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Standard Name	der
Gene Synonym(s)	ECK2507, b2511, JW5403, engA, yfgK^[1], yfgK
Product Desc.	50S ribosomal subunit stability factor^[2]^[3] Multicopy suppressor of ftsJ; depleted cells form filaments with defective chromosome segregation; GTPase^[4]
Product Synonyms(s)	predicted GTP-binding protein^[1], B2511^[2]^[1], Der^[2]^[1], YfgK^[2]^[1], EngA^[2]^[1] , ECK2507, engA, JW5403, yfgK, b2511
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): yfgL-der^[2]
Regulation/Activity
Quick Links
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Notes

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Der-depletion alters ribosome stability and/or biogenesis, as evidenced by polysome profiles (Bharat, 2006). Der has two tandem GTP-binding domains. der is an essential gene.^[4]

Gene

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Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name	der
Mnemonic	Double ERa-like domains
Synonyms	ECK2507, b2511, JW5403, engA, yfgK^[1], yfgK
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Notes

Location(s) and DNA Sequence

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<protect> See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain	Map location	Genome coordinates	Genome browsers	Sequence links
MG1655	56.77 minutes	MG1655: 2635378..2633906 <gbrowseImage> name=NC_000913:2633906..2635378 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
BW2952		NC_012759: 2519711..2521183 <gbrowseImage> name=NC_012759:2519711..2521183 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 2636012..2634540 <gbrowseImage> name=NC_007779:2634540..2636012 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 2727143..2725671 <gbrowseImage> name=NC_010473:2725671..2727143 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	FASTA Dump
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Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type	Strain	Genomic Location	Evidence	Reference	Notes
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Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele	Nt change(s)	AA change(s)	Phenotype: Type	Phenotype: Description	Reference	Availability	Comments
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Notes

Genetic Interactions

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Interactor	Interaction	Allele	Score(s)	Reference(s)	Accessions	Notes
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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource	Resource Type	Source	Notes/Reference
JW5403	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCGTACCTGTGGTCGCGCTTGT Primer 2:CCTTTATTTTTCTTGATGTGCTT
8E3	Kohara Phage	Genobase	PMID:3038334
2D5	Kohara Phage	Genobase	PMID:3038334
purC80::Tn10	Linked marker	CAG18470 = CGSC7413^[5]	est. P1 cotransduction: 18% ^[6]
zfh-208::Tn10	Linked marker	CAG18481 = CGSC7417^[5]	est. P1 cotransduction: 32% ^[6] Synonyms:zff-208::Tn10
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
EcoCyc	EcoCyc:G7319	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG14207	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120003891	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:946983	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3959	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0008270	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Product(s)

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Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name	Der
Synonyms	predicted GTP-binding protein^[1], B2511^[2]^[1], Der^[2]^[1], YfgK^[2]^[1], EngA^[2]^[1] , ECK2507, engA, JW5403, yfgK, b2511
Product description	50S ribosomal subunit stability factor^[2]^[3] Multicopy suppressor of ftsJ; depleted cells form filaments with defective chromosome segregation; GTPase^[4]
EC number (for enzymes)
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Notes

Function

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<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier	GO ID	GO term name	Reference	Evidence Code	with/from	Aspect	Notes	Status
	GO:0000166	nucleotide binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0547	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005525	GTP binding	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_00195	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005525	GTP binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002917	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005525	GTP binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005225	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005525	GTP binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006073	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005525	GTP binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR016484	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005525	GTP binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0342	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005622	intracellular	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002917	C	Seeded from EcoCyc (v14.0)	complete
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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type	Partner	References	Evidence
Protein	ynbC	PMID:15690043	Experiment(s):EBI-878632
Protein	rplB	PMID:15690043	Experiment(s):EBI-878632
Protein	rplD	PMID:15690043	Experiment(s):EBI-878632
Protein	rplN	PMID:15690043	Experiment(s):EBI-878632
Protein	rpsB	PMID:15690043	Experiment(s):EBI-878632
Protein	rpsC	PMID:15690043	Experiment(s):EBI-878632
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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment	Description	Evidence	Reference/Source	Notes
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Notes

