mutLBSgeneDB

mutLBSgeneDB
mutated Ligand Binding Site gene DataBase

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	Gene Summary
	Ligand Binding Site Mutation Information
	Protein Structure Related Information
	Gene Expression and Gene-Gene Network
	Phenotype Information
	Pharmacological Information
	Conservation Information for LBS

Gene summary for ORM2

Gene summary

Basic gene Info.	Gene symbol	ORM2
	Gene name	orosomucoid 2
	Synonyms	AGP-B\|AGP-B'\|AGP2
	Cytomap	UCSC genome browser: 9q32
	Type of gene	protein-coding
	RefGenes	NM_000608.2,
	Description	AGP 2OMD 2alpha-1-acid glycoprotein 2alpha-1-acid glycoprotein, type 2orosomucoid-2
	Modification date	20141207
dbXrefs	MIM : 138610
	HGNC : HGNC
	Ensembl : ENSG00000228278
	HPRD : 00725
	Vega : OTTHUMG00000021014
Protein	UniProt: P19652 go to UniProt's Cross Reference DB Table
Expression	CleanEX: HS_ORM2
	BioGPS: 5005
Pathway	NCI Pathway Interaction Database: ORM2
	KEGG: ORM2
	REACTOME: ORM2
	Pathway Commons: ORM2
Context	iHOP: ORM2
	ligand binding site mutation search in PubMed: ORM2
	UCL Cancer Institute: ORM2
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

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Ligand binding site mutations for ORM2

Cancer type specific mutLBS sorted by frequency

LBS	AAchange of nsSNV	Cancer type	# samples
S143	S143Y	COAD	1
I62	Q63H	HNSC	1
F130	M129T	UCEC	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 ORM2

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

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
S143	S143Y	0.34992108
F130	M129T	-1.4042915
I62	Q63H	-0.7845008

(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 ORM2 from PDB

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Differential gene expression and gene-gene network for ORM2

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)

* Left PPI network was created from samples with mutations in the LBS of ORM2 and the right PPI network was created from samples without mutations in the LBS of ORM2. Only genes with p-value < 0.05 are shown.
Red circle: input gene. Orange circle: LBSgene. Blue circle: other gene.

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Phenotype information for ORM2

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