trmD:Gene Product(s): Difference between revisions

Standard name	TrmD
Synonyms	tRNA (guanine-1-)-methyltransferase^[1], B2607^[2]^[1], TrmD^[2]^[1] , ECK2604, JW2588, b2607
Product description	TrmD^[2]^[3]; Component of tRNA (guanine-1-)-methyltransferase^[3] tRNA m(1)G37 methyltransferase^[4]
EC number (for enzymes)	2.1.1.31^[1]
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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:0003723	RNA binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002649	F	Seeded from EcoCyc (v14.0)	complete
	GO:0009451	RNA modification				P	Seeded from Riley et al 2006 ^[1].	Missing: evidence, reference
	GO:0005737	cytoplasm	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_00605	C	Seeded from EcoCyc (v14.0)	complete
	GO:0005737	cytoplasm	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0963	C	Seeded from EcoCyc (v14.0)	complete
	GO:0005737	cytoplasm	GO_REF:0000023	IEA: Inferred from Electronic Annotation	SP_SL:SL-0086	C	Seeded from EcoCyc (v14.0)	complete
	GO:0009019	tRNA (guanine-N1-)-methyltransferase activity	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_00605	F	Seeded from EcoCyc (v14.0)	complete
	GO:0009019	tRNA (guanine-N1-)-methyltransferase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002649	F	Seeded from EcoCyc (v14.0)	complete
	GO:0009019	tRNA (guanine-N1-)-methyltransferase activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:2.1.1.31	F	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	Notes	References	Evidence
Protein	Subunits of tRNA (guanine-1-)-methyltransferase	could be indirect
Protein	dnaX		PMID:19402753^[5]	MALDI(Z-score):28.759733
Protein	holA		PMID:19402753^[5]	MALDI(Z-score):32.609818
Protein	dnaE		PMID:19402753^[5]	MALDI(Z-score):18.854791
Protein	holD		PMID:19402753^[5]	MALDI(Z-score):21.182048
Protein	holC		PMID:19402753^[5]	MALDI(Z-score):27.442857
Protein	dnaQ		PMID:19402753^[5]	MALDI(Z-score):29.343986
Protein	holB		PMID:19402753^[5]	MALDI(Z-score):38.943183
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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 MWIGIISLFP EMFRAITDYG VTGRAVKNGL LSIQSWSPRD FTHDRHRTVD DRPYGGGPGM LMMVQPLRDA IHAAKAAAGE GAKVIYLSPQ GRKLDQAGVS ELATNQKLIL VCGRYEGIDE RVIQTEIDEE WSIGDYVLSG GELPAMTLID SVSRFIPGVL GHEASATEDS FAEGLLDCPH YTRPEVLEGM EVPPVLLSGN HAEIRRWRLK QSLGRTWLRR PELLENLALT EEQARLLAEF KTEHAQQQHK HDGMA
Length	255
Mol. Wt	28.422 kDa
pI	5.7 (calculated)
Extinction coefficient	36,440 - 36,690 (calc based on 6 Y, 5 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	Notes	References
Domain	22..221	PF01746 tRNA (Guanine-1)-methyltransferase		PMID:19920124^[6]
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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=trmD 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:16130528	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:947099	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0008576	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0A873	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG11023	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11023	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:947099	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001012	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1016	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 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
↑ 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 ^5.5 ^5.6 Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed
↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

trmD:Gene Product(s): Difference between revisions

Latest revision as of 20:53, 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: @@
