TABLE 2.
Genome organization of CNPH82
| cna | bp
|
Size (kDa) (pI)b | Predicted function | Most significant database match (E value)c | Structural featuresd | % Amino acid identity (% amino acid similarity) | Accession no. | |
|---|---|---|---|---|---|---|---|---|
| Start | End | |||||||
| 1 | 245 | 679 | 16.5 (5.4) | Terminase, small subunit | Orf35, phage 37 (2e−46); terminase small subunit (4e−25) | c-c domains | 65 (81) | AAX91296.1 |
| 2 | 663 | 1928 | 49.2 (7.8) | Terminase, large subunit | Orf9, phage X2 (0.0); terminase large subunit (9e−63) | c-c domain, P loop | 92 (96) | AAX92014.1 |
| 3* | 1934 | 3370 | 56.2 (5.7) | Portal | Orf7, phage 37 (0.0); phage portal protein, SPP1 Gp6-like (5e−78) | c-c domains | 77 (88) | AAX91270.1 |
| 4 | 3327 | 4280 | 36.6 (9.0) | Head morphogenesis | Orf12, phage 71 (1e−139); phage Mu protein F-like protein (1e−15) | c-c domains | 76 (87) | AAX91582.1 |
| 5 | 4283 | 4387 | 4.1 (5.6) | Orf147, phage EW (6e−07) | 72 (90) | AAX91409.1 | ||
| 6 | 4388 | 4594 | 7.9 (5.3) | Orf66, phage 96 (2e−14) | c-c domain | 54 (75) | AAX91475.1 | |
| 7 | 4709 | 5233 | 20.0 (4.8) | Minor head protein | Orf20, phage 71 (5e−44); minor capsid protein (6e−10) | c-c domain | 51 (74) | AAX91590.1 |
| 8 | 5215 | 6204 | 36.0 (5.5) | Orf11, phage 52A (1e−152) | c-c domain | 85 (93) | AAX91805.1 | |
| 9 | 6221 | 6511 | 11.2 (4.8) | Transcription termination? | Orf50, phage 71 (3e−24); Rho-termination factor (N terminal) (8e−05) | 56 (67) | AAX91616.1 | |
| 10 | 6511 | 6825 | 12.0 (6.6) | Head morphogenesis | Orf50, phage X2 (3e−33) | 65 (82) | AAX92052.1 | |
| 11 | 6818 | 7147 | 12.7 (5.7) | Head-tail joining | Orf43, phage 52A (2e−45); gp16 of phage SPP1 (1e−23) | 77 (86) | AAX91833.1 | |
| 12* | 7140 | 7553 | 15.4 (8.6) | Tail component? | Orf46, phage 71 (4e−64) | 81 (89) | AAX91613.1 | |
| 13 | 7566 | 8003 | 16.9 (8.6) | Orf28, phage 29 (4e−74) | 93 (97) | AAX91747.1 | ||
| 14 | 7990 | 8529 | 20.0 (4.7) | Orf26, phage 92 (2e−79) | c-c domain | 80 (87) | AAX91957.1 | |
| 15 | 8592 | 9086 | 18.8 (4.7) | Tail component | Orf99, phage EW (1e−63) | c-c domain | 72 (82) | AAX91402.1 |
| 16 | 9149 | 9451 | 11.8 (10.7) | Orf48, phage 71 (2e−29) | c-c domain, P loop | 62 (78) | AAX91614.1 | |
| 17 | 9454 | 12558 | 112.3 (10.4) | Tape measure protein | Orf1, phage EW (0.0); TMP repeat (5e−13) | c-c domain (N terminal), 12 TM domains | 62 (76) | AAX91341.1 |
| 18* | 12574 | 13512 | 25.5 (5.7) | Orf38, phage EW (1e−73); glycosyl hydrolase family 5 signature (7e−07) | 63 (77) | AAX91376.1 | ||
| 19* | 13526 | 15382 | 69.8 (8.9) | Endopeptidase | Orf6, phage EW (0.0); SGNH_hydrolase subfamily (1e−34) | c-c domain | 69 (83) | AAX91346.1 |
| 20* | 15397 | 18063 | 97.0 (6.9) | Preneck appendage | Orf3, phage 37 (0.0) | c-c domain | 53 (71) | AAX91266.1 |
