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mutLBSgeneDB |
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| Gene summary for PGLYRP3 |
 Gene summary |
| Basic gene Info. | Gene symbol | PGLYRP3 |
| Gene name | peptidoglycan recognition protein 3 | |
| Synonyms | PGRP-Ialpha|PGRPIA | |
| Cytomap | UCSC genome browser: 1q21 | |
| Type of gene | protein-coding | |
| RefGenes | NM_052891.1, | |
| Description | PGLYRPIalphaPGRP-I-alphapeptidoglycan recognition protein I alphapeptidoglycan recognition protein I-alphapeptidoglycan recognition protein intermediate alphapeptidoglycan recognition protein-I-alpha | |
| Modification date | 20141207 | |
| dbXrefs | MIM : 608197 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000159527 | ||
| HPRD : 16297 | ||
| Vega : OTTHUMG00000014044 | ||
| Protein | UniProt: Q96LB9 go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_PGLYRP3 | |
| BioGPS: 114771 | ||
| Pathway | NCI Pathway Interaction Database: PGLYRP3 | |
| KEGG: PGLYRP3 | ||
| REACTOME: PGLYRP3 | ||
| Pathway Commons: PGLYRP3 | ||
| Context | iHOP: PGLYRP3 | |
| ligand binding site mutation search in PubMed: PGLYRP3 | ||
| UCL Cancer Institute: PGLYRP3 | ||
| Assigned class in mutLBSgeneDB | C: This gene just belongs to mutLBSgenes. | |
| Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez |
| GO ID | GO Term | PubMed ID | GO:0002221 | pattern recognition receptor signaling pathway | 11461926 | GO:0016045 | detection of bacterium | 11461926 | GO:0050830 | defense response to Gram-positive bacterium | 11461926 |
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| Ligand binding site mutations for PGLYRP3 |
| Cancer type specific mutLBS sorted by frequency |
| LBS | AAchange of nsSNV | Cancer type | # samples | A210 | A210T | BRCA | 1 | Q327 | G326V | BRCA | 1 | F230 | S229P | COAD | 1 | I207 | I207T | KIRC | 1 | R235 | R235L | LUAD | 1 | V320,I322 | N321K | LUAD | 1 | F230 | S229Y | OV | 1 | F237 | C238F | PRAD | 1 | S324 | P325S | SKCM | 1 | H264 | H264Y | SKCM | 1 | H316 | G315S | SKCM | 1 | A210 | A210D | SKCM | 1 | R235 | R235W | STAD | 1 | H316 | G315D | STAD | 1 |
| cf) Cancer type abbreviation. BLCA: Bladder urothelial carcinoma, BRCA: Breast invasive carcinoma, CESC: Cervical squamous cell carcinoma and endocervical adenocarcinoma, COAD: Colon adenocarcinoma, GBM: Glioblastoma multiforme, LGG: Brain lower grade glioma, HNSC: Head and neck squamous cell carcinoma, KICH: Kidney chromophobe, KIRC: Kidney renal clear cell carcinoma, KIRP: Kidney renal papillary cell carcinoma, LAML: Acute myeloid leukemia, LUAD: Lung adenocarcinoma, LUSC: Lung squamous cell carcinoma, OV: Ovarian serous cystadenocarcinoma, PAAD: Pancreatic adenocarcinoma, PRAD: Prostate adenocarcinoma, SKCM: Skin cutaneous melanoma, STAD: Stomach adenocarcinoma, THCA: Thyroid carcinoma, UCEC: Uterine corpus endometrial carcinoma. |
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| Protein structure related information for PGLYRP3 |
| Relative protein structure stability change (ΔΔE) using Mupro 1.1 Mupro score denotes assessment of the effect of mutations on thermodynamic stability. (ΔΔE<0: mutation decreases stability, ΔΔE>0: mutation increases stability) |
