pdhR:Gene Product(s): Difference between revisions

Standard name	PdhR
Synonyms	DNA-binding transcriptional dual regulator^[1], B0113^[2]^[1], YacB^[2]^[1], GenA^[2]^[1], PdhR^[2]^[1] , aceC, ECK0112, genA, JW0109, yacB, b0113
Product description	PdhR transcriptional dual regulator^[2]^[3] Pyruvate dehydrogenase operon (pdhR-aceEF-lpd) repressor; autoregulatory; pyruvate relieves repression; monomeric^[4]
EC number (for enzymes)
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Notes

Function

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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:0003700	transcription factor activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000524	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003700	transcription factor activity	PMID:2060763^[5]	ISS: Inferred from Sequence or Structural Similarity	UniProtKB:P10585 UniProtKB:P0A8V6 UniProtKB:P12380 UniProtKB:P22773	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003700	transcription factor activity	PMID:7783622^[6]	IDA: Inferred from Direct Assay		F	Seeded from EcoCyc (v14.0)	complete
	GO:0003700	transcription factor activity	PMID:8057842^[7]	IDA: Inferred from Direct Assay		F	Seeded from EcoCyc (v14.0)	complete
	GO:0003700	transcription factor activity	PMID:8262214^[8]	IDA: Inferred from Direct Assay		F	Seeded from EcoCyc (v14.0)	complete
	GO:0005622	intracellular	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000524	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016563	transcription activator activity	PMID:2060763^[5]	ISS: Inferred from Sequence or Structural Similarity	UniProtKB:P10585 UniProtKB:P0A8V6 UniProtKB:P12380 UniProtKB:P22773	F	Seeded from EcoCyc (v14.0)	complete
	GO:0016563	transcription activator activity	PMID:7783622^[6]	IDA: Inferred from Direct Assay		F	Seeded from EcoCyc (v14.0)	complete
	GO:0016563	transcription activator activity	PMID:8057842^[7]	IDA: Inferred from Direct Assay		F	Seeded from EcoCyc (v14.0)	complete
	GO:0016563	transcription activator activity	PMID:8262214^[8]	IDA: Inferred from Direct Assay		F	Seeded from EcoCyc (v14.0)	complete
	GO:0016566	specific transcriptional repressor activity	PMID:2060763^[5]	ISS: Inferred from Sequence or Structural Similarity	UniProtKB:P10585 UniProtKB:P0A8V6 UniProtKB:P12380 UniProtKB:P22773	F	Seeded from EcoCyc (v14.0)	complete
	GO:0016566	specific transcriptional repressor activity	PMID:7783622^[6]	IDA: Inferred from Direct Assay		F	Seeded from EcoCyc (v14.0)	complete
	GO:0016566	specific transcriptional repressor activity	PMID:8057842^[7]	IDA: Inferred from Direct Assay		F	Seeded from EcoCyc (v14.0)	complete
	GO:0016566	specific transcriptional repressor activity	PMID:8262214^[8]	IDA: Inferred from Direct Assay		F	Seeded from EcoCyc (v14.0)	complete
	GO:0032582	negative regulation of gene-specific transcription	PMID:2060763^[5]	ISS: Inferred from Sequence or Structural Similarity	UniProtKB:P10585 UniProtKB:P0A8V6 UniProtKB:P12380 UniProtKB:P22773	P	Seeded from EcoCyc (v14.0)	complete
	GO:0032582	negative regulation of gene-specific transcription	PMID:7783622^[6]	IDA: Inferred from Direct Assay		P	Seeded from EcoCyc (v14.0)	complete
	GO:0032582	negative regulation of gene-specific transcription	PMID:8057842^[7]	IDA: Inferred from Direct Assay		P	Seeded from EcoCyc (v14.0)	complete
	GO:0032582	negative regulation of gene-specific transcription	PMID:8262214^[8]	IDA: Inferred from Direct Assay		P	Seeded from EcoCyc (v14.0)	complete