| 21 | 18063 | 19595 | 58.0 (5.0) | Orf5, phage 37 (2e−84) | c-c domain | 35 (52) | AAX91268.1 | |
| 22 | 19579 | 19938 | 13.7 (4.3) | Orf29, phage 37 (7e−13) | c-c domain (C terminal) | 39 (57) | AAX91290.1 | |
| 23 | 19940 | 20080 | 5.6 (9.0) | Orf143, phage 37 (1e−05) | 62 (77) | AAX91338.1 | ||
| 24* | 20084 | 20416 | 12.8 (6.8) | Orf51, phage EW (5e−27); cell attachment sequence (1e−04) | c-c domains, 1 TM domain | 58 (80) | AAX91384.1 | |
| 25 | 20555 | 22456 | 72.5 (9.8) | Endolysin | Orf3, phage EW (0.0); amidase_4 (8e−17); CHAP domain (2e−15) | c-c domain | 71 (81) | AAX91343.1 |
| 26* | 22646 | 23494 | 31.4 (4.8) | Tail component | Orf10, phage 71 (7e−34) | c-c domain | 35 (52) | AAX91580.1 |
| 27 | 23506 | 23859 | 13.5 (4.4) | Orf29, phage 37 (7e−13) | c-c domain (C terminal) | 36 (59) | AAX91290.1 | |
| 28 | 23852 | 23998 | 5.7 (4.8) | Orf143, phage 37 (3e−05) | 57 (76) | AAX91338.1 | ||
| 29 | 24053 | 24325 | 9.9 (9.2) | Holin | Orf56, phage 71 (6e−31); phage holin (4e−09) | 2 TM domains | 65 (88) | AAX91620.1 |
| 30 | 24325 | 25707 | 52.5 (9.5) | Endolysin | Orf7, phage 71 (1e = 125); amidase_3 (3e−08); CHAP domain (2e−07) | 50 (65) | AAX91577.1 | |
| 31 | 25774 | 26934 | 46 (9.5) | Orf114, L. plantarum phage LP65 | c-c domain (C terminal) | 28 (43) | YP_164749.1 | |
| 32 | 28631 | 27255 | 54.2 (8.8) | Integrase | Orf26, phage 52A (8e−114); resolvase (N-term) (4e−20); PinR recombinase (1e−24) | c-c domains | 51 (70) | AAX90917.1 |
| 33 | 29252 | 28686 | 20.9 (9.1) | Orf7, phage X2 (2e−03); quinonprotein alcohol dehydrogenase-like (2e−13) | c-c domain | |||
| 34* | 29740 | 29270 | 18.5 (7.2) | Unknown function (DUF955) | Orf28, phage 55 (2e−61); DUF955 (3e−8) | 72 (86) | AAX91670.1 | |
| 35 | 30078 | 29746 | 2.7 (5.5) | cI-like repressor | Orf44, phage 55 (1e−40); HTH-XRE type 3 family (7e−10) | HTH motif | 75 (89) | AAX91685.1 |
| 36 | 30267 | 30509 | 9.4 (8.8) | Cro-like repressor | Orf54, phage 55 (3e−32); HTH-XRE type 3 family (3e−12) | HTH motif | 84 (91) | AAX91692.1 |
| 37* | 30928 | 30674 | 9.8 (0.8) | Orf74, phage 85 (3e−20) | 67 (83) | AAX90968.1 | ||
| 38 | 30930 | 31703 | 29.8 (9.1) | Antirepressor | Orf16, phage EW (1e−98); COG3645 (9e−20) | c-c domains | 68 (82) | AAX91356.1 |
| 39 | 31741 | 31902 | 6 (9.8) | |||||
| 40 | 32275 | 32550 | 10.9 (5.2) | c-c domain | ||||
| 41* | 32522 | 32746 | 8.7 (5.2) | Orf59, phage 37 (2e−18) | 60 (75) | AAX91316.1 | ||
| 42 | 32739 | 33365 | 23.7 (5.7) | Topoisomerase | Orf20, phage X2 (1e−99); DUF1071 (9e−14) | c-c domain | 85 (92) | AAX92025.1 |
| 43 | 33358 | 33768 | 15.0 (7.8) | DNA replication | Orf34, phage EW (7e−53); Single-stranded-DNA-binding protein (2e−20) | 79 (86) | AAX91372.1 | |