 *
 ****************************************************************************************** -->{{Product_nomenclature_help}}
-{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
+{|   id="B46aab2ddb25c5"  class=" tableEdit Product_nomenclature_table"
 |-
@@ Line 44: / Line 44: @@
 !align=left {{table heading style}} |Synonyms
 ||
-tRNA (guanine-1-)-methyltransferase<ref name='LIB:Riley_2006'/>, B2607<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, TrmD<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>
+''tRNA (guanine-1-)-methyltransferase<ref name='LIB:Riley_2006'/>, B2607<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, TrmD<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> , ECK2604, JW2588, b2607''
 |-
 !align=left {{table heading style}} |Product description
@@ Line 58: / Line 58: @@
 * [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.31 2.1.1.31]<ref name='LIB:Riley_2006'/>
-|-class='sortbottom'
+|- class="tableEdit_footer"
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 |}
 <!--box uid=421aa90e079fa326b6494f812ad13e79.25510.B46aab2ddb25c5-->
@@ Line 77: / Line 77: @@
 *
 ****************************************************************************************** -->{{Product_GO_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="E46aab2df2b20e"  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:0009019
+GO:0003723
 |
-tRNA (guanine-N1-)-methyltransferase activity
+RNA binding
 |
-GO_REF:0000003<br />GO_REF:0000020
+GOA:interpro<br />GO_REF:0000002
 |
 IEA: Inferred from Electronic Annotation
 |
-EC:2.1.1.31<br />HAMAP:MF_00605
+InterPro:IPR002649
 |
 F
 |
-Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
+Seeded from [[EcoCyc]] (v14.0)
 |
 complete
@@ Line 103: / Line 103: @@
 |
-GO:0005737
+GO:0009451
 |
-cytoplasm
+RNA modification
 |
-GO_REF:0000004
 |
-IEA: Inferred from Electronic Annotation
 |
-SP_KW:KW-0963
 |
-C
+P
 |
-Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
+Seeded from Riley et  al 2006 <ref name='LIB:Riley_2006'/>.
 |
-complete
+Missing: evidence, reference
 |-
 |
 |
-GO:0003723
+GO:0005737
 |
-RNA binding
+cytoplasm
 |
-GO_REF:0000002
+GOA:hamap<br />GO_REF:0000020
 |
 IEA: Inferred from Electronic Annotation
 |
-InterPro:IPR002649
+HAMAP:MF_00605
 |
-F
+C
 |
-Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
+Seeded from [[EcoCyc]] (v14.0)
 |
 complete
@@ Line 141: / Line 141: @@
 |
-GO:0006400
+GO:0005737
 |
-tRNA modification
+cytoplasm
 |
-GO_REF:0000020
+GOA:spkw<br />SP_KW:GO_REF:0000004
 |
 IEA: Inferred from Electronic Annotation
 |
-HAMAP:MF_00605
+SP_KW:KW-0963
 |
-P
+C
 |
-Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
+Seeded from [[EcoCyc]] (v14.0)
 |
 complete
@@ Line 160: / Line 160: @@
 |
-GO:0008033
+GO:0005737
 |
-tRNA processing
+cytoplasm
 |
-GO_REF:0000002<br />GO_REF:0000004
+GO_REF:0000023
 |
 IEA: Inferred from Electronic Annotation
 |
-InterPro:IPR002649<br />SP_KW:KW-0819
+SP_SL:SL-0086
 |
-P
+C
 |
-Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
+Seeded from [[EcoCyc]] (v14.0)
 |
 complete
@@ Line 179: / Line 179: @@
 |
-GO:0008168
+GO:0009019
 |
-methyltransferase activity
+tRNA (guanine-N1-)-methyltransferase activity
 |
-GO_REF:0000004
+GOA:hamap<br />GO_REF:0000020
 |
 IEA: Inferred from Electronic Annotation
 |
-SP_KW:KW-0489
+HAMAP:MF_00605
 |
 F
 |
-Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
+Seeded from [[EcoCyc]] (v14.0)
 |
 complete
@@ Line 198: / Line 198: @@
 |
-GO:0008175
+GO:0009019
 |
-tRNA methyltransferase activity
+tRNA (guanine-N1-)-methyltransferase activity
 |
-GO_REF:0000002
+GOA:interpro<br />GO_REF:0000002
 |
