RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7557
(936 letters)
>gnl|CDD|240273 PTZ00110, PTZ00110, helicase; Provisional.
Length = 545
Score = 406 bits (1045), Expect = e-131
Identities = 189/443 (42%), Positives = 268/443 (60%), Gaps = 20/443 (4%)
Query: 6 ALSDRKERDKWAREP--KIIKNVYKEDPEVANMTPEQVEAFRKKNNDISVSVVTSDGQID 63
L R + W KN YKE PEV+ ++ ++V+ RK+ ++++ +
Sbjct: 71 TLGKRLQPIDWKSINLVPFEKNFYKEHPEVSALSSKEVDEIRKEKE---ITIIAGEN--- 124
Query: 64 ENPDFQIPNPVTSF-KQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQT 122
+P PV SF +F Y IL+ L+N FT P+PIQ Q WPI +SG DMIGIA+T
Sbjct: 125 ------VPKPVVSFEYTSFPDY--ILKSLKNAGFTEPTPIQVQGWPIALSGRDMIGIAET 176
Query: 123 GTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKG-LKAV 181
G+GKT AFLLPA++H + Q + GP VLV+APTRELA QI + NK ++
Sbjct: 177 GSGKTLAFLLPAIVHINAQPL-LRYGDGPIVLVLAPTRELAEQIREQCNKFGASSKIRNT 235
Query: 182 CVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFE 241
YGG Q+ +R G ILIA PGRL DF+ +L+ V+++VLDEADRMLD+GFE
Sbjct: 236 VAYGGVPKRGQIYALRRGVEILIACPGRLIDFLESNVTNLRRVTYLVLDEADRMLDMGFE 295
Query: 242 PQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVN-PVKVNVGSLDLAATHTVTQKII 300
PQI K I P+RQT+M SATW K+VQ +A+ PV VNVGSLDL A H + Q++
Sbjct: 296 PQIRKIVSQIRPDRQTLMWSATWPKEVQSLARDLCKEEPVHVNVGSLDLTACHNIKQEVF 355
Query: 301 ILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQED 360
+++E EK+ L + + DK+++F+ K ++ +L + ++GD QE+
Sbjct: 356 VVEEHEKRGKLKMLLQRIMRDGDKILIFVETKKGADFLTKELRLDGWPALCIHGDKKQEE 415
Query: 361 REIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGRAGKSG 420
R L + +G + I +ATDVASRGLDV D+ +VIN+DFP+ IE+YVHR+GRTGRAG G
Sbjct: 416 RTWVLNEFKTGKSPIMIATDVASRGLDVKDVKYVINFDFPNQIEDYVHRIGRTGRAGAKG 475
Query: 421 ESITLMTRKDWSHAHEIIPILEE 443
S T +T + A +++ +L E
Sbjct: 476 ASYTFLTPDKYRLARDLVKVLRE 498
Score = 386 bits (992), Expect = e-124
Identities = 179/414 (43%), Positives = 252/414 (60%), Gaps = 20/414 (4%)
Query: 526 ALSDRKERDKWAREP--KIIKNVYKEDPEVANMTPEQVEAFRKKNNDISVSVVTSDGQID 583
L R + W KN YKE PEV+ ++ ++V+ RK+ ++++ +
Sbjct: 71 TLGKRLQPIDWKSINLVPFEKNFYKEHPEVSALSSKEVDEIRKEKE---ITIIAGEN--- 124
Query: 584 ENPDFQIPNPVTSF-KQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQT 642
+P PV SF +F Y IL+ L+N FT P+PIQ Q WPI +SG DMIGIA+T
Sbjct: 125 ------VPKPVVSFEYTSFPDY--ILKSLKNAGFTEPTPIQVQGWPIALSGRDMIGIAET 176
Query: 643 GTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKG-LKAV 701
G+GKT AFLLPA++H + Q + GP VLV+APTRELA QI + NK ++
Sbjct: 177 GSGKTLAFLLPAIVHINAQPL-LRYGDGPIVLVLAPTRELAEQIREQCNKFGASSKIRNT 235
Query: 702 CVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFE 761
YGG Q+ +R G ILIA PGRL DF+ +L+ V+++VLDEADRMLD+GFE
Sbjct: 236 VAYGGVPKRGQIYALRRGVEILIACPGRLIDFLESNVTNLRRVTYLVLDEADRMLDMGFE 295
Query: 762 PQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVN-PVKVNVGSLDLAATHTVTQKII 820
PQI K I P+RQT+M SATW K+VQ +A+ PV VNVGSLDL A H + Q++
Sbjct: 296 PQIRKIVSQIRPDRQTLMWSATWPKEVQSLARDLCKEEPVHVNVGSLDLTACHNIKQEVF 355
Query: 821 ILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQED 880
+++E EK+ L + + DK+++F+ K ++ +L + ++GD QE+
Sbjct: 356 VVEEHEKRGKLKMLLQRIMRDGDKILIFVETKKGADFLTKELRLDGWPALCIHGDKKQEE 415
Query: 881 REIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTG 934
R L + +G + I +ATDVASRGLDV D+ +VIN+DFP+ IE+YVHR+GRTG
Sbjct: 416 RTWVLNEFKTGKSPIMIATDVASRGLDVKDVKYVINFDFPNQIEDYVHRIGRTG 469
>gnl|CDD|223587 COG0513, SrmB, Superfamily II DNA and RNA helicases [DNA
replication, recombination, and repair / Transcription /
Translation, ribosomal structure and biogenesis].
