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Protein

Liprin-beta-2

Gene

PPFIBP2

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

May regulate the disassembly of focal adhesions. Did not bind receptor-like tyrosine phosphatases type 2A.1 Publication

Names & Taxonomyi

Protein namesi
Recommended name:
Liprin-beta-2
Alternative name(s):
Protein tyrosine phosphatase receptor type f polypeptide-interacting protein-binding protein 2
Short name:
PTPRF-interacting protein-binding protein 2
Gene namesi
Name:PPFIBP2
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 11

Organism-specific databases

HGNCiHGNC:9250. PPFIBP2.

Subcellular locationi

GO - Cellular componenti

  • extracellular space Source: UniProtKB
  • intracellular Source: UniProtKB
Complete GO annotation...

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA33571.

Polymorphism and mutation databases

BioMutaiPPFIBP2.
DMDMi296439314.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 876876Liprin-beta-2PRO_0000191036Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei329 – 3291PhosphoserineCombined sources
Modified residuei363 – 3631PhosphoserineCombined sources
Modified residuei387 – 3871PhosphoserineCombined sources
Modified residuei512 – 5121PhosphoserineCombined sources

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiQ8ND30.
MaxQBiQ8ND30.
PaxDbiQ8ND30.
PeptideAtlasiQ8ND30.
PRIDEiQ8ND30.

PTM databases

iPTMnetiQ8ND30.
PhosphoSiteiQ8ND30.

Expressioni

Tissue specificityi

Widely expressed.1 Publication

Gene expression databases

BgeeiQ8ND30.
CleanExiHS_PPFIBP2.
ExpressionAtlasiQ8ND30. baseline and differential.
GenevisibleiQ8ND30. HS.

Organism-specific databases

HPAiHPA001935.
HPA003911.

Interactioni

Subunit structurei

Forms homodimers and heterodimers.By similarity

Protein-protein interaction databases

BioGridi114067. 10 interactions.
DIPiDIP-42373N.
IntActiQ8ND30. 8 interactions.
MINTiMINT-1471826.
STRINGi9606.ENSP00000299492.

Structurei

Secondary structure

1
876
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi199 – 26163Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3QH9X-ray2.01A185-265[»]
ProteinModelPortaliQ8ND30.
SMRiQ8ND30. Positions 198-263, 554-805.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini558 – 62265SAM 1PROSITE-ProRule annotationAdd
BLAST
Domaini630 – 69364SAM 2PROSITE-ProRule annotationAdd
BLAST
Domaini718 – 78366SAM 3PROSITE-ProRule annotationAdd
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili101 – 313213Sequence analysisAdd
BLAST

Domaini

The N-terminal coiled coil regions mediate homodimerization preferentially and heterodimerization type beta/beta. The C-terminal, non-coiled coil regions mediate heterodimerization type beta/alpha (By similarity).By similarity

Sequence similaritiesi

Belongs to the liprin family. Liprin-beta subfamily.Curated
Contains 3 SAM (sterile alpha motif) domains.PROSITE-ProRule annotation

Keywords - Domaini

Coiled coil, Repeat

Phylogenomic databases

eggNOGiKOG1899. Eukaryota.
ENOG410XSFF. LUCA.
GeneTreeiENSGT00760000119138.
HOGENOMiHOG000082535.
HOVERGENiHBG052331.
InParanoidiQ8ND30.
OMAiMAEFRRG.
OrthoDBiEOG71G9T5.
PhylomeDBiQ8ND30.
TreeFamiTF314207.

Family and domain databases

Gene3Di1.10.150.50. 2 hits.
InterProiIPR029515. Liprin.
IPR030435. PPFIBP2.
IPR001660. SAM.
IPR013761. SAM/pointed.
[Graphical view]
PANTHERiPTHR12587. PTHR12587. 1 hit.
PTHR12587:SF18. PTHR12587:SF18. 1 hit.
PfamiPF00536. SAM_1. 2 hits.
PF07647. SAM_2. 1 hit.
[Graphical view]
SMARTiSM00454. SAM. 3 hits.
[Graphical view]
SUPFAMiSSF47769. SSF47769. 3 hits.
PROSITEiPS50105. SAM_DOMAIN. 3 hits.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

