Thrombomodulin

UniProt data

UniProt name: TRBM_HUMAN (P07204)

Gene name: THBD; Synonyms=THRM

Organism: Homo sapiens (Human).

Function: Thrombomodulin is a specific endothelial cell receptor that forms a 1:1 stoichiometric complex with thrombin. This complex is responsible for the conversion of protein C to the activated protein C (protein Ca). Once evolved, protein Ca scissions the activated cofactors of the coagulation mechanism, factor Va and factor VIIIa, and thereby reduces the amount of thrombin generated.

Subcellular location: Membrane; Single-pass type I membrane protein.

Transmembrane domains:

  1. 516-539, 24 AA, Helical. {ECO:0000255}.

Sequence: 575 AA

10 20 30 40 50 60 MLGVLVLGAL ALAGLGFPAP AEPQPGGSQC VEHDCFALYP GPATFLNASQ ICDGLRGHLM 70 80 90 100 110 120 TVRSSVAADV ISLLLNGDGG VGRRRLWIGL QLPPGCGDPK RLGPLRGFQW VTGDNNTSYS 130 140 150 160 170 180 RWARLDLNGA PLCGPLCVAV SAAEATVPSE PIWEEQQCEV KADGFLCEFH FPATCRPLAV 190 200 210 220 230 240 EPGAAAAAVS ITYGTPFAAR GADFQALPVG SSAAVAPLGL QLMCTAPPGA VQGHWAREAP 250 260 270 280 290 300 GAWDCSVENG GCEHACNAIP GAPRCQCPAG AALQADGRSC TASATQSCND LCEHFCVPNP 310 320 330 340 350 360 DQPGSYSCMC ETGYRLAADQ HRCEDVDDCI LEPSPCPQRC VNTQGGFECH CYPNYDLVDG 370 380 390 400 410 420 ECVEPVDPCF RANCEYQCQP LNQTSYLCVC AEGFAPIPHE PHRCQMFCNQ TACPADCDPN 430 440 450 460 470 480 TQASCECPEG YILDDGFICT DIDECENGGF CSGVCHNLPG TFECICGPDS ALARHIGTDC 490 500 510 520 530 540 DSGKVDGGDS GSGEPPPSPT PGSTLTPPAV GLVHSGLLIG ISIASLCLVV ALLALLCHLR 550 560 570 KKQGAARAKM EYKCAAPSKE VVLQHVRTER TPQRL

CATM prediction

The sequence of TRBM_HUMAN returned 2 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
         520       530       540
  +    |    +    |    +    |  		 (Å) (°) (Å) (°)  
Model 1 VHSGLLIGISIASLCLVVALLALLCHLRKK 6.7 -40.9° 5.5 45.0 -16.0
Model 2 VHSGLLIGISIASLCLVVALLALLCHLRKK 7.3 -27.0° 6.0 58.0 -7.7

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, 517, LEU, HA A, 516, GLY, O 2.55Å
B, 520, GLY, HA1 A, 517, LEU, O 3.15Å
A, 517, LEU, HA B, 516, GLY, O 2.55Å
A, 520, GLY, HA1 B, 517, LEU, O 3.15Å