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Protein

Pleckstrin homology domain-containing family M member 1

Gene

Plekhm1

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Proposed to act as a multivalent adapter protein that regulates Rab7-dependent and HOPS complex-dependent fusion events in the endolysosomal system and couples autophagic and the endocytic trafficking pathways. Required for late stages of endolysosomal maturation, facilitating both endocytosis-mediated degradation of growth factor receptors and autophagosome clearance. Seems to be involved in the terminal maturation of autophagosomes and to mediate autophagosome-lysosome fusion (By similarity). Involved in vesicular transport in the osteoclast (PubMed:17404618). May be involved in negative regulation of endocytic transport from early endosome to late endosome/lysosome implicating its association with Rab7. May have a role in sialyl-lex-mediated transduction of apoptotic signals (By similarity).By similarity1 Publication

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri989 – 104355Phorbol-ester/DAG-typePROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Autophagy, Protein transport, Transport

Keywords - Ligandi

Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Pleckstrin homology domain-containing family M member 1
Short name:
PH domain-containing family M member 1
Gene namesi
Name:Plekhm1
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 10

Organism-specific databases

RGDi1308010. Plekhm1.

Subcellular locationi

  • Cytoplasm Curated
  • Endosome membrane By similarity
  • Lysosome By similarity
  • Lysosome membrane By similarity

  • Note: Localizes to the external membrane of autolysosomes.By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Endosome, Lysosome, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 10591059Pleckstrin homology domain-containing family M member 1PRO_0000309337Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei218 – 2181PhosphoserineBy similarity
Modified residuei430 – 4301PhosphoserineBy similarity
Modified residuei433 – 4331PhosphoserineCombined sources
Modified residuei488 – 4881PhosphoserineBy similarity

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiQ5PQS0.
PRIDEiQ5PQS0.

PTM databases

iPTMnetiQ5PQS0.
PhosphoSiteiQ5PQS0.

Expressioni

Tissue specificityi

Expressed in testis, skeletal muscle, lung, liver, spleen, brain, heart, kidney and bone. Weakly expressed in monocytes (at protein level).1 Publication

Gene expression databases

BgeeiENSRNOG00000028521.
GenevisibleiQ5PQS0. RN.

Interactioni

Subunit structurei

May interact with sialyl-lex positive protein. Interacts with RAB7A (GTP-bound form). Interacts with VPS41, VPS11 and VPS39; indicative for an association with the HOPS complex; the interaction with VPS41 seems to require RAB7A. Interacts with GABARAP, GABARAPL, GABARAPL2, MAP1LC3A, MAP1LC3B and MAP1LC3C (By similarity). Interacts with PAFAH1B1; detected in osteoblasts.By similarity

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000034752.

Structurei

3D structure databases

ProteinModelPortaliQ5PQS0.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini40 – 182143RUNPROSITE-ProRule annotationAdd
BLAST
Domaini536 – 62792PH 1PROSITE-ProRule annotationAdd
BLAST
Domaini686 – 78095PH 2PROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni657 – 1059403Interaction with RAB7ABy similarityAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi634 – 6407LIRBy similarity

Domaini

The LIR (LC3-interacting region) motif mediates the interaction with ATG8 family proteins GABARAP, GABARAPL, GABARAPL2, and LC3A/B/C.By similarity

Sequence similaritiesi

Contains 2 PH domains.PROSITE-ProRule annotation
Contains 1 phorbol-ester/DAG-type zinc finger.PROSITE-ProRule annotation
Contains 1 RUN domain.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri989 – 104355Phorbol-ester/DAG-typePROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiENOG410KDQT. Eukaryota.
ENOG4111EZ2. LUCA.
GeneTreeiENSGT00550000074570.
HOGENOMiHOG000247013.
HOVERGENiHBG056799.
InParanoidiQ5PQS0.
OMAiPAFFKII.
OrthoDBiEOG091G013Y.
PhylomeDBiQ5PQS0.
TreeFamiTF317067.

