RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780601|ref|YP_003065014.1| ATP-dependent RNA helicase
protein [Candidatus Liberibacter asiaticus str. psy62]
(573 letters)
>gnl|CDD|183308 PRK11776, PRK11776, ATP-dependent RNA helicase DbpA; Provisional.
Length = 460
Score = 302 bits (776), Expect = 1e-82
Identities = 146/366 (39%), Positives = 212/366 (57%), Gaps = 12/366 (3%)
Query: 15 LSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASA 74
L+E GY +T +Q L L KDV+ A+TGSGKT AFGL L L RF
Sbjct: 19 LNELGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQKLDV--KRF----R 72
Query: 75 PLALAIAPTRELAVQVGRELEWL-YAKTGV-VVAVCIGGVSVHRERRDLQNGAHIVVGTP 132
AL + PTRELA QV +E+ L + V+ +C GGV + + L++GAHI+VGTP
Sbjct: 73 VQALVLCPTRELADQVAKEIRRLARFIPNIKVLTLC-GGVPMGPQIDSLEHGAHIIVGTP 131
Query: 133 GRLCDHIRGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLMFSATISPA 192
GR+ DH+R L++ L +VLDEAD MLD+GF+D I+ I+ +P +R+ L+FSAT
Sbjct: 132 GRILDHLRKGTLDLDALNTLVLDEADRMLDMGFQDAIDAIIRQAPARRQTLLFSATYPEG 191
Query: 193 ITTLAKNYQKDAVRVNIASENRQHSDIDYRAVLVALSDRDNAIVNILRYHGAKNAIVFCS 252
I +++ +Q+D V V + S + I+ R V+ +R A+ +L +H ++ +VFC+
Sbjct: 192 IAAISQRFQRDPVEVKVESTH-DLPAIEQRFYEVSPDERLPALQRLLLHHQPESCVVFCN 250
Query: 253 TRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARGIDLPD 312
T+ L F +AL G+L Q++R L + V +ATDVAARG+D+
Sbjct: 251 TKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRFANRSCSVLVATDVAARGLDIKA 310
Query: 313 LELVIHAELSSNPENLLHRSGRTGRAGRKGMSV-FVIPQNMQRRAERLFREANVSVVWEP 371
LE VI+ EL+ +PE +HR GRTGRAG KG+++ V P+ MQ RA + + WEP
Sbjct: 311 LEAVINYELARDPEVHVHRIGRTGRAGSKGLALSLVAPEEMQ-RANAIEDYLGRKLNWEP 369
Query: 372 APSVEA 377
PS+
Sbjct: 370 LPSLSP 375
>gnl|CDD|183247 PRK11634, PRK11634, ATP-dependent RNA helicase DeaD; Provisional.
Length = 629
Score = 219 bits (560), Expect = 1e-57
Identities = 172/580 (29%), Positives = 275/580 (47%), Gaps = 48/580 (8%)
Query: 11 IGEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFS 70
I EAL++ GY + +Q + L +DVL AQTGSGKT AF L L L E
Sbjct: 17 ILEALNDLGYEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNLDPE----- 71
Query: 71 PASAPLALAIAPTRELAVQVGREL-EWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIVV 129
AP L +APTRELAVQV + ++ GV V GG + R L+ G IVV
Sbjct: 72 -LKAPQILVLAPTRELAVQVAEAMTDFSKHMRGVNVVALYGGQRYDVQLRALRQGPQIVV 130
Query: 130 GTPGRLCDHIRGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLMFSATI 189
GTPGRL DH++ L++S L +VLDEADEML +GF +D+E I+ P+ + +FSAT+
Sbjct: 131 GTPGRLLDHLKRGTLDLSKLSGLVLDEADEMLRMGFIEDVETIMAQIPEGHQTALFSATM 190
Query: 190 SPAITTLAKNYQKDAVRVNIASENRQHSDIDYRAVLVALSDRDNAIVNILRYHGAKNAIV 249
AI + + + K+ V I S DI V ++ A+V L AI+
Sbjct: 191 PEAIRRITRRFMKEPQEVRIQSSVTTRPDISQSYWTVWGMRKNEALVRFLEAEDFDAAII 250
Query: 250 FCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARGID 309
F T+ + + L + + AL+G+++Q R L+ ++DGR + IATDVAARG+D
Sbjct: 251 FVRTKNATLEVAEALERNGYNSAALNGDMNQALREQTLERLKDGRLDILIATDVAARGLD 310
Query: 310 LPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMSVFVIPQNMQRRAER-LFREANVSVV 368
+ + LV++ ++ + E+ +HR GRTGRAGR G ++ + +N +RR R + R +++
Sbjct: 311 VERISLVVNYDIPMDSESYVHRIGRTGRAGRAGRALLFV-ENRERRLLRNIERTMKLTIP 369
Query: 369 WEPAPSVEAIRERD----AQRILQDPLFLDSIQGDEKKMVDVLLAKHDP---------EK 415
P+ E + +R A ++ Q ++ + LLAK P E
Sbjct: 370 EVELPNAELLGKRRLEKFAAKVQQ------QLESSDLDQYRALLAKIQPTAEGEELDLET 423
Query: 416 IAAGFLRIHRAGLCAPEEITPVSLVSGRDRFRDDSRAFKVGGGSRDNFKGSS-------- 467
+AA L++ + P + P + + + FRD R
Sbjct: 424 LAAALLKMAQGE--RPLILPPDAPMRPKREFRDRDDRGPRDRNDRGPRGDREDRPRRERR 481
Query: 468 ------WFSLSVGSKQKAEARWLMPMLCRSSGINRQSIGAIRVQPDLTFVEV----SADG 517
+ + VG E R ++ + I+ + IG I++ + +E+ +
Sbjct: 482 DVGDMQLYRIEVGRDDGVEVRHIVGAIANEGDISSRYIGNIKLFASHSTIELPKGMPGEV 541
Query: 518 VDLLRRTVKLDKGIQLKYLGGEKPDFRGYKSSGFKSKNSQ 557
+ RT L+K + ++ LG +P G + G + +
Sbjct: 542 LQHFTRTRILNKPMNMQLLGDAQPHTGGERRGGGRGFGGE 581
>gnl|CDD|183029 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional.
Length = 434
Score = 213 bits (545), Expect = 8e-56
Identities = 125/343 (36%), Positives = 179/343 (52%), Gaps = 20/343 (5%)
Query: 13 EALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPA 72
EAL ++GY T++Q + P L +DVL SA TG+GKT AF L LL R S
Sbjct: 14 EALQDKGYTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKS-- 71
Query: 73 SAPLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTP 132
P L + PTRELA+QV + L T + +A GGV+ IVV TP
Sbjct: 72 GPPRILILTPTRELAMQVADQARELAKHTHLDIATITGGVAYMNHAEVFSENQDIVVATP 131
Query: 133 GRLCDHIRGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLMFSATI-SP 191
GRL +I+ + + ++ ++LDEAD MLD+GF DIE I + +++ L+FSAT+
Sbjct: 132 GRLLQYIKEENFDCRAVETLILDEADRMLDMGFAQDIETIAAETRWRKQTLLFSATLEGD 191
Query: 192 AITTLAKNYQKDAVRVNIASENRQHSDID---YRAVLVALSDRDNA------IVNILRYH 242
A+ A+ D V V R+ I YRA D+ + ++L+
Sbjct: 192 AVQDFAERLLNDPVEVEAEPSRRERKKIHQWYYRA--------DDLEHKTALLCHLLKQP 243
Query: 243 GAKNAIVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATD 302
+IVF TR V L + L GE+ Q +R+ A++ + DGR V +ATD
Sbjct: 244 EVTRSIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRLTDGRVNVLVATD 303
Query: 303 VAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMSV 345
VAARGID+ D+ VI+ ++ + + LHR GRTGRAGRKG ++
Sbjct: 304 VAARGIDIDDVSHVINFDMPRSADTYLHRIGRTGRAGRKGTAI 346
>gnl|CDD|179276 PRK01297, PRK01297, ATP-dependent RNA helicase RhlB; Provisional.
