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76  structures 7887  species 0  interactions 14931  sequences 167  architectures

Family: SKI (PF01202)

Summary: Shikimate kinase

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This is the Wikipedia entry entitled "Shikimate kinase". More...

Shikimate kinase Edit Wikipedia article

Shikimate kinase
1e6c opm.png
Shikimate kinase of Erwinia chrysanthemi
Pfam clanCL0023
OPM superfamily124
OPM protein1e6c
shikimate kinase
Shikimate kinase cartoon.png
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
EC number2.7.1.71
CAS number9031-51-0
IntEnzIntEnz view
ExPASyNiceZyme view
MetaCycmetabolic pathway
PDB structuresRCSB PDB PDBe PDBsum
Gene OntologyAmiGO / QuickGO

Shikimate kinase (EC 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,[1] 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:

reaction catalyzed by shikimate kinase
A space-filling model of shikimate kinase with ADP and shikimate 3-phosphate bound.

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



  1. ^ Herrmann, K. M.; Weaver, L. M. (1999). "The Shikimate Pathway". Annual Review of Plant Physiology and Plant Molecular Biology. 50: 473–503. doi:10.1146/annurev.arplant.50.1.473. PMID 15012217.
  • 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.

This page is based on a Wikipedia article. The text is available under the Creative Commons Attribution/Share-Alike License.

This tab holds the annotation information that is stored in the Pfam database. As we move to using Wikipedia as our main source of annotation, the contents of this tab will be gradually replaced by the Wikipedia tab.

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Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR031322

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:

ATP + shikimate = ADP + shikimate-3-phosphate

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 ].

The N terminus of 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.

Domain organisation

Below is a listing of the unique domain organisations or architectures in which this domain is found. More...

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Pfam Clan

This family is a member of clan P-loop_NTPase (CL0023), which has the following description:

AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes [2].

The clan contains the following 243 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_9 AAA_PrkA ABC_ATPase ABC_tran ABC_tran_Xtn Adeno_IVa2 Adenylsucc_synt ADK AFG1_ATPase AIG1 APS_kinase Arf ArsA_ATPase ATP-synt_ab ATP_bind_1 ATP_bind_2 ATPase ATPase_2 Bac_DnaA BCA_ABC_TP_C Beta-Casp bpMoxR Cas_Csn2 Cas_St_Csn2 CbiA CBP_BcsQ CDC73_C CENP-M CFTR_R CLP1_P CMS1 CoaE CobA_CobO_BtuR CobU cobW CPT CSM2 CTP_synth_N Cytidylate_kin Cytidylate_kin2 DAP3 DBINO DEAD DEAD_2 DLIC DNA_pack_C DNA_pack_N DNA_pol3_delta DNA_pol3_delta2 DnaB_C dNK DO-GTPase1 DO-GTPase2 DUF1611 DUF1726 DUF2075 DUF2326 DUF2478 DUF257 DUF2791 DUF2813 DUF3584 DUF463 DUF5906 DUF6079 DUF815 DUF853 DUF87 DUF927 Dynamin_N Dynein_heavy Elong_Iki1 ELP6 ERCC3_RAD25_C Exonuc_V_gamma FeoB_N Fer4_NifH Flavi_DEAD FTHFS FtsK_SpoIIIE G-alpha Gal-3-0_sulfotr GBP GBP_C 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 HSA HydF_dimer HydF_tetramer Hydin_ADK IIGP IPPT IPT iSTAND IstB_IS21 KAP_NTPase KdpD Kinase-PPPase Kinesin KTI12 LAP1C Lon_2 LpxK MCM MeaB MEDS Mg_chelatase Microtub_bd MipZ MMR_HSR1 MMR_HSR1_C MobB MukB Mur_ligase_M MutS_V Myosin_head NACHT NAT_N NB-ARC NOG1 NTPase_1 NTPase_P4 OPA1_C ORC3_N P-loop_TraG ParA Parvo_NS1 PAXNEB PduV-EutP PhoH PIF1 Ploopntkinase1 Ploopntkinase2 Ploopntkinase3 Podovirus_Gp16 Polyoma_lg_T_C Pox_A32 PPK2 PPV_E1_C PRK PSY3 Rad17 Rad51 Ras RecA ResIII RHD3 RhoGAP_pG1_pG2 RHSP RNA12 RNA_helicase Roc RsgA_GTPase RuvB_N SbcCD_C SecA_DEAD Septin Sigma54_activ_2 Sigma54_activat SKI SMC_N SNF2-rel_dom Spore_III_AA Spore_IV_A SRP54 SRPRB SulA Sulfotransfer_1 Sulfotransfer_2 Sulfotransfer_3 Sulfotransfer_4 Sulfotransfer_5 Sulphotransf SWI2_SNF2 T2SSE T4SS-DNA_transf Terminase_1 Terminase_3 Terminase_6N Terminase_GpA Thymidylate_kin TIP49 TK TniB Torsin TraG-D_C tRNA_lig_kinase TrwB_AAD_bind TsaE UvrB UvrD-helicase UvrD_C UvrD_C_2 Viral_helicase1 VirC1 VirE YqeC Zeta_toxin Zot