	GO:0043193	positive regulation of gene-specific transcription	PMID:2060763^[5]	ISS: Inferred from Sequence or Structural Similarity	UniProtKB:P10585 UniProtKB:P0A8V6 UniProtKB:P12380 UniProtKB:P22773	P	Seeded from EcoCyc (v14.0)	complete
	GO:0043193	positive regulation of gene-specific transcription	PMID:7783622^[6]	IDA: Inferred from Direct Assay		P	Seeded from EcoCyc (v14.0)	complete
	GO:0043193	positive regulation of gene-specific transcription	PMID:8057842^[7]	IDA: Inferred from Direct Assay		P	Seeded from EcoCyc (v14.0)	complete
	GO:0043193	positive regulation of gene-specific transcription	PMID:8262214^[8]	IDA: Inferred from Direct Assay		P	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	aceF	PMID:16606699^[9]	Experiment(s):EBI-1135589
Protein	tatE	PMID:16606699^[9]	Experiment(s):EBI-1135589
Protein	rpmB	PMID:16606699^[9]	Experiment(s):EBI-1135589
Protein	aceE	PMID:16606699^[9]	Experiment(s):EBI-1135589
Protein	lpdA	PMID:16606699^[9]	Experiment(s):EBI-1135589
Protein	groL	PMID:16606699^[9]	Experiment(s):EBI-1135589
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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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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 MAYSKIRQPK LSDVIEQQLE FLILEGTLRP GEKLPPEREL AKQFDVSRPS LREAIQRLEA KGLLLRRQGG GTFVQSSLWQ SFSDPLVELL SDHPESQYDL LETRHALEGI AAYYAALRST DEDKERIREL HHAIELAQQS GDLDAESNAV LQYQIAVTEA AHNVVLLHLL RCMEPMLAQN VRQNFELLYS RREMLPLVSS HRTRIFEAIM AGKPEEAREA SHRHLAFIEE ILLDRSREES RRERSLRRLE QRKN
Length	254
Mol. Wt	29.426 kDa
pI	6.4 (calculated)
Extinction coefficient	14,440 - 14,565 (calc based on 6 Y, 1 W, and 1 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	11..74	PF00392 Bacterial regulatory proteins, gntR family	PMID:19920124^[10]
Domain	99..227	PF07729 FCD domain	PMID:19920124^[10]
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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=pdhR taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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:16128106	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:944827	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000394	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0ACL9	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG11088	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11088	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:944827	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001076	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1080	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 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 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ 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 ^5.3 ^5.4 Haydon, DJ & Guest, JR (1991) A new family of bacterial regulatory proteins. FEMS Microbiol. Lett. 63 291-5 PubMed
↑ ^6.0 ^6.1 ^6.2 ^6.3 ^6.4 Quail, MA & Guest, JR (1995) Purification, characterization and mode of action of PdhR, the transcriptional repressor of the pdhR-aceEF-lpd operon of Escherichia coli. Mol. Microbiol. 15 519-29 PubMed
↑ ^7.0 ^7.1 ^7.2 ^7.3 ^7.4 Quail, MA et al. (1994) The pdhR-aceEF-lpd operon of Escherichia coli expresses the pyruvate dehydrogenase complex. Mol. Microbiol. 12 95-104 PubMed
↑ ^8.0 ^8.1 ^8.2 ^8.3 ^8.4 Haydon, DJ et al. (1993) A mutation causing constitutive synthesis of the pyruvate dehydrogenase complex in Escherichia coli is located within the pdhR gene. FEBS Lett. 336 43-7 PubMed
↑ ^9.0 ^9.1 ^9.2 ^9.3 ^9.4 ^9.5 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
↑ ^10.0 ^10.1 Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

