Syncytin-2

UniProt data

UniProt name: SYCY2_HUMAN (P60508)

Gene name: ERVFRD-1; Synonyms=ERVFRDE1; ORFNames=UNQ6191/PRO20218

Organism: Homo sapiens (Human).

Function: Endogenous envelope proteins may have kept, lost or modified their original function during evolution but this one can still make pseudotypes with MLV, HIV-1 or SIV-1 virions and confer infectivity. Retroviral envelope proteins mediate receptor recognition and membrane fusion during early infection. The surface protein mediates receptor recognition, while the transmembrane protein anchors the envelope heterodimer to the viral membrane through one transmembrane domain. The other hydrophobic domain, called fusion peptide, mediates fusion of the viral membrane with the target cell membrane (PubMed:14694139). {ECO:0000269|PubMed:14694139}.

Subcellular location: Transmembrane protein: Cell membrane {ECO:0000305}; Single-pass membrane protein {ECO:0000305}.

Transmembrane domains:

  1. 479-499, 21 AA, Helical. {ECO:0000255}.

Sequence: 538 AA

10 20 30 40 50 60 MGLLLLVLIL TPSLAAYRHP DFPLLEKAQQ LLQSTGSPYS TNCWLCTSSS TETPGTAYPA 70 80 90 100 110 120 SPREWTSIEA ELHISYRWDP NLKGLMRPAN SLLSTVKQDF PDIRQKPPIF GPIFTNINLM 130 140 150 160 170 180 GIAPICVMAK RKNGTNVGTL PSTVCNVTFT VDSNQQTYQT YTHNQFRHQP RFPKPPNITF 190 200 210 220 230 240 PQGTLLDKSS RFCQGRPSSC STRNFWFRPA DYNQCLQISN LSSTAEWVLL DQTRNSLFWE 250 260 270 280 290 300 NKTKGANQSQ TPCVQVLAGM TIATSYLGIS AVSEFFGTSL TPLFHFHIST CLKTQGAFYI 310 320 330 340 350 360 CGQSIHQCLP SNWTGTCTIG YVTPDIFIAP GNLSLPIPIY GNSPLPRVRR AIHFIPLLAG 370 380 390 400 410 420 LGILAGTGTG IAGITKASLT YSQLSKEIAN NIDTMAKALT TMQEQIDSLA AVVLQNRRGL 430 440 450 460 470 480 DMLTAAQGGI CLALDEKCCF WVNQSGKVQD NIRQLLNQAS SLRERATQGW LNWEGTWKWF 490 500 510 520 530 SWVLPLTGPL VSLLLLLLFG PCLLNLITQF VSSRLQAIKL QTNLSAGRHP RNIQESPF

CATM prediction

The sequence of SYCY2_HUMAN returned 1 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
      480       490       500
    |    +    |    +    |  		 (Å) (°) (Å) (°)  
Model 1 TWKWFSWVLALTGALVSLLLLLLFGAC 7.0 -54.0° 2.6 32.8 -17.3
Prolines* TWKWFSWVLPLTGPLVSLLLLLLFGPC          

* 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, 485, ALA, HA A, 484, LEU, O 3.31Å
B, 488, GLY, HA1 A, 485, ALA, O 3.01Å
B, 489, ALA, HA A, 492, SER, OG 3.25Å
A, 485, ALA, HA B, 484, LEU, O 3.31Å
A, 488, GLY, HA1 B, 485, ALA, O 3.01Å
A, 489, ALA, HA B, 492, SER, OG 3.25Å