Semaphorin-6A

UniProt data

UniProt name: SEM6A_HUMAN (Q9H2E6)

Gene name: SEMA6A; Synonyms=KIAA1368, SEMAQ

Organism: Homo sapiens (Human).

Function: Cell surface receptor for PLXNA2 that plays an important role in cell-cell signaling. Required for normal granule cell migration in the developing cerebellum. Promotes reorganization of the actin cytoskeleton and plays an important role in axon guidance in the developing central nervous system. Can act as repulsive axon guidance cue. Has repulsive action towards migrating granular neurons. May play a role in channeling sympathetic axons into the sympathetic chains and controlling the temporal sequence of sympathetic target innervation (By similarity). {ECO:0000250}.

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

Transmembrane domains:

  1. 650-670, 21 AA, Helical. {ECO:0000255}.

Sequence: 1030 AA

10 20 30 40 50 60 MRSEALLLYF TLLHFAGAGF PEDSEPISIS HGNYTKQYPV FVGHKPGRNT TQRHRLDIQM 70 80 90 100 110 120 IMIMNGTLYI AARDHIYTVD IDTSHTEEIY CSKKLTWKSR QADVDTCRMK GKHKDECHNF 130 140 150 160 170 180 IKVLLKKNDD ALFVCGTNAF NPSCRNYKMD TLEPFGDEFS GMARCPYDAK HANVALFADG 190 200 210 220 230 240 KLYSATVTDF LAIDAVIYRS LGESPTLRTV KHDSKWLKEP YFVQAVDYGD YIYFFFREIA 250 260 270 280 290 300 VEYNTMGKVV FPRVAQVCKN DMGGSQRVLE KQWTSFLKAR LNCSVPGDSH FYFNILQAVT 310 320 330 340 350 360 DVIRINGRDV VLATFSTPYN SIPGSAVCAY DMLDIASVFT GRFKEQKSPD STWTPVPDER 370 380 390 400 410 420 VPKPRPGCCA GSSSLERYAT SNEFPDDTLN FIKTHPLMDE AVPSIFNRPW FLRTMVRYRL 430 440 450 460 470 480 TKIAVDTAAG PYQNHTVVFL GSEKGIILKF LARIGNSGFL NDSLFLEEMS VYNSEKCSYD 490 500 510 520 530 540 GVEDKRIMGM QLDRASSSLY VAFSTCVIKV PLGRCERYGK CKKTCIASRD PYCGWIKEGG 550 560 570 580 590 600 ACSHLSPNSR LTFEQDIERG NTDGLGDCHN SFVALNGHSS SLLPSTTTSD STAQEGYESR 610 620 630 640 650 660 GGMLDWKHLL DSPDSTDPLG AVSSHNHQDK KGVIRESYLK GHDQLVPVTL LAIAVILAFV 670 680 690 700 710 720 MGAVFSGITV YCVCDHRRKD VAVVQRKEKE LTHSRRGSMS SVTKLSGLFG DTQSKDPKPE 730 740 750 760 770 780 AILTPLMHNG KLATPGNTAK MLIKADQHHL DLTALPTPES TPTLQQKRKP SRGSREWERN 790 800 810 820 830 840 QNLINACTKD MPPMGSPVIP TDLPLRASPS HIPSVVVLPI TQQGYQHEYV DQPKMSEVAQ 850 860 870 880 890 900 MALEDQAATL EYKTIKEHLS SKSPNHGVNL VENLDSLPPK VPQREASLGP PGASLSQTGL 910 920 930 940 950 960 SKRLEMHHSS SYGVDYKRSY PTNSLTRSHQ ATTLKRNNTN SSNSSHLSRN QSFGRGDNPP 970 980 990 1000 1010 1020 PAPQRVDSIQ VHSSQPSGQA VTVSRQPSLN AYNSLTRSGL KRTPSLKPDV PPKPSFAPLS TSMKPNDACT

CATM prediction

The sequence of SEM6A_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
     650       660       670 
   |    +    |    +    |   		 (Å) (°) (Å) (°)  
Model 1 AVTLLAIAVILAFVMGAVFSGITVYCV 6.6 -46.2° 2.7 47.0 -21.3
Model 2 AVTLLAIAVILAFVMGAVFSGITVYCV 7.3 -54.4° 3.6 49.2 -19.7
Prolines* PVTLLAIAVILAFVMGAVFSGITVYCV          

* 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, 659, PHE, HA A, 658, ALA, O 2.64Å
B, 662, GLY, HA1 A, 659, PHE, O 2.59Å
B, 663, ALA, HA A, 662, GLY, O 3.23Å
B, 666, SER, HG1 A, 663, ALA, O 2.65Å
A, 659, PHE, HA B, 658, ALA, O 2.64Å
A, 662, GLY, HA1 B, 659, PHE, O 2.59Å
A, 663, ALA, HA B, 662, GLY, O 3.23Å
A, 666, SER, HG1 B, 663, ALA, O 2.65Å