Length = 475
Score = 209 bits (533), Expect = 2e-54
Identities = 117/338 (34%), Positives = 187/338 (55%), Gaps = 8/338 (2%)
Query: 14 ALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLL---AENDRFS 70
A+ + G+ T +Q +L L D + AQTG+GKT AF +++ + LL +R+
Sbjct: 101 AIHDLGFPYCTPIQAQVLGYTLAGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERY- 159
Query: 71 PASAPLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQ-NGAHIVV 129
P AL IAPTREL VQ+ ++ L TG+ V +GG+ ++ + L+ I+V
Sbjct: 160 -MGEPRALIIAPTRELVVQIAKDAAALTKYTGLNVMTFVGGMDFDKQLKQLEARFCDILV 218
Query: 130 GTPGRLCDHIRGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKK--RRMLMFSA 187
TPGRL D + +++ ++ +VLDEAD MLD+GF + I+ +P+K R+ L+FSA
Sbjct: 219 ATPGRLLDFNQRGEVHLDMVEVMVLDEADRMLDMGFIPQVRQIIRQTPRKEERQTLLFSA 278
Query: 188 TISPAITTLAKNYQKDAVRVNIASENRQHSDIDYRAVLVALSDRDNAIVNILRYHGAKNA 247
T + + LAK + D V I EN ++ VA SD+ + N++ + +
Sbjct: 279 TFTDDVMNLAKQWTTDPAIVEIEPENVASDTVEQHVYAVAGSDKYKLLYNLVTQNPWERV 338
Query: 248 IVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARG 307
+VF + + V R + L + LSG++ Q +R L+ R+G+ RV +ATDVA RG
Sbjct: 339 MVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRIKTLEGFREGKIRVLVATDVAGRG 398
Query: 308 IDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMSV 345
I + + VI+ L +P++ +HR GRTGRAG G+S+
Sbjct: 399 IHIDGISHVINFTLPEDPDDYVHRIGRTGRAGASGVSI 436
>gnl|CDD|179884 PRK04837, PRK04837, ATP-dependent RNA helicase RhlB; Provisional.
Length = 423
Score = 204 bits (522), Expect = 4e-53
Identities = 120/353 (33%), Positives = 185/353 (52%), Gaps = 28/353 (7%)
Query: 8 PQVIGEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLL---A 64
PQV+ EAL ++G+ N T +Q L L +DV AQTG+GKT+AF A LL A
Sbjct: 17 PQVV-EALEKKGFHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPA 75
Query: 65 ENDRFSPASAPLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNG 124
DR + P AL +APTRELAVQ+ + E L TG+ + + GG ++ + L++G
Sbjct: 76 PEDR--KVNQPRALIMAPTRELAVQIHADAEPLAQATGLKLGLAYGGDGYDKQLKVLESG 133
Query: 125 AHIVVGTPGRLCDHIRGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDS--SPKKRRM 182
I++GT GRL D+ + +N+ ++ VVLDEAD M DLGF DI ++ +R
Sbjct: 134 VDILIGTTGRLIDYAKQNHINLGAIQVVVLDEADRMFDLGFIKDIRWLFRRMPPANQRLN 193
Query: 183 LMFSATISPAITTLAKNYQKDAVRVNIASENRQHSDI----------DYRAVLVALSDRD 232
++FSAT+S + LA + + V + E + I + +L L + +
Sbjct: 194 MLFSATLSYRVRELAFEHMNNPEYVEVEPEQKTGHRIKEELFYPSNEEKMRLLQTLIEEE 253
Query: 233 NAIVNILRYHGAKNAIVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRD 292
AI+F +T+ LA +V L+G+++Q++R L+
Sbjct: 254 ----------WPDRAIIFANTKHRCEEIWGHLAADGHRVGLLTGDVAQKKRLRILEEFTR 303
Query: 293 GRARVCIATDVAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMSV 345
G + +ATDVAARG+ +P + V + +L + E+ +HR GRTGRAG G S+
Sbjct: 304 GDLDILVATDVAARGLHIPAVTHVFNYDLPDDCEDYVHRIGRTGRAGASGHSI 356
>gnl|CDD|185609 PTZ00424, PTZ00424, helicase 45; Provisional.
Length = 401
Score = 200 bits (510), Expect = 9e-52
Identities = 119/348 (34%), Positives = 189/348 (54%), Gaps = 14/348 (4%)
Query: 19 GYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLAL 78
G+ +++Q+ + P L D + AQ+G+GKT F +A+ L + D +A AL
Sbjct: 47 GFEKPSAIQQRGIKPILDGYDTIGQAQSGTGKTATF--VIAALQLIDYD----LNACQAL 100
Query: 79 AIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTPGRLCDH 138
+APTRELA Q+ + + L V C+GG V + L+ G H+VVGTPGR+ D
Sbjct: 101 ILAPTRELAQQIQKVVLALGDYLKVRCHACVGGTVVRDDINKLKAGVHMVVGTPGRVYDM 160
Query: 139 IRGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLMFSATISPAITTLAK 198
I + L + LK +LDEADEML GF+ I + P ++ +FSAT+ I L
Sbjct: 161 IDKRHLRVDDLKLFILDEADEMLSRGFKGQIYDVFKKLPPDVQVALFSATMPNEILELTT 220
Query: 199 NYQKDAVRVNIASENRQHSDIDYRAVLVALSDRD---NAIVNILRYHGAKNAIVFCSTRA 255
+ +D R+ + + I R VA+ + + + ++ AI++C+TR
Sbjct: 221 KFMRDPKRILVKKDELTLEGI--RQFYVAVEKEEWKFDTLCDLYETLTITQAIIYCNTRR 278
Query: 256 SVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARGIDLPDLEL 315
V TK + E F V + G++ Q++R ++ R G RV I TD+ ARGID+ + L
Sbjct: 279 KVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRSGSTRVLITTDLLARGIDVQQVSL 338
Query: 316 VIHAELSSNPENLLHRSGRTGRAGRKGMSV-FVIPQNMQ--RRAERLF 360
VI+ +L ++PEN +HR GR+GR GRKG+++ FV P +++ + ER +
Sbjct: 339 VINYDLPASPENYIHRIGRSGRFGRKGVAINFVTPDDIEQLKEIERHY 386
>gnl|CDD|182572 PRK10590, PRK10590, ATP-dependent RNA helicase RhlE; Provisional.
Length = 456
Score = 195 bits (496), Expect = 3e-50
Identities = 122/374 (32%), Positives = 192/374 (51%), Gaps = 8/374 (2%)
Query: 11 IGEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFS 70
I A++E+GY T +Q+ + L +D++ SAQTG+GKT F L L L +
Sbjct: 12 ILRAVAEQGYREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQ-HLITRQPHA 70
Query: 71 PASAPL-ALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIVV 129
P+ AL + PTRELA Q+G + + V GGVS++ + L+ G ++V
Sbjct: 71 KGRRPVRALILTPTRELAAQIGENVRDYSKYLNIRSLVVFGGVSINPQMMKLRGGVDVLV 130
Query: 130 GTPGRLCDHIRGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLMFSATI 189
TPGRL D + + ++ +VLDEAD MLD+GF DI +L P KR+ L+FSAT
Sbjct: 131 ATPGRLLDLEHQNAVKLDQVEILVLDEADRMLDMGFIHDIRRVLAKLPAKRQNLLFSATF 190
Query: 190 SPAITTLAKNYQKDAVRVNIASENRQHSDIDYRAVLVALSDRDNAIVNILRYHGAKNAIV 249
S I LA+ + + + +A N + V + + ++ + +V
Sbjct: 191 SDDIKALAEKLLHNPLEIEVARRNTASEQVTQHVHFVDKKRKRELLSQMIGKGNWQQVLV 250
Query: 250 FCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARGID 309
F T+ + + L + + A+ G SQ R+ AL + G RV +ATD+AARG+D
Sbjct: 251 FTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKSGDIRVLVATDIAARGLD 310
Query: 310 LPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMS---VFVIPQNMQRRAERLFREANVS 366
+ +L V++ EL + PE+ +HR GRTGRA G + V V + R E+L ++
Sbjct: 311 IEELPHVVNYELPNVPEDYVHRIGRTGRAAATGEALSLVCVDEHKLLRDIEKLLKKEIPR 370
Query: 367 VV---WEPAPSVEA 377
+ +EP PS++A
Sbjct: 371 IAIPGYEPDPSIKA 384
>gnl|CDD|179861 PRK04537, PRK04537, ATP-dependent RNA helicase RhlB; Provisional.
