9.B.29 The 4-5 TMS Putative Chaperone (4-5PC) Family

The 4-5PC family consists of proteins from Spirochaetes (Leptospira (subfamily 1)) and many potentially distant homologues in other bacteria (subfamilies 2 - 4) as well as archaea (subfamily 5).  They have 200 - 270 aas with 4 - 5 TMSs. Some of them are encoded adjacent to genes coding for membrane fusion proteins (MFPs; TC# 8.A.1) and outer menbrane factors (OMFs; TC# 1.B.17) as well as ABC transporters (Yamada et al. 2012).  They may be important for assembly of multicomponent transporters such as ABC systems (Yamada et al. 2012). These proteins may be distantly related to members of the ABC superfamily (TC# 3.A.1), as well as members of the golgi Yip1 family (TC# 9.B.135) and the UAB5 family (TC# 9.B.333), but these suggestions have not been confirmed. 



This family belongs to the YIP Superfamily.

 

References:

Drew, D., D. Sjöstrand, J. Nilsson, T. Urbig, C.N. Chin, J.W. de Gier, and G. von Heijne. (2002). Rapid topology mapping of Escherichia coli inner-membrane proteins by prediction and PhoA/GFP fusion analysis. Proc. Natl. Acad. Sci. USA 99: 2690-2695.

Heidtman, M., C.Z. Chen, R.N. Collins, and C. Barlowe. (2005). Yos1p is a novel subunit of the Yip1p-Yif1p complex and is required for transport between the endoplasmic reticulum and the Golgi complex. Mol. Biol. Cell 16: 1673-1683.

Krone, L., L. Faass, M. Hauke, C. Josenhans, and T. Geiger. (2023). Chitinase A, a tightly regulated virulence factor of Salmonella enterica serovar Typhimurium, is actively secreted by a Type 10 Secretion System. PLoS Pathog 19: e1011306.

Yamada, Y., E.B. Tikhonova, and H.I. Zgurskaya. (2012). YknWXYZ is an unusual four-component transporter with a role in protection against sporulation-delaying-protein-induced killing of Bacillus subtilis. J. Bacteriol. 194: 4386-4394.

Examples:

TC#NameOrganismal TypeExample
9.B.29.1.1

Uncharacterized protein of 205 aas and 5 TMSs

Spirochaetes

UP of Leptospira interogans

 
9.B.29.1.2

Uncharacterized protein of 204 aas and 5 TMSs

Spirochaetes

UP of Leptospira biflexa

 
9.B.29.1.3

Uncharacterized protein of 202 aas and 5 TMSs.

UP of Leptospiraceae bacterium (activated sludge metagenome)

 
Examples:

TC#NameOrganismal TypeExample
9.B.29.2.1

Uncharacterized protein of 231 aas and 5 TMSs.

Firmicutes

UP of Bacillus sp.

 
9.B.29.2.10

Uncharacterized protein of 227 aas and 5 TMSs

Spirochaetes

UP of Leptospira santarosai

 
9.B.29.2.11

Uncharacterized protein of 198 aas and 5 TMSs

Euryarchaea

UP of Methanocorpusculum labreanum

 
9.B.29.2.12

Uncharacterized putative ABC-type transporter with three constituents, one of 194 aas and 5 TMSs (A3U434),  one encoding another hydrophobic protein of 161 aas and 4 TMSs (A3U435) and another gene encoding an ABC-type ATPase of 251 aas (SufC; A3U437) in the same gene cluster.

Proteobacteria

Putative ABC efflux transporter of Pseudooceanicola batsensis (Oceanicola batsensis)

 
9.B.29.2.13

Yos1 protein of the Pfam Yip1 superfamily of 220 aas and 5 TMSs. Yos1 is a subunit of the Yip1-Yif1 complex.  Its loss blocks transfer between the ER and the Golge apparatus (Heidtman et al. 2005).

Firmicutes

UP of Caldicellulosiruptor saccharolyticus

 
9.B.29.2.14

Uncharacterized protein of 196 aas and 5 TMSs.

Actinobacteria

UP of Rubrobacter xylanophilus

 
9.B.29.2.15

Uncharacterized protein of 221 aas and 5 TMSs.  Also similar to 3.A.1.122.2.

Firmicutes

UP of Carboxydothermus hydrogenoformans

 
9.B.29.2.16

Uncharacterized protein of 267 aas and 5 TMSs with an N-terminal zinc_ribbon_2 domain.

UP of Candidatus Lokiarchaeota archaeon CR_4

 
9.B.29.2.17

YknW, a membrane protein of 231 aas and 5 TMSs, is part of an unusual four-component ABC transporter, which is required for protection against the killing factor SdpC (sporulation-delaying protein). YknW plays an essential role in the assembly of the YknXYZ ABC transport complex (TC# 3.A.1.122.2) and interacts directly with it (Yamada et al. 2012).

