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PMC:1140370 / 70-1523 JSONTXT 4 Projects

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Id Subject Object Predicate Lexical cue
T158 0-9 NNS denotes Helicases
T157 0-77 sentence denotes Helicases play central roles in initiation and elongation of DNA replication.
T159 10-14 VBP denotes play
T160 15-22 JJ denotes central
T161 23-28 NNS denotes roles
T162 29-31 IN denotes in
T163 32-42 NN denotes initiation
T164 43-46 CC denotes and
T165 47-57 NN denotes elongation
T166 58-60 IN denotes of
T167 61-64 NN denotes DNA
T168 65-76 NN denotes replication
T169 76-77 . denotes .
T170 77-234 sentence denotes We previously reported that helicase and ATPase activities of the mammalian Mcm4/6/7 complex are activated specifically by thymine-rich single-stranded DNA.
T171 78-80 PRP denotes We
T173 81-91 RB denotes previously
T172 92-100 VBD denotes reported
T174 101-105 IN denotes that
T176 106-114 NN denotes helicase
T178 115-118 CC denotes and
T179 119-125 NN denotes ATPase
T177 126-136 NNS denotes activities
T180 137-139 IN denotes of
T181 140-143 DT denotes the
T183 144-153 JJ denotes mammalian
T184 154-158 NN denotes Mcm4
T185 158-159 HYPH denotes /
T186 159-160 CD denotes 6
T187 160-161 HYPH denotes /
T188 161-162 CD denotes 7
T182 163-170 NN denotes complex
T189 171-174 VBP denotes are
T175 175-184 VBN denotes activated
T190 185-197 RB denotes specifically
T191 198-200 IN denotes by
T192 201-208 NN denotes thymine
T194 208-209 HYPH denotes -
T193 209-213 JJ denotes rich
T196 214-220 JJ denotes single
T198 220-221 HYPH denotes -
T197 221-229 VBN denotes stranded
T195 230-233 NN denotes DNA
T199 233-234 . denotes .
T200 234-328 sentence denotes Here, we examined its substrate preference and helicase actions using various synthetic DNAs.
T201 235-239 RB denotes Here
T203 239-241 , denotes ,
T204 241-243 PRP denotes we
T202 244-252 VBD denotes examined
T205 253-256 PRP$ denotes its
T207 257-266 NN denotes substrate
T206 267-277 NN denotes preference
T208 278-281 CC denotes and
T209 282-290 NN denotes helicase
T210 291-298 NNS denotes actions
T211 299-304 VBG denotes using
T212 305-312 JJ denotes various
T214 313-322 JJ denotes synthetic
T213 323-327 NNS denotes DNAs
T215 327-328 . denotes .
T216 328-512 sentence denotes On a bubble substrate, Mcm4/6/7 makes symmetric dual contacts with the 5′-proximal 25 nt single-stranded segments adjacent to the branch points, presumably generating double hexamers.
T217 329-331 IN denotes On
T219 332-333 DT denotes a
T221 334-340 NN denotes bubble
T220 341-350 NN denotes substrate
T222 350-352 , denotes ,
T223 352-356 NN denotes Mcm4
T224 356-357 HYPH denotes /
T225 357-358 CD denotes 6
T226 358-359 HYPH denotes /
T227 359-360 CD denotes 7
T218 361-366 VBZ denotes makes
T228 367-376 JJ denotes symmetric
T230 377-381 JJ denotes dual
T229 382-390 NNS denotes contacts
T231 391-395 IN denotes with
T232 396-399 DT denotes the
T234 400-401 CD denotes 5
T236 401-402 SYM denotes ′
T237 402-403 HYPH denotes -
T235 403-411 JJ denotes proximal
T238 412-414 CD denotes 25
T239 415-417 NN denotes nt
T240 418-424 JJ denotes single
T242 424-425 HYPH denotes -
T241 425-433 VBN denotes stranded
T233 434-442 NNS denotes segments
T243 443-451 JJ denotes adjacent
T244 452-454 IN denotes to
T245 455-458 DT denotes the
T247 459-465 NN denotes branch
T246 466-472 NNS denotes points
T248 472-474 , denotes ,
T249 474-484 RB denotes presumably
T250 485-495 VBG denotes generating
T251 496-502 JJ denotes double
T252 503-511 NNS denotes hexamers
T253 511-512 . denotes .