Length = 572
Score = 176 bits (448), Expect = 1e-44
Identities = 118/338 (34%), Positives = 191/338 (56%), Gaps = 16/338 (4%)
Query: 15 LSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASA 74
L G+ T +Q L L DV AQTG+GKT+AF +A+ + LL+ PA A
Sbjct: 24 LESAGFTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFLVAVMNRLLSR-----PALA 78
Query: 75 ------PLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIV 128
P AL +APTRELA+Q+ ++ A G+ A+ GGV ++R LQ G ++
Sbjct: 79 DRKPEDPRALILAPTRELAIQIHKDAVKFGADLGLRFALVYGGVDYDKQRELLQQGVDVI 138
Query: 129 VGTPGRLCDHIRG-KGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKK--RRMLMF 185
+ TPGRL D+++ K +++ + VLDEAD M DLGF DI F+L P++ R+ L+F
Sbjct: 139 IATPGRLIDYVKQHKVVSLHACEICVLDEADRMFDLGFIKDIRFLLRRMPERGTRQTLLF 198
Query: 186 SATISPAITTLAKNYQKDAVRVNIASENRQHSDIDYRAVLVALSDRDNAIVNIL-RYHGA 244
SAT+S + LA + + ++ + +E + + R A ++ ++ +L R GA
Sbjct: 199 SATLSHRVLELAYEHMNEPEKLVVETETITAARVRQRIYFPADEEKQTLLLGLLSRSEGA 258
Query: 245 KNAIVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVA 304
+ +VF +T+A V R + L H ++V LSG++ Q++R + L + G+ + +ATDVA
Sbjct: 259 RT-MVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLLNRFQKGQLEILVATDVA 317
Query: 305 ARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKG 342
ARG+ + ++ V + +L + E+ +HR GRT R G +G
Sbjct: 318 ARGLHIDGVKYVYNYDLPFDAEDYVHRIGRTARLGEEG 355
>gnl|CDD|185453 PTZ00110, PTZ00110, helicase; Provisional.
Length = 545
Score = 176 bits (447), Expect = 2e-44
Identities = 114/364 (31%), Positives = 184/364 (50%), Gaps = 8/364 (2%)
Query: 8 PQVIGEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAEND 67
P I ++L G+ T +Q L +D++ A+TGSGKT+AF L + A+
Sbjct: 138 PDYILKSLKNAGFTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPAIVHINAQP- 196
Query: 68 RFSPASAPLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHI 127
P+ L +APTRELA Q+ + A + + V GGV + L+ G I
Sbjct: 197 LLRYGDGPIVLVLAPTRELAEQIREQCNKFGASSKIRNTVAYGGVPKRGQIYALRRGVEI 256
Query: 128 VVGTPGRLCDHIRGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLMFSA 187
++ PGRL D + N+ + +VLDEAD MLD+GF I I+ R+ LM+SA
Sbjct: 257 LIACPGRLIDFLESNVTNLRRVTYLVLDEADRMLDMGFEPQIRKIVSQIRPDRQTLMWSA 316
Query: 188 TISPAITTLAKNYQKD-AVRVNIASENRQHS-DIDYRAVLVALSDRDNAIVNILRYHGAK 245
T + +LA++ K+ V VN+ S + +I +V ++ + +L+
Sbjct: 317 TWPKEVQSLARDLCKEEPVHVNVGSLDLTACHNIKQEVFVVEEHEKRGKLKMLLQRIMRD 376
Query: 246 NA--IVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDV 303
++F T+ TK L + + + G+ Q+ER+ L + G++ + IATDV
Sbjct: 377 GDKILIFVETKKGADFLTKELRLDGWPALCIHGDKKQEERTWVLNEFKTGKSPIMIATDV 436
Query: 304 AARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMS-VFVIPQN--MQRRAERLF 360
A+RG+D+ D++ VI+ + + E+ +HR GRTGRAG KG S F+ P + R ++
Sbjct: 437 ASRGLDVKDVKYVINFDFPNQIEDYVHRIGRTGRAGAKGASYTFLTPDKYRLARDLVKVL 496
Query: 361 REAN 364
REA
Sbjct: 497 REAK 500
>gnl|CDD|177796 PLN00206, PLN00206, DEAD-box ATP-dependent RNA helicase;
Provisional.
Length = 518
Score = 159 bits (403), Expect = 2e-39
Identities = 110/366 (30%), Positives = 184/366 (50%), Gaps = 19/366 (5%)
Query: 6 NIPQVIGEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLAL-ASTLLA 64
+P + L GY T +Q + L + +LVSA TGSGKT +F + + +
Sbjct: 127 GLPPKLLLNLETAGYEFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFLVPIISRCCTI 186
Query: 65 ENDRFSPASAPLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNG 124
+ S PLA+ + PTREL VQV + + L A+ +GG ++ ++ +Q G
Sbjct: 187 RSGHPSEQRNPLAMVLTPTRELCVQVEDQAKVLGKGLPFKTALVVGGDAMPQQLYRIQQG 246
Query: 125 AHIVVGTPGRLCDHIRGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLM 184
++VGTPGRL D + + + ++ +VLDE D ML+ GFRD + I + + ++L+
Sbjct: 247 VELIVGTPGRLIDLLSKHDIELDNVSVLVLDEVDCMLERGFRDQVMQIFQALSQP-QVLL 305
Query: 185 FSATISPAITTLAKNYQKDAVRVNIASENRQHSDIDYRAVLVALSDRDNAIVNIL--RYH 242
FSAT+SP + A + KD + ++I + NR + + A+ V + + +IL + H
Sbjct: 306 FSATVSPEVEKFASSLAKDIILISIGNPNRPNKAVKQLAIWVETKQKKQKLFDILKSKQH 365
Query: 243 GAKNAIVFCSTRASVSRFTKVLAEHL-----FQVVALSGELSQQERSNALQMMRDGRARV 297
A+VF S+R +LA + + +++ GE S +ER ++ G V
Sbjct: 366 FKPPAVVFVSSRLG----ADLLANAITVVTGLKALSIHGEKSMKERREVMKSFLVGEVPV 421
Query: 298 CIATDVAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMS-VFVIPQNMQRRA 356
+AT V RG+DL + VI ++ + + +H+ GR R G KG + VFV ++
Sbjct: 422 IVATGVLGRGVDLLRVRQVIIFDMPNTIKEYIHQIGRASRMGEKGTAIVFVNEED----- 476
Query: 357 ERLFRE 362
LF E
Sbjct: 477 RNLFPE 482
>gnl|CDD|128763 smart00487, DEXDc, DEAD-like helicases superfamily.
Length = 201
Score = 154 bits (391), Expect = 5e-38
Identities = 66/197 (33%), Positives = 99/197 (50%), Gaps = 9/197 (4%)
Query: 15 LSERGYVNLTSVQEAILNP-DLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPAS 73
+ + G+ L Q+ + +DV+++A TGSGKT+A L L
Sbjct: 1 IEKFGFEPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALKRGKG------ 54
Query: 74 APLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNG-AHIVVGTP 132
L + PTRELA Q EL+ L G+ V GG S + R L++G I+V TP
Sbjct: 55 -KRVLVLVPTRELAEQWAEELKKLGPSLGLKVVGLYGGDSKREQLRKLESGKTDILVTTP 113
Query: 133 GRLCDHIRGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLMFSATISPA 192
GRL D + L +S++ V+LDEA +LD GF D +E +L PK ++L+ SAT
Sbjct: 114 GRLLDLLENDLLELSNVDLVILDEAHRLLDGGFGDQLEKLLKLLPKNVQLLLLSATPPEE 173
Query: 193 ITTLAKNYQKDAVRVNI 209
I L + + D V +++
Sbjct: 174 IENLLELFLNDPVFIDV 190
>gnl|CDD|128766 smart00490, HELICc, helicase superfamily c-terminal domain.
Length = 82
Score = 86.1 bits (214), Expect = 2e-17
Identities = 35/81 (43%), Positives = 51/81 (62%)
Query: 259 RFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARGIDLPDLELVIH 318
++L E +V L G LSQ+ER L+ +G+ +V +ATDVA RG+DLP ++LVI
Sbjct: 2 ELAELLKELGIKVARLHGGLSQEEREEILEKFNNGKIKVLVATDVAERGLDLPGVDLVII 61
Query: 319 AELSSNPENLLHRSGRTGRAG 339
+L +P + + R GR GRAG
Sbjct: 62 YDLPWSPASYIQRIGRAGRAG 82
>gnl|CDD|130456 TIGR01389, recQ, ATP-dependent DNA helicase RecQ. The
ATP-dependent DNA helicase RecQ of E. coli is about 600
residues long. This model represents bacterial proteins
with a high degree of similarity in domain architecture
and in primary sequence to E. coli RecQ. The model
excludes eukaryotic and archaeal proteins with RecQ-like
regions, as well as more distantly related bacterial
helicases related to RecQ.
