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Contact Molecules for Homologous Proteins

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PID QueryLength Homolgous Sequence in PDB UniProt Query TITLE
2684896 1041 145 Q9NR97(TLR8_HUMAN) RecName: Full=Toll-like receptor 8 ;AltName: CD_antigen=CD288;Flags: Precursor;
QUERYSEQ 
MENMFLQSSMLTCIFLLISGSCELCAEENFSRSYPCDEKKQNDSVIAECSNRRLQEVPQTVGKYVTELDLSDNFITHITNESFQGLQNLTKINLNHNPNVQHQNGNPGIQSNGLNITDGAFLNLKNLRELLLEDNQLPQIPSGLPESLTE
LSLIQNNIYNITKEGISRLINLKNLYLAWNCYFNKVCEKTNIEDGVFETLTNLELLSLSFNSLSHVPPKLPSSLRKLFLSNTQIKYISEEDFKGLINLTLLDLSGNCPRCFNAPFPCVPCDGGASINIDRFAFQNLTQLRYLNLSSTSLR
KINAAWFKNMPHLKVLDLEFNYLVGEIASGAFLTMLPRLEILDLSFNYIKGSYPQHINISRNFSKLLSLRALHLRGYVFQELREDDFQPLMQLPNLSTINLGINFIKQIDFKLFQNFSNLEIIYLSENRISPLVKDTRQSYANSSSFQRH
IRKRRSTDFEFDPHSNFYHFTRPLIKPQCAAYGKALDLSLNSIFFIGPNQFENLPDIACLNLSANSNAQVLSGTEFSAIPHVKYLDLTNNRLDFDNASALTELSDLEVLDLSYNSHYFRIAGVTHHLEFIQNFTNLKVLNLSHNNIYTLT
DKYNLESKSLVELVFSGNRLDILWNDDDNRYISIFKGLKNLTRLDLSLNRLKHIPNEAFLNLPASLTELHINDNMLKFFNWTLLQQFPRLELLDLRGNKLLFLTDSLSDFTSSLRTLLLSHNRISHLPSGFLSEVSSLKHLDLSSNLLKT
INKSALETKTTTKLSMLELHGNPFECTCDIGDFRRWMDEHLNVKIPRLVDVICASPGDQRGKSIVSLELTTCVSDVTAVILFFFTFFITTMVMLAALAHHLFYWDVWFIYNVCLAKVKGYRSLSTSQTFYDAYISYDTKDASVTDWVINE
LRYHLEESRDKNVLLCLEERDWDPGLAIIDNLMQSINQSKKTVFVLTKKYAKSWNFKTAFYLALQRLMDENMDVIIFILLEPVLQHSQYLRLRQRICKSSILQWPDNPKAEGLFWQTLRNVVLTENDSRYNNMYVDSIKQY
[BLAST file for PDB] (plain) (bar) (multiple alignment) [BLAST for UniProt: (plain) (bar) (multiple alignment) (PSSM file) ]

Statistics of sites in view of Disease classification

All 301078 Immunodeficiency 98 with autoinflammation, X-linked (IMD98) LB/B (likely benign or benign)
Number of sites 1041 3 2
Buired or ExposedBuried 46.3 (%) [443] 0.0 (%) [0] 0.0 (%) [0]
Exposed 53.7 (%) [514] 100.0 (%) [3] 100.0 (%) [1]
Ave relacc 29.1 % 56.0 % 48.2 %
SD relacc 27.07 % 28.88 % 0.00 %
Contact Molhetero 1.9 (%) [20] 0.0 (%) [0] 0.0 (%) [0]
nucleotide 2.9 (%) [30] 0.0 (%) [0] 0.0 (%) [0]
compound 20.0 (%) [208] 66.7 (%) [2] 0.0 (%) [0]
metal 0.1 (%) [1] 0.0 (%) [0] 0.0 (%) [0]
otherpoly 5.8 (%) [60] 0.0 (%) [0] 0.0 (%) [0]
homo 16.8 (%) [175] 100.0 (%) [3] 0.0 (%) [0]
precipitant 18.1 (%) [188] 0.0 (%) [0] 50.0 (%) [1]
Number of variants 6 4 2
N_Freq(AAvariant)==0 % 0.0 % [0] 50.0 % [1]
N_Freq(AAvariant)>0 % 100.0 % [4] 50.0 % [1]
Ave Freq(AAvariant) 3.2 % 3.5 %
SD Freq(AAvariant) 1.64 % 3.50 %