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

Isoform 1 (identifier: Q8ND30-1) [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
MASDASHALE AALEQMDGII AGTKTGADLS DGTCEPGLAS PASYMNPFPV
60 70 80 90 100
LHLIEDLRLA LEMLELPQER AALLSQIPGP TAAYIKEWFE ESLSQVNHHS
110 120 130 140 150
AASNETYQER LARLEGDKES LILQVSVLTD QVEAQGEKIR DLEVCLEGHQ
160 170 180 190 200
VKLNAAEEML QQELLSRTSL ETQKLDLMTE VSELKLKLVG MEKEQREQEE
210 220 230 240 250
KQRKAEELLQ ELRHLKIKVE ELENERNQYE WKLKATKAEV AQLQEQVALK
260 270 280 290 300
DAEIERLHSQ LSRTAALHSE SHTERDQEIQ RLKMGMETLL LANEDKDRRI
310 320 330 340 350
EELTGLLNQY RKVKEIVMVT QGPSERTLSI NEEEPEGGFS KWNATNKDPE
360 370 380 390 400
ELFKQEMPPR CSSPTVGPPP LPQKSLETRA QKKLSCSLED LRSESVDKCM
410 420 430 440 450
DGNQPFPVLE PKDSPFLAEH KYPTLPGKLS GATPNGEAAK SPPTICQPDA
460 470 480 490 500
TGSSLLRLRD TESGWDDTAV VNDLSSTSSG TESGPQSPLT PDGKRNPKGI
510 520 530 540 550
KKFWGKIRRT QSGNFYTDTL GMAEFRRGGL RATAGPRLSR TRDSKGQKSD
560 570 580 590 600
ANAPFAQWST ERVCAWLEDF GLAQYVIFAR QWVSSGHTLL TATPQDMEKE
610 620 630 640 650
LGIKHPLHRK KLVLAVKAIN TKQEEKSALL DHIWVTRWLD DIGLPQYKDQ
660 670 680 690 700
FHESRVDRRM LQYLTVNDLL FLKVTSQLHH LSIKCAIHVL HVNKFNPHCL
710 720 730 740 750
HRRPADESNL SPSEVVQWSN HRVMEWLRSV DLAEYAPNLR GSGVHGGLII
760 770 780 790 800
LEPRFTGDTL AMLLNIPPQK TLLRRHLTTK FNALIGPEAE QEKREKMASP
810 820 830 840 850
AYTPLTTTAK VRPRKLGFSH FGNIRKKKFD ESTDYICPME PSDGVSDSHR
860 870
VYSGYRGLSP LDAPELDGLD QVGQIS
Length:876
Mass (Da):98,544
Last modified:May 18, 2010 - v3
Checksum:iB01BF9286C6C1417
GO
Isoform 2 (identifier: Q8ND30-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-112: Missing.
     113-124: RLEGDKESLILQ → MSSEQWPRLPGK

Show »
Length:764
Mass (Da):86,511
Checksum:i14EF7C9FE41E4BBA
GO
Isoform 3 (identifier: Q8ND30-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-143: Missing.
     144-162: VCLEGHQVKLNAAEEMLQQ → MGKLITRMWKLLRRRSAPK

Note: Gene prediction based on EST data.
Show »
Length:733
Mass (Da):83,204
Checksum:iE96C8C5F273C3382
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti128 – 1281L → I in AAH21714 (PubMed:17974005).Curated
Sequence conflicti161 – 1611Q → H in BAH12419 (PubMed:14702039).Curated
Sequence conflicti702 – 7021R → L in AAC26104 (PubMed:15489334).Curated
Sequence conflicti734 – 7341E → V in AAC26104 (PubMed:15489334).Curated
Sequence conflicti754 – 7541R → L in AAC26104 (PubMed:15489334).Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti658 – 6581R → G.4 Publications
Corresponds to variant rs4758209 [ dbSNP | Ensembl ].
VAR_049999

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 143143Missing in isoform 3. CuratedVSP_047382Add
BLAST
Alternative sequencei1 – 112112Missing in isoform 2. 1 PublicationVSP_047383Add
BLAST
Alternative sequencei113 – 12412RLEGD…SLILQ → MSSEQWPRLPGK in isoform 2. 1 PublicationVSP_047384Add
BLAST
Alternative sequencei144 – 16219VCLEG…EMLQQ → MGKLITRMWKLLRRRSAPK in isoform 3. CuratedVSP_047385Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK296718 mRNA. Translation: BAH12419.1.
AL834426 mRNA. Translation: CAD39087.2.
AC104237 Genomic DNA. No translation available.
AC107884 Genomic DNA. No translation available.
BC021714 mRNA. Translation: AAH21714.1.
AF034803 mRNA. Translation: AAC26104.1.
CCDSiCCDS31419.1. [Q8ND30-1]
CCDS58116.1. [Q8ND30-2]
CCDS58117.1. [Q8ND30-3]
RefSeqiNP_001243497.1. NM_001256568.1.
NP_003612.2. NM_003621.3.
UniGeneiHs.655714.
Hs.740974.

Genome annotation databases

EnsembliENST00000299492; ENSP00000299492; ENSG00000166387. [Q8ND30-1]
ENST00000528883; ENSP00000435469; ENSG00000166387. [Q8ND30-2]
ENST00000530181; ENSP00000437321; ENSG00000166387. [Q8ND30-3]
GeneIDi8495.
KEGGihsa:8495.
UCSCiuc001mfj.6. human. [Q8ND30-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK296718 mRNA. Translation: BAH12419.1.
AL834426 mRNA. Translation: CAD39087.2.
AC104237 Genomic DNA. No translation available.
AC107884 Genomic DNA. No translation available.
BC021714 mRNA. Translation: AAH21714.1.
AF034803 mRNA. Translation: AAC26104.1.
CCDSiCCDS31419.1. [Q8ND30-1]
CCDS58116.1. [Q8ND30-2]
CCDS58117.1. [Q8ND30-3]
RefSeqiNP_001243497.1. NM_001256568.1.
NP_003612.2. NM_003621.3.
UniGeneiHs.655714.
Hs.740974.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3QH9X-ray2.01A185-265[»]
ProteinModelPortaliQ8ND30.
SMRiQ8ND30. Positions 198-263, 554-805.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi114067. 10 interactions.
DIPiDIP-42373N.
IntActiQ8ND30. 8 interactions.
MINTiMINT-1471826.
STRINGi9606.ENSP00000299492.

