PANDIT+

KeywordFamilyClanGene   

Entry: FtsK_SpoIIIE (PF01580) * this family does not contain any human sequence in the seed alignment although some of the annotation data are human specific [read more]

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Very fast search for clan entries. The
search can be done either by clan ID
(e.g. CL0192) or by clan name (e.g. GPCR_A).

Pfam summary

Description

FtsK/SpoIIIE family

FtsK has extensive sequence similarity to wide variety of proteins from prokaryotes and plasmids [1], termed the FtsK/SpoIIIE family. This domain contains a putative ATP binding P-loop motif. It is found in the FtsK cell division protein from E. coli Swiss:P46889 and the stage III sporulation protein E SpoIIIE Swiss:P21458 which has roles in regulation of prespore specific gene expression in B. subtilis. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification [1]. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer [1].
 
Literature1. Begg KJ, Dewar SJ, Donachie WD; J Bacteriol 1995;177:6211-6222.A new Escherichia coli cell division gene, ftsK. PUBMED:7592387
2. Wu LJ ,Errington J; Science 1994;264:572-575.Bacillus subtilis spoIIIE protein required for DNA segregation during asymmetric cell division. PUBMED:8160014
 
Clan

CL0023 (AAA)

The clan contains the following members: PF00004(AAA); PF03029(ATP_bind_1); PF02492(cobW); PF00270(DEAD); PF03796(DnaB_C); PF05127(DUF699); PF00009(GTP_EFTU); PF00271(Helicase_C); PF00225(Kinesin); PF03354(Terminase_1); PF02463(SMC_N); PF00448(SRP54); PF00685(Sulfotransfer_1); PF03567(Sulfotransfer_2); PF01591(6PF2K); PF00005(ABC_tran); PF02456(Adeno_IVa2); PF00709(Adenylsucc_synt); PF00406(ADK); PF03969(AFG1_ATPase); PF04548(AIG1); PF01583(APS_kinase); PF01637(Arch_ATPase); PF00025(Arf); PF03308(ArgK); PF02374(ArsA_ATPase); PF00006(ATP-synt_ab); PF00308(Bac_DnaA); PF01656(CbiA); PF01121(CoaE); PF02572(CobA_CobO_BtuR); PF02283(CobU); PF02224(Cytidylate_kin); PF02499(DNA_pack_C); PF02500(DNA_pack_N); PF01712(dNK); PF03193(DUF258); PF03237(DUF264); PF03266(DUF265); PF03976(PPK2); PF01935(DUF87); PF00350(Dynamin_N); PF00519(PPV_E1_C); PF04257(Exonuc_V_gamma); PF02421(FeoB_N); PF00142(Fer4_NifH); PF01268(FTHFS); PF01580(FtsK_SpoIIIE); PF00503(G-alpha); PF04466(Terminase_3); PF02263(GBP); PF00437(GSPII_E); PF00735(GTP_CDC); PF04670(Gtr1_RagA); PF00625(Guanylate_kin); PF02689(Herpes_Helicase); PF02399(Herpes_ori_bp); PF05049(IIGP); PF01715(IPPT); PF01745(IPT); PF01695(IstB); PF02606(LpxK); PF00493(MCM); PF01078(Mg_chelatase); PF01926(MMR_HSR1); PF03205(MobB); PF00488(MutS_V); PF00063(Myosin_head); PF00931(NB-ARC); PF01057(Parvo_NS1); PF02562(PhoH); PF04665(Pox_A32); PF00485(PRK); PF03215(Rad17); PF00071(Ras); PF00154(RecA); PF04851(ResIII); PF00910(RNA_helicase); PF00158(Sigma54_activat); PF01202(SKI); PF00176(SNF2_N); PF02223(Thymidylate_kin); PF00265(TK); PF00693(Herpes_TK); PF02534(TraG); PF03668(ATP_bind_2); PF02367(UPF0079); PF00580(UvrD-helicase); PF01443(Viral_helicase1); PF05496(RuvB_N); PF05621(TniB); PF05625(PAXNEB); PF05673(DUF815); PF05707(Zot); PF05729(NACHT); PF05783(DLIC); PF05872(DUF853); PF05876(Terminase_GpA); PF05879(RHD3); PF05894(Podovirus_Gp16); PF05970(DUF889); PF06068(TIP49); PF06144(DNA_pol3_delta); PF06309(Torsin); PF06414(Zeta_toxin); PF06418(CTP_synth_N); PF06431(Polyoma_lg_T_C); PF06733(DEAD_2); PF06745(KaiC); PF06858(NOG1); PF06862(DUF1253); PF06990(Gal-3-0_sulfotr); PF07015(VirC1); PF07088(GvpD); PF07517(SecA_DEAD); PF07652(Flavi_DEAD); PF07693(KAP_NTPase); PF07724(AAA_2); PF07726(AAA_3); PF07728(AAA_5); PF07755(DUF1611); PF07931(CPT);
 
