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7392  structures 9255  species 0  interactions 648047  sequences 4033  architectures

Clan: TIM_barrel (CL0036)

Summary

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 61 families and the total number of domains in the clan is 648047. 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

Members

This clan contains the following 61 member families:

4HFCP_synth Ala_racemase_N ALAD Aldolase AP_endonuc_2 BtpA CdhD ComA CutC DAHP_synth_1 DAHP_synth_2 DeoC DHDPS DHO_dh DHquinase_I DUF2090 DUF4862 DUF561 DUF692 DUF993 Dus F_bP_aldolase FMN_dh G3P_antiterm GatZ_KbaZ-like Glu_syn_central Glu_synthase His_biosynth HMGL-like IGPS IMPDH KDGP_aldolase Lys-AminoMut_A MtrH NanE NAPRTase NeuB NMO OAM_alpha OMPdecase Orn_Arg_deC_N Oxidored_FMN PcrB PdxJ PRAI PRMT5_TIM Pterin_bind QRPTase_C Radical_SAM Radical_SAM_2 RhaA Ribul_P_3_epim SOR_SNZ TAL_FSA ThiC_Rad_SAM ThiG TIM TMP-TENI 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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Alignments

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

Pfam family Num. domains Alignment
Radical_SAM (PF04055) 128752 (19.9%) View
AP_endonuc_2 (PF01261) 43752 (6.8%) View
HMGL-like (PF00682) 31756 (4.9%) View
Oxidored_FMN (PF00724) 28788 (4.4%) View
Ala_racemase_N (PF01168) 24503 (3.8%) View
DHDPS (PF00701) 24450 (3.8%) View
Dus (PF01207) 19449 (3.0%) View
Orn_Arg_deC_N (PF02784) 18535 (2.9%) View
NMO (PF03060) 18325 (2.8%) View
His_biosynth (PF00977) 17390 (2.7%) View
FMN_dh (PF01070) 17112 (2.6%) View
Pterin_bind (PF00809) 17074 (2.6%) View
IMPDH (PF00478) 15786 (2.4%) View
DAHP_synth_1 (PF00793) 13992 (2.2%) View
DHO_dh (PF01180) 13604 (2.1%) View
Glu_synthase (PF01645) 12798 (2.0%) View
F_bP_aldolase (PF01116) 11877 (1.8%) View
TIM (PF00121) 11785 (1.8%) View
TAL_FSA (PF00923) 11530 (1.8%) View
Ribul_P_3_epim (PF00834) 11099 (1.7%) View
TMP-TENI (PF02581) 11001 (1.7%) View
OMPdecase (PF00215) 10995 (1.7%) View
DeoC (PF01791) 10577 (1.6%) View
Trp_syntA (PF00290) 8861 (1.4%) View
ALAD (PF00490) 8654 (1.3%) View
IGPS (PF00218) 8524 (1.3%) View
QRPTase_C (PF01729) 8421 (1.3%) View
Glu_syn_central (PF04898) 8099 (1.2%) View
Aldolase (PF01081) 8072 (1.2%) View
PRAI (PF00697) 7262 (1.1%) View
NAPRTase (PF04095) 7203 (1.1%) View
continued
Pfam family Num. domains Alignment
DAHP_synth_2 (PF01474) 5502 (0.8%) View
ThiC_Rad_SAM (PF01964) 5335 (0.8%) View
ThiG (PF05690) 4926 (0.8%) View
SOR_SNZ (PF01680) 4359 (0.7%) View
DHquinase_I (PF01487) 4113 (0.6%) View
PdxJ (PF03740) 3986 (0.6%) View
NeuB (PF03102) 3750 (0.6%) View
CutC (PF03932) 3747 (0.6%) View
UxuA (PF03786) 3112 (0.5%) View
DUF692 (PF05114) 2634 (0.4%) View
PRMT5_TIM (PF17285) 1832 (0.3%) View
UvdE (PF03851) 1656 (0.3%) View
NanE (PF04131) 1454 (0.2%) View
ComA (PF02679) 1248 (0.2%) View
PcrB (PF01884) 1216 (0.2%) View
BtpA (PF03437) 1187 (0.2%) View
G3P_antiterm (PF04309) 1175 (0.2%) View
DUF993 (PF06187) 1032 (0.2%) View
Radical_SAM_2 (PF19238) 895 (0.1%) View
RhaA (PF06134) 761 (0.1%) View
DUF2090 (PF09863) 700 (0.1%) View
CdhD (PF03599) 674 (0.1%) View
GatZ_KbaZ-like (PF08013) 625 (0.1%) View
Lys-AminoMut_A (PF09043) 562 (0.1%) View
4HFCP_synth (PF04476) 450 (0.1%) View
DUF561 (PF04481) 359 (0.1%) View
KDGP_aldolase (PF07071) 314 (0.0%) View
OAM_alpha (PF16552) 142 (0.0%) View
MtrH (PF02007) 140 (0.0%) View
DUF4862 (PF16154) 135 (0.0%) View
Total: 61 Total: 648047
No alignment ℹ
 

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Family relationships

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

Species distribution

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Structures

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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