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Expression|

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Standard Name	thiH
Gene Synonym(s)	ECK3981, b3990, JW3953, thiA, thiB^[1], thiB
Product Desc.	THIH^[2]^[3]; Component of thiamin biosynthesis ThiGH complex^[3] Tyrosine lyase, involved in thiamin-thiazole moiety synthesis; complexes with ThiG; [4Fe-4S] cluster^[4]
Product Synonyms(s)	thiamin biosynthesis ThiGH complex subunit^[1], B3990^[2]^[1], ThiB^[2]^[1], ThiH^[2]^[1] , ECK3981, JW3953, thiB, b3990
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): thiCEFSGH^[2]
Regulation/Activity
Quick Links
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Notes

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Anaerobically, glycine probably cannot be oxidized to form the probable thiamine biosynthetic intermediate dehydroglycine, so it is derived from tyrosine by the action of the tyrosine lyase ThiH; the products of the in vitro ThiH reaction are para-cresol and hydroglycine (Kriek, 2007). In E. coli B, para-cresol is probably converted to 4-hydroxy-benzoyl alcohol in vivo by an oxidase that is missing from K strains (Kriek, 2007), and thus 4-hydroxy-benzoyl alcohol is probably not the primary tyrosine cleavage product as previously suggested (White, 1979). Radical SAM superfamily.^[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	thiH
Mnemonic	Thiamin (and thiazole)
Synonyms	ECK3981, b3990, JW3953, thiA, thiB^[1], thiB
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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	90.28 minutes	MG1655: 4189891..4188758 <gbrowseImage> name=NC_000913:4188758..4189891 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 4171479..4170346 <gbrowseImage> name=NC_012967:4170346..4171479 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 4078438..4079571 <gbrowseImage> name=NC_012759:4078438..4079571 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 3444813..3445946 <gbrowseImage> name=NC_007779:3444813..3445946 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 4289587..4288454 <gbrowseImage> name=NC_010473:4288454..4289587 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)	Reference	Availability
thiH(del) (Keio:JW3953)	deletion	deletion	PMID:16738554	Shigen CGSC8311^[5]
thiH760(del)::kan			PMID:16738554	CGSC:99797
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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
JW3953	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCAAAACCTTCAGCGATCGCTG Primer 2:CCTAGTCTTTGCGAGGCGCGTCC
7B7	Kohara Phage	Genobase	PMID:3038334
argE86::Tn10	Linked marker	CAG12185 = CGSC7471^[5]	est. P1 cotransduction: 23% ^[6]
thiC39::Tn10	Linked marker	CAG18500 = CGSC7472^[5]	est. P1 cotransduction: 83% ^[6] Synonyms:thi-39::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:EG11590	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11590	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001539	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:948494	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1548	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0013048	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	ThiH
Synonyms	thiamin biosynthesis ThiGH complex subunit^[1], B3990^[2]^[1], ThiB^[2]^[1], ThiH^[2]^[1] , ECK3981, JW3953, thiB, b3990
Product description	THIH^[2]^[3]; Component of thiamin biosynthesis ThiGH complex^[3] Tyrosine lyase, involved in thiamin-thiazole moiety synthesis; complexes with ThiG; [4Fe-4S] cluster^[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:0003824	catalytic activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR007197	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003824	catalytic activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR013785	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004076	biotin synthase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR010722	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005506	iron ion binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR012726	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005506	iron ion binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0408	F	Seeded from EcoCyc (v14.0)	complete
	GO:0008152	metabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR013785	P	Seeded from EcoCyc (v14.0)	complete
	GO:0009102	biotin biosynthetic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR010722	P	Seeded from EcoCyc (v14.0)	complete
	GO:0009228	thiamin biosynthetic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR012726	P	Seeded from EcoCyc (v14.0)	complete
	GO:0009228	thiamin biosynthetic process	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0784	P	Seeded from EcoCyc (v14.0)	complete
	GO:0046872	metal ion binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0479	F	Seeded from EcoCyc (v14.0)	complete