 : nsSNV at non-LBS : nsSNV at LBS |
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| nsSNVs sorted by the relative stability change of protein structure by each mutation Blue: mutations of positive stability change. and red : the most recurrent mutation for this gene. |
| LBS | AAchange of nsSNV | Relative stability change | H264 | H264Y | 0.13487347 | V320 | N321K | 0.050583949 | I322 | N321K | 0.050583949 | I207 | I207T | -1.7458347 | H316 | G315S | -1.1809845 | H316 | G315D | -1.1391297 | F237 | C238F | -0.9864054 | R235 | R235W | -0.89685866 | F230 | S229P | -0.75182845 | F230 | S229Y | -0.64074435 | R235 | R235L | -0.60568161 | A210 | A210D | -0.52372537 | S324 | P325S | -0.40832214 | A210 | A210T | -0.36248791 | Q327 | G326V | -0.18652722 |
| (MuPro1.1: Jianlin Cheng et al., Prediction of Protein Stability Changes for Single-Site Mutations Using Support Vector Machines, PROTEINS: Structure, Function, and Bioinformatics. 2006, 62:1125-1132) |
| Structure image for PGLYRP3 from PDB |
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| Differential gene expression and gene-gene network for PGLYRP3 |
| Differential gene expression between mutated and non-mutated LBS samples in all 16 major cancer types |
| Differential co-expressed gene network based on protein-protein interaction data (CePIN) |
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| Phenotype information for PGLYRP3 |
| Gene level disease information (DisGeNet) |
| Disease ID | Disease name | # PubMed | Association type |
| Mutation level pathogenic information (ClinVar annotation) |
| Allele ID | AA change | Clinical significance | Origin | Phenotype IDs |
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| Pharmacological information for PGLYRP3 |
| Gene-centered drug-gene interaction network |
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| Drug information targeting mutLBSgene (Approved drugs only) |
| Drug status | DrugBank ID | Name | Type | Drug structure |
| Experimental | DB04736 | 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE(BETA1-4)-2-ACETAMIDO-1,6-ANHYDRO-3-O-[(R)-1-CARBOXYETHYL]-2-DEOXY-BETA-D-GLUCOPYRANOSE-L-ALANYL-GAMMA-D-GLUTAMYL-MESO-DIAMINOPIMELYL-D-ALANINE | Small molecule |  |
| Gene-centered ligand-gene interaction network |
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| Ligands binding to mutated ligand binding site of PGLYRP3 go to BioLip |
| Ligand ID | Ligand short name | Ligand long name | PDB ID | PDB name | mutLBS | III | Peptide ligand (AMU,ALA,GLU,LYS,ALA,ALA,NH2) | 2aph | B | I207 A210 F230 R235 F237 H264 V320 I322 S324 | III | Peptide ligand (AMU,ALA,GLU,LYS,ALA,ALA,NH2) | 2aph | A | I207 A210 R235 F237 H264 H316 V320 S324 | III | Peptide ligand (AMU,ALA,GLU,LYS,NH2) | 1twq | A | I207 R235 F237 H264 H316 I322 S324 | NA | SODIUM(1+) | 1sk4 | A | V320 I322 S324 Q327 |
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| Conservation information for LBS of PGLYRP3 |
| Multiple alignments for Q96LB9 in multiple species |