Length = 591
Score = 64.3 bits (157), Expect = 8e-11
Identities = 38/180 (21%), Positives = 74/180 (41%), Gaps = 12/180 (6%)
Query: 185 FSATISPAITTLAKNYQKDAVR-VNIASENRQHSDIDYRAVLVALSDRDNAIVNILRY-- 241
+AT ++D + +A N + D + ++ ++N +L Y
Sbjct: 168 LTATADAET-------RQDIRELLRLADANEFITSFDRPNLRFSVVKKNNKQKFLLDYLK 220
Query: 242 -HGAKNAIVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIA 300
H ++ I++ S+R V + L +A LS + R+ + +V +A
Sbjct: 221 KHRGQSGIIYASSRKKVEELAERLESQGISALAYHAGLSNKVRAENQEDFLYDDVKVMVA 280
Query: 301 TDVAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMSV-FVIPQNMQRRAERL 359
T+ GID P++ VIH ++ N E+ +GR GR G ++ P ++ R+
Sbjct: 281 TNAFGMGIDKPNVRFVIHYDMPGNLESYYQEAGRAGRDGLPAEAILLYSPADIALLKRRI 340
>gnl|CDD|129701 TIGR00614, recQ_fam, ATP-dependent DNA helicase, RecQ family. This
family is based on the phylogenomic analysis of JA Eisen
(1999, Ph.D. Thesis, Stanford University).
Length = 470
Score = 61.3 bits (149), Expect = 6e-10
Identities = 76/352 (21%), Positives = 129/352 (36%), Gaps = 69/352 (19%)
Query: 19 GYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPA--SAPL 76
G + VQ ++N L +D V TG GK++ + L PA S +
Sbjct: 8 GLSSFRPVQLEVINAVLLGRDCFVVMPTGGGKSLCYQL--------------PALCSDGI 53
Query: 77 ALAIAPTRELAV-QVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGA-----HIVVG 130
L I+P L QV L K + A + +++++ ++
Sbjct: 54 TLVISPLISLMEDQV------LQLKASGIPATFLNSSQSKEQQKNVLTDLKDGKIKLLYV 107
Query: 131 TPGRLCDHIRGKGLNISHLKA------VVLDEADEMLDLG--FRDDIEF--ILDSSPKKR 180
TP + L + L+ + +DEA + G FR D + L
Sbjct: 108 TPEKCS---ASNRL-LQTLEERKGITLIAVDEAHCISQWGHDFRPDYKALGSLKQKFPNV 163
Query: 181 RMLMFSATISPAITTLAKNYQKDAVR--------VNIASENRQHSDIDYRAVLVALSDRD 232
++ +AT SP++ ++D +R + S +R + + R
Sbjct: 164 PIMALTATASPSV-------REDILRQLNLKNPQIFCTSFDRPNLYYEVR------RKTP 210
Query: 233 NAIVNILRY----HGAKNAIVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQ 288
+ ++LR+ K+ I++C +R + T L A L R +
Sbjct: 211 KILEDLLRFIRKEFKGKSGIIYCPSRKKSEQVTASLQNLGIAAGAYHAGLEISARDDVHH 270
Query: 289 -MMRDGRARVCIATDVAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAG 339
RD +V +AT GI+ PD+ VIH L + E+ SGR GR G
Sbjct: 271 KFQRD-EIQVVVATVAFGMGINKPDVRFVIHYSLPKSMESYYQESGRAGRDG 321
>gnl|CDD|162177 TIGR01054, rgy, reverse gyrase. Generally, these gyrases are
encoded as a single polypeptide. An exception was found
in Methanopyrus kandleri, where enzyme is split within
the topoisomerase domain, yielding a heterodimer of gene
products designated RgyB and RgyA.
Length = 1171
Score = 49.1 bits (117), Expect = 3e-06
Identities = 68/329 (20%), Positives = 113/329 (34%), Gaps = 75/329 (22%)
Query: 35 LREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLALAIAPTRELAVQVGREL 94
LR + A TG GKT FGLA++ L + R I PT L +QV ++
Sbjct: 91 LRGDSFAIIAPTGVGKT-TFGLAMSLFLAKKGKR--------CYIILPTTLLVIQVAEKI 141
Query: 95 EWLYAKTGV--VVAVCIGGVSVHRERRDL-----QNGAHIVVGTPGRLCDHIRGKGLNIS 147
L K GV V +E+++ I++ T L +
Sbjct: 142 SSLAEKAGVGTVNIGAYHSRLPTKEKKEFMERIENGDFDILITTTMFLSKNYD---ELGP 198
Query: 148 HLKAVVLDEADEMLD-----------LGFRDDI-----------------------EFIL 173
+ +D+ D +L LGF +++ +L
Sbjct: 199 KFDFIFVDDVDALLKASKNVDKLLKLLGFSEELIEKAWKLIRLRLKLYRALHAKKRLELL 258
Query: 174 DSSPKKRR--MLMFSATISPAITTLAKNYQKDAVRVNIASENRQHSDIDYRAVLVALSDR 231
++ P K+R +++ SAT P + + R + E SD V V + D
Sbjct: 259 EAIPGKKRGCLIVSSATGRP------RGKRAKLFRELLGFEVGGGSDTLRNVVDVYVEDE 312
Query: 232 D--NAIVNILRYHGAKNAIVFCSTRAS---VSRFTKVLAEHLFQVVALSGELSQQERSNA 286
D ++ I++ G IV+ S + L H + VA +++
Sbjct: 313 DLKETLLEIVKKLG-TGGIVYVSIDYGKEKAEEIAEFLENHGVKAVAYHATKPKED---- 367
Query: 287 LQMMRDGRARVCIAT----DVAARGIDLP 311
+ +G V I RG+DLP
Sbjct: 368 YEKFAEGEIDVLIGVASYYGTLVRGLDLP 396
>gnl|CDD|166873 PRK00254, PRK00254, ski2-like helicase; Provisional.
Length = 720
Score = 48.7 bits (116), Expect = 4e-06
Identities = 53/195 (27%), Positives = 89/195 (45%), Gaps = 22/195 (11%)
Query: 1 MKIFE-NIPQVIGEALSERGYVNLTSVQ-EAILNPDLREKDVLVSAQTGSGKTVAFGLAL 58
MK+ E + + I L ERG L Q EA+ + L K+++++ T SGKT+ + +
Sbjct: 1 MKVDELRVDERIKRVLKERGIEELYPPQAEALKSGVLEGKNLVLAIPTASGKTLVAEIVM 60
Query: 59 ASTLLAENDRFSPASAPLALAIAPTRELAVQVGREL-EWLYAKTGVVVAVCIGGVSVHRE 117
+ LL E + A+ + P + LA + RE +W K G+ VA+ G +
Sbjct: 61 VNKLLREGGK--------AVYLVPLKALAEEKYREFKDW--EKLGLRVAMTTGD---YDS 107
Query: 118 RRDLQNGAHIVVGTPGRLCDHIRGKGLNISHLKAVVLDEADEMLDLGFRD---DIEFILD 174
+ I++ T + +R I +K VV ADE+ +G D +E IL
Sbjct: 108 TDEWLGKYDIIIATAEKFDSLLRHGSSWIKDVKLVV---ADEIHLIGSYDRGATLEMILT 164
Query: 175 SSPKKRRMLMFSATI 189
+ ++L SAT+
Sbjct: 165 HMLGRAQILGLSATV 179
>gnl|CDD|184313 PRK13766, PRK13766, Hef nuclease; Provisional.
Length = 773
Score = 48.3 bits (116), Expect = 5e-06
Identities = 33/121 (27%), Positives = 54/121 (44%), Gaps = 19/121 (15%)
Query: 235 IVNILRYHGAKNAIVFCSTRASVSRFTKVLAEHLFQVVALSGE--------LSQQERSNA 286
+ L + IVF R + + +L + + V G+ +SQ+E+
Sbjct: 356 VKEQLGKNPDSRIIVFTQYRDTAEKIVDLLEKEGIKAVRFVGQASKDGDKGMSQKEQIEI 415
Query: 287 LQMMRDGRARVCIATDVAARGIDLPDLELVIH-----AELSSNPENLLHRSGRTGRAGRK 341
L R G V ++T VA G+D+P ++LVI +E+ S + R GRTGR +
Sbjct: 416 LDKFRAGEFNVLVSTSVAEEGLDIPSVDLVIFYEPVPSEIRS-----IQRKGRTGR-QEE 469
Query: 342 G 342
G
Sbjct: 470 G 470
Score = 29.8 bits (68), Expect = 1.7
Identities = 27/105 (25%), Positives = 45/105 (42%), Gaps = 24/105 (22%)
Query: 223 AVLVALSDRDNAIVNILRYHGAKNAIVFCSTRASV----SRFTKVLAEHLFQVVALSGEL 278
A+LV L G K ++ T+ V F K L ++V +GE+
Sbjct: 46 ALLVIAE--------RLHKKGGK-VLILAPTKPLVEQHAEFFRKFLNIPEEKIVVFTGEV 96
Query: 279 SQQERSNALQMMRDGRARVCIAT------DVAARGIDLPDLELVI 317
S ++R+ + +A+V +AT D+ A I L D+ L+I
Sbjct: 97 SPEKRAELWE-----KAKVIVATPQVIENDLIAGRISLEDVSLLI 136
>gnl|CDD|100801 PRK01172, PRK01172, ski2-like helicase; Provisional.