PTM databases

iPTMnetiQ8ND30.
PhosphoSiteiQ8ND30.

Polymorphism and mutation databases

BioMutaiPPFIBP2.
DMDMi296439314.

Proteomic databases

EPDiQ8ND30.
MaxQBiQ8ND30.
PaxDbiQ8ND30.
PeptideAtlasiQ8ND30.
PRIDEiQ8ND30.

Protocols and materials databases

DNASUi8495.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000299492; ENSP00000299492; ENSG00000166387. [Q8ND30-1]
ENST00000528883; ENSP00000435469; ENSG00000166387. [Q8ND30-2]
ENST00000530181; ENSP00000437321; ENSG00000166387. [Q8ND30-3]
GeneIDi8495.
KEGGihsa:8495.
UCSCiuc001mfj.6. human. [Q8ND30-1]

Organism-specific databases

CTDi8495.
GeneCardsiPPFIBP2.
HGNCiHGNC:9250. PPFIBP2.
HPAiHPA001935.
HPA003911.
MIMi603142. gene.
neXtProtiNX_Q8ND30.
PharmGKBiPA33571.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG1899. Eukaryota.
ENOG410XSFF. LUCA.
GeneTreeiENSGT00760000119138.
HOGENOMiHOG000082535.
HOVERGENiHBG052331.
InParanoidiQ8ND30.
OMAiMAEFRRG.
OrthoDBiEOG71G9T5.
PhylomeDBiQ8ND30.
TreeFamiTF314207.

Miscellaneous databases

ChiTaRSiPPFIBP2. human.
GenomeRNAii8495.
PROiQ8ND30.
SOURCEiSearch...

Gene expression databases

BgeeiQ8ND30.
CleanExiHS_PPFIBP2.
ExpressionAtlasiQ8ND30. baseline and differential.
GenevisibleiQ8ND30. HS.

Family and domain databases

Gene3Di1.10.150.50. 2 hits.
InterProiIPR029515. Liprin.
IPR030435. PPFIBP2.
IPR001660. SAM.
IPR013761. SAM/pointed.
[Graphical view]
PANTHERiPTHR12587. PTHR12587. 1 hit.
PTHR12587:SF18. PTHR12587:SF18. 1 hit.
PfamiPF00536. SAM_1. 2 hits.
PF07647. SAM_2. 1 hit.
[Graphical view]
SMARTiSM00454. SAM. 3 hits.
[Graphical view]
SUPFAMiSSF47769. SSF47769. 3 hits.
PROSITEiPS50105. SAM_DOMAIN. 3 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "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] (ISOFORM 2), VARIANT GLY-658.
    Tissue: Tongue.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1), VARIANT GLY-658.
    Tissue: Lymph node.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. "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] (ISOFORM 1), VARIANT GLY-658.
    Tissue: Testis.
  5. "Liprins, a family of LAR transmembrane protein-tyrosine phosphatase-interacting proteins."
    Serra-Pages C., Medley Q.G., Tang M., Hart A., Streuli M.
    J. Biol. Chem. 273:15611-15620(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 94-876, TISSUE SPECIFICITY, FUNCTION, VARIANT GLY-658.
  6. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma.
  7. "Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions."
    Mayya V., Lundgren D.H., Hwang S.-I., Rezaul K., Wu L., Eng J.K., Rodionov V., Han D.K.
    Sci. Signal. 2:RA46-RA46(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Leukemic T-cell.
  8. "Toward a comprehensive characterization of a human cancer cell phosphoproteome."
    Zhou H., Di Palma S., Preisinger C., Peng M., Polat A.N., Heck A.J., Mohammed S.
    J. Proteome Res. 12:260-271(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-329; SER-363; SER-387 AND SER-512, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma and Erythroleukemia.
  9. "An enzyme assisted RP-RPLC approach for in-depth analysis of human liver phosphoproteome."
    Bian Y., Song C., Cheng K., Dong M., Wang F., Huang J., Sun D., Wang L., Ye M., Zou H.
    J. Proteomics 96:253-262(2014) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-363 AND SER-387, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Liver.

Entry informationi

Entry nameiLIPB2_HUMAN
AccessioniPrimary (citable) accession number: Q8ND30
Secondary accession number(s): B7Z433
, E9PK77, O75337, Q8WW26
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 16, 2004
Last sequence update: May 18, 2010
Last modified: July 6, 2016
This is version 127 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, Reference proteome

Documents

  1. Human chromosome 11
    Human chromosome 11: 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.