Semaphorin-6C

UniProt data

UniProt name: SEM6C_HUMAN (Q9H3T2)

Gene name: SEMA6C; Synonyms=KIAA1869, SEMAY

Organism: Homo sapiens (Human).

Function: Shows growth cone collapsing activity on dorsal root ganglion (DRG) neurons in vitro. May be a stop signal for the DRG neurons in their target areas, and possibly also for other neurons. May also be involved in the maintenance and remodeling of neuronal connections. {ECO:0000269|PubMed:12110693}.

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

Transmembrane domains:

  1. 605-625, 21 AA, Helical. {ECO:0000255}.

Sequence: 930 AA

10 20 30 40 50 60 MPRAPHFMPL LLLLLLLSLP HTQAAFPQDP LPLLISDLQG TSPLSWFRGL EDDAVAAELG 70 80 90 100 110 120 LDFQRFLTLN RTLLVAARDH VFSFDLQAEE EGEGLVPNKY LTWRSQDVEN CAVRGKLTDE 130 140 150 160 170 180 CYNYIRVLVP WDSQTLLACG TNSFSPVCRS YGITSLQQEG EELSGQARCP FDATQSNVAI 190 200 210 220 230 240 FAEGSLYSAT AADFQASDAV VYRSLGPQPP LRSAKYDSKW LREPHFVQAL EHGDHVYFFF 250 260 270 280 290 300 REVSVEDARL GRVQFSRVAR VCKRDMGGSP RALDRHWTSF LKLRLNCSVP GDSTFYFDVL 310 320 330 340 350 360 QALTGPVNLH GRSALFGVFT TQTNSIPGSA VCAFYLDEIE RGFEGKFKEQ RSLDGAWTPV 370 380 390 400 410 420 SEDRVPSPRP GSCAGVGGAA LFSSSRDLPD DVLTFIKAHP LLDPAVPPVT HQPLLTLTSR 430 440 450 460 470 480 ALLTQVAVDG MAGPHSNITV MFLGSNDGTV LKVLTPGGRS GGPEPILLEE IDAYSPARCS 490 500 510 520 530 540 GKRTAQTARR IIGLELDTEG HRLFVAFSGC IVYLPLSRCA RHGACQRSCL ASQDPYCGWH 550 560 570 580 590 600 SSRGCVDIRG SGGTDVDQAG NQESMEHGDC QDGATGSQSG PGDSAYGVRR DLPPASASRS 610 620 630 640 650 660 VPIPLLLASV AAAFALGASV SGLLVSCACR RAHRRRGKDI ETPGLPRPLS LRSLARLHGG 670 680 690 700 710 720 GPEPPPPSKD GDAVQTPQLY TTFLPPPEGV PPPELACLPT PESTPELPVK HLRAAGDPWE 730 740 750 760 770 780 WNQNRNNAKE GPGRSRGGHA AGGPAPRVLV RPPPPGCPGQ AVEVTTLEEL LRYLHGPQPP 790 800 810 820 830 840 RKGAEPPAPL TSRALPPEPA PALLGGPSPR PHECASPLRL DVPPEGRCAS APARPALSAP 850 860 870 880 890 900 APRLGVGGGR RLPFSGHRAP PALLTRVPSG GPSRYSGGPG KHLLYLGRPE GYRGRALKRV 910 920 DVEKPQLSLK PPLVGPSSRQ AVPNGGRFNF

CATM prediction

The sequence of SEM6C_HUMAN returned 5 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
          610       620      
   +    |    +    |    +   		 (Å) (°) (Å) (°)  
Model 1 AIALLLASVAAAFALGASVSGLLVSCA 7.1 -38.3° 5.7 34.2 -22.6
Model 2 AIALLLASVAAAFALGASVSGLLVSCA 6.9 -52.2° 1.3 56.7 -21.0
Model 3 AIALLLASVAAAFALGASVSGLLVSCA 7.2 -42.7° 3.5 49.9 -15.2
Model 4 AIALLLASVAAAFALGASVSGLLVSCA 6.8 -49.9° 2.9 47.0 -12.6
Model 5 AIALLLASVAAAFALGASVSGLLVSCA 7.2 -50.9° 0.2 44.8 -4.9
Prolines* PIPLLLASVAAAFALGASVSGLLVSCA          

* 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, 619, SER, HA A, 618, ALA, O 2.99Å
B, 622, GLY, HA1 A, 619, SER, O 3.31Å
A, 619, SER, HA B, 618, ALA, O 2.99Å
A, 622, GLY, HA1 B, 619, SER, O 3.31Å