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YRDC Gene

protein-coding GIFtS: 49

GC01M038041

yrdC domain containing (E. coli)
(Previous name: yrdC domain containing (E.coli) )
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database

(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc , and/or ⁷Ensembl, ⁸miRBase)
About This Section

Aliases
DRIP3 ^², ³
FLJ23476 ^¹, ²
FLJ26165 ^²
IRIP ^¹, ², ³, ⁵
OTTHUMP00000004511 ^²
RP11-109P14.4 ^²
SUA5 ^¹, ²
hIRIP ^³

Descriptions
Dopamine receptor-interacting protein 3 ^³
Ischemia/reperfusion-inducible protein homolog ^³
dopamine receptor interacting protein 3 ^²
ischemia/reperfusion inducible protein ^²
yrdC domain containing (E. coli) ^²
yrdC domain containing (E.coli) ^¹

External Ids
HGNC: 28905¹
Entrez Gene: 79693²
UniProtKB: Q86U90³
Ensembl: ENSG00000196449⁷

Search outside databases for aliases for YRDC gene

Previous GC identifer: GC01M037938

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

UniProtKB/Swiss-Prot: YRDC_HUMAN, Q86U90

Function: May regulate the activity of some transporters (By similarity)

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:

UCSC Golden Path with GeneCards custom track

Transcription factor binding sites upstream to the YRDC gene

Entrez Gene cytogenetic band: 1p34.3 Ensembl cytogenetic band: 1p34.3 HGNC cytogenetic band: 1p34.3

YRDC Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 1 GeneLoc Exon Structure

GeneLoc location for GC01M038041: (about GC identifiers)

Start:	38,041,201 bp from pter
End:	38,046,452 bp from pter
Size:	5,252 bases
Orientation:	minus strand

RefSeq DNA sequence:

NC_000001.9 NT_032977.8

(According to ¹UniProtKB, and/or Ensembl, Phosphorylation sites according to ²Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
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UniProtKB/Swiss-Prot: YRDC_HUMAN, Q86U90 (See protein sequence)

Recommended Name: YrdC domain-containing protein, mitochondrial precursor

Size: 279 amino acids; 29328 Da

Subunit: Interacts with RSC1A1 (By similarity)

Subcellular location: Mitochondrion (Potential). Membrane; Peripheral membrane protein.

Note=Predominantly localized in the plasma membrane (By similarity)

Secondary accessions: Q4W4X8 Q6NVW3 Q7L4E4 Q7Z2I4 Q9H5F8

Post-translational modifications:

View phosphorylation sites using PhosphoSite²

REFSEQ proteins: NP_078916.3

ENSEMBL proteins:

ENSP00000362135

Human Recombinant Proteins

	Browse Drug Discovery Central at Invitrogen for human recombinant proteins
	Browse Purified and Recombinant Proteins at Millipore
	Browse Human Recombinant Proteins at Sigma-Aldrich
	Browse R&D Systems for human recombinant proteins
	Browse recombinant and purified proteins available from Enzo Life Sciences
	Browse Abcam for Recombinant Proteins
	Human Recombinant Proteins from Abnova (YRDC)

Browse Origene for full length recombinant human proteins expressed in human HEK293 cells

2 Gene Ontology (GO) cellular component terms (links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005739	mitochondrion	IEA	--
GO:0016020	membrane	IEA	--

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Antibodies for YRDC:

	Browse Antibodies Central at Invitrogen
	Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
	Browse Antibodies at Sigma-Aldrich
	Browse R&D Systems for Antibodies
	Search for antibodies at Abcam and the World's Antibody Gateway (free search engine of over 150 antibody companies)
	Browse Abnova for Monoclonal and Polyclonal Antibodies
	Search Novus for antibodies for YRDC

Assays for YRDC:

	Browse Invitrogen for biochemical assays
	Browse Kits and Assays available from Millipore
	Browse R&D Systems for biochemical assays
	Browse biochemical assays available from Enzo Life Sciences

