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PMC:1140370 / 32645-34053 JSONTXT 4 Projects

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Id Subject Object Predicate Lexical cue
T10242 0-2 PRP denotes We
T10244 3-7 VBP denotes have
T10243 8-16 VBN denotes examined
T10245 17-19 IN denotes in
T10246 20-26 NN denotes detail
T10247 27-30 DT denotes the
T10248 31-37 NN denotes effect
T10249 38-40 IN denotes of
T10250 41-49 NN denotes sequence
T10251 50-57 NN denotes context
T10252 58-60 IN denotes of
T10253 61-64 DT denotes the
T10255 65-71 JJ denotes single
T10257 71-72 HYPH denotes -
T10256 72-80 VBN denotes stranded
T10254 81-84 NN denotes DNA
T10258 85-87 IN denotes on
T10259 88-91 DT denotes the
T10261 92-100 NN denotes helicase
T10260 101-109 NN denotes activity
T10262 110-112 IN denotes of
T10263 113-116 NN denotes Mcm
T10264 116-117 . denotes .
T10265 117-215 sentence denotes The results indicate that thymine content of 50% is sufficient for the maximum helicase activity.
T10266 118-121 DT denotes The
T10267 122-129 NNS denotes results
T10268 130-138 VBP denotes indicate
T10269 139-143 IN denotes that
T10271 144-151 NN denotes thymine
T10272 152-159 NN denotes content
T10273 160-162 IN denotes of
T10274 163-165 CD denotes 50
T10275 165-166 NN denotes %
T10270 167-169 VBZ denotes is
T10276 170-180 JJ denotes sufficient
T10277 181-184 IN denotes for
T10278 185-188 DT denotes the
T10280 189-196 JJ denotes maximum
T10281 197-205 NN denotes helicase
T10279 206-214 NN denotes activity
T10282 214-215 . denotes .
T10283 215-321 sentence denotes The efficiency of displacement decreased as the thymine content of the 3′-tail dropped to 33% (Figure 6).
T10284 216-219 DT denotes The
T10285 220-230 NN denotes efficiency
T10287 231-233 IN denotes of
T10288 234-246 NN denotes displacement
T10286 247-256 VBD denotes decreased
T10289 257-259 IN denotes as
T10291 260-263 DT denotes the
T10293 264-271 NN denotes thymine
T10292 272-279 NN denotes content
T10294 280-282 IN denotes of
T10295 283-286 DT denotes the
T10297 287-288 CD denotes 3
T10298 288-289 SYM denotes ′
T10299 289-290 HYPH denotes -
T10296 290-294 NN denotes tail
T10290 295-302 VBD denotes dropped
T10300 303-305 IN denotes to
T10301 306-308 CD denotes 33
T10302 308-309 NN denotes %
T10303 310-311 -LRB- denotes (
T10304 311-317 NN denotes Figure
T10305 318-319 CD denotes 6
T10306 319-320 -RRB- denotes )
T10307 320-321 . denotes .
T10308 321-465 sentence denotes The stretches of thymine residues may not be necessarily required, since repeats of TC dinucleotides served as a potent activator for Mcm4/6/7.
T10309 322-325 DT denotes The
T10310 326-335 NNS denotes stretches
T10312 336-338 IN denotes of
T10313 339-346 NN denotes thymine
T10314 347-355 NNS denotes residues
T10315 356-359 MD denotes may
T10316 360-363 RB denotes not
T10317 364-366 VB denotes be
T10318 367-378 RB denotes necessarily
T10311 379-387 VBN denotes required
T10319 387-389 , denotes ,
T10320 389-394 IN denotes since
T10322 395-402 NNS denotes repeats
T10323 403-405 IN denotes of
T10324 406-408 NN denotes TC
T10325 409-422 NNS denotes dinucleotides
T10321 423-429 VBD denotes served
T10326 430-432 IN denotes as
T10327 433-434 DT denotes a
T10329 435-441 JJ denotes potent
T10328 442-451 NN denotes activator
T10330 452-455 IN denotes for
T10331 456-460 NN denotes Mcm4
T10332 460-461 HYPH denotes /
T10333 461-462 CD denotes 6
T10334 462-463 HYPH denotes /
T10335 463-464 CD denotes 7
T10336 464-465 . denotes .
