Lysosome-associated membrane glycoprotein 5

UniProt data

UniProt name: LAMP5_HUMAN (Q9UJQ1)

Gene name: LAMP5; Synonyms=C20orf103

Organism: Homo sapiens (Human).

Function:

Subcellular location: Cell membrane {ECO:0000269|PubMed:21642595}; Single-pass type I membrane protein {ECO:0000269|PubMed:21642595}. Endoplasmic reticulum-Golgi intermediate compartment membrane {ECO:0000269|PubMed:21642595}; Single-pass type I membrane protein {ECO:0000269|PubMed:21642595}. Endosome membrane {ECO:0000269|PubMed:21642595}; Single-pass type I membrane protein {ECO:0000269|PubMed:21642595}. Cytoplasmic vesicle {ECO:0000250}. Cell projection, dendrite {ECO:0000250}. Cell projection, growth cone membrane {ECO:0000250}; Single-pass type I membrane protein {ECO:0000250}. Early endosome membrane {ECO:0000250}; Single-pass type I membrane protein {ECO:0000250}. Recycling endosome {ECO:0000250}. Note=Localized mostly in cytoplasmic vesicles of neuronal cell body. Recycles from the vesicles of the endocytic recycling compartment (ERC) to the plasma membrane (By similarity). Colocalizes with UNC93B1 in large endosomal intracellular vesicles. Accumulates in the endoplasmic reticulum- Golgi intermediate compartment (ERGIC) before its disappearance upon activation by CpG dinucleotides. Associates with cortical membranes. {ECO:0000250}.

Transmembrane domains:

  1. 236-256, 21 AA, Helical. {ECO:0000255}.

Sequence: 280 AA

10 20 30 40 50 60 MDLQGRGVPS IDRLRVLLML FHTMAQIMAE QEVENLSGLS TNPEKDIFVV RENGTTCLMA 70 80 90 100 110 120 EFAAKFIVPY DVWASNYVDL ITEQADIALT RGAEVKGRCG HSQSELQVFW VDRAYALKML 130 140 150 160 170 180 FVKESHNMSK GPEATWRLSK VQFVYDSSEK THFKDAVSAG KHTANSHHLS ALVTPAGKSY 190 200 210 220 230 240 ECQAQQTISL ASSDPQKTVT MILSAVHIQP FDIISDFVFS EEHKCPVDER EQLEETLPLI 250 260 270 LGLILGLVIM VTLAIYHVHH KMTANQVQIP RDRSQYKHMG

CATM prediction

The sequence of LAMP5_HUMAN returned 4 potential models

The positions at the dimer's interface are highlighted in yellow. The position at the crossing point is highlighted in orange.

# Sequence and interface d θ Z' ω' Score
         240       250       
  +    |    +    |    +    		 (Å) (°) (Å) (°)  
Model 1 LEETLALILGLILGLVIMVTLAIYHVH 6.9 -30.0° 1.6 58.2 -51.0
Model 2 LEETLALILGLILGLVIMVTLAIYHVH 6.6 -45.0° 0.1 45.4 -35.5
Model 3 LEETLALILGLILGLVIMVTLAIYHVH 7.1 -50.0° 2.8 46.9 -20.4
Model 4 LEETLALILGLILGLVIMVTLAIYHVH 7.3 -30.0° 3.0 38.0 -16.3
Prolines* LEETLPLILGLILGLVIMVTLAIYHVH          

* Note: this sequence contains Pro residues. CATM substituted them with Ala during the modeling. The positions are marked.

Click on the model number to visualize its details below.

MODEL 1 DETAILS

Precited structure:


Click on the image to enlarge

Download model 1 structure: PDB, PyMOL session

List of hydrogen bonds:

Donor Acceptor Distance
B, 239, LEU, HA A, 238, ALA, O 2.83Å
B, 242, GLY, HA1 A, 239, LEU, O 3.16Å
B, 243, LEU, HA A, 242, GLY, O 3.26Å
A, 239, LEU, HA B, 238, ALA, O 2.83Å
A, 242, GLY, HA1 B, 239, LEU, O 3.16Å
A, 243, LEU, HA B, 242, GLY, O 3.26Å