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Contact Molecules for Homologous Proteins

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PID QueryLength Homolgous Sequence in PDB UniProt Query TITLE
2752856 925 110 O95786(RIGI_HUMAN) RecName: Full=Antiviral innate immune response receptor RIG-I ;AltName: Full=ATP-dependent RNA helicase DDX58 ; EC=3.6.4.13 ;AltName: Full=DEAD box protein 58;AltName: Full=RIG-I-like receptor 1; Short=RLR-1;AltName: Full=RNA sensor RIG-I ;AltName: Full=Retinoic acid-inducible gene 1 protein; Short=RIG-1;AltName: Full=Retinoic acid-inducible gene I protein; Short=RIG-I;
QUERYSEQ 
MTTEQRRSLQAFQDYIRKTLDPTYILSYMAPWFREEEVQYIQAEKNNKGPMEAATLFLKFLLELQEEGWFRGFLDALDHAGYSGLYEAIESWDFKKIEKLEEYRLLLKRLQPEFKTRIIPTDIISDLSECLINQECEEILQICSTKGMMA
GAEKLVECLLRSDKENWPKTLKLALEKERNKFSELWIVEKGIKDVETEDLEDKMETSDIQIFYQEDPECQNLSENSCPPSEVSDTNLYSPFKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQI
PVYEQQKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLSIFTLMIFDECHNTSKQHPYNMIMFNYLDQKLGGSSGPLPQVIGLTASVGVGDAKNTDEALDYICKLCASLDASVIATVKHNLEELE
QVVYKPQKFFRKVESRISDKFKYIIAQLMRDTESLAKRICKDLENLSQIQNREFGTQKYEQWIVTVQKACMVFQMPDKDEESRICKALFLYTSHLRKYNDALIISEHARMKDALDYLKDFFSNVRAAGFDEIEQDLTQRFEEKLQELESV
SRDPSNENPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARGSKCFLLTSNAGVIEK
EQINMYKEKMMNDSILRLQTWDEAVFREKILHIQTHEKFIRDSQEKPKPVPDKENKKLLCRKCKALACYTADVRVIEECHYTVLGDAFKECFVSRPHPKPKQFSSFEKRAKIFCARQNCSHDWGIHVKYKTFEIPVIKIESFVVEDIATG
VQTLYSKWKDFHFEKIPFDPAEMSK
[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 616298 Singleton-Merten syndrome 2 (SGMRT2) LB/B (likely benign or benign)
Number of sites 925 2 2
Buired or ExposedBuried 46.6 (%) [410] 100.0 (%) [2] 0.0 (%) [0]
Exposed 53.4 (%) [470] 0.0 (%) [0] 100.0 (%) [2]
Ave relacc 29.1 % 6.0 % 42.3 %
SD relacc 26.57 % 6.03 % 18.20 %
Contact Molhetero 8.9 (%) [82] 0.0 (%) [0] 50.0 (%) [1]
nucleotide 9.8 (%) [91] 0.0 (%) [0] 0.0 (%) [0]
compound 3.4 (%) [31] 50.0 (%) [1] 0.0 (%) [0]
metal 4.5 (%) [42] 50.0 (%) [1] 0.0 (%) [0]
otherpoly 0.0 (%) [0] 0.0 (%) [0] 0.0 (%) [0]
homo 24.0 (%) [222] 50.0 (%) [1] 50.0 (%) [1]
precipitant 9.9 (%) [92] 100.0 (%) [2] 0.0 (%) [0]
Number of variants 4 2 2
N_Freq(AAvariant)==0 % 100.0 % [2] 50.0 % [1]
N_Freq(AAvariant)>0 % 0.0 % [0] 50.0 % [1]
Ave Freq(AAvariant) 0.0 % 5.0 %
SD Freq(AAvariant) 0.00 % 5.00 %

Site Table for OMIM:616298 Singleton-Merten syndrome 2 (SGMRT2) [2 variants]

2 sites 268,373
  [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
268CSb 0.0 8dvs_A compound ADP ANP precipitant 
SLATCIM
 BINDING /ligand="ATP" /ligand_id="ChEBI:CHEBI:30616" DOMAIN /note="Helicase ATP-binding" REGION /note="Interaction with ZC3HAV1" BINDING /ligand="ATP" /ligand_id="ChEBI:CHEBI:30616" DOMAIN /note="Helicase ATP-binding" REGION /note="Interaction with ZC3HAV1" C->F:(0.0 %):LP/P Singleton-Merten syndrome 2 (SGMRT2) dbSNP:rs7862048 [MIM:616298]
373ETb 12.1 8dvs_A metal MG homo precipitant 
E
 MOTIF /note="DECH box" MUTAGEN /note="DECH->AACA: Loss of dsRNA-induced ATPase activity. No effect on ds-RNA binding. Changed RIG-I signaling pathway." DOMAIN /note="Helicase ATP-binding" REGION /note="Interaction with ZC3HAV1" MOTIF /note="DECH box" MUTAGEN /note="DECH->AACA: Loss of dsRNA-induced ATPase activity. No effect on ds-RNA binding. Changed RIG-I signaling pathway." DOMAIN /note="Helicase ATP-binding" REGION /note="Interaction with ZC3HAV1" E->A:(0.0 %):LP/P Singleton-Merten syndrome 2 (SGMRT2) dbSNP:rs7862048 [MIM:616298]

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

2 sites 7,580
  [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
7RHe 60.5 4nqk_D hetero UBC_HUMAN RL40_HUMAN homo 
RQ
 DOMAIN /note="CARD 1" DOMAIN /note="CARD 1" R->C:(0.0 %):LB/B - dbSNP:rs1081383
580D e 24.1 8dvs_A 
DEAGKLQSTFRMNVHIPY
 REGION /note="Interaction with ZC3HAV1" REGION /note="Interaction with ZC3HAV1" D->E:(10.0 %):LB/B - dbSNP:rs1721728