T10337 465-590 sentence denotes We also noticed that the presence of a secondary structure within the single-stranded DNA is inhibitory for helicase action.
T10338 466-468 PRP denotes We
T10340 469-473 RB denotes also
T10339 474-481 VBD denotes noticed
T10341 482-486 IN denotes that
T10343 487-490 DT denotes the
T10344 491-499 NN denotes presence
T10345 500-502 IN denotes of
T10346 503-504 DT denotes a
T10348 505-514 JJ denotes secondary
T10347 515-524 NN denotes structure
T10349 525-531 IN denotes within
T10350 532-535 DT denotes the
T10352 536-542 JJ denotes single
T10354 542-543 HYPH denotes -
T10353 543-551 VBN denotes stranded
T10351 552-555 NN denotes DNA
T10342 556-558 VBZ denotes is
T10355 559-569 JJ denotes inhibitory
T10356 570-573 IN denotes for
T10357 574-582 NN denotes helicase
T10358 583-589 NN denotes action
T10359 589-590 . denotes .
T10360 590-702 sentence denotes Nuclease footprinting assays indicated that binding was interfered by the secondary structure (data not shown).
T10361 591-599 NN denotes Nuclease
T10362 600-612 NN denotes footprinting
T10363 613-619 NNS denotes assays
T10364 620-629 VBD denotes indicated
T10365 630-634 IN denotes that
T10367 635-642 NN denotes binding
T10368 643-646 VBD denotes was
T10366 647-657 VBN denotes interfered
T10369 658-660 IN denotes by
T10370 661-664 DT denotes the
T10372 665-674 JJ denotes secondary
T10371 675-684 NN denotes structure
T10373 685-686 -LRB- denotes (
T10375 686-690 NNS denotes data
T10376 691-694 RB denotes not
T10374 695-700 VBN denotes shown
T10377 700-701 -RRB- denotes )
T10378 701-702 . denotes .
T10379 702-1110 sentence denotes Thus, we have concluded that Mcm4/6/7 helicase is most efficiently activated by non-structured single-stranded DNA with thymine content of 50% or more, although significant stimulation is observed also by DNA with less thymine content (Figure 7), suggesting that the sequence specificity for Mcm helicase activation is rather relaxed and that the extent of the activation may depend on the sequence context.
T10380 703-707 RB denotes Thus
T10382 707-709 , denotes ,
T10383 709-711 PRP denotes we
T10384 712-716 VBP denotes have
T10381 717-726 VBN denotes concluded
T10385 727-731 IN denotes that
T10387 732-736 NN denotes Mcm4
T10389 736-737 HYPH denotes /
T10390 737-738 CD denotes 6
T10391 738-739 HYPH denotes /
T10392 739-740 CD denotes 7
T10388 741-749 NN denotes helicase
T10393 750-752 VBZ denotes is
T10394 753-757 RBS denotes most
T10395 758-769 RB denotes efficiently
T10386 770-779 VBN denotes activated
T10396 780-782 IN denotes by
T10397 783-797 JJ denotes non-structured
T10399 798-804 JJ denotes single
T10401 804-805 HYPH denotes -
T10400 805-813 VBN denotes stranded
T10398 814-817 NN denotes DNA
T10402 818-822 IN denotes with
T10403 823-830 NN denotes thymine
T10404 831-838 NN denotes content
T10405 839-841 IN denotes of
T10406 842-844 CD denotes 50
T10407 844-845 NN denotes %
T10408 846-848 CC denotes or
T10409 849-853 JJR denotes more
T10410 853-855 , denotes ,
T10411 855-863 IN denotes although
T10413 864-875 JJ denotes significant
T10414 876-887 NN denotes stimulation
T10415 888-890 VBZ denotes is
T10412 891-899 VBN denotes observed
