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3964  structures 10099  species 75  interactions 253453  sequences 973  architectures

Clan: TIM_barrel (CL0036)


Common phosphate binding-site TIM barrel superfamily Add an annotation

This large superfamily of TIM barrel enzymes all contain a common phosphate binding site. The phosphate is found in a variety of cofactors and ligands such as FMN [1,2].

This clan contains 57 families and the total number of domains in the clan is 253453. The clan was built by A Bateman.

Literature references

  1. Copley RR, Bork P; , J Mol Biol 2000;303:627-641.: Homology among (betaalpha)(8) barrels: implications for the evolution of metabolic pathways. PUBMED:11054297 EPMC:11054297
  2. Bork P, Gellerich J, Groth H, Hooft R, Martin F; , Protein Sci 1995;4:268-274.: Divergent evolution of a beta/alpha-barrel subclass: detection of numerous phosphate-binding sites by motif search. PUBMED:7757015 EPMC:7757015


This clan contains the following 57 member families:

Ala_racemase_N ALAD Aldolase AP_endonuc_2 BtpA CdhD CutC DAHP_synth_1 DAHP_synth_2 DeoC DHDPS DHO_dh DHquinase_I DUF1341 DUF2090 DUF556 DUF561 DUF692 DUF993 Dus F_bP_aldolase FMN_dh G3P_antiterm Glu_syn_central Glu_synthase His_biosynth HMGL-like IGPS IMPDH iPGM_N MtrH NanE NAPRTase NeuB NMO OMPdecase Orn_Arg_deC_N Oxidored_FMN PcrB PdxJ PhosphMutase PRAI Pterin_bind QRPTase_C Racemase_4 RhaA Ribul_P_3_epim SOR_SNZ Tagatose_6_P_K ThiG TIM TIM-br_sig_trns TMP-TENI Transaldolase Trp_syntA UvdE UxuA

External database links

Domain organisation

Below is a listing of the unique domain organisations or architectures from this clan. More...

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The table below shows the number of occurrences of each domain throughout the sequence database. More...

Pfam family Num. domains Alignment
AP_endonuc_2 (PF01261) 17202 (6.8%) View
Ala_racemase_N (PF01168) 12691 (5.0%) View
HMGL-like (PF00682) 12580 (5.0%) View
Orn_Arg_deC_N (PF02784) 10956 (4.3%) View
Oxidored_FMN (PF00724) 10595 (4.2%) View
DHDPS (PF00701) 10473 (4.1%) View
Dus (PF01207) 9141 (3.6%) View
DAHP_synth_1 (PF00793) 8958 (3.5%) View
Pterin_bind (PF00809) 8265 (3.3%) View
His_biosynth (PF00977) 7930 (3.1%) View
IMPDH (PF00478) 7826 (3.1%) View
DeoC (PF01791) 7750 (3.1%) View
F_bP_aldolase (PF01116) 7516 (3.0%) View
TIM (PF00121) 7470 (2.9%) View
FMN_dh (PF01070) 7189 (2.8%) View
OMPdecase (PF00215) 7126 (2.8%) View
DHO_dh (PF01180) 6787 (2.7%) View
Transaldolase (PF00923) 6718 (2.7%) View
Ribul_P_3_epim (PF00834) 6022 (2.4%) View
NMO (PF03060) 5886 (2.3%) View
TMP-TENI (PF02581) 5722 (2.3%) View
Glu_synthase (PF01645) 5264 (2.1%) View
IGPS (PF00218) 5164 (2.0%) View
NAPRTase (PF04095) 4673 (1.8%) View
Trp_syntA (PF00290) 4254 (1.7%) View
Aldolase (PF01081) 4204 (1.7%) View
ALAD (PF00490) 3912 (1.5%) View
QRPTase_C (PF01729) 3824 (1.5%) View
PRAI (PF00697) 3795 (1.5%) View
Pfam family Num. domains Alignment
Glu_syn_central (PF04898) 3372 (1.3%) View
iPGM_N (PF06415) 2910 (1.1%) View
ThiG (PF05690) 2805 (1.1%) View
NanE (PF04131) 2374 (0.9%) View
CutC (PF03932) 2302 (0.9%) View
DHquinase_I (PF01487) 2260 (0.9%) View
PdxJ (PF03740) 2100 (0.8%) View
SOR_SNZ (PF01680) 1980 (0.8%) View
UxuA (PF03786) 1615 (0.6%) View
NeuB (PF03102) 1576 (0.6%) View
DAHP_synth_2 (PF01474) 1570 (0.6%) View
Tagatose_6_P_K (PF08013) 1086 (0.4%) View
G3P_antiterm (PF04309) 1079 (0.4%) View
RhaA (PF06134) 861 (0.3%) View
DUF692 (PF05114) 833 (0.3%) View
DUF1341 (PF07071) 679 (0.3%) View
PcrB (PF01884) 644 (0.3%) View
BtpA (PF03437) 562 (0.2%) View
PhosphMutase (PF10143) 556 (0.2%) View
UvdE (PF03851) 508 (0.2%) View
DUF2090 (PF09863) 447 (0.2%) View
TIM-br_sig_trns (PF09370) 371 (0.1%) View
CdhD (PF03599) 289 (0.1%) View
DUF993 (PF06187) 227 (0.1%) View
Racemase_4 (PF13615) 179 (0.1%) View
DUF556 (PF04476) 172 (0.1%) View
DUF561 (PF04481) 102 (0.0%) View
MtrH (PF02007) 101 (0.0%) View
Total: 57 Total: 253453 Clan alignment

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Family relationships

This diagram shows the relationships between members of this clan. More...

We could not retrieve a family relationship diagram for this clan.

Species distribution

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This tree shows the occurrence of the domains in this clan across different species. More...



For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the MSD group, to allow us to map Pfam domains onto UniProt three-dimensional structures. The table below shows the mapping between the Pfam families in this clan, the corresponding UniProt entries, and the region of the three-dimensional structures that are available for that sequence.

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