	GO:0051536	iron-sulfur cluster binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR007197	F	Seeded from EcoCyc (v14.0)	complete
	GO:0051536	iron-sulfur cluster binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR010722	F	Seeded from EcoCyc (v14.0)	complete
	GO:0051536	iron-sulfur cluster binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0411	F	Seeded from EcoCyc (v14.0)	complete
	GO:0051539	4 iron, 4 sulfur cluster binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR012726	F	Seeded from EcoCyc (v14.0)	complete
	GO:0051539	4 iron, 4 sulfur cluster binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0004	F	Seeded from EcoCyc (v14.0)	complete
	GO:0006974	response to DNA damage stimulus	PMID:11967071	IEP: Inferred from Expression Pattern		P		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	Notes	References	Evidence
Protein	Subunits of thiamin biosynthesis ThiGH complex	could be indirect
Protein	groL		PMID:16606699	Experiment(s):EBI-1147202
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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 MKTFSDRWRQ LDWDDIRLRI NGKTAADVER ALNASQLTRD DMMALLSPAA SGYLEQLAQR AQRLTRQRFG NTVSFYVPLY LSNLCANDCT YCGFSMSNRI KRKTLDEADI ARESAAIREM GFEHLLLVTG EHQAKVGMDY FRRHLPALRE QFSSLQMEVQ PLAETEYAEL KQLGLDGVMV YQETYHEATY ARHHLKGKKQ DFFWRLETPD RLGRAGIDKI GLGALIGLSD NWRVDSYMVA EHLLWLQQHY WQSRYSVSFP RLRPCTGGIE PASIMDERQL VQTICAFRLL APEIELSLST RESPWFRDRV IPLAINNVSA FSKTQPGGYA DNHPELEQFS PHDDRRPEAV AAALTAQGLQ PVWKDWDSYL GRASQRL
Length	377
Mol. Wt	43.32 kDa
pI	7.0 (calculated)
Extinction coefficient	70,360 - 70,985 (calc based on 14 Y, 9 W, and 5 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	Notes	References
Initiator Methionine	1	Removed	UniProt:P30140
Domain	79..238	PF04055 Radical SAM superfamily		PMID:19920124
Domain	256..361	PF06968 Biotin and Thiamin Synthesis associated domain		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=thiH 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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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:16131820	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:948494	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0013048	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P30140	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG11590	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11590	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:948494	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001539	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1548	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	Notes	Reference(s)
Protein	E. coli K-12 MG1655	11	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	848	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	0^a	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	Low confidence in the sequencing data set.	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)
thiCEFSGH
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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_000913:4189871..4189911 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:b3990 (EcoliWiki Page)	NCBI GEO profiles for thiH
microarray	GenExpDB:b3990 (EcoliWiki Page)	Summary of data for thiH 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
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Notes

Accessions Related to thiH Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG11590	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1548	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b3990
EcoGene	EcoGene:EG11590	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001539	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0013048	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
Shigella flexneri	THIH	From SHIGELLACYC
E. coli O157	THIH	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)	PF04055 Radical SAM superfamily
Panther (EcoliWiki Page)	PTHR22976:SF2
Superfamily (EcoliWiki Page)	SUPERFAMILY:102114
Pfam (EcoliWiki Page)	PF06968 Biotin and Thiamin Synthesis associated domain
EcoCyc	EcoCyc:EG11590	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11590	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001539	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1548	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0013048	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.

↑ ^1.0 ^1.1 ^1.2 ^1.3 ^1.4 ^1.5 ^1.6 ^1.7 ^1.8 ^1.9 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.0 ^2.1 ^2.2 ^2.3 ^2.4 ^2.5 ^2.6 ^2.7 ^2.8 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 ^3.2 ^3.3 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 ^5.2 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).

thiH:On One Page

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Notes

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 thiH Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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