Integrin alpha-D

UniProt data

UniProt name: ITAD_HUMAN (Q13349)

Gene name: ITGAD

Organism: Homo sapiens (Human).

Function: Integrin alpha-D/beta-2 is a receptor for ICAM3 and VCAM1. May play a role in the atherosclerotic process such as clearing lipoproteins from plaques and in phagocytosis of blood- borne pathogens, particulate matter, and senescent erythrocytes from the blood.

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

Transmembrane domains:

  1. 1100-1120, 21 AA, Helical. {ECO:0000255}.

Sequence: 1161 AA

10 20 30 40 50 60 MTFGTVLLLS VLASYHGFNL DVEEPTIFQE DAGGFGQSVV QFGGSRLVVG APLEVVAANQ 70 80 90 100 110 120 TGRLYDCAAA TGMCQPIPLH IRPEAVNMSL GLTLAASTNG SRLLACGPTL HRVCGENSYS 130 140 150 160 170 180 KGSCLLLGSR WEIIQTVPDA TPECPHQEMD IVFLIDGSGS IDQNDFNQMK GFVQAVMGQF 190 200 210 220 230 240 EGTDTLFALM QYSNLLKIHF TFTQFRTSPS QQSLVDPIVQ LKGLTFTATG ILTVVTQLFH 250 260 270 280 290 300 HKNGARKSAK KILIVITDGQ KYKDPLEYSD VIPQAEKAGI IRYAIGVGHA FQGPTARQEL 310 320 330 340 350 360 NTISSAPPQD HVFKVDNFAA LGSIQKQLQE KIYAVEGTQS RASSSFQHEM SQEGFSTALT 370 380 390 400 410 420 MDGLFLGAVG SFSWSGGAFL YPPNMSPTFI NMSQENVDMR DSYLGYSTEL ALWKGVQNLV 430 440 450 460 470 480 LGAPRYQHTG KAVIFTQVSR QWRKKAEVTG TQIGSYFGAS LCSVDVDSDG STDLILIGAP 490 500 510 520 530 540 HYYEQTRGGQ VSVCPLPRGR VQWQCDAVLR GEQGHPWGRF GAALTVLGDV NEDKLIDVAI 550 560 570 580 590 600 GAPGEQENRG AVYLFHGASE SGISPSHSQR IASSQLSPRL QYFGQALSGG QDLTQDGLMD 610 620 630 640 650 660 LAVGARGQVL LLRSLPVLKV GVAMRFSPVE VAKAVYRCWE EKPSALEAGD ATVCLTIQKS 670 680 690 700 710 720 SLDQLGDIQS SVRFDLALDP GRLTSRAIFN ETKNPTLTRR KTLGLGIHCE TLKLLLPDCV 730 740 750 760 770 780 EDVVSPIILH LNFSLVREPI PSPQNLRPVL AVGSQDLFTA SLPFEKNCGQ DGLCEGDLGV 790 800 810 820 830 840 TLSFSGLQTL TVGSSLELNV IVTVWNAGED SYGTVVSLYY PAGLSHRRVS GAQKQPHQSA 850 860 870 880 890 900 LRLACETVPT EDEGLRSSRC SVNHPIFHEG SNGTFIVTFD VSYKATLGDR MLMRASASSE 910 920 930 940 950 960 NNKASSSKAT FQLELPVKYA VYTMISRQEE STKYFNFATS DEKKMKEAEH RYRVNNLSQR 970 980 990 1000 1010 1020 DLAISINFWV PVLLNGVAVW DVVMEAPSQS LPCVSERKPP QHSDFLTQIS RSPMLDCSIA 1030 1040 1050 1060 1070 1080 DCLQFRCDVP SFSVQEELDF TLKGNLSFGW VRETLQKKVL VVSVAEITFD TSVYSQLPGQ 1090 1100 1110 1120 1130 1140 EAFMRAQMEM VLEEDEVYNA IPIIMGSSVG ALLLLALITA TLYKLGFFKR HYKEMLEDKP 1150 1160 EDTATFSGDD FSCVAPNVPL S

CATM prediction

The sequence of ITAD_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
     1100      1110      1120
   |    +    |    +    |   		 (Å) (°) (Å) (°)  
Model 1 VYNAIAIIMGSSVGALLLLALITATLY 6.4 -49.0° 3.9 38.0 -24.0
Model 2 VYNAIAIIMGSSVGALLLLALITATLY 7.2 -42.8° 3.5 49.9 -17.0
Prolines* VYNAIPIIMGSSVGALLLLALITATLY          

* 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, 1106, GLY, HA1 A, 1103, ILE, O 3.44Å
B, 1107, SER, HA A, 1106, GLY, O 2.47Å
B, 1107, SER, HA A, 1107, SER, O 3.45Å
B, 1110, GLY, HA1 A, 1107, SER, O 2.57Å
A, 1106, GLY, HA1 B, 1103, ILE, O 3.44Å
A, 1107, SER, HA B, 1106, GLY, O 2.47Å
A, 1107, SER, HA B, 1107, SER, O 3.45Å
A, 1110, GLY, HA1 B, 1107, SER, O 2.57Å