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Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
BioCyc websites down
12/28 - 12/31
for maintenance.
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
BioCyc websites down
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Metabolic Modeling Tutorial
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Escherichia coli K-12 substr. MG1655 All-Genes Class: prophage genes and phage related functions

Parent Classes:
extrachromosomal

Instances:
alpA (AlpA DNA-binding transcriptional activator; CP4-57 prophage) ,
appY (AppY DNA-binding transcriptional activator) ,
argF ,
borD (bacteriophage lambda Bor protein homolog) ,
btuB (vitamin B12 / E colicin / bacteriophage BF23 outer membrane porin BtuB) ,
cbeA (CP4-44 prophage; antitoxin of the CbtA-CbeA toxin-antitoxin system) ,
cbtA (CP4-44 prophage; toxin of the CbtA-CbeA toxin-antitoxin system) ,
cspB (Qin prophage; cold shock protein; predicted DNA-binding transcriptional regulator) ,
cspF (Qin prophage; cold shock protein) ,
cspI (Qin prophage; cold shock protein) ,
dicA (DicA DNA-binding transcriptional dual regulator) ,
dicB (Qin prophage; cell division inhibition protein) ,
dicC (Qin prophage; DNA-binding transcriptional regulator for DicB) ,
dicF (Qin prophage; DicF antisense RNA) ,
emrE ,
essD (DLP12 prophage; predicted phage lysis protein) ,
essQ (Qin prophage; predicted S lysis protein) ,
fadL (long-chain fatty acid outer membrane porin; bacteriophage T2 receptor) ,
fhuA (ferrichrome / phage / antibiotic outer membrane porin FhuA) ,
flu (CP4-44 prophage; antigen 43 (Ag43) phase-variable biofilm formation autotransporter) ,
flxA (Qin prophage; predicted protein) ,
fxsA (inner membrane protein; overproduction inhibits F exclusion of bacteriophage T7) ,
gnsB (Qin prophage; predicted protein) ,
grpE (nucleotide exchange factor GrpE) ,
hflC (regulator of FtsH protease) ,
hflK (regulator of FtsH protease) ,
hfq (RNA-binding protein that affects many cellular processes; homolog of mammalian Sm/Sm-like proteins) ,
hokD (Qin prophage; small toxic polypeptide) ,
insD (Qin prophage; predicted transposase) ,
insH-1 (CP4-6 prophage; IS5 transposase and trans-activator) ,
insH-2 (DLP12 prophage; IS5 transposase and trans-activator) ,
insH-5 (Rac prophage; IS5 transposase and trans-activator) ,
insI-1 (transposase of IS30) ,
insN-1 (CP4-6 prophage; partial regulator of insertion element IS911A) ,
insO-1 (CP4-6 prophage; partial transposase of insertion element IS911A, interrupted by insertion of IS30 element) ,
intA (CP4-57 prophage; integrase) ,
intB (KpLE2 phage-like element; predicted integrase) ,
intD (DLP12 prophage; predicted integrase) ,
intE (e14 prophage; predicted integrase) ,
intF (CP4-6 prophage; predicted phage integrase) ,
intQ (Qin prophage; predicted defective integrase) ,
intR (Rac prophage; predicted integrase) ,
intS (CPS-53 (KpLE1) prophage; prophage CPS-53 integrase) ,
intZ (CPZ-55 prophage; predicted integrase) ,
kilR (Rac prophage; inhibitor of FtsZ, killing protein) ,
lamB ,
lit (Lit, cell death peptidase; phage exclusion; e14 prophage) ,
lomR_1 (Rac prophage; predicted protein, N-ter fragment) ,
lomR_2 (Rac prophage; predicted protein, C-ter fragment) ,
lon ,
mcrA (restriction of DNA at 5-methylcytosine residues) ,
mmuM (homocysteine S-methyltransferase) ,