Site Table for OMIM:301078 Immunodeficiency 98 with autoinflammation, X-linked (IMD98) [4 variants]

3 sites 432,494,572
  [n]:site number of query sequence.  [a]:amino acid of query sequence.  [s]:predicted secondary structure.
  [e]:predicted exposed/buried.  [acc]:predicted relative accesssibility(%).  [pdb]:PDB code of homologous structure.
  [contact_mols]:predicted binding molecules  [observed aa]:Observed amino acids among homologous sequences.  [feature table]:UniProt Feature Table
  [variant]:UniProt Human Variant.
n a s e acc pdb contact_mols observed aa feature table variant
432P e 20.9 4qbz_A homo 
GPSAEVTCDFHKLNQRYIW
 REPEAT /note="LRR 12" TOPO_DOM /note="Extracellular" REPEAT /note="LRR 12" TOPO_DOM /note="Extracellular" P->L:(2.0 %):LP/P Immunodeficiency 98 with autoinflammation, X-linked (IMD98) [MIM:301078]
494F e 55.5 4qbz_A compound JRI CU8 7VF 7VC 7VL DY3 EX3 QSM QLH GD0 I6A I5N I5B RQY YHG O0W homo 
STFGLREKVAINHPQDMY
 REPEAT /note="LRR 13" TOPO_DOM /note="Extracellular" REPEAT /note="LRR 13" TOPO_DOM /note="Extracellular" F->L:(6.0 %):LP/P Immunodeficiency 98 with autoinflammation, X-linked (IMD98) [MIM:301078]
572GTe 91.7 4qbz_A compound IDQ RX8 C09 L07 UPT M4D MBL GMP 9K9 U57 D80 XG1 URI HB2 M8D M0A SDL 9K3 9JR ACK 23G EWL EWU EWX EX0 ZWV QEC QCX homo 
GAESKRNPCQTVDFHILMY
 REPEAT /note="LRR 16" TOPO_DOM /note="Extracellular" REPEAT /note="LRR 16" TOPO_DOM /note="Extracellular" G->D:(2.0 %):LP/P Immunodeficiency 98 with autoinflammation, X-linked (IMD98) dbSNP:rs1385657 [MIM:301078];G->V:(3.0 %):LP/P Immunodeficiency 98 with autoinflammation, X-linked (IMD98) [MIM:301078]

Site Table for OMIM:LB/B [2 variants]

2 sites 10,715
  [n]:site number of query sequence.  [a]:amino acid of query sequence.  [s]:predicted secondary structure.
  [e]:predicted exposed/buried.  [acc]:predicted relative accesssibility(%).  [pdb]:PDB code of homologous structure.
  [contact_mols]:predicted binding molecules  [observed aa]:Observed amino acids among homologous sequences.  [feature table]:UniProt Feature Table
  [variant]:UniProt Human Variant.
n a s e acc pdb contact_mols observed aa feature table variant
10M---- 
LITQWMS
 SIGNAL SIGNAL DISORDER predicted by DISOPRED M->V:(0.0 %):LB/B - dbSNP:rs5744077
715R e 48.2 4qbz_A precipitant 
RKLQDEITFMSAGHVYNP
 REPEAT /note="LRR 22" TOPO_DOM /note="Extracellular" REPEAT /note="LRR 22" TOPO_DOM /note="Extracellular" R->Q:(7.0 %):LB/B - dbSNP:rs5744082