T254 512-758 sentence denotes Loss of thymine residues from one single-strand results in significant decrease of unwinding efficacy, suggesting that concurrent bidirectional unwinding by a single double hexameric Mcm4/6/7 may play a role in efficient unwinding of the bubble.
T255 513-517 NN denotes Loss
T257 518-520 IN denotes of
T258 521-528 NN denotes thymine
T259 529-537 NNS denotes residues
T260 538-542 IN denotes from
T261 543-546 CD denotes one
T263 547-553 JJ denotes single
T264 553-554 HYPH denotes -
T262 554-560 NN denotes strand
T256 561-568 VBZ denotes results
T265 569-571 IN denotes in
T266 572-583 JJ denotes significant
T267 584-592 NN denotes decrease
T268 593-595 IN denotes of
T269 596-605 VBG denotes unwinding
T270 606-614 NN denotes efficacy
T271 614-616 , denotes ,
T272 616-626 VBG denotes suggesting
T273 627-631 IN denotes that
T275 632-642 JJ denotes concurrent
T277 643-656 JJ denotes bidirectional
T276 657-666 NN denotes unwinding
T278 667-669 IN denotes by
T279 670-671 DT denotes a
T281 672-678 JJ denotes single
T282 679-685 JJ denotes double
T283 686-695 JJ denotes hexameric
T280 696-700 NN denotes Mcm4
T284 700-701 HYPH denotes /
T285 701-702 CD denotes 6
T286 702-703 HYPH denotes /
T287 703-704 CD denotes 7
T288 705-708 MD denotes may
T274 709-713 VB denotes play
T289 714-715 DT denotes a
T290 716-720 NN denotes role
T291 721-723 IN denotes in
T292 724-733 JJ denotes efficient
T293 734-743 NN denotes unwinding
T294 744-746 IN denotes of
T295 747-750 DT denotes the
T296 751-757 NN denotes bubble
T297 757-758 . denotes .
T298 758-863 sentence denotes Mcm4/6/7 binds and unwinds various fork and extension structures carrying a single-stranded 3′-tail DNA.
T299 759-763 NN denotes Mcm4
T301 763-764 HYPH denotes /
T302 764-765 CD denotes 6
T303 765-766 HYPH denotes /
T304 766-767 CD denotes 7
T300 768-773 VBZ denotes binds
T305 774-777 CC denotes and
T306 778-785 VBZ denotes unwinds
T307 786-793 JJ denotes various
T309 794-798 NN denotes fork
T310 799-802 CC denotes and
T311 803-812 NN denotes extension
T308 813-823 NNS denotes structures
T312 824-832 VBG denotes carrying
T313 833-834 DT denotes a
T315 835-841 JJ denotes single
T317 841-842 HYPH denotes -
T316 842-850 VBN denotes stranded
T318 851-852 CD denotes 3
T320 852-853 SYM denotes ′
T321 853-854 HYPH denotes -
T319 854-858 NN denotes tail
T314 859-862 NN denotes DNA
T322 862-863 . denotes .
T323 863-1020 sentence denotes The extent of helicase activation depends on the sequence context of the 3′-tail, and the maximum level is achieved by DNA with 50% or more thymine content.