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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Graphical View of Domain Structure for InterPro Entry Q86U90

ProtoNet protein and cluster: Q86U90

2 Blocks protein families:

IPB004388 Sua5/YciO/YrdC/YwlC protein family

IPB006070 SUA5/yciO/yrdC

UniProtKB/Swiss-Prot: YRDC_HUMAN, Q86U90

Similarity: Belongs to the SUA5 family

Similarity: Contains 1 YrdC-like domain

(According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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Inhib. RNA:		Invitrogen RNAi Products for gene knock-down (YRDC)
		Browse for Gene Knock-down Tools from Millipore
		Abnova Chimera RNAi Products for Gene knock-down (YRDC)

OriGene 29mer shRNA kit in GFP-retroviral vector: NM_024640

Applied Biosystems Silencer® siRNAs for YRDC

Sigma-Aldrich siRNA for YRDC

Sigma-Aldrich shRNA for YRDC

Explore Sigma-Aldrich super-pooled esiRNAs

Clones:		Browse Clone Ranger at Invitrogen for clones
		Browse Clones for the Expression of Recombinant Proteins Available from Millipore

OriGene GFP tagged cDNA clone in CMV expression vector: NM_024640
Myc/DDK tagged cDNA clone in CMV expression vector: NM_024640
untagged cDNA clones in CMV expression vector (see all 2): NM_024640

Primers:

Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers

OriGene genome-wide validated SYBR primer pairs: NM_024640

UniProtKB/Swiss-Prot: YRDC_HUMAN, Q86U90

Function: May regulate the activity of some transporters (By similarity)

(Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to ¹UniProtKB, ²MINT, and/or ³STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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3 Interacting proteins for YRDC (ENSP00000362135³) via UniProtKB, MINT, and/or STRING

Interactant		Interaction Details
GeneCard	External ID(s)	Interaction Details
HEMK1	ENSP00000232854³	STRING (score=.902)
RBBP9	ENSP00000336866³	STRING (score=.801)
SHMT2	ENSP00000333667³	STRING (score=.745)

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(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section

Browse drugs & compounds from Enzo Life Sciences

Browse Small Molecules at Sigma-Aldrich

Browse Tocris compounds for YRDC

(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Invitrogen, Millipore, and/or Abnova,
siRNAs from Applied Biosystems, Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene,
Tagged/untagged cDNA clones from OriGene,
Expression Assays from Applied Biosystems)
About This Section

Inhib. RNA:		Invitrogen RNAi Products for gene knock-down (YRDC)
		Browse for Gene Knock-down Tools from Millipore
		Abnova Chimera RNAi Products for Gene knock-down (YRDC)

OriGene 29mer shRNA kit in GFP-retroviral vector: NM_024640

Sigma-Aldrich siRNA for YRDC

Sigma-Aldrich shRNA for YRDC

Explore Sigma-Aldrich super-pooled esiRNAs

Applied Biosystems Silencer® siRNAs:

NM_024640

REFSEQ mRNAs for YRDC gene:

NM_024640.3

Applied Biosystems TaqMan ® Gene Expression Assays:

NM_024640

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_024640
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_024640
                                 untagged cDNA clones in CMV expression vector (see all 2): NM_024640

Additional cDNA sequence:

AF250397.1 AK027129.1 AK090770.1 AK129676.1 AY172561.1 AY286019.1 AY286020.1 BC008984.1

BC067857.1 BC068057.1 BC080186.1 CR593798.1 CR606796.1 CR612568.1 CR615600.1 CR625266.1

10 DOTS entries:

DT.91922876 DT.91721077 DT.100757666 DT.100010010 DT.100701535 DT.95151122 DT.95151123 DT.100805326

DT.101960885 DT.91760838

24/144 AceView cDNA sequences (see all 144 ):

