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P14900

- MURD_ECOLI

UniProt

P14900 - MURD_ECOLI

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Protein

UDP-N-acetylmuramoylalanine--D-glutamate ligase

Gene

murD

Organism
Escherichia coli (strain K12)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli

Functioni

Cell wall formation. Catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine (UMA).

Catalytic activityi

ATP + UDP-N-acetylmuramoyl-L-alanine + glutamate = ADP + phosphate + UDP-N-acetylmuramoyl-L-alanyl-D-glutamate.

Pathwayi

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi112 – 1187ATPSequence Analysis

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-HAMAP
  2. identical protein binding Source: IntAct
  3. UDP-N-acetylmuramoylalanine-D-glutamate ligase activity Source: EcoCyc

GO - Biological processi

  1. cell cycle Source: UniProtKB-KW
  2. cell division Source: UniProtKB-KW
  3. cell wall organization Source: UniProtKB-KW
  4. peptidoglycan biosynthetic process Source: UniProtKB-HAMAP
  5. regulation of cell shape Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Ligase

Keywords - Biological processi

Cell cycle, Cell division, Cell shape, Cell wall biogenesis/degradation, Peptidoglycan synthesis

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciEcoCyc:UDP-NACMURALA-GLU-LIG-MONOMER.
ECOL316407:JW0086-MONOMER.
MetaCyc:UDP-NACMURALA-GLU-LIG-MONOMER.
SABIO-RKP14900.
UniPathwayiUPA00219.

Names & Taxonomyi

Protein namesi
Recommended name:
UDP-N-acetylmuramoylalanine--D-glutamate ligase (EC:6.3.2.9)
Alternative name(s):
D-glutamic acid-adding enzyme
UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase
Gene namesi
Name:murD
Ordered Locus Names:b0088, JW0086
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
ProteomesiUP000000318: Chromosome, UP000000625: Chromosome

Organism-specific databases

EcoGeneiEG10620. murD.

Subcellular locationi

GO - Cellular componenti

  1. cytoplasm Source: EcoliWiki
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11Removed1 Publication
Chaini2 – 438437UDP-N-acetylmuramoylalanine--D-glutamate ligasePRO_0000109013Add
BLAST

Proteomic databases

PaxDbiP14900.
PRIDEiP14900.

Expressioni

Gene expression databases

GenevestigatoriP14900.

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
itself3EBI-554780,EBI-554780

Protein-protein interaction databases

DIPiDIP-10279N.
IntActiP14900. 8 interactions.
MINTiMINT-1269366.
STRINGi511145.b0088.