Length = 674
Score = 48.0 bits (114), Expect = 7e-06
Identities = 80/347 (23%), Positives = 137/347 (39%), Gaps = 62/347 (17%)
Query: 38 KDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLALAIAPTRELAVQVGRELEWL 97
++V+VS T +GKT+ A+ T LA ++ I P R LA++ EL L
Sbjct: 38 ENVIVSVPTAAGKTLIAYSAIYETFLAGLK---------SIYIVPLRSLAMEKYEELSRL 88
Query: 98 YAKTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTPGRLCDHIRGKGLNISHLKAVVLDEA 157
G+ V + IG + + D +V+ T + I I+ + +V DE
Sbjct: 89 -RSLGMRVKISIGD---YDDPPDFIKRYDVVILTSEKADSLIHHDPYIINDVGLIVADEI 144
Query: 158 DEMLDLGFRDDIEFILDSS---PKKRRMLMFSATISPAI--------TTLAKNYQKDAVR 206
+ D +E +L S+ R+L SAT+S A + + N++ ++
Sbjct: 145 HIIGDEDRGPTLETVLSSARYVNPDARILALSATVSNANELAQWLNASLIKSNFRPVPLK 204
Query: 207 VNIASENRQHSDIDYRAVLVALSDRDNAIVNILRYHGAKNAIVFCSTRASVSRFTKVLAE 266
+ I R D R+ + D ++ I + G +VF S+R + + ++L +
Sbjct: 205 LGILYRKRLILDGYERSQV----DINSLIKETVNDGG--QVLVFVSSRKNAEDYAEMLIQ 258
Query: 267 HL--FQVVALSGE-----------------------LSQQERSNALQMMRDGRARVCIAT 301
H F +S E LS ++R +M R+ +V +AT
Sbjct: 259 HFPEFNDFKVSSENNNVYDDSLNEMLPHGVAFHHAGLSNEQRRFIEEMFRNRYIKVIVAT 318
Query: 302 DVAARGIDLPDLELVI------HAELSSNPENLLHRSGRTGRAGRKG 342
A G++LP LVI + + + GRAGR G
Sbjct: 319 PTLAAGVNLP-ARLVIVRDITRYGNGGIRYLSNMEIKQMIGRAGRPG 364
>gnl|CDD|161975 TIGR00643, recG, ATP-dependent DNA helicase RecG.
Length = 630
Score = 47.3 bits (113), Expect = 9e-06
Identities = 77/342 (22%), Positives = 128/342 (37%), Gaps = 74/342 (21%)
Query: 41 LVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLALAIAPTRELAVQVGRELEWLYAK 100
L+ GSGKT+ +A + L A A +AL +APT LA Q L L A
Sbjct: 260 LLQGDVGSGKTL---VAALAMLAA-----IEAGYQVAL-MAPTEILAEQHYNSLRNLLAP 310
Query: 101 TGVVVAVCIGGVSVHRERR---DLQNGA-HIVVGTPGRLCDHIRGKGLNISHLKAVVLDE 156
G+ VA+ G + R + + +G H+VVGT + + + K L + V++DE
Sbjct: 311 LGIEVALLTGSLKGKRRKELLETIASGQIHLVVGTHALIQEKVEFKRLAL-----VIIDE 365
Query: 157 A--------DEMLDLGFRDDIEFILDSSPKKRRMLMFSATISP---AITTLAK------- 198
++ + G +L+ SAT P A+T
Sbjct: 366 QHRFGVEQRKKLREKG----------QGGFTPHVLVMSATPIPRTLALTVYGDLDTSIID 415
Query: 199 --NYQKDAVRVNIASENRQHSDIDYRAVLVALSDRDNAIVNILRYH-----GAKNAIVFC 251
+ + + + + DI Y + ++ A V K A
Sbjct: 416 ELPPGRKPITTVLIKHDEK--DIVYEFIEEEIAKGRQAYVVYPLIEESEKLDLKAAEALY 473
Query: 252 STRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARGIDLP 311
R K + + V L G + E+ ++ R+G + +AT V G+D+P
Sbjct: 474 ------ERLKKAFPK--YNVGLLHGRMKSDEKEAVMEEFREGEVDILVATTVIEVGVDVP 525
Query: 312 DLELVI--HAE---LSSNPENLLHR-SGRTGRAGRKGMSVFV 347
+ +++ AE LS LH+ GR GR + + V
Sbjct: 526 NATVMVIEDAERFGLSQ-----LHQLRGRVGRGDHQSYCLLV 562
>gnl|CDD|162630 TIGR01970, DEAH_box_HrpB, ATP-dependent helicase HrpB. This model
represents HrpB, one of two related but uncharacterized
DEAH-box ATP-dependent helicases in many Proteobacteria,
but also in a few species of other lineages. The member
from Rhizobium meliloti has been designated HelO. HrpB
is typically about 800 residues in length, while its
paralog HrpA (TIGR01967), also uncharacterized, is about
1300 amino acids long. Related characterized eukarotic
proteins are RNA helicases associated with pre-mRNA
processing.
Length = 819
Score = 45.9 bits (109), Expect = 3e-05
Identities = 83/356 (23%), Positives = 137/356 (38%), Gaps = 71/356 (19%)
Query: 40 VLVSAQTGSGKTVAFGLAL-------ASTLLAENDRFSPASAPLALAIAPTRELAVQVGR 92
V++ A G+GK+ A LAL ++ E R + SA LA +L VG+
Sbjct: 20 VVLEAPPGAGKSTAVPLALLDAPGIGGKIIMLEPRRLAARSAAQRLA----SQLGEAVGQ 75
Query: 93 ELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGA--HIVVGTPGRLCDHIRGKGLNISHLK 150
+ + R R + + + V T G L I+ + +
Sbjct: 76 TVGY-------------------RVRGENKVSRRTRLEVVTEGILTRMIQ-DDPELDGVG 115
Query: 151 AVVLDEADEM---LDLGFRDDIEFILDSSPKKR---RMLMFSATISPAITTLAKNYQKDA 204
A++ DE E DLG + LD R ++L SAT+ + + DA
Sbjct: 116 ALIFDEFHERSLDADLG----LALALDVQSSLREDLKILAMSATLDGERLS---SLLPDA 168
Query: 205 VRVNIASENRQHS-DIDYRAVLV--ALSDRDNAIVNILRYHGAKNAIVFCSTRASVSRFT 261
V SE R +I Y + L D + V + +VF +A + R
Sbjct: 169 PVV--ESEGRSFPVEIRYLPLRGDQRLEDAVSRAVEHALASETGSILVFLPGQAEIRRVQ 226
Query: 262 KVLAEHL---FQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARGIDLPDLELVIH 318
+ LAE L + L GELS + A++ GR +V +AT++A + + + +VI
Sbjct: 227 EQLAERLDSDVLICPLYGELSLAAQDRAIKPDPQGRRKVVLATNIAETSLTIEGIRVVID 286
Query: 319 AEL----SSNPENLLHR-----------SGRTGRAGR--KGMSVFVIPQNMQRRAE 357
+ L +P+ + R + R GRAGR G+ + + +R
Sbjct: 287 SGLARVARFDPKTGITRLETVRISQASATQRAGRAGRLEPGVCYRLWSEEQHQRLP 342
>gnl|CDD|181823 PRK09401, PRK09401, reverse gyrase; Reviewed.