AL514604 BG116662 AI277012 CR615600 F09604 CR593798 BC080186 AA917670

CR606796 BU849788 AI304827 BM127051 AY172561 AV714679 AW573003 BC068057

CR625266 AK027129 BX339259 CR612568 F09318 BX118773 AY286020 BU194354

highest scoring ESTs for YRDC:

AA708718 AY172561 AY286019 AY286020 BC008984 BC067857 BC068057 BF794170 BF794255 BI465038

Unigene Cluster for YRDC:

YrdC domain containing (E. coli)

Hs.301564 [show with all ESTs]

Unigene Representative Sequence: AK090770

GeneLoc Exon Structure

1 Ensembl transcript including schematic representation:

ENST00000373044

(Experimental results according to ¹GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to ²GeneAnnot , ³GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Expression Assays from Applied Biosystems )
About This Section

YRDC expression in normal and diseased human tissues

Applied Biosystems TaqMan ® Gene Expression Assays for YRDC

¹ / ² / ³

6 probe-sets matching YRDC gene

Affymetrix probe-set	Array	# genes	Sensitivity	Specificity	Correlation	Length	Gb_Accession	Consensus	Uniqueness	Score	Rank
Affymetrix probe-set	Array	GeneAnnot data			GeneNote data		GeneTide data
64398_at²^{, 3}	U95-C	1	1.00	1.00	0.81	0.79	W26975	0.60	1.00	0.82	1
64399_at²^{, 3}	U95-C	1	0.56	1.00	0.93	1.21	AA708718	0.80	1.00	0.91	1
218647_s_at²^{, 3}	U133-A	1	1.00	1.00	--	--	NM_024640	0.60	1.00	0.82	1
222703_s_at²^{, 3}	U133-B	2	1.00	0.91	--	--	BE464161	0.60	1.00	0.82	1
218647_s_at²	U133Plus2	1	1.00	1.00	--	--	--	--	--	--	--
222703_s_at²	U133Plus2	2	1.00	0.91	--	--	--	--	--	--	--

GeneDecks YRDC for binary patterns associated with the probe-sets selected above

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Data from

(Publications) and GNF BioGPS
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CGAP SAGE TAG: TATTGTAATT

SOURCE GeneReport for Unigene cluster: Hs.301564
UniProtKB/Swiss-Prot: YRDC_HUMAN, Q86U90
Tissue specificity: Ubiquitously expressed

(Orthologs according to ^1,2HomoloGene (²older version, for species not in ¹newer version), ³euGenes, ⁴SGD and/or ⁵MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section

Orthologs for YRDC gene from 5/13 species (see all 13 )

Organism	Gene	Locus	Description	Human Similarity	NCBI accessions
dog (Canis familiaris)	YRDC¹	--	yrdC domain containing (E. coli)	86.49(n) 87.73(a)	482469 XM_539586.2 XP_539586.2
chimpanzee (Pan troglodytes)	YRDC¹	--	yrdC domain containing (E. coli)	99.4(n) 99.64(a)	456764 XM_513328.2 XP_513328.1
cow (Bos taurus)	YRDC¹	--	yrdC domain containing (E. coli)	89.13(n) 90.84(a)	512062 NM_001075550.1 NP_001069018.1
rat (Rattus norvegicus)	Yrdc¹	--	yrdC domain containing (E.coli)	85.2(n) 87(a)	319113 NM_175604.2 NP_783194.2
mouse (Mus musculus)	Yrdc^{1, 5}	4⁵	yrdC domain containing (E.coli)^{1, 5}	85.9(n)¹ 87.69(a)¹	230734¹ NM_153566.1¹ NP_705794.1¹ AA655542⁵ AK153627⁵ (see all 14)

About this table Species with no ortholog for YRDC

ENSEMBL Gene Tree for YRDC

(Paralogs according to ¹HomoloGene
and ²Ensembl, Pseudogenes according to ³Pseudogene.org)
About This Section

(According to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
About This Section

10/19 NCBI SNPs in YRDC are shown (see all 19 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay) (see all 17)

