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Protein

Pectinesterase A

Gene

pemA

Organism
Dickeya dadantii (strain 3937) (Erwinia chrysanthemi (strain 3937))
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Involved in maceration and soft-rotting of plant tissue.

Catalytic activityi

Pectin + n H2O = n methanol + pectate.

Pathwayi: pectin degradation

This protein is involved in step 1 of the subpathway that synthesizes 2-dehydro-3-deoxy-D-gluconate from pectin.
Proteins known to be involved in the 5 steps of the subpathway in this organism are:
  1. Pectinesterase B (pemB), Pectinesterase A (pemA)
  2. Pectate lyase L (pelL), Pectate lyase A (pelA), Pectate lyase E (pelE)
  3. Oligogalacturonate lyase (ogl)
  4. 4-deoxy-L-threo-5-hexosulose-uronate ketol-isomerase (kduI)
  5. 2-dehydro-3-deoxy-D-gluconate 5-dehydrogenase (kduD)
This subpathway is part of the pathway pectin degradation, which is itself part of Glycan metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes 2-dehydro-3-deoxy-D-gluconate from pectin, the pathway pectin degradation and in Glycan metabolism.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei109Substrate1
Binding sitei153Substrate1
Sitei177Transition state stabilizer1
Active sitei178Proton donor1
Active sitei199Nucleophile1
Binding sitei219Substrate1
Binding sitei226Substrate1
Binding sitei230Substrate1
Binding sitei267Substrate1
Binding sitei269Substrate1
Binding sitei272Substrate; via amide nitrogen and carbonyl oxygen1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionAspartyl esterase, Hydrolase
Biological processCell wall biogenesis/degradation

Enzyme and pathway databases

BioCyciDDAD198628:DDA3937_RS15630-MONOMER
MetaCyc:MONOMER-15656
UniPathwayi
UPA00545;UER00823

Names & Taxonomyi

Protein namesi
Recommended name:
Pectinesterase A (EC:3.1.1.11)
Short name:
PE A
Alternative name(s):
Pectin methylesterase A
Gene namesi
Name:pemA
Synonyms:pem
Ordered Locus Names:Dda3937_03374
OrganismiDickeya dadantii (strain 3937) (Erwinia chrysanthemi (strain 3937))
Taxonomic identifieri198628 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesPectobacteriaceaeDickeya
Proteomesi
  • UP000006859 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Keywords - Cellular componenti

Secreted

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi153Q → A: Strong decrease in affinity for substrate. 1 Publication1
Mutagenesisi177Q → A: Strong decrease in catalytic activity. 1 Publication1
Mutagenesisi178D → A: Loss of activity. 1 Publication1
Mutagenesisi198V → A: Strong decrease in catalytic activity. 1 Publication1
Mutagenesisi199D → A: Loss of activity. 1 Publication1
Mutagenesisi267R → A: Loss of activity. 1 Publication1
Mutagenesisi269W → A: Loss of activity. 1 Publication1
Mutagenesisi272T → A: Decreases affinity for substrate. 1 Publication1
Mutagenesisi306M → A: Strong decrease in catalytic activity. Decreases affinity for substrate. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 24By similarityAdd BLAST24
ChainiPRO_000023303325 – 366Pectinesterase AAdd BLAST342

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi192 ↔ 2121 Publication

Keywords - PTMi

Disulfide bond

Interactioni

Subunit structurei

Monomer.

Protein-protein interaction databases

STRINGi198628.Dda3937_03374

Structurei

Secondary structure

1366
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliP0C1A9
SMRiP0C1A9
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP0C1A9

Family & Domainsi

Sequence similaritiesi

Belongs to the pectinesterase family.Curated

Keywords - Domaini

Signal

Phylogenomic databases

eggNOGiENOG4105NBR Bacteria
COG4677 LUCA
HOGENOMiHOG000217409
KOiK01051
OMAiNRVAWCR
OrthoDBiPOG091H0DD6

Family and domain databases

Gene3Di2.160.20.10, 1 hit
InterProiView protein in InterPro
IPR012334 Pectin_lyas_fold
IPR011050 Pectin_lyase_fold/virulence
IPR033131 Pectinesterase_Asp_AS
IPR000070 Pectinesterase_cat
PfamiView protein in Pfam
PF01095 Pectinesterase, 1 hit
SUPFAMiSSF51126 SSF51126, 1 hit
PROSITEiView protein in PROSITE
PS00503 PECTINESTERASE_2, 1 hit

Sequencei

Sequence statusi: Complete.