Length = 1176
Score = 41.1 bits (97), Expect = 9e-04
Identities = 78/372 (20%), Positives = 121/372 (32%), Gaps = 112/372 (30%)
Query: 35 LREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLALAIAPTRELAVQVGREL 94
L + + A TG GKT FGL ++ LA+ + S I PTR L QV +L
Sbjct: 93 LLGESFAIIAPTGVGKTT-FGLVMSL-YLAKKGKKS-------YIIFPTRLLVEQVVEKL 143
Query: 95 EWLYAKTGVVVAVCIGGVSVHRERRD-----LQNG-AHIVVGTPGRLCDHIRGKGLNISH 148
E K G V + S+ ++ ++ L+ G I+V T L + +
Sbjct: 144 EKFGEKVGCGVKILYYHSSLKKKEKEEFLERLKEGDFDILVTTSQFLSKNFD----ELPK 199
Query: 149 LK--AVVLDEADEMLD-----------LGF-RDDIEF----------------------- 171
K V +D+ D +L LGF +DIE
Sbjct: 200 KKFDFVFVDDVDAVLKSSKNIDKLLYLLGFSEEDIEKAMELIRLKRKYEEIYEKIRELEE 259
Query: 172 -ILDSSPKKRRMLMFSATISPAITTLAKNYQK--------------DAVRVNIASENRQH 216
I + KK +++ SAT P N K +R NI
Sbjct: 260 KIAELKDKKGVLVVSSATGRP-----RGNRVKLFRELLGFEVGSPVFYLR-NI------- 306
Query: 217 SDIDYRAVLVALSDRDNAIVNILRYHGAKNAIVFCST---RASVSRFTKVLAEHLFQVVA 273
+D V ++ +V L ++F + + + L +
Sbjct: 307 --VDSYIVDEDSVEKLVELVKRLG----DGGLIFVPSDKGKEYAEELAEYLEDLGINA-- 358
Query: 274 LSGELSQQERSNALQMMRDGRARVCI--AT--DVAARGIDLPDL----------ELVIHA 319
EL+ + +G V + A+ V RGIDLP+ +
Sbjct: 359 ---ELAISGFERKFEKFEEGEVDVLVGVASYYGVLVRGIDLPERIRYAIFYGVPKFKFSL 415
Query: 320 ELSSNPENLLHR 331
E P LL R
Sbjct: 416 EEELAPPFLLLR 427
>gnl|CDD|182933 PRK11057, PRK11057, ATP-dependent DNA helicase RecQ; Provisional.
Length = 607
Score = 38.5 bits (90), Expect = 0.004
Identities = 26/99 (26%), Positives = 46/99 (46%), Gaps = 3/99 (3%)
Query: 245 KNAIVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVA 304
K+ I++C++RA V L A L R++ + + ++ +AT
Sbjct: 237 KSGIIYCNSRAKVEDTAARLQSRGISAAAYHAGLDNDVRADVQEAFQRDDLQIVVATVAF 296
Query: 305 ARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGM 343
GI+ P++ V+H ++ N E+ TGRAGR G+
Sbjct: 297 GMGINKPNVRFVVHFDIPRNIESYYQE---TGRAGRDGL 332
>gnl|CDD|182836 PRK10917, PRK10917, ATP-dependent DNA helicase RecG; Provisional.
Length = 681
Score = 38.6 bits (91), Expect = 0.005
Identities = 33/92 (35%), Positives = 45/92 (48%), Gaps = 19/92 (20%)
Query: 47 GSGKTVAFGLALASTLLA-ENDRFSPASAPLALAIAPTRELAVQVGREL-EWLYAKTGVV 104
GSGKTV +A + L A E + AL +APT LA Q L + L G+
Sbjct: 292 GSGKTV---VAALAALAAIEAGYQA------AL-MAPTEILAEQHYENLKKLL-EPLGIR 340
Query: 105 VAVCIGGVSVHRERR----DLQNG-AHIVVGT 131
VA+ G + +ERR + +G A IV+GT
Sbjct: 341 VALLTGSLKG-KERREILEAIASGEADIVIGT 371
>gnl|CDD|163529 TIGR03817, DECH_helic, helicase/secretion neighborhood putative
DEAH-box helicase. A conserved gene neighborhood widely
spread in the Actinobacteria contains this
uncharacterized DEAH-box family helicase encoded
convergently towards an operon of genes for protein
homologous to type II secretion and pilus formation
proteins. The context suggests that this helicase may
play a role in conjugal transfer of DNA.
Length = 742
Score = 35.5 bits (82), Expect = 0.042
Identities = 40/123 (32%), Positives = 58/123 (47%), Gaps = 15/123 (12%)
Query: 40 VLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLALAIAPTRELAVQVGRELEWLYA 99
V+V+ T SGK++A+ L + S LA++ R + AL +APT+ LA R + L
Sbjct: 54 VVVATGTASGKSLAYQLPVLSA-LADDPRAT------ALYLAPTKALAADQLRAVREL-T 105
Query: 100 KTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTP-----GRLCDHIRGKGLNISHLKAVVL 154
GV A G + ERR + A V+ P G L H R + L+ VV+
Sbjct: 106 LRGVRPA-TYDGDTPTEERRWAREHARYVLTNPDMLHRGILPSHARWARF-LRRLRYVVI 163
Query: 155 DEA 157
DE
Sbjct: 164 DEC 166
Score = 32.0 bits (73), Expect = 0.41
Identities = 17/58 (29%), Positives = 28/58 (48%)
Query: 290 MRDGRARVCIATDVAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMSVFV 347
+RDG T+ G+D+ L+ V+ A +L ++GR GR G+ + V V
Sbjct: 325 LRDGELLGVATTNALELGVDISGLDAVVIAGFPGTRASLWQQAGRAGRRGQGALVVLV 382
>gnl|CDD|162437 TIGR01587, cas3_core, CRISPR-associated helicase Cas3. This model
represents the highly conserved core region of an
alignment of Cas3, a protein found in association with
CRISPR repeat elements in a broad range of bacteria and
archaea. Cas3 appears to be a helicase, with regions
found by pfam00270 (DEAD/DEAH box helicase) and
pfam00271 (Helicase conserved C-terminal domain). Some
but not all members have an N-terminal HD domain region
(pfam01966) that is not included within this model.
Length = 358
Score = 34.7 bits (80), Expect = 0.063
Identities = 41/246 (16%), Positives = 86/246 (34%), Gaps = 33/246 (13%)
Query: 152 VVLDEADEMLD--LGFRDDIEFILDSSPKKR-RMLMFSATISPAITTLAKNYQKDAVRVN 208
++ DE + L I +L+ +L+ SAT+ + A+
Sbjct: 128 LIFDEVHFYDEYTLAL---ILAVLEVLKDNDVPILLMSATLPKFLKEYAEKIGYV---EF 181
Query: 209 IASENRQHSDIDYRAVLVALSDRDNAIVNILR-----YHGAKNAIVFCSTRASVSRFTKV 263
+ + R + + ++ L + +T F +
Sbjct: 182 NEPLDLKEERRFERHRFIKIESDKVGEISSLERLLEFIKKGGKIAIIVNTVDRAQEFYQQ 241
Query: 264 LAE--HLFQVVALSGELSQQERSNA----LQMMRDGRARVCIATDVAARGIDLPDLELVI 317
L E +++ L ++++R+ L+ M+ V +AT V +D+ +++I
Sbjct: 242 LKENAPEEEIMLLHSRFTEKDRAKKEAELLEEMKKNEKFVIVATQVIEASLDI-SADVMI 300
Query: 318 HAELSSNPENLLHRSGRTGRAGRK---GMSVFVIPQNMQRRAERLFREANVSVVWEPAPS 374
EL+ ++L+ R GR R GRK V++I E +V
Sbjct: 301 -TELAP-IDSLIQRLGRLHRYGRKNGENFEVYIITIAP----EGKLFPYPYELVERT--- 351
Query: 375 VEAIRE 380
++ + E
Sbjct: 352 IQKLEE 357
>gnl|CDD|178682 PLN03137, PLN03137, ATP-dependent DNA helicase; Q4-like;
Provisional.
Length = 1195
Score = 34.9 bits (80), Expect = 0.065
Identities = 24/98 (24%), Positives = 40/98 (40%)
Query: 248 IVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARG 307
I++C +R + + L E + G + +R+ + + AT G
Sbjct: 684 IIYCLSRMDCEKVAERLQEFGHKAAFYHGSMDPAQRAFVQKQWSKDEINIICATVAFGMG 743
Query: 308 IDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMSV 345
I+ PD+ VIH L + E GR GR G++ V
Sbjct: 744 INKPDVRFVIHHSLPKSIEGYHQECGRAGRDGQRSSCV 781
>gnl|CDD|137505 PRK09751, PRK09751, putative ATP-dependent helicase Lhr;
Provisional.
Length = 1490
Score = 34.5 bits (79), Expect = 0.078
Identities = 22/71 (30%), Positives = 38/71 (53%), Gaps = 5/71 (7%)
Query: 276 GELSQQERSNALQMMRDGRARVCIATDVAARGIDLPDLELVIHAELSSNPENLLHRSGRT 335
G +S+++R+ Q ++ G R +AT GID+ ++LVI + P ++ R
Sbjct: 309 GSVSKEQRAITEQALKSGELRCVVATSSLELGIDMGAVDLVIQV---ATPLSVASGLQRI 365
Query: 336 GRAGRK--GMS 344
GRAG + G+S
Sbjct: 366 GRAGHQVGGVS 376
>gnl|CDD|180144 PRK05580, PRK05580, primosome assembly protein PriA; Validated.