AB	SNP ID	Valid	Chr 1 pos	Sequence	Recs	AA Chg	Type	More	Recs	Allele freq	Pop	Total sample	More
AB	Genomic Data				Transcription Data				Allele Frequencies
				--	--	--		--	--				--
	rs3845498^1,2	C,F,H	38040984(-)	`TCTGTA/GAATTA`	1	--	ng5¹		9		EA NA EU WA MN	808
--	rs7686^1,2	F	38041505(-)	`CTCGCG/AGGGAG`	1	--	ut3¹ ese³		1		MN	184
--	rs10015^1,2	C	38041242(-)	`TTTTTC/TTTTAA`	1	--	ut3¹		0	--	--	--	--
--	rs12395^1,2	F	38041423(-)	`GGGAAA/GTAAAC`	1	--	ut3¹		2		MN	372
	rs3795494^1,2	C,F,H	38044082(+)	`CCATCA/GTATCT`	1	--	int¹		9		EA EU WA	2314
--	rs540924^1,2	C,F	38043777(-)	`GTCTTC/TCTTGG`	1	--	int¹		5		EA NA MN	436
--	rs1047804^1,2	--	38041382(-)	`TTCttA/Ttttat`	1	--	ut3¹		0	--	--	--	--
--	rs71671712^1,2	--	38041225(+)	`TTAAT-/AGCAGCAT`	1	--	ut3¹		0	--	--	--	--
--	rs1047801^1,2	--	38041385(-)	`tttttC/Tttatt`	1	--	ut3¹		0	--	--	--	--
--	rs61778075^1,2	--	38042589(+)	`CTTTCC/TGGGCA`	1	G/R	mis¹		0	--	--	--	--

About this table

HapMap Linkage Disequilibrium images for YRDC (up to first 250kb)

(in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
About This Section

OMIM: 612276

(Possibly Related Articles in Doctor's Guide)
About This Section

(in PubMed. Associations of this gene to articles via ¹Novoseek, ²HGNC, ³Entrez Gene, ⁴UniProtKB/Swiss-Prot, ⁵UniProtKB/TrEMBL, ⁶GAD, and/or ⁷PharmGKB)
About This Section

10/12 PubMed articles for YRDC gene (see all 12 ):

Isolation and identification of a novel cDNA that encodes human yrdC protein. (PubMed id 12730717)^{2, 3, 4} Chen J.... Mao Y. (2003)
IRIP, a new ischemia/reperfusion-inducible protein that participates in the regulation of transporter activity. (PubMed id 16024787)^{3, 4} Jiang W.... Mirochnitchenko O. (2005)
Kinase-selective enrichment enables quantitative phosphoproteomics of the kinome across the cell cycle. (PubMed id 18691976)⁴ Daub H.... Mann M. (2008)
A quantitative atlas of mitotic phosphorylation. (PubMed id 18669648)⁴ Dephoure N.... Gygi S.P. (2008)
Improved titanium dioxide enrichment of phosphopeptides from HeLa cells and high confident phosphopeptide identification by cross- validation of MS/MS and MS/MS/MS Spectra. (PubMed id 17924679)⁴ Yu L.-R.... Veenstra T.D. (2007)
Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)⁴ Olsen J.V....Mann M. (2006)
A probability-based approach for high-throughput protein phosphorylation analysis and site localization. (PubMed id 16964243)⁴ Beausoleil S.A.... Gygi S.P. (2006)
The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)⁴ Gregory S.G.... Bentley D.R. (2006)
The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)⁴ Gerhard D.S....Malek J. (2004)
Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)⁴ Ota T....Sugano S. (2004)

(in PubMed, OMIM, and NCBI Bookshelf)
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		AND	OR
Aliases
Free Text

Query String		PubMed OMIM NCBI Bookshelf
	(Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
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Entrez Gene: 79693	HGNC: 28905	AceView: FLJ23476	Ensembl:ENSG00000196449	euGenes: HUgn79693
ECgene: YRDC	H-InvDB: YRDC

