Team:DUT China/T4 phage
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rIIA 2189..12 = 2178 base pairs 725 amino acids = 82.9 kDa product: rIIA protector from prophage-induced earlylysis membrane integrity protector; mutants give rapid lysis on various lysogenic strains due to effects of specific prophage products, mistakenly interpreted as related to lysis inhibition.
60 2458..2990 = 533 base pairs 160 amino acids = 18.6 kDa product: gp60 topoisomerase II, large subunit, C-terminal region topoisomerase II in T4 and related phages an insertion aplits the large Topo II subunit in two parts (gp60 and gp39); a 50-bp segment is inserted in T4 gene 60 that forms an mRNA secondary structure that is translationally bypassed
60 2458..2990 = 533 base pairs 160 amino acids = 18.6 kDa product: gp60 topoisomerase II, large subunit, C-terminal region topoisomerase II in T4 and related phages an insertion aplits the large Topo II subunit in two parts (gp60 and gp39); a 50-bp segment is inserted in T4 gene 60 that forms an mRNA secondary structure that is translationally bypassed
39 5328..3778 = 1551 base pairs 516 amino acids = 58 kDa product: DNA topoisomerase II large subunit DNA-dependent ATPase, topoisomerase II in T4 and related phages an insertion splits the large Topo II subunit in two parts (gp60 and gp39); gp39; DNA-dependent ATPase; membrane associated protein; bacteriophage T4 topoisomerase II is comprised of gp39, gp52, and gp60 subunits; topisomerase II catalyzes cleavage and re-ligation of double-stranded DNA
41 22039..20612 = 1428 base pairs 475 amino acids = 53.6 kDa product: 41 helicase DNA primase-helicase ATPase, dATPase, GTPase, dGTPase for replication and recombination; gp41; replicative DNA helicase; ATPase; functional hexamer; forms helicase-primase complex with gp61; required for lagging strand DNA synthesis and processive leading strandDNA synthesis
42 26219..25479 = 741base pairs 246 amino acids = 28.5 kDa product: gp42 dCMP hydroxymethylase dCMP hydroxymethylase for producing modified hydroxymethylcytosine in T4 DNA
43 29893..27197 = 2697 base pairs 898 amino acids = 103.6 kDa product: DNA polymerase core DNA polymerase of T4 replisome, 3'-5' exonuclease; possesses DNA synthesis, 3' to 5' exonuclease (ssDNA), dNTP binding, and DNA binding activities; belongs to the DNA polymerase type-B family
62 30905..30342 = 564 base pairs 187 amino acids = 21.4 kDa product: clamp loader small subunit gp62; clamp loader is formed by heterodimer of gp44 and gp62; clamp loader forms a complex with gp45 (clamp) in the presence of ATP and loads clamp on DNA; clamp loader is necessary for T4 DNA synthesis and late transcription
44 31866..30907 = 960 base pairs 319 amino acids = 35.8 kDa product: AAA family ATPase gp44; DNA polymerase accessory protein; forms complex with gp62 to load gp45 sliding clamp; necessary for DNA synthesis; possesses DNA-dependent ATPase activity
45 32603..31917 = 687 base pairs 228 amino acids = 24.9 kDa product: sliding clamp gp45 also is required for synthesis of late RNA, acting as a 'mobile enhancer' and in effect taking the place of a -35 region for the T4 sigma factor responsible for late transcription; gp45; DNA replication processivity factor; DNA polymerase accessory factor; forms homotrimer; tethers catalytic subunit of DNA polymerase to DNA during replication; transcription factor; necessary for T4 'late' transcription
47 36447..35428 = 1020 base pairs 339 amino acids = 39.2 kDa product: endonuclease subunit gp46/gp47 subunit required for recombination and host-DNA degradation; gp47; forms functional complex with gp46; homologous to E. coli SbcBC and RecBC proteins and eukaryotic Mre11-Rad50 complex; involved in DNA recombination, replication, and repair; degrades host DNA
55 40157..39600 = 558 base pairs 185 amino acids = 21.5 kDa product: RNA polymerase sigma factor T4-encoded sigma factor, associates with host RNAP; gp55; RNA polymerase sigma factor; transcription factor; necessary for 'late' transcription; binds specific promoter sequence; interacts with gp55 sliding clamp
1 75374..74649 = 726 base pairs 241 amino acids = 27.3 kDa product: deoxynucleoside monophosphate kinase converts dTMP, dGMP and HMdCMP to diphosphates, not active on dAMP or dCMP; gp1; catalyses the phosphorylation of canonical nucleotides to the corresponding diphosphates using ATP as a phosphate donor; recognizes three structurally dissimilar nucleotides: dGMP, dTMP and 5-hydroxymethyl-dCMP while excluding dCMP and dAMP