T324 864-867 DT denotes The
T325 868-874 NN denotes extent
T327 875-877 IN denotes of
T328 878-886 NN denotes helicase
T329 887-897 NN denotes activation
T326 898-905 VBZ denotes depends
T330 906-908 IN denotes on
T331 909-912 DT denotes the
T333 913-921 NN denotes sequence
T332 922-929 NN denotes context
T334 930-932 IN denotes of
T335 933-936 DT denotes the
T337 937-938 CD denotes 3
T338 938-939 SYM denotes ′
T339 939-940 HYPH denotes -
T336 940-944 NN denotes tail
T340 944-946 , denotes ,
T341 946-949 CC denotes and
T342 950-953 DT denotes the
T344 954-961 JJ denotes maximum
T343 962-967 NN denotes level
T346 968-970 VBZ denotes is
T345 971-979 VBN denotes achieved
T347 980-982 IN denotes by
T348 983-986 NN denotes DNA
T349 987-991 IN denotes with
T350 992-994 CD denotes 50
T351 994-995 NN denotes %
T353 996-998 CC denotes or
T354 999-1003 JJR denotes more
T355 1004-1011 NN denotes thymine
T352 1012-1019 NN denotes content
T356 1019-1020 . denotes .
T357 1020-1116 sentence denotes Strand displacement by Mcm4/6/7 is inhibited, as the GC content of the duplex region increases.
T358 1021-1027 NN denotes Strand
T359 1028-1040 NN denotes displacement
T361 1041-1043 IN denotes by
T362 1044-1048 NN denotes Mcm4
T363 1048-1049 HYPH denotes /
T364 1049-1050 CD denotes 6
T365 1050-1051 HYPH denotes /
T366 1051-1052 CD denotes 7
T367 1053-1055 VBZ denotes is
T360 1056-1065 VBN denotes inhibited
T368 1065-1067 , denotes ,
T369 1067-1069 IN denotes as
T371 1070-1073 DT denotes the
T373 1074-1076 NN denotes GC
T372 1077-1084 NN denotes content
T374 1085-1087 IN denotes of
T375 1088-1091 DT denotes the
T377 1092-1098 NN denotes duplex
T376 1099-1105 NN denotes region
T370 1106-1115 VBZ denotes increases
T378 1115-1116 . denotes .
T379 1116-1317 sentence denotes Replacement of cytosine–guanine pairs with cytosine–inosine pairs in the duplex restored unwinding, suggesting that mammalian Mcm4/6/7 helicase has difficulties in unwinding stably base-paired duplex.
T380 1117-1128 NN denotes Replacement
T382 1129-1131 IN denotes of
T383 1132-1140 NN denotes cytosine
T385 1140-1141 HYPH denotes –
T384 1141-1148 NN denotes guanine
T386 1149-1154 NNS denotes pairs
T387 1155-1159 IN denotes with
T388 1160-1168 NN denotes cytosine
T390 1168-1169 HYPH denotes –
T389 1169-1176 NN denotes inosine
T391 1177-1182 NNS denotes pairs
T392 1183-1185 IN denotes in
T393 1186-1189 DT denotes the
T394 1190-1196 NN denotes duplex
T381 1197-1205 VBD denotes restored
T395 1206-1215 NN denotes unwinding
T396 1215-1217 , denotes ,
T397 1217-1227 VBG denotes suggesting
T398 1228-1232 IN denotes that
T400 1233-1242 JJ denotes mammalian
T402 1243-1247 NN denotes Mcm4
T403 1247-1248 HYPH denotes /
T404 1248-1249 CD denotes 6
T405 1249-1250 HYPH denotes /
T406 1250-1251 CD denotes 7
T401 1252-1260 NN denotes helicase
T399 1261-1264 VBZ denotes has
T407 1265-1277 NNS denotes difficulties
T408 1278-1280 IN denotes in
T409 1281-1290 VBG denotes unwinding
T410 1291-1297 RB denotes stably
T412 1298-1302 NN denotes base
T413 1302-1303 HYPH denotes -
T411 1303-1309 VBN denotes paired
T414 1310-1316 NN denotes duplex
T415 1316-1317 . denotes .
T416 1317-1453 sentence denotes Taken together, these findings reveal important features on activation and substrate preference of the eukaryotic replicative helicase.