pdhR:Gene Product(s): Difference between revisions

Latest revision as of 20:21, 17 February 2015

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

References

Categories

Navigation menu

@@ Line 35: / Line 35: @@
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@@ Line 44: / Line 44: @@
 !align=left {{table heading style}} |Synonyms
 ||
-DNA-binding transcriptional dual regulator<ref name='LIB:Riley_2006'/>, B0113<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YacB<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, GenA<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, PdhR<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>
+''DNA-binding transcriptional dual regulator<ref name='LIB:Riley_2006'/>, B0113<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YacB<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, GenA<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, PdhR<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> , aceC, ECK0112, genA, JW0109, yacB, b0113''
 |-
 !align=left {{table heading style}} |Product description
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 <!--box uid=421aa90e079fa326b6494f812ad13e79.19723.B46aa1c6253358-->
@@ Line 75: / Line 75: @@
 *
 ****************************************************************************************** -->{{Product_GO_help}}
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+{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="I46aa1c634e7ee"  class=" tableEdit GO_table_product dataTable"
 |- {{table_heading_style}}
-!|Qualifier!!GO ID!!GO term name!!Reference(s)!!Evidence Code!!with/from!!Aspect!!Notes!!Status
+!|Qualifier!!GO ID!!GO term name!!Reference!!Evidence Code!!with/from!!Aspect!!Notes!!Status
 |-
 |
 |
-GO:0006350
+GO:0003700
+|
+transcription factor activity
+|
+GOA:interpro<br />GO_REF:0000002
+|
+IEA: Inferred from Electronic Annotation
+|
+InterPro:IPR000524
+|
+F
+|
+Seeded from [[EcoCyc]] (v14.0)
+|
+complete
+|-
+|
+|
+GO:0003700
+|
+transcription factor activity
+|
+PMID:2060763
+|
+ISS: Inferred from Sequence or Structural Similarity
+|
+UniProtKB:P10585<br />UniProtKB:P0A8V6<br />UniProtKB:P12380<br />UniProtKB:P22773
+|
+F
 |
-transcription
+Seeded from [[EcoCyc]] (v14.0)
+|
+complete
+|-
+|
+|
+GO:0003700
+|
+transcription factor activity
 |
 PMID:7783622
@@ Line 92: / Line 130: @@
 |
-P
+F
 |
-Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
+Seeded from [[EcoCyc]] (v14.0)
 |
 complete
@@ Line 101: / Line 139: @@
 |
-GO:0006350
+GO:0003700
 |
-transcription
+transcription factor activity
 |
 PMID:8057842
@@ Line 111: / Line 149: @@
 |
-P
+F
 |
-Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
+Seeded from [[EcoCyc]] (v14.0)
 |
 complete
@@ Line 120: / Line 158: @@
 |
-GO:0006350
+GO:0003700
 |
-transcription
+transcription factor activity
 |
 PMID:8262214
 |
-IEP: Inferred from Expression Pattern
+IDA: Inferred from Direct Assay
 |
 |
-P
+F
+|
+Seeded from [[EcoCyc]] (v14.0)
+|
+complete
+|-
+|
+|
+GO:0005622
+|
+intracellular
+|
+GOA:interpro<br />GO_REF:0000002
+|
+IEA: Inferred from Electronic Annotation
+|
+InterPro:IPR000524
+|
+C
+|
+Seeded from [[EcoCyc]] (v14.0)
+|
+complete
+|-
+|
+|
+GO:0016563
+|
+transcription activator activity
+|
+PMID:2060763
+|
+ISS: Inferred from Sequence or Structural Similarity
+|
+UniProtKB:P10585<br />UniProtKB:P0A8V6<br />UniProtKB:P12380<br />UniProtKB:P22773
+|
+F
 |
-Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
+Seeded from [[EcoCyc]] (v14.0)
 |
 complete
@@ Line 139: / Line 215: @@
 |
-GO:0016564
+GO:0016563
 |
-transcription repressor activity
+transcription activator activity
 |
 PMID:7783622
@@ Line 151: / Line 227: @@
 F
 |
-Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
+Seeded from [[EcoCyc]] (v14.0)
 |
 complete
@@ Line 158: / Line 234: @@
 |
-GO:0016564
+GO:0016563
 |
-transcription repressor activity
+transcription activator activity
 |
 PMID:8057842
@@ Line 170: / Line 246: @@
 F
 |
-Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
