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. 2003 May;185(9):2711–2722. doi: 10.1128/JB.185.9.2711-2722.2003

TABLE 2.

ORFs in and around S. hominis SCC12263 with deduced products showing similarities to extant proteins

ORFa Value for CDSb
Gene Product Data for homologue in the database
NCTC10442
Data indicating homology to ORF of straina: N315
85/2082
Starting nucleotide Ending nucleotide Size (bp) Length (aa) % Identityc Description of gene product (size [bp])d % Identityc Corresponding ORF (size [bp]) % Identityc Corresponding ORF (size [bp]) % Identityc Corresponding ORF (size [bp])
(ORF1) 708 52 657 218 Hypothetical protein 40 Hypothetical protein, i.e., partial ORF 59 (216) of Staphylococcus aureus bacteriophage phl PVL
ORF2 1519 974 546 181 Hypothetical protein 52 Hypothetical protein YdhK (205) of Bacillus subtilis
ORF3∗ 1716 1537 180 59 Hypothetical protein 83 Partial copper-transporting ATPase CopB (745) of Enterococcus hirae
ORF4 2676 1918 759 252 Hypothetical protein 92 CE014 (252) 71 CN030 (21) 71 CZ021 (214)
ORF5 2915 2673 243 80 Hypothetical protein 97 CE015 (80) 88 CN031 (88) 88 CZ022 (88)
ORF6 3072 4145 1074 357 Hypothetical protein RI 95 E023 (355) 69 N052 (354) 69 Z024 (354)
ORF7 4164 5492 1329 442 Hypothetical protein RI 96 E024 (442) 74 N054 (131) 74 Z025 (286)
ORF8 6744 5815 930 309 Hypothetical protein 68 N053 (287) 68 Z026 (396)
ORF9 7230 6760 471 156 Hypothetical protein
ORF10 8239 7319 921 306 Hypothetical protein
ORF11 8585 9610 1026 341 Hypothetical protein 54 N029 (348)
ORF12 9802 10098 297 98 Hypothetical protein 91 E025 (98) 77 N030 (98) 53 Z003 (95)
ORF13 10098 11867 1770 589 Hypothetical protein 98 E026 (589) 75 N031 (597) 65 Z004 (522)
ORF14 11937 12152 216 71 Hypothetical protein 98 E027 (70) 50 N033 (61) 55 Z008 (70)
ORF15 12055 13404 1350 449 ccrA1 Cassette chromosome recombinase A1 99 ccrA1 (449) 78 ccrA2 (448) 78 ccrA3 (448)
ORF16 13426 15054 1629 542 ccrB1 Cassette chromosome recombinase B1 84 ccrB1 (542) 80 ccrB2 (542) 85 ccrB3 (542)
ORF17 15520 15870 351 116 Hypothetical protein 93 E031 (116) 87 N0410 (116) 53 Z011 (116)
ORF18 15863 15955 93 30 Hypothetical protein
ORF19 15957 16268 312 103 Hypothetical protein 91 E032 (108) 97 N042 (103) 48 Z013 (131)
ORF20∗ 16285 16518 234 77 Hypothetical protein 90 E033 (169) 90 N043 (168) 63 Z014 (173)
ORF21∗ 16583 16789 207 68 Hypothetical protein 92 E033 (169) 95 N043 (168) 58 Z014 (173)
ORF22 17135 19078 1944 647 M.StsI Modification methylase 58 StsI methylase (653) of Streptococcus sanguis
ORF23 20489 19086 1404 467 Hypothetical protein
ORF24 21398 20523 876 291 Hypothetical protein
ORF25 22105 21470 636 211 5′-Methylcytosine-specific restriction enzyme 35 5′-Methylcytosine-specific restriction enzyme A of Methanosarcima mazei
(ORF26) 22820 22341 480 159 orfXhom Conserved hypothetical protein OrfX 91 orfX (159) 91 orfX (159) 91 orfX (159)
a

ORFs shown in parentheses were located outside of SCC12263. Incomplete ORFs that are potentially defective genes or pseudogenes containing frame-shift mutations are annotated with asterisks.

b

Nucleotide positions given are from the nucleotide sequence deposited under DDBJ/EMBL/GenBank accession no. AB063171, and they were measured in the 5′ (starting nucleotide) to 3′ (ending nucleotide) direction. CDS, coding sequence.

c

Identity to the amino acid sequence of the best match revealed in homology search of the GenBank and EMBL databases with TFastA.

d

Gene product sizes are numbers of amino acids. PVL, Panton-Valentine leukocidin; RI, region I.