Table 5 rdIMRs in gag ranked by length
Beg | end | rd-IMRs | nt | prot | AA | structure or function | |
|---|---|---|---|---|---|---|---|
1215 | ca .. ac | 1261 | $1-gag | 47 | NC | R406..H421 | primer annealing; Cys-His box |
767 | tc .. ct | 803 | $2-gag | 37 | CA | I256..L268 | N-terminal CA-H7 helix |
73 | gg .. gg | 108 | $3-gag | 36 | MA | G025..W036 | nuclear localization signal 1(NLS1) |
1245 | at .. ta | 1279 | $4-gag | 35 | NC | C416..T427 | Zn finger motifs. 2cd cys-his box |
267 | tc .. ct | 300 | $5-gag | 34 | MA | Q090..A100 | I92..V95 affect struct orientation of MA-H5 |
168 | ct .. tc | 200 | $6-gag | 33 | MA | C057..S067 | MA H3 helix, C57S prevents particle fmtn |
68 | ca .. ac | 97 | $7-gag | 30 | MA | P023..H033 | basic residues target, bind Gag to PM |
1379 | aa .. aa | 1408 | $8-gag | 30 | p6 | E460..T470 | possible association with ubiquitin |
184 | gg .. gg | 212 | $9-gag | 29 | MA | G062..G071 | C-terminal MA-H3 helix |
198 | at .. ta | 226 | $10-gag | 29 | MA | P066..R076 | essential to structural transformation |
246 | ag .. ga | 274 | $11-gag | 29 | MA | A083..I092 | mutations retarget assembly |
232 | tt .. tt | 259 | $12-gag | 28 | MA | L078..C087 | MA-H4 central to 3D structure |
1091 | ct .. tc | 1118 | $13-gag | 28 | - | A364..S373 | cleavage site, most of p2 |
618 | tg .. gt | 644 | $14-gag | 27 | CA | E207..V215 | C-terminal CA-H4 helix, CypA interaction |
1074 | ta .. at | 1100 | $15-gag | 27 | - | K359..M367 | cleavage CA-p2 |
490 | tt .. tt | 515 | $16-gag | 26 | CA | F164..F172 | folds against MHR |
1108 | ag .. ga | 1131 | $17-gag | 24 | - | V370..M378 | cleavage site p2-p7, phosphorylation |
385 | ag .. ga | 409 | $18-gag | 25 | - | S129..N137 | spans cleavage site MA-CA |
894 | cc .. cc | 918 | $19-gag | 25 | CA | R299..A306 | end MHR |
964 | tt .. tt | 988 | $20-gag | 25 | CA | L322..C330 | interacts with LysRS |
1027 | ct .. tc | 1051 | $21-gag | 25 | CA | L343..Q351 | interacts with LysRS |
650 | ca .. ac | 673 | $22-gag | 24 | CA | P217..P225 | CypA interaction; surface of virion core |
1043 | ca .. ac | 1066 | $23-gag | 24 | CA | T348..P356 | interacts with LysRS |
590 | cc .. cc | 612 | $24-gag | 23 | CA | A197..T204 | N-terminal CA-H4 helix |
931 | ca .. ac | 953 | $25-gag | 23 | CA | Q311..T318 | N-terminal CA-H9 helix, LysRS interaction |
1275 | tt .. tt | 1297 | $26-gag | 23 | NC | C426..F433 | cleavage site p7-p1 |
12 | ag .. ga | 33 | $27-gag | 22 | MA | A005..G011 | links myristoylation and calmodulin-binding |
712 | gg .. gg | 733 | $28-gag | 22 | CA | G238..E245 | links CA-H5 and -H6 helices |
1109 | ta .. at | 1130 | $1-p2 | 22 | V370..M377 | cleavage site p2-p7, phosphorylation | |
1 | at .. ta | 21 | $1-MA | 21 | M001..V007 | minimum signal required for myristoylation | |
135 | ag .. ga | 155 | $2-MA | 21 | V046..S052 | tether btwn MA at viral membrane and CA | |
150 | gt .. tg | 170 | $3-MA | 21 | L051..C057 | L50A-L51A prevents particle formation | |
109 | gc .. cg | 128 | $4-MA | 20 | A037..R043 | binds HIV to plasma membrane, calmodulin | |
327 | ca .. ac | 346 | $5-MA | 20 | K110..Q116 | nuclear localization signal 2 | |
45 | at .. ta | 63 | $6-MA | 19 | W016..L021 | mutations retarget particle fmtn to Golgi | |
166 | gg .. gg | 184 | $7-MA | 19 | G056..G062 | G56E, C57D, C57S, I60E elim replication | |
95 | aa .. aa | 112 | $8-MA | 18 | K032..S038 | binds HIV to plasma membrane, calmodulin | |
139 | aa .. aa | 156 | $9-MA | 18 | N047..E052 | ? | |
320 | ag .. ga | 337 | $10-MA | 18 | E107..K113 | nuclear localization signal 2 | |
22 | tt .. tt | 38 | $11-MA | 17 | L008..L013 | ? | |
367 | gg .. gg | 382 | $12-MA | 16 | G123..V128 | start labile structure near cleavage site | |
565 | aa .. aa | 585 | $1-CA | 21 | N189..Q195 | connects CA-H3 and CA-H4 helices | |
647 | at .. ta | 667 | $2-CA | 21 | H216..I223 | CypA interaction; surface of virion core | |
676 | gg .. gg | 696 | $3-CA | 21 | G226..R232 | CypA interaction; surface of virion core | |
947 | gg .. gg | 967 | $4-CA | 21 | W316..V323 | CA H9 helix, endocytosis signal | |
1039 | at .. ta | 1059 | $5-CA | 21 | M347..V353 | interacts with LysRS | |
832 | ag ga | 851 | $6-CA | 20 | S278..D284 | necessary for formation of dimer interface | |
910 | ct .. tc | 929 | $7-CA | 20 | L304..S310 | spans CA-H8-H9 helices | |
927 | tt .. tt | 946 | $8-CA | 20 | S310..W316 | N-terminal, LysRS interaction site | |
1306 | aa .. aa | 1325 | $1-p1 | 20 | K436..K442 | start is slip site, p1 protein | |
1319 | cc .. cc | 1334 | $2-p1 | 16 | S440..P445 | middle, p1 protein |