RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 000459
(1484 letters)
>gnl|CDD|215641 PLN03237, PLN03237, DNA topoisomerase 2; Provisional.
Length = 1465
Score = 2421 bits (6276), Expect = 0.0
Identities = 1108/1516 (73%), Positives = 1247/1516 (82%), Gaps = 87/1516 (5%)
Query: 3 VDKRLPLTTSNNANVVGP---TAPNKTIEEMYQKKSQLEHILLRPDTYIGSIEKHTQALW 59
+ ++LPL SN+ANV ++ KTIEEMYQKKSQLEHILLRPDTYIGSIEKHTQ LW
Sbjct: 1 MAEKLPLQESNSANVAAAPAASSGGKTIEEMYQKKSQLEHILLRPDTYIGSIEKHTQTLW 60
Query: 60 IYEEESKTMIHRTISYVPGLYKIFDEILVNAADNKQRDPKMDAVKVVIDQEHDLISVHNS 119
+YE + M+ R+++YVPGLYKIFDEILVNAADNKQRDPKMD+++VVID E +LISV+N+
Sbjct: 61 VYETDK--MVQRSVTYVPGLYKIFDEILVNAADNKQRDPKMDSLRVVIDVEQNLISVYNN 118
Query: 120 GDGVPVEIHQEEGVYVPELIFGHLLTSSNYDDNVKKTTGGRNGYGAKLTNIFSTEFIIET 179
GDGVPVEIHQEEGVYVPE+IFGHLLTSSNYDDN KKTTGGRNGYGAKLTNIFSTEF+IET
Sbjct: 119 GDGVPVEIHQEEGVYVPEMIFGHLLTSSNYDDNEKKTTGGRNGYGAKLTNIFSTEFVIET 178
Query: 180 ADGKRLKKYKQVFTNNMGKKSEPNISKCKEGDNWTKVSFKPDLAKFNMTHLEDDVVALMK 239
ADGKR KKYKQVF+NNMGKKSEP I+KCK+ +NWTKV+FKPDLAKFNMTHLEDDVVALMK
Sbjct: 179 ADGKRQKKYKQVFSNNMGKKSEPVITKCKKSENWTKVTFKPDLAKFNMTHLEDDVVALMK 238
Query: 240 KRVVDLAGCLGKSVKVELNGHRVPVKSFAEYVDMY--------PKSVTRFHERVNERWEI 291
KRVVD+AGCLGK+VKVELNG R+PVKSF++YVD+Y P+++ R +E+VN+RWE+
Sbjct: 239 KRVVDIAGCLGKTVKVELNGKRIPVKSFSDYVDLYLESANKSRPENLPRIYEKVNDRWEV 298
Query: 292 CVTLSEGQFQQVSFVNGIATIKGGTHVDYVANQVANHVMAVVNKKNKNANVKAHNVKNHL 351
CV+LSEGQFQQVSFVN IATIKGGTHVDYV NQ+ANHVM VNKKNKNAN+KAHNVKNHL
Sbjct: 299 CVSLSEGQFQQVSFVNSIATIKGGTHVDYVTNQIANHVMEAVNKKNKNANIKAHNVKNHL 358
Query: 352 WVFVNALIDNPAFDSQTKETLTLRQSSFGSKCELSEEFLKKVTAKSGIVETLLSWANFKQ 411
WVFVNALIDNPAFDSQTKETLTLRQSSFGSKCELSE+FLKKV KSGIVE LLSWA+FKQ
Sbjct: 359 WVFVNALIDNPAFDSQTKETLTLRQSSFGSKCELSEDFLKKV-MKSGIVENLLSWADFKQ 417
Query: 412 SKDLKKNDGTKTEDVRGISKLEDANLAGGRNSEQCTLILTEGDSAKALAMAGLSVVGRDR 471
SK+LKK DG KT V GI KLEDAN AGG+NSE+CTLILTEGDSAKALA+AGLSVVGR+
Sbjct: 418 SKELKKTDGAKTTRVTGIPKLEDANEAGGKNSEKCTLILTEGDSAKALAVAGLSVVGRNY 477
Query: 472 FGVFPLRGKLLNVREASSNQVLNNSEIGNIKKILGLKQGVEYNNVKSLRYGHLMIMTDQV 531
+GVFPLRGKLLNVREAS Q++NN+EI NIK+ILGL+ G +Y +VKSLRYGHLMIMTDQ
Sbjct: 478 YGVFPLRGKLLNVREASHKQIMNNAEIENIKQILGLQHGKQYESVKSLRYGHLMIMTDQ- 536
Query: 532 LLAPLSFLLWFILIFAWITTFCFMLAQDHDGSHIKGLLINFIHSFWPSLLKIPSFLVEFI 591
DHDGSHIKGLLINFIHSFWPSLLK+PSFLVEFI
Sbjct: 537 ---------------------------DHDGSHIKGLLINFIHSFWPSLLKVPSFLVEFI 569
Query: 592 TPIVKATNKNGKVLSFYSMPDYEAWKESLGGNASSWSIKYYKGLGTSTSKEGKEYFQNIT 651
TPIVKAT + KVLSFYSMP+YE WKESLGGNA+ WSIKYYKGLGTST+KEGKEYF+N+
Sbjct: 570 TPIVKATRRGKKVLSFYSMPEYEEWKESLGGNATGWSIKYYKGLGTSTAKEGKEYFKNLG 629
Query: 652 LHKKDFVWEDDQDGEAIELAFSKKKIEARKKWLLQFEPGNHLDQKEKYIKYSDFVNKELI 711
HKKDFVWED+QDG+AIELAFSKKKIEARK WL Q+EPG HLDQ +K +KYSDFVNKELI
Sbjct: 630 KHKKDFVWEDEQDGDAIELAFSKKKIEARKNWLRQYEPGTHLDQTQKDVKYSDFVNKELI 689
Query: 712 LFSMADLQRSIPSMVDGLKPGQRKILFCSFKRNFIKEAKVAQFSGYVSEHSAYHHGEQSL 771
LFSMADLQRSIPSMVDGLKPGQRKILFCSFKRNF+KEAKVAQ SGYVSEHSAYHHGEQSL
Sbjct: 690 LFSMADLQRSIPSMVDGLKPGQRKILFCSFKRNFVKEAKVAQLSGYVSEHSAYHHGEQSL 749
Query: 772 ASTILGMAQDFVGSNNINLLQPNGQFGTRNQGGKDAASARYIFTRLSPITRFLFPKDDDK 831
ASTI+GMAQDFVGSNNINLL PNGQFGTR QGGKD ASARYIFTRLSPITRFLFPKDDD
Sbjct: 750 ASTIIGMAQDFVGSNNINLLLPNGQFGTRLQGGKDHASARYIFTRLSPITRFLFPKDDDI 809
Query: 832 LLDYLNEDGQQIEPTWYMPIIPTVLVNGSEGIGTGWSSYIPNYNPRDIVANVRRLLNGEM 891
LLDYLNEDGQ IEPTWYMPIIPTVLVNG+EGIGTGWS++IPNYNPRDIVAN+RRLLNGE
Sbjct: 810 LLDYLNEDGQSIEPTWYMPIIPTVLVNGAEGIGTGWSTFIPNYNPRDIVANIRRLLNGES 869
Query: 892 MEPMHPWYRGFGGTIEKTASKEAGVTYTVTGIIEEVNETTLRIKELPIRRWTQDYREFLE 951
MEPMHPWYRGF GTIEKTASKE G TYT+TG+ EEV+ETTLRI ELPIRRWT DY+EFLE
Sbjct: 870 MEPMHPWYRGFKGTIEKTASKEGGCTYTITGLYEEVDETTLRITELPIRRWTDDYKEFLE 929
Query: 952 SIIDQN----DSFIRGFRQYSDDTTVDFEVFLSEESMMRTKQEGLLKKFKLTTTISTSNM 1007
S+ N D FI+ + Y+DDTTV FEV LSEE+M+ KQEGLLKKFKLTTTISTSNM
Sbjct: 930 SLKTDNNKNKDPFIKDVKAYNDDTTVHFEVILSEENMLAAKQEGLLKKFKLTTTISTSNM 989
Query: 1008 HLFDSKGVIKKYDTPEQILEEFFHIRLEFYEKRKKVQLENLELELLKLENKVRFILGVVN 1067
HLFDSKGVIKKYDTPEQILEEFFH+RLE+YEKRK+V L+NLE ELLKLENKVRFIL VV+
Sbjct: 990 HLFDSKGVIKKYDTPEQILEEFFHLRLEYYEKRKEVLLKNLEFELLKLENKVRFILAVVD 1049
Query: 1068 GEIVVNNRKRTDLLLELRQKGFTPFPKNSKSIEAVVAGATDETEESEENPEVVN--GVQS 1125
GEI+VNNRK+ DL+ ELRQKGFTPFPK +KS+EA VAGATD+ E EE +V + GV+
Sbjct: 1050 GEIIVNNRKKADLVEELRQKGFTPFPKKAKSVEAAVAGATDDAAEEEEEIDVSSSSGVRG 1109
Query: 1126 IDYDYLLSMAIGTLTLEKVQGLLADRDKLNEEVDDLRKATPESLWVKDLDALDMQLDELD 1185
DYDYLLSMAIGTLTLEKVQ L ADRDKLN EV+DL+K TP+SLW+KDLDAL+ +LD+LD
Sbjct: 1110 SDYDYLLSMAIGTLTLEKVQELCADRDKLNIEVEDLKKTTPKSLWLKDLDALEKELDKLD 1169
Query: 1186 KSDARAEEERMKIKGNG--NGDAGPKIVAKRAPKNA--RKNDKKSNNARATEA-----MG 1236
K DA+AEE R K++ K V+++APK +K KK++ + TE
Sbjct: 1170 KEDAKAEEAREKLQRAAARGESGAAKKVSRQAPKKPAPKKTTKKASESETTEETYGSSAM 1229
Query: 1237 EMDNVTKVVKPKGRAG-LKKAPAEKLDDDEEDEVPDLKQRLAKLNEQLASTKLEPSPDQS 1295
E +NV +VVKPKGRAG KKAPA + +EEDE+ DLK RLA N L+ +P QS
Sbjct: 1230 ETENVAEVVKPKGRAGAKKKAPAAAKEKEEEDEILDLKDRLAAYN-------LDSAPAQS 1282
Query: 1296 GVMETEKVQVPAKKKEPSKRTAAQKKVVTVETSDSEDEIIIDDDEAFEIA-APEEGKKGG 1354
ME VPA++ K+ A V+ SDS+D+ DDD A E++ A KKGG
Sbjct: 1283 AKMEETVKAVPARRAAARKKPLASVSVI----SDSDDD---DDDFAVEVSLAERLKKKGG 1335
Query: 1355 RK-AAGNSKAAKPAAETKKRGPAKKQQPEASLGQRLLTEMLKPAE---SSPEKKVRKMRA 1410
RK AA N KAAKP A KKRGPA Q Q+LLTEMLKPAE SPEKKVRKMRA
Sbjct: 1336 RKPAAANKKAAKPPAAAKKRGPATVQSG-----QKLLTEMLKPAEAIGISPEKKVRKMRA 1390
Query: 1411 SPFNKKSGSMLGRAGTIEEPSGSS----PSTSEEVAEVLPPKARPQRANRRQARYVLSDS 1466
SPFNKKSGS+LGRA T +E S S+SE+ + K RPQRANR+Q YVLSDS
Sbjct: 1391 SPFNKKSGSVLGRAATNKETESSENVSGSSSSEKDEIDVSAKPRPQRANRKQTTYVLSDS 1450
Query: 1467 ESEKATDDSEFDEDED 1482
ESE A DDS+FD+DED
Sbjct: 1451 ESESA-DDSDFDDDED 1465
>gnl|CDD|215593 PLN03128, PLN03128, DNA topoisomerase 2; Provisional.
Length = 1135
Score = 1909 bits (4948), Expect = 0.0
Identities = 804/1170 (68%), Positives = 924/1170 (78%), Gaps = 47/1170 (4%)
Query: 25 KTIEEMYQKKSQLEHILLRPDTYIGSIEKHTQALWIYEEESKTMIHRTISYVPGLYKIFD 84
KTIEE YQKK+QLEHILLRPDTYIGS EKHTQ LW+YE M++R ++YVPGLYKIFD
Sbjct: 1 KTIEETYQKKTQLEHILLRPDTYIGSTEKHTQTLWVYEGG--EMVNREVTYVPGLYKIFD 58
Query: 85 EILVNAADNKQRDPKMDAVKVVIDQEHDLISVHNSGDGVPVEIHQEEGVYVPELIFGHLL 144
EILVNAADNKQRDP MD++KV ID E + ISV+N+G G+PVEIH+EEGVYVPELIFGHLL
Sbjct: 59 EILVNAADNKQRDPSMDSLKVDIDVEQNTISVYNNGKGIPVEIHKEEGVYVPELIFGHLL 118
Query: 145 TSSNYDDNVKKTTGGRNGYGAKLTNIFSTEFIIETADGKRLKKYKQVFTNNMGKKSEPNI 204
TSSN+DDN KKTTGGRNGYGAKL NIFSTEF +ETADG R KKYKQVFTNNM KSEP I
Sbjct: 119 TSSNFDDNEKKTTGGRNGYGAKLANIFSTEFTVETADGNRGKKYKQVFTNNMSVKSEPKI 178
Query: 205 SKCKEGDNWTKVSFKPDLAKFNMTHLEDDVVALMKKRVVDLAGCLGKSVKVELNGHRVPV 264
+ CK +NWTK++FKPDLAKFNMT L++DVVALM KRV D+AGCLGK +KVELNG ++PV
Sbjct: 179 TSCKASENWTKITFKPDLAKFNMTRLDEDVVALMSKRVYDIAGCLGKKLKVELNGKKLPV 238
Query: 265 KSFAEYVDMY------PKSVTRFHERVNERWEICVTLSEGQFQQVSFVNGIATIKGGTHV 318
KSF +YV +Y + R +E+VN+RWE+CV+LS+G FQQVSFVN IATIKGGTHV
Sbjct: 239 KSFQDYVGLYLGPNSREDPLPRIYEKVNDRWEVCVSLSDGSFQQVSFVNSIATIKGGTHV 298
Query: 319 DYVANQVANHVMAVVNKKNKNA-NVKAHNVKNHLWVFVNALIDNPAFDSQTKETLTLRQS 377
DYVA+Q+ H+ V KKNKNA +VK +KNHLWVFVN LI+NP FDSQTKETLT R S
Sbjct: 299 DYVADQIVKHIQEKVKKKNKNATHVKPFQIKNHLWVFVNCLIENPTFDSQTKETLTTRPS 358
Query: 378 SFGSKCELSEEFLKKVTAKSGIVETLLSWANFKQSKDLKKNDGTKTEDVRGISKLEDANL 437
SFGSKCELSEEFLKKV K G+VE +LSWA FKQ K+LKK DG K + + GI KL+DAN
Sbjct: 359 SFGSKCELSEEFLKKV-EKCGVVENILSWAQFKQQKELKKKDGAKRQRLTGIPKLDDAND 417
Query: 438 AGGRNSEQCTLILTEGDSAKALAMAGLSVVGRDRFGVFPLRGKLLNVREASSNQVLNNSE 497
AGG+ S+ CTLILTEGDSAKALAM+GLSVVGRD +GVFPLRGKLLNVREAS Q++ N+E
Sbjct: 418 AGGKKSKDCTLILTEGDSAKALAMSGLSVVGRDHYGVFPLRGKLLNVREASHKQIMKNAE 477
Query: 498 IGNIKKILGLKQGVEYN--NVKSLRYGHLMIMTDQVLLAPLSFLLWFILIFAWITTFCFM 555
I NIK+ILGL+ G Y+ N KSLRYGHLMIMTDQ
Sbjct: 478 ITNIKQILGLQFGKTYDEENTKSLRYGHLMIMTDQ------------------------- 512
Query: 556 LAQDHDGSHIKGLLINFIHSFWPSLLKIPSFLVEFITPIVKATNKNGKVLSFYSMPDYEA 615
DHDGSHIKGL+INF HSFWPSLLKIP FLVEFITPIVKAT GK LSFY+MP+YEA
Sbjct: 513 ---DHDGSHIKGLIINFFHSFWPSLLKIPGFLVEFITPIVKATKG-GKSLSFYTMPEYEA 568
Query: 616 WKESLGGNASSWSIKYYKGLGTSTSKEGKEYFQNITLHKKDFVWEDDQDGEAIELAFSKK 675
WKESL G W+IKYYKGLGTSTS+E KEYF N+ +HKK+F+W+ D+DG+ I++AFSKK
Sbjct: 569 WKESLEGETKGWTIKYYKGLGTSTSEEAKEYFSNLDIHKKEFLWQSDEDGDLIDMAFSKK 628
Query: 676 KIEARKKWLLQFEPGNHLDQKEKYIKYSDFVNKELILFSMADLQRSIPSMVDGLKPGQRK 735
++E RK WL +EPG LDQ I YSDF+NKELILFS ADL RSIPSMVDGLKP QRK
Sbjct: 629 RVEDRKIWLNNYEPGTFLDQTGNGISYSDFINKELILFSQADLARSIPSMVDGLKPSQRK 688
Query: 736 ILFCSFKRNFIKEAKVAQFSGYVSEHSAYHHGEQSLASTILGMAQDFVGSNNINLLQPNG 795
+LF FKRN E KVAQ SGYV+EHSAYHHGE SLASTI+GMAQDFVGSNNINLL P+G
Sbjct: 689 VLFACFKRNLKSEIKVAQLSGYVAEHSAYHHGEASLASTIIGMAQDFVGSNNINLLTPSG 748
Query: 796 QFGTRNQGGKDAASARYIFTRLSPITRFLFPKDDDKLLDYLNEDGQQIEPTWYMPIIPTV 855
QFGTR QGGKDAASARYIFTRLSPITR LFPKDDD LL+YLNEDGQ IEP WY PIIP V
Sbjct: 749 QFGTRLQGGKDAASARYIFTRLSPITRALFPKDDDVLLNYLNEDGQSIEPEWYCPIIPMV 808
Query: 856 LVNGSEGIGTGWSSYIPNYNPRDIVANVRRLLNGEMMEPMHPWYRGFGGTIEKTASKEAG 915
LVNGSEGIGTGWS++IPNYNPRDI+AN+RRLL GE +EPMHPWYRGF GTI + ++ +G
Sbjct: 809 LVNGSEGIGTGWSTFIPNYNPRDIIANIRRLLRGEELEPMHPWYRGFKGTITEVSTSRSG 868
Query: 916 VTYTVTGIIEEVNETTLRIKELPIRRWTQDYREFLESIIDQND---SFIRGFRQYSDDTT 972
+YTVTGIIE++ +TT+RI ELP+R+WTQDY+EFLE+++ I+ F++ DTT
Sbjct: 869 -SYTVTGIIEQIGDTTIRITELPVRKWTQDYKEFLEALLTGTKKKEPEIKDFKENHTDTT 927
Query: 973 VDFEVFLSEESMMRTKQEGLLKKFKLTTTISTSNMHLFDSKGVIKKYDTPEQILEEFFHI 1032
V F V LSEE M R EGL KKFKL+TTISTSNMHLFD G IKKYD+PE ILEEFFH+
Sbjct: 928 VHFTVTLSEEKMARALAEGLEKKFKLSTTISTSNMHLFDKDGKIKKYDSPEDILEEFFHL 987
Query: 1033 RLEFYEKRKKVQLENLELELLKLENKVRFILGVVNGEIVVNNRKRTDLLLELRQKGFTPF 1092
RL+ Y KRK+V LENLE EL KL+NK RFIL VV GEIVVNNRKR +LL EL +KGF F
Sbjct: 988 RLDLYVKRKEVLLENLEYELKKLDNKARFILAVVKGEIVVNNRKRAELLAELEEKGFDKF 1047
Query: 1093 PKNSKSIEAVVAGATDETEESEENPEVVNGVQSIDYDYLLSMAIGTLTLEKVQGLLADRD 1152
PK +K E V G D E+ E E + + YDYLL M I +LTLEKV L A+R
Sbjct: 1048 PKTAKISETNVVG--DRDGEASEEEEASDNELAKSYDYLLGMPISSLTLEKVDELRAERA 1105
Query: 1153 KLNEEVDDLRKATPESLWVKDLDALDMQLD 1182
K EV++L+K TPE LW KDLDA + LD
Sbjct: 1106 KKETEVEELKKTTPEDLWRKDLDAFEEALD 1135
>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional.
Length = 1388
Score = 1749 bits (4533), Expect = 0.0
Identities = 701/1388 (50%), Positives = 909/1388 (65%), Gaps = 59/1388 (4%)
Query: 24 NKTIEEMYQKKSQLEHILLRPDTYIGSIEKHTQALWIYEEESKTMIHRTISYVPGLYKIF 83
NKT+EE YQKK+Q+EHILLRPDTYIGSIE T+ +W+Y+EE M+++TI+YVPGLYKIF
Sbjct: 3 NKTVEERYQKKTQIEHILLRPDTYIGSIETQTEDMWVYDEEKNRMVYKTITYVPGLYKIF 62
Query: 84 DEILVNAADNKQRDP---KMDAVKVVIDQEHDLISVHNSGDGVPVEIHQEEGVYVPELIF 140
DEILVNAADNK RD +M +KV ID+E+ ISV+N G+G+PV+IH+E +YVPE+IF
Sbjct: 63 DEILVNAADNKARDKGGHRMTYIKVTIDEENGEISVYNDGEGIPVQIHKEHKIYVPEMIF 122
Query: 141 GHLLTSSNYDDNVKKTTGGRNGYGAKLTNIFSTEFIIETADGKRLKKYKQVFTNNMGKKS 200
GHLLTSSNYDD K+ TGGRNG+GAKLTNIFST+F +E D K KK+K +T+NM KKS
Sbjct: 123 GHLLTSSNYDDTEKRVTGGRNGFGAKLTNIFSTKFTVECVDSKSGKKFKMTWTDNMSKKS 182
Query: 201 EPNISKCKEGDNWTKVSFKPDLAKFNMTHLEDDVVALMKKRVVDLAGCLGKSVKVELNGH 260
EP I+ ++TKV+F PD AKF MT +DD++ L+KKRV DLAGC GK +KV LNG
Sbjct: 183 EPRITSYDGKKDYTKVTFYPDYAKFGMTEFDDDMLRLLKKRVYDLAGCFGK-LKVYLNGE 241
Query: 261 RVPVKSFAEYVDMYPKSV--------TRFHERVNERWEICVTLSEGQFQQVSFVNGIATI 312
R+ +KSF +YVD+Y + VN RWE+ V+LS+GQFQQVSFVN I T
Sbjct: 242 RIAIKSFKDYVDLYLPDGEEGKKPPYPFVYTSVNGRWEVVVSLSDGQFQQVSFVNSICTT 301
Query: 313 KGGTHVDYVANQVANHVMAVVNKKNKNA-NVKAHNVKNHLWVFVNALIDNPAFDSQTKET 371
KGGTHV+Y+ +Q+ + + KK K +K + +KNHLWVFVN LI NP+FDSQTKET
Sbjct: 302 KGGTHVNYILDQLISKLQEKAKKKKKKGKEIKPNQIKNHLWVFVNCLIVNPSFDSQTKET 361
Query: 372 LTLRQSSFGSKCELSEEFLKKVTAKSGIVETLLSWANFKQSKDL-KKNDGTKTEDVRGIS 430
LT + S FGS CELSE+ +K V KS I+E ++ WA K + +L KK K + GI
Sbjct: 362 LTTKPSKFGSTCELSEKLIKYV-LKSPILENIVEWAQAKLAAELNKKMKAGKKSRILGIP 420
Query: 431 KLEDANLAGGRNSEQCTLILTEGDSAKALAMAGLSVVGRDRFGVFPLRGKLLNVREASSN 490
KL+DAN AGG+NSE+CTLILTEGDSAKALA+AGLSVVGRD +GVFPLRGKLLNVR+AS
Sbjct: 421 KLDDANDAGGKNSEECTLILTEGDSAKALALAGLSVVGRDYYGVFPLRGKLLNVRDASLK 480
Query: 491 QVLNNSEIGNIKKILGLKQGVEYNNVKSLRYGHLMIMTDQVLLAPLSFLLWFILIFAWIT 550
Q++NN EI N+ KILGL G +Y + K LRYG LMIMTDQ
Sbjct: 481 QLMNNKEIQNLFKILGLDIGKKYEDPKGLRYGSLMIMTDQ-------------------- 520
Query: 551 TFCFMLAQDHDGSHIKGLLINFIHSFWPSLLKIPSFLVEFITPIVKATNKNGKVLSFYSM 610
DHDGSHIKGLLIN IH FWPSLLK P FL EFITPIVKAT K +V+SF+++
Sbjct: 521 --------DHDGSHIKGLLINMIHHFWPSLLKNPGFLKEFITPIVKATKKGNQVISFFTI 572
Query: 611 PDYEAWKESLGGNASSWSIKYYKGLGTSTSKEGKEYFQNITLHKKDFVWEDDQDGEAIEL 670
PD+E WK+++ W IKYYKGLGTST KEGKEYF NI H+ FV+ DD D ++I+L
Sbjct: 573 PDFEKWKQTV--GLKGWKIKYYKGLGTSTDKEGKEYFSNIDKHRIRFVYVDDSDDDSIDL 630
Query: 671 AFSKKKIEARKKWLLQFEPGNHLDQKEKYIKYSDFVNKELILFSMADLQRSIPSMVDGLK 730
AFSKK++E RK+W+ ++ G ++D +K + YSDFVNKELILFS+AD +RSIPS+VDGLK
Sbjct: 631 AFSKKRVEDRKEWITNYKGGTYVDHSKKKLTYSDFVNKELILFSIADNERSIPSLVDGLK 690
Query: 731 PGQRKILFCSFKRNFIKEAKVAQFSGYVSEHSAYHHGEQSLASTILGMAQDFVGSNNINL 790
PGQRKILF FKRN E KVAQ SGYVSEHSAYHHGEQSL TI+GMAQ+FVGSNNINL
Sbjct: 691 PGQRKILFACFKRNLKNEIKVAQLSGYVSEHSAYHHGEQSLQQTIVGMAQNFVGSNNINL 750
Query: 791 LQPNGQFGTRNQGGKDAASARYIFTRLSPITRFLFPKDDDKLLDYLNEDGQQIEPTWYMP 850
L P GQFG+R QGGKD A+ARYIFT+LS ITR++FP++DD +LDYL +DGQ +EP +Y+P
Sbjct: 751 LYPCGQFGSRLQGGKDHAAARYIFTKLSKITRYIFPEEDDPILDYLEDDGQSVEPFYYVP 810
Query: 851 IIPTVLVNGSEGIGTGWSSYIPNYNPRDIVANVRRLLNGEMMEPMHPWYRGFGGTIEKTA 910
IIP VLVNG+EGIGTG+S+ IPNYNP DI+ N+RR LNGE + P+ PWYRGF GTIE+
Sbjct: 811 IIPMVLVNGAEGIGTGFSTSIPNYNPLDIIDNLRRRLNGEEVRPLVPWYRGFKGTIERNP 870
Query: 911 SKEAGVTYTVTGIIEEVNETTLRIKELPIRRWTQDYREFLESIIDQNDSFIRGFRQYSDD 970
+ GI E+V + T+ I ELPI +WT+DY+EFLES + I +R YS
Sbjct: 871 K----GKFISKGIYEKVPDGTVEITELPIGKWTEDYKEFLESETLKEKDVIVDYRDYSTA 926
Query: 971 TTVDFEVFLSEESMMRTKQEGLLKKFKLTTTISTSNMHLFDSKGVIKKYDTPEQILEEFF 1030
TV F V L++ + + ++EG+ K FKL +TIST+NM LFD G IKKY IL+EF+
Sbjct: 927 NTVHFTVKLNDGVLEQWEEEGIEKVFKLKSTISTTNMVLFDENGKIKKYSDALDILKEFY 986
Query: 1031 HIRLEFYEKRKKVQLENLELELLKLENKVRFILGVVNGEIVVNNRKRTDLLLELRQKGFT 1090
+RL+ Y+KRK+ L LE EL +L NKVRFI V+NGE+V+ N K+ DL+ EL++ G+
Sbjct: 987 LVRLDLYKKRKEYLLGKLERELARLSNKVRFIKHVINGELVITNAKKKDLVKELKKLGYV 1046
Query: 1091 PFP-----KNSKSIEAVVAGATDETEESEENPEVVNGVQSIDYDYLLSMAIGTLTLEKVQ 1145
F K+ K GA ++ E +E+ E G YDYLLSM I +LT EKV+
Sbjct: 1047 RFKDIIKKKSEKITAEEEEGAEEDDEADDEDDEEELGAAV-SYDYLLSMPIWSLTKEKVE 1105
Query: 1146 GLLADRDKLNEEVDDLRKATPESLWVKDLDALDMQLDELDKSDARAEEERMKIKGNGNGD 1205
L A+ +K +E++ L+ TP+ +W++DLD + L+E ++ + + + ++K G
Sbjct: 1106 KLNAELEKKEKELEKLKNTTPKDMWLEDLDKFEEALEEQEEVEEKEIAKEQRLKSKTKGK 1165
Query: 1206 AGPKIVAKRAPKNARKNDKKSNNARATEAMGEMDNVTKVVKPKGRAGLKKAPAEKLDDDE 1265
A K K +K ++ ++ +G V K K + D+
Sbjct: 1166 ASKLRKPKLKKKEKKKKKSSADKSKKASVVGNSKRVDSDEKRKLDDKPDNKKSNSSGSDQ 1225
Query: 1266 EDEVPDLKQRLAKLNEQLASTKLEPSPDQSGVMETEK---VQVPAKKKEPSKRTAAQKKV 1322
ED+ + ++L S K S E + K P + +A Q
Sbjct: 1226 EDDEEQKTKPKKSSVKRLKSKKNNSSKSSEDNDEFSSDDLSKEGKPKNAPKRVSAVQYSP 1285
Query: 1323 VTVETSDSEDEIIIDDDEAFEIAAPEEGKKGGRKAAGNSKAAKPA-AETKKRGPAKKQQP 1381
+ + ++ +G A K ++ A KK KQ
Sbjct: 1286 PPPSKRPDGESNGGSKPSSPTKKKVKKRLEGSLAALKKKKKSEKKTARKKKSKTRVKQAS 1345
Query: 1382 EASLGQRL 1389
+ + L
Sbjct: 1346 ASQSSRLL 1353
Score = 38.1 bits (89), Expect = 0.049
Identities = 32/213 (15%), Positives = 65/213 (30%), Gaps = 17/213 (7%)
Query: 1141 LEKVQGLLADRDKLNEEVDDLRKATPESLWVKDLDALDMQLDELDKSDARAEEERMKIKG 1200
L K + ++ K D +KA+ + +LD+ + +
Sbjct: 1169 LRKPKLKKKEKKKKKSSADKSKKASVVGNSKRVDSDEKRKLDDKPDNKKSNSSGSDQEDD 1228
Query: 1201 NGNGDAGPKIVAKRAPKNARKNDKKSNNARATEAM-----GEMDNVTKVV--------KP 1247
K KR + K S + + G+ N K V P
Sbjct: 1229 EEQKTKPKKSSVKRLKSKKNNSSKSSEDNDEFSSDDLSKEGKPKNAPKRVSAVQYSPPPP 1288
Query: 1248 KGRAGLKKAPAEKLDDDEEDEVPDLKQRLAKLNEQLASTKLEPSPDQSGVMETEKVQVPA 1307
R + K + +V + ++ ++ + + + +T Q A
Sbjct: 1289 SKRPDGESNGGSKPSSPTKKKVKKRLEGSLAALKKKKKSEKKTARKKK--SKTRVKQASA 1346
Query: 1308 KKKEPSKRTAAQKKVVTVETSDSEDEIIIDDDE 1340
+ R +KK +S+ +D+ +DD E
Sbjct: 1347 SQSSRLLRRPRKKKSD--SSSEDDDDSEVDDSE 1377
>gnl|CDD|214659 smart00433, TOP2c, TopoisomeraseII. Eukaryotic DNA topoisomerase
II, GyrB, ParE.
