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Protein

Ligand of Numb protein X 2

Gene

LNX2

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri50 – 8839RING-typePROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Ligandi

Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Ligand of Numb protein X 2
Alternative name(s):
Numb-binding protein 2
PDZ domain-containing RING finger protein 1
Gene namesi
Name:LNX2
Synonyms:PDZRN1
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 13

Organism-specific databases

HGNCiHGNC:20421. LNX2.

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA134899015.

Polymorphism and mutation databases

BioMutaiLNX2.
DMDMi29840784.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 690690Ligand of Numb protein X 2PRO_0000055915Add
BLAST

Proteomic databases

EPDiQ8N448.
MaxQBiQ8N448.
PaxDbiQ8N448.
PeptideAtlasiQ8N448.
PRIDEiQ8N448.

PTM databases

iPTMnetiQ8N448.
PhosphoSiteiQ8N448.

Expressioni

Gene expression databases

BgeeiQ8N448.
CleanExiHS_LNX2.
GenevisibleiQ8N448. HS.

Organism-specific databases

HPAiHPA040698.

Interactioni

Subunit structurei

Interacts with the phosphotyrosine interaction domain of NUMB.By similarity

Binary interactionsi

WithEntry#Exp.IntActNotes
P0C2064EBI-2340947,EBI-9675596From a different organism.
Q856014EBI-2340947,EBI-9676175From a different organism.
Hoxa1P090223EBI-2340947,EBI-3957603From a different organism.
taxP034104EBI-2340947,EBI-9676218From a different organism.
taxP140794EBI-2340947,EBI-9675698From a different organism.

Protein-protein interaction databases

BioGridi128798. 46 interactions.
IntActiQ8N448. 38 interactions.
MINTiMINT-8201326.
STRINGi9606.ENSP00000325929.

Structurei

Secondary structure

1
690
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Turni24 – 263Combined sources
Beta strandi39 – 424Combined sources
Helixi46 – 483Combined sources
Turni51 – 533Combined sources
Beta strandi58 – 625Combined sources
Beta strandi68 – 703Combined sources
Helixi71 – 777Combined sources
Turni78 – 803Combined sources
Turni85 – 873Combined sources
Helixi93 – 953Combined sources
Helixi101 – 1088Combined sources
Beta strandi111 – 1133Combined sources
Turni117 – 1193Combined sources
Beta strandi123 – 1253Combined sources
Helixi126 – 1283Combined sources
Helixi129 – 1357Combined sources
Beta strandi336 – 3438Combined sources
Beta strandi353 – 3575Combined sources
Beta strandi359 – 3613Combined sources
Beta strandi363 – 3697Combined sources
Helixi374 – 3785Combined sources
Beta strandi386 – 3905Combined sources
Helixi400 – 40910Combined sources
Beta strandi412 – 42211Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2VWRX-ray1.30A336-424[»]
5DINX-ray1.86A/B20-147[»]
ProteinModelPortaliQ8N448.
SMRiQ8N448. Positions 36-110, 216-683.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ8N448.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini233 – 31886PDZ 1PROSITE-ProRule annotationAdd
BLAST
Domaini339 – 42284PDZ 2PROSITE-ProRule annotationAdd
BLAST
Domaini468 – 55487PDZ 3PROSITE-ProRule annotationAdd
BLAST
Domaini600 – 68889PDZ 4PROSITE-ProRule annotationAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi208 – 2114NPXY motif

Domaini

The NPXY motif is required for the interaction with the PID domain of NUMB. It is however not sufficient.

Sequence similaritiesi

Contains 4 PDZ (DHR) domains.PROSITE-ProRule annotation
Contains 1 RING-type zinc finger.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri50 – 8839RING-typePROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiENOG410ITAD. Eukaryota.
ENOG410Y9FS. LUCA.
GeneTreeiENSGT00760000119017.
HOGENOMiHOG000261605.
HOVERGENiHBG039539.
InParanoidiQ8N448.
KOiK10692.
OMAiEKDFCPL.
OrthoDBiEOG75F4CJ.
PhylomeDBiQ8N448.
TreeFamiTF330709.

