Summary: Shikimate kinase
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Shikimate kinase Edit Wikipedia article
Shikimate kinase of Erwinia chrysanthemi
A cartoon representation of shikimate kinase from Mycobacterium tuberculosis. α-Helices are shown in red, the central β-sheet in yellow, and loops in green
|PDB structures||RCSB PDB PDBe PDBsum|
|Gene Ontology||AmiGO / EGO|
Shikimate kinase (EC 22.214.171.124) is an enzyme that catalyzes the ATP-dependent phosphorylation of shikimate to form shikimate 3-phosphate. This reaction is the fifth step of the shikimate pathway, which is used by plants and bacteria to synthesize the common precursor of aromatic amino acids and secondary metabolites. The systematic name of this enzyme class is ATP:shikimate 3-phosphotransferase. Other names in common use include shikimate kinase (phosphorylating), and shikimate kinase II.
The shikimate pathway consists of seven enzymatic reactions by which phosphoenolpyruvate and erythrose 4-phosphate are converted to chorismate, the common precursor of the aromatic amino acids phenylalanine, tyrosine, and tryptophan. The aromatic amino acids are used in the synthesis of proteins and, in plants, fungi, and bacteria, give rise to a number of other specialized metabolites, such as phenylpropanoids and alkaloids. Chorismate and several other intermediates of the pathway serve as precursors for a number of other metabolites, such as folates, quinates, and quinones. The four enzymes that precede shikimate kinase in the pathway are DAHP synthase, 3-dehydroquinate synthase, 3-dehydroquinate dehydratase, and shikimate dehydrogenase, and the two that follow it are EPSP synthase and chorismate synthase. The shikimate pathway is not found in humans and other animals, which must obtain the aromatic amino acids from their food.
The reaction catalyzed by shikimate kinase is shown below:
This reaction involves the transfer of a phosphate group from ATP to the 3-hydroxyl group of shikimate. Shikimate kinase thus has two substrates, shikimate and ATP, and two products, shikimate 3-phosphate and ADP.
Human proteins containing this domain
- Morell H, Sprinson DB (1968). "Shikimate kinase isoenzymes in Salmonella typhimurium". J. Biol. Chem. 243 (3): 676–7. PMID 4866525.
- Hartmann MD, Bourenkov GP, Oberschall A, Strizhov N, Bartunik HD (2006). "Mechanism of phosphoryl transfer catalyzed by shikimate kinase from Mycobacterium tuberculosis.". J. Mol. Biol. 364 (3): 411–23. doi:10.1016/j.jmb.2006.09.001. PMID 17020768.
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Internal database links
|SCOOP:||dNK Cytidylate_kin TFIIA_gamma_N ATP_bind_2 DUF617 DUF1186 CHDNT Nop16 Cytidylate_kin2|
|Similarity to PfamA using HHSearch:||AAA CoaE APS_kinase dNK Thymidylate_kin Cytidylate_kin Cytidylate_kin2 AAA_17 AAA_18 AAA_33|
External database links
This tab holds annotation information from the InterPro database.
InterPro entry IPR000623
Shikimate kinase (EC) catalyses the fifth step in the biosynthesis of aromatic amino acids from chorismate (the so-called shikimate pathway) [PUBMED:7612934]. The enzyme catalyses the following reaction:
The protein is found in bacteria (gene aroK or aroL), plants and fungi (where it is part of a multifunctional enzyme that catalyses five consecutive steps in this pathway). In 1994, the 3D structure of shikimate kinase was predicted to be very close to that of adenylate kinase, suggesting a functional similarity as well as an evolutionary relationship [PUBMED:7703851]. This prediction has since been confirmed experimentally. The protein is reported to possess an alpha/beta fold, consisting of a central sheet of five parallel beta-strands flanked by alpha-helices. Such a topology is very similar to that of adenylate kinase [PUBMED:9600856].
N-terminal of the threonine synthase-like 1 from metazoan shares protein sequence similarity with shikimate kinase and is included in this entry. However, their functions may be different.
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AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes .
