Table 2 Genes of unknown function co-evolving with Bacillus subtilis polC

BSU00030

yaaA

ybcJ

putative RNase or phosphorylase; conserved in yeast; very weak in E. coli²

RNA/DNA metabolism

group 1

BSU00330

yabA dnaH

"_

subunit of the DNA replication complex¹

DNA polymerase and "y" network

group 1

BSU00340

yabB

"_

putative RNA methyltransferase²

RNA metabolism

group 1

BSU00630

yabR

"_

putative RNA degradation protein; polyribonucleotide nucleotidyltransferase or phosphorylase²

degradosome network with RfaA

group 2

BSU31390

yugI

"_

putative RNA degradation protein or phosphorylase or nucleotidyl transferase;

degradosome network with RfaA

group 2

BSU01750

ybbP

"_

homolog of YabR and RpfA² DAC domain protein present in Archaea

group 3

BSU01760

ybbR

"_

substrate for Sfp phosphopantetheinyl transferase-catalyzed protein labeling by small molecule-CoA conjugates

group 3

BSU40510

yybT

".

phosphodiesterase acting on cyclic dinucleotides; possibly nanornase²

RNA metabolism

group 3

BSU15060

ylbM

"_

conserved hypothetical protein, found in a ribonuleoprotein complex in Mus musculus²

RNA metabolism

group 3

BSU25630

yqeK

"_

putative hydrolase

group 3

BSU25680

yqeG

".

putative hydrolase

group 3

BSU11030

yitL

"_

RNA-binding protein²

RNA metabolism

group 3

BSU19680

yozE

".

conserved hypothetical protein²

RNA metabolism

group 3

BSU24860

yqgQ

"_

putative single strand nucleic acid binding protein²

RNA metabolism

group 3

BSU14540

ykzG

"_

omega subunit of RNA polymerase²

RNA metabolism

group 3

BSU16610

ylxR

"_

putative RNA binding protein; putative new fold²

RNA binding

group 3

BSU27380

yrzB

"_

putative anti-sigma factor

group 3

BSU15830

yloU

"_

conserved hypothetical protein

group 3

BSU15840

yloV

dhaL

putative dihydroxyacetone/glyceraldehyde kinase

group 3

BSU08680

ygaC

"_

putative factor, domain associated with ribonuclease E and G, possibly involved in Fe-S group formation²

degradosome network

group 3

BSU15970

ylxM

"-

conserved hypothetical protein²

RNA/DNA metabolism

group 3

BSU27950

ysxB

"-

conserved hypothetical protein with ribosomal function²

ribosome

group 3

BSU16000

ylqC

"-

putative RNA binding protein²

RNA binding

group 3

BSU25670

yqeH

"-

GTPase involved in ribosome 30S assembly²

ribosome

group 3

BSU16970

ymdB

"-

putative phosphoesterase

group 3

BSU27400

yrzL

"-

conserved hypothetical protein functionally linked to alanine tRNA loading²

RNA metabolism

group 3

BSU32310

yutD

"-

conserved hypothetical protein²

RNA metabolism

group 3

BSU14640

yktA

"-

conserved hypothetical protein

group 3

BSU15000

ylbG

"-

conserved hypothetical protein

group 3

BSU17880

ynzC

"-

conserved hypothetical protein

group 3

BSU22190

ypsA

"-

conserved hypothetical protein

group 3

BSU07420

yfmM

"-

putative polyphosphate-AMP phosphotransferase

group 3

BSU07430

yfmL

"-

putative ATP-dependent RNA helicase²

RNA metabolism

group 3

BSU00970

yacP

"-

putative ribonuclease with PIN and NYN domains; similar to eukaryotic RNases²

RNA metabolism

group 4

BSU23950

yqjA

"-

conserved hypothetical protein putative

group 4

BSU32280

yutG

"-

phosphatidyl-glycerophosphatas e A

group 4

BSU16845

ymfF

"-

putative metalloprotease

protein metabolism

group 4

BSU16860

ymfH

"-

putative processing protease

protein metabolism

group 4

BSU09800

yheA

"-

conserved hypothetical protein

group 4

BSU09930

yhaM

"-

3'-5' exonuclease²

DNA/RNA metabolism

group 4

BSU01450

ybxA ecfA

"-

energizing coupling factor ABC multiple influx transporter (ATP-binding protein)³

specific transport

group 5

BSU01460

ybaE ecfB

"-

energizing coupling factor ABC multiple influx transporter (ATP-binding protein)³

specific transport

group 5

BSU01470

ybaF ecfT

"-

permease component of the EcfAB influx transporters³

specific transport

group 5

BSU11590

yjbL

"-

putative phosphatase

group 6

BSU11600

yjbM

"-

(p)ppGpp synthetase

group 6

BSU11620

yjbO

rluD

pseudouridylate synthase²

RNA metabolism

group 6

BSU29820

ytpR

"-

putative protein with RNA binding domain²

RNA binding

group 7

BSU29840

ytpP

"-

putative thiol-disulfide oxidoreductase with thioredoxin domain⁵

sulfur metabolism

group 7

BSU29860

ytoP

frvX

glutamyl aminopeptidase; deblocking enzyme (wrong annotation in E. coli)

protein metabolism

group 7

BSU13480

ykrK

"_

conserved hypothetical protein

BSU14100

ykuJ

"_

putative RNA-specific modification enzyme subunit²

RNA metabolism network of "y" genes

BSU14130

ykuL

"_

conserved hypothetical protein

BSU15410

ylmH

"_

factor involved in shape determination, RNA-binding fold²

BSU17440

ynbB

"_

putative C-S lyase⁵

sulfur metabolism

BSU17699

ynzK

"_

putative membrane protein

BSU17910

yneF

"_

conserved hypothetical protein; methionine-rich⁵

sulfur metabolism

BSU19620

yodJ

"_

D-alanyl-D-alanine carboxypeptidase lipoprotein⁴

BSU24260

yqxC

"_

putative methyltransferase with RNA binding domain²

RNA binding

BSU28650

ysgA

"_

putative RNA methylase²

BSU29780

ytxG

pqiB

homolog involved in DNA repair in Mus musculus¹

DNA repair

BSU29980

ytjP

"_

putative dipeptidase

protein metabolism

BSU30490

ytqB

"_

putative RNA methylase²

RNA metabolism

BSU30870

ytcB

"_

putative UDP-glucose epimerase⁴

BSU36340

ywpE

"_

putative sortase

BSU36910

ywlG

"_

conserved hypothetical protein; present in Archaea and Eukarya

BSU37340

ywiB

"_

putative RNA binding protein possibly involved in aminoacyl-tRNA editing²

RNA binding

BSU38499

ywzH

"_

conserved hypothetical protein

BSU40939

yyzM

"_

conserved hypothetical protein