Length = 594
Score = 718 bits (1857), Expect = 0.0
Identities = 225/639 (35%), Positives = 320/639 (50%), Gaps = 72/639 (11%)
Query: 78 GLYKIFDEILVNAADNKQRDPKMDAVKVVIDQEHDLISVHNSGDGVPVEIHQEEGVYVPE 137
GL+ + DEI+ NAAD MD +KV ID+++ ISV ++G G+PVEIH +E Y PE
Sbjct: 1 GLHHLVDEIVDNAADEALAGY-MDTIKVTIDKDN-SISVEDNGRGIPVEIHPKEKKYAPE 58
Query: 138 LIFGHLLTSSNYDDNVKKTTGGRNGYGAKLTNIFSTEFIIETADGKRLKKYKQVFTNNMG 197
+IF L +DD+ K +GG +G GA + N STEF +E A K+YKQ F+NN
Sbjct: 59 VIFTVLHAGGKFDDDAYKVSGGLHGVGASVVNALSTEFEVEVARDG--KEYKQSFSNNGK 116
Query: 198 KKSEPNISKCKEGDNWTKVSFKPDLAKFNMTHLEDDVVALMKKRVVDLAGCLGKSVKVEL 257
SEP I + + TKV+FKPDL F MT DD L+K+R+ +LA K VK+ L
Sbjct: 117 PLSEPKIIGDTK-KDGTKVTFKPDLEIFGMT--TDDDFELLKRRLRELAFLN-KGVKITL 172
Query: 258 NGHR-------VPVKSFAEYVDMY--------PKSVTRFHERVNERWEICVTLSEG-QFQ 301
N R + +YV++ P+ E+ N R E+ ++G
Sbjct: 173 NDERSDEEKTFLFEGGIKDYVELLNKNKELLSPEPTYIEGEKDNIRVEVAFQYTDGYSEN 232
Query: 302 QVSFVNGIATIKGGTHVDYVANQVANHVMAVVNKKN--KNANVKAHNVKNHLWVFVNALI 359
VSFVN IAT +GGTH + + + + KK K N+K +V+ L F++ I
Sbjct: 233 IVSFVNNIATTEGGTHENGFKDALTRVINEYAKKKKKLKEKNIKGEDVREGLTAFISVKI 292
Query: 360 DNPAFDSQTKETLTLRQSSFG-----SKCELSEEFLKKVTAKSGIVETLLSWANFK-QSK 413
P F+ QTKE L + FG S+C LS V A IVE +L A + +K
Sbjct: 293 PEPQFEGQTKEKLGTSEVRFGVEKIVSECLLSFLEENPVEAS-KIVEKVLLAAKARAAAK 351
Query: 414 DLKKNDG-TKTEDVRGISKLEDANLAGGRNSEQCTLILTEGDSAKALAMAGLSVVGRDRF 472
++ K + KL DA+ AG ++C L L EGDSA A +G RD
Sbjct: 352 KARELTRKKKLSSISLPGKLADASSAGP---KKCELFLVEGDSAGGSAKSGRD---RDFQ 405
Query: 473 GVFPLRGKLLNVREASSNQVLNNSEIGNIKKILGLKQGVEYNNVKSLRYGHLMIMTDQVL 532
+ PLRGK+LNV +AS +++L N EI + LGL G ++ +++ LRYG ++IMTD
Sbjct: 406 AILPLRGKILNVEKASLDKILKNEEIQALITALGLGIGKDF-DIEKLRYGKIIIMTD--- 461
Query: 533 LAPLSFLLWFILIFAWITTFCFMLAQDHDGSHIKGLLINFIHSFWPSLLKIPSFLVEFIT 592
D DGSHIKGLL+ F + + P L++ F+ I
Sbjct: 462 -------------------------ADVDGSHIKGLLLTFFYRYMPPLIEAG-FVYIAIP 495
Query: 593 PIVKATNKNG-KVLSFYSMPDYEAWKESLGGNASSWSIKYYKGLGTSTSKEGKEYFQNIT 651
P+ K T V SFYS+ +YE W E GN S + I+ YKGLG + + E +
Sbjct: 496 PLYKVTKGKKKYVYSFYSLDEYEKWLEKTEGNKSKYEIQRYKGLGEMNADQLWETTMDPE 555
Query: 652 LHKKDFVW-EDDQDGEAIELAFSKKKIEARKKWLLQFEP 689
FV +D + + I A K+E RK+W+ + P
Sbjct: 556 RRTLLFVTLDDADEADLIFSALMGDKVEPRKEWIEENAP 594
>gnl|CDD|214660 smart00434, TOP4c, DNA Topoisomerase IV. Bacterial DNA topoisomerase
IV, GyrA, ParC.
Length = 444
Score = 520 bits (1343), Expect = e-171
Identities = 172/483 (35%), Positives = 231/483 (47%), Gaps = 49/483 (10%)
Query: 700 IKYSDFVNKELILFSM-ADLQRSIPSMVDGLKPGQRKILFCSFKRNFIK-EAKVAQFSGY 757
I DF+NKE + +SM R+IP + DGLKP QR+IL+ FKR E KV G
Sbjct: 1 IDIEDFINKEYLDYSMSVINGRAIPDVRDGLKPVQRRILYAMFKRGLTPDEPKVKSARGV 60
Query: 758 VSEHSAYH-HGEQSLASTILGMAQDFVGSNNINLLQPNGQFGTRNQGGKDAASARYIFTR 816
YH HG+ SL TI+ MAQDF NN LL G FG+R G DAA+ RY TR
Sbjct: 61 GDVMGKYHPHGDSSLYDTIVRMAQDFS--NNYPLLDGQGNFGSR-LDGDDAAAMRYTETR 117
Query: 817 LSPITRFLFPKDDDKLLDYLNE-DGQQIEPTWYMPIIPTVLVNGSEGIGTGWSSYIPNYN 875
LSP+ R L P D +D++ DGQ+IEPT PIIP +LVNGS GI G ++ IP +N
Sbjct: 118 LSPLARLLLPDIDKDTVDFVPNYDGQEIEPTVLPPIIPNLLVNGSSGIAVGMATNIPPHN 177
Query: 876 PRDIVANVRRLLNGEMMEP----MHPWYRGFGGTIEKTASKEAGVTYTVTGIIEEVNETT 931
R+++ VRRL++ M PW F E + Y V G IE ++ T
Sbjct: 178 LREVIDAVRRLIDNPDASIDELMMIPWGPDFPTGGEIVGPGK----YVVRGKIEIEDDNT 233
Query: 932 LRIKELPIRRWTQDYREFLESIIDQN--DSFIRGFRQYSDDTTVDFEVFLSEESMMRTKQ 989
+ I ELP + T D E + ++ + I + D T V + L +M
Sbjct: 234 IVITELPYQVNTADLIEKIAELVKDKKIEGIIDVRDESHDRTGVRIVIELKRGAMAEVVL 293
Query: 990 EGLLKKFKLTTTISTSNMHLFDSKGVIKKYDTPEQILEEFFHIRLEFYEKRKKVQLENLE 1049
GL K KL TT S + + LFD+ G KKY+ E IL+EF RLE Y +RK+ L LE
Sbjct: 294 NGLYKLTKLQTTFSINMLALFDN-GRPKKYNLKE-ILKEFLDHRLEVYTRRKEYLLGKLE 351
Query: 1050 LELLKLENKVRFILGVVNGEIVVNNRKRTDLLLELRQKGFTPFPKNSKSIEAVVAGATDE 1109
+ FI + EI+V R DL E ++K F
Sbjct: 352 -AERLHILEGLFIALSIIDEIIVLIRSSKDLAKEAKEKLMERF----------------- 393
Query: 1110 TEESEENPEVVNGVQSIDYDYLLSMAIGTLTLEKVQGLLADRDKLNEEVDDLRKATPESL 1169
E SE I D +L M + LT +V+ L + +L +E++DL K
Sbjct: 394 -ELSE-----------IQADAILDMRLRRLTKLEVEKLEKELKELEKEIEDLEKILASEE 441
Query: 1170 WVK 1172
W+
Sbjct: 442 WLN 444
>gnl|CDD|238111 cd00187, TOP4c, DNA Topoisomerase, subtype IIA; domain A'; bacterial
DNA topoisomerase IV (C subunit, ParC), bacterial DNA
gyrases (A subunit, GyrA),mammalian DNA toposiomerases
II. DNA topoisomerases are essential enzymes that
regulate the conformational changes in DNA topology by
catalysing the concerted breakage and rejoining of DNA
strands during normal cellular growth.
Length = 445
Score = 460 bits (1186), Expect = e-149
Identities = 161/485 (33%), Positives = 227/485 (46%), Gaps = 67/485 (13%)
Query: 719 QRSIPSMVDGLKPGQRKILFCSFKRNF---IKEAKVAQFSGYVSEHSAYHHGEQSLASTI 775
R++P + DGLKP QR+IL+ FKR E KVA+ G V+ + HG+ SL TI
Sbjct: 2 GRALPDVRDGLKPVQRRILYAMFKRGLTPDKPEKKVARLVGDVAGKY-HPHGDSSLYDTI 60
Query: 776 LGMAQDFVGSNNINLLQPNGQFGTRNQGGKDAASARYIFTRLSPITRFLFPKDDDKLLDY 835
+ MAQDF SNNI LL P G FG+R G DAA+ RY TRLSPI R L P DD +D+
Sbjct: 61 VRMAQDF--SNNIPLLDPQGNFGSR--DGDDAAAMRYTETRLSPIARLLLPDIDDPTVDF 116
Query: 836 LNE-DGQQIEPTWYMPIIPTVLVNGSEGIGTGWSSYIPNYNPRDIVANVRRLLNGE---- 890
+ DGQ++EP PI P +LVNGS GI G ++ IP +N R+++ +R L++
Sbjct: 117 VPNYDGQEVEPEVLPPIFPNLLVNGSSGIAVGMATNIPPHNLREVIDALRALIDNPEASI 176
Query: 891 ---MMEPMHPWYRGFGGTIEKTASKEAGVT----YTVTGIIEEV---NETTLRIKELPIR 940
M P + G + +EA T Y + G E T+ I ELP +
Sbjct: 177 DELMEIIKGPDFPTGGIIEGRAGIREAYETGRGRYIIRGKYEIEDDEGRNTIEITELPYQ 236
Query: 941 RWTQDYREFLESII-DQNDSFIRGFRQYSDDTTVDFEVFLSEESMMRTKQEGLLKKFKLT 999
+E + ++ D+ I R SD + F + L +M GL K KL
Sbjct: 237 VNKAKLKEKIAELVKDKKIEGISDVRDESDREGIRFVIELKRGAMAEVVLNGLYKVTKLQ 296
Query: 1000 TTISTSNMHLFDSKGVIKKYDTPEQILEEFFHIRLEFYEKRKKVQLENLELELLKLENKV 1059
TT NM FD G KK ++IL+EF RLE Y +RK+ +L E L LE +
Sbjct: 297 TTFGI-NMVAFDPNGRPKKL-NLKEILQEFLDHRLEVYTRRKEYELGKAEARLHILEGLL 354
Query: 1060 RFIL--GVVNGEIVVNNRKRTDLLLELRQKGFTPFPKNSKSIEAVVAGATDETEESEENP 1117
+ IL V I ++ + L+ EL + GF+
Sbjct: 355 KAILNIDEVINLIRSSDEAKKALIEELEKLGFSE-------------------------- 388
Query: 1118 EVVNGVQSIDYDYLLSMAIGTLTLEKVQGLLADRDKLNEEVDDLRKAT-----PESLWVK 1172
I D +L M + LT + + LL + +L E++DL K P+ LW +
Sbjct: 389 --------IQADAILDMRLRRLTKLEREKLLKELKELEAEIEDLEKILASEERPKDLWKE 440
Query: 1173 DLDAL 1177
+LD
Sbjct: 441 ELDEF 445
>gnl|CDD|223265 COG0187, GyrB, Type IIA topoisomerase (DNA gyrase/topo II,
topoisomerase IV), B subunit [DNA replication,
recombination, and repair].
Length = 635
Score = 455 bits (1173), Expect = e-144
Identities = 179/706 (25%), Positives = 282/706 (39%), Gaps = 109/706 (15%)
Query: 24 NKTIEEMYQKKSQLEHILLRPDTYIGSIEKHTQALWIYEEESKTMIHRTISYVPGLYKIF 83
N Q LE + RP YIGS GL+ +
Sbjct: 4 NNYDASSIQVLEGLEAVRKRPGMYIGSTGDGR----------------------GLHHLV 41
Query: 84 DEILVNAADNKQRDPKMDAVKVVIDQEHDLISVHNSGDGVPVEIHQEEGVYVPELIFGHL 143
E++ N+ D D + V + ++ ISV ++G G+PV+IH +E V E+IF L
Sbjct: 42 WEVVDNSIDEALAG-YADRIDVTLHEDG-SISVEDNGRGIPVDIHPKEKVSAVEVIFTVL 99
Query: 144 LTSSNYDDNVKKTTGGRNGYGAKLTNIFSTEFIIETADGKRLKKYKQVFTNNMGKKSEPN 203
+D++ K +GG +G G + N ST +E K Y+Q F +
Sbjct: 100 HAGGKFDNDSYKVSGGLHGVGVSVVNALSTWLEVEVKRDG--KIYRQRFERGVPVTPLEV 157
Query: 204 ISKCKEGDNWTKVSFKPDLAKFNMTHLEDDVVALMKKRVVDLAGCLGKSVKVELNGHRVP 263
I TKV FKPD F T + ++K+R+ +LA L K VK+ L R
Sbjct: 158 IGSTDTKKTGTKVRFKPDPEIFGET---EFDYEILKRRLRELAF-LNKGVKITLTDERTG 213
Query: 264 -----------VKSFAEYVD-----MYPKSVTRFHERVNERWEICVTLSEG-QFQQVSFV 306
+K + EY++ ++ + E+ E+ + ++G +SFV
Sbjct: 214 EEKKEFHYEGGLKDYVEYLNKGKTPLHEEIFYFNGEKDGIAVEVALQWNDGYSENILSFV 273
Query: 307 NGIATIKGGTHVDYVANQVANHVMAVVNKKN--KNANVKAHNVKNHLWVFVNALIDNPAF 364
N I T +GGTH + + + KKN K ++ +++ L ++ I +P F
Sbjct: 274 NNIPTREGGTHEAGFRSALTRAINEYAKKKNLLKEGDLTGDDIREGLTAVISVKIPDPQF 333
Query: 365 DSQTKETLTLRQSSFGSKCELSEEFLKKVTAKSGIVETLLSWANFKQSKDLKKNDGTKTE 424
+ QTKE L + + +SE F + + ++ A E
Sbjct: 334 EGQTKEKLGNSEVRSIVEKLVSEAFSLFLEENPQEAKKIVEKAIAAAKAREAARKAR--E 391
Query: 425 DVRGISKLEDANLAG------GRNSEQCTLILTEGDSAKALAMAGLSVVGRDRF--GVFP 476
R S L+ L G ++ E+ L L EGDSA A G RDR + P
Sbjct: 392 LTRRKSALDIPGLPGKLADCTSKDPEKSELFLVEGDSAGGSAKQG-----RDREFQAILP 446
Query: 477 LRGKLLNVREASSNQVLNNSEIGNIKKILGLKQGVEYNNVKSLRYGHLMIMTDQVLLAPL 536
LRGK+LNV +A +++L N EI I LG G +++ ++ LRY ++IMTD
Sbjct: 447 LRGKILNVEKARLDKILKNEEIQTIITALGTGIGKDFD-LEKLRYHKIIIMTDA------ 499
Query: 537 SFLLWFILIFAWITTFCFMLAQDHDGSHIKGLLINFIHSFWPSLLKIPSFLVEFITPIVK 596
D DG+HI+ LL+ F + + P L++ + P+ K
Sbjct: 500 ----------------------DVDGAHIRTLLLTFFYRYMPPLIEN-GHVYIAQPPLYK 536
Query: 597 ATNKNGKVLSFYSMPDYEAWK--ESLGGNASSWSIKYYKGLGTSTSKEGKEYFQNITLHK 654
FY+ D E K E L G + I+ YKGLG + E + +
Sbjct: 537 VKKGKKT---FYAYDDEELEKLLERL-GKKKGYEIQRYKGLGEMNPDQLWETTMDPETRR 592
Query: 655 KDFVWEDDQDGEAIELAFSK---KKIEARKKWLLQFEPGNHLDQKE 697
V +D + + FS K+E R+ F N L +
Sbjct: 593 LLQV--TIEDADEADEIFSTLMGDKVEPRR----NFIEENALFVEN 632
>gnl|CDD|215969 pfam00521, DNA_topoisoIV, DNA gyrase/topoisomerase IV, subunit A.
Length = 427
Score = 435 bits (1121), Expect = e-139
Identities = 163/478 (34%), Positives = 232/478 (48%), Gaps = 73/478 (15%)
Query: 720 RSIPSMVDGLKPGQRKILFCSFK--RNFIK-EAKVAQFSGYVSEHSAYH-HGEQSLASTI 775
R+IP + DGLKP QR+IL+ FK N K KVA+ G V YH HG+ S+ +
Sbjct: 1 RAIPDVRDGLKPVQRRILYAMFKLGLNLDKKYKKVARLVGDV--MGKYHPHGDASIYDAL 58
Query: 776 LGMAQDFVGSNNINLLQPNGQFGTRNQGGKDAASARYIFTRLSPITRFLFPKDDDKLLDY 835
+ MAQDFVG NI LL G FG+R G K AA RY RLS I R LF D +D+
Sbjct: 59 VRMAQDFVG--NIPLLDGQGNFGSRLDGDKAAA-MRYTEARLSKIARELFKDIDKDTVDF 115
Query: 836 LNE-DGQQIEPTWYMPIIPTVLVNGSEGIGTGWSSYIPNYNPRDIVANVRRLLNGE---M 891
+ DG + EPT PIIP +LVNG+ GI G ++ IP +N +++ + LL+G +
Sbjct: 116 VPNYDGSEKEPTVLPPIIPNLLVNGASGIAVGMATNIPPHNLGEVIDALIALLDGPEITL 175
Query: 892 MEPMHPWYRGFGGTIEKTASKEAGVT----YTVTGIIEEVNETTLRIKELPIRRWTQDYR 947
++ P + GG I +EA T TV IE T+ I ELP WT+
Sbjct: 176 LKIPGPDFPTGGGIIGSGGIREAYKTGRGKITVRAKIEIEERKTIVITELPYGVWTEKLI 235
Query: 948 EFLESIIDQNDSFIRG--FRQYSDDTTVDFEVFLSEESMMRTKQEGLLKKFKLTTTISTS 1005
E +E ++ + I+G R SD V + L + L KK KL ++ ST+
Sbjct: 236 ESIEELV--KNKKIKGSDIRDESDRG-VRIVIELKRGANPEVVLNKLYKKTKLQSSFSTN 292
Query: 1006 NMHLFDSKGVIKKYDTPEQILEEFFHIRLEFYEKRKKVQLENLELELLKLE------NKV 1059
N+ LFD KY ++IL+EF RLE Y++RK+ LE LE L LE NK+
Sbjct: 293 NLVLFDGG---PKYLNLKEILKEFLEHRLEVYKRRKEYLLEKLEERLHILEGLLKALNKI 349
Query: 1060 RFILGVVNGEIVVNNRKRTDLLLELRQKGFTPFPKNSKSIEAVVAGATDETEESEENPEV 1119
F++ V+ G I + + +L+ EL +
Sbjct: 350 DFVIEVIRGSID-LKKAKKELIEELSE--------------------------------- 375
Query: 1120 VNGVQSIDYDYLLSMAIGTLTLEKVQGLLADRDKLNEEVDDLRKATPE--SLWVKDLD 1175
I DYLL M + LT E+++ L + ++L +E+ +L K LW+K+LD
Sbjct: 376 ------IQADYLLDMRLRRLTKEEIEKLEKEIEELEKEIAELEKILASEKKLWIKELD 427
>gnl|CDD|222896 PHA02592, 52, DNA topisomerase II medium subunit; Provisional.
Length = 439
Score = 261 bits (669), Expect = 1e-76
Identities = 137/485 (28%), Positives = 235/485 (48%), Gaps = 56/485 (11%)
Query: 698 KYIKYSDFVNKELILFSMADL-QRSIPSMVDGLKPGQRKILFCSF---KRNFIKEAKVAQ 753
K VN E + ++M + +R+IP+++DGLKP QR ++ + K N K KVA
Sbjct: 4 KERSLKSIVNNEALEYAMYTVEERAIPNLIDGLKPVQRFVIHRALEYAKGNKEKFDKVAA 63
Query: 754 FSGYVSEHSAYHHGEQSLASTILGMAQDFVGSNNINLLQPNGQFGTRNQGGKDAASARYI 813
+G V++ YHHGE S MA + +NNI LL G FG+R + AA+ARYI
Sbjct: 64 IAGGVADLG-YHHGETSAQDAGALMANTW--NNNIPLLDGQGNFGSRL--VQKAAAARYI 118
Query: 814 FTRLSPITRFLFPKDDDKLLDYLNEDGQQIEPTWYMPIIPTVLVNGSEGIGTGWSSYIPN 873
F R+ R ++ KD+D L ++ED + I P +Y+PIIP VL+NG GI TG+++ I
Sbjct: 119 FARVHDNFRKIY-KDED--LAPVHEDPEHIPPAFYLPIIPMVLLNGVSGIATGYATNILP 175
Query: 874 YNPRDIVANVRRLLNGEMMEPMHPWYRGFGGTIEKTASKEAGVTYTVTGIIEEVNETTLR 933
++P+ ++ V LNG+ + + F G + + +Y + G E +T L
Sbjct: 176 HSPKSVIKAVLAALNGKDITEPKVQFPEFKGEVVEIEPG----SYEIRGTYELNGKTKLH 231
Query: 934 IKELPIRRWTQDYREFLESIIDQNDSFIRGFRQYSDDTTVDFEVFLSEESMMRTKQEGLL 993
I E+P++ + Y L+ + ++ I + ++D F+V L E E ++
Sbjct: 232 ITEIPVKYDRETYVAVLDPLEEKG--KIVSYDDCTED-GFRFKVTLKREENEEATHEKIM 288
Query: 994 KKFKLTTTISTSNMHLFDSKGVIKKYDTPEQILEEFFHIRLEFYEKRKKVQLENLELELL 1053
K F L + N+ + + G +K Y+ E ++ +F IR + +KR + +++ E
Sbjct: 289 KDFGLIER-VSQNITVINENGKLKVYENAEDLIRDFVEIRKTYVQKRIQYEIKETEEAFD 347
Query: 1054 KLENKVRFILGVVNGEIVVNNRKRTDLLLELRQ-KGFTPFPKNSKSIEAVVAGATDETEE 1112
K FI V+ GEIV+ + R++L EL K F +
Sbjct: 348 LALAKAEFIKRVIAGEIVLQGKTRSELTEELSDNKDFGEY-------------------- 387
Query: 1113 SEENPEVVNGVQSIDYDYLLSMAIGTLTLEKVQGLLADRDKLNEEVDDLRKATPESLWVK 1172
D L++M I ++T ++ + L + ++L +E + +K T + ++K
Sbjct: 388 ---------------ADKLVAMNIYSMTSDEREKLQKEAEELEKEHEYWKKTTAKKEYIK 432
Query: 1173 DLDAL 1177
DL+ L
Sbjct: 433 DLEEL 437
>gnl|CDD|239563 cd03481, TopoIIA_Trans_ScTopoIIA, TopoIIA_Trans_ScTopoIIA:
Transducer domain, having a ribosomal S5 domain 2-like
fold, of the type found in proteins of the type IIA
family of DNA topoisomerases similar to Saccharomyces
cerevisiae Topo IIA. S. cerevisiae Topo IIA is a
homodimer encoded by a single gene. The type IIA enzymes
are the predominant form of topoisomerase and are found
in some bacteriophages, viruses and archaea, and in all
bacteria and eukaryotes. All type IIA topoisomerases
are related to each other at amino acid sequence level,
though their oligomeric organization sometimes differs.