T10416 900-904 RB denotes also
T10417 905-907 IN denotes by
T10418 908-911 NN denotes DNA
T10419 912-916 IN denotes with
T10420 917-921 JJR denotes less
T10422 922-929 NN denotes thymine
T10421 930-937 NN denotes content
T10423 938-939 -LRB- denotes (
T10424 939-945 NN denotes Figure
T10425 946-947 CD denotes 7
T10426 947-948 -RRB- denotes )
T10427 948-950 , denotes ,
T10428 950-960 VBG denotes suggesting
T10429 961-965 IN denotes that
T10431 966-969 DT denotes the
T10433 970-978 NN denotes sequence
T10432 979-990 NN denotes specificity
T10434 991-994 IN denotes for
T10435 995-998 NN denotes Mcm
T10436 999-1007 NN denotes helicase
T10437 1008-1018 NN denotes activation
T10430 1019-1021 VBZ denotes is
T10438 1022-1028 RB denotes rather
T10439 1029-1036 JJ denotes relaxed
T10440 1037-1040 CC denotes and
T10441 1041-1045 IN denotes that
T10443 1046-1049 DT denotes the
T10444 1050-1056 NN denotes extent
T10445 1057-1059 IN denotes of
T10446 1060-1063 DT denotes the
T10447 1064-1074 NN denotes activation
T10448 1075-1078 MD denotes may
T10442 1079-1085 VB denotes depend
T10449 1086-1088 IN denotes on
T10450 1089-1092 DT denotes the
T10452 1093-1101 NN denotes sequence
T10451 1102-1109 NN denotes context
T10453 1109-1110 . denotes .
T10454 1110-1408 sentence denotes This would be reasonable given the flexibility and differential regulation of site selection for initiation of DNA replication during development or in various cell types, as well as the variability in initiation potential of each replication origin on the genome even within the single cell type.
T10455 1111-1115 DT denotes This
T10457 1116-1121 MD denotes would
T10456 1122-1124 VB denotes be
T10458 1125-1135 JJ denotes reasonable
T10459 1136-1141 VBN denotes given
T10460 1142-1145 DT denotes the
T10461 1146-1157 NN denotes flexibility
T10462 1158-1161 CC denotes and
T10463 1162-1174 JJ denotes differential
T10464 1175-1185 NN denotes regulation
T10465 1186-1188 IN denotes of
T10466 1189-1193 NN denotes site
T10467 1194-1203 NN denotes selection
T10468 1204-1207 IN denotes for
T10469 1208-1218 NN denotes initiation
T10470 1219-1221 IN denotes of
T10471 1222-1225 NN denotes DNA
T10472 1226-1237 NN denotes replication
T10473 1238-1244 IN denotes during
T10474 1245-1256 NN denotes development
T10475 1257-1259 CC denotes or
T10476 1260-1262 IN denotes in
T10477 1263-1270 JJ denotes various
T10479 1271-1275 NN denotes cell
T10478 1276-1281 NNS denotes types
T10480 1281-1283 , denotes ,
T10481 1283-1285 RB denotes as
T10483 1286-1290 RB denotes well
T10482 1291-1293 IN denotes as
T10484 1294-1297 DT denotes the
T10485 1298-1309 NN denotes variability
T10486 1310-1312 IN denotes in
T10487 1313-1323 NN denotes initiation
T10488 1324-1333 NN denotes potential
T10489 1334-1336 IN denotes of
T10490 1337-1341 DT denotes each
T10492 1342-1353 NN denotes replication
T10491 1354-1360 NN denotes origin
T10493 1361-1363 IN denotes on
T10494 1364-1367 DT denotes the
T10495 1368-1374 NN denotes genome
T10496 1375-1379 RB denotes even
T10497 1380-1386 IN denotes within
T10498 1387-1390 DT denotes the
T10500 1391-1397 JJ denotes single
T10501 1398-1402 NN denotes cell
T10499 1403-1407 NN denotes type
T10502 1407-1408 . denotes .