Length = 513
Score = 389 bits (1000), Expect = e-125
Identities = 161/414 (38%), Positives = 237/414 (57%), Gaps = 12/414 (2%)
Query: 47 KNNDISVSVVTSDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQA 106
+ V + F PE+L+ L++L F P+PIQ A
Sbjct: 1 LAREDYDRFVKLKSAHNVALSRGEEKTPPEFASLGLS-PELLQALKDLGFEEPTPIQLAA 59
Query: 107 WPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQI 166
P++++G D++G AQTGTGKT AFLLP L ER S L++APTRELA QI
Sbjct: 60 IPLILAGRDVLGQAQTGTGKTAAFLLPLLQKILKS----VERKYVSALILAPTRELAVQI 115
Query: 167 EREVNKI--DYKGLKAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAV 224
E+ K+ + GL+ VYGG I Q+E ++ G I++ATPGRL D + R +DL V
Sbjct: 116 AEELRKLGKNLGGLRVAVVYGGVSIRKQIEALKRGVDIVVATPGRLLDLIKRGKLDLSGV 175
Query: 225 SFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNV 284
+VLDEADRMLD+GF I K + P+RQT++ SAT D++ +A++Y+ +PV++ V
Sbjct: 176 ETLVLDEADRMLDMGFIDDIEKILKALPPDRQTLLFSATMPDDIRELARRYLNDPVEIEV 235
Query: 285 GSLDLAATH-TVTQKIIILD-EDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDL 342
L T + Q + ++ E+EK + L++ + DE R V+VF+ K V ++ L
Sbjct: 236 SVEKLERTLKKIKQFYLEVESEEEKLELLLKLLKDEDEGR--VIVFVRTKRLVEELAESL 293
Query: 343 ACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSH 402
+ K +L+GDL QE+R+ ALE G R+ VATDVA+RGLD+PD++HVINYD P
Sbjct: 294 RKRGFKVAALHGDLPQEERDRALEKFKDGELRVLVATDVAARGLDIPDVSHVINYDLPLD 353
Query: 403 IEEYVHRVGRTGRAGKSGESITLMT-RKDWSHAHEIIPILEEGGHESYMIWRRD 455
E+YVHR+GRTGRAG+ G +I+ +T ++ I LE + ++ +
Sbjct: 354 PEDYVHRIGRTGRAGRKGVAISFVTEEEEVKKLKRIEKRLERKLPSAVLLPLDE 407
Score = 368 bits (947), Expect = e-117
Identities = 151/372 (40%), Positives = 218/372 (58%), Gaps = 11/372 (2%)
Query: 567 KNNDISVSVVTSDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQA 626
+ V + F PE+L+ L++L F P+PIQ A
Sbjct: 1 LAREDYDRFVKLKSAHNVALSRGEEKTPPEFASLGLS-PELLQALKDLGFEEPTPIQLAA 59
Query: 627 WPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQI 686
P++++G D++G AQTGTGKT AFLLP L ER S L++APTRELA QI
Sbjct: 60 IPLILAGRDVLGQAQTGTGKTAAFLLPLLQKILKS----VERKYVSALILAPTRELAVQI 115
Query: 687 EREVNKI--DYKGLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAV 744
E+ K+ + GL+ VYGG + Q+E ++ G I++ATPGRL D + R +DL V
Sbjct: 116 AEELRKLGKNLGGLRVAVVYGGVSIRKQIEALKRGVDIVVATPGRLLDLIKRGKLDLSGV 175
Query: 745 SFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNV 804
+VLDEADRMLD+GF I K + P+RQT++ SAT D++ +A++Y+ +PV++ V
Sbjct: 176 ETLVLDEADRMLDMGFIDDIEKILKALPPDRQTLLFSATMPDDIRELARRYLNDPVEIEV 235
Query: 805 GSLDLAATH-TVTQKIIILD-EDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDL 862
L T + Q + ++ E+EK + L++ + DE R V+VF+ K V ++ L
Sbjct: 236 SVEKLERTLKKIKQFYLEVESEEEKLELLLKLLKDEDEGR--VIVFVRTKRLVEELAESL 293
Query: 863 ACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSH 922
+ K +L+GDL QE+R+ ALE G R+ VATDVA+RGLD+PD++HVINYD P
Sbjct: 294 RKRGFKVAALHGDLPQEERDRALEKFKDGELRVLVATDVAARGLDIPDVSHVINYDLPLD 353
Query: 923 IEEYVHRVGRTG 934
E+YVHR+GRTG
Sbjct: 354 PEDYVHRIGRTG 365
>gnl|CDD|238167 cd00268, DEADc, DEAD-box helicases. A diverse family of proteins
involved in ATP-dependent RNA unwinding, needed in a
variety of cellular processes including splicing,
ribosome biogenesis and RNA degradation. The name
derives from the sequence of the Walker B motif (motif
II). This domain contains the ATP- binding region.