+Seeded from [[EcoCyc]] (v14.0)
 |
 complete
@@ Line 177: / Line 253: @@
 |
-GO:0016564
+GO:0016563
 |
-transcription repressor activity
+transcription activator activity
 |
 PMID:8262214
 |
-IEP: Inferred from Expression Pattern
+IDA: Inferred from Direct Assay
+|
+|
+F
+|
+Seeded from [[EcoCyc]] (v14.0)
+|
+complete
+|-
 |
+|
+GO:0016566
+|
+specific transcriptional repressor activity
+|
+PMID:2060763
+|
+ISS: Inferred from Sequence or Structural Similarity
+|
+UniProtKB:P10585<br />UniProtKB:P0A8V6<br />UniProtKB:P12380<br />UniProtKB:P22773
 |
 F
 |
-Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
+Seeded from [[EcoCyc]] (v14.0)
 |
 complete
@@ Line 196: / Line 291: @@
 |
-GO:0003677
+GO:0016566
 |
-DNA binding
+specific transcriptional repressor activity
 |
-GO_REF:0000004
+PMID:7783622
 |
-IEA: Inferred from Electronic Annotation
+IDA: Inferred from Direct Assay
 |
-SP_KW:KW-0238
 |
 F
 |
-Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
+Seeded from [[EcoCyc]] (v14.0)
 |
 complete
@@ Line 215: / Line 310: @@
 |
-GO:0003700
+GO:0016566
 |
-transcription factor activity
+specific transcriptional repressor activity
 |
-GO_REF:0000002
+PMID:8057842
 |
-IEA: Inferred from Electronic Annotation
+IDA: Inferred from Direct Assay
 |
-InterPro:IPR000524
 |
 F
 |
-Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
+Seeded from [[EcoCyc]] (v14.0)
 |
 complete
@@ Line 234: / Line 329: @@
 |
-GO:0005622
+GO:0016566
 |
-intracellular
+specific transcriptional repressor activity
 |
-GO_REF:0000002
+PMID:8262214
 |
-IEA: Inferred from Electronic Annotation
+IDA: Inferred from Direct Assay
 |
-InterPro:IPR000524
 |
-C
+F
 |
-Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
+Seeded from [[EcoCyc]] (v14.0)
 |
 complete
@@ Line 253: / Line 348: @@
 |
-GO:0006350
+GO:0032582
 |
-transcription
+negative regulation of gene-specific transcription
 |
-GO_REF:0000004
+PMID:2060763
 |
-IEA: Inferred from Electronic Annotation
+ISS: Inferred from Sequence or Structural Similarity
 |
-SP_KW:KW-0804
+UniProtKB:P10585<br />UniProtKB:P0A8V6<br />UniProtKB:P12380<br />UniProtKB:P22773
 |
 P
 |
-Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
+Seeded from [[EcoCyc]] (v14.0)
 |
 complete
@@ Line 272: / Line 367: @@
 |
-GO:0006355
+GO:0032582
 |
-regulation of transcription, DNA-dependent
+negative regulation of gene-specific transcription
 |
-GO_REF:0000002<br />GO_REF:0000004
+PMID:7783622
 |
-IEA: Inferred from Electronic Annotation
+IDA: Inferred from Direct Assay
 |
-InterPro:IPR000524<br />SP_KW:KW-0805
 |
 P
 |
-Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
+Seeded from [[EcoCyc]] (v14.0)
 |
 complete
@@ Line 291: / Line 386: @@
 |
-GO:0003677
+GO:0032582
 |
-DNA binding
+negative regulation of gene-specific transcription
 |
-GO_REF:0000004
+PMID:8057842
 |
-IEA: Inferred from Electronic Annotation
+IDA: Inferred from Direct Assay
 |
-SP_KW:KW-0238
 |
-F
+P
 |
-Seeded from EcoCyc
+Seeded from [[EcoCyc]] (v14.0)
 |
 complete
@@ Line 310: / Line 405: @@
 |
-GO:0003700
+GO:0032582
 |
-transcription factor activity
+negative regulation of gene-specific transcription
 |
-GO_REF:0000002
+PMID:8262214
 |
-IEA: Inferred from Electronic Annotation
+IDA: Inferred from Direct Assay
 |
-InterPro:IPR000524
 |
-F
+P
 |
-Seeded from EcoCyc
+Seeded from [[EcoCyc]] (v14.0)
 |
 complete
@@ Line 329: / Line 424: @@
 |
-GO:0005622
+GO:0043193
 |
-intracellular
+positive regulation of gene-specific transcription
 |
-GO_REF:0000002
+PMID:2060763
 |
-IEA: Inferred from Electronic Annotation
+ISS: Inferred from Sequence or Structural Similarity
 |
-InterPro:IPR000524
+UniProtKB:P10585<br />UniProtKB:P0A8V6<br />UniProtKB:P12380<br />UniProtKB:P22773
 |
-C
+P
 |
-Seeded from EcoCyc
+Seeded from [[EcoCyc]] (v14.0)
 |
 complete
 |-
 |
 |
-GO:0006096
+GO:0043193
 |
-glycolysis
+positive regulation of gene-specific transcription
 |
+PMID:7783622
 |
+IDA: Inferred from Direct Assay
 |
 |
 P
 |
-Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