TopoIIA enzymes cut both strands of the duplex DNA to
remove (relax) both positive and negative supercoils in
DNA. These enzymes covalently attach to the 5' ends of
the cut DNA, separate the free ends of the cleaved
strands, pass another region of the duplex through this
gap, then rejoin the ends. TopoIIA enzymes also
catenate/ decatenate duplex rings. This transducer
domain is homologous to the second domain of the DNA
gyrase B subunit, which is known to be important in
nucleotide hydrolysis and the transduction of structural
signals from ATP-binding site to the DNA
breakage/reunion regions of the enzymes.
Length = 153
Score = 246 bits (630), Expect = 2e-75
Identities = 97/154 (62%), Positives = 114/154 (74%), Gaps = 10/154 (6%)
Query: 265 KSFAEYVDMYPKSVTRF--------HERVNERWEICVTLSEGQFQQVSFVNGIATIKGGT 316
KSF +YV +Y K + +E VN+RWE+ V LS+GQFQQVSFVN IAT KGGT
Sbjct: 1 KSFKDYVKLYLKDANKEDGPPPPVVYEPVNDRWEVAVALSDGQFQQVSFVNSIATTKGGT 60
Query: 317 HVDYVANQVANHVMAVVNKKNK-NANVKAHNVKNHLWVFVNALIDNPAFDSQTKETLTLR 375
HVDYVA+Q+ + VV KKNK NVK VKNHLW+FVN LI+NP+FDSQTKETLT +
Sbjct: 61 HVDYVADQIVKKLDEVVKKKNKGGINVKPFQVKNHLWIFVNCLIENPSFDSQTKETLTTK 120
Query: 376 QSSFGSKCELSEEFLKKVTAKSGIVETLLSWANF 409
SFGSKCELSE+FLKK KSGIVE++LSWA F
Sbjct: 121 PKSFGSKCELSEKFLKKA-VKSGIVESVLSWAKF 153
>gnl|CDD|177398 PHA02569, 39, DNA topoisomerase II large subunit; Provisional.
Length = 602
Score = 261 bits (670), Expect = 5e-75
Identities = 204/671 (30%), Positives = 300/671 (44%), Gaps = 95/671 (14%)
Query: 35 SQLEHILLRPDTYIGSIEKHTQALWIYEEESKTMIHRTISYVPGLYKIFDEILVNAADNK 94
S EHIL RP YIGS+ +++ + + YVPGL KI DEI+ N+ D
Sbjct: 8 SDREHILKRPGMYIGSVAYEAHERFLFGK------FTQVEYVPGLVKIIDEIIDNSVDEA 61
Query: 95 QRDPKMDAVKVVIDQEHDLISVHNSGDGVPVE-IHQEEGVYVPELIFGHLLT--SSNYDD 151
R A K+ + +++ ++V ++G G+P + EG +P + T SN+DD
Sbjct: 62 IRTNFKFANKIDVTIKNNQVTVSDNGRGIPQAMVTTPEGEEIPGPVAAWTRTKAGSNFDD 121
Query: 152 NVKKTTGGRNGYGAKLTNIFSTEFIIETADGKRLKKYKQVFTNNMGKKSEPNISKCKEGD 211
+ TGG NG G+ LTN FS FI ET DGK + +N S +G
Sbjct: 122 T-NRVTGGMNGVGSSLTNFFSVLFIGETCDGKN--EVTVNCSNGAENISWSTKPGKGKG- 177
Query: 212 NWTKVSFKPDLAKFNMTHLEDDVVALMKKRVVDLAGCLGKSVKVELNGHRVPVKSFAEYV 271
T V+F PD + F + L+ + ++ R+ LA + +K NG +V K F +Y
Sbjct: 178 --TSVTFIPDFSHFEVNGLDQQYLDIILDRLQTLA-VVFPDIKFTFNGKKVSGK-FKKYA 233
Query: 272 DMYPKSVTRFHERVNERWEICVTLSEGQFQQVSFVNGIATIKGGTHVDYVANQVANHVMA 331
+ T E N+ I + S F+Q+SFVNG+ T GG HVD V + + ++
Sbjct: 234 KQF-GDDTIVQE--NDNVSIALAPSPDGFRQLSFVNGLHTKNGGHHVDCVMDDICEELIP 290
Query: 332 VVNKKNKNANVKAHNVKNHLW--VFVNALIDNPAFDSQTKETLTLRQSSFGSKCELSEEF 389
++ KK+K KA VK L +FV + NP FDSQTKE LT + +L +
Sbjct: 291 MIKKKHKIEVTKAR-VKECLTIVLFVRNMS-NPRFDSQTKERLTSPFGEIRNHIDLDYKK 348
Query: 390 LKKVTAKSG-----IVETLLSWANFKQSKDLKKNDGTKTEDVRGISKLEDANLAG----- 439
+ K K+ I+E L+ +K K + + K + A +A
Sbjct: 349 IAKQILKTEAIIMPIIEAALA----------RKLAAEKAAETKAAKKAKKAKVAKHIKAN 398
Query: 440 --GRNSEQCTLILTEGDSAKALAMAGLSVVGRDRFGVFPLRGKLLNVREASSNQVLNNSE 497
G+++E TL LTEGDSA + V + G +PLRGK+LN S +L N E
Sbjct: 399 LIGKDAET-TLFLTEGDSAIGYL---IEVRDEELHGGYPLRGKVLNTWGMSYADILKNKE 454
Query: 498 IGNIKKILGLKQGVEYNNVKSLRYGHLMIMTDQVLLAPLSFLLWFILIFAWITTFCFMLA 557
+ +I I GL G + N+ Y ++ IMTD
Sbjct: 455 LFDICAITGLVLGEKAENMN---YKNIAIMTD---------------------------- 483
Query: 558 QDHDG-SHIKGLLINFIHSFWPSLLKIPSFLVEFI-TPIVKATNKNGKVLSFYSMPDYEA 615
D DG I LL+ F S WP L + + F+ TP++ A FYS+ ++E
Sbjct: 484 ADVDGKGSIYPLLLAFF-SRWPELFEQGR--IRFVKTPVIIAQVGKETKW-FYSLDEFEK 539
Query: 616 WKESLGGNASSWSIKYYKGLGTSTSKEGKEYFQNITLHKKDFVWEDDQDGEAIELAFSKK 675
K+SL WSI+Y KGLG+ E + N D V D E E+ F
Sbjct: 540 AKDSLKK----WSIRYIKGLGSLRKSEYRRVINNPVY---DVVVLPDDWKELFEMLFGDD 592
Query: 676 KIEARKKWLLQ 686
+ RK W+ Q
Sbjct: 593 A-DLRKDWMSQ 602
>gnl|CDD|223266 COG0188, GyrA, Type IIA topoisomerase (DNA gyrase/topo II,
topoisomerase IV), A subunit [DNA replication,
recombination, and repair].
Length = 804
Score = 264 bits (676), Expect = 5e-74
Identities = 117/497 (23%), Positives = 205/497 (41%), Gaps = 75/497 (15%)
Query: 703 SDFVNKELILFSMADLQ-RSIPSMVDGLKPGQRKILFCSFKRNFIKEAKVAQFSGYVSE- 760
D + + + ++M+ + R++P + DGLKP QR+IL+ F+ + K + + V +
Sbjct: 14 EDEMKRSYLDYAMSVIVGRALPDVRDGLKPVQRRILYAMFELGLTPDKKYKKSARIVGDV 73
Query: 761 -HSAYHHGEQSLASTILGMAQDFVGSNNINLLQPNGQFGTRNQGGKDAASARYIFTRLSP 819
+ HG+ S+ ++ MAQDF S L+ G FG+ G AA+ RY RLS
Sbjct: 74 MGKYHPHGDSSIYDALVRMAQDF--SLRYPLVDGQGNFGSI--DGDPAAAMRYTEARLSK 129
Query: 820 ITR-FLFPKDDDKLLDYLNEDGQQIEPTWYMPIIPTVLVNGSEGIGTGWSSYIPNYNPRD 878
I L D D + N DG + EP P +LVNGS GI G ++ IP +N +
Sbjct: 130 IAEELLEDIDKDTVDFVPNYDGSEKEPEVLPARFPNLLVNGSSGIAVGMATNIPPHNLGE 189
Query: 879 IVANVRRLLNG------EMME----PMHPWYRGFGGTIEKTASKEAGVTYTVTGIIE--- 925
++ + L++ E+ME P P I ++ +EA T G I
Sbjct: 190 VIDALIALIDNPDATIDELMEIIKGPDFPTGGII---IGRSGIREA--YETGRGSIRVRA 244
Query: 926 --EVNET-----TLRIKELPIRRWTQDYREFLESIIDQNDSFIRGF---RQYSDDTTVDF 975
E+ +T + I E+P + E + ++ + I G R SD +
Sbjct: 245 KAEIEDTKNGREQIVITEIPYQVNKAKLIEKIAELVKEKK--IEGISDIRDESDREGIRI 302
Query: 976 EVFLSEESMMRTKQEGLLKKFKLTTTISTSNMHLFDSKGVIKKYDTPEQILEEFFHIRLE 1035
+ L +++ + L FKLT ++ N+++ K ++IL EF RLE
Sbjct: 303 VIELKRDAV---AEVVLNNLFKLTDLQTSFNVNMLALVNGRPKVLNLKEILSEFLEHRLE 359
Query: 1036 FYEKRKKVQLENLELELLKLENKVRFILGVVNGEIVVNNRKRTDLLLELRQKGFTPFPKN 1095
+R + +L E L LE + + N
Sbjct: 360 VVTRRTEYELNKAEERLHILEGLLIAL-------------------------------LN 388
Query: 1096 SKSIEAVVAGATDETEESEENPEVVNGVQSIDYDYLLSMAIGTLTLEKVQGLLADRDKLN 1155
+ ++ + + E++E G+ + +L + + LT + + + + +L
Sbjct: 389 IDEVIEIIRES-KDKPEAKEELMARFGLSEKQAEAILDLRLRRLTGLEEEKIEKELKELE 447
Query: 1156 EEVDDLRK--ATPESLW 1170
+E+ DL K A+ E L
Sbjct: 448 KEIADLEKILASEERLL 464
>gnl|CDD|173785 cd03365, TOPRIM_TopoIIA, TOPRIM_TopoIIA: topoisomerase-primase
(TOPRIM) nucleotidyl transferase/hydrolase domain of the
type found in proteins of the type IIA family of DNA
topoisomerases similar to Saccharomyces cerevisiae
Topoisomerase II. TopoIIA enzymes cut both strands of
the duplex DNA to remove (relax) both positive and
negative supercoils in DNA. These enzymes covalently
attach to the 5' ends of the cut DNA, separate the free
ends of the cleaved strands, pass another region of the
duplex through this gap, then rejoin the ends. These
proteins also catenate/ decatenate duplex rings. The
TOPRIM domain has two conserved motifs, one of which
centers at a conserved glutamate and the other one at
two conserved aspartates (DxD). This glutamate and two
aspartates, cluster together to form a highly acid
surface patch. The conserved glutamate may act as a
general base in strand joining and as a general acid in
strand cleavage by topisomerases. The DXD motif may
co-ordinate Mg2+, a cofactor required for full catalytic
function.
Length = 120
Score = 236 bits (603), Expect = 2e-72
Identities = 100/148 (67%), Positives = 107/148 (72%), Gaps = 29/148 (19%)
Query: 446 CTLILTEGDSAKALAMAGLSVVGRDRFGVFPLRGKLLNVREASSNQVLNNSEIGNIKKIL 505
CTLILTEGDSAKALA+AGLSVVGRD +GVFPLRGKLLNVREAS Q++ N+EI NIKKIL
Sbjct: 1 CTLILTEGDSAKALAVAGLSVVGRDYYGVFPLRGKLLNVREASHKQIMENAEIQNIKKIL 60
Query: 506 GLKQGVE-YNNVKSLRYGHLMIMTDQVLLAPLSFLLWFILIFAWITTFCFMLAQDHDGSH 564
GL+ G Y + KSLRYG LMIMTD QDHDGSH
Sbjct: 61 GLQHGKSDYESTKSLRYGRLMIMTD----------------------------QDHDGSH 92
Query: 565 IKGLLINFIHSFWPSLLKIPSFLVEFIT 592
IKGLLINFIHSFWPSLLKIP FLVEFIT
Sbjct: 93 IKGLLINFIHSFWPSLLKIPGFLVEFIT 120
>gnl|CDD|173780 cd01030, TOPRIM_TopoIIA_like, TOPRIM_TopoIIA_like:
topoisomerase-primase (TOPRIM) nucleotidyl
transferase/hydrolase domain of the type found in
proteins of the type IIA family of DNA topoisomerases
similar to Saccharomyces cerevisiae Topoisomerase II.
TopoIIA enzymes cut both strands of the duplex DNA to
remove (relax) both positive and negative supercoils in
DNA. These enzymes covalently attach to the 5' ends of
the cut DNA, separate the free ends of the cleaved
strands, pass another region of the duplex through this
gap, then rejoin the ends. These proteins also catenate/
decatenate duplex rings. The TOPRIM domain has two
conserved motifs, one of which centers at a conserved
glutamate and the other one at two conserved aspartates
(DxD). The conserved glutamate may act as a general base
in strand joining and as a general acid in strand
cleavage by topisomerases. The DXD motif may
co-ordinate Mg2+, a cofactor required for full catalytic
function.
Length = 115
Score = 182 bits (465), Expect = 8e-54
Identities = 61/147 (41%), Positives = 74/147 (50%), Gaps = 32/147 (21%)
Query: 446 CTLILTEGDSAKALAMAGLSVVGRDRFGVFPLRGKLLNVREASSNQVLNNSEIGNIKKIL 505
C LIL EGDSA A G V VFPLRGK+LNV +AS ++L N EI NI K L
Sbjct: 1 CELILVEGDSAGGSAKQGRDRV---FQAVFPLRGKILNVEKASLKKILKNEEIQNIIKAL 57
Query: 506 GLKQGVEYNNVKSLRYGHLMIMTDQVLLAPLSFLLWFILIFAWITTFCFMLAQDHDGSHI 565
GL G + ++ LRYG ++IMTD D DGSHI
Sbjct: 58 GLGIGKDDFDLDKLRYGKIIIMTDA----------------------------DVDGSHI 89
Query: 566 KGLLINFIHSFWPSLLKIPSFLVEFIT 592
+ LL+ F + FWPSLL+ FL T
Sbjct: 90 RTLLLTFFYRFWPSLLEN-GFLYIAQT 115
>gnl|CDD|235501 PRK05559, PRK05559, DNA topoisomerase IV subunit B; Reviewed.
Length = 631
Score = 195 bits (498), Expect = 3e-52
Identities = 166/660 (25%), Positives = 259/660 (39%), Gaps = 166/660 (25%)
Query: 37 LEHILLRPDTYIGSIEKHTQALWIYEEESKTMIHRTISYVPGLYKIFDEILVNAAD---- 92
LE + RP YIGS + GL+ + E++ N+ D
Sbjct: 19 LEPVRKRPGMYIGSTDTR-----------------------GLHHLVQEVIDNSVDEALA 55
Query: 93 ---NKQRDPKMDAVKVVIDQEHDLISVHNSGDGVPVEIHQEEGVYVPELIFGHLLTSSNY 149
+ ++V + + +SV ++G G+PV IH EEG E+I L +
Sbjct: 56 GHGKR--------IEVTLHADG-SVSVRDNGRGIPVGIHPEEGKSGVEVILTKLHAGGKF 106
Query: 150 DDNVKKTTGGRNGYGAKLTNIFSTEFIIETA-DGKRLKKYKQVFTNNMGKKSEP--NISK 206
+ K +GG +G G + N S+ +E DGK Y+Q F G P +
Sbjct: 107 SNKAYKFSGGLHGVGVSVVNALSSRLEVEVKRDGKV---YRQRFEG--GDPVGPLEVVGT 161
Query: 207 CKEGDNWTKVSFKPD-----LAKFNMTHLEDDVVALMKKRVVDLAGCLGKSVKVELNGHR 261
+ T+V F PD KF+ L++ ++ + L G + + LN R
Sbjct: 162 AGKRKTGTRVRFWPDPKIFDSPKFSPERLKE----RLRSKAFLLPG-----LTITLNDER 212
Query: 262 VPVKSF------AEYVD--------MYPKSVTRF-HERVNERWEICVT-LSEGQFQQVSF 305
++F +Y+ + + V F E E E + EG S+
Sbjct: 213 -ERQTFHYENGLKDYLAELNEGKETLPEEFVGSFEGEAEGEAVEWALQWTDEGGENIESY 271
Query: 306 VNGIATIKGGTHV------------DYVANQVANHVMAVVNKKNKNANVKAHNVKNHLWV 353
VN I T +GGTH ++ A N K ++ +V+ L
Sbjct: 272 VNLIPTPQGGTHENGFREGLLKAVREF-----AEK----RNLLPKGKKLEGEDVREGLAA 322
Query: 354 FVNALIDNPAFDSQTKETLTLRQ-SSFGSKCELSEEFLKKVTAKSGIVETLLSWANF--- 409
++ I P F+ QTKE L R+ F S + + F + + E L A
Sbjct: 323 VLSVKIPEPQFEGQTKEKLGSREARRFVSG-VVKDAFDLWLNQNPELAEKLAEKAIKAAQ 381
Query: 410 ---KQSKDLKKNDGTKTEDVRGISKLEDANLAGGRNSEQCTLILTEGDSAKALAMAGLSV 466
+ +K +K+ T + G KL D ++ E+ L L EGDSA G +
Sbjct: 382 ARLRAAKKVKRKKKTSGPALPG--KLADCT---SQDPERTELFLVEGDSA-----GGSAK 431
Query: 467 VGRDR-F-GVFPLRGKLLNVREASSNQVLNNSEIGNIKKILGLKQGVEYNNVKSLRYGHL 524
RDR F + PLRGK+LN EAS + VL N EI +I +G+ G + +++ LRYG +
Sbjct: 432 QARDREFQAILPLRGKILNTWEASLDDVLANEEIHDIIVAIGIGPGDSF-DLEDLRYGKI 490
Query: 525 MIMTDQVLLAPLSFLLWFILIFAWITTFCFMLAQDHDGSHIKGLLINFIHSFWPSLLKIP 584
+IMTD A D DG+HI LL+ F + +P
Sbjct: 491 IIMTD----A------------------------DVDGAHIATLLLTFFYRHFPP----- 517
Query: 585 SFLVE----FI--TPIVKATNKNGKVLSFYSMPDYE--AWKESLGGNASSWSIKYYKGLG 636
LVE +I P+ + K Y++ + E + LG I+ +KGLG
Sbjct: 518 --LVEAGHVYIALPPLYRVDKGKKK---IYALDEEEKEELLKKLGKKGGKPEIQRFKGLG 572
>gnl|CDD|233254 TIGR01059, gyrB, DNA gyrase, B subunit. This model describes the
common type II DNA topoisomerase (DNA gyrase). Two
apparently independently arising families, one in the
Proteobacteria and one in Gram-positive lineages, are
both designated toposisomerase IV. Proteins scoring
above the noise cutoff for this model and below the
trusted cutoff for topoisomerase IV models probably
should be designated GyrB [DNA metabolism, DNA
replication, recombination, and repair].
Length = 654
Score = 177 bits (450), Expect = 5e-46
Identities = 170/666 (25%), Positives = 274/666 (41%), Gaps = 150/666 (22%)
Query: 37 LEHILLRPDTYIGSIEKHTQALWIYEEESKTMIHRTISYVPGLYKIFDEILVNAADNKQR 96
LE + RP YIGS GL+ + E++ N+ D
Sbjct: 12 LEAVRKRPGMYIGSTG-----------------------ETGLHHLVYEVVDNSIDEA-- 46
Query: 97 DPKM----DAVKVVIDQEHDLISVHNSGDGVPVEIHQEEGVYVPELIFGHLLTSSNYDDN 152
M D + V I+ + ++V ++G G+PV+IH EEG+ E++ L +D +
Sbjct: 47 ---MAGYCDTINVTINDDGS-VTVEDNGRGIPVDIHPEEGISAVEVVLTVLHAGGKFDKD 102
Query: 153 VKKTTGGRNGYGAKLTNIFSTEFIIETA-DGKRLKKYKQVFTNNMGKKSEPNISKCKEGD 211
K +GG +G G + N S + DG K Y+Q F + + + K+
Sbjct: 103 SYKVSGGLHGVGVSVVNALSEWLEVTVFRDG---KIYRQEFERGIPLGPLEVVGETKK-- 157
Query: 212 NWTKVSFKPDLAKFNMTHLEDDVVALMKKRVVDLAGCLGKSVKVELNGHRVP-------- 263
T V F PD F T + D++A KR+ +LA L VK+ L R
Sbjct: 158 TGTTVRFWPDPEIFETTEFDFDILA---KRLRELA-FLNSGVKISLEDERDGKGKSVTFH 213
Query: 264 ----VKSFAEYVDMYPKSVTRFHERV------NERWEICVTL--SEGQFQQV-SFVNGIA 310
+KSF +Y++ ++ HE + E E+ V L ++G + + SFVN I
Sbjct: 214 YEGGIKSFVKYLN---RNKEPLHEEIIYIKGEKEGIEVEVALQWNDGYSENILSFVNNIN 270
Query: 311 TIKGGTHVDYVAN---QVANHVMAVVNKKNKNANVKA--HNVKNHLWVFVNALIDNPAFD 365
T +GGTH++ + +V N A NK K + +++ L ++ + +P F+
Sbjct: 271 TREGGTHLEGFRSALTRVINS-YAKNNKLLKESKPNLTGEDIREGLTAVISVKVPDPQFE 329
Query: 366 SQTKETL------TLRQSSFGSKCELSEEFLKKVTAKSGIVETLLSWANFKQSKDLKKND 419
QTK L ++ +S K L+E F + IVE + A +++ +
Sbjct: 330 GQTKTKLGNSEVRSIVESLVYEK--LTEFFEENPQEAKAIVEKAILAAQAREAARKAR-- 385
Query: 420 GTKTEDVRGISKLEDANLAG------GRNSEQCTLILTEGDSAKALAMAGLSVVGRDRF- 472
E R S L+ L G ++ + L + EGDSA G + GRDR
Sbjct: 386 ----ELTRRKSALDSGGLPGKLADCSSKDPSKSELYIVEGDSA-----GGSAKQGRDRKF 436
Query: 473 -GVFPLRGKLLNVREASSNQVLNNSEIGNIKKILGLKQGVEYNNVKSLRYGHLMIMTDQV 531
+ PLRGK+LNV +A +++L+N EIG I LG G ++ +++ LRY ++IMTD
Sbjct: 437 QAILPLRGKILNVEKARLDKILSNQEIGAIITALGCGIGKDF-DLEKLRYHKIIIMTD-- 493
Query: 532 LLAPLSFLLWFILIFAWITTFCFMLAQDHDGSHIKGLLINFIHSFWPSLL---------- 581
D DGSHI+ LL+ F + + L+
Sbjct: 494 --------------------------ADVDGSHIRTLLLTFFYRYMRPLIENGYVYIAQP 527
Query: 582 ---------KIPSFLVEFITPIVKATNKNGKVLSFYSMPDYEAWKESL--GGNASSWSIK 630
K + +V ++ + L YS + E K + I+
Sbjct: 528 PLYKVKKGKKERYIKDDKEKELVGEALEDLRALYIYSDKEKEEAKTQIPVHEGRKGIEIQ 587
Query: 631 YYKGLG 636
YKGLG
Sbjct: 588 RYKGLG 593
>gnl|CDD|130130 TIGR01058, parE_Gpos, DNA topoisomerase IV, B subunit,
Gram-positive. Operationally, topoisomerase IV is a
type II topoisomerase required for the decatenation step
of chromosome segregation. Not every bacterium has both
a topo II and a topo IV. The topo IV families of the
Gram-positive bacteria and the Gram-negative bacteria
appear not to represent a single clade among the type II
topoisomerases, and are represented by separate models
for this reason [DNA metabolism, DNA replication,
recombination, and repair].
Length = 637
Score = 150 bits (379), Expect = 3e-37
Identities = 179/694 (25%), Positives = 285/694 (41%), Gaps = 132/694 (19%)
Query: 37 LEHILLRPDTYIGSIEKHTQALWIYEEESKTMIHRTISYVPGLYKIFDEILVNAADNKQR 96
L+ + RP YIGS + GL+ + EI+ N+ D +
Sbjct: 16 LDAVRKRPGMYIGSTDSK-----------------------GLHHLVWEIVDNSVD-EVL 51
Query: 97 DPKMDAVKVVIDQEHDLISVHNSGDGVPVEIHQEEGVYVPELIFGHLLTSSNYDDNVKKT 156
D + V + +++ I+V + G G+P IHQ+ + E +F L +D KT
Sbjct: 52 AGYADNITVTLHKDNS-ITVQDDGRGIPTGIHQDGNISTVETVFTVLHAGGKFDQGGYKT 110
Query: 157 TGGRNGYGAKLTNIFSTEFIIE-TADGKRLKKYKQVFTNNMGKKSEPNISKCKEGD---N 212
GG +G GA + N S+ + DG + Y+Q F N GK S K G
Sbjct: 111 AGGLHGVGASVVNALSSWLEVTVKRDG---QIYQQRFENG-GK---IVQSLKKIGTTKKT 163
Query: 213 WTKVSFKPDLAKFNMTHLEDDVVALMKKRVVDLAGCLGKSVKVELNGHRVPVKSFAEYVD 272
T V F PD F T +++ K+R+ + A L K +K+ R V
Sbjct: 164 GTLVHFHPDPTIFKTTQFNSNII---KERLKESA-FLLKKLKLTFTDKRTNKT----TVF 215
Query: 273 MYPKSVTRFHERVNERWEIC--VTLSEG-----------QFQQ------VSFVNGIATIK 313
Y + F + +NE E VT EG QF +SF N + T +
Sbjct: 216 FYENGLVDFVDYINETKETLSQVTYFEGEKNGIEVEVAFQFNDGDSENILSFANSVKTKE 275
Query: 314 GGTHVDYVANQVANHVMAVVNK--------KNKNANVKAHNVKNHLWVFVNALI--DNPA 363
GGTH N + V+N K K+ N++ +++ L ++ I +
Sbjct: 276 GGTH----ENGFKLAITDVINSYARKYNLLKEKDKNLEGSDIREGLSAIISVRIPEELIQ 331
Query: 364 FDSQTKETLTLRQSSFGSKCELSEEFL-----KKVTAKSGIVETLLSW---ANFKQSKDL 415
F+ QTK L ++ + + AK I + + + K++++
Sbjct: 332 FEGQTKSKLFSPEARNVVDEIVQDHLFFFLEENNNDAKLLIDKAIKARDAKEAAKKAREE 391
Query: 416 KKNDGTKTEDVRGI--SKLEDANLAGGRNSEQCTLILTEGDSAKALAMAGLSVVGRDRF- 472
KK+ G K + +GI KL A +N + L L EGDSA G + GRDR
Sbjct: 392 KKS-GKKPKKEKGILSGKLTP---AQSKNPAKNELFLVEGDSA-----GGSAKQGRDRKF 442
Query: 473 -GVFPLRGKLLNVREASSNQVLNNSEIGNIKKILGLKQGVEYNNVKSLRYGHLMIMTDQV 531
+ PLRGK+LNV +A +L N EI I +G G ++ ++K L+Y ++IMTD
Sbjct: 443 QAILPLRGKVLNVEKAKLADILKNEEINTIIFCIGTGIGADF-SIKDLKYDKIIIMTD-- 499
Query: 532 LLAPLSFLLWFILIFAWITTFCFMLAQDHDGSHIKGLLINFIHSFWPSLLKIPSFLVEFI 591
D DG+HI+ LL+ F + + L+++ + +
Sbjct: 500 --------------------------ADTDGAHIQVLLLTFFYRYMRPLIELGHVYIA-L 532
Query: 592 TPIVKATNKNGKVLSFYSMPDYEAWKESLGGNASSWSIKYYKGLGTSTSKEGKEYFQNIT 651
P+ K + K+GK + Y+ D E ES+ +++++ YKGLG + + E N
Sbjct: 533 PPLYKLSKKDGKKV-KYAWSDLEL--ESVKKKLKNYTLQRYKGLGEMNADQLWETTMNPE 589
Query: 652 LHKKDFVWEDD-QDGEAIELAFSKKKIEARKKWL 684
V DD E K+E RKKW+
Sbjct: 590 TRTLVRVKIDDLARAERQINTLMGDKVEPRKKWI 623
>gnl|CDD|215785 pfam00204, DNA_gyraseB, DNA gyrase B. This family represents the
second domain of DNA gyrase B which has a ribosomal S5
domain 2-like fold. This family is structurally related
to PF01119.