3 75954..75424 = 531 base pairs 176 amino acids = 19.7 kDa product: tail protein tail sheath stabilizer, terminator; gp3; structural virion protein; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; the capsid tail consists of a contractile outer sheath, a inner tube, and a baseplate; gp3 is localized to the tail tube in mature virions
2 76885..76061 = 825base pairs 274 amino acids = 31.6 kDa product: DNA end protector protein DNA end binding and protection; gp2; protects injected phage DNA ends from degradation by exonuclease V; involved in DNA end joining
5 77959..79686 = 1728 base pairs 575 amino acids = 63.1 kDa product: baseplate hub subunit and tail lysozyme tail lysozyme for penetration during infection and lysis from without; gp5; structural virion protein; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; the capsid tail consists of a contractile outer sheath, a inner tube, and a baseplate; the baseplate consists of a hub surrounded by six wedges; gp5 is a component of the hub; during infection, gp5 helps to digest the peptidoglycan layer of the bacterial cell, so that the DNA can be injected into the host cell
7 83060..86158 = 3099 base pairs 1032 amino acids = 119.2 kDa product: baseplate wedge subunit C-terminus is predicted integral membrane domain; gp7; structural virion protein; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; the capsid contractile tail consists of a contractile outer sheath, a inner tube, and a baseplate; the baseplate consists of a hub surrounded by six wedges; gp7 is a component of the wedges and is localized to the outer corners of the baseplate; at 1,032 aa, gp7 is the second largest T4 protein
10 88085..89893 = 1809 base pairs 602 amino acids = 66.2 kDa product: baseplate wedge subunit and tail pin gp10; structural virion protein; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; the capsid tail consists of a contractile outer sheath, a inner tube, and a baseplate; the baseplate consists of a hub surrounded by six wedges; gp10 is a component of the wedges
12 90549..92132 = 1584 base pairs 527 amino acids = 56.2 kDa product: gp12 Short tail fibers responsible for irreversible adsorption to host cells; can be added after phage completion
13 93624..94553 = 930 base pairs 309 amino acids = 34.7 kDa product: neck protein neck or collar protein; gp13; structural virion protein; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; the capsid tail consists of a contractile outer sheath, a inner tube, and a baseplate; after DNA is packaged into the head,gp13, gp14, and six trimers of gp wac (whisker or fibritin) bind to the portal vertex to complete the head, which then binds to the tail
14 94555..95325 = 771 base pairs 256 amino acids = 29.6 kDa product: neck protein neck or collar protein; gp14; structural virion protein; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; the capsid tail consists of a contractile outer sheath, a inner tube, and a baseplate; after DNA is packaged into the head,gp13, gp14, and six trimers of gp wac (whisker or fibritin) bind to the portal vertex to complete the head, which then binds to the tail
15 95367..96185 = 819 base pairs 272 amino acids = 31.6 kDa product: tail sheath stabilizer and completion protein connector protein to gp3 and/or gp19; gp15; structural virion protein; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; the capsid tail consists of a contractile outer sheath, a inner tube, and a baseplate; gp15 forms the connector which enables the tail to bind to the head
17 96987..98504 = 1518 base pairs 505 amino acids = 57.1 kDa product: large terminase protein internal transcription and in-frame translation of gene 17, has nuclease and ATPase activity but does not bind ssDNA; gp17; terminase subunit with nuclease and ATPase activity; binds ssDNA; generates free phage genome ends from DNA concatamers, links them to proheads, and translocates DNA; forms complex with gp16