+Seeded from [[EcoCyc]] (v14.0)
 |
-required fields missing
+complete
 |-
 |
 |
-GO:0005737
+GO:0043193
 |
-cytoplasm
+positive regulation of gene-specific transcription
 |
+PMID:8057842
 |
+IDA: Inferred from Direct Assay
 |
 |
-C
+P
 |
-Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
+Seeded from [[EcoCyc]] (v14.0)
 |
-required fields missing
+complete
 |-
 |
 |
-GO:0006350
+GO:0043193
 |
-transcription
+positive regulation of gene-specific transcription
 |
-GO_REF:0000004<br />PMID:7783622<br />PMID:8057842<br />PMID:8262214
+PMID:8262214
 |
-IEP: Inferred from Expression Pattern
+IDA: Inferred from Direct Assay
 |
-SP_KW:KW-0804<br /><br /><br />
 |
 P
 |
-Seeded from EcoCyc
+Seeded from [[EcoCyc]] (v14.0)
 |
 complete
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 |- {{table heading style}}
 !|Partner Type!!Partner!!Notes!!References!!Evidence
@@ Line 485: / Line 580: @@
 Experiment(s):EBI-1135589<br />
-|-class='sortbottom'
+|- class="tableEdit_footer"
-|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.19723.D46aa1c70ca58a&page=19723&pagename={{FULLPAGENAMEE}}&type=&template=Product_interactions_table edit table] || || || ||
+|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.19723.D46aa1c70ca58a&page=19723&pagename={{FULLPAGENAMEE}}&type=&template=Product_interactions_table edit table]</span> || || || ||
 |}
 <!--box uid=421aa90e079fa326b6494f812ad13e79.19723.D46aa1c70ca58a-->
@@ Line 502: / Line 597: @@
 *
 ****************************************************************************************** -->{{Product_localization_help}}
-{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
+{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="S46a731fe1bad0"  class=" tableEdit Product_localization_table"
 |- {{table heading style}}
-!|Compartment!!Description!!Evidence!!Notes
+!|Compartment!!Description!!Evidence!!Reference/Source!!Notes
-|-class='sortbottom'
+|- class="tableEdit_footer"
-|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.19723.S46a731fe1bad0&page=19723&pagename={{FULLPAGENAMEE}}&type=&template=Product_localization_table edit table] || || ||
+|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.19723.S46a731fe1bad0&page=19723&pagename={{FULLPAGENAMEE}}&type=&template=Product_localization_table edit table]</span> || || || ||
 |}
 <!--box uid=421aa90e079fa326b6494f812ad13e79.19723.S46a731fe1bad0-->
@@ Line 527: / Line 622: @@
 *
 ****************************************************************************************** -->{{Product_physical_properties_help}}
-{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
+{|   id="X46aa1c7285e6d"  class=" tableEdit Product_phys_prop_table"
+|-
+!align=left {{table heading style}} |Name
+||
 |-
@@ Line 545: / Line 644: @@
 !align=left {{table heading style}} |Mol. Wt
 ||
-.43 kDa (calc) <ref name='LIB:EcoCyc10.6'/>
+.426 kDa
 |-
 !align=left {{table heading style}} |pI
 ||
+.4 (calculated)
 |-
 !align=left {{table heading style}} |Extinction coefficient
 ||
-- 14565 (calc based on 6 Y, 1 W, and 1 C residues)
+,440 - 14,565 (calc based on 6 Y, 1 W, and 1 C residues)
-|-class='sortbottom'
+|- class="tableEdit_footer"
-|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.19723.X46aa1c7285e6d&page=19723&pagename={{FULLPAGENAMEE}}&type=1&template=Product_phys_prop_table edit table] ||
+|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.19723.X46aa1c7285e6d&page=19723&pagename={{FULLPAGENAMEE}}&type=1&template=Product_phys_prop_table edit table]</span> ||
 |}
 <!--box uid=421aa90e079fa326b6494f812ad13e79.19723.X46aa1c7285e6d-->
@@ Line 570: / Line 669: @@
 *
 ****************************************************************************************** -->{{Product_domains_motifs_help}}
-{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
+{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="G46aa1c72ddd45"  class=" tableEdit Product_motif_table dataTable"
 |- {{table heading style}}
-!|Type!!Residues!!Description!!Notes