mmuP (S-methyl-L-methionine transporter) ,
nfrA (bacteriophage N4 receptor, outer membrane protein) ,
nfrB (bacteriophage N4 receptor, inner membrane subunit) ,
ninE (DLP12 prophage, conserved protein similar to phage 82 and lambda proteins) ,
nmpC (outer membrane porin protein; locus of qsr prophage) ,
nohA (Qin prophage; predicted packaging protein) ,
nohB (DLP12 prophage; DNA packaging protein) ,
ogrK (DNA-binding transcriptional regulator, prophage P2 remnant) ,
ompT (outer membrane protease VII (outer membrane protein 3b)) ,
ompX (outer membrane protein X) ,
pal ,
perR (PerR transcriptional regulator) ,
pinE (e14 prophage; site-specific DNA recombinase) ,
pinQ (Qin prophage; predicted site-specific recombinase) ,
pinR (Rac prophage; predicted site-specific recombinase) ,
pspA (regulatory protein for the phage shock protein operon) ,
pspB (stimulates PspC-mediated transcriptional activation of the psp operon; antitoxin of a PspC-PspB toxin-antitoxin pair) ,
pspC (PspC transcriptional regulator; toxin of a PspC-PspB toxin-antitoxin pair) ,
pspD (peripheral inner membrane phage-shock protein) ,
pspF (PspF transcriptional dual regulator) ,
racC (Rac prophage; predicted protein) ,
racR (Rac prophage; predicted DNA-binding transcriptional regulator) ,
ralR (Rac prophage; DNA endonuclease toxin of the RalRA toxin-antitoxin system, restriction alleviation and modification enhancement) ,
recE (exonuclease VIII, ds DNA exonuclease, 5' --> 3' specific) ,
recT (recombinase, DNA renaturation) ,
rem (Qin prophage; predicted protein) ,
renD (DLP12 prophage; predicted protein) ,
rnlA (CP4-57 prophage; RNase LS, toxin of the RnlAB toxin-antitoxin system) ,
rnlB (CP4-57 prophage; antitoxin of the RnlA-RnlB toxin-antitoxin system) ,
rpoN (RNA polymerase, sigma 54 (sigma N) factor) ,
rrrD (DLP12 prophage; lysozyme) ,
rrrQ (Qin prophage; predicted lysozyme) ,
rusA (endodeoxyribonuclease RUS (Holliday junction resolvase)) ,
rzoD (DLP12 prophage; predicted lipoprotein) ,
rzoR (Rac prophage; predicted lipoprotein) ,
rzpD (DLP12 prophage; predicted murein endopeptidase) ,
rzpR (Rac prophage; predicted defective peptidase) ,
sieB (Rac prophage; phage superinfection exclusion protein) ,
stfE (e14 prophage; predicted side tail fiber protein fragment) ,
stfR (putative membrane protein) ,
tfaD (DLP12 prophage; predicted tail fiber assembly protein) ,
tfaE (e14 prophage; predicted tail fiber assembly protein) ,
tfaQ (Qin prophage; predicted tail fibre assembly protein) ,
tfaR (Rac prophage; predicted tail fiber assembly protein) ,
tfaX (DLP12 prophage; predicted protein) ,
tolA ,
tolB ,
tolQ ,
tolR ,
tonB (TonB energy transducing system - TonB subunit) ,
torI (prophage excisionase and response regulator inhibitor) ,
trkG (K+ transporter TrkG) ,
tsx (nucleoside channel; receptor of phage T6 and colicin K) ,
uup (ATP-binding protein with possible role in replication) ,
wcaD (predicted colanic acid polymerase) ,
xisE (e14 prophage; predicted excisionase) ,
yafW (antitoxin of the YkfI-YafW toxin-antitoxin pair) ,
yafX (CP4-6 prophage; predicted protein) ,
yafZ (CP4-6 prophage; conserved protein) ,
yagA (CP4-6 prophage; predicted DNA-binding transcriptional regulator) ,
yagB (CP4-6 prophage; conserved protein) ,
yagE (CP4-6 prophage; probable 2-keto-3-deoxygluconate aldolase) ,
yagF (CP4-6 prophage; D-xylonate dehydratase) ,