18 98536..100515 = 1980 base pairs 659 amino acids = 71.3 kDa product: tail sheath protein outer contractile sheath protein of phage tail;gp18; structural virion protein; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; the capsid tail consists of a contractile outer sheath, a inner tube, and a baseplate; the tube allows passage of DNA; gp18 forms the contractile outer sheath; 144 gp18 protomers are arranged in 24 stacked hexameric rings; each ring is offset to produce an apparent right handed helix
19 100632..101123 = 492 base pairs 163 amino acids = 15.8 kDa product: tail protein inner tube protein of phage tail; gp19; structural virion protein; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; the capsid tail consists of a contractile outer sheath, a inner tube, and a baseplate; the tube allows passage of DNA; gp19 forms the inner tube; 144 gp19 protomers are arranged in 24 stacked hexameric rings; each ring is offset to produce an apparent right handed helix
20 101207..102781 = 1575 base pairs 524 amino acids = 61 kDa product: portal protein head initiation complex; connects head to neck; gp20; structural virion protein; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; gp20 initiates capsid head assembly; involved in DNA packaging; binds with tail connector protein
21 103448..104086 = 639 base pairs 212 amino acids = 23.2 kDa product: prohead core scaffolding protein and protease gp21; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; capsid head is assembled on an initiator complex of gp20; the gp22-gp21 scaffold and the gp23 capsid protein are assembled onto the initiator; after the scaffold is completely surrounded by gp23 and gp24, the T4 prohead protease, gp21, degrades the scaffold and cleaves most of the other head proteins, including gp23 and gp24, creating space in the cavity of the prohead
22 104117..104926 = 810 base pairs 269 amino acids = 29.9 kDa product: prohead core protein head scaffolding protein, degraded by gp21 protease; gp22; structural virion protein; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; capsid head is assembled on an initiator complex of gp20; the gp22-gp21 scaffold and the gp23 capsid protein are assembled onto the initiator; after the scaffold is completely surrounded by gp23 and gp24, the T4 prohead protease, gp21, degrades the scaffold
23 104945..106510 = 1566 base pairs 521 amino acids = 56 kDa product: major capsid protein major head protein is cleaved by gp21 protease;gp23; structural virion protein; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; capsid head is composed of gp24 pentamers, surrounded by hexamers of the major capsid protein, gp23;capsid head is assembled on an initiator complex of gp20;the gp22-gp21 scaffold and the gp23 capsid protein are assembled onto the initiator; after the scaffold is completely surrounded by gp23 and gp24, the T4 prohead protease, gp21, degrades the scaffold and cleaves most of the other head proteins, including gp23 and gp24, creating space in the cavity of the prohead
24 107323..108606 = 1284base pairs 427 amino acids = 47kDa product: capsid vertex protein pentameric vertex protein, cleaved by gp21; gp24;os; structural virion protein; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; capsid head is composed of gp24 pentamers, surrounded by hexamers of the major capsid protein, gp23;capsid head is assembled on an initiator complex of gp20;the gp22-gp21 scaffold and the gp23 capsid protein are assembled onto the initiator; after the scaffold is completely surrounded by gp23 and gp24, the T4 prohead protease, gp21, degrades the scaffold and cleaves most of the other head proteins, including gp23 and gp24, creating space in the cavity of the prohead
26 116089..115802 = 627 base pairs 208 amino acids = 23.9 kDa product: gp26 baseplate hub subunit
27 117228..118403 = 1176 base pairs 391 amino acids = 44.4 kDa product: baseplate hub subunit gp27; structural virion protein; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; the capsid tail consists of a contractile outer sheath, a inner tube, and a baseplate; the baseplate consists of a hub surrounded by six wedges; gp27 is a component of the hub
29 118878..120650 = 1773 base pairs 590 amino acids = 64.4 kDa product: gp29 baseplate hub subunit, tail length determinator
48 120659..121753 = 1095 base pairs 364 amino acids = 39.7 kDa product: baseplate subunit tail tube accessory protein; gp48; structural virion protein; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; the capsid tail consists of a contractile outer sheath, a inner tube, and a baseplate; the baseplate consists of a hub surrounded by six wedges; gp48 and gp54 create a platform on top of the hub that initiates oligomerization of gp19 subunits into the tail tube
