG1015 Eukaryota
COG0553 LUCA
HOGENOMiHOG000199608
InParanoidiQ9U7E0
KOiK10779
OrthoDBiEOG091G01G9
PhylomeDBiQ9U7E0

Family and domain databases

CDDicd00079 HELICc, 1 hit
Gene3Di3.40.50.10810, 1 hit
InterProiView protein in InterPro
IPR014001 Helicase_ATP-bd
IPR001650 Helicase_C
IPR027417 P-loop_NTPase
IPR038718 SNF2-like_sf
IPR000330 SNF2_N
PfamiView protein in Pfam
PF00271 Helicase_C, 1 hit
PF00176 SNF2_N, 1 hit
SMARTiView protein in SMART
SM00487 DEXDc, 1 hit
SM00490 HELICc, 1 hit
SUPFAMiSSF52540 SSF52540, 4 hits
PROSITEiView protein in PROSITE
PS51192 HELICASE_ATP_BIND_1, 1 hit
PS51194 HELICASE_CTER, 1 hit

Sequencei

Sequence statusi: Complete.

Q9U7E0-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MRVGVSESED SDGHVIEDED LEMARQIENE RKEKRAQKLK EKREREGKPP
60 70 80 90 100
PKKRPAKKRK ASSSEEDDDD EEESPRKSSK KSRKRAKSES ESDESDEEED
110 120 130 140 150
RKKSKSKKKV DQKKKEKSKK KRTTSSSEDE DSDEEREQKS KKKSKKTKKQ
160 170 180 190 200
TSSESSEESE EERKVKKSKK NKEKSVKKRA ETSEESDEDE KPSKKSKKGL
210 220 230 240 250
KKKAKSESES ESEDEKEVKK SKKKSKKVVK KESESEDEAP EKKKTEKRKR
260 270 280 290 300
SKTSSEESSE SEKSDEEEEE KESSPKPKKK KPLAVKKLSS DEESEESDVE
310 320 330 340 350
VLPQKKKRGA VTLISDSEDE KDQKSESEAS DVEEKVSKKK AKKQESSESG
360 370 380 390 400
SDSSEGSITV NRKSKKKEKP EKKKKGIIMD SSKLQKETID AERAEKERRK
410 420 430 440 450
RLEKKQKEFN GIVLEEGEDL TEMLTGTSSQ RKLKSVVLDP DSSTVDEESK
460 470 480 490 500
KPVEVHNSLV RILKPHQAHG IQFMYDCACE SLDRLDTEGS GGILAHCMGL
510 520 530 540 550
GKTLQVITFL HTVLMHEKIG EKCKRVLVVV PKNVIINWFK EFQKWLVDND
560 570 580 590 600
EELDTIDVNE LDSYKTIEDR RRALKAWHSS KTPSVMIIGY DLFRILTVED
610 620 630 640 650
DPKKKKPKNR NRRLEKAKED FRKYLQNPGP DMVVCDEAHK LKNDDSALSK
660 670 680 690 700
CMVKILTKRR ICLTGTPLQN NLMEYHCMVN FVKPGLLGTK TEFANRFVNI
710 720 730 740 750
INRGRTKDAS PLEVSFMKRR CHVLYDHLKK CVDRKDYRVL TEAIPPKQEY
760 770 780 790 800
VINVRQTERQ CALYNAFLND IVGDSGLSKR LLPDYHMFSR IWTHPYQLVL
810 820 830 840 850
HEQRMERERV MREDAEEEAD FIDDGDGSES ESEGSFKSGS ESDSGKSVVL
860 870 880 890 900
SSDDEGSSKK KKNGNKPEIK KTAPQKKRKF LNSDDEDEED GEDTAMAILQ
910 920 930 940 950
DGIRQSKRLA GEEADLRDTD TPPEYTGWFA RLGLVKEEDR DDFALSNKLI
960 970 980 990 1000
LLVEIIKKCE EIGDKLLVFS QSLESLTLIK RMLEYMAGTG QWFADGHEAL
1010 1020 1030 1040 1050
NAEGEETWSW LEGEDYMTID GSVQSGKRDA VQTSFNDPLN LRARLMLIST
1060 1070 1080 1090 1100
RAGSLGTNMV AANRVIIFDA CWNPSHDTQS LFRVYRFGQT KPVYIYRFIA
1110 1120 1130 1140 1150
QGTMEERIYK RQVTKESTSM RVVDEAQIQR HYLGNDLTEL YQFTPSTFDP
1160 1170 1180 1190 1200
DVEISCAPPK DRLLADVIHK NQHAVVDYIE HDTLFANVED EKLTEQEMKD
1210 1220 1230 1240 1250
AWTDYEKDKS GMPVRAQYAA PPMPGFPNGM IVGQNVQALL QNRMNQGIRV
1260 1270 1280 1290 1300
DQMQHDILFK ELQKMRIKDA GTAVKIVLLR NLLEQILPYI PDEMRGGMSE
1310 1320 1330 1340 1350
FNTHFIRLVH ETDRKMETPA DLLRKSLESF KTVIKMVKMI PTCREPLARM