 IEA: Inferred from Electronic Annotation
@@ Line 210: / Line 210: @@
 F
 |
-Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
+Seeded from [[EcoCyc]] (v14.0)
 |
 complete
@@ Line 217: / Line 217: @@
 |
-GO:0016740
+GO:0009019
 |
-transferase activity
+tRNA (guanine-N1-)-methyltransferase activity
 |
-GO_REF:0000004
+GOA:spec<br />GO_REF:0000003
 |
 IEA: Inferred from Electronic Annotation
 |
-SP_KW:KW-0808
+EC:2.1.1.31
 |
 F
 |
-Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
+Seeded from [[EcoCyc]] (v14.0)
 |
 complete
+|- class="tableEdit_footer"
+|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25510.E46aab2df2b20e&page=25510&pagename={{FULLPAGENAMEE}}&type=&template=GO_table_product edit table]</span> || || || || || || || ||
+|}
+<!--box uid=421aa90e079fa326b6494f812ad13e79.25510.E46aab2df2b20e-->
+<span id="Interactions"></span><big>'''Interactions'''</big>
+<!--box uid=421aa90e079fa326b6494f812ad13e79.25510.U46aab2e80e16a-->
+<!--
+******************************************************************************************
+*
+*   ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
+*
+****************************************************************************************** -->{{Product_interactions_help}}
+{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="U46aab2e80e16a"  class=" tableEdit Product_interactions_table dataTable"
+|- {{table heading style}}
+!|Partner Type!!Partner!!Notes!!References!!Evidence
 |-
 |
+Protein
 |
-GO:0030488
+Subunits of [[:Category:Complex:tRNA (guanine-1-)-methyltransferase|tRNA (guanine-1-)-methyltransferase]]
 |
-tRNA methylation
+could be indirect
-|
-PMID:342495
-|
-IMP: Inferred from Mutant Phenotype
 |
 |
-P
-|
-Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
-|
-complete
 |-
 |
+Protein
-|
-GO:0003723
-|
-RNA binding
-|
-GO_REF:0000002
-|
-IEA: Inferred from Electronic Annotation
-|
-InterPro:IPR002649
-|
-F
-|
-Seeded from EcoCyc
 |
-complete
+dnaX
-|-
 |
 |
-GO:0005737
+PMID:19402753
-|
-cytoplasm
-|
-GO_REF:0000020<br />GO_REF:0000004<br />GO_REF:0000023
-|
-IEA: Inferred from Electronic Annotation
-|
-HAMAP:MF_00605<br />SP_KW:KW-0963<br />SP_SL:SL-0086
-|
-C
-|
-Seeded from EcoCyc
 |
-complete
+MALDI(Z-score):28.759733
 |-
 |
+Protein
-|
-GO:0006400
-|
-tRNA modification
-|
-GO_REF:0000020
-|
-IEA: Inferred from Electronic Annotation
-|
-HAMAP:MF_00605
-|
-P
-|
-Seeded from EcoCyc
 |
-complete
+holA
-|-
 |
 |
-GO:0008033
+PMID:19402753
-|
-tRNA processing
-|
-GO_REF:0000002<br />GO_REF:0000004
-|
-IEA: Inferred from Electronic Annotation
-|
-InterPro:IPR002649<br />SP_KW:KW-0819
-|
-P
-|
-Seeded from EcoCyc
 |
-complete
+MALDI(Z-score):32.609818
 |-
 |
+Protein
-|
-GO:0008168
-|
-methyltransferase activity
-|
-GO_REF:0000004
-|
-IEA: Inferred from Electronic Annotation
-|
-SP_KW:KW-0489
-|
-F
 |
-Seeded from EcoCyc
+dnaE
-|
-complete
-|-
 |
 |
-GO:0008175
+PMID:19402753
-|
-tRNA methyltransferase activity
-|
-GO_REF:0000002
-|
-IEA: Inferred from Electronic Annotation
-|
-InterPro:IPR002649
-|
-F
-|
-Seeded from EcoCyc
 |
-complete
+MALDI(Z-score):18.854791
 |-
 |
+Protein
-|
-GO:0009019
-|
-tRNA (guanine-N1-)-methyltransferase activity
-|
-GO_REF:0000020<br />GO_REF:0000003<br />PMID:6337136
-|
-IDA: Inferred from Direct Assay
-|
-HAMAP:MF_00605<br />EC:2.1.1.31<br />
-|
-F
-|
-Seeded from EcoCyc
 |
-complete
+holD
-|-
 |
 |
-GO:0016740
+PMID:19402753
-|
-transferase activity
-|
-GO_REF:0000004
-|
-IEA: Inferred from Electronic Annotation
-|
-SP_KW:KW-0808
-|
-F
-|
-Seeded from EcoCyc
 |
-complete
+MALDI(Z-score):21.182048
 |-
 |
+Protein
-|
-GO:0009451
 |
-RNA modification
+holC
 |
-|
-|
-|
-P
 |
-Seeded from Riley et  al 2006 <ref name='LIB:Riley_2006'/>.