yagH (CP4-6 prophage; predicted xylosidase/arabinosidase) ,
yagI (CP4-6 prophage; predicted DNA-binding transcriptional regulator) ,
yagJ (CP4-6 prophage; predicted protein) ,
yagK (CP4-6 prophage; conserved protein) ,
yagL (CP4-6 prophage; DNA-binding protein) ,
yagM (CP4-6 prophage; predicted protein) ,
yagN (CP4-6 prophage; predicted protein) ,
ybcC (DLP12 prophage; predicted exonuclease) ,
ybcK (DLP12 prophage; predicted recombinase) ,
ybcL (DLP12 prophage; periplasmic protein) ,
ybcM (DLP12 prophage; predicted DNA-binding transcriptional regulator) ,
ybcN (DLP12 prophage; DNA base-flipping protein) ,
ybcO (DLP12 prophage; predicted protein) ,
ybcQ (DLP12 prophage; predicted antitermination protein) ,
ybcV (DLP12 prophage; predicted protein) ,
ybcW (DLP12 prophage; predicted protein) ,
ybcY (DLP12 prophage; predicted SAM-dependent methyltransferase) ,
ycfK (e14 prophage; predicted protein) ,
ydaC (protein involved in maintaining chromosome integrity / Rac prophage) ,
ydaG (Rac prophage; small protein) ,
ydaQ (Rac prophage; conserved protein) ,
ydaS (Rac prophage; predicted DNA-binding transcriptional regulator) ,
ydaT (Rac prophage; predicted protein) ,
ydaU (Rac prophage; conserved protein) ,
ydaV (Rac prophage; predicted DNA replication protein) ,
ydaW (Rac prophage; predicted DNA-binding protein) ,
ydaY (Rac prophage; predicted protein) ,
ydfA (Qin prophage; predicted protein) ,
ydfB (Qin prophage; small protein) ,
ydfC (Qin prophage; predicted protein) ,
ydfD (Qin prophage; predicted protein) ,
ydfE (Qin prophage; predicted protein) ,
ydfK (Qin prophage; cold shock gene, predicted DNA-binding transcriptional regulator) ,
ydfN (Qin prophage; predicted side tail fibre assembly protein) ,
ydfO (Qin prophage; predicted protein) ,
ydfP (Qin prophage; conserved protein) ,
ydfR (Qin prophage; predicted protein) ,
ydfT (Qin prophage; predicted antitermination protein Q) ,
ydfU (Qin prophage; predicted protein) ,
ydfV (Qin prophage; predicted protein) ,
ydfW (Qin prophage; predicted protein) ,
ydfX (Qin prophage; predicted protein) ,
yeeP (CP4-44 prophage; predicted GTP-binding protein) ,
yeeR (CP4-44 prophage; predicted membrane protein) ,
yeeS (CP4-44 prophage; predicted DNA repair protein) ,
yeeT (CP4-44 prophage; predicted protein) ,
yeeW (CP4-44 prophage; predicted protein) ,
yfdG (CPS-53 (KpLE1) prophage; predicted bactoprenol-linked glucose translocase (flippase)) ,
yfdH (CPS-53 (KpLE1) prophage; bactoprenyl glucosyl transferase) ,
yfdI (CPS-53 (KpLE1) prophage; predicted inner membrane protein) ,
yfdK (CPS-53 (KpLE1) prophage; conserved protein) ,
yfdL (CPS-53 (KpLE1) prophage; conserved protein) ,
yfdM (CPS-53 (KpLE1) prophage; predicted methyltransferase) ,
yfdN (CPS-53 (KpLE1) prophage; predicted protein) ,
yfdO (CPS-53 (KpLE1) prophage; predicted defective phage replication protein O) ,
yfdP (CPS-53 (KpLE1) prophage; predicted protein) ,
yfdQ (CPS-53 (KpLE1) prophage; predicted protein) ,
yfdR (CPS-53 (KpLE1) prophage; deoxyribonucleoside 5'-monophosphate phosphatase) ,
yfdS (CPS-53 (KpLE1) prophage; predicted protein) ,
yfdT (CPS-53 (KpLE1) prophage; predicted protein) ,
yffL (CPZ-55 prophage; predicted protein) ,
yffM (CPZ-55 prophage; predicted protein) ,
yffN (CPZ-55 prophage; predicted protein) ,
yffO (CPZ-55 prophage; predicted protein) ,
yffP (CPZ-55 prophage; predicted protein) ,