Length = 173
Score = 135 bits (342), Expect = 2e-36
Identities = 47/169 (27%), Positives = 65/169 (38%), Gaps = 19/169 (11%)
Query: 266 SFAEYVDMYPKSVTRFHERV---------NERWEICVTL---SEGQFQQVSFVNGIATIK 313
+YV K T H V ++R E+ V L VSFVN I T
Sbjct: 1 GLKDYVKELNKDKTPLHPEVIYFEGEEAFDDRIEVEVALQWNDSYSENIVSFVNNIPTPD 60
Query: 314 GGTHVDYVANQVANHVMAVVNKKN---KNANVKAHNVKNHLWVFVNALIDNPAFDSQTKE 370
GGTHVD + + KK K + +++ L V+ I NP F+ QTKE
Sbjct: 61 GGTHVDGFRAALTRALNEYAKKKGLLKKKDKITGDDIREGLTAVVSVKIPNPQFEGQTKE 120
Query: 371 TLTLRQSSFGSKCE--LSEEFLKKVTAKSGIVETLLSWANFKQSKDLKK 417
L + S E +SE+F K + I + +L A L
Sbjct: 121 KLGNSEVR--SAVESVVSEKFAKFLEKNPEIAKKILEKALAAAKARLAA 167
>gnl|CDD|130127 TIGR01055, parE_Gneg, DNA topoisomerase IV, B subunit,
proteobacterial. Operationally, topoisomerase IV is a
type II topoisomerase required for the decatenation of
chromosome segregation. Not every bacterium has both a
topo II and a topo IV. The topo IV families of the
Gram-positive bacteria and the Gram-negative bacteria
appear not to represent a single clade among the type II
topoisomerases, and are represented by separate models
for this reason. This protein is active as an
alpha(2)beta(2) heterotetramer [DNA metabolism, DNA
replication, recombination, and repair].
Length = 625
Score = 141 bits (357), Expect = 2e-34
Identities = 141/617 (22%), Positives = 242/617 (39%), Gaps = 87/617 (14%)
Query: 103 VKVVIDQEHDLISVHNSGDGVPVEIHQEEGVYVPELIFGHLLTSSNYDDNVKKTTGGRNG 162
+ V++ Q+ I V ++G G+PV+IH +EGV E+I L + + +GG +G
Sbjct: 54 IMVILHQDQS-IEVFDNGRGMPVDIHPKEGVSAVEVILTTLHAGGKFSNKNYHFSGGLHG 112
Query: 163 YGAKLTNIFSTEFIIETADGKRLKKYKQVFTNNMGKKSEPNISKCKEGDNWTKVSFKPDL 222
G + N S I+ ++ K Y F N + C + T V F PD
Sbjct: 113 VGISVVNALSKRVKIKVY--RQGKLYSIAFENGAKVTDLISAGTCGKRLTGTSVHFTPDP 170
Query: 223 AKFNMTHLE-DDVVALMKKRVVDLAGCLGKSVKVE---------------LNGHRVPVKS 266
F+ H + +++ + V C G ++ E L + +
Sbjct: 171 EIFDSLHFSVSRLYHILRAKAVL---CRGVEIEFEDEVNNTKALWNYPDGLKDYLSEAVN 227
Query: 267 FAEYVDMYPKSVTRFHERVNERWEICVTLSEGQFQQVSFVNGIATIKGGTHVDYVANQVA 326
+ P S + W + G+ S+VN I T +GGTHV+ + +
Sbjct: 228 GDNTLPPKPFSGNFEGDDEAVEWALLWLPEGGELFMESYVNLIPTPQGGTHVNGLRQGLL 287
Query: 327 NHVMA---VVNKKNKNANVKAHNVKNHLWVFVNALIDNPAFDSQTKETLTLRQSSFGSKC 383
+ + + N + + A ++ + ++ + +P F QTKE L+ RQ +
Sbjct: 288 DALREFCEMRNNLPRGVKLTAEDIWDRCSYVLSIKMQDPQFAGQTKERLSSRQVAKFVSG 347
Query: 384 ELSEEFL----KKVTAKSGIVETLLSWANFKQSKDLKKNDGTKTEDVRGISKLEDANLAG 439
+ + F + V + E +S A ++ K T KL D
Sbjct: 348 VIKDAFDLWLNQNVQLAEHLAEHAISSAQRRKRAAKKVVRKKLTSGPALPGKLADC---T 404
Query: 440 GRNSEQCTLILTEGDSAKALAMAGLSVVGRDR--FGVFPLRGKLLNVREASSNQVLNNSE 497
++ E L L EGDSA G + RDR + PL GK+LN E S ++VLN+ E
Sbjct: 405 RQDLEGTELFLVEGDSA-----GGSAKQARDREYQAILPLWGKILNTWEVSLDKVLNSQE 459
Query: 498 IGNIKKILGLKQGVEYNNVKSLRYGHLMIMTDQVLLAPLSFLLWFILIFAWITTFCFMLA 557
I +I+ LG+ + N++ LRYG + I+ D
Sbjct: 460 IHDIEVALGI--DPDSNDLSQLRYGKICILAD---------------------------- 489
Query: 558 QDHDGSHIKGLLINFIHSFWPSLLKIPSFLVEFITPIVKATNKNGKVLSFYSMPDYEAWK 617
D DG HI LL +P L++ V P + + + +V +Y++ + E K
Sbjct: 490 ADSDGLHIATLLCALFFLHFPKLVEEGHVYVAK--PPLYRIDLSKEV--YYALDEEEKEK 545
Query: 618 --ESLGGNASSWSIKYYKGLGTSTSKEGKEYFQNITLHKK-----DFVWEDDQDG---EA 667
L +++ +KGLG + +E T+ +D QD +
Sbjct: 546 LLYKLKKKKGKPNVQRFKGLGEMNPAQLRE----TTMDPNTRRLVQLTLDDVQDQRVDKI 601
Query: 668 IELAFSKKKIEARKKWL 684
+++ +KK+ E R WL
Sbjct: 602 MDMLLAKKRSEDRFNWL 618
>gnl|CDD|235542 PRK05644, gyrB, DNA gyrase subunit B; Validated.
Length = 638
Score = 117 bits (296), Expect = 8e-27
Identities = 161/591 (27%), Positives = 247/591 (41%), Gaps = 127/591 (21%)
Query: 101 DAVKVVIDQEHDLISVHNSGDGVPVEIHQEEGVYVPELIFGHLLTSSNYDDNVKKTTGGR 160
D ++V I E I+V ++G G+PV+IH + G E++ L + K +GG
Sbjct: 59 DHIEVTI-NEDGSITVTDNGRGIPVDIHPKTGKPAVEVVLTVLHAGGKFGGGGYKVSGGL 117
Query: 161 NGYGAKLTNIFSTEFIIETA-DGKRLKKYKQVFTNNMGKKSEPNISKCKEGDNWTKVSFK 219
+G G + N ST +E DGK Y Q + G P + + T V+FK
Sbjct: 118 HGVGVSVVNALSTWLEVEVKRDGKI---YYQEYER--GVPVTPLEVIGETDETGTTVTFK 172
Query: 220 PDLAKFNMTHLEDDVVALMKKRVVDLAGCLGKSVKVELNGHR---VPVKSF------AEY 270
PD F T + D +A R+ +LA L K +K+ L R ++F EY
Sbjct: 173 PDPEIFETTEFDYDTLA---TRLRELA-FLNKGLKITLTDEREGEEKEETFHYEGGIKEY 228
Query: 271 VDMYPKSVTRFHERV----NERWEICVTLS----EGQFQQV-SFVNGIATIKGGTHVD-- 319
V+ ++ HE E+ I V ++ +G + + SF N I T +GGTH +
Sbjct: 229 VEYLNRNKEPLHEEPIYFEGEKDGIEVEVAMQYNDGYSENILSFANNINTHEGGTHEEGF 288
Query: 320 -----YVANQVANHVMAVVNK--KNKNANVKAHNVKNHLWVFVNALIDNPAFDSQTKETL 372
V N A NK K K+ N+ +V+ L ++ P F+ QTK L
Sbjct: 289 KTALTRVINDYARK-----NKLLKEKDDNLTGEDVREGLTAVISVKHPEPQFEGQTKTKL 343
Query: 373 ------TLRQSSFGSKCELSEEFLKK--VTAKSGIVETLLSWANF----KQSKDLKKNDG 420
+ S E EFL++ AK IVE + A +++++L
Sbjct: 344 GNSEVRGIVDSVVS---EALSEFLEENPNVAKK-IVEKAILAARAREAARKAREL----- 394
Query: 421 TKTEDVRGISKLEDANLAG------GRNSEQCTLILTEGDSAKALAMAGLSVVGRDRF-- 472
R S LE ++L G ++ E+ L + EGDSA G + GRDR
Sbjct: 395 -----TRRKSALESSSLPGKLADCSSKDPEESELYIVEGDSA-----GGSAKQGRDRRFQ 444
Query: 473 GVFPLRGKLLNVREASSNQVLNNSEIGNIKKILGLKQGVEYNNVKSLRYGHLMIMTDQVL 532
+ PLRGK+LNV +A +++L N EI + LG G ++ ++ LRY ++IMTD
Sbjct: 445 AILPLRGKILNVEKARLDKILKNEEIRALITALGTGIGDDF-DISKLRYHKIIIMTD--- 500
Query: 533 LAPLSFLLWFILIFAWITTFCFMLAQDHDGSHIKGLLINFIHSFWPSLLKIPSFLVE--- 589
D DG+HI+ LL+ F + + L+E
Sbjct: 501 -------------------------ADVDGAHIRTLLLTFFYRYMRP-------LIEAGY 528
Query: 590 -FIT--PIVKATNKNGKVLSFYSMPDYEAWKESLGGNA-SSWSIKYYKGLG 636
+I P+ K K G YS + + L + I+ YKGLG
Sbjct: 529 VYIAQPPLYKI--KKGGKEYAYSDEELDEILAELKLKGNPKYGIQRYKGLG 577
>gnl|CDD|236598 PRK09631, PRK09631, DNA topoisomerase IV subunit A; Provisional.
Length = 635
Score = 100 bits (250), Expect = 2e-21
Identities = 81/273 (29%), Positives = 128/273 (46%), Gaps = 41/273 (15%)
Query: 696 KEKYIKYSDFVNKELILFSMADLQRSIPSMVDGLKPGQRKILFCSFKRNFIKEAKVAQFS 755
K+ +++Y+ +V K+ R+IP ++DGLKP QR+IL F+ + K KVA
Sbjct: 9 KDNFLQYASYVIKD----------RAIPDVIDGLKPVQRRILHSLFEMHDGKFHKVANVV 58
Query: 756 GYVSEHSAYH-HGEQSLASTILGMAQDFVGSNNINLLQPNGQFGTRNQGGKDAASA-RYI 813
G YH HG+ S+ ++ +A N + G FG G D ASA RYI
Sbjct: 59 G---NTMKYHPHGDASIYEALVNLA------NKDLFIDKQGNFGNLFTG--DPASAARYI 107
Query: 814 FTRLSPITR-FLFPKDDDKLLDYLNE-DGQQIEPTWYMPIIPTVLVNGSEGIGTGWSSYI 871
RL+P+ + L+ K+ + +Y DG+ EP IP +L+ G+EGI G ++ I
Sbjct: 108 ECRLTPLAKEVLYNKE---ITEYEPSYDGRNNEPLCLPAKIPVILIQGAEGIAVGMATKI 164
Query: 872 PNYNPRDIVANVRRLLNGEMMEPMHPWYRGF--GGTIEKTASKEAGVTYTVTGIIEEVNE 929
+N +I+ V+ L GE Y F GG ++ + + V IE +E
Sbjct: 165 LPHNFNEILQAVKSELLGESFA----LYPDFPTGGIVDVSEYADGNGKVLVRAKIETKDE 220
Query: 930 TTLRIKELPIRRWTQDYREFLESIIDQNDSFIR 962
T+ I+E+P + ES+I + R
Sbjct: 221 KTIVIREIP-------FGTTTESLIASIEKAAR 246
>gnl|CDD|237860 PRK14939, gyrB, DNA gyrase subunit B; Provisional.
Length = 756
Score = 99.8 bits (250), Expect = 4e-21
Identities = 141/539 (26%), Positives = 214/539 (39%), Gaps = 150/539 (27%)
Query: 101 DAVKVVIDQEHDLISVHNSGDGVPVEIHQEEGVYVPELIFGHLLTSSNYDDNVKKTTGGR 160
D + V I + +SV ++G G+P +IH EEGV E+I L +D N K +GG
Sbjct: 59 DDITVTIHADGS-VSVSDNGRGIPTDIHPEEGVSAAEVIMTVLHAGGKFDQNSYKVSGGL 117
Query: 161 NGYGAKLTNIFSTEFIIETA-DGKRLKKYKQVFTNNMGKKSEP--NISKC-KEGDNWTKV 216
+G G + N S + DG K ++Q F + G P + + K G T+V
Sbjct: 118 HGVGVSVVNALSEWLELTIRRDG---KIHEQEFEH--GVPVAPLKVVGETDKTG---TEV 169
Query: 217 SFKPDLAKFNMTHLEDDVVALMKKRVVDLAGCLGKSVKVELNGHRVP----------VKS 266
F P F T + D++A KR+ +LA L V++ L R +K+
Sbjct: 170 RFWPSPEIFENTEFDYDILA---KRLRELA-FLNSGVRIRLKDERDGKEEEFHYEGGIKA 225
Query: 267 FAEYVDMYPKSVTRFHERV----NERWEICVTLS----EGQFQQV-SFVNGIATIKGGTH 317
F EY++ ++ T H + E+ I V ++ + + V F N I GGTH
Sbjct: 226 FVEYLN---RNKTPLHPNIFYFSGEKDGIGVEVALQWNDSYQENVLCFTNNIPQRDGGTH 282
Query: 318 V------------DYVANQVANHVMAVVNKKNKNANVKAH------------NVKNHLWV 353
+ +Y+ K A V +VK
Sbjct: 283 LAGFRAALTRTINNYIEK----------EGLAKKAKVSLTGDDAREGLTAVLSVK----- 327
Query: 354 FVNALIDNPAFDSQTKETL------TLRQSSFGSKCELSEEFL------KKVTAKSGIVE 401
+ +P F SQTK+ L +S K LSE K + K I++
Sbjct: 328 -----VPDPKFSSQTKDKLVSSEVRPAVESLVNEK--LSEFLEENPNEAKIIVGK--IID 378
Query: 402 TLLSWANFKQSKDLKKNDGTKTEDVRGISKLEDANLAGG------RNSEQCTLILTEGDS 455
+ +++++L R L+ A L G ++ L L EGDS
Sbjct: 379 AARAREAARKAREL----------TRRKGALDIAGLPGKLADCQEKDPALSELYLVEGDS 428
Query: 456 AKALAMAGLSVVGRDR-F-GVFPLRGKLLNVREASSNQVLNNSEIGNIKKILGLKQGVEY 513
A A GRDR F + PL+GK+LNV +A +++L++ EIG + LG G +
Sbjct: 429 AGGSAKQ-----GRDRKFQAILPLKGKILNVEKARFDKMLSSQEIGTLITALGCGIGRDE 483
Query: 514 NNVKSLRYGHLMIMTDQVLLAPLSFLLWFILIFAWITTFCFMLAQDHDGSHIKGLLINF 572
N LRY ++IMTD A D DGSHI+ LL+ F
Sbjct: 484 FNPDKLRYHKIIIMTD----A------------------------DVDGSHIRTLLLTF 514
>gnl|CDD|233256 TIGR01063, gyrA, DNA gyrase, A subunit. This model describes the
common type II DNA topoisomerase (DNA gyrase). Two
apparently independently arising families, one in the
Proteobacteria and one in Gram-positive lineages, are
both designated toposisomerase IV [DNA metabolism, DNA
replication, recombination, and repair].
Length = 800
Score = 91.2 bits (227), Expect = 2e-18
Identities = 60/171 (35%), Positives = 90/171 (52%), Gaps = 19/171 (11%)
Query: 720 RSIPSMVDGLKPGQRKILFC------SFKRNFIKEAKVAQFSGYVSEHSAYH-HGEQSLA 772
R++P + DGLKP R+IL+ + + + K A++ G V YH HG+ ++
Sbjct: 25 RALPDVRDGLKPVHRRILYAMYELGLTPDKPYKKSARIV---GDVM--GKYHPHGDSAIY 79
Query: 773 STILGMAQDFVGSNNINLLQPNGQFGTRNQGGKDAASARYIFTRLSPITRFLFPKDDDK- 831
T++ MAQDF S L+ G FG+ G A+ RY RL+ I L +D DK
Sbjct: 80 DTLVRMAQDF--SLRYPLVDGQGNFGS--IDGDPPAAMRYTEARLTKIAEELL-RDIDKE 134
Query: 832 LLDYL-NEDGQQIEPTWYMPIIPTVLVNGSEGIGTGWSSYIPNYNPRDIVA 881
+D++ N DG + EPT P +LVNGS GI G ++ IP +N +I+
Sbjct: 135 TVDFVPNYDGSEQEPTVLPSRFPNLLVNGSSGIAVGMATNIPPHNLGEIID 185
>gnl|CDD|173786 cd03366, TOPRIM_TopoIIA_GyrB, TOPRIM_TopoIIA_GyrB:
topoisomerase-primase (TOPRIM) nucleotidyl
transferase/hydrolase domain of the type found in
proteins of the type IIA family of DNA topoisomerases
similar to the Escherichia coli GyrB subunit. TopoIIA
enzymes cut both strands of the duplex DNA to remove
(relax) both positive and negative supercoils in DNA.
These enzymes covalently attach to the 5' ends of the
cut DNA, separate the free ends of the cleaved strands,
pass another region of the duplex through this gap, then
rejoin the ends. These proteins also catenate/
decatenate duplex rings. DNA gyrase is more effective
at relaxing supercoils than decatentating DNA. DNA
gyrase in addition inserts negative supercoils in the
presence of ATP. The TOPRIM domain has two conserved
motifs, one of which centers at a conserved glutamate
and the other one at two conserved aspartates (DxD). The
conserved glutamate may act as a general base in strand
joining and as a general acid in strand cleavage by
topisomerases. The DXD motif may co-ordinate Mg2+, a
cofactor required for full catalytic function.
Length = 114
Score = 77.3 bits (191), Expect = 7e-17
Identities = 43/138 (31%), Positives = 63/138 (45%), Gaps = 36/138 (26%)
Query: 446 CTLILTEGDSAKALAMAGLSVVGRDRF--GVFPLRGKLLNVREASSNQVLNNSEIGNIKK 503
L + EGDSA A G RDR + PLRGK+LNV +A +++L N EI +
Sbjct: 1 SELYIVEGDSAGGSAKQG-----RDRRFQAILPLRGKILNVEKARLDKILKNEEIRALIT 55
Query: 504 ILGLKQGVEYNNVKSLRYGHLMIMTDQVLLAPLSFLLWFILIFAWITTFCFMLAQDHDGS 563
LG G ++ +++ LRY ++IMTD D DG+
Sbjct: 56 ALGTGIGEDF-DLEKLRYHKIIIMTD----------------------------ADVDGA 86
Query: 564 HIKGLLINFIHSFWPSLL 581
HI+ LL+ F + L+
Sbjct: 87 HIRTLLLTFFFRYMRPLI 104
>gnl|CDD|233255 TIGR01061, parC_Gpos, DNA topoisomerase IV, A subunit,
Gram-positive. Operationally, topoisomerase IV is a
type II topoisomerase required for the decatenation of
chromosome segregation. Not every bacterium has both a
topo II and a topo IV. The topo IV families of the
Gram-positive bacteria and the Gram-negative bacteria
appear not to represent a single clade among the type II
topoisomerases, and are represented by separate models
for this reason [DNA metabolism, DNA replication,
recombination, and repair].
Length = 738
Score = 84.5 bits (209), Expect = 2e-16
Identities = 59/193 (30%), Positives = 103/193 (53%), Gaps = 29/193 (15%)
Query: 697 EKYIKYSDFVNKELILFSMADLQRSIPSMVDGLKPGQRKILFCSFK------RNFIKEAK 750
E + KY+ ++ ++ R++P + DGLKP QR+IL+ F+ + + K A+
Sbjct: 12 ESFGKYAKYIIQD----------RALPDIRDGLKPVQRRILYAMFQDGNTFDKPYKKSAR 61
Query: 751 -VAQFSGYVSEHSAYH-HGEQSLASTILGMAQDFVGSNNINLLQPNGQFGTRNQGGKDAA 808
V + G YH HG+ S+ ++ M+QD+ NN L++ +G G+ + G +AA
Sbjct: 62 TVGEIMG------KYHPHGDSSIYDAMVRMSQDW--KNNWTLVEMHGNNGSID--GDNAA 111
Query: 809 SARYIFTRLSPITRFLFPKDDDKLLDYL-NEDGQQIEPTWYMPIIPTVLVNGSEGIGTGW 867
+ RY RLS I L D K + ++ N D + EPT + P +L+NG+ GI G+
Sbjct: 112 AMRYTEARLSLIASELLKDIDKKTVSFIPNFDDSEKEPTVLPALFPNLLINGATGIAAGY 171
Query: 868 SSYIPNYNPRDIV 880
++ IP +N +++
Sbjct: 172 ATNIPPHNLNEVI 184
>gnl|CDD|170022 PRK09630, PRK09630, DNA topoisomerase IV subunit A; Provisional.
Length = 479
Score = 82.6 bits (204), Expect = 4e-16
Identities = 68/222 (30%), Positives = 115/222 (51%), Gaps = 16/222 (7%)
Query: 718 LQRSIPSMVDGLKPGQRKILFCSFKRNFIKEAKVAQFSGYVSEHSAYH-HGEQSLASTIL 776
L+R+IP ++DGLKP QR++L+ F+ + K KVA +G A H HG+ + ++
Sbjct: 21 LERAIPHILDGLKPVQRRLLWTLFRMDDGKMHKVANIAGRT---MALHPHGDAPIVEALV 77
Query: 777 GMAQDFVGSNNINLLQPNGQFGTRNQGGKDAASARYIFTRLSPITR-FLFPKDDDKLLDY 835
+A N L+ G FG G AA ARYI RLSP+ + LF D D
Sbjct: 78 VLA------NKGYLIDTQGNFGNPLTGDPHAA-ARYIEARLSPLAKEVLFNTDLMTFHD- 129
Query: 836 LNEDGQQIEPTWYMPIIPTVLVNGSEGIGTGWSSYIPNYNPRDIVANVRRLLNGEMMEPM 895
+ DG++ EP +P +L++G +GI G ++ I +N +++ +LN + +
Sbjct: 130 -SYDGREKEPDILPAKLPLLLLHGVDGIAVGMTTKIFPHNFCELLEAQIAILNDQPFTLL 188
Query: 896 HPWYRGFGGTIEKTASKEAGVTYTVTGIIEEVNETTLRIKEL 937
+ GGT++ + ++ + T+ I+ +N+ TL IKE+
Sbjct: 189 PDFPS--GGTMDASEYQDGLGSITLRASIDIINDKTLLIKEI 228
>gnl|CDD|130134 TIGR01062, parC_Gneg, DNA topoisomerase IV, A subunit,
proteobacterial. Operationally, topoisomerase IV is a
type II topoisomerase required for the decatenation of
chromosome segregation. Not every bacterium has both a
topo II and a topo IV. The topo IV families of the
Gram-positive bacteria and the Gram-negative bacteria
appear not to represent a single clade among the type II
topoisomerases, and are represented by separate models
for this reason [DNA metabolism, DNA replication,
recombination, and repair].
Length = 735
Score = 78.4 bits (193), Expect = 2e-14
Identities = 55/185 (29%), Positives = 94/185 (50%), Gaps = 9/185 (4%)
Query: 700 IKYSDFVNKELILFSMAD-LQRSIPSMVDGLKPGQRKILFCSFKRNFIKEAKVAQFSGYV 758
I +F + + +SM + R++P + DGLKP QR+I++ + AK + + V
Sbjct: 4 IDLGNFTEEAYLNYSMYVIMDRALPFIGDGLKPVQRRIVYAMSELGLNANAKYKKSARTV 63
Query: 759 SE-HSAYH-HGEQSLASTILGMAQDFVGSNNINLLQPNGQFGTRNQGGKDAASARYIFTR 816
+ YH HG+ + ++ MAQ F S L+ G +G + K A+ RY +R
Sbjct: 64 GDVLGKYHPHGDSACYEAMVLMAQPF--SYRYPLVDGQGNWGAPD-DPKSFAAMRYTESR 120
Query: 817 LSPITRFLFPKDDDKLLDYL-NEDGQQIEPTWYMPI-IPTVLVNGSEGIGTGWSSYIPNY 874
LS I+ L + +D+ N DG +EP +P +P +L+NG+ GI G ++ IP +
Sbjct: 121 LSKISELLLEELGQGTVDFRPNFDGTLLEPV-ILPARLPNILLNGTTGIAVGMATDIPPH 179
Query: 875 NPRDI 879
N ++
Sbjct: 180 NLHEL 184
>gnl|CDD|235503 PRK05561, PRK05561, DNA topoisomerase IV subunit A; Validated.
Length = 742
Score = 74.0 bits (183), Expect = 4e-13
Identities = 63/187 (33%), Positives = 92/187 (49%), Gaps = 35/187 (18%)
Query: 718 LQRSIPSMVDGLKPGQRKILFC------SFKRNFIKEAKVAQFSGYVSEHSAYH-HGEQS 770
+ R++P + DGLKP QR+IL+ + F K A+V G V YH HG+ S
Sbjct: 32 MDRALPDVRDGLKPVQRRILYAMSELGLTPDAKFKKSARV---VGDVL--GKYHPHGDSS 86
Query: 771 LASTILGMAQDFVGSNNINLLQPNGQFGTRNQGGKDAASARYIFTRLSPITRFLFPKDDD 830
+ ++ MAQDF S L+ G FG + G AA+ RY RLSPI L
Sbjct: 87 IYDAMVRMAQDF--SYRYPLVDGQGNFG--SIDGDPAAAMRYTEARLSPIAELL------ 136
Query: 831 KLLDYLNE---------DGQQIEPTWYMP-IIPTVLVNGSEGIGTGWSSYIPNYNPRDIV 880
L+ ++E DG EPT +P P +L+NG+ GI G ++ IP +N R+++
Sbjct: 137 --LEEIDEGTVDFVPNFDGTLKEPTV-LPARFPNLLLNGATGIAVGMATDIPPHNLREVI 193
Query: 881 ANVRRLL 887
L+
Sbjct: 194 DAAIHLI 200
>gnl|CDD|237192 PRK12758, PRK12758, DNA topoisomerase IV subunit A; Provisional.