Structurei

Secondary structure

1
438
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi9 – 124Combined sources
Helixi15 – 2612Combined sources
Turni27 – 293Combined sources
Beta strandi33 – 408Combined sources
Helixi44 – 463Combined sources
Beta strandi53 – 575Combined sources
Helixi60 – 645Combined sources
Beta strandi67 – 715Combined sources
Helixi75 – 784Combined sources
Helixi80 – 878Combined sources
Beta strandi91 – 933Combined sources
Helixi95 – 1028Combined sources
Beta strandi107 – 1115Combined sources
Beta strandi113 – 1153Combined sources
Helixi116 – 12914Combined sources
Beta strandi134 – 1429Combined sources
Helixi144 – 1474Combined sources
Beta strandi154 – 1585Combined sources
Helixi161 – 1655Combined sources
Beta strandi173 – 1775Combined sources
Helixi185 – 1873Combined sources
Helixi191 – 20010Combined sources
Helixi201 – 2033Combined sources
Beta strandi207 – 2126Combined sources
Helixi216 – 2183Combined sources
Beta strandi221 – 2233Combined sources
Beta strandi229 – 2313Combined sources
Beta strandi233 – 24311Combined sources
Beta strandi246 – 2516Combined sources
Beta strandi254 – 2585Combined sources
Helixi259 – 2613Combined sources
Helixi267 – 28216Combined sources
Helixi287 – 29610Combined sources
Beta strandi303 – 3108Combined sources
Beta strandi313 – 3175Combined sources
Helixi324 – 3318Combined sources
Beta strandi340 – 3478Combined sources
Helixi350 – 3523Combined sources
Helixi354 – 3596Combined sources
Beta strandi362 – 37110Combined sources
Helixi374 – 3785Combined sources
Helixi382 – 3843Combined sources
Beta strandi385 – 3873Combined sources
Helixi391 – 3988Combined sources
Helixi399 – 4013Combined sources
Beta strandi407 – 4104Combined sources
Beta strandi413 – 4164Combined sources
Turni417 – 4193Combined sources
Beta strandi420 – 4223Combined sources
Helixi423 – 43715Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1E0DX-ray2.40A2-438[»]
1EEHX-ray1.90A2-438[»]
1UAGX-ray1.95A2-438[»]
2JFFX-ray1.89A2-438[»]
2JFGX-ray1.52A2-438[»]
2JFHX-ray1.97A2-438[»]
2UAGX-ray1.70A2-438[»]
2UUOX-ray2.50A2-438[»]
2UUPX-ray1.88A2-438[»]
2VTDX-ray1.94A1-438[»]
2VTEX-ray2.20A1-438[»]
2WJPX-ray1.60A2-438[»]
2X5OX-ray1.46A2-438[»]
2XPCX-ray1.49A2-438[»]
2Y1OX-ray1.49A1-438[»]
2Y66X-ray1.49A1-438[»]
2Y67X-ray1.85A1-438[»]
2Y68X-ray1.49A1-438[»]
3UAGX-ray1.77A2-438[»]
4UAGX-ray1.66A2-438[»]
ProteinModelPortaliP14900.
SMRiP14900. Positions 2-438.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP14900.

Family & Domainsi

Sequence similaritiesi

Belongs to the MurCDEF family.Curated

Phylogenomic databases

eggNOGiCOG0771.
HOGENOMiHOG000049427.
InParanoidiP14900.
KOiK01925.
OMAiYCFGQDG.
OrthoDBiEOG6PKFCR.
PhylomeDBiP14900.

Family and domain databases

Gene3Di3.40.1190.10. 1 hit.
3.40.50.720. 1 hit.
3.90.190.20. 1 hit.
HAMAPiMF_00639. MurD.
InterProiIPR004101. Mur_ligase_C.
IPR013221. Mur_ligase_cen.
IPR016040. NAD(P)-bd_dom.
IPR005762. UDP-N-AcMur-Glu_ligase.
[Graphical view]
PfamiPF02875. Mur_ligase_C. 1 hit.
PF08245. Mur_ligase_M. 1 hit.
[Graphical view]
SUPFAMiSSF53244. SSF53244. 1 hit.
SSF53623. SSF53623. 1 hit.
TIGRFAMsiTIGR01087. murD. 1 hit.