30 127208..125745 = 1464 base pairs 487 amino acids = 55.3 kDa product: DNA ligase ATP-dependent DNA ligase; gp30; lig; ATP-dependent DNA ligase; catalyzes formation of a phosphodiester bond between juxtaposed 5' phosphate and 3' hydroxyl termini in duplex DNA or RNA; joins blunt and cohesive ends and repairs single stranded nicks in duplex DNA, RNA or DNA/RNA hybrids; necessary during T4 replication to ligate individual lagging strand DNA synthesis fragments into a continuous polymer
31 131516..131181 = 336 base pairs 111 amino acids = 12.1 kDa product: co-chaperone GroES replaces GroES as cochaperone with GroEL for head (gp23) assembly and also affects topoisomerase
32 147853..146948 = 906 base pairs 301 amino acids = 33.5 kDa product: single-stranded DNA binding protein DNA replication, recombination and repair protein, helix-destabilizing; gp32; binds single-stranded DNA and destabilizes double-stranded DNA; involved in DNA replication, repair, and recombination; interacts with several replication proteins; stimulates replisome processivity and accuracy
33 149531..149193 = 339 base pairs 112 amino acids = 12.8 kDa product: gp33 late promoter transcription accessory protein connector protein between gp45 of replisome and gp55 late sigma factor
34 150809..154678 = 3870 base pairs 1289 amino acids = 140.4 kDa product: long tail fiber, proximal subunit gp34; structural virion protein; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; the capsid tail consists of a contractile outer sheath, a inner tube, and a baseplate; long tail fibers radiate from the base plate; the long tail fibers are comprised of gp34 and gp37
35 154687..155805 = 1119 base pairs 372 amino acids = 40.1 kDa product: gp35 hinge connector of long tail fiber, proximal connector
36 155868..156533 = 666 base pairs 221 amino acids = 23.3 kDa product: gp36 hinge connector of long tail fiber, distal connector
37 156542..159622 = 3081 base pairs 1026 amino acids = 109.2 kDa product: gp37 long tail fiber, distal subunit
38 159649..160200 = 552 base pairs 183 amino acids = 22.3 kDa product: gp38 distal long tail fiber assembly catalyst gp38 plays this role for the T4 subfamily of phages; for the T2 subfamily, the unrelated 'gp38' is the adhesion, binding to the distal end of the long tail fiber
52 165204..163876 = 1329 base pairs 442 amino acids = 50.5 kDa product: DNA topisomerase II medium subunit gp52; bacteriophage T4 topoisomerase II is comprised of gp39, gp52, and gp60 subunits; topisomerase II catalyzes cleavage and re-ligation of double-stranded DNA
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34
56 16785..16270 = 516 base pairs 171 amino acids = 20.4 kDa product: dCTP pyrophosphatase removes dCTP, dCDP/dUTP, dUDP from precursor pool; gp56; gp56 is a dCTPase and catalyzes coversion of dCTP to dCMP plus diphosphate; gp56 is also a dCDPase/dUTPase, dUDPase; essential for normal development of all T-even related phages; these phages use deoxy-hydroxymethyl-cytosine instead of deoxycytosine in their DNA; gp56 hydrolyzes dCTP and dCDP, preventing incoorporation into phage DNA
49 46855..46382 = 474 base pairs 157 amino acids = 18.1 kDa product: recombination endonuclease VII endo VII; gp49; cleaves Holliday junctions, Y-junctions, and mismatched base pairs in heteroduplex DNA; involved in recombination mediated replication and packaging
57A 74649..74407 = 243 base pairs 80 amino acids = 8.7 kDa product: gp57A chaperone for tail fiber formation molecular chaperone for both short and long tail fibers
4 77337..76885 = 453 base pairs 150 amino acids = 17.6 kDa product: head completion protein gp4; gp50; gp65; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; the virion head goes through several maturation steps including the construction of the prohead, enzymatic processing of the prohead, and DNA packaging; gp4 is thought to participate in the final steps of head maturation, prior to the attachment of the virion tail
