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Contact Molecules for Homologous Proteins

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PID QueryLength Homolgous Sequence in PDB UniProt Query TITLE
2993159 296 26 Q99836(MYD88_HUMAN) RecName: Full=Myeloid differentiation primary response protein MyD88 ;
QUERYSEQ 
MAAGGPGAGSAAPVSSTSSLPLAALNMRVRRRLSLFLNVRTQVAADWTALAEEMDFEYLEIRQLETQADPTGRLLDAWQGRPGASVGRLLELLTKLGRDDVLLELGPSIEEDCQKYILKQQQEEAEKPLQVAAVDSSVPRTAELAGITTL
DDPLGHMPERFDAFICYCPSDIQFVQEMIRQLEQTNYRLKLCVSDRDVLPGTCVWSIASELIEKRCRRMVVVVSDDYLQSKECDFQTKFALSLSPGAHQKRLIPIKYKAMKKEFPSILRFITVCDYTNPCTKSWFWTRLAKALSLP
[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 153600 Macroglobulinemia, Waldenstrom, 1 (WM1) 612260 Immunodeficiency 68 (IMD68) US (uncertain significance)
Number of sites 296 1 2 14
Buired or ExposedBuried 42.1 (%) [107] 100.0 (%) [1] 50.0 (%) [1] 84.6 (%) [11]
Exposed 57.9 (%) [147] 0.0 (%) [0] 50.0 (%) [1] 15.4 (%) [2]
Ave relacc 33.3 % 0.0 % 18.8 % 17.0 %
SD relacc 28.58 % 0.00 % 17.14 % 19.55 %
Contact Molhetero 7.8 (%) [23] 0.0 (%) [0] 0.0 (%) [0] 21.4 (%) [3]
nucleotide 0.0 (%) [0] 0.0 (%) [0] 0.0 (%) [0] 0.0 (%) [0]
compound 0.0 (%) [0] 0.0 (%) [0] 0.0 (%) [0] 0.0 (%) [0]
metal 0.7 (%) [2] 0.0 (%) [0] 0.0 (%) [0] 0.0 (%) [0]
otherpoly 0.0 (%) [0] 0.0 (%) [0] 0.0 (%) [0] 0.0 (%) [0]
homo 17.6 (%) [52] 0.0 (%) [0] 0.0 (%) [0] 21.4 (%) [3]
precipitant 0.0 (%) [0] 0.0 (%) [0] 0.0 (%) [0] 0.0 (%) [0]
Number of variants 17 1 2 15
N_Freq(AAvariant)==0 % 100.0 % [1] 100.0 % [2] 66.7 % [10]
N_Freq(AAvariant)>0 % 0.0 % [0] 0.0 % [0] 33.3 % [5]
Ave Freq(AAvariant) 0.0 % 0.0 % 4.1 %
SD Freq(AAvariant) 0.00 % 0.00 % 9.08 %

Site Table for OMIM:153600 Macroglobulinemia, Waldenstrom, 1 (WM1) [1 variants]

1 sites 252
  [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
252LEb 0.0 2js7_A 
LITV
 DOMAIN /note="TIR" DOMAIN /note="TIR" L->P:(0.0 %):US Macroglobulinemia, Waldenstrom, 1 (WM1) dbSNP:rs3879072 [MIM:153600]

Site Table for OMIM:612260 Immunodeficiency 68 (IMD68) [2 variants]

2 sites 93,196
  [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
93LHb 1.7 6i3n_M 
L
 DOMAIN /note="Death" DOMAIN /note="Death" L->P:(0.0 %):LP/P Immunodeficiency 68 (IMD68) dbSNP:rs1378530 [MIM:612260]
196R e 36.0 2js7_A 
R
 MUTAGEN /note="R->A: Reduced interaction with TIRAP, and strongly reduced activity. Strongly reduced interaction with TIRAP; when associated with A-288." DOMAIN /note="TIR" MUTAGEN /note="R->A: Reduced interaction with TIRAP, and strongly reduced activity. Strongly reduced interaction with TIRAP; when associated with A-288." DOMAIN /note="TIR" R->C:(0.0 %):LP/P Immunodeficiency 68 (IMD68) dbSNP:rs1378530 [MIM:612260]

Site Table for OMIM:US [15 variants]

14 sites 34,39,98,136,178,204,205,206,207,209,219,230,252,281
  [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
34SHb 5.5 6i3n_M hetero IRAK4_HUMAN homo 
SGC
 S->Y:(0.0 %):US - dbSNP:rs1319438
39VSe 62.0 6i3n_M hetero IRAK4_HUMAN homo 
PV
 V->M:(0.0 %):US - dbSNP:rs7703876
98R b 17.0 6i3n_M hetero IRAK4_HUMAN homo 
R
 DOMAIN /note="Death" DOMAIN /note="Death" R->C:(0.0 %):US - dbSNP:rs199396
136S---- 
SA
 REGION /note="Intermediate domain" REGION /note="Intermediate domain" S->G:(0.0 %):US -;S->I:(0.0 %):US -
178MHb 0.0 2js7_A 
MLIT
 DOMAIN /note="TIR" DOMAIN /note="TIR" M->I:(19.0 %):US - dbSNP:rs4128511
204V b 16.0 2js7_A 
VITLMAGSDEFKNPQRY
 DOMAIN /note="TIR" DOMAIN /note="TIR" V->F:(1.0 %):US - dbSNP:rs7769954
205W b 17.5 2js7_A 
VWIFSTRQADEGKLNPY
 DOMAIN /note="TIR" DOMAIN /note="TIR" W->R:(5.0 %):US -
206S b 7.0 2js7_A 
DSEAT
 DOMAIN /note="TIR" DOMAIN /note="TIR" S->C:(0.0 %):US -
207I b 7.6 2js7_A 
INELVP
 DOMAIN /note="TIR" DOMAIN /note="TIR" I->T:(0.0 %):US -
209SGe 58.6 2js7_A 
SAQIVHLDG
 DOMAIN /note="TIR" DOMAIN /note="TIR" S->R:(0.0 %):US -
219MEb 0.0 2js7_A 
TLMVADEGIKNPRS
 DOMAIN /note="TIR" DOMAIN /note="TIR" M->T:(33.0 %):US -
230SSb 18.0 2js7_A 
SDRGN
 DOMAIN /note="TIR" DOMAIN /note="TIR" S->N:(4.0 %):US - dbSNP:rs1353791
252LEb 0.0 2js7_A 
LITV
 DOMAIN /note="TIR" DOMAIN /note="TIR" L->P:(0.0 %):US Macroglobulinemia, Waldenstrom, 1 (WM1) dbSNP:rs3879072 [MIM:153600]
281TTb 12.3 2js7_A 
TQGSLHA
 DOMAIN /note="TIR" DOMAIN /note="TIR" T->P:(0.0 %):US -