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

P0C1A9-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MLKTISGTLA LSLIIAASVH QAQAATTYNA VVSKSSSDGK TFKTIADAIA
60 70 80 90 100
SAPAGSTPFV ILIKNGVYNE RLTITRNNLH LKGESRNGAV IAAATAAGTL
110 120 130 140 150
KSDGSKWGTA GSSTITISAK DFSAQSLTIR NDFDFPANQA KSDSDSSKIK
160 170 180 190 200
DTQAVALYVT KSGDRAYFKD VSLVGYQDTL YVSGGRSFFS DCRISGTVDF
210 220 230 240 250
IFGDGTALFN NCDLVSRYRA DVKSGNVSGY LTAPSTNINQ KYGLVITNSR
260 270 280 290 300
VIRESDSVPA KSYGLGRPWH PTTTFSDGRY ADPNAIGQTV FLNTSMDNHI
310 320 330 340 350
YGWDKMSGKD KNGNTIWFNP EDSRFFEYKS YGAGATVSKD RRQLTDAQAA
360
EYTQSKVLGD WTPTLP
Length:366
Mass (Da):39,373
Last modified:April 18, 2006 - v1
Checksum:iC67C1A4D2C04735F
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L07644 Genomic DNA Translation: AAA24852.1
CP002038 Genomic DNA Translation: ADM99554.1
PIRiJN0799
RefSeqiWP_013318985.1, NC_014500.1

Genome annotation databases

EnsemblBacteriaiADM99554; ADM99554; Dda3937_03374
GeneIDi9734805
KEGGiddd:Dda3937_03374
PATRICifig|198628.6.peg.3312

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L07644 Genomic DNA Translation: AAA24852.1
CP002038 Genomic DNA Translation: ADM99554.1
PIRiJN0799
RefSeqiWP_013318985.1, NC_014500.1

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2NSPX-ray1.70A/B25-366[»]
2NSTX-ray1.70A/B25-366[»]
2NT6X-ray1.70A/B25-366[»]
2NT9X-ray1.90A/B25-366[»]
2NTBX-ray1.80A/B25-366[»]
2NTPX-ray1.70A/B25-366[»]
2NTQX-ray1.80A/B25-366[»]
ProteinModelPortaliP0C1A9
SMRiP0C1A9
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi198628.Dda3937_03374

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiADM99554; ADM99554; Dda3937_03374
GeneIDi9734805
KEGGiddd:Dda3937_03374
PATRICifig|198628.6.peg.3312

Phylogenomic databases

eggNOGiENOG4105NBR Bacteria
COG4677 LUCA
HOGENOMiHOG000217409
KOiK01051
OMAiNRVAWCR
OrthoDBiPOG091H0DD6

Enzyme and pathway databases

UniPathwayi
UPA00545;UER00823

BioCyciDDAD198628:DDA3937_RS15630-MONOMER
MetaCyc:MONOMER-15656

Miscellaneous databases

EvolutionaryTraceiP0C1A9

Family and domain databases

Gene3Di2.160.20.10, 1 hit
InterProiView protein in InterPro
IPR012334 Pectin_lyas_fold
IPR011050 Pectin_lyase_fold/virulence
IPR033131 Pectinesterase_Asp_AS
IPR000070 Pectinesterase_cat
PfamiView protein in Pfam
PF01095 Pectinesterase, 1 hit
SUPFAMiSSF51126 SSF51126, 1 hit
PROSITEiView protein in PROSITE
PS00503 PECTINESTERASE_2, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiPMEA_DICD3
AccessioniPrimary (citable) accession number: P0C1A9
Secondary accession number(s): E0SAZ5, P07863
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 18, 2006
Last sequence update: April 18, 2006
Last modified: June 20, 2018
This is version 65 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
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Main funding by: National Institutes of Health

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