+PMID:19402753
 |
-required fields missing
+MALDI(Z-score):27.442857
 |-
 |
+Protein
-|
-GO:0030488
-|
-tRNA methylation
-|
-PMID:342495
 |
-IMP: Inferred from Mutant Phenotype
+dnaQ
 |
 |
-P
+PMID:19402753
-|
-Seeded from EcoCyc
 |
-complete
+MALDI(Z-score):29.343986
-|-class='sortbottom'
-|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25510.E46aab2df2b20e&page=25510&pagename={{FULLPAGENAMEE}}&type=&template=GO_table_product edit table] || || || || || || || ||
-|}
-<!--box uid=421aa90e079fa326b6494f812ad13e79.25510.E46aab2df2b20e-->
-<span id="Interactions"></span><big>'''Interactions'''</big>
-<!--box uid=421aa90e079fa326b6494f812ad13e79.25510.U46aab2e80e16a-->
-<!--
-******************************************************************************************
-*
-*   ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
-*
-****************************************************************************************** -->{{Product_interactions_help}}
-{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
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-!|Partner Type!!Partner!!Notes!!References!!Evidence
 |-
 |
 Protein
 |
-Subunits of [[:Category:Complex:tRNA (guanine-1-)-methyltransferase|tRNA (guanine-1-)-methyltransferase]]
+holB
 |
-could be indirect
 |
+PMID:19402753
 |
+MALDI(Z-score):38.943183
-|-class='sortbottom'
+|- class="tableEdit_footer"
-|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25510.U46aab2e80e16a&page=25510&pagename={{FULLPAGENAMEE}}&type=&template=Product_interactions_table edit table] || || || ||
+|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25510.U46aab2e80e16a&page=25510&pagename={{FULLPAGENAMEE}}&type=&template=Product_interactions_table edit table]</span> || || || ||
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 <!--box uid=421aa90e079fa326b6494f812ad13e79.25510.U46aab2e80e16a-->
@@ Line 487: / Line 355: @@
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 |- {{table heading style}}
-!|Compartment!!Description!!Evidence!!Notes
+!|Compartment!!Description!!Evidence!!Reference/Source!!Notes
-|-class='sortbottom'
+|- class="tableEdit_footer"
-|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25510.M46a84aca424a5&page=25510&pagename={{FULLPAGENAMEE}}&type=&template=Product_localization_table edit table] || || ||
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 |}
 <!--box uid=421aa90e079fa326b6494f812ad13e79.25510.M46a84aca424a5-->
@@ Line 512: / Line 380: @@
 *
 ****************************************************************************************** -->{{Product_physical_properties_help}}
-{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
+{|   id="V46aab2ea66dfb"  class=" tableEdit Product_phys_prop_table"
+|-
+!align=left {{table heading style}} |Name
+||
 |-
@@ Line 530: / Line 402: @@
 !align=left {{table heading style}} |Mol. Wt
 ||
-.42 kDa (calc) <ref name='LIB:EcoCyc10.6'/>
+.422 kDa
 |-
 !align=left {{table heading style}} |pI
 ||
+.7 (calculated)
 |-
 !align=left {{table heading style}} |Extinction coefficient
 ||
-- 36690 (calc based on 6 Y, 5 W, and 2 C residues)
+,440 - 36,690 (calc based on 6 Y, 5 W, and 2 C residues)
-|-class='sortbottom'
+|- class="tableEdit_footer"
-|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25510.V46aab2ea66dfb&page=25510&pagename={{FULLPAGENAMEE}}&type=1&template=Product_phys_prop_table edit table] ||
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 |}
 <!--box uid=421aa90e079fa326b6494f812ad13e79.25510.V46aab2ea66dfb-->