Family and domain databases

Gene3Di2.30.42.10. 4 hits.
3.30.40.10. 1 hit.
InterProiIPR001478. PDZ.
IPR001841. Znf_RING.
IPR013083. Znf_RING/FYVE/PHD.
IPR017907. Znf_RING_CS.
[Graphical view]
PfamiPF00595. PDZ. 4 hits.
[Graphical view]
SMARTiSM00228. PDZ. 4 hits.
SM00184. RING. 1 hit.
[Graphical view]
SUPFAMiSSF50156. SSF50156. 4 hits.
PROSITEiPS50106. PDZ. 4 hits.
PS00518. ZF_RING_1. 1 hit.
PS50089. ZF_RING_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q8N448-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGTTSDEMVS VEQTSSSSLN PLCFECGQQH WTRENHLYNY QNEVDDDLVC
60 70 80 90 100
HICLQPLLQP LDTPCGHTFC YKCLRNFLQE KDFCPLDRKR LHFKLCKKSS
110 120 130 140 150
ILVHKLLDKL LVLCPFSSVC KDVMQRCDLE AHLKNRCPGA SHRRVALERR
160 170 180 190 200
KTSRTQAEIE NENGPTLLDP AGTLSPEADC LGTGAVPVER HLTSASLSTW
210 220 230 240 250
SEEPGLDNPA FEESAGADTT QQPLSLPEGE ITTIEIHRSN PYIQLGISIV
260 270 280 290 300
GGNETPLINI VIQEVYRDGV IARDGRLLAG DQILQVNNYN ISNVSHNYAR
310 320 330 340 350
AVLSQPCNTL HLTVLRERRF GNRAHNHSDS NSPREEIFQV ALHKRDSGEQ
360 370 380 390 400
LGIKLVRRTD EPGVFILDLL EGGLAAQDGR LSSNDRVLAI NGHDLKYGTP
410 420 430 440 450
ELAAQIIQAS GERVNLTIAR PGKPQPGNTI REAGNHSSSS QHHTPPPYYS
460 470 480 490 500
RPSSHKDLTQ CVTCQEKHIT VKKEPHESLG MTVAGGRGSK SGELPIFVTS
510 520 530 540 550
VPPHGCLARD GRIKRGDVLL NINGIDLTNL SHSEAVAMLK ASAASPAVAL
560 570 580 590 600
KALEVQIVEE ATQNAEEQPS TFSENEYDAS WSPSWVMWLG LPSTLHSCHD
610 620 630 640 650
IVLRRSYLGS WGFSIVGGYE ENHTNQPFFI KTIVLGTPAY YDGRLKCGDM
660 670 680 690
IVAVNGLSTV GMSHSALVPM LKEQRNKVTL TVICWPGSLV
Length:690
Mass (Da):76,004
Last modified:October 1, 2002 - v1
Checksum:iA3F941A477721F1D
GO

Sequence cautioni

The sequence BAD18754.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti198 – 1981S → P.
Corresponds to variant rs8002697 [ dbSNP | Ensembl ].
VAR_024612

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL138699 Genomic DNA. Translation: CAH73446.1.
BC036755 mRNA. Translation: AAH36755.1.
AK172771 mRNA. Translation: BAD18754.1. Different initiation.
CCDSiCCDS9323.1.
RefSeqiNP_699202.1. NM_153371.3.
UniGeneiHs.132359.

Genome annotation databases

EnsembliENST00000316334; ENSP00000325929; ENSG00000139517.
GeneIDi222484.
KEGGihsa:222484.
UCSCiuc001url.5. human.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL138699 Genomic DNA. Translation: CAH73446.1.
BC036755 mRNA. Translation: AAH36755.1.
AK172771 mRNA. Translation: BAD18754.1. Different initiation.
CCDSiCCDS9323.1.
RefSeqiNP_699202.1. NM_153371.3.
UniGeneiHs.132359.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2VWRX-ray1.30A336-424[»]
5DINX-ray1.86A/B20-147[»]
ProteinModelPortaliQ8N448.
SMRiQ8N448. Positions 36-110, 216-683.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi128798. 46 interactions.
IntActiQ8N448. 38 interactions.
MINTiMINT-8201326.
STRINGi9606.ENSP00000325929.

PTM databases

iPTMnetiQ8N448.
PhosphoSiteiQ8N448.

Polymorphism and mutation databases

BioMutaiLNX2.
DMDMi29840784.

Proteomic databases

EPDiQ8N448.
MaxQBiQ8N448.
PaxDbiQ8N448.
PeptideAtlasiQ8N448.
PRIDEiQ8N448.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000316334; ENSP00000325929; ENSG00000139517.
GeneIDi222484.
KEGGihsa:222484.
UCSCiuc001url.5. human.