| 44 | 33782 | 34447 | 25.8 (6.4) | Unknown function (DUF968) | Orf17, phage 37 (1e−100); DUF968 (3e−79) | 77 (88) | AAX91280.1 | |
| 45 | 34447 | 35175 | 28.0 (8.9) | DNA replication | Orf22, phi ETA (1e−60); phage replisome organizer (6e−04) | c-c domain, P loop, winged helix | 78 (87) | AAL82345.1 |
| 46 | 35181 | 35534 | 14.6 (8.7) | Orf41, phage EW (4e−17) | 34 (67) | AAX91379.1 | ||
| 47 | 35521 | 36771 | 47.5 (4.9) | DNA replication | Orf10, phage EW (1e−129); DnaB helicase C domain (C terminal) (8e−65) | c-c domain, P loop | 54 (75) | AAX91350.1 |
| 48 | 36768 | 36989 | 8.8 (5.1) | Orf78, phage X2 (3e−13) | 47 (70) | AAX92064.1 | ||
| 49 | 36967 | 37212 | 9.6 (7.6) | Orf69, phage 187 (6e−02) | c-c domain | 31 (55) | AAX90732.1 | |
| 50* | 37222 | 37638 | 16.7 (9.5) | Unknown function (DUF1064) | Orf36, phage X2 (5e−54); DUF1064 (9e−29) | c-c domain | 73 (87) | AAX92040.1 |
| 51 | 37625 | 38089 | 18.0 (5.0) | Orf32, phage 55 (3e−10) | 30 (52) | AAX91674.1 | ||
| 52 | 38041 | 38232 | 7.5 (4.8) | |||||
| 53 | 38233 | 38592 | 14.2 (9.9) | Orf44, phage 71 (7e−17) | c-c domain | 40 (62) | AAX91612.1 | |
| 54 | 38589 | 39023 | 16.8 (5.7) | Orf48, phage 47 (5e−23) | 71 (82) | AAX91237.1 | ||
| 55 | 39026 | 39706 | 26.8 (9.5) | Orf85, phage G1 (4e−06); intron-associated endonuclease (3e−13) | 38 (48) | AAX92166.1 | ||
| 56 | 39703 | 39888 | 7.1 (10.1) | Orf74, phage 2638A (5e−15) | 60 (80) | AAX91033.1 | ||
| 57* | 39876 | 40232 | 13.7 (5.5) | Orf13, phage Twort (3e−27); SNase homolog (1e−6) | c-c domain | 60 (73) | AAX92396.1 | |
| 58 | 40235 | 40774 | 21.3 (4.7) | Orf30, phage 96 (3e−07) | c-c domains | 27 (42) | AAX91447.1 | |
| 59 | 40764 | 40943 | 6.7 (4.9) | Orf57, phage 55 (3e−06) | c-c domain | 48 (81) | AAX91694.1 | |
| 60 | 40936 | 41361 | 15.6 (5.3) | dUTPase | Orf36, phage 37 (8e−58); dUTPase (7e−22) | 82 (88) | AAX91297.1 | |
| 61 | 41641 | 41892 | 9.7 (5.3) | Orf56, phage 37 (1e−12) | 46 (60) | AAX91314.1 | ||
| 62 | 41889 | 42059 | 6.5 (5.4) | Transcriptional regulator | Orf85, phage 29 (1e−08); transcriptional activator RinB (6e−12) | 60 (80) | AAX91783.1 | |
| 63* | 42265 | 42663 | 15.2 (8.3) | Orf44, phage 187 (2e−14) | c-c domain, 2 TM domains, leucine zipper | 38 (60) | AAX90719.1 | |
| 64 | 42651 | 42791 | 5.3 (4.6) | Orf118, phage 29 (7e−06) | c-c domain, 1 TM domain | 54 (77) | AAX91790.1 | |
| 65 | 42794 | 43210 | 16.5 (5.6) | Transcriptional regulator | Orf26, phage 77 (1e−60); transcriptional activator RinA (1e−57) | c-c domain (N terminal) | 76 (91) | NP_958669.1 |
a
An asterisk indicates an ORF with an unusual start codon (TTG or GTG).
b
Based on computer prediction.
c
Only the most significant homology is listed.
d
Based on computational predictions. c-c, coiled coil; TM, transmembrane; HTH, helix-turn-helix.