T417 1318-1323 VBN denotes Taken
T419 1324-1332 RB denotes together
T420 1332-1334 , denotes ,
T421 1334-1339 DT denotes these
T422 1340-1348 NNS denotes findings
T418 1349-1355 VBP denotes reveal
T423 1356-1365 JJ denotes important
T424 1366-1374 NNS denotes features
T425 1375-1377 IN denotes on
T426 1378-1388 NN denotes activation
T428 1389-1392 CC denotes and
T429 1393-1402 NN denotes substrate
T427 1403-1413 NN denotes preference
T430 1414-1416 IN denotes of
T431 1417-1420 DT denotes the
T433 1421-1431 JJ denotes eukaryotic
T434 1432-1443 JJ denotes replicative
T432 1444-1452 NN denotes helicase
T435 1452-1453 . denotes .
R100 T220 T217 pobj substrate,On
R101 T324 T325 det The,extent
R102 T221 T220 compound bubble,substrate
R103 T222 T218 punct ", ",makes
R104 T223 T218 nsubj Mcm4,makes
R105 T224 T223 punct /,Mcm4
R106 T225 T223 nummod 6,Mcm4
R107 T226 T223 punct /,Mcm4
R108 T325 T326 nsubj extent,depends
R109 T227 T223 nummod 7,Mcm4
R110 T228 T229 amod symmetric,contacts
R111 T327 T325 prep of,extent
R112 T229 T218 dobj contacts,makes
R113 T230 T229 amod dual,contacts
R114 T231 T229 prep with,contacts
R115 T328 T329 compound helicase,activation
R116 T232 T233 det the,segments
R117 T233 T231 pobj segments,with
R118 T329 T327 pobj activation,of
R119 T234 T235 npadvmod 5,proximal
R120 T235 T233 amod proximal,segments
R121 T236 T234 punct ′,5
R122 T237 T235 punct -,proximal
R123 T238 T239 nummod 25,nt
R124 T330 T326 prep on,depends
R125 T331 T332 det the,context
R126 T239 T233 nmod nt,segments
R127 T332 T330 pobj context,on
R128 T240 T241 amod single,stranded
R129 T241 T233 amod stranded,segments
R130 T333 T332 compound sequence,context
R131 T242 T241 punct -,stranded
R132 T243 T233 amod adjacent,segments
R133 T334 T332 prep of,context
R134 T244 T243 prep to,adjacent
R135 T245 T246 det the,points
R136 T335 T336 det the,tail
R137 T246 T244 pobj points,to
R138 T247 T246 compound branch,points
R139 T336 T334 pobj tail,of
R140 T248 T218 punct ", ",makes
R141 T249 T250 advmod presumably,generating
R142 T337 T336 nummod 3,tail
R143 T250 T218 advcl generating,makes
R144 T251 T252 amod double,hexamers
R145 T338 T337 punct ′,3
R146 T252 T250 dobj hexamers,generating
R147 T253 T218 punct .,makes
R148 T339 T336 punct -,tail
R149 T255 T256 nsubj Loss,results
R15 T158 T159 nsubj Helicases,play
R150 T340 T326 punct ", ",depends
R151 T257 T255 prep of,Loss
R152 T258 T259 compound thymine,residues
R153 T259 T257 pobj residues,of
R154 T341 T326 cc and,depends
R155 T342 T343 det the,level
R156 T260 T255 prep from,Loss
R157 T261 T262 nummod one,strand
R158 T262 T260 pobj strand,from
R159 T343 T345 nsubjpass level,achieved
R16 T160 T161 amod central,roles
R160 T263 T262 amod single,strand
R161 T344 T343 amod maximum,level
R162 T264 T262 punct -,strand
R163 T265 T256 prep in,results
R164 T345 T326 conj achieved,depends
R165 T266 T267 amod significant,decrease
R166 T267 T265 pobj decrease,in
R167 T346 T345 auxpass is,achieved
R168 T268 T267 prep of,decrease
R169 T269 T270 amod unwinding,efficacy
R17 T161 T159 dobj roles,play
R170 T270 T268 pobj efficacy,of