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P14900-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MADYQGKNVV IIGLGLTGLS CVDFFLARGV TPRVMDTRMT PPGLDKLPEA
60 70 80 90 100
VERHTGSLND EWLMAADLIV ASPGIALAHP SLSAAADAGI EIVGDIELFC
110 120 130 140 150
REAQAPIVAI TGSNGKSTVT TLVGEMAKAA GVNVGVGGNI GLPALMLLDD
160 170 180 190 200
ECELYVLELS SFQLETTSSL QAVAATILNV TEDHMDRYPF GLQQYRAAKL
210 220 230 240 250
RIYENAKVCV VNADDALTMP IRGADERCVS FGVNMGDYHL NHQQGETWLR
260 270 280 290 300
VKGEKVLNVK EMKLSGQHNY TNALAALALA DAAGLPRASS LKALTTFTGL
310 320 330 340 350
PHRFEVVLEH NGVRWINDSK ATNVGSTEAA LNGLHVDGTL HLLLGGDGKS
360 370 380 390 400
ADFSPLARYL NGDNVRLYCF GRDGAQLAAL RPEVAEQTET MEQAMRLLAP
410 420 430
RVQPGDMVLL SPACASLDQF KNFEQRGNEF ARLAKELG
Length:438
Mass (Da):46,974
Last modified:January 23, 2007 - v3
Checksum:i11C64782C098F761
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti28 – 281R → A in CAA35611. (PubMed:2129548)Curated
Sequence conflicti174 – 1741A → T in CAA35611. (PubMed:2129548)Curated
Sequence conflicti276 – 2772AL → RV in CAA35611. (PubMed:2129548)Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X51584 Genomic DNA. Translation: CAA35933.1.
X17609 Genomic DNA. Translation: CAA35611.1.
X55034 Genomic DNA. Translation: CAA38865.1.
M30807 Genomic DNA. Translation: AAA83858.1.
U00096 Genomic DNA. Translation: AAC73199.1.
AP009048 Genomic DNA. Translation: BAB96656.1.
PIRiS08396. CEECME.
RefSeqiNP_414630.1. NC_000913.3.
YP_488393.1. NC_007779.1.

Genome annotation databases

EnsemblBacteriaiAAC73199; AAC73199; b0088.
BAB96656; BAB96656; BAB96656.
GeneIDi12932483.
944818.
KEGGiecj:Y75_p0087.
eco:b0088.
PATRICi32115281. VBIEscCol129921_0092.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X51584 Genomic DNA. Translation: CAA35933.1 .
X17609 Genomic DNA. Translation: CAA35611.1 .
X55034 Genomic DNA. Translation: CAA38865.1 .
M30807 Genomic DNA. Translation: AAA83858.1 .
U00096 Genomic DNA. Translation: AAC73199.1 .
AP009048 Genomic DNA. Translation: BAB96656.1 .
PIRi S08396. CEECME.
RefSeqi NP_414630.1. NC_000913.3.
YP_488393.1. NC_007779.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1E0D X-ray 2.40 A 2-438 [» ]
1EEH X-ray 1.90 A 2-438 [» ]
1UAG X-ray 1.95 A 2-438 [» ]
2JFF X-ray 1.89 A 2-438 [» ]
2JFG X-ray 1.52 A 2-438 [» ]
2JFH X-ray 1.97 A 2-438 [» ]
2UAG X-ray 1.70 A 2-438 [» ]
2UUO X-ray 2.50 A 2-438 [» ]
2UUP X-ray 1.88 A 2-438 [» ]
2VTD X-ray 1.94 A 1-438 [» ]
2VTE X-ray 2.20 A 1-438 [» ]
2WJP X-ray 1.60 A 2-438 [» ]
2X5O X-ray 1.46 A 2-438 [» ]
2XPC X-ray 1.49 A 2-438 [» ]
2Y1O X-ray 1.49 A 1-438 [» ]
2Y66 X-ray 1.49 A 1-438 [» ]
2Y67 X-ray 1.85 A 1-438 [» ]
2Y68 X-ray 1.49 A 1-438 [» ]
3UAG X-ray 1.77 A 2-438 [» ]
4UAG X-ray 1.66 A 2-438 [» ]
ProteinModelPortali P14900.
SMRi P14900. Positions 2-438.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

DIPi DIP-10279N.
IntActi P14900. 8 interactions.
MINTi MINT-1269366.
STRINGi 511145.b0088.

Chemistry

BindingDBi P14900.
ChEMBLi CHEMBL4732.

Proteomic databases

PaxDbi P14900.
PRIDEi P14900.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAC73199 ; AAC73199 ; b0088 .
BAB96656 ; BAB96656 ; BAB96656 .
GeneIDi 12932483.
944818.
KEGGi ecj:Y75_p0087.
eco:b0088.
PATRICi 32115281. VBIEscCol129921_0092.

Organism-specific databases

EchoBASEi EB0615.
EcoGenei EG10620. murD.