Length = 869
Score = 65.4 bits (160), Expect = 2e-10
Identities = 86/278 (30%), Positives = 127/278 (45%), Gaps = 49/278 (17%)
Query: 718 LQRSIPSMVDGLKPGQRKILFCSFKRN----FIKEAKVAQFSGYVSEHSAYH-HGEQSLA 772
L+R++P + DGLKP QR+IL S K + K A V V YH HG+ S+
Sbjct: 40 LERAVPHIEDGLKPVQRRILH-SMKEMDDGRYNKVANV------VGHTMQYHPHGDASIG 92
Query: 773 STILGMAQDFVGSNNINLL---QPN-GQFGTRNQGGKDAASARYIFTRLSPIT-RFLF-P 826
++ + Q +LL Q N G T G AA+ RYI RLS +F P
Sbjct: 93 DALVQLGQK-------DLLIDTQGNWGNILT----GDGAAAPRYIEARLSKFALEVVFNP 141
Query: 827 KDDDKLLDYLNEDGQQIEPTWYMPI-IPTVLVNGSEGIGTGWSSYIPNYNPRDIVANVRR 885
K + L Y DG++ EP +P+ P +L G+EGI G S+ I +N +++
Sbjct: 142 KTTEWQLSY---DGRKKEPV-TLPVKFPLLLAQGAEGIAVGLSTKILPHNFNELIDASIA 197
Query: 886 LLNGEMMEPMHPWYRGF--GGTIEKTASK----EAGVTYTVTGIIEEVNETTLRIKELPI 939
L G+ + Y F GG I+ S E G V IE++++ TL I E+P
Sbjct: 198 YLKGKEFK----LYPDFPTGGIID--VSNYNDGERGGRVRVRAKIEKLDKKTLVITEIPY 251
Query: 940 RRWTQDYREFLESIIDQNDSFIRGFRQYSDDTTVDFEV 977
T ++SI+ ND ++ D+T D E+
Sbjct: 252 GTTTSS---LIDSILKANDKGKIKIKKVEDNTAADVEI 286
>gnl|CDD|240272 PTZ00109, PTZ00109, DNA gyrase subunit b; Provisional.
Length = 903
Score = 64.5 bits (157), Expect = 3e-10
Identities = 82/354 (23%), Positives = 135/354 (38%), Gaps = 91/354 (25%)
Query: 277 SVTRFHERVNERWEICVTLSEGQFQQVSFVNGIATIKGGTHVDYVANQVANHVMAVVNK- 335
S+ + VN + +L SF N ++T GTH+D + V + K
Sbjct: 399 SIRGVIKNVNVEVSLSWSLESYTALIKSFANNVSTT-AGTHIDGFKYAITRCVNGNIKKN 457
Query: 336 ---KNKNANVKAHNVKNHLWVFVNALIDNPAFDSQTKETL------TLRQSSFGSKC--- 383
K N+ ++ + ++ ++ FD QTK L T+ +S +
Sbjct: 458 GYFKGNFVNIPGEFIREGMTAIISVKLNGAEFDGQTKTKLGNHLLKTILESIVFEQLSEI 517
Query: 384 -ELSEEFLKKVTAKSGIVETLLSWANFKQSKDL--KKNDGTKTEDVRGISKLEDANLAGG 440
E L + KS + ++ K +KDL +KN+ + + G KL D
Sbjct: 518 LEFEPNLLLAIYNKS--LAAKKAFEEAKAAKDLIRQKNNQYYSTILPG--KLVDCISDDI 573
Query: 441 RNSEQCTLILTEGDSAKALAMAGLSVVGRDRF--GVFPLRGKLLNVREASSN-QVLNNSE 497
+E L + EG+SA AG + R+R V PL+GK+LN+ + +N +V NSE
Sbjct: 574 ERNE---LFIVEGESA-----AGNAKQARNREFQAVLPLKGKILNIEKIKNNKKVFENSE 625
Query: 498 IGNIKKILGL--------------------KQGVEYNNVK-----------SLRYGHLMI 526
I + +GL + V+ NN LRYG +++
Sbjct: 626 IKLLITSIGLSVNPVTWRQYDLSHGTKASKDESVQNNNSTLTKKKNSLFDTPLRYGKIIL 685
Query: 527 MTDQVLLAPLSFLLWFILIFAWITTFCFMLAQDHDGSHIKGLLINFIHSFWPSL 580
+TD D DG H++ LL+ ++ F PSL
Sbjct: 686 LTDA----------------------------DVDGEHLRILLLTLLYRFCPSL 711
>gnl|CDD|237576 PRK13979, PRK13979, DNA topoisomerase IV subunit A; Provisional.
Length = 957
Score = 64.4 bits (157), Expect = 4e-10
Identities = 55/193 (28%), Positives = 96/193 (49%), Gaps = 29/193 (15%)
Query: 697 EKYIKYSDFVNKELILFSMADLQRSIPSMVDGLKPGQRKILFCSFK------RNFIKEAK 750
E Y+ Y+ V K+ R++P + DGLKP R+IL+ ++ + + K A+
Sbjct: 24 ENYLPYAVEVAKD----------RALPDVRDGLKPVHRRILYGAYMLKAFPDKPYYKSAR 73
Query: 751 -VAQFSGYVSEHSAYH-HGEQSLASTILGMAQDFVGSNNINLLQPNGQFGTRNQGGKDAA 808
V G YH HG+ S+ ++ +AQDF + + L+ +G +G+ G AA
Sbjct: 74 IVGDILG------KYHPHGDSSVYDAMVILAQDF--TTRMPLIDGHGNWGS--IDGDSAA 123
Query: 809 SARYIFTRLSPITRFLFPKDDDKLLDYL-NEDGQQIEPTWYMPIIPTVLVNGSEGIGTGW 867
+ RY RL+PI + D +++ + N + EP P +LVNG+ GI G
Sbjct: 124 AMRYTEARLTPIAMEMLRDIDKDVVNMVDNYSDSEKEPEVLPARYPNLLVNGAFGIAVGL 183
Query: 868 SSYIPNYNPRDIV 880
++ IP +N ++++
Sbjct: 184 ATNIPPHNLKEVI 196
>gnl|CDD|238202 cd00329, TopoII_MutL_Trans, MutL_Trans: transducer domain, having a
ribosomal S5 domain 2-like fold, conserved in the
C-terminal domain of type II DNA topoisomerases (Topo
II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins.
This transducer domain is homologous to the second
domain of the DNA gyrase B subunit, which is known to be
important in nucleotide hydrolysis and the transduction
of structural signals from ATP-binding site to the DNA
breakage/reunion regions of the enzymes. The GyrB
dimerizes in response to ATP binding, and is homologous
to the N-terminal half of eukaryotic Topo II and the
ATPase fragment of MutL. Type II DNA topoisomerases
catalyze the ATP-dependent transport of one DNA duplex
through another, in the process generating transient
double strand breaks via covalent attachments to both
DNA strands at the 5' positions. Included in this group
are proteins similar to human MLH1 and PMS2. MLH1 forms
a heterodimer with PMS2 which functions in meiosis and
in DNA mismatch repair (MMR). Cells lacking either hMLH1
or hPMS2 have a strong mutator phenotype and display
microsatellite instability (MSI). Mutation in hMLH1
accounts for a large fraction of Lynch syndrome (HNPCC)
families.
Length = 107
Score = 57.7 bits (140), Expect = 5e-10
Identities = 19/93 (20%), Positives = 33/93 (35%), Gaps = 20/93 (21%)
Query: 288 RWEICVTLSE----GQFQQVSFVNGIATIKGGTHVDYVANQVANHVMAVVNKKNKNANVK 343
R E ++ + + +Q SFVNG +GGTHV V +
Sbjct: 28 RVEGAISYPDSGRSSKDRQFSFVNGRPVREGGTHVKAVREAYTRA-------------LN 74
Query: 344 AHNVKNHLWVFVNALIDN--PAFD-SQTKETLT 373
+V+ + ++ I + TKE +
Sbjct: 75 GDDVRRYPVAVLSLKIPPSLVDVNVHPTKEEVR 107
>gnl|CDD|235502 PRK05560, PRK05560, DNA gyrase subunit A; Validated.
Length = 805
Score = 63.1 bits (155), Expect = 1e-09
Identities = 59/172 (34%), Positives = 90/172 (52%), Gaps = 23/172 (13%)
Query: 720 RSIPSMVDGLKPGQRKILFC------SFKRNFIKEAKVAQFSGYVSEHSA-YH-HGEQSL 771
R++P + DGLKP R+IL+ + + + K A++ V + YH HG+ ++
Sbjct: 29 RALPDVRDGLKPVHRRILYAMNELGNTPDKPYKKSARI------VGDVMGKYHPHGDSAV 82
Query: 772 ASTILGMAQDFVGSNNINLLQPNGQFGTRNQGGKDAASARYIFTRLSPITRFLFPKDDDK 831
++ MAQDF S L+ G FG+ G AA+ RY R+S I L D DK
Sbjct: 83 YDALVRMAQDF--SMRYPLVDGQGNFGSI--DGDPAAAMRYTEARMSKIAHELL-ADIDK 137
Query: 832 -LLDY-LNEDGQQIEPTWYMPI-IPTVLVNGSEGIGTGWSSYIPNYNPRDIV 880
+D+ N DG + EPT +P P +LVNGS GI G ++ IP +N +++
Sbjct: 138 ETVDFVPNYDGSEQEPT-VLPARFPNLLVNGSSGIAVGMATNIPPHNLGEVI 188
>gnl|CDD|238419 cd00822, TopoII_Trans_DNA_gyrase, TopoIIA_Trans_DNA_gyrase:
Transducer domain, having a ribosomal S5 domain 2-like
fold, of the type found in proteins of the type IIA
family of DNA topoisomerases similar to the B subunits
of E. coli DNA gyrase and E. coli Topoisomerase IV which
are heterodimers composed of two subunits. The type
IIA enzymes are the predominant form of topoisomerase
and are found in some bacteriophages, viruses and
archaea, and in all bacteria and eukaryotes. All type
IIA topoisomerases are related to each other at amino
acid sequence level, though their oligomeric
organization sometimes differs. TopoIIA enzymes cut
both strands of the duplex DNA to remove (relax) both
positive and negative supercoils in DNA. These enzymes
covalently attach to the 5' ends of the cut DNA,
separate the free ends of the cleaved strands, pass
another region of the duplex through this gap, then
rejoin the ends. TopoIIA enzymes also catenate/
decatenate duplex rings. E.coli DNA gyrase is a
heterodimer composed of two subunits. E. coli DNA gyrase
B subunit is known to be important in nucleotide
hydrolysis and the transduction of structural signals
from ATP-binding site to the DNA breakage/reunion
regions of the enzymes.
Length = 172
Score = 47.6 bits (114), Expect = 8e-06
Identities = 21/96 (21%), Positives = 43/96 (44%), Gaps = 5/96 (5%)
Query: 283 ERVNERWEICVTLSEGQFQQV-SFVNGIATIKGGTHVD----YVANQVANHVMAVVNKKN 337
E+ E+ + ++ + + SFVN I T +GGTH + + ++ K
Sbjct: 27 EKDGVEVEVALQWTDSYSENILSFVNNIPTPEGGTHETGFRAALTRAINDYAKKNNLLKK 86
Query: 338 KNANVKAHNVKNHLWVFVNALIDNPAFDSQTKETLT 373
K+ + +++ L ++ + P F+ QTK+ L
Sbjct: 87 KDVKLTGDDIREGLTAVISVKVPEPQFEGQTKDKLG 122
>gnl|CDD|217081 pfam02518, HATPase_c, Histidine kinase-, DNA gyrase B-, and
HSP90-like ATPase. This family represents the
structurally related ATPase domains of histidine kinase,
DNA gyrase B and HSP90.
Length = 111
Score = 44.2 bits (105), Expect = 3e-05
Identities = 18/98 (18%), Positives = 34/98 (34%), Gaps = 14/98 (14%)
Query: 78 GLYKIFDEILVNAADNKQRDPKMDAVKVVIDQEHDLISVHNSGDGVPVEIHQEEGVYVPE 137
L ++ +L NA + +++ V + D I+V ++G G+P PE
Sbjct: 5 RLRQVLSNLLDNAIKHAPAGGEIE-VTLERDGGRLRITVEDNGIGIP-----------PE 52
Query: 138 LIFGHLLTSSNYDDNVKKTTGGRNGYGAKLTNIFSTEF 175
+ D + +K G G G +
Sbjct: 53 DLPKIFEPFFRTDSSSRKVGG--TGLGLSIVRKLVELH 88
>gnl|CDD|235334 PRK05035, PRK05035, electron transport complex protein RnfC;
Provisional.
Length = 695
Score = 46.9 bits (112), Expect = 8e-05
Identities = 48/214 (22%), Positives = 70/214 (32%), Gaps = 12/214 (5%)
Query: 1162 RKATPESLWVKDLDALDMQLDELDKSDARAEEERMKIKGNGNGDAGPKIVAKRAPKNARK 1221
K E+ KD DA+ L + K+ A + + IK D ++A R ARK
Sbjct: 473 HKKAAEARAAKDKDAVAAALARV-KAKKAAATQPIVIKAGARPD-NSAVIAARE---ARK 527
Query: 1222 NDKKSNNARATEAMGEMDNVTKVVKPKGRAGLKKAPAEKLDDDEEDEVPDLKQRLAKLNE 1281
++ A A V RA KKA + + + E+EV K +A
Sbjct: 528 AQARARQAEKQAAAAADPKKAAVAAAIARAKAKKAAQQAANAEAEEEVDPKKAAVAAAIA 587
Query: 1282 QLASTKLEPSPDQSGVMETEKVQVPAKKK--EPSKRTAAQKKVVTVETSDSEDEIIIDDD 1339
+ + K + E P K R A+K E D
Sbjct: 588 RAKAKKAAQQAASAEPEEQVAEVDPKKAAVAAAIARAKAKKAEQQANAEPEEPV----DP 643
Query: 1340 EAFEIAAPEEGKKGGRKAAGNSKAAKPAAETKKR 1373
+AA K RKAA A+P +
Sbjct: 644 RKAAVAAAIARAK-ARKAAQQQANAEPEEAEDPK 676
>gnl|CDD|218597 pfam05466, BASP1, Brain acid soluble protein 1 (BASP1 protein). This
family consists of several brain acid soluble protein 1
(BASP1) or neuronal axonal membrane protein NAP-22. The
BASP1 is a neuron enriched Ca(2+)-dependent
calmodulin-binding protein of unknown function.
Length = 233
Score = 43.3 bits (101), Expect = 4e-04
Identities = 44/201 (21%), Positives = 78/201 (38%), Gaps = 12/201 (5%)
Query: 1256 APAEKLDDDEEDEVPDLKQRLAKLNEQLASTKLEPSPDQSGVMETEKVQVPAKKKEPSK- 1314
P E + E ++K+ + ++ A + ++ G E + A K EP K
Sbjct: 35 TPKENEEAQAAAETTEVKEAKEEKPDKDAQDTANKTEEKEGEKEAAAAKEEAPKAEPEKT 94
Query: 1315 RTAAQKKVVTVETSDSEDEIIIDDDEAFEIAAPEEGKKGGRKAAGNSKAAKPAAE---TK 1371
AA+ K + SD E E A AA E K ++ +++A PA E +K
Sbjct: 95 EGAAEAKAEPPKASDPEQE----PAAAPGPAAGGEAPKASEASSQPAESAAPAKEEEKSK 150
Query: 1372 KRGPAKKQQPEASLGQRLLTEMLKPAESSPEKKVRKMRASPFNKKSGSMLGRAGTIEEPS 1431
+ G AKK + A+ Q ++ ++S P A+P +K++ + + + S
Sbjct: 151 EEGEAKKTEAPAAAAQETKSDAAPASDSKPSSS----EAAPSSKETPAATEAPSSTAKAS 206
Query: 1432 GSSPSTSEEVAEVLPPKARPQ 1452
+ E P Q
Sbjct: 207 APAAPAEEVKPSEAPAANSDQ 227
>gnl|CDD|218177 pfam04615, Utp14, Utp14 protein. This protein is found to be part of
a large ribonucleoprotein complex containing the U3
snoRNA. Depletion of the Utp proteins impedes production
of the 18S rRNA, indicating that they are part of the
active pre-rRNA processing complex. This large RNP
complex has been termed the small subunit (SSU)
processome.
Length = 728
Score = 44.7 bits (106), Expect = 4e-04
Identities = 37/187 (19%), Positives = 67/187 (35%), Gaps = 21/187 (11%)
Query: 1171 VKDLDALDMQLDELDKSDARAEEERMKIKGNGNGDAGPKIVAKRA--------PKNARKN 1222
+++ L +L+ ++SD EE K G GP+ K A KN K
Sbjct: 391 DAEIEELRRELEGEEESDEEENEEPSKKN-VGRRKFGPENGEKEAESKKLKKENKNEFKE 449
Query: 1223 DKKSNNARATEAMGEMDNVTKVVKPKGRAGLKKAPAEKLDDDEEDEVPDLKQRLAKLNEQ 1282
K+S+ E E K R+ + E+ + DEE+ + K + +
Sbjct: 450 KKESDEEEELEDEEEAKVEKVANKLLKRSEKAQKEEEEEELDEENPWLKTTSSVGK-SAK 508
Query: 1283 LASTKLEPSPDQSGVMETEKVQVPAKKKEPSKRTAAQKKVVTVETSDSEDEIIIDDDEAF 1342
+K + S KK+ K E S D+ +ID++++
Sbjct: 509 KQDSKKKSSSKLDKAANKISKAAVKVKKKKKK-----------EKSIDLDDDLIDEEDSI 557
Query: 1343 EIAAPEE 1349
++ +E
Sbjct: 558 KLDVDDE 564
Score = 33.5 bits (77), Expect = 1.0
Identities = 56/287 (19%), Positives = 99/287 (34%), Gaps = 43/287 (14%)
Query: 1178 DMQLDELDKSDARAEEERMKIKGNGNGDAGPKIVAKRAPKNARKNDKKSNNARATEAMGE 1237
+ L+EL+K + R EERM +K AK K R K AR +A+ E
Sbjct: 256 EAALEELEKLERRRAEERMTLKHKNTSKW-----AKSMLKTGRA--KYDEEAR--KALEE 306
Query: 1238 MDNVTK------VVKPKGRAGLKKAPAEKLDDDEEDEVPDLKQRLAKLNEQLASTK-LEP 1290
+ K + + +D+++DE D + L ++L K E
Sbjct: 307 QLRQGEELRRKIEGKSVSEEDEDEDSDSEEEDEDDDEDDDDGENPWMLRKKLGKLKEGED 366
Query: 1291 SPDQSGVMETEKVQVPAKKKEPSKRTAAQKKVVTVETSDSEDEIIIDDDEAFEIAAPEEG 1350
+ SG++ + +Q R A+KK E +D+E E + + E E + EE
Sbjct: 367 DEENSGLLSMKFMQ----------RAEARKK----EENDAEIEELRRELEGEEESDEEEN 412
Query: 1351 KKGGRKAAGNSKAAKPAAETKKRGPAKKQQPEASLGQRLLTEMLKPAESSPEKKVRKMRA 1410
++ +K G K E + K++ + + K E+ + A
Sbjct: 413 EEPSKKNVGRRKFGPENGEKEAESKKLKKENKNEFKE-------KKESDEEEELEDEEEA 465
Query: 1411 SPFNKKSGSMLGRAGTIEEPSGSSPSTSEEVAEVLPPKARPQRANRR 1457
+ + +E EE+ E P +
Sbjct: 466 KVEKVANKLLKRSEKAQKEEE------EEELDEENPWLKTTSSVGKS 506
>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional.
Length = 2084
Score = 43.6 bits (102), Expect = 0.001
Identities = 66/263 (25%), Positives = 106/263 (40%), Gaps = 17/263 (6%)
Query: 1149 ADRDKLNEEVDDLRKATPESLWVKDLDALDMQLDELDKSDARAEEERMKIKGNGNGDAGP 1208
AD K EE +A ++ K D + +E K +A+ + K +
Sbjct: 1292 ADEAKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKK---KADAAKKKAEEAKKAAEAA 1348
Query: 1209 KIVAKRAPKNARKNDKKSNNA--RATEAMGEMDNVTKVVKPKGRAGLKKAPAEKLDDDEE 1266
K A+ A A ++K+ A + EA + D K + K +A K AE+ D +
Sbjct: 1349 KAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKKADEAKKKAEE-DKKKA 1407
Query: 1267 DEVPDLKQRLAKLNEQLASTKLEPSPDQSGVMETEKVQVPAKKKEPSKRTAAQKKVVTVE 1326
DE+ K AK A K E ++ E +K AKK + +K+ A + K
Sbjct: 1408 DELK--KAAAAKKKADEAKKKAE---EKKKADEAKKKAEEAKKADEAKKKAEEAKKAEEA 1462
Query: 1327 TSDSEDEIIIDD--DEAFEIAAPEEGKKGGRKAAGNSKAAKPAAETKKRGPAKKQQPEAS 1384
+E+ D+ +A E +E KK +A + AK AAE KK+ K+ EA
Sbjct: 1463 KKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAEEA- 1521
Query: 1385 LGQRLLTEMLKPAESSPEKKVRK 1407
+ E K E+ + +K
Sbjct: 1522 ---KKADEAKKAEEAKKADEAKK 1541
Score = 43.2 bits (101), Expect = 0.001
Identities = 59/297 (19%), Positives = 120/297 (40%), Gaps = 11/297 (3%)
Query: 1189 ARAEEERMKIKGNGNGDAGPKIVAKRAPKNARKND--KKSNNARATEAMGEMDNVTKVVK 1246
AR E+ K + + K A R + RK + +K+ +AR EA + + K +
Sbjct: 1157 ARKAEDARKAEEARKAEDAKKAEAARKAEEVRKAEELRKAEDARKAEAARKAEEERKAEE 1216
Query: 1247 PKGRAGLKKAP----AEKLDDDEEDEVPDLKQRLAKLNEQLASTKLEPSPDQSGVMETEK 1302
+ KKA AE+ D E+ ++R + + ++ + ++ E+
Sbjct: 1217 ARKAEDAKKAEAVKKAEEAKKDAEEAKKAEEERNNEEIRKFEEARMAHFARRQAAIKAEE 1276
Query: 1303 VQVPAKKKEPSKRTAAQKKVVTVETSDSEDEIIIDDDEAFEIAAPEEGKKGGRKAAGNSK 1362
A+K + K+ +KK + ++ + + +A E +E KK +A +
Sbjct: 1277 ----ARKADELKKAEEKKKADEAKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKKAD 1332
Query: 1363 AAKPAAETKKRGPAKKQQPEASLGQRLLTEMLKPAESSPEKKVRKMRASPFNKKSGSMLG 1422
AAK AE K+ A+ + EA + AE++ +KK + + KK
Sbjct: 1333 AAKKKAEEAKKA-AEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKK 1391
Query: 1423 RAGTIEEPSGSSPSTSEEVAEVLPPKARPQRANRRQARYVLSDSESEKATDDSEFDE 1479
+A ++ + ++E+ + K + A ++ +D +KA + + DE
Sbjct: 1392 KADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKADE 1448
Score = 38.6 bits (89), Expect = 0.029
Identities = 59/282 (20%), Positives = 114/282 (40%), Gaps = 32/282 (11%)
Query: 1156 EEVDDLRKATPESLWVKDLDALDMQLDELDKSDARAEEERMKIKGNGNGDAGPKIVAKRA 1215
++ D+ +K E+ K D + +E K +A+E + + D K +
Sbjct: 1470 KKADEAKKKAEEA---KKADEAKKKAEEAKK---KADEAKKAAEAKKKADEAKKAEEAKK 1523
Query: 1216 PKNARKND--KKSNNARATEAMGEMDNVTKVVKPKGRAGLKKAPAEKLDDDEEDEVPDLK 1273
A+K + KK++ A+ E + D + K + K KKA K + +E ++
Sbjct: 1524 ADEAKKAEEAKKADEAKKAEEKKKADELKKAEELKKAEEKKKAEEAK----KAEEDKNMA 1579
Query: 1274 QRLAKLNEQLASTKLEPSPDQSGVMETEKVQVPAKKKEPSKRTAAQ---------KKVVT 1324
R A+ ++ ++E E +K++ KK + A+ KKV
Sbjct: 1580 LRKAEEAKKAEEARIEEV--MKLYEEEKKMKAEEAKKAEEAKIKAEELKKAEEEKKKVEQ 1637
Query: 1325 VETSDSED----EIIIDDDEAFEIAAPEEGKKGGRKAAGNSKAAKPAAETKKRGPAKKQQ 1380
++ ++E+ E + +E +I A EE KK +A K + KK A K++
Sbjct: 1638 LKKKEAEEKKKAEELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALKKE 1697
Query: 1381 PEAS-----LGQRLLTEMLKPAESSPEKKVRKMRASPFNKKS 1417
E + L ++ E K E ++ K++A K++
Sbjct: 1698 AEEAKKAEELKKKEAEEKKKAEELKKAEEENKIKAEEAKKEA 1739
Score = 31.3 bits (70), Expect = 6.2
Identities = 61/272 (22%), Positives = 100/272 (36%), Gaps = 27/272 (9%)
Query: 1156 EEVDDLRKATPESLWVKDLDALDMQLDELDKSDARAEEERMKIKGNGNGDAGPKIVAKRA 1215
++ D+ +KA K D + +A+ EE+ K + K K+
Sbjct: 1510 KKADEAKKAEEA----KKADEAKKAEEAKKADEAKKAEEKKKADELKKAEELKKAEEKKK 1565
Query: 1216 PKNARKNDKKSNNA-RATEAMGEMDNVTKVVKPKGRAGLKKAPAEKLDDDEEDEVPDLKQ 1274
+ A+K ++ N A R E + + K KK AE+ EE ++ +
Sbjct: 1566 AEEAKKAEEDKNMALRKAEEAKKAEEARIEEVMKLYEEEKKMKAEEAKKAEEAKIKAEEL 1625
Query: 1275 RLA----KLNEQLASTKLEPSPDQSGVMETE-----KVQVPAKKKEPSKRTAAQKKVVTV 1325
+ A K EQL + E + + E K AKK E K+ A + K
Sbjct: 1626 KKAEEEKKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEE 1685
Query: 1326 ETSDSEDEIIIDDDEAF-----------EIAAPEEGKKGGRKAAGNSKAAKPAAETKKRG 1374
+ + + + + +EA E EE KK + ++ AK AE K+
Sbjct: 1686 DEKKAAEALKKEAEEAKKAEELKKKEAEEKKKAEELKKAEEENKIKAEEAKKEAEEDKKK 1745
Query: 1375 P--AKKQQPEASLGQRLLTEMLKPAESSPEKK 1404
AKK + E L E K AE ++K
Sbjct: 1746 AEEAKKDEEEKKKIAHLKKEEEKKAEEIRKEK 1777
>gnl|CDD|236081 PRK07735, PRK07735, NADH dehydrogenase subunit C; Validated.