R6819 T10242 T10243 nsubj We,examined
R6820 T10244 T10243 aux have,examined
R6821 T10245 T10243 prep in,examined
R6822 T10246 T10245 pobj detail,in
R6823 T10247 T10248 det the,effect
R6824 T10248 T10243 dobj effect,examined
R6825 T10249 T10248 prep of,effect
R6826 T10250 T10251 compound sequence,context
R6827 T10251 T10249 pobj context,of
R6828 T10252 T10251 prep of,context
R6829 T10253 T10254 det the,DNA
R6830 T10254 T10252 pobj DNA,of
R6831 T10255 T10256 amod single,stranded
R6832 T10256 T10254 amod stranded,DNA
R6833 T10257 T10256 punct -,stranded
R6834 T10258 T10248 prep on,effect
R6835 T10259 T10260 det the,activity
R6836 T10260 T10258 pobj activity,on
R6837 T10261 T10260 compound helicase,activity
R6838 T10262 T10260 prep of,activity
R6839 T10263 T10262 pobj Mcm,of
R6840 T10264 T10243 punct .,examined
R6841 T10266 T10267 det The,results
R6842 T10267 T10268 nsubj results,indicate
R6843 T10269 T10270 mark that,is
R6844 T10270 T10268 ccomp is,indicate
R6845 T10271 T10272 compound thymine,content
R6846 T10272 T10270 nsubj content,is
R6847 T10273 T10272 prep of,content
R6848 T10274 T10275 nummod 50,%
R6849 T10275 T10273 pobj %,of
R6850 T10276 T10270 acomp sufficient,is
R6851 T10277 T10276 prep for,sufficient
R6852 T10278 T10279 det the,activity
R6853 T10279 T10277 pobj activity,for
R6854 T10280 T10279 amod maximum,activity
R6855 T10281 T10279 compound helicase,activity
R6856 T10282 T10268 punct .,indicate
R6857 T10284 T10285 det The,efficiency
R6858 T10285 T10286 nsubj efficiency,decreased
R6859 T10287 T10285 prep of,efficiency
R6860 T10288 T10287 pobj displacement,of
R6861 T10289 T10290 mark as,dropped
R6862 T10290 T10286 advcl dropped,decreased
R6863 T10291 T10292 det the,content
R6864 T10292 T10290 nsubj content,dropped
R6865 T10293 T10292 compound thymine,content
R6866 T10294 T10292 prep of,content
R6867 T10295 T10296 det the,tail
R6868 T10296 T10294 pobj tail,of
R6869 T10297 T10296 nummod 3,tail
R6870 T10298 T10297 punct ′,3
R6871 T10299 T10296 punct -,tail
R6872 T10300 T10290 prep to,dropped
R6873 T10301 T10302 nummod 33,%
R6874 T10302 T10300 pobj %,to
R6875 T10303 T10304 punct (,Figure
R6876 T10304 T10290 parataxis Figure,dropped
R6877 T10305 T10304 nummod 6,Figure
R6878 T10306 T10304 punct ),Figure
R6879 T10307 T10286 punct .,decreased
R6880 T10309 T10310 det The,stretches
R6881 T10310 T10311 nsubjpass stretches,required
R6882 T10312 T10310 prep of,stretches
R6883 T10313 T10314 compound thymine,residues
R6884 T10314 T10312 pobj residues,of
R6885 T10315 T10311 aux may,required
R6886 T10316 T10311 neg not,required
R6887 T10317 T10311 auxpass be,required
R6888 T10318 T10311 advmod necessarily,required
R6889 T10319 T10311 punct ", ",required
R6890 T10320 T10321 mark since,served
R6891 T10321 T10311 advcl served,required
R6892 T10322 T10321 nsubj repeats,served
R6893 T10323 T10322 prep of,repeats
R6894 T10324 T10325 compound TC,dinucleotides
R6895 T10325 T10323 pobj dinucleotides,of
R6896 T10326 T10321 prep as,served
R6897 T10327 T10328 det a,activator
R6898 T10328 T10326 pobj activator,as
R6899 T10329 T10328 amod potent,activator
R6900 T10330 T10328 prep for,activator
R6901 T10331 T10330 pobj Mcm4,for