InterPro entry IPR002543
 

Alignment
New Hampshire tree

The seed alignment for this family in the PANDIT database contains 24 aligned sequences:

  FTSK_BACSU/423-620   FTSK_BORBU/433-625   FTSK_CAMJE/593-784   FTSK_COXBU/392-603   FTSK_ECOLI/947-1161   FTSK_HAEIN/147-361   FTSK_HELPY/505-696   FTSK_MYCLE/452-653   O05450_MYCTU/834-1120   O06264_MYCTU/720-979   O24906_HELPY/326-583   O33086_MYCLE/332-518   O33087_MYCLE/426-636   O34749_BACSU/345-537   O53689_MYCTU/784-1053   O53935_MYCTU/364-658   O70031_9ACTO/356-542   P70871_BACCE/177-366   P71068_BACSU/685-955   P96634_BACSU/190-373   Q47727_ENTFA/184-366   SPI_STRCN/1-185   TRA_STRLI/244-436   TRSA_STRAM/105-298  

The full alignment for this family in the Pfam database contains 3283 aligned sequences

Species in the seed alignment

List of species covered in the seed alignment. The number in brackets denotes the number of sequences taken from each organism.

  Mycobacterium tuberculosis (4);   Bacillus subtilis (4);   Mycobacterium leprae (3);   Helicobacter pylori (2);   Enterococcus faecalis (1);   Streptomyces ghanaensis (1);   Haemophilus influenzae (1);   Coxiella burnetii (1);   Borrelia burgdorferi (1);   Streptomyces ambofaciens (1);   Streptomyces cyaneus (1);   Bacillus cereus (1);   Escherichia coli K12 (1);   Campylobacter jejuni (1);   Streptomyces lividans (1);  

The full alignment covers 834 species.

Pre-computed estimates from Markov codon substitution models (explanation)

Following are maximum-likelihood estimates and log-likelihood scores from codon models M0, M1, M2, M7 and M8, implemented in PAML v.4.1

Model name  

Model M0

Model M1

Model M2

Model M7

Model M8

Log-likelihood score  

-12375.33-12350.112318-12345.892648-12238.994877-12238.919939

Tree Length  

113.86113.86145113.86145113.86145113.86145

κ  

1.181.1781991.1739661.170181.164833

ω-ratio  

ω=0.08544p0=0.831352 ~ ω0=0.103837
p1=0.168648 ~ ω1=1		p0=0.854365 ~ ω0=0.13068
p1=0.145468 ~ ω1=1
p2=0.000167 ~ ω2=999		ω~Β(2.207941,18.604477)p0=0.999883 ~ ω~Β(2.195615,17.547449)
p1=0.000117 ~ ω=157.358346

P-value for testing  
positive selection  

M1 vs M2: P-value=0.014703
family classification: positively selected		M7 vs M8: P-value=0.927801
family classification: conserved

Positively selected sites - the underlined numbers denote the position in the AA sequence, while the number in brackets denote the estimated probability for having positive selection at that position. Only positions where the estimated probability for positive selection is ≥0.95 are shown.