Length = 430
Score = 41.5 bits (97), Expect = 0.003
Identities = 51/234 (21%), Positives = 83/234 (35%), Gaps = 26/234 (11%)
Query: 1264 DEEDEVPDLKQRLAKLNEQLASTKL--EPSPDQSGVMETEKVQVPAKKKEPSKRTAAQKK 1321
D E ++ DLK+ A+ ++ A +L + + S + E + + A K K+
Sbjct: 2 DPEKDLEDLKKEAARRAKEEARKRLVAKHGAEISKLEEENREKEKALPKNDDMTIEEAKR 61
Query: 1322 VVTVETSDSEDEIIIDDDEAFEIAAPEEGKKGGRKAAGNSKA------------------ 1363
+ E E EE K KAA +KA
Sbjct: 62 RAAAAAKAKAAALAKQKREGTEEVTEEEKAKAKAKAAAAAKAKAAALAKQKREGTEEVTE 121
Query: 1364 -AKPAAETKKRGPAKKQQPEASLGQRLLTEMLKPAESSPEKKVRKMRASPFNKKSGSMLG 1422
K AA+ K AK + + +R TE + E +K+ K +A+ K + L
Sbjct: 122 EEKAAAKAKAAAAAKAKAAALAKQKREGTEEVTEEEEETDKEKAKAKAAAAAKAKAAALA 181
Query: 1423 RAGTIEEPSGSSPSTSEEVAE-----VLPPKARPQRANRRQARYVLSDSESEKA 1471
+ E G+ T EE A+ KA+ +++A DS E A
Sbjct: 182 KQKAAEAGEGTEEVTEEEKAKAKAKAAAAAKAKAAALAKQKASQGNGDSGDEDA 235
Score = 33.0 bits (75), Expect = 1.3
Identities = 46/196 (23%), Positives = 70/196 (35%), Gaps = 15/196 (7%)
Query: 1191 AEEERMKIKGNGNGDAGPKIVAKRAPKNARKNDKKSNNARATEAMGEMDNVTKVVKPKGR 1250
EEE+ K K A K A K + A +A K +
Sbjct: 86 TEEEKAKAKAKAAAAAKAKAAALAKQKREGTEEVTEEEKAAAKAKAAAAAKAKAAALAKQ 145
Query: 1251 AGLKKAPAEKLDDDEEDEVPDLKQRLAKLNEQLASTKLEPSPDQSGVME-TEKVQVPAKK 1309
+ +++ + E K A + A K + + G E TE+ + AK
Sbjct: 146 KREGTEEVTEEEEETDKEKAKAKAAAAAKAKAAALAKQKAAEAGEGTEEVTEEEKAKAKA 205
Query: 1310 K----EPSKRTAAQKKVVTVETSDSEDEIIIDDDEAFEIAAPEEGKKGGRKAAGNSKAAK 1365
K +K A K+ + DS DE D +A IAA + KAA ++A
Sbjct: 206 KAAAAAKAKAAALAKQKASQGNGDSGDE----DAKAKAIAAAKA------KAAAAARAKT 255
Query: 1366 PAAETKKRGPAKKQQP 1381
AE KK K+++P
Sbjct: 256 KGAEGKKEEEPKQEEP 271
>gnl|CDD|173181 PRK14718, PRK14718, ribonuclease III; Provisional.
Length = 467
Score = 39.8 bits (92), Expect = 0.010
Identities = 49/227 (21%), Positives = 83/227 (36%), Gaps = 19/227 (8%)
Query: 1250 RAGLKKAPAEKLDDDEEDEVPDLKQRLAKLNEQLASTKLEPS--PDQSGVMETEKVQVPA 1307
R ++A A+K D+ P L + + + +EP P GV E ++ P
Sbjct: 205 RRAAEQAAAKKALDEVTAVAPMLAAKPKRSKSARGAKHVEPEIVPGVKGVQEALDLRSPE 264
Query: 1308 KKKEPSKRTAA------QKKVVTVETSDSE------DEIIIDDDEAFEIAAPEEGKKGGR 1355
+K+ + R A + K V + +S D+ + +A E A + K G
Sbjct: 265 RKERGANRVAGGEAKGVESKAVDAKHGESRAAQLRADDAKAGETKAGEARASADAKAGAH 324
Query: 1356 KAAGNSKAAKPAAETKKRGPAKKQQPEASLGQRLLTEML---KPAESSPEKKVRKMRASP 1412
A A A+ R PA P A + + L +P S P +K P
Sbjct: 325 THAAAMPAVPEQADDAARSPATT--PVAVIRAAHVEHGLDKGEPRASKPAEKPAAATDKP 382
Query: 1413 FNKKSGSMLGRAGTIEEPSGSSPSTSEEVAEVLPPKARPQRANRRQA 1459
K S + + P S ++ +E + KA + A++ A
Sbjct: 383 PEKASDKPSPEKTSEKTPDKSHEKQLDKSSEPVAEKALDKTADKPDA 429
Score = 35.9 bits (82), Expect = 0.19
Identities = 34/156 (21%), Positives = 57/156 (36%), Gaps = 20/156 (12%)
Query: 1340 EAFEIAAPEEGKKG-GRKAAGNSKAAKPAAETKKRGPAKKQQP---EASLGQRLLTEMLK 1395
EA ++ +PE ++G R A G +K + A K G ++ Q +A G+ E
Sbjct: 256 EALDLRSPERKERGANRVAGGEAKGVESKAVDAKHGESRAAQLRADDAKAGETKAGEARA 315
Query: 1396 PAES----------SPEKKVRKMRASPFNKKSGSMLGRAGTIE------EPSGSSPSTSE 1439
A++ P + A+ + + RA +E EP S P+
Sbjct: 316 SADAKAGAHTHAAAMPAVPEQADDAARSPATTPVAVIRAAHVEHGLDKGEPRASKPAEKP 375
Query: 1440 EVAEVLPPKARPQRANRRQARYVLSDSESEKATDDS 1475
A PP+ + + + D EK D S
Sbjct: 376 AAATDKPPEKASDKPSPEKTSEKTPDKSHEKQLDKS 411
>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3. This protein,
which interacts with both microtubules and TRAF3 (tumour
necrosis factor receptor-associated factor 3), is
conserved from worms to humans. The N-terminal region is
the microtubule binding domain and is well-conserved; the
C-terminal 100 residues, also well-conserved, constitute
the coiled-coil region which binds to TRAF3. The central
region of the protein is rich in lysine and glutamic acid
and carries KKE motifs which may also be necessary for
tubulin-binding, but this region is the least
well-conserved.
Length = 506
Score = 39.9 bits (93), Expect = 0.010
Identities = 48/279 (17%), Positives = 79/279 (28%), Gaps = 29/279 (10%)
Query: 1211 VAKRAPKNARKNDKKSNNARATEAMGEMDNVTKVVKPKGRAGLKKAPAEKLDDDEEDEVP 1270
AK P KN+ + E + E K KPK +K E + E
Sbjct: 89 AAKTKPAKEPKNESGKEEEKEKEQVKEEKKKKKE-KPKEEPKDRKPKEEAKEKRPPKEKE 147
Query: 1271 DLKQRLAKLNEQLASTKLEPSPDQSGVMETEKVQVPAKKKEPSKRTAAQKKVVTVETSDS 1330
K++ EP + KK P K+ +KK E
Sbjct: 148 KEKEK----------KVEEPRDREEEKKRERVRAKSRPKKPPKKKPPNKKKEPPEEEKQR 197
Query: 1331 EDEIIIDDDEAFEIAAPEEGKKGGRKAAGNSKAAKPAAETKKRGPAKKQQPEASLGQRLL 1390
+ + E EE +K P E + R ++ + +S L
Sbjct: 198 QAAREAVKGKPEEPDVNEEREKEEDDGKDRETTTSPMEEDESRQSSEISRRSSS---SLK 254
Query: 1391 TEMLKPAESSPEKKVRKMRASPFNKKSGSMLGRAGTIEEPSGSSPSTSEEVAEVLPPKAR 1450
P+ +SPE + R R T P + P+++ + K
Sbjct: 255 KPDPSPSMASPETRESSKRTET----------RPRTSLRPPSARPASARPAPPRVKRKEI 304
Query: 1451 PQRANRRQ-----ARYVLSDSESEKATDDSEFDEDEDED 1484
Q V+ + + + DD F +
Sbjct: 305 VTVLQDAQGVGKIVSNVILEGKKSEDEDDENFVVEAAAQ 343
>gnl|CDD|238030 cd00075, HATPase_c, Histidine kinase-like ATPases; This family
includes several ATP-binding proteins for example:
histidine kinase, DNA gyrase B, topoisomerases, heat
shock protein HSP90, phytochrome-like ATPases and DNA
mismatch repair proteins.
Length = 103
Score = 36.5 bits (85), Expect = 0.015
Identities = 22/109 (20%), Positives = 37/109 (33%), Gaps = 18/109 (16%)
Query: 79 LYKIFDEILVNAADNKQRDPKMDAVKVVIDQEHDLISVHNSGDGVPVEIHQEEGVYVPEL 138
L ++ +L NA + + V D +H I V ++G G+P E +
Sbjct: 1 LQQVLLNLLSNAIKHTPEGGGRITISVERDGDHLEIRVEDNGPGIPEEDLER-------- 52
Query: 139 IFGHLLTSSNYDDNVKKTTGGRNGYGAKLTNIFST----EFIIETADGK 183
IF + D + GG G G + +E+ G
Sbjct: 53 IFER------FSDGSRSRKGGGTGLGLSIVKKLVELHGGRIEVESEPGG 95
>gnl|CDD|216860 pfam02063, MARCKS, MARCKS family.
Length = 296
Score = 37.1 bits (85), Expect = 0.055
Identities = 57/258 (22%), Positives = 90/258 (34%), Gaps = 21/258 (8%)
Query: 1203 NGDAGPKIVAKRAPKNARKNDKKSNNARATEAMGEMDNVTKVVKPKGRAG----LKKAPA 1258
NGDA P A + K + ++N + E G+ + + + A K PA
Sbjct: 42 NGDASPA-----AAEAGAKEELQANGSAPAEETGKEEAASAAAAEEKEAAASTEPDKEPA 96
Query: 1259 EKLDDDEEDEVPDLKQRLAKLNEQLASTKLEPSPDQSGVMETEKVQVPAKKKEPSKRTAA 1318
E + E P + A + + A PSP + +K K + S +
Sbjct: 97 EA--EPAEPASPAEAEGEAATSTEKAEDGATPSPSSETPKKKKKRFSFKKSFKLSGFSFK 154
Query: 1319 QKKVVTVETSDSEDEIIIDDDEAFEIAA--PEEGKKGGRKAAGNSKAAKPAAETKKRGPA 1376
+ K E +++E + E AA PE G A G A A PA
Sbjct: 155 KNKKEAGEGAEAEGAAAEKEGAKEEAAAAAPEAGSGEEAAAPGEEAGAAGAEGEAGEEPA 214
Query: 1377 KKQQPEASLGQRLLTEMLKPAESSPEKKVRKMRASPFNKKSGSMLGRAGTIEEPSGSSPS 1436
+PE KP E++PEK + + +K+ + +P+
Sbjct: 215 ADAEPE--------QPEAKPEEAAPEKPQAEEAKAAEEQKAEEKPAEEAGASSAAQEAPA 266
Query: 1437 TSEEVAEVLPPKARPQRA 1454
+E A P A PQ A
Sbjct: 267 AEQEAAPAEEPAAPPQEA 284
>gnl|CDD|237855 PRK14900, valS, valyl-tRNA synthetase; Provisional.
Length = 1052
Score = 37.7 bits (87), Expect = 0.056
Identities = 42/206 (20%), Positives = 76/206 (36%), Gaps = 45/206 (21%)
Query: 1182 DELDKSDARAEE---ERMKIKGNGNGDAGPKIVAKRAPKNARKNDKK-SNNARATEAMGE 1237
++K ARAEE +R K++ + +G + + R +N++K + + A EA
Sbjct: 877 AVVEKDRARAEELREKRGKLEAHRAMLSGSEANSARRDTMEIQNEQKPTQDGPAAEAQPA 936
Query: 1238 MDN-----VTKVVKPKGRAGLKKAPAEKLDDDEEDEVPDLKQRLAKLNEQLASTKLEPSP 1292
+N K V A + A A V +++A+ + ++ +
Sbjct: 937 QENTVVESAEKAVAAVSEAAQQAATA----------VASGIEKVAEAVRKTVRRSVKKAA 986
Query: 1293 DQSGVMETEKVQVPAKKKEPSKRTAAQKKVVTVETSDSEDEIIIDDDEAFEIAAPEEGKK 1352
M+ + + KK +K+ AA+K KK
Sbjct: 987 ATRAAMKKKVAKKAPAKKAAAKKAAAKKAAAK--------------------------KK 1020
Query: 1353 GGRKAAGNSKAAKPAAETKKRGPAKK 1378
+KA A KPAA+ + PA+K
Sbjct: 1021 VAKKAPAKKVARKPAAKKAAKKPARK 1046
Score = 35.4 bits (81), Expect = 0.30
Identities = 41/187 (21%), Positives = 71/187 (37%), Gaps = 32/187 (17%)
Query: 1223 DKKSNNARATEAMGEMDNVTKVV--KPKGRAGLKKAPAEKLDDDEEDEVPDLKQRLAKLN 1280
D + AR + +G++D V+ K + + ++ AP ++ D +L+++ KL
Sbjct: 839 DLAAETARVDKEIGKVDQDLAVLERKLQNPSFVQNAPPAVVEKDRA-RAEELREKRGKLE 897
Query: 1281 EQLAS-TKLEPSPDQSGVMETEKVQVPAKKK-----EPSKRT----AAQKKVVTV-ETSD 1329
A + E + + ME + Q P + +P++ +A+K V V E +
Sbjct: 898 AHRAMLSGSEANSARRDTMEIQNEQKPTQDGPAAEAQPAQENTVVESAEKAVAAVSEAAQ 957
Query: 1330 SEDEIIIDDDEAFE--------------IAAPEEGKKGGRKAAGNSKAA--KPAAETK-- 1371
+ E A KK K A KAA K AA+
Sbjct: 958 QAATAVASGIEKVAEAVRKTVRRSVKKAAATRAAMKKKVAKKAPAKKAAAKKAAAKKAAA 1017
Query: 1372 KRGPAKK 1378
K+ AKK
Sbjct: 1018 KKKVAKK 1024
>gnl|CDD|233250 TIGR01052, top6b, DNA topoisomerase VI, B subunit. This model
describes DNA topoisomerase VI, an archaeal type II DNA
topoisomerase (DNA gyrase) [DNA metabolism, DNA
replication, recombination, and repair].
Length = 488
Score = 37.1 bits (86), Expect = 0.067
Identities = 31/146 (21%), Positives = 66/146 (45%), Gaps = 21/146 (14%)
Query: 79 LYKIFDEILVNAADNKQRDPKMDAVKVVIDQ---EHDLISVHNSGDGVPVEIHQEEGVYV 135
L + E++ N+ D + + +KV I++ +H ++V ++G G+P E Y+
Sbjct: 29 LTTVIHELVTNSLDACEEAGILPDIKVEIEKIGKDHYKVTVEDNGPGIPEE-------YI 81
Query: 136 PELIFGHLLTSSNYDDNVKKTTGGRNGYGAKLTNIFS-----TEFIIETADGKRLKKYKQ 190
P+ +FG +L S + ++ + G+ G G ++S + ++ G + YK
Sbjct: 82 PK-VFGKMLAGSKFHRIIQ--SRGQQGIGISGAVLYSQMTTGKPVKVISSTGGEIYVYKM 138
Query: 191 VFTNNMGKKSEPNISKCKE--GDNWT 214
++ +K+E I + E W
Sbjct: 139 KLKIDV-QKNEGEIVEKGEWNKPGWR 163
>gnl|CDD|218752 pfam05793, TFIIF_alpha, Transcription initiation factor IIF, alpha
subunit (TFIIF-alpha). Transcription initiation factor
IIF, alpha subunit (TFIIF-alpha) or RNA polymerase
II-associating protein 74 (RAP74) is the large subunit of
transcription factor IIF (TFIIF), which is essential for
accurate initiation and stimulates elongation by RNA
polymerase II.
Length = 528
Score = 37.2 bits (86), Expect = 0.070
Identities = 56/286 (19%), Positives = 101/286 (35%), Gaps = 33/286 (11%)
Query: 1169 LWVKDL-DALDMQLDELDKSDARAEEERMKIKGNGNGDAGPKIV-AKRAPKNARKNDKKS 1226
L +KDL + DE DK +EE+ K K K+ K+ + + +
Sbjct: 213 LKIKDLEGDDEDDGDESDKGGEDGDEEKSKKKKKKLAKNKKKLDDDKKGKRGGDDDADEY 272
Query: 1227 NNARATEAMGEMDNVTKVVKPKGRAGLKKAPAEKLDDDEEDEVPDLKQRLAKLNEQLAST 1286
++ + E D ++ +G E E P+++Q +E +
Sbjct: 273 DSDDGDDEGREEDYISD----SSASGNDPEEREDKLSPEIPAKPEIEQ-----DEDSEES 323
Query: 1287 KLEPSPDQSGVMETEKVQVPAKKKEPSKRTAAQKKVVTVETSDSEDEIIIDDDEAFEIAA 1346
+ E + ++ G+ + K K K+ + K + DS+D I +D + A
Sbjct: 324 EEEKNEEEGGLSKKGK-----KLKKLKGKKNGLDKDDSDSGDDSDDSDIDGEDSVSLVTA 378
Query: 1347 -------PEEGKKGGRKAAGNSKAAKPAAETKKRGPAKKQQPEASLGQRLLTEMLKPAES 1399
EE + GNS A+P+ E+K +G K + + + LK E+
Sbjct: 379 KKQKEPKKEEPVDSNPSSPGNSGPARPSPESKDKGKRKAANEVSKSPASVPAKKLK-TEN 437
Query: 1400 SPEKKVRKMRASPFNKKSGSMLGRAGTIEEPSGSSPSTSEEVAEVL 1445
+P+ K F+ S + T E V L
Sbjct: 438 APKSSSGKSTPQTFSGSKSS---------SNAADGGVTEEAVRRYL 474
>gnl|CDD|237284 PRK13108, PRK13108, prolipoprotein diacylglyceryl transferase;
Reviewed.
Length = 460
Score = 36.5 bits (84), Expect = 0.099
Identities = 30/184 (16%), Positives = 53/184 (28%), Gaps = 20/184 (10%)
Query: 1280 NEQLASTKLEPSPDQSG---VMETEKVQVPAKKKEPSK--RTAAQKKVVTVETSD---SE 1331
+E + LE P + V P EP++ A K E +D +E
Sbjct: 288 SEYVVDEALEREPAELAAAAVASAASAVGPVGPGEPNQPDDVAEAVKAEVAEVTDEVAAE 347
Query: 1332 DEIIIDDDEAFEIAAPEEGKKGG-RKAAGNSKAAKPAAETKKRGPAKKQQPEASLGQRLL 1390
+ + D + A EE + + A + A + A PE
Sbjct: 348 SVVQVADRDGESTPAVEETSEADIEREQPGDLAGQAPAAHQVDAEAASAAPEEP------ 401
Query: 1391 TEMLKPAESSPEKKVRKMRASPFNKKSGSMLGRAGTIEEPSGSSPSTSEEVAEVLPPKAR 1450
L + +A+P + P G P+ + + +R
Sbjct: 402 -AALASEAHDETEPEVPEKAAP---IPDPAKPDELAVAGP-GDDPAEPDGIRRQDDFSSR 456
Query: 1451 PQRA 1454
+R
Sbjct: 457 RRRW 460
>gnl|CDD|214643 smart00387, HATPase_c, Histidine kinase-like ATPases. Histidine
kinase-, DNA gyrase B-, phytochrome-like ATPases.
Length = 111
Score = 33.0 bits (76), Expect = 0.24
Identities = 18/100 (18%), Positives = 34/100 (34%), Gaps = 18/100 (18%)
Query: 78 GLYKIFDEILVNAADNKQRDPKMDAVKVVIDQEHD--LISVHNSGDGVPVEIHQEEGVYV 135
L ++ +L NA + + V ++++ D I+V ++G G+P E
Sbjct: 5 RLRQVLSNLLDNAIKYTPEGGR---ITVTLERDGDHVEITVEDNGPGIPPEDL------- 54
Query: 136 PELIFGHLLTSSNYDDNVKKTTGGRNGYGAKLTNIFSTEF 175
E IF + + G G G +
Sbjct: 55 -EKIFEPFFRTDK-----RSRKIGGTGLGLSIVKKLVELH 88
>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional.
Length = 509
Score = 35.0 bits (81), Expect = 0.29
Identities = 34/207 (16%), Positives = 62/207 (29%), Gaps = 22/207 (10%)
Query: 1284 ASTKLEPSPDQSGVMETEKVQVPAKKKEPSK------RTAAQKKVVTVETSDSEDEIIID 1337
ASTK E + ++ + + ++ AK K + A + K T E D +
Sbjct: 4 ASTKAELAAEE--EAKKKLKKLAAKSKSKGFITKEEIKEALESKKKTPEQIDQVLIFLSG 61
Query: 1338 DDEAFEIAAPEEGKKGGRKAAGNSKAAKPAAETKKRGPAKKQQPEASLGQRLLTEMLKPA 1397
+ + A + K K A + AAK A+ K + + +
Sbjct: 62 MVKDTDDATESDIPKKKTKTAAKAAAAKAPAKKKLKDELDSSKKAEKKNA---LDKDDDL 118
Query: 1398 ESSPEKKVRKMRASPFNKKSGSMLGRAGTIEEPSGSSPSTSEEVAEVLPPKARPQRANRR 1457
+ V + L ++ ++ +V
Sbjct: 119 NYVKDIDVLNQADDDDDDDDDDDLDDDDIDDDDDDEDDDEDDDDDDVDDEDEE------- 171
Query: 1458 QARYVLSDSESEKATDDSEFDEDEDED 1484
E EK +DD +F DED+
Sbjct: 172 ----KKEAKELEKLSDDDDFVWDEDDS 194
>gnl|CDD|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional.
Length = 880
Score = 35.0 bits (81), Expect = 0.40
Identities = 27/147 (18%), Positives = 57/147 (38%), Gaps = 9/147 (6%)
Query: 1142 EKVQGLLADRDKLNEEVDDLRKATPESLWVKDLDALDMQLDELDKSDARAEEERMKIKGN 1201
E+V+ L A+ + L EEV+++ + +DL + +++ L + EE + +
Sbjct: 475 ERVEELEAELEDLEEEVEEVEERLER---AEDLVEAEDRIERL-EERREDLEELIAERRE 530
Query: 1202 GNGDAGPKIVAKRAPKNARKNDKKSNNARATEAMGEMDNVTKVVKP--KGRAGLKKAPAE 1259
+ + R + + + A EA E + + V A LK+ E
Sbjct: 531 TIEEKRERAEELRERAAELEAEAEEKREAAAEAEEEAEEAREEVAELNSKLAELKER-IE 589
Query: 1260 KLDDDEE--DEVPDLKQRLAKLNEQLA 1284
L+ + D + + +L E+
Sbjct: 590 SLERIRTLLAAIADAEDEIERLREKRE 616
>gnl|CDD|223731 COG0658, ComEC, Predicted membrane metal-binding protein [General
function prediction only].
Length = 453
Score = 34.4 bits (79), Expect = 0.42
Identities = 15/65 (23%), Positives = 26/65 (40%), Gaps = 1/65 (1%)
Query: 532 LLAPLSFLLWFILIFAWITTFC-FMLAQDHDGSHIKGLLINFIHSFWPSLLKIPSFLVEF 590
LLA L L+ + +++ + GLL NF+ S S L +P L+
Sbjct: 370 LLATLPLLILQFGRLGLLGLLLNLIVSPLISLISLPGLLANFLLSPLVSFLIVPLILLGL 429
Query: 591 ITPIV 595
+ +
Sbjct: 430 LLAPL 434
>gnl|CDD|220271 pfam09507, CDC27, DNA polymerase subunit Cdc27. This protein forms
the C subunit of DNA polymerase delta. It carries the
essential residues for binding to the Pol1 subunit of
polymerase alpha, from residues 293-332, which are
characterized by the motif D--G--VT, referred to as the
DPIM motif. The first 160 residues of the protein form
the minimal domain for binding to the B subunit, Cdc1, of
polymerase delta, the final 10 C-terminal residues,
362-372, being the DNA sliding clamp, PCNA, binding
motif.
Length = 427
Score = 34.4 bits (79), Expect = 0.48
Identities = 37/229 (16%), Positives = 74/229 (32%), Gaps = 38/229 (16%)
Query: 1185 DKSDARAEEERMKIKGNGNGDAGPKI-VAKRAPKNARKNDKKSNNARATEAMGEMDNVTK 1243
+K++ + + +K N + K+ K ++ + S + E+ E
Sbjct: 194 EKTEGKTSVKAASLKRNPPKKSNIMSSFFKKKTKEKKEKKEASESTVKEESEEESGKRDV 253
Query: 1244 VVKPKGRAGLKKAPAEKLDDDEEDEVPDLKQRLAKLNEQLASTK---------------- 1287
+++ + P +D++EDE +R E K
Sbjct: 254 ILEDE-----SAEPTGLDEDEDEDEPKPSGERSDSEEETEEKEKEKRKRLKKMMEDEDED 308
Query: 1288 -----LEPSPDQSGVMETEKVQVPAKKKEPSKRTAAQ---------KKVVTVETSDSEDE 1333
+ SP + E + KK+E + ++V+ +T E+
Sbjct: 309 EEMEIVPESPVEEEESEEPEPPPLPKKEEEKEEVTVSPDGGRRRGRRRVMKKKTFKDEEG 368
Query: 1334 III--DDDEAFEIAAPEEGKKGGRKAAGNSKAAKPAAETKKRGPAKKQQ 1380
++ E + E + S A PAA K + P KK+Q
Sbjct: 369 YLVTKKVYEWESFSEDEAEPPPTKPKPKVSTPAVPAAAKKPKAPKKKKQ 417
Score = 33.7 bits (77), Expect = 0.90
Identities = 38/211 (18%), Positives = 66/211 (31%), Gaps = 39/211 (18%)
Query: 1284 ASTKLEPSPDQSGVMETEKVQVPAKKKEPSKRTAAQKKVVTVETSDSEDEIIIDDDEAFE 1343
AS K P + + K + +KKE + + + K + E S D I+ D+
Sbjct: 205 ASLKRNPPKKSNIMSSFFKKK-TKEKKEKKEASESTVKEESEEESGKRDVILEDESAEPT 263
Query: 1344 IAAPEEGKKGGRKAAGNSKAAKPAAETKKRGPAKKQQPEASLGQRLLTEMLKPAESSPEK 1403
+E + + + S + + E +K K
Sbjct: 264 GLDEDEDEDEPKPSGERSDSEEETEEKEK---------------------------EKRK 296
Query: 1404 KVRKMRASPFNKKSGSMLGRAGTIEEPSGSSPSTSEEVAEVLPP--KARPQRANRRQARY 1461
+++KM + ++ + EE S E P RR R
Sbjct: 297 RLKKMMEDEDEDEEMEIVPESPVEEEESEEPEPPPLPKKEEEKEEVTVSPDGGRRRGRRR 356
Query: 1462 VLS-----DSE----SEKATDDSEFDEDEDE 1483
V+ D E ++K + F EDE E
Sbjct: 357 VMKKKTFKDEEGYLVTKKVYEWESFSEDEAE 387
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 34.6 bits (79), Expect = 0.52
Identities = 73/361 (20%), Positives = 138/361 (38%), Gaps = 54/361 (14%)
Query: 1149 ADRDKLNEEVDDLRKATPESLWVKDLDALDMQLDELDKSDARAEEERMKIKGNGNGDAGP 1208
+ L+EEV+D+ + SL K D + ++L +++ ++ E+ N D
Sbjct: 3883 EENQDLDEEVNDIPEDLSNSLNEKLWD--EPNEEDLLETEQKSNEQSAA---NNESDLVS 3937
Query: 1209 KIVAKRAPKNARKNDKKSNNARATEAMGEMDNVTKVVKPKGRAGLKKAPAE--------- 1259
K +A ++ + +K + ++ +G D ++P + + P E
Sbjct: 3938 KEDDNKALEDKDR-QEKEDEEEMSDDVGIDDE----IQPDIQENNSQPPPENEDLDLPED 3992
Query: 1260 -KLDDDEED-----EVPDLKQRLAKLNEQLA-STKLEPSPDQSGVMETEKVQVPAKKKEP 1312
KLD+ E D ++ D+ A N++ A + K EP D+ + E + ++ +
Sbjct: 3993 LKLDEKEGDVSKDSDLEDMDMEAADENKEEADAEKDEPMQDEDPLEENNTLDEDIQQDDF 4052
Query: 1313 SKRTAAQKKVVTVETSDSEDEIIIDDDEAFEI-AAPEEGKKGGRKAAGNSKAAKPAAETK 1371
S +K D +E + +++E+ E +E + G + P + K
Sbjct: 4053 SDLAEDDEK----MNEDGFEENVQENEESTEDGVKSDEELEQGEVPEDQAIDNHPKMDAK 4108
Query: 1372 KR-GPAKKQQPEASLGQRLLTEMLKPAESSPEKKVRKMRASPFNKKSGSMLGRAGTIEEP 1430
A+ + G E E E VR +G+ G ++E
Sbjct: 4109 STFASAEADEENTDKGIVGENE-----ELGEEDGVR---------GNGTADGEFEQVQED 4154
Query: 1431 SGSSPSTSEEVAEVLPPKARP----QRANRRQARYVLSDSESEKATDDSEF---DEDEDE 1483
+ + E Q+ANR L++S+ +A DDSEF EDE+E
Sbjct: 4155 TSTPKEAMSEADRQYQSLGDHLREWQQANRIHEWEDLTESQ-SQAFDDSEFMHVKEDEEE 4213
Query: 1484 D 1484
D
Sbjct: 4214 D 4214
>gnl|CDD|235505 PRK05563, PRK05563, DNA polymerase III subunits gamma and tau;
Validated.