yffQ (CPZ-55 prophage; predicted protein) ,
yffR (CPZ-55 prophage; predicted protein) ,
yffS (CPZ-55 prophage; predicted protein) ,
yfjH (CP4-57 prophage; predicted protein) ,
yfjI (CP4-57 prophage; predicted protein) ,
yfjJ (CP4-57 prophage; predicted protein) ,
yfjK (CP4-57 prophage; conserved protein; mutations lead to radiation resistance) ,
yfjL (CP4-57 prophage; predicted protein) ,
yfjM (CP4-57 prophage; predicted protein) ,
yfjP (CP4-57 prophage; predicted GTP-binding protein) ,
yfjQ (CP4-57 prophage; predicted protein) ,
yfjR (CP4-57 prophage; predicted DNA-binding transcriptional regulator) ,
yfjT (CP4-57 prophage; predicted protein) ,
yfjU (CP4-57 prophage; conserved protein) ,
yfjW (CP4-57 prophage; predicted inner membrane protein) ,
yfjX (CP4-57 prophage; predicted antirestriction protein) ,
yfjY (CP4-57 prophage; predicted DNA repair protein) ,
yfjZ (CP4-57 prophage; predicted antitoxin of the YpjF-YfjZ toxin-antitoxin system) ,
yjgW (KpLE2 phage-like element; predicted protein) ,
yjgZ (KpLE2 phage-like element; predicted protein) ,
yjhD (KpLE2 phage-like element; predicted protein) ,
yjhG (KpLE2 phage-like element; D-xylonate dehydratase) ,
yjhP (KpLE2 phage-like element; predicted methyltransferase) ,
yjhQ (KpLE2 phage-like element; predicted acetyltransferase) ,
yjhR (KpLE2 phage-like element; predicted frameshift suppressor) ,
yjhV (KpLE2 phage-like element; predicted protein) ,
ykfA (CP4-6 prophage; predicted GTP-binding protein) ,
ykfB (CP4-6 prophage; predicted protein) ,
ykfC (CP4-6 prophage; conserved protein) ,
ykfF (CP4-6 prophage; predicted protein) ,
ykfG (CP4-6 prophage; predicted DNA repair protein) ,
ykfI (CP4-6 prophage; toxin of the YkfI-YafW toxin-antitoxin system) ,
ylcG (DLP12 prophage; small protein) ,
ylcH (DLP12 prophage; hypothetical protein) ,
ymfD (e14 prophage; predicted SAM-dependent methyltransferase) ,
ymfE (e14 prophage; predicted inner membrane protein) ,
ymfH (e14 prophage; predicted protein) ,
ymfI (e14 prophage; predicted protein) ,
ymfJ (e14 prophage; predicted protein) ,
ymfK (e14 prophage; predicted repressor protein) ,
ymfL (e14 prophage; predicted DNA-binding transcriptional regulator) ,
ymfM (e14 prophage; predicted protein) ,
ymfN (e14 prophage; predicted DNA-binding transcriptional regulator) ,
ymfO (e14 prophage; conserved protein) ,
ymfP (e14 prophage; conserved protein) ,
ymfQ (e14 prophage; conserved protein) ,
ymfR (e14 prophage; predicted protein) ,
ymfS (e14 prophage; predicted protein) ,
ymfT (e14 prophage; predicted DNA-binding transcriptional regulator) ,
ynaA (Rac prophage; predicted tail protein) ,
ynaE (Rac prophage; cold shock protein, function unknown) ,
ynaK (Rac prophage; conserved protein) ,
ynfN (Qin prophage; predicted protein) ,
ynfO (Qin prophage; predicted protein) ,
ypjF (CP4-57 prophage; toxin of the YpjF-YfjZ toxin-antitoxin system) ,
ypjK (CP4-57 prophage; predicted inner membrane protein) ,
ypjM_1 (CP4-57 prophage; predicted protein) ,
ypjM_2 (CP4-57 prophage; predicted protein) ,
ypjM_3 (CP4-57 prophage; predicted inner membrane protein)


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Please cite the following article in publications resulting from the use of EcoCyc: Nucleic Acids Research 41:D605-12 2013
Page generated by SRI International Pathway Tools version 18.5 on Fri Dec 19, 2014, BIOCYC14B.