R6902 T10332 T10331 punct /,Mcm4
R6903 T10333 T10331 nummod 6,Mcm4
R6904 T10334 T10331 punct /,Mcm4
R6905 T10335 T10331 nummod 7,Mcm4
R6906 T10336 T10311 punct .,required
R6907 T10338 T10339 nsubj We,noticed
R6908 T10340 T10339 advmod also,noticed
R6909 T10341 T10342 mark that,is
R6910 T10342 T10339 ccomp is,noticed
R6911 T10343 T10344 det the,presence
R6912 T10344 T10342 nsubj presence,is
R6913 T10345 T10344 prep of,presence
R6914 T10346 T10347 det a,structure
R6915 T10347 T10345 pobj structure,of
R6916 T10348 T10347 amod secondary,structure
R6917 T10349 T10347 prep within,structure
R6918 T10350 T10351 det the,DNA
R6919 T10351 T10349 pobj DNA,within
R6920 T10352 T10353 amod single,stranded
R6921 T10353 T10351 amod stranded,DNA
R6922 T10354 T10353 punct -,stranded
R6923 T10355 T10342 acomp inhibitory,is
R6924 T10356 T10355 prep for,inhibitory
R6925 T10357 T10358 compound helicase,action
R6926 T10358 T10356 pobj action,for
R6927 T10359 T10339 punct .,noticed
R6928 T10361 T10362 compound Nuclease,footprinting
R6929 T10362 T10363 compound footprinting,assays
R6930 T10363 T10364 nsubj assays,indicated
R6931 T10365 T10366 mark that,interfered
R6932 T10366 T10364 ccomp interfered,indicated
R6933 T10367 T10366 nsubjpass binding,interfered
R6934 T10368 T10366 auxpass was,interfered
R6935 T10369 T10366 agent by,interfered
R6936 T10370 T10371 det the,structure
R6937 T10371 T10369 pobj structure,by
R6938 T10372 T10371 amod secondary,structure
R6939 T10373 T10374 punct (,shown
R6940 T10374 T10366 parataxis shown,interfered
R6941 T10375 T10374 nsubj data,shown
R6942 T10376 T10374 neg not,shown
R6943 T10377 T10374 punct ),shown
R6944 T10378 T10364 punct .,indicated
R6945 T10380 T10381 advmod Thus,concluded
R6946 T10382 T10381 punct ", ",concluded
R6947 T10383 T10381 nsubj we,concluded
R6948 T10384 T10381 aux have,concluded
R6949 T10385 T10386 mark that,activated
R6950 T10386 T10381 ccomp activated,concluded
R6951 T10387 T10388 nmod Mcm4,helicase
R6952 T10388 T10386 nsubjpass helicase,activated
R6953 T10389 T10387 punct /,Mcm4
R6954 T10390 T10387 nummod 6,Mcm4
R6955 T10391 T10387 punct /,Mcm4
R6956 T10392 T10387 nummod 7,Mcm4
R6957 T10393 T10386 auxpass is,activated
R6958 T10394 T10395 advmod most,efficiently
R6959 T10395 T10386 advmod efficiently,activated
R6960 T10396 T10386 agent by,activated
R6961 T10397 T10398 amod non-structured,DNA
R6962 T10398 T10396 pobj DNA,by
R6963 T10399 T10400 amod single,stranded
R6964 T10400 T10398 amod stranded,DNA
R6965 T10401 T10400 punct -,stranded
R6966 T10402 T10398 prep with,DNA
R6967 T10403 T10404 compound thymine,content
R6968 T10404 T10402 pobj content,with
R6969 T10405 T10404 prep of,content
R6970 T10406 T10407 nummod 50,%
R6971 T10407 T10405 pobj %,of
R6972 T10408 T10409 cc or,more
R6973 T10409 T10407 nummod more,%
R6974 T10410 T10386 punct ", ",activated
R6975 T10411 T10412 mark although,observed
R6976 T10412 T10386 advcl observed,activated
R6977 T10413 T10414 amod significant,stimulation
R6978 T10414 T10412 nsubjpass stimulation,observed
R6979 T10415 T10412 auxpass is,observed
R6980 T10416 T10412 advmod also,observed
R6981 T10417 T10412 agent by,observed
R6982 T10418 T10417 pobj DNA,by
R6983 T10419 T10418 prep with,DNA