+!|Type!!Residues!!Description!!Notes!!References
+|-
+|
+Domain
+|
+..74
+|
+[http://pfam.janelia.org/family/PF00392 PF00392  Bacterial regulatory proteins, gntR family]
+|
+|
+PMID:19920124
 |-
 |
 Domain
 |
-- 77
+..227
+|
+[http://pfam.janelia.org/family/PF07729 PF07729  FCD domain]
 |
-[[interpro:IPR000524|HTH gntR-type]]
 |
-[http://www.uniprot.org/uniprot/P0ACL9#section_features UniProt:P0ACL9]
+PMID:19920124
-|-class='sortbottom'
+|- class="tableEdit_footer"
-|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.19723.G46aa1c72ddd45&page=19723&pagename={{FULLPAGENAMEE}}&type=&template=Product_motif_table edit table] || || ||
+|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.19723.G46aa1c72ddd45&page=19723&pagename={{FULLPAGENAMEE}}&type=&template=Product_motif_table edit table]</span> || || || ||
 |}
 <!--box uid=421aa90e079fa326b6494f812ad13e79.19723.G46aa1c72ddd45--></td>
@@ Line 595: / Line 707: @@
 </table>
-<span id="Structure"></span><big>'''Structure'''</big>
+<table><tr valign='top'><td>
+<span id='Structure'></span><big>'''Structure'''</big><br />
 <!--box uid=421aa90e079fa326b6494f812ad13e79.19723.T46a731ff9154f-->
 <!--
@@ Line 603: / Line 716: @@
 *
 ****************************************************************************************** -->{{Product_structure_help}}
-{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
+{|   id="T46a731ff9154f"  class=" tableEdit Product_structure_table"
 |-
 !align=left {{table heading style}} |Structures
 ||
-<beststructure>pdhR
+<beststructure>
-</beststructure>
+gene=pdhR
+taxon=562,83333
+</beststructure>
 |-
 !align=left {{table heading style}} |Models
 ||
 View models at:
-* [http://dragon.bio.purdue.edu/ecolpredict2/localsearch/cgi-bin/search3.cgi?q=pdhR&sub=keywordSearc EcoliPredict]
+* [http://www.proteinmodelportal.org/query/uniprot/P0ACL9 Protein Model Portal]
-* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=pdhR&organism=562&organismtext= ModBase]
+* [http://bioinf.cs.ucl.ac.uk/genome3d/read?uniprot_id=P0ACL9 PSI-PRED (P0ACL9)]
-* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
+* [http://spock.genes.nig.ac.jp/~genome/cgi-bin/gkeytext.pl.cgi?A&QUERY1=P0ACL9 Genomes TO Protein (P0ACL9)] (GTOP)
-* [http://www.ebi.ac.uk/msd-srv/pqs/ Protein Quaternary Structure] (PQS)
-* [http://spock.genes.nig.ac.jp/~genome/search.html Genomes TO Protein] (GTOP)
-|-class='sortbottom'
+|- class="tableEdit_footer"
-|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.19723.T46a731ff9154f&page=19723&pagename={{FULLPAGENAMEE}}&type=1&template=Product_structure_table edit table] ||
+|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.19723.T46a731ff9154f&page=19723&pagename={{FULLPAGENAMEE}}&type=1&template=Product_structure_table edit table]</span> ||
 |}
 <!--box uid=421aa90e079fa326b6494f812ad13e79.19723.T46a731ff9154f-->
-<!--Structure_notes--></protect>
+</td><td></protect>
+==== Structure figures ====
+<protect><!--          ***** PLEASE DO NOT EDIT BELOW THIS LINE *****         -->
+</td><tr><table><!--Structure_notes--></protect>
 ===Notes===
@@ Line 640: / Line 772: @@
 *
 ****************************************************************************************** -->{{Product_resources_help}}
-{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
+{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="W46aa1c737c3e2"  class=" tableEdit Product_resource_table"
 |- {{table_heading_style}}
 !|Resource type!!Source!!Notes/Reference
-|-class='sortbottom'
+|- class="tableEdit_footer"
-|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.19723.W46aa1c737c3e2&page=19723&pagename={{FULLPAGENAMEE}}&type=&template=Product_resource_table edit table] || ||
+|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.19723.W46aa1c737c3e2&page=19723&pagename={{FULLPAGENAMEE}}&type=&template=Product_resource_table edit table]</span> || ||
 |}
 <!--box uid=421aa90e079fa326b6494f812ad13e79.19723.W46aa1c737c3e2-->
@@ Line 662: / Line 794: @@
 *