R171 T347 T345 agent by,achieved
R172 T271 T256 punct ", ",results
R173 T272 T256 advcl suggesting,results
R174 T348 T347 pobj DNA,by
R175 T273 T274 mark that,play
R176 T349 T348 prep with,DNA
R177 T274 T272 ccomp play,suggesting
R178 T350 T351 nummod 50,%
R179 T275 T276 amod concurrent,unwinding
R18 T162 T159 prep in,play
R180 T276 T274 nsubj unwinding,play
R181 T351 T352 nmod %,content
R182 T277 T276 amod bidirectional,unwinding
R183 T278 T276 prep by,unwinding
R184 T352 T349 pobj content,with
R185 T279 T280 det a,Mcm4
R186 T280 T278 pobj Mcm4,by
R187 T281 T280 amod single,Mcm4
R188 T353 T354 cc or,more
R189 T282 T283 amod double,hexameric
R19 T163 T162 pobj initiation,in
R190 T283 T280 amod hexameric,Mcm4
R191 T354 T351 nummod more,%
R192 T284 T280 punct /,Mcm4
R193 T285 T280 nummod 6,Mcm4
R194 T355 T352 compound thymine,content
R195 T286 T280 punct /,Mcm4
R196 T287 T280 nummod 7,Mcm4
R197 T356 T345 punct .,achieved
R198 T288 T274 aux may,play
R199 T289 T290 det a,role
R20 T164 T163 cc and,initiation
R200 T358 T359 compound Strand,displacement
R201 T290 T274 dobj role,play
R202 T359 T360 nsubjpass displacement,inhibited
R203 T361 T359 prep by,displacement
R204 T362 T361 pobj Mcm4,by
R205 T363 T362 punct /,Mcm4
R206 T364 T362 nummod 6,Mcm4
R207 T365 T362 punct /,Mcm4
R208 T366 T362 nummod 7,Mcm4
R209 T397 T381 advcl suggesting,restored
R21 T165 T163 conj elongation,initiation
R210 T398 T399 mark that,has
R211 T399 T397 ccomp has,suggesting
R212 T367 T360 auxpass is,inhibited
R213 T400 T401 amod mammalian,helicase
R214 T401 T399 nsubj helicase,has
R215 T368 T360 punct ", ",inhibited
R216 T402 T401 nmod Mcm4,helicase
R217 T403 T402 punct /,Mcm4
R218 T369 T370 mark as,increases
R219 T404 T402 nummod 6,Mcm4
R22 T166 T163 prep of,initiation
R220 T405 T402 punct /,Mcm4
R221 T406 T402 nummod 7,Mcm4
R222 T370 T360 advcl increases,inhibited
R223 T407 T399 dobj difficulties,has
R224 T408 T407 prep in,difficulties
R225 T371 T372 det the,content
R226 T409 T408 pcomp unwinding,in
R227 T372 T370 nsubj content,increases
R228 T410 T411 advmod stably,paired
R229 T411 T414 amod paired,duplex
R23 T167 T168 compound DNA,replication
R230 T412 T411 npadvmod base,paired
R231 T373 T372 compound GC,content
R232 T413 T411 punct -,paired
R233 T414 T409 dobj duplex,unwinding
R234 T374 T372 prep of,content
R235 T375 T376 det the,region
R236 T415 T381 punct .,restored
R237 T376 T374 pobj region,of
R238 T417 T418 advcl Taken,reveal
R239 T377 T376 compound duplex,region
R24 T168 T166 pobj replication,of
R240 T419 T417 advmod together,Taken
R241 T378 T360 punct .,inhibited
R242 T380 T381 nsubj Replacement,restored
R243 T420 T418 punct ", ",reveal
R244 T421 T422 det these,findings
R245 T382 T380 prep of,Replacement
R246 T422 T418 nsubj findings,reveal
R247 T423 T424 amod important,features
R248 T424 T418 dobj features,reveal
R249 T383 T384 compound cytosine,guanine
R25 T169 T159 punct .,play
R250 T425 T424 prep on,features
R251 T384 T386 compound guanine,pairs
R252 T426 T427 nmod activation,preference
R253 T427 T425 pobj preference,on