   Model M2:

Maximum-likelihood estimates and log-likelihood scores from codon models Nonsynonymous and Dual implemented in HYPHY

Model name  

Model Nonsynonymous

Model Dual

Log-likelihood score  

 -16185.87141-16168.34704

Mean ω-ratio  

ω = 0.1178ω = 0.20323

Coeff. of variation  
of ω-ratio  

 CVω = 0.53417CVω = 1.18475
 

Annotations

InteractionsThis family has 1 known interaction:
PF01580;
StructuresThis family has 14 structures:
Notation: PDB_ID (PDB chain, PDB residues)
  • 2iuu  (B, 422-635)
  • 2iuu  (C, 422-635)
  • 2iuu  (F, 422-635)
  • 2iuu  (A, 422-635)
  • 2iut  (B, 422-635)
  • 2iuu  (E, 422-635)
  • 2iuu  (D, 422-635)
  • 2iut  (A, 422-635)
  • 2ius  (F, 947-1161)
  • 2ius  (C, 947-1161)
  • 2ius  (E, 947-1161)
  • 2ius  (B, 947-1161)
  • 2ius  (D, 947-1161)
  • 2ius  (A, 947-1161)
Gene Ontologies
Cellular component
 integral to membrane[GO:0016021]
Biological Process
 chromosome segregation[GO:0007059]
 cell division[GO:0051301]
 cell cycle[GO:0007049]
Molecular Function
 DNA binding[GO:0003677]
 ATP binding[GO:0005524]
 nucleotide binding[GO:0000166]
KEGG Pathways - for genes coding for sequences from full alignment
Metabolism
Carbohydrate Metabolism
Pentose and glucuronate interconversions [KEGG]
Ascorbate and aldarate metabolism [KEGG]
Starch and sucrose metabolism [KEGG]
Nucleotide sugars metabolism [KEGG]
Aminosugars metabolism [KEGG]
Butanoate metabolism [KEGG]
Energy Metabolism
Oxidative phosphorylation [KEGG]
Methane metabolism [KEGG]
Nitrogen metabolism [KEGG]
Lipid Metabolism
Fatty acid elongation in mitochondria [KEGG]
Fatty acid metabolism [KEGG]
Nucleotide Metabolism
Purine metabolism [KEGG]
Pyrimidine metabolism [KEGG]
Amino Acid Metabolism
Alanine and aspartate metabolism [KEGG]
Valine, leucine and isoleucine degradation [KEGG]
Lysine biosynthesis [KEGG]
Lysine degradation [KEGG]
Tryptophan metabolism [KEGG]
Phenylalanine, tyrosine and tryptophan biosynthesis [KEGG]
Glycan Biosynthesis and Metabolism
Lipopolysaccharide biosynthesis [KEGG]
Peptidoglycan biosynthesis [KEGG]
Metabolism of Cofactors and Vitamins
Biotin metabolism [KEGG]
Folate biosynthesis [KEGG]
Porphyrin and chlorophyll metabolism [KEGG]
Xenobiotics Biodegradation and Metabolism
Geraniol degradation [KEGG]
Trinitrotoluene degradation [KEGG]
Caprolactam degradation [KEGG]
Genetic Information Processing
Translation
Aminoacyl-tRNA biosynthesis [KEGG]
Ribosome [KEGG]
Folding, Sorting and Degradation
Protein export [KEGG]
Type III secretion system [KEGG]
Type IV secretion system [KEGG]
Type II secretion system [KEGG]
Ubiquitin mediated proteolysis [KEGG]
Replication and Repair
DNA replication [KEGG]
Nucleotide excision repair [KEGG]
Mismatch repair [KEGG]
Homologous recombination [KEGG]
Environmental Information Processing
Membrane Transport
ABC transporters [KEGG]
Signal Transduction
Two-component system [KEGG]
Cellular Processes
Cell Motility
Bacterial chemotaxis [KEGG]
Flagellar assembly [KEGG]
Cell Growth and Death
Cell cycle [KEGG]
Cell cycle - yeast [KEGG]
 

Expression data (explanation)

 
Bgee expression data - for genes coding for sequences from seed alignment     Click here for overview of Bgee data

none

HumanProteinpedia expression data - for human genes coding for sequences from full alignment     Click here for overview of Human Proteinpedia data

The numbers in brackets correspond to the number of human genes that are associated with the selected family and are expressed in the corresponding tissue. Click on the tissue to see all the families that possibly have function in that tissue and click on the genes to see the corresponding genes.

Healthy tissues
Disease tissues

Human disease association

 
Genetic Association Database - data for human genes coding for sequences from full alignment
 
Associated diseases and disorders
Links to OMIM - for human genes coding for sequences from full alignment
 
602954 (1) 612317 (1) 601506 (1)