@@ Line 555: / Line 427: @@
 *
 ****************************************************************************************** -->{{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="B46aab2ead63da"  class=" tableEdit Product_motif_table dataTable"
 |- {{table heading style}}
-!|Type!!Residues!!Description!!Notes
+!|Type!!Residues!!Description!!Notes!!References
+|-
+|
+Domain
+|
+..221
+|
+[http://pfam.janelia.org/family/PF01746 PF01746  tRNA (Guanine-1)-methyltransferase]
+|
+|
+PMID:19920124
-|-class='sortbottom'
+|- class="tableEdit_footer"
-|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25510.B46aab2ead63da&page=25510&pagename={{FULLPAGENAMEE}}&type=&template=Product_motif_table edit table] || || ||
+|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25510.B46aab2ead63da&page=25510&pagename={{FULLPAGENAMEE}}&type=&template=Product_motif_table edit table]</span> || || || ||
 |}
 <!--box uid=421aa90e079fa326b6494f812ad13e79.25510.B46aab2ead63da--></td>
@@ Line 571: / Line 454: @@
 </table>
-<span id="Structure"></span><big>'''Structure'''</big>
+<table><tr valign='top'><td>
+<span id='Structure'></span><big>'''Structure'''</big><br />
 <!--box uid=421aa90e079fa326b6494f812ad13e79.25510.Q46a84acbddc8a-->
 <!--
@@ Line 579: / Line 463: @@
 *
 ****************************************************************************************** -->{{Product_structure_help}}
-{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
+{|   id="Q46a84acbddc8a"  class=" tableEdit Product_structure_table"
 |-
 !align=left {{table heading style}} |Structures
 ||
-<beststructure>trmD
+<beststructure>
-</beststructure>
+gene=trmD
+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=trmD&sub=keywordSearc EcoliPredict]
+* [http://www.proteinmodelportal.org/query/uniprot/P0A873 Protein Model Portal]
-* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=trmD&organism=562&organismtext= ModBase]
+* [http://bioinf.cs.ucl.ac.uk/genome3d/read?uniprot_id=P0A873 PSI-PRED (P0A873)]
-* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
+* [http://spock.genes.nig.ac.jp/~genome/cgi-bin/gkeytext.pl.cgi?A&QUERY1=P0A873 Genomes TO Protein (P0A873)] (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=421aa90e079fa326b6494f812ad13e79.25510.Q46a84acbddc8a&page=25510&pagename={{FULLPAGENAMEE}}&type=1&template=Product_structure_table edit table] ||
+|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25510.Q46a84acbddc8a&page=25510&pagename={{FULLPAGENAMEE}}&type=1&template=Product_structure_table edit table]</span> ||
 |}
 <!--box uid=421aa90e079fa326b6494f812ad13e79.25510.Q46a84acbddc8a-->
-<!--Structure_notes--></protect>
+</td><td></protect>
+==== Structure figures ====
+<protect><!--          ***** PLEASE DO NOT EDIT BELOW THIS LINE *****         -->
+</td><tr><table><!--Structure_notes--></protect>
 ===Notes===
@@ Line 616: / Line 519: @@
 *
 ****************************************************************************************** -->{{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="N46aab2eb9f2bf"  class=" tableEdit Product_resource_table"
 |- {{table_heading_style}}
 !|Resource type!!Source!!Notes/Reference
-|-class='sortbottom'
+|- class="tableEdit_footer"
-|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25510.N46aab2eb9f2bf&page=25510&pagename={{FULLPAGENAMEE}}&type=&template=Product_resource_table edit table] || ||
+|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25510.N46aab2eb9f2bf&page=25510&pagename={{FULLPAGENAMEE}}&type=&template=Product_resource_table edit table]</span> || ||