| LBS | AA sequence | # species | Species | A210 | IIIHTAGTSCT | 1 | Homo sapiens | A210 | RFVATNTPSCF | 1 | Drosophila melanogaster | A210 | IIIHTAGKSCN | 1 | Mus musculus | D318 | LMGHSDVVNIL | 1 | Homo sapiens | D318 | LIDDLEKS--- | 1 | Drosophila melanogaster | D318 | LMGHSDVSNIL | 1 | Mus musculus | F230 | RNIQSFHMDTR | 1 | Homo sapiens | F230 | RLLQNWHIESN | 1 | Drosophila melanogaster | F230 | RDTQSFHIDNQ | 1 | Mus musculus | F237 | MDTRNFCDIGY | 1 | Homo sapiens | F237 | IESNGYKDINY | 1 | Drosophila melanogaster | F237 | IDNQDFCDIAY | 1 | Mus musculus | G267 | GSHTYGFNDIA | 1 | Homo sapiens | G267 | CEPPKDADELV | 1 | Drosophila melanogaster | G267 | GSHTYGYNDIA | 1 | Mus musculus | H208 | YVIIIHTAGTS | 1 | Homo sapiens | H208 | SVRFVATNTPS | 1 | Drosophila melanogaster | H208 | FVIIIHTAGKS | 1 | Mus musculus | H231 | NIQSFHMDTRN | 1 | Homo sapiens | H231 | LLQNWHIESNG | 1 | Drosophila melanogaster | H231 | DTQSFHIDNQD | 1 | Mus musculus | H264 | HIQGSHTYGFN | 1 | Homo sapiens | H264 | DHSCEPPKDAD | 1 | Drosophila melanogaster | H264 | NIEGSHTYGYN | 1 | Mus musculus | H316 | YLLMGHSDVVN | 1 | Homo sapiens | H316 | YSLIDDLEKS- | 1 | Drosophila melanogaster | H316 | YLLMGHSDVSN | 1 | Mus musculus | I207 | KYVIIIHTAGT | 1 | Homo sapiens | I207 | ESVRFVATNTP | 1 | Drosophila melanogaster | I207 | KFVIIIHTAGK | 1 | Mus musculus | I322 | SDVVNILSPGQ | 1 | Homo sapiens | I322 | LEKS------- | 1 | Drosophila melanogaster | I322 | SDVSNILSPGQ | 1 | Mus musculus | L323 | DVVNILSPGQA | 1 | Homo sapiens | L323 | EKS-------- | 1 | Drosophila melanogaster | L323 | DVSNILSPGQA | 1 | Mus musculus | N236 | HMDTRNFCDIG | 1 | Homo sapiens | N236 | HIESNGYKDIN | 1 | Drosophila melanogaster | N236 | HIDNQDFCDIA | 1 | Mus musculus | N269 | HTYGFNDIALG | 1 | Homo sapiens | N269 | PPKDADELV-- | 1 | Drosophila melanogaster | N269 | HTYGYNDIALG | 1 | Mus musculus | Q327 | ILSPGQALYNI | 2 | Homo sapiens, Mus musculus | Q327 | ----------- | 1 | Drosophila melanogaster | R235 | FHMDTRNFCDI | 1 | Homo sapiens | R235 | WHIESNGYKDI | 1 | Drosophila melanogaster | R235 | FHIDNQDFCDI | 1 | Mus musculus | S263 | WHIQGSHTYGF | 1 | Homo sapiens | S263 | WDHSCEPPKDA | 1 | Drosophila melanogaster | S263 | WNIEGSHTYGY | 1 | Mus musculus | S317 | LLMGHSDVVNI | 1 | Homo sapiens | S317 | SLIDDLEKS-- | 1 | Drosophila melanogaster | S317 | LLMGHSDVSNI | 1 | Mus musculus | S324 | VVNILSPGQAL | 1 | Homo sapiens | S324 | KS--------- | 1 | Drosophila melanogaster | S324 | VSNILSPGQAL | 1 | Mus musculus | T209 | VIIIHTAGTSC | 1 | Homo sapiens | T209 | VRFVATNTPSC | 1 | Drosophila melanogaster | T209 | VIIIHTAGKSC | 1 | Mus musculus | T265 | IQGSHTYGFND | 1 | Homo sapiens | T265 | HSCEPPKDADE | 1 | Drosophila melanogaster | T265 | IEGSHTYGYND | 1 | Mus musculus | V319 | MGHSDVVNILS | 1 | Homo sapiens | V319 | IDDLEKS---- | 1 | Drosophila melanogaster | V319 | MGHSDVSNILS | 1 | Mus musculus | V320 | GHSDVVNILSP | 1 | Homo sapiens | V320 | DDLEKS----- | 1 | Drosophila melanogaster | V320 | GHSDVSNILSP | 1 | Mus musculus | Y242 | FCDIGYHFLVG | 1 | Homo sapiens | Y242 | YKDINYNFVAA | 1 | Drosophila melanogaster | Y242 | FCDIAYHFLVG | 1 | Mus musculus | Y266 | QGSHTYGFNDI | 1 | Homo sapiens | Y266 | SCEPPKDADEL | 1 | Drosophila melanogaster | Y266 | EGSHTYGYNDI | 1 | Mus musculus |
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