53 77385..77975 = 591 base pairs 196 amino acids = 23 kDa product: baseplate wedge protein 53 gp53; structural virion protein; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; the capsid contractile tail consists of a contractile outer sheath, a inner tube, and a baseplate; gp53 is a component of the baseplate
6 81081..83063 = 1983 base pairs 660 amino acids = 74.4 kDa product: baseplate wedge subunit baseplate wedge; gp6; structural virion protein; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; the capsid tail consists of a contractile outer sheath, a inner tube, and a baseplate; the baseplate consists of a hub surrounded by six wedges; wedge assembly is initiated by association of gp10 and gp11, followed by addition of gp7, gp8, gp6, gp53 and gp25
8 86151..87155 = 1005 base pairs 334 amino acids = 38 kDa product: baseplate wedge subunit gp8; structural virion protein; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; the capsid tail consists of a contractile outer sheath, a inner tube, and a baseplate; the baseplate consists of a hub surrounded by six wedges; gp8 is a component of the wedges
9 87219..88085 = 867 base pairs 288 amino acids = 31 kDa product: baseplate wedge tail fiber connector tail fiber connector and trigger for tail sheath contraction; gp9; structural virion protein; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; the capsid tail consists of a contractile outer sheath, a inner tube, and a baseplate; the baseplate consists of a hub surrounded by six wedges; gp9 is a component of the wedges and forms the socket of a long tail fiber
11 89893..90552 = 660 base pairs 219 amino acids = 23.7 kDa product: baseplate wedge subunit and tail pin interface protein between baseplate wedge and gp12 short tail fibers; can be added later; gp11; structural virion protein; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; the capsid tail consists of a contractile outer sheath, a inner tube, and a baseplate; the baseplate consists of a hub surrounded by six wedges; gp11 is a component of the wedges and binds the short tail fiber
68 103023..103448 = 426 base pairs 141 amino acids = 15.9 kDa gp68; viruses protein; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; the virion head goes through several maturation steps including the construction of the prohead, enzymatic processing of the prohead, and DNA packaging; gp68 is a scaffolding protein around which shell proteins are assembled during the construction of the prohead
25 115802..115404 = 399 base pairs 132 amino acids = 15.1 kDa product: GPW/gp25 family protein gp25; 15k lysozyme; structural virion protein; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; the capsid tail consists of a contractile outer sheath, a inner tube, and a baseplate; gp25 is a baseplate wedge subunit required for tail formation; has lysozyme activity; distantly related to baseplate wedge subunit gpW in P2-like phages
51 116479..117228 = 750 base pairs 249 amino acids = 29.3 kDa product: baseplate hub assembly protein gp51; chaperone; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; the capsid tail consists of a contractile outer sheath, a inner tube, and a baseplate; the baseplate consists of a hub surrounded by six wedges; gp51 catalyzes assembly of the hub
28 118348..118881 = 534base pairs 177amino acids = 20.1kDa product: gp28 baseplate hub distal subunit N-terminal amino acid sequence determined for the gp28 hub subunit by F. Arisaka et al., Department of Molecular and Cellular Assembly, Tokyo Institute of Technology, Yokohama 226-8501, Japan; Unpublished observation
54 121753..122715 = 963 base pairs 320 amino acids = 35 kDa product: baseplate subunit gp54; structural virion protein; in bacteriophage T4 and related viruses, the virion is composed of head and tail components; the capsid tail consists of a contractile outer sheath, a inner tube, and a baseplate; gp48 and gp54 create a platform on top of the hub that initiates oligomerization of gp19 subunits into the tail tube
67 102781..103023 = 243 base pairs 80 amino acids = 9.1 kDa product: prohead core protein gp67; pip; virion protein; in bacteriophage T4 and related viruses, the virion is composed of head goes through several maturation steps including the construction of the prohead, enzymatic processing of the prohead, and DNA packaging; gp67 is a scaffolding protein around which shell proteins are assembled during the construction of the prohead
T4
genome
168,903
base pairs
