TABLE 4

Genomic diversity and abundance of chemoreceptor ligand binding domainsa

Domain superfamilybLBD typeDomain modelNo. of domains
4HB_MCPSingle 4HB4HB_MCP_13,998
TarH861
CHASE3392
Double 4HBHBM231
Cache-likeDouble CachedCache_13,515
Cache_3-Cache_2307
dCache_3202
dCache_2183
Ykul_C2
Single CachesCache_21,165
sCache_3_260
sCache_3_3368
Diacid_rec40
CHASE419
CHASE87
PASPASPAS_31,930
PAS_9682
PAS_4459
PAS_897
PAS111
PAS_78
PAS_61
PAS_101
GAFGAFGAF463
GAF_274
ProtoglobinProtoglobinProtoglobin552
Globin8
Bac_globin2
PBPPeriplasmic binding proteinPhosphonate-bd30
SBP_bac_529
SBP_bac_323
SBP_bac_87
Peripla_BP_416
Peripla_BP_52
Peripla_BP_31
Peripla_BP_61
OpuAC5
DctP2
NMT12
HNOX-likeHeme and NO bindingHNOB75
4Fe-4SIron-sulfur cluster bindingFer414
Fe4_1020
Fer4_76
Fer4_94
Fer4_61
FeS33
GPCR_AGPCR-like7TMR-DISM_7TM16
NADP_RossmanNAD bindingGFO_IDH_MocA9
Semialdhyde_dh1
Gx_transpTransporter5TM-5TMR_LYT9
Beta_propellerExtracellular bindingReg_prop8
GBDGalactose binding7TMR-DISMED26
CBM_4_92
TPRProtein-protein interactionsTPR_194
ANAPC31
CupinNucleotide bindingcNMP_binding3
HHHHelix turn helixHHH_52
E-setSugar bindingY_Y_Y2
PhosphataseCyanide bindingRhodanese2
P-loop_NTPaseNucleotide bindingABC_tran1
2heme_cytochromHeme bindingNi_hydr_CYTB1
ATP-graspGlutathione bindingGSH-S_ATP1
FlavodoxinFMN/FAD bindingFalvodoxin_21
No assigned superfamilyZinc bindingCZB582
PilJPilJ326
Nitrate and nitrite bindingNIT318
c-di-GMP bindingPilZ137
Oxygen bindingHemerythrin98
PocR91
Domain of unknown functionDUF336583
Amino acid bindingFIST62
Hydrogen bindingFe_hyd_lg_C45
Integral membrane sensorMHYT28
Adenosyl group bindingCBS21
Ammonium transporterAmmonium_trans16
Ligand bindingPrpR_N9
Domain of unknown functionDUF40775
Integral membrane domainMASE35
Quorum sensingAI-2E_transport1
Nucleoside bindingGate1
Phosphate/sugar bindingPTS_EIIC1
  • a Data from Pfam 31.0 and the underlying UniProt reference proteome databases (178) as of March 2017. A total of 26,530 sequences were retrieved by using the MCPsignal domain model. A total of 17,907 LBDs matching Pfam domain models were identified. GPCR, G-protein-coupled receptor; GBD, galactose-binding domain.

  • b Pfam clan.