YknW of Bacillus subtilis

 
9.B.29.2.18

YIP family protein of 245 aas and 5 TMSs.

YIP of Gemmatirosa kalamazoonesis

 
9.B.29.2.19

Uncharacterized protein of 199 aas and 5 TMSs.

UP of Staphylococcus agnetis

 
9.B.29.2.2

Uncharacterized protein of 203 aas and 5 TMSs

Firmicutes

UP of Solibacillus silvestris (Bacillus silvestris)

 
9.B.29.2.20

YIP family protein of 316 aas and 5 TMSs.

YIP of Terriglobus roseus

 
9.B.29.2.21

Uncharacterized protein of 229 aas and 5 TMSs. This protein show weak similarity with a membeer of family 9.B.135 (the eukaryotic Yip family).

UP of Arenimonas caeni

 
9.B.29.2.22

Uncharacterized protein of 250 aas and 5 TMSs

UP of Thermoprotei archaeon

 
9.B.29.2.3

Uncharacterized protein of 216 aas and 5 TMSs

Firmicutes

UP of Bacillus cereus

 
9.B.29.2.4

Uncharacterized protein of 198 aas and 5 TMSs

Firmicutes

UP of Heliobacterium modesticaldum

 
9.B.29.2.5

Uncharacterized protein of 207 aas and 5 TMSs

Firmicutes

UP of Ammonifex degensii

 
9.B.29.2.6

Uncharacterized protein of 251 aas and 5 TMSs

Firmicutes

UP of Desulfotomaculum carboxydivorans

 
9.B.29.2.7

Uncharacterized protein of 212 aas and 5 TMSs (B8GHI5).  The adjacent gene encodes a homologue of 209 aas and 5 TMSs (B8GHI4; e-41), then a 415 aas protein with 2 TMSs, N- and C-terminal (B8GHI3),  then an ABC ATPase of 234 aas (B8GHI2), then a type 3 membrane ABC protein of 4 TMSs (B8GHI1) and then an inner membrane PrsW type protease (B8GHI0).  B8GHI2 and B8GHI1 appear to comprise an ABC transporter assigned TC# 3.A.1.122.21. This protein may be a chitinase (see also TC# 1.E. (Krone et al. 2023).

Euryarchaea

UP of Methanosphaerula palustris

 
9.B.29.2.8

Uncharacterized protein of 210 aas and 4 TMSs

Euryarchaea

UP of Methanosarcina barkeri

 
9.B.29.2.9

Uncharacterized protein of 174 aas and 4 TMSs

Euryarchaera

UP of Archaeoglobus fulgidus

 
Examples:

TC#NameOrganismal TypeExample
9.B.29.3.1

Uncharacterized protein of 203 aas and 5 TMSs

Proteobacteria

UP of Pseudomonas fluorescens

 
9.B.29.3.2

Uncharacterized protein of 203 aas and 5 TMSs with UniProt acc# of F9ZP17.  F9ZP16 is a Membrane Fusion Protein (MFP: TC#8.A.1) and F9ZP15 is an outer membrane factor (OMF; TC# 1.B.17). There is no direct evidence that these three proteins function together.

Proteobacteria

UP of Acidithiobacillus caldus

 
9.B.29.3.3

Uncharacterized protein of 199 aas and 5 TMSs

Proteobacteria

UP of Aromatoleum aromaticum

 
9.B.29.3.4

Uncharacterized protein of 386 aas and 5 TMSs

Proteobacteria

UP of Sphingobium sp. SYK-6

 
9.B.29.3.5

Uncharacterized protein of 202 aas and 5 TMSs

Proteobacteria

UP of Alkalilimnicola ehrlichii

 
9.B.29.3.6

Uncharacterized protein of 181 aas and 5 TMSs

Bacteroidetes

UP of Bacteroides ovatus

 
Examples:

TC#NameOrganismal TypeExample
9.B.29.4.1

Uncharacterized protein of 191 aas and 5 TMSs

Deinococcus/Thermus

UP of Deinococcus maricopensis

 
9.B.29.4.2

Uncharacterized protein of 175 aas and 5 TMSs

UP of Deinococcus cellulosilyticus

 
9.B.29.4.3

Yip family protein of 336 aas and 5 C-terminal TMSs.

Yip family protein of Dictyobacter aurantiacus

 
9.B.29.4.4

Uncharacterized protein of 226 aas and 5 TMSs

UP of Candidatus Altiarchaeales archaeon

 
9.B.29.4.6

DUF1282 domain-containing protein of 226 aas and 5 TM

DUF1282 protein of Litorilinea aerophila

 
9.B.29.4.7

Uncharacterized protein of 168 aas and 4 TMSs in a 2 + 2 TMS arrangement

UP of Hydrocarboniphaga effusa

 
Examples:

TC#NameOrganismal TypeExample