 ****************************************************************************************** -->{{Gene_accessions_help}}
-{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
+{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="S46aa1c73c57db"  class=" tableEdit Gene_accessions_table"
 |- {{table_heading_style}}
 !|Database!!Accession!!Notes
 |-
 |
-[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
+[http://www.ncbi.nlm.nih.gov/protein NCBI (Protein)] ([[NCBI (Protein)|EcoliWiki Page]])
+|
+[http://www.ncbi.nlm.nih.gov/protein/16128106 GI:16128106]
+|
+Escherichia coli str. K-12 substr. MG1655
+|-
+|
+[http://www.ncbi.nlm.nih.gov/protein NCBI (Protein)] ([[NCBI (Protein)|EcoliWiki Page]])
+|
+[http://www.ncbi.nlm.nih.gov/protein/NP_414655.1 GeneID:944827]
+|
+Escherichia coli str. K-12 substr. MG1655
+|-
+|
+[[ASAP]]
 |
-[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG11088-MONOMER EcoCyc:EG11088-MONOMER]
+ASAP:ABE-0000394
 |
+''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
+|-
+|
+[http://www.pir.uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
+|
+[http://www.uniprot.org/uniprot/P0ACL9 UniProtKB/Swiss-Prot:P0ACL9]
+|
+Escherichia coli str. K-12 substr. MG1655
+|-
+|
+[[EcoCyc]]
+|
+EcoCyc:EG11088
+|
+''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
+|-
+|
+[[EcoGene]]
+|
+EcoGene:EG11088
+|
+''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
 |-
 |
-[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
+[http://www.ncbi.nlm.nih.gov/gene NCBI (Gene)] ([[NCBI (Gene)|EcoliWiki Page]])
 |
-[[uniprot:P0ACL9|UniProt:P0ACL9]]
+[http://www.ncbi.nlm.nih.gov/gene?term=944827 GeneID:944827]
 |
+Escherichia coli str. K-12 substr. MG1655
 |-
 |
-[http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq] ([[RefSeq|EcoliWiki Page]])
+[[RegulonDB]]
 |
-[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_414655 RefSeq:NP_414655]
+RegulonDB:ECK120001076
 |
+''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
 |-
 |
-[http://modbase.compbio.ucsf.edu ModBase] ([[ModBase|EcoliWiki Page]])
+[[EchoBASE]]
 |
-[http://salilab.org/modbase/searchbyid?databaseID=P0ACL9 ModBase:P0ACL9]
+EchoBASE:EB1080
 |
+''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
-|-class='sortbottom'
+|- class="tableEdit_footer"
-|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.19723.S46aa1c73c57db&page=19723&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table] || ||
+|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.19723.S46aa1c73c57db&page=19723&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table]</span> || ||
 |}
 <!--box uid=421aa90e079fa326b6494f812ad13e79.19723.S46aa1c73c57db-->
@@ Line 712: / Line 879: @@
 *
 ****************************************************************************************** -->
-{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
+{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="A46a73201ea5c3"  class=" tableEdit Links_table"
 |- {{table_heading_style}}
 !|Name!!URL!!Comments
-|-class='sortbottom'
+|- class="tableEdit_footer"
-|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.19723.A46a73201ea5c3&page=19723&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table] || ||
+|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.19723.A46a73201ea5c3&page=19723&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table]</span> || ||
 |}
 <!--box uid=421aa90e079fa326b6494f812ad13e79.19723.A46a73201ea5c3-->
@@ Line 727: / Line 894: @@
 ==References==
 {{BacktoTop}}
+{{RefHelp}}
-<references/>
+<references />
 __NOTOC__
-</noinclude>
 ===Categories===
 {{BacktoTop}}
 [[Category:Proteins]]
-[[Category:GO:0006350_!_transcription]][[Category:GO:0006096_!_glycolysis]][[Category:GO:0016564_!_transcription repressor activity]][[Category:GO:0005737_!_cytoplasm]]

pdhR:Gene Product(s): Difference between revisions

Latest revision as of 20:21, 17 February 2015

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

References

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