Structure and Physical Properties

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<protect> Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence	at EcoCyc MRCLMIYKNE ALNMVPVVAL VGRPNVGKST LFNRLTRTRD ALVADFPGLT RDRKYGRAEI EGREFICIDT GGIDGTEDGV ETRMAEQSLL AIEEADVVLF MVDARAGLMP ADEAIAKHLR SREKPTFLVA NKTDGLDPDQ AVVDFYSLGL GEIYPIAASH GRGVLSLLEH VLLPWMEDLA PQEEVDEDAE YWAQFEAEEN GEEEEEDDFD PQSLPIKLAI VGRPNVGKST LTNRILGEER VVVYDMPGTT RDSIYIPMER DGREYVLIDT AGVRKRGKIT DAVEKFSVIK TLQAIEDANV VMLVIDAREG ISDQDLSLLG FILNSGRSLV IVVNKWDGLS QEVKEQVKET LDFRLGFIDF ARVHFISALH GSGVGNLFES VREAYDSSTR RVGTSMLTRI MTMAVEDHQP PLVRGRRVKL KYAHAGGYNP PIVVIHGNQV KDLPDSYKRY LMNYFRKSLD VMGSPIRIQF KEGENPYANK RNTLTPTQMR KRKRLMKHIK KNK
Length	503
Mol. Wt	56.617 kDa
pI	5.8 (calculated)
Extinction coefficient	38,850 - 39,100 (calc based on 15 Y, 3 W, and 2 C residues)
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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type	Residues	Description	References
Domain	14..119	PF01926 GTPase of unknown function	PMID:19920124
Domain	214..322	PF01926 GTPase of unknown function	PMID:19920124
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<motif_map/>

Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=der taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type	Source	Notes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
NCBI (Protein) (EcoliWiki Page)	GI:90111450	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:946983	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0008270	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0A6P5	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:G7319	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG14207	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:946983	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120003891	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3959	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Expression

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Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Cellular Levels

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See Help:Cellular levels

Molecule	Organism or Strain	Value	Units	Experimental Conditions	Assay used	Reference(s)
Protein	E. coli K-12 MC4100	2.73E+02	molecules/cell	Medium: median data from rich and minimal media Temperature (°C): 37 Doubling time (min): Growth Rate(min): Growth phase: other:	emPAI	PMID:18304323
Protein	E. coli K-12 MG1655	3289	molecules/cell/generation	Medium: MOPS Complete Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	PMID: 24766808
Protein	E. coli K-12 MG1655	625	molecules/cell/generation	Medium: MOPS Minimal Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	PMID: 24766808
Protein	E. coli K-12 MG1655	1538	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	PMID: 24766808
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Notes

Transcription and Transcriptional Regulation

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See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)
yfgL-der
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Figure courtesy of RegulonDB

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Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:2635358..2635398 source=MG1655 flip=1 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

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Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

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<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name	Mutation	Phenotype	Reference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type	Reference	Notes
microarray	GEO Profiles:b2511 (EcoliWiki Page)	NCBI GEO profiles for der
microarray	GenExpDB:b2511 (EcoliWiki Page)	Summary of data for der from multiple microarray studies
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Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name	Resource Type	Description	Source	Notes
	GFP Fusion	Intergenic region (2635330..2635532) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ06; Well:C11^[7]
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Notes

Accessions Related to der Expression

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
EcoCyc	EcoCyc:G7319	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3959	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b2511
EcoGene	EcoGene:EG14207	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120003891	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0008270	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Evolution

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Homologs in Other Organisms

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See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.

Organism	Homologs (Statistics)	Comments
Arabidopsis thaliana	AT3G12080 (score: 1.000; bootstrap: 80%)	From Inparanoid:20070104
Dictyostelium discoideum	DDB0205682 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	S2729	From SHIGELLACYC
E. coli O157	Z3774	From ECOO157CYC
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Do-It-Yourself Web Tools

Notes

Families

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
Pfam (EcoliWiki Page)	PF01926 GTPase of unknown function
Pfam (EcoliWiki Page)	PF01926 GTPase of unknown function
Superfamily (EcoliWiki Page)	SUPERFAMILY:52540
Panther (EcoliWiki Page)	PTHR11649:SF5
Superfamily (EcoliWiki Page)	SUPERFAMILY:82653
EcoCyc	EcoCyc:G7319	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG14207	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120003891	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3959	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0008270	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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References

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See Help:References for how to manage references in EcoliWiki.

↑ ^1.00 ^1.01 ^1.02 ^1.03 ^1.04 ^1.05 ^1.06 ^1.07 ^1.08 ^1.09 ^1.10 ^1.11 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.00 ^2.01 ^2.02 ^2.03 ^2.04 ^2.05 ^2.06 ^2.07 ^2.08 ^2.09 ^2.10 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^4.0 ^4.1 ^4.2 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ ^5.0 ^5.1 CGSC: The Coli Genetics Stock Center
↑ ^6.0 ^6.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).
↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

der:On One Page

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Gene

Nomenclature

Notes

Location(s) and DNA Sequence

Notes

Sequence Features

Notes

Alleles and Phenotypes

Notes

Genetic Interactions

Notes

Genetic Resources

Notes

Accessions in Other Databases

Notes

Links

Product(s)

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

Expression

Overview

Cellular Levels

Notes

Transcription and Transcriptional Regulation

Notes

Translation and Regulation of Translation

Notes

Turnover and Regulation of Turnover

Notes

Experimental

Notes

Accessions Related to der Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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