TABLE 3.
KVP40 orthologs to T4 productsa
| Function | CDS or gene (no. of aa)
|
Descriptionb | % Identity % similarity (comments) | |
|---|---|---|---|---|
| KVP40 | T4 | |||
| Transcription | 002 (90) | dsbA (89) | DNA binding | 36/62 |
| 003 (98) | 33 (112) | Late activator | 32/55 | |
| 064 (170) | 55 (185) | Late sigma | 44/64 | |
| 077 (221) | 45 (228) | Late activator | 28/48 | |
| 295 (99) | asiA (90) | Anti-sigma 70 | 32/55 | |
| Translation, RNA | 080 (132) | regA (122) | Repressor | 57/71 |
| 084 (381) | rnlA (374) | RNA ligase 1 | 43/62 | |
| 090 (305) | pseT (301) | Polynucleotide kinase | 33/53 | |
| 133 (335) | mlB (334) | RNA ligase 2 | 33/52 | |
| tRNAs (30) | tRNAs (8) | tRNA | ||
| Nucleotide metabolism | 006 (181) | frd (193) | Dihydrofolate reductase | 32/54 |
| 012 (611) | nrdD (606) | NTP reductase | 53/68 (no intron) | |
| 015 (158) | nrdG (156) | NTP reductase | 50/71 | |
| 031 (300) | td (286) | Thymidylate synthase | 41/57 (no intron) | |
| 062 (79) | nrdH (102) | Glutaredoxin | 25/45 | |
| 119 (150) | cd (193) | dCMP deaminase | 53/67 | |
| 190 (194) | tk (193) | Thymidine kinase | 43/61 | |
| 277 (742) | nrdA (754) | NDP reductase | 58/72 | |
| 278 (374) | nrdB (388) | NDP reductase | 52/75 (no intron) | |
| 279 (99) | nrdC (87) | Thioredoxin | 33/57 | |
| 324 (212) | 1 (241) | dNMP kinase | 28/45 | |
| Replication, recombination, repair | 001 (335) | rnh (305) | RNase H | 46/65 |
| 004 (216) | 59 (217) | Helicase loader | 33/59 | |
| 005 (304) | 32 (301) | SSB | 43/58 | |
| 008 (366) | uvsX (390) | RecA-like protein | 57/74 | |
| 010 (466) | 41 (475) | DNA helicase | 49/69 | |
| 020 (352) | 61 (342) | Primase | 40/58 | |
| 023 (230) | dexA (227) | Exonuclease A | 37/59 | |
| 045 (601) | 39 (516) | Topoisomerase II | 48/66 | |
| 057 (447) | 30 (487) | DNA ligase | 38/52 | |
| 072 (346) | 47 (339) | Recombination nuclease | 40/62 | |
| 074 (745) | 46 (560) | Recombination nuclease | 34/52 (T5 gpD13-like) | |
| 077 (221) | 45 (228) | Clamp | 28/48 | |
| 078 (318) | 44 (319) | Clamp loader | 39/60 | |
| 079 (163) | 62 (187) | Clamp loader | 31/50 | |
| 082 (850) | 43 (898) | DNA polymerase | 44/60 | |
| 131 (151) | 49 (157) | Recombination endonuclease VII | 39/61 | |
| 156 (421) | dda (439) | DNA helicase | 39/55 | |
| 205 (138) | denV (138) | N-Glycosidase | 41/56 | |
| 282 (428) | 52 (442) | Topoisomerase II | 26/43 | |
| 378 (507) | uvsW (587) | RNA-DNA helicase | 55/73 | |
| 382 (144) | uvsY (137) | UvsX assistant; SSB | 36/54 | |
| Head | 063 (298) | 24 (427) | Vertex precursor | 28/45 |
| 330 (198) | 2 (274) | DNA end binding | 46/62 | |
| 331 (151) | 4 (150) | Head completion | 58/71 | |
| 350 (307) | 13 (309) | Head completion | 44/63 | |
| 351 (278) | 14 (256) | Head completion | 45/63 | |
| 354 (219) | 16 (495) | Terminase subunit | 40/58 | |
| 355 (601) | 17 (610) | Terminase subunit | 53/68 | |
| 358 (515) | 20 (524) | Portal vertex protein | 46/64 | |
| 359 (55) | 67 (80) | Prohead core protein | 22/43 | |
| 360 (163) | 68 (141) | Prohead core protein | 38/58 | |
| 361 (213) | 21 (212) | Prohead protease | 49/61 | |
| 362 (283) | 22 (269) | Prohead core protein | 35/57 | |
| 363 (514) | 23 (521) | Head protein | 60/73 | |
| 367 (163) | inh (226) | Head protease inhibitor | (Little similarity) | |
| Tail, tail fiber | 298 (1085) | 37 (1026) | Distal long tail fiber | (Little similarity) |
| 298-2 (1094) | 37 (1026) | Distal long tail fiber | (Duplicated) | |
| 325 (177) | 3 (176) | Tail sheath stabilizer | 33/52 | |
| 328 (282) | 26 (208) | Baseplate hub | 26/46 | |
| 329 (248) | 19 (163) | Tail tube | 20/41 (duplicated) | |
| 332 (379) | 48 (364) | Baseplate-tube cap | 19/42 | |
| 333 (192) | 53 (196) | Baseplate wedge | 27/53 | |
| 335 (421) | 5 (575) | Baseplate hub | 40/58 | |
| 340 (139) | 25 (132) | Baseplate wedge | 39/68 | |
| 341 (646) | 6 (660) | Baseplate wedge | 45/63/PICK> | |
| 342 (1165) | 7 (1032) | Baseplate wedge | 36/55 | |
| 343 (343) | 8 (334) | Baseplate wedge | 42/61 | |
| 344 (327) | 9 (288) | Baseplate; socket | 22/43 | |
| 345 (748) | 10 (602) | Baseplate; pin | 30/45 | |
| 346 (234) | 11 (219) | Baseplate; pin | 24/43 | |
| 347 (512) | 12 (527) | Short tail fiber | 25/46 (duplicated) | |
| 348 (473) | 12 (527) | Short tail fiber | 28/46 (duplicated) | |
| 349 (559) | wac (487) | Whiskers | 24/43 | |
| 352 (450) | 15 (272) | Tail sheath stabilizer | 43/60 | |
| 356 (671) | 18 (659) | Tail sheath | 48/63 | |
| 357 (166) | 19 (163) | Tail tube | 56/74 (duplicated) | |
| 383 (894) | 35 (372) | Fiber hinge | 30/50 | |
| 384 (1290) | 34 (1289) | Proximal long tail fiber | 36/49 | |
| Chaperonins, catalysts | 084 (381) | rnlA (374) | Fiber attachment | 43/62 |
| 129 (112) | 31 (111) | Cochaperonin | 37/61 | |
| Lysis, exclusion | 143 (689) | rIIA (725) | Lysis inhibition | 28/48 |
| 144 (345) | rIIB (312) | Lysis inhibition | 43/67 | |
| 146 (231) | segD (223) | Endonuclease | 39/55 | |
a
The KVP40 CDS number and the orthologous T4 gene are given, followed by the number of amino acids (aa) in parentheses. Percent similarities and identities were obtained from the WU-BlastP output with the BLOSUM62 matrix.
b
NTP, nucleoside triphosphate; NDP, nucleoside diphosphate; dNMP, deoxynucleoside monophosphate; SSB, single-strand DNA binding protein.