Phylogenomic databases

eggNOGi COG0771.
HOGENOMi HOG000049427.
InParanoidi P14900.
KOi K01925.
OMAi YCFGQDG.
OrthoDBi EOG6PKFCR.
PhylomeDBi P14900.

Enzyme and pathway databases

UniPathwayi UPA00219 .
BioCyci EcoCyc:UDP-NACMURALA-GLU-LIG-MONOMER.
ECOL316407:JW0086-MONOMER.
MetaCyc:UDP-NACMURALA-GLU-LIG-MONOMER.
SABIO-RK P14900.

Miscellaneous databases

EvolutionaryTracei P14900.
PROi P14900.

Gene expression databases

Genevestigatori P14900.

Family and domain databases

Gene3Di 3.40.1190.10. 1 hit.
3.40.50.720. 1 hit.
3.90.190.20. 1 hit.
HAMAPi MF_00639. MurD.
InterProi IPR004101. Mur_ligase_C.
IPR013221. Mur_ligase_cen.
IPR016040. NAD(P)-bd_dom.
IPR005762. UDP-N-AcMur-Glu_ligase.
[Graphical view ]
Pfami PF02875. Mur_ligase_C. 1 hit.
PF08245. Mur_ligase_M. 1 hit.
[Graphical view ]
SUPFAMi SSF53244. SSF53244. 1 hit.
SSF53623. SSF53623. 1 hit.
TIGRFAMsi TIGR01087. murD. 1 hit.
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Nucleotide sequence involving murD and an open reading frame ORF-Y spacing murF and ftsW in Escherichia coli."
    Ikeda M., Wachi M., Ishino F., Matsuhashi M.
    Nucleic Acids Res. 18:1058-1058(1990) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: K12.
  2. "Nucleotide sequence of the murD gene encoding the UDP-MurNAc-L-Ala-D-Glu synthetase of Escherichia coli."
    Mengin-Lecreulx D., van Heijenoort J.
    Nucleic Acids Res. 18:183-183(1990) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: K12.
  3. Flouret B.
    Submitted (MAR-1990) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  4. "Systematic sequencing of the Escherichia coli genome: analysis of the 0-2.4 min region."
    Yura T., Mori H., Nagai H., Nagata T., Ishihama A., Fujita N., Isono K., Mizobuchi K., Nakata A.
    Nucleic Acids Res. 20:3305-3308(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12.
  5. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  6. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
    Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
    Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  7. "Structural similarity among Escherichia coli FtsW and RodA proteins and Bacillus subtilis SpoVE protein, which function in cell division, cell elongation, and spore formation, respectively."
    Ikeda M., Sato T., Wachi M., Jung H.K., Ishino F., Kobayashi Y., Matsuhashi M.
    J. Bacteriol. 171:6375-6378(1989) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 376-438.
    Strain: K12.
  8. "Over-production, purification and properties of the uridine diphosphate N-acetylmuramoyl-L-alanine:D-glutamate ligase from Escherichia coli."
    Pratviel-Sosa F., Mengin-Lecreulx D., van Heijenoort J.
    Eur. J. Biochem. 202:1169-1176(1991) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 2-20.
    Strain: K12.
  9. "Crystal structure of UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase from Escherichia coli."
    Bertrand J.A., Auger G., Fanchon E., Martin L., Blanot D., van Heijenoort J., Dideberg O.
    EMBO J. 16:3416-3425(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.95 ANGSTROMS).
  10. "'Open' structures of MurD: domain movements and structural similarities with folylpolyglutamate synthetase."
    Bertrand J.A., Fanchon E., Martin L., Chantalat L., Auger G., Blanot D., van Heijenoort J., Dideberg O.
    J. Mol. Biol. 301:1257-1266(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.9 ANGSTROMS).

Entry informationi

Entry nameiMURD_ECOLI
AccessioniPrimary (citable) accession number: P14900
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 1, 1990
Last sequence update: January 23, 2007
Last modified: November 26, 2014
This is version 159 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3