Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Biosynthetic arginine decarboxylase

Gene

speA

Organism
Vibrio vulnificus (strain YJ016)
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the biosynthesis of agmatine from arginine.UniRule annotation

Catalytic activityi

L-arginine = agmatine + CO2.UniRule annotation

Cofactori

Protein has several cofactor binding sites:
  • Mg2+UniRule annotation
  • pyridoxal 5'-phosphateUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Decarboxylase, Lyase

Keywords - Biological processi

Polyamine biosynthesis, Spermidine biosynthesis

Keywords - Ligandi

Magnesium, Metal-binding, Pyridoxal phosphate

Enzyme and pathway databases

BioCyciVVUL196600:GJ9W-2043-MONOMER.
BRENDAi4.1.1.19. 7786.

Names & Taxonomyi

Protein namesi
Recommended name:
Biosynthetic arginine decarboxylaseUniRule annotation (EC:4.1.1.19UniRule annotation)
Short name:
ADCUniRule annotation
Gene namesi
Name:speAUniRule annotation
Ordered Locus Names:VV1986
OrganismiVibrio vulnificus (strain YJ016)
Taxonomic identifieri196600 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
ProteomesiUP000002675 Componenti: Chromosome I

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 640640Biosynthetic arginine decarboxylasePRO_0000149986Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei105 – 1051N6-(pyridoxal phosphate)lysineUniRule annotation

Interactioni

Protein-protein interaction databases

STRINGi196600.VV1986.

Structurei

Secondary structure

1
640
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi11 – 188Combined sources
Helixi21 – 244Combined sources
Beta strandi27 – 304Combined sources
Beta strandi36 – 383Combined sources
Helixi50 – 5910Combined sources
Beta strandi64 – 696Combined sources
Helixi71 – 9222Combined sources
Beta strandi98 – 1003Combined sources
Helixi104 – 1063Combined sources
Helixi110 – 12213Combined sources
Beta strandi129 – 1324Combined sources
Helixi135 – 14410Combined sources
Beta strandi146 – 1483Combined sources
Beta strandi151 – 1544Combined sources
Helixi160 – 17112Combined sources
Beta strandi175 – 1806Combined sources
Helixi185 – 19612Combined sources
Beta strandi201 – 2066Combined sources
Turni213 – 2164Combined sources
Beta strandi218 – 2214Combined sources
Helixi230 – 24213Combined sources
Helixi246 – 2483Combined sources
Beta strandi249 – 2535Combined sources
Beta strandi258 – 2603Combined sources
Helixi263 – 28220Combined sources
Beta strandi289 – 2913Combined sources
Helixi315 – 33319Combined sources
Beta strandi339 – 3424Combined sources
Helixi345 – 3495Combined sources
Helixi350 – 3523Combined sources
Beta strandi353 – 36311Combined sources
Helixi379 – 38911Combined sources
Helixi397 – 41923Combined sources
Helixi425 – 44521Combined sources
Helixi453 – 46311Combined sources
Beta strandi466 – 4727Combined sources
Helixi474 – 4774Combined sources
Helixi479 – 4846Combined sources
Beta strandi490 – 4945Combined sources
Helixi496 – 4983Combined sources
Beta strandi501 – 51111Combined sources
Beta strandi520 – 5223Combined sources
Beta strandi525 – 5328Combined sources
Beta strandi542 – 5476Combined sources
Helixi552 – 5554Combined sources
Helixi559 – 5613Combined sources
Beta strandi566 – 5727Combined sources
Beta strandi578 – 5847Combined sources
Helixi589 – 5957Combined sources
Helixi600 – 61415Combined sources
Helixi617 – 63216Combined sources
Beta strandi633 – 6364Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3N2OX-ray2.30A/B/C/D1-640[»]
ProteinModelPortaliQ7MK24.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ7MK24.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni290 – 30011Substrate-bindingUniRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the Orn/Lys/Arg decarboxylase class-II family. SpeA subfamily.UniRule annotation

Phylogenomic databases

eggNOGiCOG1166.
HOGENOMiHOG000029191.
KOiK01585.
OMAiIDHYVDG.
OrthoDBiEOG676Z0R.

Family and domain databases

Gene3Di2.40.37.10. 2 hits.
3.20.20.10. 1 hit.
HAMAPiMF_01417. SpeA.
InterProiIPR009006. Ala_racemase/Decarboxylase_C.
IPR002985. Arg_decrbxlase.
IPR022643. De-COase2_C.
IPR022644. De-COase2_N.
IPR000183. Orn/DAP/Arg_de-COase.
IPR029066. PLP-binding_barrel.
[Graphical view]
PfamiPF02784. Orn_Arg_deC_N. 1 hit.
PF00278. Orn_DAP_Arg_deC. 1 hit.
[Graphical view]
PIRSFiPIRSF001336. Arg_decrbxlase. 1 hit.
PRINTSiPR01180. ARGDCRBXLASE.
PR01179. ODADCRBXLASE.
SUPFAMiSSF51419. SSF51419. 1 hit.
TIGRFAMsiTIGR01273. speA. 1 hit.

