hemB:Gene Product(s)

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Nomenclature Function Interactions Localization Sequence Domains Structure Resources Accessions Links References Suggestions

Nomenclature

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Standard name

HemB

Synonyms

porphobilinogen synthase[1], B0369[2][1], Ncf[2][1], HemB[2][1] , ECK0366, JW0361, ncf, b0369

Product description

porphobilinogen synthase[2][3];

Component of porphobilinogen synthase[2][3]

5-aminolevulinate dehydratase; binds Zn(II)[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:0005737

cytoplasm

C

Seeded from Riley et al 2006 [1].

Missing: evidence, reference

GO:0000287

magnesium ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0460

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:0004655

porphobilinogen synthase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001731

F

Seeded from EcoCyc (v14.0)

complete

GO:0004655

porphobilinogen synthase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:4.2.1.24

F

Seeded from EcoCyc (v14.0)

complete

GO:0004655

porphobilinogen synthase activity

PMID:3276659[5]

IMP: Inferred from Mutant Phenotype

F

Seeded from EcoCyc (v14.0)

complete

GO:0005829

cytosol

PMID:16858726[6]

IDA: Inferred from Direct Assay

C

Seeded from EcoCyc (v14.0)

complete

GO:0006779

porphyrin biosynthetic process

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0627

P

Seeded from EcoCyc (v14.0)

complete

GO:0008270

zinc ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0862

F

Seeded from EcoCyc (v14.0)

complete

GO:0046872

metal ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001731

F

Seeded from EcoCyc (v14.0)

complete

GO:0004655

porphobilinogen synthase activity

PMID:3276659[5]

IMP: Inferred from Mutant Phenotype

F

A hemB mutant was mutagenized and selected for heme permeability before testing for porphobilinogen synthase activity.

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:0006783

heme biosynthetic process

PMID:3276659[5]

IMP: Inferred from Mutant Phenotype

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 porphobilinogen synthase

could be indirect

Protein

sanA

PMID:16606699[7]

Experiment(s):EBI-1136394

Protein

hisJ

PMID:16606699[7]

Experiment(s):EBI-1136394

Protein

fadH

PMID:16606699[7]

Experiment(s):EBI-1136394

Protein

rpsN

PMID:19402753[8]

LCMS(ID Probability):99.6

Protein

yfiD

PMID:19402753[8]

LCMS(ID Probability):99.6

Protein

groS

PMID:19402753[8]

LCMS(ID Probability):99.6

Protein

ahpC

PMID:19402753[8]

LCMS(ID Probability):99.6

Protein

hupA

PMID:19402753[8]

LCMS(ID Probability):99.6

Protein

ppsA

PMID:19402753[8]

LCMS(ID Probability):99.6

Protein

degQ

PMID:19402753[8]

LCMS(ID Probability):99.6

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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 

MPLDSTNIRQ TMTDLIQRPR RLRKSPALRA MFEETTLSLN DLVLPIFVEE EIDDYKAVEA
MPGVMRIPEK HLAREIERIA NAGIRSVMTF GISHHTDETG SDAWREDGLV ARMSRICKQT
VPEMIVMSDT CFCEYTSHGH CGVLCEHGVD NDATLENLGK QAVVAAAAGA DFIAPSAAMD
GQVQAIRQAL DAAGFKDTAI MSYSTKFASS FYGPFREAAG SALKGDRKSY QMNPMNRREA
IRESLLDEAQ GADCLMVKPA GAYLDIVREL RERTELPIGA YQVSGEYAMI KFAALAGAID
EEKVVLESLG SIKRAGADLI FSYFALDLAE KKILR
Length

335

Mol. Wt

36.882 kDa

pI

5.2 (calculated)

Extinction coefficient

18,910 - 19,660 (calc based on 9 Y, 1 W, and 6 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:P0ACB2

Domain

3..321

PF00490 Delta-aminolevulinic acid dehydratase

PMID:19920124[9]

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

Structures

<beststructure> gene=hemB 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:90111123

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945017

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001266

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0ACB2

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10428

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10428

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945017

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000421

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0423

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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

  1. ↑ 1.0 1.1 1.2 1.3 1.4 1.5 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 2.3 2.4 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ 5.0 5.1 5.2 Li, JM et al. (1988) Cloning of the Escherichia coli K-12 hemB gene. J. Bacteriol. 170 1021-5 PubMed
  6. ↑ Lasserre, JP et al. (2006) A complexomic study of Escherichia coli using two-dimensional blue native/SDS polyacrylamide gel electrophoresis. Electrophoresis 27 3306-21 PubMed
  7. ↑ 7.0 7.1 7.2 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  8. ↑ 8.0 8.1 8.2 8.3 8.4 8.5 8.6 Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed
  9. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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