2.A.115 The Novobiocin Exporter (NbcE) Family

The NbcE (formerly the YitT (DUF161)) family consists mostly of 6 TMS proteins, where these TMSs are frequently in a 2 2 2 arrangement. However, distant 5 and 3 TMS proteins may be members of this family. Several homologues are annotated as exporters or efflux transporters. The 3-d structure (PDB# 3HLU_A) is available for YitT of Bacillus subtilis. This protein has a DUF161-DUF161-DUF2179 domain arrangement according to CDD. Most homologues are from bacteria with a preponderance from firmicutes, but others are found in more distantly related organisms. One homologue, NbcE of Lactobacillus brevis, has been shown to be a novobiocin exporter (TC# 2.A.115.2.4).  It has 195 aas and 4 or 5 TMSs (Pagliai et al. 2010).
 



This family belongs to the .

 

References:

Pagliai, F.A., C.L. Gardner, S.G. Pande, and G.L. Lorca. (2010). LVIS553 transcriptional regulator specifically recognizes novobiocin as an effector molecule. J. Biol. Chem. 285: 16921-16930.

Examples:

TC#NameOrganismal TypeExample
2.A.115.1.1

The YitT (UPF0750) efflux transporter. 3-d structure known (PDB# 3HLU_A).

Bacteria

YitT of Bacillus subtilis (P39803)

 
2.A.115.1.2

The YxkD (UPF0750) membrane protein

Bacteria

YxkD of Bacillus subtilis (P94357)

 
2.A.115.1.3

The Hypothetical Protein, HP. 6 TMSs in a 2+2+2 arrangement.

Bacteria

HP of Rhizobium etli (Q2KCS0)

 
2.A.115.1.4

DUF161 protein of unknown function (6 TMSs in a 2+2+2 arrangement).

Bacteria

DUF161 protein of Brucella sp. NF 2653 (E0DTC9)

 
2.A.115.1.5

Hypothetical protein of 289 aas

Proteobacteria

HP of Desulfohalobium retbaense

 
2.A.115.1.6

DUF2179 protein of unknown function (3 TMSs)

Bacteria

DUF2179 protein of Mestoga prima (E0HYB9)

 
2.A.115.1.7

3 TMS protein

Archaea

3 TMS protein of Methanoregula boonei (A7I6E8)

 
2.A.115.1.8

DUF2179 protein of 196 aas

Thermotogae

DUF2179 protein of Petrotoga mobilis

 
Examples:

TC#NameOrganismal TypeExample
2.A.115.2.1

The 5 TMS YczE protein. May be distantly related to CirC (5TMSs; 9.B.98.1.4).

Bacteria

YczE of Bacillus subtilis (E0U2C9)

 
2.A.115.2.10

Uncharacterized protein of 215 aas

Euryarchaea

UP of Methanocorpusculum labreanum

 
2.A.115.2.11

Hypothetical 6 TMS protein, HP

Bacteria

HP of Haloplasma contractile (F7PTN4)

 
2.A.115.2.12

Uncharacterized protein of 212 aas

Firmicutes

UP of Faecalibacterium prausnitzii

 
2.A.115.2.13

Uncharacterized protein of 205 aas

Firmicutes

UP of Clostridium difficile

 
2.A.115.2.14

Fusion protein of DUF161 membrane domain of 6 TMSs with a cytidylate kinase 2 domain; 428 aas

Actinobacteria

Fusion protein of Slackia heliotrinireducens

 
2.A.115.2.15

Uncharacterized protein of 222 aas

Deinococcus/Thermus

UP of Deinococcus radiodurans

 
2.A.115.2.2

The 5 TMS YyaS protein

Bacteria

YyaS of Bacillus pseudofirmus (D3FUL0)

 
2.A.115.2.3

The 5 TMS membrane protein, 5-MP

Bacteria

5-MP of Enterococcus faecalis (F2MS25)

 
2.A.115.2.4

Novobiocin exporter, NbcE, of 195 aas and 4 or 5 TMSs (Pagliai et al. 2010).

Firmicutes

Novobiocin exporter of Lactobacillus brevis

 
2.A.115.2.5

COG2364 homologue of 221 aas

Firmicutes

COG2364 homologue of Bacillus cereus

 
2.A.115.2.6

Hypothetical protein of 238 aas

Actinobacteria

HP of Kytococcus sedentarius

 
2.A.115.2.7

Hypotheitical protein of 224 aas

Actinobacteria

HP of Thermobifida fusca

 
2.A.115.2.8

Hypothetical protein of 222 aas

Spirochaetes

HP of Brachyspira hyodysenteriae

 
2.A.115.2.9

Uncharacterized protein of 238 aas

Firmicutes

UP of Eubacterium eligens

 
Examples:

TC#NameOrganismal TypeExample
Examples:

TC#NameOrganismal TypeExample