(According to HUGE)
About This Section

(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section

Licensable Technologies for YRDC
(Available from WIS Yeda, Salk, Tufts)

About This Section

(Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
Enzo Life Sciences, and/or Tocris Bioscience)
About This Section

Products for YRDC:

TaqMan ® Gene Expression Assays

TaqMan ® Genotyping Assays

Free SNP selection tool

Invitrogen iPath Pathways	Invitrogen BLOCK-iT™ RNAi
Invitrogen Antibodies	Invitrogen Assays
Invitrogen Clones	Invitrogen Q-PCR Products
Invitrogen Human Recombinant Kinases	Invitrogen Custom Antibody and Peptide Service
Invitrogen Proteins / Assays / Screening Services	Search Invitrogen catalog for YRDC-related products

	Millipore Custom Antibody & Bulk Services
	Millipore Preclinical / Clinical Development Services
	Millipore Immunoassay Services
	Millipore Target Screening & Profiling Services

	Predesigned and custom siRNAs for YRDC		Browse antibodies at Sigma-Aldrich
	Explore super-pooled esiRNAs		Browse proteins at Sigma-Aldrich
	Lentivirus-delivered shRNAs for YRDC		Browse small molecules at Sigma-Aldrich
	"Your Favorite Gene" Pathways		feedback

	Antibodies		Primer Pairs
	Cell Culture Products		ELISAs
	Flow Cytometry Kits		Protease Activity Assays & Reagents
	Cell Selection/Detection Kits & Reagents		ELISA/Assay Development Kits & Reagents
	Multiplex/Array Assay Kits & Reagents		ELISpot Kits & Development Modules
	Recombinant & Natural Proteins

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YRDC Gene

protein-coding GIFtS: 49

Aliases &
Descriptions
for YRDC

Summaries
for YRDC

Genomic Location
for YRDC

Proteins
for YRDC

Protein Domains/
Families
for YRDC

Gene Function
for YRDC

Pathways & Interactions
for YRDC

Drugs & Compounds
for YRDC

Transcripts
for YRDC

Expression
for YRDC

Orthologs
for YRDC

Paralogs
for YRDC

SNPs/Variants
for YRDC

Disorders & Mutations
for YRDC

Medical News
for YRDC

Publications
for YRDC

Search for YRDC

Genome Databases showing YRDC

Other Databases showing YRDC

Specialized Databases showing YRDC

Licensable Technologies
for YRDC

Services
for YRDC

Gene Index: 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

YRDC Gene

protein-coding GIFtS: 49

Aliases & Descriptionsfor YRDC

Summariesfor YRDC

Genomic Locationfor YRDC

Proteinsfor YRDC

Protein Domains/Familiesfor YRDC

Gene Functionfor YRDC

Pathways & Interactionsfor YRDC

Drugs & Compoundsfor YRDC

Transcriptsfor YRDC

Expression for YRDC

Orthologsfor YRDC

Paralogsfor YRDC

SNPs/Variantsfor YRDC

Disorders & Mutationsfor YRDC

Medical Newsfor YRDC

Publicationsfor YRDC

Search for YRDC

Genome Databases showing YRDC

Other Databases showing YRDC

Specialized Databases showing YRDC

Licensable Technologiesfor YRDC

Servicesfor YRDC

Gene Index: 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

Aliases &
Descriptions
for YRDC

Summaries
for YRDC

Genomic Location
for YRDC

Proteins
for YRDC

Protein Domains/
Families
for YRDC

Gene Function
for YRDC

Pathways & Interactions
for YRDC

Drugs & Compounds
for YRDC

Transcripts
for YRDC

Expression
for YRDC

Orthologs
for YRDC

Paralogs
for YRDC

SNPs/Variants
for YRDC

Disorders & Mutations
for YRDC

Medical News
for YRDC

Publications
for YRDC

Licensable Technologies
for YRDC

Services
for YRDC