Length = 559
Score = 34.5 bits (80), Expect = 0.56
Identities = 14/70 (20%), Positives = 30/70 (42%), Gaps = 3/70 (4%)
Query: 1266 EDEVPDLKQRLAKLNEQLASTKLEPSPDQSGVMETEKVQVPAKKKEPSKRTAAQKKVVTV 1325
+ E+ L QR+ +L ++L K +P E ++ + KK + K + K+ V
Sbjct: 368 DTELEVLLQRVEQLEQELKQLKAQPVGVAP---EQKEKKKEKKKNKKKKYKVPRGKIYKV 424
Query: 1326 ETSDSEDEII 1335
+ ++
Sbjct: 425 LKEATRQDLE 434
>gnl|CDD|226669 COG4214, XylH, ABC-type xylose transport system, permease component
[Carbohydrate transport and metabolism].
Length = 394
Score = 34.2 bits (79), Expect = 0.59
Identities = 16/63 (25%), Positives = 24/63 (38%), Gaps = 16/63 (25%)
Query: 526 IMTDQVLLAPLSFLLWFILIFAWITTFCFMLAQDHDGSHIKGLLINFIHSFWPSLLKIPS 585
I+ + L L + L +I + G LI FW + LK+PS
Sbjct: 96 ILDVKWGLPWLGWPLPVTIIVTLVL----------------GGLIGAWQGFWIAYLKVPS 139
Query: 586 FLV 588
F+V
Sbjct: 140 FIV 142
>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell
envelope biogenesis, outer membrane].
Length = 387
Score = 34.2 bits (78), Expect = 0.61
Identities = 40/159 (25%), Positives = 64/159 (40%), Gaps = 18/159 (11%)
Query: 1250 RAGLKKAPAEKLDDDEEDEVPDLKQRLAKLNE---QLASTKLEPSPDQSGVMETEKVQVP 1306
++ KK ++ EE +LK + A E QL +L+ Q E EK
Sbjct: 71 QSSAKKGEQQRKKK-EEQVAEELKPKQAAEQERLKQLEKERLKAQEQQKQAEEAEKQAQL 129
Query: 1307 AKKK--EPSKRTAAQKKVVTVETSDSEDEIIIDDDEAFEIAAPEEGKKGGRKAAGNSKAA 1364
+K+ E +++ AA++K +E EA ++ A E KK KA +AA
Sbjct: 130 EQKQQEEQARKAAAEQK------KKAEAAKAKAAAEAAKLKAAAEAKK---KAE---EAA 177
Query: 1365 KPAAETKKRGPAKKQQPEASLGQRLLTEMLKPAESSPEK 1403
K A E K + A + +A + E K + K
Sbjct: 178 KAAEEAKAKAEAAAAKKKAEAEAKAAAEKAKAEAEAKAK 216
Score = 31.8 bits (72), Expect = 2.5
Identities = 28/118 (23%), Positives = 39/118 (33%), Gaps = 9/118 (7%)
Query: 1254 KKAPAEKLDDDEEDEVPDLKQRLAKLNEQLASTKLEPSPDQSGVMETEKVQVPAKKKEPS 1313
KKA A K E K E+ A E +K + AK
Sbjct: 147 KKAEAAKAKAAAEAAKLKAAAEAKKKAEEAAKAAEEAKAKAEAAAAKKKAEAEAKAAAEK 206
Query: 1314 KRTAAQKKVVTVETSDSEDEIIIDDDEAFEIAAPEEGKKGGRKAAGNSKAAKPAAETK 1371
+ A+ K + + + A E AA E+ K + A + AA AAE K
Sbjct: 207 AKAEAEAKAKAEKKA---------EAAAEEKAAAEKKKAAAKAKADKAAAAAKAAERK 255
>gnl|CDD|226020 COG3489, COG3489, Predicted periplasmic lipoprotein [General function
prediction only].
Length = 359
Score = 33.7 bits (77), Expect = 0.79
Identities = 33/137 (24%), Positives = 50/137 (36%), Gaps = 24/137 (17%)
Query: 1139 LTLEKVQGLLADRDKLNEEVDDLRKATPESLWVKDLDALDMQL-----DELD-KSDARAE 1192
L++VQ LLA++D+ + DDL S+ V+ L AL+ L D L K+
Sbjct: 112 TGLKQVQQLLANKDESAWDADDLAGK---SVAVQGLGALEFVLFGSGADLLTAKTGQFRC 168
Query: 1193 EERMKIKGN------------GNGDAGPKIVAKRAPKNARKNDKKSNNARATEAMGEMDN 1240
I GN D G P+N D + E +G + N
Sbjct: 169 PYGAAISGNIQRNATDILAAWNKPDGGQATWMSPGPQNPLYRD---DREARAELLGVLVN 225
Query: 1241 VTKVVKPKGRAGLKKAP 1257
+++K K P
Sbjct: 226 QLEMIKDKRLRPFYNGP 242
>gnl|CDD|223132 COG0054, RibH, Riboflavin synthase beta-chain [Coenzyme
metabolism].
Length = 152
Score = 32.2 bits (74), Expect = 0.86
Identities = 14/24 (58%), Positives = 17/24 (70%), Gaps = 1/24 (4%)
Query: 310 ATIKGGT-HVDYVANQVANHVMAV 332
A I+G T H DYVAN+VA +M V
Sbjct: 80 AVIRGETYHFDYVANEVARGLMDV 103
>gnl|CDD|221396 pfam12051, DUF3533, Protein of unknown function (DUF3533). This
family of transmembrane proteins is functionally
uncharacterized. This protein is found in bacteria and
eukaryotes. Proteins in this family are typically
between 393 to 772 amino acids in length.
Length = 379
Score = 33.4 bits (77), Expect = 0.92
Identities = 22/87 (25%), Positives = 33/87 (37%), Gaps = 24/87 (27%)
Query: 527 MTDQVLLAPLSFLLWFILIFAWITTFCFMLAQDHDGSHIKGLLINFIH-SFWPSLLKIPS 585
TD VLLAPL L +++I + F FM + +H LK
Sbjct: 197 FTDGVLLAPLQVGLIYLIILTF---FQFM-------------FLGPLHAEMGHRKLKFRH 240
Query: 586 FLV-EFITPIVKATNKNGKVLS-FYSM 610
L+ + I+ LS F+S+
Sbjct: 241 LLIYRLLISILSY-----FFLSLFFSL 262
>gnl|CDD|112890 pfam04094, DUF390, Protein of unknown function (DUF390). This is a
family of long proteins currently only found in the rice
genome. They have no known function. However they may be
some kind of transposable element.
Length = 843
Score = 33.6 bits (76), Expect = 1.0
Identities = 32/144 (22%), Positives = 56/144 (38%), Gaps = 13/144 (9%)
Query: 1351 KKGGRKAAGNSKAAKPAAETKKRGPAKKQQPEASLGQRL------------LTEMLKPAE 1398
+ R+ G + ++P E KK+ K +PE + G + + + P
Sbjct: 125 RASSRRPEGAAPTSQPEGERKKKRFCKMGEPEHAGGNLIRLPGGRFADLPAGSSLRSPRP 184
Query: 1399 SSPEKKVRKMRASPFNKKSGSMLGRAGTIEEPSGSSPSTSEEVAEVLPPKARPQRANRRQ 1458
S R++ PF + PS S S E + +AR + A+RR+
Sbjct: 185 YSFSHLPRRVFTHPFLFVFWFFFCLSEIPSRPSRHSKSGQSEAEDPAAAEARRREADRRE 244
Query: 1459 ARYVLSDSESEKATDDSEFDEDED 1482
A L ++E E A D + + E+
Sbjct: 245 AADRLREAE-EAAQDAARARQAEE 267
>gnl|CDD|178304 PLN02701, PLN02701, alpha-mannosidase.
Length = 1050
Score = 33.2 bits (76), Expect = 1.2
Identities = 17/41 (41%), Positives = 26/41 (63%), Gaps = 5/41 (12%)
Query: 25 KTIEEMYQKKSQLEHILLRPDTYIGSIEKHTQALWIYEEES 65
T+EE YQ++S+ HIL DT + S+ K + +I+EE S
Sbjct: 56 LTVEEYYQEQSR--HIL---DTIVESLSKDPRRKFIWEEMS 91
>gnl|CDD|237865 PRK14951, PRK14951, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 618
Score = 33.1 bits (76), Expect = 1.3
Identities = 19/136 (13%), Positives = 33/136 (24%), Gaps = 13/136 (9%)
Query: 1351 KKGGRKAAGNSKAAKPAAETKKRGPAKKQQPEASLGQRLLTEMLKPAESSPEKKVRKMRA 1410
K A K A + PA +A+ PA ++ A
Sbjct: 365 KPAAAAEAAAPAEKKTPARPEAAAPAAAPVAQAAAAP---APAAAPAAAASAPAAPPAAA 421
Query: 1411 SPFNKKSGSMLGRAGTIEEPSGSSPSTSEEVAEV--------LPPKARPQRANRRQARYV 1462
P + A + + +P + P+ A A
Sbjct: 422 PP--APVAAPAAAAPAAAPAAAPAAVALAPAPPAQAAPETVAIPVRVAPEPAVASAAPAP 479
Query: 1463 LSDSESEKATDDSEFD 1478
+ + + T E D
Sbjct: 480 AAAPAAARLTPTEEGD 495
>gnl|CDD|224668 COG1754, COG1754, Uncharacterized C-terminal domain of topoisomerase
IA [General function prediction only].
Length = 298
Score = 32.4 bits (74), Expect = 1.6
Identities = 14/57 (24%), Positives = 22/57 (38%), Gaps = 5/57 (8%)
Query: 1329 DSEDEIIIDDDEAFEI-----AAPEEGKKGGRKAAGNSKAAKPAAETKKRGPAKKQQ 1380
+D I +EA E+ A GKK +KA A + + AK ++
Sbjct: 236 KGKDPASITLEEALELLAERRAKGGPGKKPAKKATAAKAKKTTAKKAAAKKAAKTKK 292
>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein. TolA couples the inner membrane
complex of itself with TolQ and TolR to the outer
membrane complex of TolB and OprL (also called Pal). Most
of the length of the protein consists of low-complexity
sequence that may differ in both length and composition
from one species to another, complicating efforts to
discriminate TolA (the most divergent gene in the tol-pal
system) from paralogs such as TonB. Selection of members
of the seed alignment and criteria for setting scoring
cutoffs are based largely conserved operon struction.
//The Tol-Pal complex is required for maintaining outer
membrane integrity. Also involved in transport (uptake)
of colicins and filamentous DNA, and implicated in
pathogenesis. Transport is energized by the proton motive
force. TolA is an inner membrane protein that interacts
with periplasmic TolB and with outer membrane porins
ompC, phoE and lamB [Transport and binding proteins,
Other, Cellular processes, Pathogenesis].
Length = 346
Score = 32.5 bits (74), Expect = 1.8
Identities = 23/116 (19%), Positives = 46/116 (39%)
Query: 1289 EPSPDQSGVMETEKVQVPAKKKEPSKRTAAQKKVVTVETSDSEDEIIIDDDEAFEIAAPE 1348
+P P G + + P + + R QKK + + + ++ +EA + A E
Sbjct: 28 KPEPGGGGEIIQAVLVDPGAVAQQANRIQQQKKPAAKKEQERQKKLEQQAEEAEKQRAAE 87
Query: 1349 EGKKGGRKAAGNSKAAKPAAETKKRGPAKKQQPEASLGQRLLTEMLKPAESSPEKK 1404
+ ++ + ++ A AE + +KQ+ + E AE+ EKK
Sbjct: 88 QARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKAKQAAEAKAKAEAEAEKK 143
>gnl|CDD|219401 pfam07404, TEBP_beta, Telomere-binding protein beta subunit (TEBP
beta). This family consists of several telomere-binding
protein beta subunits which appear to be specific to the
family Oxytrichidae. Telomeres are specialised
protein-DNA complexes that compose the ends of eukaryotic
chromosomes. Telomeres protect chromosome termini from
degradation and recombination and act together with
telomerase to ensure complete genome replication. TEBP
beta forms a complex with TEBP alpha and this complex is
able to recognise and bind ssDNA to form a
sequence-specific, telomeric nucleoprotein complex that
caps the very 3' ends of chromosomes.
Length = 375
Score = 32.4 bits (73), Expect = 1.9
Identities = 21/98 (21%), Positives = 37/98 (37%)
Query: 1339 DEAFEIAAPEEGKKGGRKAAGNSKAAKPAAETKKRGPAKKQQPEASLGQRLLTEMLKPAE 1398
D + A + K A G KAA +A+ KK K ++ ++ + +++K
Sbjct: 227 DALNKAADHTDVAKVKGGAKGKGKAAAKSAKGKKLSAKKGDSASSADVRKSVDKIVKYTP 286
Query: 1399 SSPEKKVRKMRASPFNKKSGSMLGRAGTIEEPSGSSPS 1436
+ P + + S K S P+ SPS
Sbjct: 287 NKPSSRKETPQKSQAGKSSAKKTTTGSKKAVPANPSPS 324
>gnl|CDD|187742 cd09209, Lumazine_synthase-I, lumazine synthase
(6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes
the penultimate step in the biosynthesis of riboflavin
(vitamin B2); type-I. Type-I LS, also known as RibH1,
catalyzes the penultimate step in the biosynthesis of
riboflavin in plants and microorganisms. LS catalyse the
formation of 6,7-dimethyl-8-ribityllumazine by the
condensation of
5-amino-6-ribitylamino-2,4(1H,3H)-pyrimidinedione with
3,4-dihydroxy- 2-butanone-4-phosphate. Subsequently, the
lumazine intermediate dismutates to yield riboflavin and
5-amino-6-ribitylamino- 2,4(1H,3H)-pyrimidinedione, in a
reaction catalyzed by riboflavin synthase synthase (RS);
RS belongs to a different family of the
Lumazine-synthase-like superfamily. Riboflavin is the
precursor of flavin mononucleotide (FMN) and flavin
adenine dinucleotide (FAD) which are essential cofactors
for the catalysis of a wide range of redox reactions.
These cofactors are also involved in many other
processes involving DNA repair, circadian time-keeping,
light sensing, and bioluminescence. Riboflavin is
biosynthesized in plants, fungi and certain
microorganisms; as animals lack the necessary enzymes to
produce this vitamin, they acquire it from dietary
sources. Type II LSs are distinct from type-I LS not
only in protein sequence, but in that they exhibit
different quaternary assemblies; type-I LSs form
pentamers. The pathogen Brucella spp. encode both a
Type-I LS and a Type-II LS called RibH1 and RibH2,
respectively. RibH1/type-I LS appears to be the
functional LS in Brucella spp., whereas RibH2/type-II LS
has much lower catalytic activity as LS. The pathogen
Brucella spp. have both a type-I LS and a type-II LS
called RibH1 and RibH2, respectively. RibH1/type-I LS
appears to be a functional LS in Brucella spp., whereas
RibH2/type-II LS has much lower catalytic activity as
LS.
Length = 133
Score = 30.9 bits (71), Expect = 1.9
Identities = 10/22 (45%), Positives = 14/22 (63%), Gaps = 1/22 (4%)
Query: 312 IKGGT-HVDYVANQVANHVMAV 332
I+G T H DYV N+V +M +
Sbjct: 68 IRGETPHFDYVCNEVTRGLMRL 89
>gnl|CDD|185671 PTZ00494, PTZ00494, tuzin-like protein; Provisional.
Length = 664
Score = 32.4 bits (73), Expect = 2.1
Identities = 39/171 (22%), Positives = 68/171 (39%), Gaps = 15/171 (8%)
Query: 1119 VVNGVQSIDYDYLLSMAIGTLTLEKVQGLLADRDKLNEEVD----------DLRKATPES 1168
+VN ++S +D AI + + G A+R L E VD +L + ++
Sbjct: 225 LVNWLRSCVHDPRDVEAIALVLFSR--GWRAERMYLLEGVDLLPFVFVSRVELDSVSEKA 282
Query: 1169 LWVKDLDALDMQLDELDKSDARAEEERMKIKGNGNGDAGPKIVAKRAPKNARKNDKKSNN 1228
W +D D L D K KG + AG +VA N R ++
Sbjct: 283 RWERDHDKAMQMLRRERVKDTNFRYALAKYKGTMSCIAGVLVVAYVFTANLRAYRRQQ-- 340
Query: 1229 ARATEAMGEMDNVTKVVKPKGRAGLKKAPAEKLDDDEEDEVPDLKQRLAKL 1279
R + ++ ++K +P+ G+ A AE + EDE ++ L ++
Sbjct: 341 -RGHQLRTAIETLSKAARPRKEEGMLAAAAEAFEVRREDEEALVRSVLTQM 390
>gnl|CDD|221175 pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polymerase III subunit
Rpc31. RNA polymerase III contains seventeen subunits in
yeasts and in human cells. Twelve of these are akin to
RNA polymerase I or II and the other five are RNA pol
III-specific, and form the functionally distinct groups
(i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34
and Rpc82 form a cluster of enzyme-specific subunits that
contribute to transcription initiation in S.cerevisiae
and H.sapiens. There is evidence that these subunits are
anchored at or near the N-terminal Zn-fold of Rpc1,
itself prolonged by a highly conserved but RNA polymerase
III-specific domain.
Length = 221
Score = 31.6 bits (72), Expect = 2.2
Identities = 26/115 (22%), Positives = 46/115 (40%), Gaps = 15/115 (13%)
Query: 1371 KKRGPAKKQQPEASLGQRLLTEMLKPAESSPEKKVRKMRASPFNKKSGSMLGRAGTIEEP 1430
+K GP+ K+ P L + L +K +K+ S F +K G E+
Sbjct: 96 RKIGPSIKEHP---FDLELFPKELYSVMGINKKAGKKLALSKFKRKVGL---FTEEEEDI 149
Query: 1431 SGSSPSTSEEVAEVLPPKARPQRA-NRRQARYVLSDSESEKATDDSEFDEDEDED 1484
E +L K + A + + + E E+ +D +FD+D+D+D
Sbjct: 150 D--------EKLSMLEKKLKELEAEDVDEEDEKDEEEEEEEEEEDEDFDDDDDDD 196
>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional.
Length = 333
Score = 32.2 bits (73), Expect = 2.2
Identities = 20/115 (17%), Positives = 34/115 (29%), Gaps = 2/115 (1%)
Query: 1345 AAPEEGKKGGRKAAGNSKAAKPAAETKKRGPAKKQQPEASLGQRLLTEMLKPAESSPEKK 1404
A KK +K A + + A AKK + A + + +K A K
Sbjct: 218 KAKSAAKKVSKKKAAKTAVSAKKAAKTAAKAAKKAKKTAKKALKKAAKAVKKAAKKAAKA 277
Query: 1405 VRKMRASP--FNKKSGSMLGRAGTIEEPSGSSPSTSEEVAEVLPPKARPQRANRR 1457
K K +AG + +T++ K + +R
Sbjct: 278 AAKAAKGAAKATKGKAKAKKKAGKKAAAGSKAKATAKAPKRGAKGKKAKKVTKKR 332
>gnl|CDD|146273 pfam03546, Treacle, Treacher Collins syndrome protein Treacle.
Length = 519
Score = 32.2 bits (72), Expect = 2.2
Identities = 31/154 (20%), Positives = 61/154 (39%), Gaps = 22/154 (14%)
Query: 1345 AAPEEGKKGGRKAA--GNSKAAKPAAETKKRGPAKKQQPEASLGQRLLTEMLKPAESSPE 1402
AA + G++ + + +S+ P A T PA+ + + ++PA +
Sbjct: 81 AAAQAGEEEAKSSEEESDSEGETPTAATLTTSPAQAKPLGKN-------SQVRPASTVTP 133
Query: 1403 KKVRKMRASPFNKKSGSMLGRAGTIEEPSGSSPSTSEEVAEVLPPKAR------------ 1450
K P +K+GS + G E+ SS S+ P +A+
Sbjct: 134 GPSGKGANLPCPQKAGSAAVQVGKQEDSESSSEEESDSDGPGAPAQAKSSGKLLQARPAS 193
Query: 1451 -PQRANRRQARYVLSDSESEKATDDSEFDEDEDE 1483
P + ++A V + ++E+ +DSE E+ +
Sbjct: 194 GPAKGPPQKAGPVATQVKAERGKEDSESSEESSD 227
>gnl|CDD|218797 pfam05890, Ebp2, Eukaryotic rRNA processing protein EBP2. This
family consists of several Eukaryotic rRNA processing
protein EBP2 sequences. Ebp2p is required for the
maturation of 25S rRNA and 60S subunit assembly. Ebp2p
may be one of the target proteins of Rrs1p for executing
the signal to regulate ribosome biogenesis. This family
also plays a role in chromosome segregation.
Length = 270
Score = 31.9 bits (73), Expect = 2.4
Identities = 32/122 (26%), Positives = 48/122 (39%), Gaps = 17/122 (13%)
Query: 1142 EKVQGLLADRDKLNEEVDDLRKATPESLWVKDLDALDMQLDELDKSDARAEEERMKIKGN 1201
EK+Q ++ + E++ L+K DL D +D+ A + K KG
Sbjct: 153 EKLQERAKEKKDMLEKIKKLKKKRKGGGDEGDL--FDFLVDD-------AAKGGSKKKGR 203
Query: 1202 GNGDAGPKIVAKRAPKNA------RKNDKKSNNARATEAMGEMDNVTKVVKPKGRAGLKK 1255
G A K AKR K+A +K KSN A ++ + K +K G AG
Sbjct: 204 KGGAARGKPNAKRKAKDAKFGFGGKKRGSKSNTAESSNDLSGFSV--KKMKGGGGAGKGG 261
Query: 1256 AP 1257
Sbjct: 262 NK 263
>gnl|CDD|233613 TIGR01877, cas_cas6, CRISPR-associated endoribonuclease Cas6.
CRISPR is a term for Clustered, Regularly Interspaced
Short Palidromic Repeats. A number of protein families
appear only in association with these repeats and are
designated Cas (CRISPR-Associated) proteins. This
broadly distributed, highly divergent Cas family is now
characterized as an endoribonuclease that generates
guide RNAs for host defense against phage and other
invaders. The family contains a C-terminal motif
GXGXXXXXGXG, where the each X between two Gly is
hydrophobic and the spacer XXXXX contains (usually) one
Arg or Lys. The seed alignment for the current version
of this model has gappy columns removed. Members of this
protein family are found associated with several
different CRISPR/cas system subtypes, and consequently
we designate this family Cas6 [Mobile and
extrachromosomal element functions, Other].
Length = 199
Score = 31.5 bits (72), Expect = 2.4
Identities = 29/107 (27%), Positives = 45/107 (42%), Gaps = 11/107 (10%)
Query: 585 SFLVEFITPIVKATNKNGKVLSFYSMPDYEAWKESLGGNASSWSIKYYKGLGTSTSKEGK 644
+ ++PIV T + GK +Y +PD E + ESL N IK Y + +
Sbjct: 82 EVTFKTLSPIVIRTKRKGKRKDYYLLPDDELFFESLKRNL----IKKYNLFYGEEPELKE 137
Query: 645 EYFQNITLHKKDF--VWEDDQD--GEAIELAFSKKKIEARKKWLLQF 687
F+ I + K V + G A E F +I+ + LL+F
Sbjct: 138 FEFEPIKVKKVVSKPVRIKKKKIYGFAGEGVF---RIKGDPEELLKF 181
>gnl|CDD|236986 PRK11792, queF, 7-cyano-7-deazaguanine reductase; Provisional.
Length = 273
Score = 31.7 bits (73), Expect = 2.8
Identities = 19/60 (31%), Positives = 25/60 (41%), Gaps = 17/60 (28%)
Query: 202 PNI--SKCKEGDNWTKVSFKPDLAKFNMTHLED--DVVALMKKRVVDLAGCLGKSVKVEL 257
PN+ SK SFK L FN T + V +++ DL+ C G V V L
Sbjct: 77 PNLIESK----------SFKLYLNSFNQTRFDSWEAVRQTLER---DLSACAGAKVSVRL 123
>gnl|CDD|227850 COG5563, COG5563, Predicted integral membrane proteins containing
uncharacterized repeats [Function unknown].
Length = 379
Score = 31.7 bits (72), Expect = 3.3
Identities = 28/132 (21%), Positives = 42/132 (31%), Gaps = 30/132 (22%)
Query: 767 GEQSLASTILGMAQDFVGSNNINLLQPNG-QFGTRNQGGKDAASARYIFTRLSPITRF-L 824
G S+A I VGSN+ G FG + Q G IT L
Sbjct: 159 GSSSVARGISSDGSVIVGSNSTAAGIVTGATFGVKWQKG--------------TITDLPL 204
Query: 825 FPKDDDKLLDYLNEDGQQIEPTWYM-------------PIIPTVLVNGSEGIGTGWSSYI 871
P + ++EDGQ I + + G+ G G+ +Y
Sbjct: 205 LPTASGSGANAISEDGQIIGGRSEIVLGGHAFAVIWNGDTKNQLHTLGTLG-GSNSVAYA 263
Query: 872 PNYNPRDIVANV 883
+ + + IV
Sbjct: 264 ISADGKVIVGGS 275
>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger. [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 1096
Score = 31.9 bits (72), Expect = 3.4
Identities = 45/239 (18%), Positives = 77/239 (32%), Gaps = 27/239 (11%)
Query: 1254 KKAPAEKLDDDEEDEVPDLKQRLAKLNEQLASTKLEPSPDQSGVMETEKVQVPAKKKEPS 1313
+A E ++ + + + NE E +Q G E E AK+ +
Sbjct: 653 TEAEGENGEESGGEAEQEGETETKGENESEGEIPAERKGEQEGEGEIE-----AKEADHK 707
Query: 1314 KRTAAQKKVVTVETSDSEDEIIIDDDEAFEIAAPEEGKKGGRKAAGNSKAAKPAAETKKR 1373
T A++ ET E DE EI EEG++ + G ++ R
Sbjct: 708 GETEAEEVEHEGETEAEGTE-----DEG-EIETGEEGEEVEDEGEGEAEGKHEVETEGDR 761
Query: 1374 GPAKKQQPEASLGQRLLTEMLKPAESSPEKKVRKMRASPFNKKSGSMLGRAGTIEEPSGS 1433
+ + + G+ E A E M+ + G E+
Sbjct: 762 KETEHEGETEAEGKEDEDEGEIQAGEDGE-----MKGDEGAEGKVEHEGETEAGEKDEHE 816
Query: 1434 SPSTSEEVAEVLPPKARPQRANRRQARYVLSDSESEKATD--------DSEFDEDEDED 1484
S ++ + + Q N A + EK D DSE +E+E+E+
Sbjct: 817 GQSETQADDTEVKDETGEQELN---AENQGEAKQDEKGVDGGGGSDGGDSEEEEEEEEE 872
>gnl|CDD|192496 pfam10251, PEN-2, Presenilin enhancer-2 subunit of gamma secretase.