Length = 679
Score = 34.0 bits (79), Expect = 0.11
Identities = 22/70 (31%), Positives = 32/70 (45%), Gaps = 12/70 (17%)
Query: 285 NALQMMRDGRARVCIATDVAARGIDLPDLELV--IHAELSSN------PE---NLLHR-S 332
L G A + I T + A+G D P++ LV + A+L E LL + +
Sbjct: 471 QLLAQFARGEADILIGTQMLAKGHDFPNVTLVGVLDADLGLFSPDFRASERTFQLLTQVA 530
Query: 333 GRTGRAGRKG 342
GR GRA + G
Sbjct: 531 GRAGRAEKPG 540
>gnl|CDD|184314 PRK13767, PRK13767, ATP-dependent helicase; Provisional.
Length = 876
Score = 33.7 bits (78), Expect = 0.14
Identities = 27/80 (33%), Positives = 37/80 (46%), Gaps = 4/80 (5%)
Query: 18 RGYVNLTSVQ-EAILNPDLRE-KDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAP 75
+ T Q AI P + E K+VL+S+ TGSGKT+A LA+ L
Sbjct: 28 EKFGTFTPPQRYAI--PLIHEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKV 85
Query: 76 LALAIAPTRELAVQVGRELE 95
L ++P R L + R LE
Sbjct: 86 YCLYVSPLRALNNDIHRNLE 105
>gnl|CDD|179415 PRK02362, PRK02362, ski2-like helicase; Provisional.
Length = 737
Score = 33.4 bits (77), Expect = 0.15
Identities = 46/159 (28%), Positives = 69/159 (43%), Gaps = 17/159 (10%)
Query: 1 MKIFE-NIPQVIGEALSERGYVNLTSVQ-EAILNPDLREKDVLVSAQTGSGKTVAFGLAL 58
MKI E +P+ + E G L Q EA+ L K++L + T SGKT+ LA+
Sbjct: 1 MKIAELPLPEGVIEFYEAEGIEELYPPQAEAVEAGLLDGKNLLAAIPTASGKTLIAELAM 60
Query: 59 ASTLLAENDRFSPASAPLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRER 118
+ A AL I P R LA + E E + + GV V + G +
Sbjct: 61 LK---------AIARGGKALYIVPLRALASEKFEEFE-RFEELGVRVGISTGDY----DS 106
Query: 119 RDLQNGAH-IVVGTPGRLCDHIRGKGLNISHLKAVVLDE 156
RD G + I+V T ++ +R + + VV+DE
Sbjct: 107 RDEWLGDNDIIVATSEKVDSLLRNGAPWLDDITCVVVDE 145
>gnl|CDD|183195 PRK11557, PRK11557, putative DNA-binding transcriptional regulator;
Provisional.
Length = 278
Score = 32.8 bits (75), Expect = 0.26
Identities = 43/174 (24%), Positives = 69/174 (39%), Gaps = 42/174 (24%)
Query: 262 KVLAEHLFQ--VVALSGEL---SQQERSNALQMMRDGRARVCIATDVAARGIDLPDL--- 313
+++ E L + A+ L S+++ + M+R AR I T + A G+ +
Sbjct: 92 RLVGEKLIKENTAAMRATLDVNSEEKLHECVTMLR--SARRIILTGIGASGLVAQNFAWK 149
Query: 314 ----------ELVIHAELSS----NPENLLHRSGRTGR----------AGRKGMSVFVI- 348
E +HA L++ +P++LL +G A R G V I
Sbjct: 150 LMKIGINAVAERDMHALLATVQALSPDDLLLAISYSGERRELNLAADEALRVGAKVLAIT 209
Query: 349 ---PQNMQRRAERLFREANVSVVWEPAPSVEAIRERDAQRILQDPLFLDSIQGD 399
P +Q+RA ++ E A AI AQ +L D LF+ IQ D
Sbjct: 210 GFTPNALQQRASHCL----YTIAEEQATRSAAISSTHAQGMLTDLLFMALIQQD 259
>gnl|CDD|161969 TIGR00631, uvrb, excinuclease ABC, B subunit. This family is based
on the phylogenomic analysis of JA Eisen (1999, Ph.D.
Thesis, Stanford University).
Length = 655
Score = 31.9 bits (73), Expect = 0.49
Identities = 28/85 (32%), Positives = 42/85 (49%), Gaps = 8/85 (9%)
Query: 261 TKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARGIDLPDLELVIHAE 320
T L E +V L E+ ER ++ +R G V + ++ G+DLP++ LV A
Sbjct: 459 TDYLKELGIKVRYLHSEIDTLERVEIIRDLRLGEFDVLVGINLLREGLDLPEVSLV--AI 516
Query: 321 LSSNPENLLHRSGRT-----GRAGR 340
L ++ E L RS R+ GRA R
Sbjct: 517 LDADKEGFL-RSERSLIQTIGRAAR 540
>gnl|CDD|183820 PRK12898, secA, preprotein translocase subunit SecA; Reviewed.
Length = 656
Score = 30.4 bits (69), Expect = 1.2
Identities = 43/165 (26%), Positives = 66/165 (40%), Gaps = 33/165 (20%)
Query: 196 LAKNYQKDAVRV--NIASENRQHSDIDYRAVLVALSDRDNAIVNILRYHGAKNAIVFCST 253
L Y VR+ N S+ R D V + + + A+ +R A+ V T
Sbjct: 425 LWSVYGLPVVRIPTNRPSQRRHLPD----EVFLTAAAKWAAVAARVRELHAQGRPVLVGT 480
Query: 254 R--ASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRA-RVCIATDVAARGIDL 310
R A+ R + +L E L+ + +E A + R G+ R+ +AT++A RG D+
Sbjct: 481 RSVAASERLSALLREAGLPHQVLNAKQDAEE---AAIVARAGQRGRITVATNMAGRGTDI 537
Query: 311 ---PDLEL-----VIHAELSSNPENLLHRSGR-----TGRAGRKG 342
P + VI E H S R GR GR+G
Sbjct: 538 KLEPGVAARGGLHVILTE--------RHDSARIDRQLAGRCGRQG 574
>gnl|CDD|163164 TIGR03158, cas3_cyano, CRISPR-associated helicase, Cyano-type.
subtype of CRISPR/Cas locus, found in several species
of Cyanobacteria and several archaeal species. It
contains helicase motifs and appears to represent the
Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Length = 357
Score = 30.3 bits (68), Expect = 1.6
Identities = 19/64 (29%), Positives = 28/64 (43%), Gaps = 15/64 (23%)
Query: 35 LREKD---VLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLALAIAPTRELAVQVG 91
L+ KD + +A TG+GKT+A L L END +A+ PT L
Sbjct: 9 LQSKDADIIFNTAPTGAGKTLA---WLTPLLHGEND---------TIALYPTNALIEDQT 56
Query: 92 RELE 95
++
Sbjct: 57 EAIK 60
>gnl|CDD|181217 PRK08063, PRK08063, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 250
Score = 30.1 bits (68), Expect = 1.6
Identities = 15/44 (34%), Positives = 22/44 (50%)
Query: 480 EARWLMPMLCRSSGINRQSIGAIRVQPDLTFVEVSADGVDLLRR 523
EA LM + I+ S+G+IR + T V VS ++ L R
Sbjct: 123 EAAKLMEKVGGGKIISLSSLGSIRYLENYTTVGVSKAALEALTR 166
>gnl|CDD|163019 TIGR02785, addA_Gpos, recombination helicase AddA, Firmicutes
type. AddAB, also called RexAB, substitutes for RecBCD
in several bacterial lineages. These DNA recombination
proteins act before synapse and are particularly
important for DNA repair of double-stranded breaks by
homologous recombination. The term AddAB is used
broadly, with AddA homologous between the Firmicutes
(as modeled here) and the alphaproteobacteria, while
the partner AddB proteins show no strong homology
across the two groups of species.
Length = 1232
Score = 29.7 bits (67), Expect = 2.0
Identities = 12/25 (48%), Positives = 16/25 (64%), Gaps = 3/25 (12%)
Query: 27 QEAILNPDLREKDVLVSAQTGSGKT 51
+AI R +++LVSA GSGKT
Sbjct: 7 WQAI---YTRGQNILVSASAGSGKT 28
>gnl|CDD|183821 PRK12899, secA, preprotein translocase subunit SecA; Reviewed.