Sequencei

Sequence statusi: Complete.

Q7MK24-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MRLDVEQTSK LDRVRADYNV HYWSQGFYGI DDQGEMYVSP RSDNAHQIQL
60 70 80 90 100
SKIVKQLEER QLNVPVLVRF PQILHQRVHS ICDAFNQAIE EYQYPNKYLL
110 120 130 140 150
VYPIKVNQQR EVVDEILASQ AQLETKQLGL EAGSKPELLA VLAMAQHASS
160 170 180 190 200
VIVCNGYKDR EYIRLALIGE KLGHKVFIVL EKMSELDLVL REAKSLGVTP
210 220 230 240 250
RLGIRIRLAS QGAGKWQASG GEKSKFGLSA SQVLNVISRL KKENQLDTLQ
260 270 280 290 300
LVHFHLGSQM ANIRDVRNGV NESARFYCEL RTLGANITYF DVGGGLAIDY
310 320 330 340 350
DGTRSQSSNS MNYGLVEYAR NIVNTVGDVC KDYKQPMPVI ISESGRSLTA
360 370 380 390 400
HHAVLISNVI GTETYKPETV TEPEEDFPLL LNNMWRSWLN LHNGTDARAL
410 420 430 440 450
IEIYNDTQSD LAEVHSQFAT GVLTLEHRAW AEQTSLRIYY ELNRLMSTKN
460 470 480 490 500
RFHRPILDEL SERLADKFFV NFSLFQSLPD SWGIDQVFPV LPLSGLQNAA
510 520 530 540 550
DRRAVMLDIT CDSDGAIDAY VDGQGIESTL PVPAWNEDEP YLMGFFLVGA
560 570 580 590 600
YQEILGDMHN LFGDTHSVVV NVGDQGEINI DFINEGDTVE DMMRYVHIDV
610 620 630 640
DQIRKNYHSL VSQRVDQEEQ QQILAELEQG LSGYTYLEDF
Length:640
Mass (Da):72,493
Last modified:December 15, 2003 - v1
Checksum:i3157EA5825FFF912
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000037 Genomic DNA. Translation: BAC94750.1.
RefSeqiNP_934779.1. NC_005139.1.
WP_011080224.1. NC_005139.1.

Genome annotation databases

EnsemblBacteriaiBAC94750; BAC94750; BAC94750.
KEGGivvy:VV1986.
PATRICi20170858. VBIVibVul40472_2014.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000037 Genomic DNA. Translation: BAC94750.1.
RefSeqiNP_934779.1. NC_005139.1.
WP_011080224.1. NC_005139.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3N2OX-ray2.30A/B/C/D1-640[»]
ProteinModelPortaliQ7MK24.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi196600.VV1986.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAC94750; BAC94750; BAC94750.
KEGGivvy:VV1986.
PATRICi20170858. VBIVibVul40472_2014.

Phylogenomic databases

eggNOGiCOG1166.
HOGENOMiHOG000029191.
KOiK01585.
OMAiIDHYVDG.
OrthoDBiEOG676Z0R.

Enzyme and pathway databases

BioCyciVVUL196600:GJ9W-2043-MONOMER.
BRENDAi4.1.1.19. 7786.

Miscellaneous databases

EvolutionaryTraceiQ7MK24.

Family and domain databases

Gene3Di2.40.37.10. 2 hits.
3.20.20.10. 1 hit.
HAMAPiMF_01417. SpeA.
InterProiIPR009006. Ala_racemase/Decarboxylase_C.
IPR002985. Arg_decrbxlase.
IPR022643. De-COase2_C.
IPR022644. De-COase2_N.
IPR000183. Orn/DAP/Arg_de-COase.
IPR029066. PLP-binding_barrel.
[Graphical view]
PfamiPF02784. Orn_Arg_deC_N. 1 hit.
PF00278. Orn_DAP_Arg_deC. 1 hit.
[Graphical view]
PIRSFiPIRSF001336. Arg_decrbxlase. 1 hit.
PRINTSiPR01180. ARGDCRBXLASE.
PR01179. ODADCRBXLASE.
SUPFAMiSSF51419. SSF51419. 1 hit.
TIGRFAMsiTIGR01273. speA. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: YJ016.

Entry informationi

Entry nameiSPEA_VIBVY
AccessioniPrimary (citable) accession number: Q7MK24
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 29, 2004
Last sequence update: December 15, 2003
Last modified: May 27, 2015
This is version 73 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.