R6984 T10420 T10421 amod less,content
R6985 T10421 T10419 pobj content,with
R6986 T10422 T10421 compound thymine,content
R6987 T10423 T10424 punct (,Figure
R6988 T10424 T10418 parataxis Figure,DNA
R6989 T10425 T10424 nummod 7,Figure
R6990 T10426 T10424 punct ),Figure
R6991 T10427 T10412 punct ", ",observed
R6992 T10428 T10412 advcl suggesting,observed
R6993 T10429 T10430 mark that,is
R6994 T10430 T10428 advcl is,suggesting
R6995 T10431 T10432 det the,specificity
R6996 T10432 T10430 nsubj specificity,is
R6997 T10433 T10432 compound sequence,specificity
R6998 T10434 T10432 prep for,specificity
R6999 T10435 T10436 compound Mcm,helicase
R7000 T10436 T10437 compound helicase,activation
R7001 T10437 T10434 pobj activation,for
R7002 T10438 T10439 advmod rather,relaxed
R7003 T10439 T10430 acomp relaxed,is
R7004 T10440 T10430 cc and,is
R7005 T10441 T10442 mark that,depend
R7006 T10442 T10430 conj depend,is
R7007 T10443 T10444 det the,extent
R7008 T10444 T10442 nsubj extent,depend
R7009 T10445 T10444 prep of,extent
R7010 T10446 T10447 det the,activation
R7011 T10447 T10445 pobj activation,of
R7012 T10448 T10442 aux may,depend
R7013 T10449 T10442 prep on,depend
R7014 T10450 T10451 det the,context
R7015 T10451 T10449 pobj context,on
R7016 T10452 T10451 compound sequence,context
R7017 T10453 T10381 punct .,concluded
R7018 T10455 T10456 nsubj This,be
R7019 T10457 T10456 aux would,be
R7020 T10458 T10456 acomp reasonable,be
R7021 T10459 T10456 prep given,be
R7022 T10460 T10461 det the,flexibility
R7023 T10461 T10459 pobj flexibility,given
R7024 T10462 T10461 cc and,flexibility
R7025 T10463 T10464 amod differential,regulation
R7026 T10464 T10461 conj regulation,flexibility
R7027 T10465 T10461 prep of,flexibility
R7028 T10466 T10467 compound site,selection
R7029 T10467 T10465 pobj selection,of
R7030 T10468 T10461 prep for,flexibility
R7031 T10469 T10468 pobj initiation,for
R7032 T10470 T10469 prep of,initiation
R7033 T10471 T10472 compound DNA,replication
R7034 T10472 T10470 pobj replication,of
R7035 T10473 T10469 prep during,initiation
R7036 T10474 T10473 pobj development,during
R7037 T10475 T10468 cc or,for
R7038 T10476 T10468 conj in,for
R7039 T10477 T10478 amod various,types
R7040 T10478 T10476 pobj types,in
R7041 T10479 T10478 compound cell,types
R7042 T10480 T10461 punct ", ",flexibility
R7043 T10481 T10482 advmod as,as
R7044 T10482 T10461 cc as,flexibility
R7045 T10483 T10482 advmod well,as
R7046 T10484 T10485 det the,variability
R7047 T10485 T10461 conj variability,flexibility
R7048 T10486 T10485 prep in,variability
R7049 T10487 T10488 compound initiation,potential
R7050 T10488 T10486 pobj potential,in
R7051 T10489 T10488 prep of,potential
R7052 T10490 T10491 det each,origin
R7053 T10491 T10489 pobj origin,of
R7054 T10492 T10491 compound replication,origin
R7055 T10493 T10491 prep on,origin
R7056 T10494 T10495 det the,genome
R7057 T10495 T10493 pobj genome,on
R7058 T10496 T10497 advmod even,within
R7059 T10497 T10485 prep within,variability
R7060 T10498 T10499 det the,type
R7061 T10499 T10497 pobj type,within
R7062 T10500 T10499 amod single,type
R7063 T10501 T10499 compound cell,type
R7064 T10502 T10456 punct .,be