Length = 970
Score = 29.4 bits (66), Expect = 2.5
Identities = 45/184 (24%), Positives = 78/184 (42%), Gaps = 27/184 (14%)
Query: 233 NAIVN-ILRYHGAKNAIVFCSTRASVS-RFTKVLAEHLFQVVALSGELSQQERSNALQMM 290
+AIV I H N I+ + VS + +++L ++ + L+ + QE
Sbjct: 555 HAIVAEIASIHRKGNPILIGTESVEVSEKLSRILRQNRIEHTVLNAKNHAQEAEIIAGAG 614
Query: 291 RDGRARVCIATDVAARGIDLP-DLELVIHAEL-----SSNPENLLHRS--GRTGRAGRKG 342
+ V +AT++A RG D+ D E V L S + + R GR R G G
Sbjct: 615 K--LGAVTVATNMAGRGTDIKLDEEAVAVGGLYVIGTSRHQSRRIDRQLRGRCARLGDPG 672
Query: 343 MSVFVIPQNMQRRAERLFREANVSVV---WEPAPSVEAIRERDAQRILQDPLFLDSIQGD 399
+ F + + + R RLF ++ + + P P EA+ DP+F I+
Sbjct: 673 AAKFFL--SFEDRLMRLFASPKLNTLIRHFRP-PEGEAM---------SDPMFNRLIETA 720
Query: 400 EKKM 403
+K++
Sbjct: 721 QKRV 724
>gnl|CDD|163043 TIGR02858, spore_III_AA, stage III sporulation protein AA. Members
of this protein are the stage III sporulation protein
AA, encoded by one of several genes in the spoIIIA
locus. It seems that this protein is found in a species
if and only if that species is capable of endospore
formation.
Length = 270
Score = 29.2 bits (66), Expect = 2.6
Identities = 17/59 (28%), Positives = 27/59 (45%), Gaps = 12/59 (20%)
Query: 144 LNISHLKAVVLDEADEM---------LDLGFRDDIEFILDSSPKKRRMLMFSATISPAI 193
L + K ++DE E+ D+G R D+ LD PK M+M ++SP +
Sbjct: 142 LGLRGKKVGIVDERSEIAGCVNGVPQHDVGIRTDV---LDGCPKAEGMMMLIRSMSPDV 197
>gnl|CDD|182031 PRK09694, PRK09694, helicase Cas3; Provisional.
Length = 878
Score = 29.4 bits (66), Expect = 2.6
Identities = 11/24 (45%), Positives = 14/24 (58%), Gaps = 1/24 (4%)
Query: 41 LVSAQTGSGKTVAFGLALASTLLA 64
++ A TGSGKT LA A L+
Sbjct: 305 IIEAPTGSGKT-EAALAYAWRLID 327
>gnl|CDD|102207 PRK06145, PRK06145, acyl-CoA synthetase; Validated.
Length = 497
Score = 28.7 bits (64), Expect = 4.2
Identities = 20/59 (33%), Positives = 25/59 (42%), Gaps = 17/59 (28%)
Query: 419 GFLRIHR-----------------AGLCAPEEITPVSLVSGRDRFRDDSRAFKVGGGSR 460
G LRIHR AP ++ V V RDRF DS A+ +GGG +
Sbjct: 217 GTLRIHREFDPEAVLAAIERHRLTCAWMAPVMLSRVLTVPDRDRFDLDSLAWCIGGGEK 275
>gnl|CDD|161946 TIGR00595, priA, primosomal protein N'. All proteins in this
family for which functions are known are components of
the primosome which is involved in replication, repair,
and recombination.This family is based on the
phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
Stanford University).
Length = 505
Score = 28.5 bits (64), Expect = 4.8
Identities = 21/85 (24%), Positives = 33/85 (38%), Gaps = 17/85 (20%)
Query: 279 SQQERSNALQMMRDGRARVCIATDVAARGIDLPDLELVIHAELSSNPENLLH----RSGR 334
+ L +G+A + I T + A+G P++ LV + ++ LH R+
Sbjct: 297 RKGAHEALLNQFANGKADILIGTQMIAKGHHFPNVTLVGVL----DADSGLHSPDFRAAE 352
Query: 335 ---------TGRAGRKGMSVFVIPQ 350
GRAGR VI Q
Sbjct: 353 RGFQLLTQVAGRAGRAEDPGQVIIQ 377
>gnl|CDD|181694 PRK09200, PRK09200, preprotein translocase subunit SecA; Reviewed.
Length = 790
Score = 28.4 bits (64), Expect = 4.9
Identities = 23/65 (35%), Positives = 31/65 (47%), Gaps = 12/65 (18%)
Query: 294 RARVCIATDVAARGIDL---PDL-EL----VIHAEL--SSNPENLLHRSGRTGRAGRKGM 343
+ V +AT++A RG D+ + EL VI E S + L GR+GR G G
Sbjct: 476 KGAVTVATNMAGRGTDIKLGEGVHELGGLAVIGTERMESRRVDLQL--RGRSGRQGDPGS 533
Query: 344 SVFVI 348
S F I
Sbjct: 534 SQFFI 538
>gnl|CDD|161849 TIGR00382, clpX, endopeptidase Clp ATP-binding regulatory subunit
(clpX). A member of the ATP-dependent proteases, ClpX
has ATP-dependent chaperone activity and is required for
specific ATP-dependent proteolytic activities expressed
by ClpPX. The gene is also found to be involved in
stress tolerance in Bacillus subtilis and is essential
for the efficient acquisition of genes specifying type
IA and IB restriction.
Length = 413
Score = 28.2 bits (63), Expect = 6.4
Identities = 21/62 (33%), Positives = 31/62 (50%), Gaps = 11/62 (17%)
Query: 34 DLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLALAIAPTRELAVQVGRE 93
+L + ++L+ TGSGKT+ LA TL + P A+A A T A VG +
Sbjct: 113 ELSKSNILLIGPTGSGKTL-----LAQTLARILN------VPFAIADATTLTEAGYVGED 161
Query: 94 LE 95
+E
Sbjct: 162 VE 163
>gnl|CDD|163426 TIGR03714, secA2, accessory Sec system translocase SecA2. Members
of this protein family are homologous to SecA and part
of the accessory Sec system. This system, including both
five core proteins for export and a variable number of
proteins for glycosylation, operates in certain
Gram-positive pathogens for the maturation and delivery
of serine-rich glycoproteins such as the cell surface
glycoprotein GspB in Streptococcus gordonii.
Length = 762
Score = 28.1 bits (63), Expect = 6.6
Identities = 20/60 (33%), Positives = 26/60 (43%), Gaps = 8/60 (13%)
Query: 297 VCIATDVAARGIDL---PDLE-----LVIHAELSSNPENLLHRSGRTGRAGRKGMSVFVI 348
V +AT +A RG D+ + VI E N L GR+GR G G S F +
Sbjct: 475 VTVATSMAGRGTDIKLGKGVAELGGLAVIGTERMENSRVDLQLRGRSGRQGDPGSSQFFV 534
>gnl|CDD|180984 PRK07454, PRK07454, short chain dehydrogenase; Provisional.
Length = 241
Score = 28.0 bits (63), Expect = 6.8
Identities = 24/85 (28%), Positives = 37/85 (43%), Gaps = 28/85 (32%)
Query: 222 RAVLVALSDRDNA-IVNILRYHGAKNAI----VFCSTRASVSRFTKVLAEHLFQVVALSG 276
AVL + R I+N+ A+NA +C ++A+++ FTK LAE
Sbjct: 123 SAVLPGMRARGGGLIINVSS-IAARNAFPQWGAYCVSKAALAAFTKCLAE---------- 171
Query: 277 ELSQQERSNALQMMRDGRARVCIAT 301
+ERS+ + RVC T
Sbjct: 172 ----EERSHGI--------RVCTIT 184
>gnl|CDD|179631 PRK03692, PRK03692, putative UDP-N-acetyl-D-mannosaminuronic acid
transferase; Provisional.
Length = 243
Score = 27.6 bits (62), Expect = 8.2
Identities = 11/35 (31%), Positives = 22/35 (62%), Gaps = 3/35 (8%)
Query: 337 RAGRKGMSVFVI---PQNMQRRAERLFREANVSVV 368
RAG++G VF++ P+ + + +L + NV++V
Sbjct: 100 RAGKEGTPVFLVGGKPEVLAQTEAKLRTQWNVNIV 134
>gnl|CDD|182459 PRK10436, PRK10436, hypothetical protein; Provisional.
Length = 462
Score = 27.6 bits (62), Expect = 8.9
Identities = 13/28 (46%), Positives = 15/28 (53%), Gaps = 4/28 (14%)
Query: 40 VLVSAQTGSGKTVAFGLALASTLLAEND 67
+LV+ TGSGKTV L S L N
Sbjct: 221 ILVTGPTGSGKTV----TLYSALQTLNT 244
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.319 0.135 0.382
Gapped
Lambda K H
0.267 0.0711 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 9,480,764
Number of extensions: 645073
Number of successful extensions: 1576
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1525
Number of HSP's successfully gapped: 70
Length of query: 573
Length of database: 5,994,473
Length adjustment: 99
Effective length of query: 474
Effective length of database: 3,855,281
Effective search space: 1827403194
Effective search space used: 1827403194
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 60 (26.9 bits)