TRDYPYLFA
Length:1,359
Mass (Da):156,193
Last modified:May 1, 2000 - v1
Checksum:iEB4342547D4F4E64
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti479C → F in CCD61253 (PubMed:9851916).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF134186 mRNA Translation: AAD55361.1
FO080106 Genomic DNA Translation: CCD61253.1
PIRiT34036
RefSeqiNP_001020958.1, NM_001025787.2
UniGeneiCel.22650

Genome annotation databases

GeneIDi172077
KEGGicel:CELE_B0041.7
UCSCiB0041.7 c. elegans

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF134186 mRNA Translation: AAD55361.1
FO080106 Genomic DNA Translation: CCD61253.1
PIRiT34036
RefSeqiNP_001020958.1, NM_001025787.2
UniGeneiCel.22650

3D structure databases

ProteinModelPortaliQ9U7E0
SMRiQ9U7E0
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi6239.B0041.7

PTM databases

iPTMnetiQ9U7E0

Proteomic databases

EPDiQ9U7E0
PaxDbiQ9U7E0
PeptideAtlasiQ9U7E0
PRIDEiQ9U7E0

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi172077
KEGGicel:CELE_B0041.7
UCSCiB0041.7 c. elegans

Organism-specific databases

CTDi172077
WormBaseiB0041.7 ; CE17314 ; WBGene00006961 ; xnp-1

Phylogenomic databases

eggNOGiKOG1015 Eukaryota
COG0553 LUCA
HOGENOMiHOG000199608
InParanoidiQ9U7E0
KOiK10779
OrthoDBiEOG091G01G9
PhylomeDBiQ9U7E0

Miscellaneous databases

PROiPR:Q9U7E0

Gene expression databases

BgeeiWBGene00006961 Expressed in 5 organ(s), highest expression level in multi-cellular organism

Family and domain databases

CDDicd00079 HELICc, 1 hit
Gene3Di3.40.50.10810, 1 hit
InterProiView protein in InterPro
IPR014001 Helicase_ATP-bd
IPR001650 Helicase_C
IPR027417 P-loop_NTPase
IPR038718 SNF2-like_sf
IPR000330 SNF2_N
PfamiView protein in Pfam
PF00271 Helicase_C, 1 hit
PF00176 SNF2_N, 1 hit
SMARTiView protein in SMART
SM00487 DEXDc, 1 hit
SM00490 HELICc, 1 hit
SUPFAMiSSF52540 SSF52540, 4 hits
PROSITEiView protein in PROSITE
PS51192 HELICASE_ATP_BIND_1, 1 hit
PS51194 HELICASE_CTER, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiATRX_CAEEL
AccessioniPrimary (citable) accession number: Q9U7E0
Secondary accession number(s): O02061
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 2, 2001
Last sequence update: May 1, 2000
Last modified: September 12, 2018
This is version 120 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
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