R254 T428 T426 cc and,activation
R255 T385 T384 punct –,guanine
R256 T429 T426 conj substrate,activation
R257 T430 T427 prep of,preference
R258 T386 T382 pobj pairs,of
R259 T431 T432 det the,helicase
R26 T171 T172 nsubj We,reported
R260 T432 T430 pobj helicase,of
R261 T387 T380 prep with,Replacement
R262 T433 T432 amod eukaryotic,helicase
R263 T434 T432 amod replicative,helicase
R264 T435 T418 punct .,reveal
R265 T388 T389 compound cytosine,inosine
R266 T389 T391 compound inosine,pairs
R267 T390 T389 punct –,inosine
R268 T391 T387 pobj pairs,with
R269 T392 T380 prep in,Replacement
R27 T173 T172 advmod previously,reported
R270 T393 T394 det the,duplex
R271 T394 T392 pobj duplex,in
R272 T395 T381 dobj unwinding,restored
R273 T396 T381 punct ", ",restored
R28 T174 T175 mark that,activated
R29 T175 T172 ccomp activated,reported
R30 T176 T177 nmod helicase,activities
R31 T177 T175 nsubjpass activities,activated
R32 T178 T176 cc and,helicase
R33 T179 T176 conj ATPase,helicase
R34 T180 T177 prep of,activities
R35 T181 T182 det the,complex
R36 T182 T180 pobj complex,of
R37 T183 T182 amod mammalian,complex
R38 T184 T182 nmod Mcm4,complex
R39 T185 T184 punct /,Mcm4
R40 T291 T274 prep in,play
R41 T292 T293 amod efficient,unwinding
R42 T293 T291 pobj unwinding,in
R43 T294 T293 prep of,unwinding
R44 T295 T296 det the,bubble
R45 T296 T294 pobj bubble,of
R46 T297 T256 punct .,results
R47 T299 T300 nsubj Mcm4,binds
R48 T301 T299 punct /,Mcm4
R49 T302 T299 nummod 6,Mcm4
R50 T303 T299 punct /,Mcm4
R51 T186 T184 nummod 6,Mcm4
R52 T187 T184 punct /,Mcm4
R53 T188 T184 nummod 7,Mcm4
R54 T304 T299 nummod 7,Mcm4
R55 T189 T175 auxpass are,activated
R56 T190 T175 advmod specifically,activated
R57 T191 T175 agent by,activated
R58 T305 T300 cc and,binds
R59 T192 T193 npadvmod thymine,rich
R60 T193 T195 amod rich,DNA
R61 T306 T300 conj unwinds,binds
R62 T194 T193 punct -,rich
R63 T307 T308 amod various,structures
R64 T308 T306 dobj structures,unwinds
R65 T309 T308 nmod fork,structures
R66 T310 T309 cc and,fork
R67 T195 T191 pobj DNA,by
R68 T311 T309 conj extension,fork
R69 T196 T197 amod single,stranded
R70 T197 T195 amod stranded,DNA
R71 T312 T308 acl carrying,structures
R72 T198 T197 punct -,stranded
R73 T199 T172 punct .,reported
R74 T313 T314 det a,DNA
R75 T201 T202 advmod Here,examined
R76 T314 T312 dobj DNA,carrying
R77 T203 T202 punct ", ",examined
R78 T315 T316 amod single,stranded
R79 T204 T202 nsubj we,examined
R80 T205 T206 poss its,preference
R81 T316 T314 amod stranded,DNA
R82 T206 T202 dobj preference,examined
R83 T207 T206 compound substrate,preference
R84 T208 T206 cc and,preference
R85 T317 T316 punct -,stranded
R86 T209 T210 compound helicase,actions
R87 T210 T206 conj actions,preference
R88 T318 T319 nummod 3,tail
R89 T211 T202 advcl using,examined
R90 T212 T213 amod various,DNAs
R91 T319 T314 compound tail,DNA
R92 T213 T211 dobj DNAs,using
R93 T214 T213 amod synthetic,DNAs
R94 T320 T318 punct ′,3
R95 T215 T202 punct .,examined
R96 T217 T218 prep On,makes
R97 T321 T319 punct -,tail
R98 T219 T220 det a,substrate
R99 T322 T300 punct .,binds