This entry is a short 101 peptide protein which is the
smallest subunit of the gamma-secretase aspartyl
protease complex that catalyzes the intramembrane
cleavage of a subset of type I transmembrane proteins.
The other active constituents of the complex are
presenilin (PS) nicastrin and anterior pharynx
defective-1 (APH-1) protein. PEN-2 adopts a hairpin
orientation in the membrane with its N- and C-terminal
domains facing the luminal/extracellular space, and the
C-terminal domain maintains PS stability within the
complex.
Length = 94
Score = 29.6 bits (67), Expect = 3.4
Identities = 9/22 (40%), Positives = 16/22 (72%)
Query: 531 VLLAPLSFLLWFILIFAWITTF 552
V+ + + FL+W +++ WITTF
Sbjct: 52 VIRSAIGFLVWVVVLSTWITTF 73
>gnl|CDD|218538 pfam05285, SDA1, SDA1. This family consists of several SDA1 protein
homologues. SDA1 is a Saccharomyces cerevisiae protein
which is involved in the control of the actin
cytoskeleton. The protein is essential for cell viability
and is localised in the nucleus.
Length = 317
Score = 31.5 bits (72), Expect = 3.6
Identities = 25/124 (20%), Positives = 42/124 (33%), Gaps = 9/124 (7%)
Query: 1326 ETSDSEDEIIIDDDEAFEIAAPEEGKKGGRKAAGNSKAAKPAAETKKRGPAKKQQPEASL 1385
+S+ EI D E E K S+ + A ++ A+K++
Sbjct: 119 IDVESDKEIESSDSEDEEEKDEAAKKAKEDSDEELSEEDEEEAAEEEEAEAEKEKASELA 178
Query: 1386 GQRLLT-------EMLKPAESSPE--KKVRKMRASPFNKKSGSMLGRAGTIEEPSGSSPS 1436
R+LT + L+ + + K R ++ L A IE P+
Sbjct: 179 TTRILTPADFAKIQELRLEKGVDKALGGKLKRRDKDAPERHSDELVDADDIEGPAKKKKQ 238
Query: 1437 TSEE 1440
T EE
Sbjct: 239 TKEE 242
>gnl|CDD|178945 PRK00247, PRK00247, putative inner membrane protein translocase
component YidC; Validated.
Length = 429
Score = 31.4 bits (71), Expect = 3.7
Identities = 22/103 (21%), Positives = 34/103 (33%), Gaps = 5/103 (4%)
Query: 1301 EKVQVPAKKKEPSKRTAAQKKVVTVETSDSEDEIIIDDDEAFEIAAPEEGKKGGRKAAGN 1360
E ++ + A+KK + + +E EI + + E AA + R A
Sbjct: 328 ENAEIKKTRTAEKNEAKARKKEIAQKRRAAEREI--NREARQERAAAMARARARRAAV-- 383
Query: 1361 SKAAKPAAETKKRGPAKKQQPEASLGQRLLTEMLKPAESSPEK 1403
KA K + E S G E AE + E
Sbjct: 384 -KAKKKGLIDASPNEDTPSENEESKGSPPQVEATTTAEPNREP 425
>gnl|CDD|200379 TIGR04128, exoso_Fjoh_1448, exosortase family protein XrtF.
Members of this protein family are exosortase-related
proteins found always in association with a member of
family TIGR04127, a small, hydrophobic, uncharacterized
protein limited to the Bacteriodetes. Exosortases are
proposed transpeptidases with a cysteine active site
(3.4.22.-), but usually are associated with specific
C-terminal target motifs (PEP-CTERM, PEF-CTERM,
PGF-CTERM, etc).
Length = 174
Score = 30.8 bits (70), Expect = 3.8
Identities = 10/42 (23%), Positives = 24/42 (57%)
Query: 315 GTHVDYVANQVANHVMAVVNKKNKNANVKAHNVKNHLWVFVN 356
G + D + + VA+ +++N +AN++ H + + ++VN
Sbjct: 37 GYYPDAITHMVAHQTESLLNAFGYDANIEPHPNEPSMKLYVN 78
>gnl|CDD|234118 TIGR03138, QueF, 7-cyano-7-deazaguanine reductase. This enzyme
catalyzes the 4-electron reduction of the cyano group of
7-cyano-7-deazaguanine (preQ0) to an amine. Although
related to a large family of GTP cyclohydrolases
(pfam01227), the relationship is structural and not
germane to the catalytic mechanism. This mode represents
the longer, gram-negative version of the enzyme as found
in E. coli. The enzymatic step represents the first
point at which the biosynthesis of queuosine in bacteria
and eukaryotes is distinguished from the biosynthesis of
archaeosine in archaea [Transcription, RNA processing].
Length = 275
Score = 31.1 bits (71), Expect = 3.9
Identities = 16/43 (37%), Positives = 22/43 (51%), Gaps = 5/43 (11%)
Query: 217 SFKPDLAKFNMTHLE--DDVVALMKKRVVDLAGCLGKSVKVEL 257
SFK L FN T + ++V ++K DL+ G V VEL
Sbjct: 85 SFKLYLNSFNQTRFDSWEEVRQTLEK---DLSAAAGAEVSVEL 124
>gnl|CDD|234606 PRK00061, ribH, 6,7-dimethyl-8-ribityllumazine synthase;
Provisional.
Length = 154
Score = 30.1 bits (69), Expect = 4.0
Identities = 13/24 (54%), Positives = 16/24 (66%), Gaps = 1/24 (4%)
Query: 310 ATIKGGT-HVDYVANQVANHVMAV 332
A I+G T H DYVAN+VA + V
Sbjct: 80 AVIRGETPHFDYVANEVAKGLADV 103
>gnl|CDD|237803 PRK14724, PRK14724, DNA topoisomerase III; Provisional.
Length = 987
Score = 31.5 bits (71), Expect = 4.5
Identities = 23/83 (27%), Positives = 31/83 (37%), Gaps = 12/83 (14%)
Query: 1306 PAKKKEPSKRTAAQKKVVTVETSDSEDEIIIDDDEAFEIAAPEEGKKGGRKAAGNSKAAK 1365
P + K P ++TAA K AA K +K A + AAK
Sbjct: 849 PRESKFPPRKTAAAKAGAASAAFGGT---------VAVKAAKPAKKAAAKKVAAKTAAAK 899
Query: 1366 ---PAAETKKRGPAKKQQPEASL 1385
AA+ K PA +P A+L
Sbjct: 900 TPRKAAKKKAAPPAAGLKPSAAL 922
>gnl|CDD|234818 PRK00708, PRK00708, sec-independent translocase; Provisional.
Length = 209
Score = 30.6 bits (69), Expect = 4.5
Identities = 20/94 (21%), Positives = 28/94 (29%), Gaps = 13/94 (13%)
Query: 1288 LEPSPDQSGVMETEKVQVPAKKKEPSKRTAAQKKVVTVETSDSEDEIIIDDDEAFEIAAP 1347
P P + + Q A K P+K A + + I
Sbjct: 129 AVPVPAPAPAVAAAAAQAAAAPKAPAKPRAKSPRPAAKAAPKPTETI-----------TA 177
Query: 1348 EEGKKGGRKAAGNSKAAKPAAETKKRGPAKKQQP 1381
++ KK AA A K A KK KK +
Sbjct: 178 KKAKKTA--AAPKPTADKTATPAKKTTKKKKTKA 209
Score = 29.8 bits (67), Expect = 9.3
Identities = 19/68 (27%), Positives = 26/68 (38%), Gaps = 9/68 (13%)
Query: 1345 AAPEEGKKGGRKAAGNSKAAKPAAETKKRGPAKKQQPEASLGQRLLTEMLKPAESSPEKK 1404
A P AA AA P A K R + + +A+ KP E+ KK
Sbjct: 129 AVPVPAPAPAVAAAAAQAAAAPKAPAKPRAKSPRPAAKAA---------PKPTETITAKK 179
Query: 1405 VRKMRASP 1412
+K A+P
Sbjct: 180 AKKTAAAP 187
>gnl|CDD|133000 cd02503, MobA, MobA catalyzes the formation of molybdopterin
guanine dinucleotide. The prokaryotic enzyme
molybdopterin-guanine dinucleotide biosynthesis protein
A (MobA). All mononuclear molybdoenzymes bind molybdenum
in complex with an organic cofactor termed molybdopterin
(MPT). In many bacteria, including Escherichia coli,
molybdopterin can be further modified by attachment of a
GMP group to the terminal phosphate of molybdopterin to
form molybdopterin guanine dinucleotide (MGD). This GMP
attachment step is catalyzed by MobA, by linking a
guanosine 5'-phosphate to MPT forming molybdopterin
guanine dinucleotide. This reaction requires GTP, MgCl2,
and the MPT form of the cofactor. It is a reaction
unique to prokaryotes, and therefore may represent a
potential drug target.
Length = 181
Score = 30.2 bits (69), Expect = 5.1
Identities = 9/50 (18%), Positives = 23/50 (46%), Gaps = 4/50 (8%)
Query: 64 ESKTMIHRTISYVPGLYKIFDEILVNAADNKQRDPKMDAVKVVIDQEHDL 113
K ++ + L + DE++++A +++R + V V+ D+
Sbjct: 24 GGKPLLEHVLE---RLKPLVDEVVISANRDQERYALLG-VPVIPDEPPGK 69
>gnl|CDD|220815 pfam10577, UPF0560, Uncharacterized protein family UPF0560. This
family of proteins has no known function.
Length = 805
Score = 31.4 bits (71), Expect = 5.3
Identities = 29/129 (22%), Positives = 46/129 (35%), Gaps = 25/129 (19%)
Query: 1362 KAAKPAAETKKRGPAKKQQPEASLGQRLLTEMLKPAES-------SPEKKVRKMRASPF- 1413
K E +++ K P + + + E P+ S SPE + P
Sbjct: 677 KLRHGPREEREQTGEKTAPPSTAYTKLVYLEDGDPSSSESRTTVCSPEDSSLR----PLL 732
Query: 1414 NKKSGSMLGRAGTIEEPSGSSPSTSEEVAEVLPPKARPQRANRRQARYVLSDSESEKATD 1473
++ S +A T+EE G S+++ E L R R RR ++ D
Sbjct: 733 DEGSKVSGEQAPTVEESRGR--SSTDSSREPLSSPRR--RRGRR---------PEDELDD 779
Query: 1474 DSEFDEDED 1482
D D ED
Sbjct: 780 DDGDDAGED 788
>gnl|CDD|183703 PRK12724, PRK12724, flagellar biosynthesis regulator FlhF;
Provisional.
Length = 432
Score = 31.1 bits (70), Expect = 5.5
Identities = 24/104 (23%), Positives = 46/104 (44%), Gaps = 13/104 (12%)
Query: 888 NGEMMEPMHPWYRGFG--GTIEKTASKEAGVTY----TVTGIIEEVNETTLRIKELPIRR 941
N E +E M +Y FG ++E + +Y TV E +N + + +L
Sbjct: 314 NLEQLERMQSFYSCFGEKDSVENLLVLSSTSSYHHTLTVLKAYESLNYRRILLTKL---- 369
Query: 942 WTQDYREFLESIIDQNDSFIRGFRQYSDDTTVDFEVFLSEESMM 985
D +FL S ++ D++ + F S V F++ + +++M
Sbjct: 370 ---DEADFLGSFLELADTYSKSFTYLSVGQEVPFDILNATKNLM 410
>gnl|CDD|181619 PRK09039, PRK09039, hypothetical protein; Validated.
Length = 343
Score = 30.7 bits (70), Expect = 5.8
Identities = 29/117 (24%), Positives = 46/117 (39%), Gaps = 17/117 (14%)
Query: 1172 KDLDALDMQLDELDKSDARAEEERMKIKGNGNGDAGPKIVAKRAPKNARKNDKKSNNARA 1231
LD L+ Q+ EL +D + E + GN D + RA +A + ++ A
Sbjct: 53 SALDRLNSQIAEL--ADLLSLERQ------GNQDLQDSVANLRASLSAAEAERSRLQALL 104
Query: 1232 TEAMGEMDNVTKVVKPKGRAGLKK---APAEKLDDDEEDEVPDLKQRLAKLNEQLAS 1285
E G GRAG +++ +V L Q++A L QLA+
Sbjct: 105 AELAGAGAAAE------GRAGELAQELDSEKQVSARALAQVELLNQQIAALRRQLAA 155
>gnl|CDD|240402 PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Provisional.
Length = 651
Score = 30.8 bits (70), Expect = 6.3
Identities = 22/102 (21%), Positives = 38/102 (37%), Gaps = 18/102 (17%)
Query: 1239 DNVTKVVKPKGRAGLKKAPAEKLDDDEEDEVPDLK---QRLAKLNEQLASTKLEPS---- 1291
+ V K + L++ EK E+ + LK ++ K E+L K+ P+
Sbjct: 539 PDGPSVWKLDDKEELQREKEEKEALKEQKRLRKLKKQEEKKKKELEKLEKAKIPPAEFFK 598
Query: 1292 --------PDQSGVMETEKVQVPAKKKEP---SKRTAAQKKV 1322
D++G+ + KKE SK Q K+
Sbjct: 599 RQEDKYSAFDETGLPTHDADGEEISKKERKKLSKEYDKQAKL 640
>gnl|CDD|178229 PLN02621, PLN02621, nicotinamidase.
Length = 197
Score = 30.1 bits (68), Expect = 6.5
Identities = 23/111 (20%), Positives = 42/111 (37%), Gaps = 28/111 (25%)
Query: 878 DIVANVRRLLNGEMMEPMHPWYRGFGGTIEKTASKEAGVT-YTVTGIIEEVN-ETTLRIK 935
+++ + R+ + + Y F T + ++ GV VTG++ + ETT R
Sbjct: 90 ELMPEIGRVTGPDEVVEKST-YSAFYNTRLEERLRKIGVKEVIVTGVMTNLCCETTAR-- 146
Query: 936 ELPIRRWTQDYREFLESIIDQNDSFIRGFRQ-YSDDTTVDFEVFLSEESMM 985
++F+RGFR +S D T L E ++
Sbjct: 147 ----------------------EAFVRGFRVFFSTDATATANEELHEATLK 175
>gnl|CDD|178532 PLN02946, PLN02946, cysteine-tRNA ligase.
Length = 557
Score = 30.7 bits (69), Expect = 6.7
Identities = 18/64 (28%), Positives = 28/64 (43%), Gaps = 15/64 (23%)
Query: 1328 SDSEDEII------IDDDEAFEIAA---------PEEGKKGGRKAAGNSKAAKPAAETKK 1372
SD +II +D+ A+ + PE GK GRK N + A +++K
Sbjct: 173 SDHIPQIIDMIKQILDNGCAYRVDGDVYFSVDKFPEYGKLSGRKLEDNRAGERVAVDSRK 232
Query: 1373 RGPA 1376
+ PA
Sbjct: 233 KNPA 236
>gnl|CDD|185616 PTZ00436, PTZ00436, 60S ribosomal protein L19-like protein;
Provisional.
Length = 357
Score = 30.3 bits (67), Expect = 8.1
Identities = 40/206 (19%), Positives = 82/206 (39%), Gaps = 4/206 (1%)
Query: 1268 EVPDLKQRLAKLNEQLASTKLEPSPDQSGVMETEKVQVPAKKKEPSKRTAAQKKVVTVET 1327
+V + K++ +L EQLA+ +L+ + + E ++ K +E ++R A +
Sbjct: 144 KVKNEKKKERQLAEQLAAKRLKDEQHRHKARKQE-LRKREKDRERARREDAAAAAAAKQK 202
Query: 1328 SDSEDEIIIDDDEAFEIAAPEEGKKG-GRKAAGNSKAAKPAAETKKRGPAKKQQPEASLG 1386
+ ++ ++ + AAP + + AA +KAA A+ PAK P A
Sbjct: 203 AAAKKAAAPSGKKSAKAAAPAKAAAAPAKAAAPPAKAAAAPAKAAA-APAKAAAPPAKAA 261
Query: 1387 QRLLTEMLKPAE-SSPEKKVRKMRASPFNKKSGSMLGRAGTIEEPSGSSPSTSEEVAEVL 1445
PA+ ++P K A + + A P+ ++ + ++ A
Sbjct: 262 APPAKAAAPPAKAAAPPAKAAAPPAKAAAPPAKAAAAPAKAAAAPAKAAAAPAKAAAPPA 321
Query: 1446 PPKARPQRANRRQARYVLSDSESEKA 1471
A P +A A+ +++ A
Sbjct: 322 KAAAPPAKAATPPAKAAAPPAKAAAA 347
>gnl|CDD|215521 PLN02967, PLN02967, kinase.
Length = 581
Score = 30.4 bits (68), Expect = 8.2
Identities = 21/98 (21%), Positives = 38/98 (38%), Gaps = 9/98 (9%)
Query: 1275 RLAKLNEQLASTKLEPSPDQSGVMETEKVQVPAKKKEPSKRTAAQKKVVTVETSDSEDEI 1334
K+ LA + PD++G K KR + V E + E+
Sbjct: 48 SRKKIESALAVDEE---PDENGA------VSKKKPTRSVKRATKKTVVEISEPLEEGSEL 98
Query: 1335 IIDDDEAFEIAAPEEGKKGGRKAAGNSKAAKPAAETKK 1372
++++D A + + + ++ RKAA S + KK
Sbjct: 99 VVNEDAALDKESKKTPRRTRRKAAAASSDVEEEKTEKK 136
>gnl|CDD|216746 pfam01862, PvlArgDC, Pyruvoyl-dependent arginine decarboxylase
(PvlArgDC). Methanococcus jannaschii contains
homologues of most genes required for spermidine
polyamine biosynthesis. Yet genomes from neither this
organism nor any other euryarchaeon have orthologues of
the pyridoxal 5'-phosphate- dependent ornithine or
arginine decarboxylase genes, required to produce
putrescine. Instead,these organisms have a new class of
arginine decarboxylase (PvlArgDC) formed by the
self-cleavage of a proenzyme into a 5-kDa subunit and a
12-kDa subunit that contains a reactive pyruvoyl group.
Although this extremely thermostable enzyme has no
significant sequence similarity to previously
characterized proteins, conserved active site residues
are similar to those of the pyruvoyl-dependent histidine
decarboxylase enzyme, and its subunits form a similar
(alpha-beta)(3) complex. Homologues of PvlArgDC are
found in several bacterial genomes, including those of
Chlamydia spp., which have no agmatine ureohydrolase
enzyme to convert agmatine (decarboxylated arginine)
into putrescine. In these intracellular pathogens,
PvlArgDC may function analogously to pyruvoyl-dependent
histidine decarboxylase; the cells are proposed to
import arginine and export agmatine, increasing the pH
and affecting the host cell's metabolism. Phylogenetic
analysis of Pvl- ArgDC proteins suggests that this gene
has been recruited from the euryarchaeal polyamine
biosynthetic pathway to function as a degradative enzyme
in bacteria.
Length = 159
Score = 29.5 bits (67), Expect = 8.8
Identities = 16/64 (25%), Positives = 22/64 (34%), Gaps = 15/64 (23%)
Query: 729 LKPGQRKILFCSFKRNFIKE-------------AKVAQFSGYVSEHSAYHHGEQSLASTI 775
L PG I+FC RN E K GY+SE+ + E+
Sbjct: 58 LPPGS--IVFCVMARNTSNEPGRTISAAVGVAIPKDKSIYGYISEYHGFGSKEEQAGEYA 115
Query: 776 LGMA 779
+A
Sbjct: 116 EKLA 119
>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common
bacterial type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. This family
represents the SMC protein of most bacteria. The smc gene
is often associated with scpB (TIGR00281) and scpA genes,
where scp stands for segregation and condensation
protein. SMC was shown (in Caulobacter crescentus) to be
induced early in S phase but present and bound to DNA
throughout the cell cycle [Cellular processes, Cell
division, DNA metabolism, Chromosome-associated
proteins].
Length = 1179
Score = 30.4 bits (69), Expect = 8.9
Identities = 42/273 (15%), Positives = 92/273 (33%), Gaps = 41/273 (15%)
Query: 1041 KKVQLENLELELLKLENKVRFILGVVNGEIVVNN--RKRTDLLLELRQKGFTPFPKNSKS 1098
++ ++E LE ++ +LE K+ E + ++ +L EL Q + +
Sbjct: 675 RRREIEELEEKIEELEEKIA------ELEKALAELRKELEELEEELEQLRKELEELSRQI 728
Query: 1099 ----IEAVVAGATDETEESEENPEVVNGVQSIDYDYLLSMAIGTLTLEKVQGLLADRDKL 1154
+ A E E + L + E + A+ ++L
Sbjct: 729 SALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEELAE-AEAEIEEL 787
Query: 1155 NEEVDDLRKATPESLWVKDLDALDMQLDELDKSDARAEEERMKIKGNGNGDAGPKIVAKR 1214
+++ L++ + LD L +L L++ A E ++ I A
Sbjct: 788 EAQIEQLKEEL--KALREALDELRAELTLLNEEAANLRERLESLERR--------IAATE 837
Query: 1215 APKNARKNDKKSNNARATEAMGEMDNVTK---------VVKPKGRAGLKKAPAEKLDD-- 1263
+ + + E++ + + RA L++A A +
Sbjct: 838 RRLEDLEEQIEELSEDIESLAAEIEELEELIEELESELEALLNERASLEEALALLRSELE 897
Query: 1264 -------DEEDEVPDLKQRLAKLNEQLASTKLE 1289
+ E + +L++ L +L E+LA +L
Sbjct: 898 ELSEELRELESKRSELRRELEELREKLAQLELR 930
>gnl|CDD|238727 cd01450, vWFA_subfamily_ECM, Von Willebrand factor type A (vWA)
domain was originally found in the blood coagulation
protein von Willebrand factor (vWF). Typically, the vWA
domain is made up of approximately 200 amino acid
residues folded into a classic a/b para-rossmann type of
fold. The vWA domain, since its discovery, has drawn
great interest because of its widespread occurrence and
its involvement in a wide variety of important cellular
functions. These include basal membrane formation, cell
migration, cell differentiation, adhesion, haemostasis,
signaling, chromosomal stability, malignant
transformation and in immune defenses In integrins
these domains form heterodimers while in vWF it forms
multimers. There are different interaction surfaces of
this domain as seen by the various molecules it
complexes with. Ligand binding in most cases is mediated
by the presence of a metal ion dependent adhesion site
termed as the MIDAS motif that is a characteristic
feature of most, if not all A domains .
Length = 161
Score = 29.2 bits (66), Expect = 9.0
Identities = 11/40 (27%), Positives = 20/40 (50%), Gaps = 4/40 (10%)
Query: 940 RRWTQDYREFLESIIDQNDSFIRGFR----QYSDDTTVDF 975
+ ++F+E ++++ D R QYSDD V+F
Sbjct: 15 PENFEKVKDFIEKLVEKLDIGPDKTRVGLVQYSDDVRVEF 54
>gnl|CDD|220990 pfam11124, Pho86, Inorganic phosphate transporter Pho86. Pho86p is
an ER protein which is produced in response to phosphate
starvation. It is essential for growth when phosphate
levels are limiting. Pho86p is also involved in the
regulation of Pho84p, a high-affinity phosphate
transporter which is localised to the endoplasmic
reticulum (ER) in low phosphate medium. When the level
of phosphate increases Pho84p is transported to the
vacuole. Pho86p is required for packaging of Pho84p in
to COPII vesicles.
Length = 296
Score = 30.0 bits (68), Expect = 9.0
Identities = 20/96 (20%), Positives = 37/96 (38%), Gaps = 14/96 (14%)
Query: 334 NKKNKNANVKAHNVKNHLWVFVN---ALID-NPAFDSQTKETLTLRQSSFGSKCELSEEF 389
+ NK + + H+ V+ + A+I P TK+ ++ + G +
Sbjct: 157 EETNKPRKLTENGKNTHIIVYRDTPIAVISVVPNLVLSTKDNFVMKITGLGVR------- 209
Query: 390 LKKVTAKSGIVETLLSWANFKQSKDLKKNDGTKTED 425
+V KS I E L+ WA + S+ + K
Sbjct: 210 --RVYVKSDIDEDLIDWAMLR-SRQIYKEYLKGKYG 242
>gnl|CDD|233467 TIGR01554, major_cap_HK97, phage major capsid protein, HK97 family.
This model family represents the major capsid protein
component of the heads (capsids) of bacteriophage HK97,
phi-105, P27, and related phage. This model represents
one of several analogous families lacking detectable
sequence similarity. The gene encoding this component is
typically located in an operon encoding the small and
large terminase subunits, the portal protein and the
prohead or maturation protease [Mobile and
extrachromosomal element functions, Prophage functions].
Length = 384
Score = 30.0 bits (68), Expect = 9.1
Identities = 16/88 (18%), Positives = 32/88 (36%), Gaps = 4/88 (4%)
Query: 1152 DKLNEEVDDLRKATPESLWVKDLDALDMQLDELDKSDARAEEERMKIKGNGNGDAGPKIV 1211
+ + KA ++L +++D LD ++D L++ E + G G+ +
Sbjct: 20 EDEKLAEAEEEKAEYDAL-KEEIDKLDAEIDRLEELLDELEAKPAASGEGGGGEEEEEEA 78
Query: 1212 AKRAPKN---ARKNDKKSNNARATEAMG 1236
A + R D R + G
Sbjct: 79 KAEAAEFRAYLRGGDDALAEERKALSTG 106
>gnl|CDD|235154 PRK03739, PRK03739, 2-isopropylmalate synthase; Validated.
Length = 552
Score = 30.1 bits (69), Expect = 9.5
Identities = 12/25 (48%), Positives = 13/25 (52%)
Query: 450 LTEGDSAKALAMAGLSVVGRDRFGV 474
L G A+A A L V GR FGV
Sbjct: 505 LGAGSDAQAAAYVELRVGGRTVFGV 529
>gnl|CDD|201491 pfam00885, DMRL_synthase, 6,7-dimethyl-8-ribityllumazine synthase.
This family includes the beta chain of 6,7-dimethyl-8-
ribityllumazine synthase EC:2.5.1.9, an enzyme involved
in riboflavin biosynthesis. The family also includes a
subfamily of distant archaebacterial proteins that may
also have the same function.
Length = 144
Score = 29.0 bits (66), Expect = 9.8
Identities = 12/22 (54%), Positives = 16/22 (72%), Gaps = 1/22 (4%)
Query: 312 IKGGT-HVDYVANQVANHVMAV 332
I+GGT H DYVA +V+ +M V
Sbjct: 73 IRGGTYHFDYVAQEVSRGLMQV 94
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.313 0.132 0.373
Gapped
Lambda K H
0.267 0.0798 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 75,814,435
Number of extensions: 7704788
Number of successful extensions: 6923
Number of sequences better than 10.0: 1
Number of HSP's gapped: 6552
Number of HSP's successfully gapped: 194
Length of query: 1484
Length of database: 10,937,602
Length adjustment: 109
Effective length of query: 1375
Effective length of database: 6,103,016
Effective search space: 8391647000
Effective search space used: 8391647000
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 65 (28.7 bits)