Organism-specific databases

CTDi222484.
GeneCardsiLNX2.
HGNCiHGNC:20421. LNX2.
HPAiHPA040698.
MIMi609733. gene.
neXtProtiNX_Q8N448.
PharmGKBiPA134899015.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410ITAD. Eukaryota.
ENOG410Y9FS. LUCA.
GeneTreeiENSGT00760000119017.
HOGENOMiHOG000261605.
HOVERGENiHBG039539.
InParanoidiQ8N448.
KOiK10692.
OMAiEKDFCPL.
OrthoDBiEOG75F4CJ.
PhylomeDBiQ8N448.
TreeFamiTF330709.

Miscellaneous databases

ChiTaRSiLNX2. human.
EvolutionaryTraceiQ8N448.
GenomeRNAii222484.
PROiQ8N448.
SOURCEiSearch...

Gene expression databases

BgeeiQ8N448.
CleanExiHS_LNX2.
GenevisibleiQ8N448. HS.

Family and domain databases

Gene3Di2.30.42.10. 4 hits.
3.30.40.10. 1 hit.
InterProiIPR001478. PDZ.
IPR001841. Znf_RING.
IPR013083. Znf_RING/FYVE/PHD.
IPR017907. Znf_RING_CS.
[Graphical view]
PfamiPF00595. PDZ. 4 hits.
[Graphical view]
SMARTiSM00228. PDZ. 4 hits.
SM00184. RING. 1 hit.
[Graphical view]
SUPFAMiSSF50156. SSF50156. 4 hits.
PROSITEiPS50106. PDZ. 4 hits.
PS00518. ZF_RING_1. 1 hit.
PS50089. ZF_RING_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The DNA sequence and analysis of human chromosome 13."
    Dunham A., Matthews L.H., Burton J., Ashurst J.L., Howe K.L., Ashcroft K.J., Beare D.M., Burford D.C., Hunt S.E., Griffiths-Jones S., Jones M.C., Keenan S.J., Oliver K., Scott C.E., Ainscough R., Almeida J.P., Ambrose K.D., Andrews D.T.
    , Ashwell R.I.S., Babbage A.K., Bagguley C.L., Bailey J., Bannerjee R., Barlow K.F., Bates K., Beasley H., Bird C.P., Bray-Allen S., Brown A.J., Brown J.Y., Burrill W., Carder C., Carter N.P., Chapman J.C., Clamp M.E., Clark S.Y., Clarke G., Clee C.M., Clegg S.C., Cobley V., Collins J.E., Corby N., Coville G.J., Deloukas P., Dhami P., Dunham I., Dunn M., Earthrowl M.E., Ellington A.G., Faulkner L., Frankish A.G., Frankland J., French L., Garner P., Garnett J., Gilbert J.G.R., Gilson C.J., Ghori J., Grafham D.V., Gribble S.M., Griffiths C., Hall R.E., Hammond S., Harley J.L., Hart E.A., Heath P.D., Howden P.J., Huckle E.J., Hunt P.J., Hunt A.R., Johnson C., Johnson D., Kay M., Kimberley A.M., King A., Laird G.K., Langford C.J., Lawlor S., Leongamornlert D.A., Lloyd D.M., Lloyd C., Loveland J.E., Lovell J., Martin S., Mashreghi-Mohammadi M., McLaren S.J., McMurray A., Milne S., Moore M.J.F., Nickerson T., Palmer S.A., Pearce A.V., Peck A.I., Pelan S., Phillimore B., Porter K.M., Rice C.M., Searle S., Sehra H.K., Shownkeen R., Skuce C.D., Smith M., Steward C.A., Sycamore N., Tester J., Thomas D.W., Tracey A., Tromans A., Tubby B., Wall M., Wallis J.M., West A.P., Whitehead S.L., Willey D.L., Wilming L., Wray P.W., Wright M.W., Young L., Coulson A., Durbin R.M., Hubbard T., Sulston J.E., Beck S., Bentley D.R., Rogers J., Ross M.T.
    Nature 428:522-528(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  2. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Melanoma.
  3. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
    Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
    , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
    Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 522-690.
    Tissue: Colon.
  4. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma.
  5. "Crystal structure of the second Pdz domain of the human Numb-binding protein 2."
    Structural genomics consortium (SGC)
    Submitted (FEB-2009) to the PDB data bank
    Cited for: X-RAY CRYSTALLOGRAPHY (1.30 ANGSTROMS) OF 336-424.

Entry informationi

Entry nameiLNX2_HUMAN
AccessioniPrimary (citable) accession number: Q8N448
Secondary accession number(s): Q5W0P0, Q6ZMH2, Q96SH4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 28, 2003
Last sequence update: October 1, 2002
Last modified: June 8, 2016
This is version 124 of the entry and version 1 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 13
    Human chromosome 13: 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.