 |}
 <!--box uid=421aa90e079fa326b6494f812ad13e79.25510.N46aab2eb9f2bf-->
@@ Line 638: / Line 541: @@
 *
 ****************************************************************************************** -->{{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="D46aab2ec09153"  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/16130528 GI:16130528]
+|
+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_417098.1 GeneID:947099]
+|
+Escherichia coli str. K-12 substr. MG1655
+|-
 |
-[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG11023-MONOMER EcoCyc:EG11023-MONOMER]
+[[ASAP]]
 |
+ASAP:ABE-0008576
+|
+''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
+|-
+|
+[http://www.pir.uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
+|
+[http://www.uniprot.org/uniprot/P0A873 UniProtKB/Swiss-Prot:P0A873]
+|
+Escherichia coli str. K-12 substr. MG1655
+|-
+|
+[[EcoCyc]]
+|
+EcoCyc:EG11023
+|
+''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
 |-
 |
-[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
+[[EcoGene]]
 |
-[[uniprot:P0A873|UniProt:P0A873]]
+EcoGene:EG11023
 |
+''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
 |-
 |
-[http://pfam.sanger.ac.uk/ PFAM] ([[PFAM|EcoliWiki Page]])
+[http://www.ncbi.nlm.nih.gov/gene NCBI (Gene)] ([[NCBI (Gene)|EcoliWiki Page]])
 |
-[http://pfam.sanger.ac.uk/family?acc=PF01746 PFAM:PF01746]
+[http://www.ncbi.nlm.nih.gov/gene?term=947099 GeneID:947099]
 |
+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_417098 RefSeq:NP_417098]
+RegulonDB:ECK120001012
 |
+''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=P0A873 ModBase:P0A873]
+EchoBASE:EB1016
 |
+''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
-|-class='sortbottom'
+|- class="tableEdit_footer"
-|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25510.D46aab2ec09153&page=25510&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table] || ||
+|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25510.D46aab2ec09153&page=25510&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table]</span> || ||
 |}
 <!--box uid=421aa90e079fa326b6494f812ad13e79.25510.D46aab2ec09153-->
@@ Line 695: / Line 626: @@
 *
 ****************************************************************************************** -->
-{|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="P46a84acf53b39"  class=" tableEdit Links_table"
 |- {{table_heading_style}}
 !|Name!!URL!!Comments
-|-class='sortbottom'
+|- class="tableEdit_footer"
-|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25510.P46a84acf53b39&page=25510&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table] || ||
+|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25510.P46a84acf53b39&page=25510&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table]</span> || ||
 |}
 <!--box uid=421aa90e079fa326b6494f812ad13e79.25510.P46a84acf53b39-->
@@ Line 710: / Line 641: @@
 ==References==
 {{BacktoTop}}
+{{RefHelp}}
-<references/>
+<references />
 __NOTOC__
-</noinclude>
 ===Categories===
 {{BacktoTop}}
 [[Category:Proteins]]
-[[Category:GO:0005737_!_cytoplasm]][[Category:GO:0009451_!_RNA modification]][[Category:GO:0030488_!_tRNA methylation]][[Category:Complex:tRNA (guanine-1-)-methyltransferase]]

trmD:Gene Product(s): Difference between revisions

Latest revision as of 20:53, 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

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References

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