The clan contains the following 198 members:6PF2K AAA AAA-ATPase_like AAA_10 AAA_11 AAA_12 AAA_13 AAA_14 AAA_15 AAA_16 AAA_17 AAA_18 AAA_19 AAA_2 AAA_21 AAA_22 AAA_23 AAA_24 AAA_25 AAA_26 AAA_27 AAA_28 AAA_29 AAA_3 AAA_30 AAA_31 AAA_32 AAA_33 AAA_34 AAA_35 AAA_5 AAA_6 AAA_7 AAA_8 AAA_PrkA ABC_ATPase ABC_tran Adeno_IVa2 Adenylsucc_synt ADK AFG1_ATPase AIG1 APS_kinase Arch_ATPase Arf ArgK ArsA_ATPase ATP-synt_ab ATP_bind_1 ATP_bind_2 Bac_DnaA CbiA CBP_BcsQ CDC73_C CLP1_P CMS1 CoaE CobA_CobO_BtuR CobU cobW CPT CTP_synth_N Cytidylate_kin Cytidylate_kin2 DAP3 DEAD DEAD_2 DLIC DNA_pack_C DNA_pack_N DNA_pol3_delta DNA_pol3_delta2 DnaB_C dNK DUF1611 DUF2075 DUF2478 DUF258 DUF2791 DUF2813 DUF3584 DUF463 DUF815 DUF853 DUF87 DUF927 Dynamin_N ERCC3_RAD25_C Exonuc_V_gamma FeoB_N Fer4_NifH Flavi_DEAD FTHFS FtsK_SpoIIIE G-alpha Gal-3-0_sulfotr GBP GTP_EFTU Gtr1_RagA Guanylate_kin GvpD HDA2-3 Helicase_C Helicase_C_2 Helicase_C_4 Helicase_RecD Herpes_Helicase Herpes_ori_bp Herpes_TK IIGP IPPT IPT IstB_IS21 KaiC KAP_NTPase KdpD Kinesin Kinesin-relat_1 Kinesin-related KTI12 Lon_2 LpxK MCM MEDS Mg_chelatase Microtub_bd MipZ MMR_HSR1 MobB MukB MutS_V Myosin_head NACHT NB-ARC NOG1 NTPase_1 NTPase_P4 ParA Parvo_NS1 PAXNEB PduV-EutP PhoH PIF1 Podovirus_Gp16 Polyoma_lg_T_C Pox_A32 PPK2 PPV_E1_C PRK Rad17 Rad51 Ras RecA ResIII RHD3 RHSP RNA12 RNA_helicase Roc RuvB_N SbcCD_C SecA_DEAD Septin Sigma54_activ_2 Sigma54_activat SKI SMC_N SNF2_N Spore_IV_A SRP54 SRPRB Sulfotransfer_1 Sulfotransfer_2 Sulfotransfer_3 Sulphotransf T2SSE T4SS-DNA_transf Terminase_1 Terminase_3 Terminase_6 Terminase_GpA Thymidylate_kin TIP49 TK TniB Torsin TraG-D_C tRNA_lig_kinase TrwB_AAD_bind TsaE UvrD-helicase UvrD_C UvrD_C_2 Viral_helicase1 VirC1 VirE Zeta_toxin Zot
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Curation and family details
|Author:||Finn RD, Bateman A|
|Number in seed:||84|
|Number in full:||30924|
|Average length of the domain:||155.50 aa|
|Average identity of full alignment:||28 %|
|Average coverage of the sequence by the domain:||76.08 %|
|HMM build commands:||
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 80369284 -E 1000 --cpu 4 HMM pfamseq
|Family (HMM) version:||18|
|Download:||download the raw HMM for this family|
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We determine these interactions using iPfam, which considers the interactions between residues in three-dimensional protein structures and maps those interactions back to Pfam families. You can find more information about the iPfam algorithm in the journal article that accompanies the website.
For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the PDBe group, to allow us to map Pfam domains onto UniProt sequences and three-dimensional protein structures. The table below shows the structures on which the SKI domain has been found. There are 73 instances of this domain found in the PDB. Note that there may be multiple copies of the domain in a single PDB structure, since many structures contain multiple copies of the same protein seqence.
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