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Curation and family details

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Seed source: Prosite
Previous IDs: none
Type: Domain
Sequence Ontology: SO:0000417
Author: Finn RD , Bateman A
Number in seed: 78
Number in full: 14931
Average length of the domain: 154.00 aa
Average identity of full alignment: 23 %
Average coverage of the sequence by the domain: 47.09 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 22.1 22.1
Trusted cut-off 22.1 22.1
Noise cut-off 22.0 22.0
Model length: 158
Family (HMM) version: 24
Download: download the raw HMM for this family

Species distribution

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Colour assignments

Archea Archea Eukaryota Eukaryota
Bacteria Bacteria Other sequences Other sequences
Viruses Viruses Unclassified Unclassified
Viroids Viroids Unclassified sequence Unclassified sequence


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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 76 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 sequence.

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AlphaFold Structure Predictions

The list of proteins below match this family and have AlphaFold predicted structures. Click on the protein accession to view the predicted structure.

Protein Predicted structure External Information
A0A0P0WRJ9 View 3D Structure Click here
A0A0R0F8S5 View 3D Structure Click here
A0A0R0IZ75 View 3D Structure Click here
A0A0R0JH37 View 3D Structure Click here
A0A0R0L553 View 3D Structure Click here
A0A1D6DWX6 View 3D Structure Click here
A0A1D6HKK5 View 3D Structure Click here
A0A1D6K9Y9 View 3D Structure Click here
A0A1D6KDZ4 View 3D Structure Click here
B4FPS0 View 3D Structure Click here
C0P5L7 View 3D Structure Click here
E9PTK4 View 3D Structure Click here
I1JD64 View 3D Structure Click here
I1JY82 View 3D Structure Click here
I1JY85 View 3D Structure Click here
I1K4P9 View 3D Structure Click here
I1KT94 View 3D Structure Click here
I1MNV5 View 3D Structure Click here
K7MRW8 View 3D Structure Click here
O61968 View 3D Structure Click here
O82290 View 3D Structure Click here
P08566 View 3D Structure Click here
P0A6D7 View 3D Structure Click here
P0A6E1 View 3D Structure Click here
P39208 View 3D Structure Click here
P46859 View 3D Structure Click here
P9WPY3 View 3D Structure Click here
Q0JRG4 View 3D Structure Click here
Q10242 View 3D Structure Click here
Q2FY32 View 3D Structure Click here
Q32PY9 View 3D Structure Click here
Q336N7 View 3D Structure Click here
Q4DF47 View 3D Structure Click here
Q4DG54 View 3D Structure Click here
Q54PI5 View 3D Structure Click here
Q59TB1 View 3D Structure Click here
Q5AME2 View 3D Structure Click here
Q5NTH3 View 3D Structure Click here
Q5NTH4 View 3D Structure Click here
Q5T6J7 View 3D Structure Click here
Q7X7H9 View 3D Structure Click here
Q8BH55 View 3D Structure Click here
Q8GY88 View 3D Structure Click here
Q8IYQ7 View 3D Structure Click here
Q8R0J8 View 3D Structure Click here
Q9LW20 View 3D Structure Click here
Q9P7R0 View 3D Structure Click here
Q9SJ05 View 3D Structure Click here
Q9SLE0 View 3D Structure Click here