Family and domain databases

Gene3Di2.30.29.30. 2 hits.
InterProiIPR002219. PE/DAG-bd.
IPR011993. PH_dom-like.
IPR001849. PH_domain.
IPR004012. Run_dom.
IPR025258. Zf-RING_9.
[Graphical view]
PfamiPF02759. RUN. 1 hit.
PF13901. zf-RING_9. 1 hit.
[Graphical view]
SMARTiSM00109. C1. 1 hit.
SM01175. DUF4206. 1 hit.
SM00233. PH. 2 hits.
SM00593. RUN. 1 hit.
[Graphical view]
SUPFAMiSSF50729. SSF50729. 2 hits.
PROSITEiPS50003. PH_DOMAIN. 2 hits.
PS50826. RUN. 1 hit.
PS50081. ZF_DAG_PE_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q5PQS0-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLSVENGLDP RAAIQVIKKK LVGSVKALQK QHVSLDTVVT SEDGDANTMC
60 70 80 90 100
SALEAVFIHG LHAKYIRAEA GGKRKKHTHQ KPLPQPVFWP LLKAVTHKHI
110 120 130 140 150
ISDLEHLVFI NTDVGRCRAW LRLALNDGLM ECYLKLLLQE PARLCEYYQP
160 170 180 190 200
TALLRDAEEA EFLLSFLQGL TSLSFELSYK SAILNEWTLT PLSLSGLCPL
210 220 230 240 250
SELDPLTVSG AELQRKESLD SISHSSGSED IEVQHSGHKI RRDRKLTASS
260 270 280 290 300
LSLDTASSSQ LSCSLNSDSC LLQENGPKSP DHSEEPMSYD SDLGTANADD
310 320 330 340 350
SDRSLQEVLS EFSKAQVNSA PSSGPSQESD TPMFQTPLSL HSLANSTHLL
360 370 380 390 400
FEGSEEPFPA HTSSGTSSGH KHQPQESPDM QPLGTAQAGP AGSTSDQQPS
410 420 430 440 450
SPVAGAADQG SEPWKALEYG RVGPKLVVSS PTSPKGKSWI SEDDFCRPPK
460 470 480 490 500
EHALKNTSDL CISPLQGTPE LRTALHGPFS QGPRKSCSLG ALDKACVSSL
510 520 530 540 550
DYRNAQTAPS PAVTQDHKNF CVVHRRQMGL SNPFRGLMKL GTVARRGAMG
560 570 580 590 600
IWKEFFCELS PLELRLYLSD EERTCVESCS LLRCEAVGPA HSDGRFELVF
610 620 630 640 650
SGKKLALRAS SQDEAEDWLD RVREALQKVR PQQEEEWVNI QYPDQAEDSP
660 670 680 690 700
EAPPDNLPPY SALLPEHAGA QGIQPNWTSA QVPEPDAIKE SLLYLYADRT
710 720 730 740 750
WIPYIFSLSL ESLKCFRVRN NEKMLSDSHG VETIRDILPD TSLGGPAFFK
760 770 780 790 800
IITAKAVLKL QAKNTEEAAH WRDLVRKVLA SYLESVQEAV TLAGSLDENC
810 820 830 840 850
QEVLKFATRE NGFLLQYLVA IPTEKGLDSQ GCFCAGCSRQ IGFSFVRPKL
860 870 880 890 900
CAFSGLYYCD FCHQDDASVI PARIIHNWDL TKRPVCRQAL KFLAQIRAQP
910 920 930 940 950
LINLQLVNAS LYEHVERMHL IGRSREQLKL LGDYLGLCRS GALKELSKRL
960 970 980 990 1000
SHRNYLLESP HKFSVADLQQ IAEGVYEGFL KALIEFASQH VYHCDLCTQR
1010 1020 1030 1040 1050
GFICQICHHQ DIIFPFEFDT TVRCAECRTV FHQSCQAVVR KGCPRCARRR

KYQEQNTVS
Length:1,059
Mass (Da):117,508
Last modified:January 4, 2005 - v1
Checksum:i3D41F53BF6382CAF
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC087058 mRNA. Translation: AAH87058.1.
RefSeqiNP_001009677.1. NM_001009677.1.
UniGeneiRn.101335.

Genome annotation databases

EnsembliENSRNOT00000037147; ENSRNOP00000034752; ENSRNOG00000028521.
GeneIDi303584.
KEGGirno:303584.
UCSCiRGD:1308010. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC087058 mRNA. Translation: AAH87058.1.
RefSeqiNP_001009677.1. NM_001009677.1.
UniGeneiRn.101335.

3D structure databases

ProteinModelPortaliQ5PQS0.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000034752.

PTM databases

iPTMnetiQ5PQS0.
PhosphoSiteiQ5PQS0.

Proteomic databases

PaxDbiQ5PQS0.
PRIDEiQ5PQS0.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000037147; ENSRNOP00000034752; ENSRNOG00000028521.
GeneIDi303584.
KEGGirno:303584.
UCSCiRGD:1308010. rat.

Organism-specific databases

CTDi9842.
RGDi1308010. Plekhm1.

Phylogenomic databases

eggNOGiENOG410KDQT. Eukaryota.
ENOG4111EZ2. LUCA.
GeneTreeiENSGT00550000074570.
HOGENOMiHOG000247013.
HOVERGENiHBG056799.
InParanoidiQ5PQS0.
OMAiPAFFKII.
OrthoDBiEOG091G013Y.
PhylomeDBiQ5PQS0.
TreeFamiTF317067.

Miscellaneous databases

PROiQ5PQS0.

Gene expression databases

BgeeiENSRNOG00000028521.
GenevisibleiQ5PQS0. RN.

Family and domain databases

Gene3Di2.30.29.30. 2 hits.
InterProiIPR002219. PE/DAG-bd.
IPR011993. PH_dom-like.
IPR001849. PH_domain.
IPR004012. Run_dom.
IPR025258. Zf-RING_9.
[Graphical view]
PfamiPF02759. RUN. 1 hit.
PF13901. zf-RING_9. 1 hit.
[Graphical view]
SMARTiSM00109. C1. 1 hit.
SM01175. DUF4206. 1 hit.
SM00233. PH. 2 hits.
SM00593. RUN. 1 hit.
[Graphical view]
SUPFAMiSSF50729. SSF50729. 2 hits.
PROSITEiPS50003. PH_DOMAIN. 2 hits.
PS50826. RUN. 1 hit.
PS50081. ZF_DAG_PE_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiPKHM1_RAT
AccessioniPrimary (citable) accession number: Q5PQS0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 13, 2007
Last sequence update: January 4, 2005
Last modified: September 7, 2016
This is version 83 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Miscellaneous

Sialyl-lex is a carcinoma associated antigen.

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. 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.