Original (2000) note: Cj1108, clpA, probable ATP-dependent CLP protease ATP-binding subunit, len: CLPA_ECOLI ATP-dependent CLP protease ATP-binding subunit (758 aa), fasta scores; opt: 1730 z-score: 1803.9 E(): 0,41.2% identity in 748 aa overlap. 41.7% identity to HP0033. Contains 2x PS00017 ATP/GTP-binding site motif A (P-loop), PS00871 Chaperonins clpA/B signature 2, and Pfam match to entry PF00495 clpA_B, Chaperonins clpA /B. Also similar to clpB Cj0509c (36.5% identity in 835 aa overlap); Updated (2006) note: Pfam domains PF02861 Clp amino terminal domain and PF00004 ATPase family [...]

Original (2000) note: Cj1106, possible periplasmic thioredoxin, len: 200 aa; similar to active site region of thioredoxins e.g. THIO_BACSU thioredoxin (103 aa), fasta scores; opt: 112 z-score: 150.6 E(): 0.43, 37.7% identity in 69 aa overlap. Contains probable N-terminal signal sequence. No Hp match. Also similar to Cj1207c (29.4% identity in 201 aa overlap); Updated (2006) note: No specific characterisation with acceptable identity score has been carried out yet,so putative kept in product function. Functional classification - Energy metabolism - Electron transport.

Putative 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Catalyzes the phosphorylation of the position 2 hydroxy group of 4-diphosphocytidyl-2C-methyl-D-erythritol.

ATP-dependent DNA helicase; Original (2000) note: Cj1101, probable ATP-dependent DNA helicase, len: 691 aa; similar to many e.g REP_ECOLI ATP-dependent DNA helicase REP (EC 3.6.1.-) (673 aa), fasta scores; opt: 977 z-score: 1067.3 E(): 0,36.9% identity in 640 aa overlap, and UVRD_ECOLI DNA helicase II (EC 3.6.1.-) (720 aa), fasta scores; opt: 1129 z-score: 1232.6 E(): 0, 35.2% identity in 714 aa overlap. 43.7% identity to HP1478. Contains PS00017 ATP/GTP-binding site motif A (P-loop), and Pfam match to entry PF00580 UvrD-helicase, UvrD/REP helicase; Updated (2006) note: Similar to more [...]

Small protein B homolog; Required for rescue of stalled ribosomes mediated by trans- translation. Binds to transfer-messenger RNA (tmRNA), required for stable association of tmRNA with ribosomes. tmRNA and SmpB together mimic tRNA shape, replacing the anticodon stem-loop with SmpB. tmRNA is encoded by the ssrA gene; the 2 termini fold to resemble tRNA(Ala) and it encodes a 'tag peptide', a short internal open reading frame. During trans-translation Ala-aminoacylated tmRNA acts like a tRNA, entering the A-site of stalled ribosomes, displacing the stalled mRNA. The ribosome then switches [...]

Carbon storage regulator homolog; A translational regulator that binds mRNA to regulate translation initiation and/or mRNA stability. Usually binds in the 5'- UTR at or near the Shine-Dalgarno sequence preventing ribosome-binding, thus repressing translation. Binds mRNA; 77% of enriched bound RNA is for flagellin A (flaA) while another 13% encodes other flagellar or motility-related genes. Binds mRNA in 5'-UTR or intergenic regions, binds consensus 5'-AAGGA-3' in the loop of a predicted stem-loop structure. Binds at least 2 sites in the 5'-UTR of flaA mRNA and represses its translation [...]

tRNA pseudouridine synthase B; Responsible for synthesis of pseudouridine from uracil-55 in the psi GC loop of transfer RNAs; Belongs to the pseudouridine synthase TruB family. Type 1 subfamily.

Original (2000) note: Cj1098, pyrB, probable aspartate carbamoyltransferase, len: 295 aa; similar to many e.g. PYRB_BACSU aspartate carbamoyltransferase (EC 2.1.3.2) (304 aa), fasta scores; opt: 664 z-score: 820.0 E(): 0, 38.5% identity in 296 aa overlap. 52.5% identity to HP1084. Also similar to Cj0994c (argF, 27.1% identity in 314 aa overlap); Updated (2006) note: Pfam domains PF02729 Aspartate/ornithine carbamoyltransferase, cacarbamoyl-P binding domain and PF00185 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain were identified within CDS. Also, PS00097 CARBAMOYLTRA [...]

Peptidase; Original (2000) note: Cj1099, probable peptidase,len: 573 aa; similar to many members of the peptidase family M3 (zinc metalloprotease) e.g. PEPF_LACLA oligoendopeptidase F (601 aa), fasta scores; opt: 603 z-score: 673.0 E(): 3.4e-30, 25.9% identity in 595 aa overlap. 53.5% identity to HP0470. Contains PS00142 Neutral zinc metallopeptidases, zinc-binding region signature; Updated (2006) note: Pfam domain PF01432 Peptidase family M3 identified within CDS. Further support given to product function. Specific characterisation has not been carried out yet. Putative not added to p [...]