Length = 203
Score = 280 bits (719), Expect = 1e-88
Identities = 97/200 (48%), Positives = 137/200 (68%), Gaps = 5/200 (2%)
Query: 85 PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTP 144
PE+LR + L F P+PIQA+A P L+SG D+IG AQTG+GKT AFL+P L L +P
Sbjct: 8 PELLRGIYALGFEKPTPIQARAIPPLLSGRDVIGQAQTGSGKTAAFLIPIL--EKLDPSP 65
Query: 145 ISERAGPSVLVMAPTRELATQIEREVNKI-DYKGLKAVCVYGGKEIEPQLEKIREGCHIL 203
++ GP L++APTRELA QI K+ + LK V +YGG I+ Q+ K++ G HI+
Sbjct: 66 --KKDGPQALILAPTRELALQIAEVARKLGKHTNLKVVVIYGGTSIDKQIRKLKRGPHIV 123
Query: 204 IATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSAT 263
+ATPGRL D + R +DL V ++VLDEADRMLD+GFE QI + + +RQT++ SAT
Sbjct: 124 VATPGRLLDLLERGKLDLSKVKYLVLDEADRMLDMGFEDQIREILKLLPKDRQTLLFSAT 183
Query: 264 WNKDVQRVAKKYMVNPVKVN 283
K+V+ +A+K++ NPV++
Sbjct: 184 MPKEVRDLARKFLRNPVRIL 203
Score = 279 bits (717), Expect = 2e-88
Identities = 96/200 (48%), Positives = 137/200 (68%), Gaps = 5/200 (2%)
Query: 605 PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTP 664
PE+LR + L F P+PIQA+A P L+SG D+IG AQTG+GKT AFL+P L L +P
Sbjct: 8 PELLRGIYALGFEKPTPIQARAIPPLLSGRDVIGQAQTGSGKTAAFLIPIL--EKLDPSP 65
Query: 665 ISERAGPSVLVMAPTRELATQIEREVNKI-DYKGLKAVCVYGGKELEPQLEKIREGCHIL 723
++ GP L++APTRELA QI K+ + LK V +YGG ++ Q+ K++ G HI+
Sbjct: 66 --KKDGPQALILAPTRELALQIAEVARKLGKHTNLKVVVIYGGTSIDKQIRKLKRGPHIV 123
Query: 724 IATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSAT 783
+ATPGRL D + R +DL V ++VLDEADRMLD+GFE QI + + +RQT++ SAT
Sbjct: 124 VATPGRLLDLLERGKLDLSKVKYLVLDEADRMLDMGFEDQIREILKLLPKDRQTLLFSAT 183
Query: 784 WNKDVQRVAKKYMVNPVKVN 803
K+V+ +A+K++ NPV++
Sbjct: 184 MPKEVRDLARKFLRNPVRIL 203
>gnl|CDD|235314 PRK04837, PRK04837, ATP-dependent RNA helicase RhlB; Provisional.
Length = 423
Score = 269 bits (690), Expect = 2e-81
Identities = 142/353 (40%), Positives = 193/353 (54%), Gaps = 21/353 (5%)
Query: 84 YPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTT 143
+P+++ LE F +PIQA A P+ ++G D+ G AQTGTGKT AFL A H +L +
Sbjct: 16 HPQVVEALEKKGFHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFL-TATFH-YLLSH 73
Query: 144 PISE---RAGPSVLVMAPTRELATQIEREVNK-IDYKGLKAVCVYGGKEIEPQLEKIREG 199
P E P L+MAPTRELA QI + GLK YGG + QL+ + G
Sbjct: 74 PAPEDRKVNQPRALIMAPTRELAVQIHADAEPLAQATGLKLGLAYGGDGYDKQLKVLESG 133
Query: 200 CHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYI-----NPN 254
ILI T GRL D+ + I+L A+ VVLDEADRM DLGF I ++ N
Sbjct: 134 VDILIGTTGRLIDYAKQNHINLGAIQVVVLDEADRMFDLGFIKDIR----WLFRRMPPAN 189
Query: 255 -RQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLME 313
R ++ SAT + V+ +A ++M NP V V H + +++ +EK L
Sbjct: 190 QRLNMLFSATLSYRVRELAFEHMNNPEYVEVEPEQKTG-HRIKEELFYPSNEEKMRLLQT 248
Query: 314 FFDNMDEE-RDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGY 372
++EE D+ ++F K + LA + L GD++Q+ R LE+ T G
Sbjct: 249 L---IEEEWPDRAIIFANTKHRCEEIWGHLAADGHRVGLLTGDVAQKKRLRILEEFTRGD 305
Query: 373 ARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGRAGKSGESITL 425
I VATDVA+RGL +P +THV NYD P E+YVHR+GRTGRAG SG SI+L
Sbjct: 306 LDILVATDVAARGLHIPAVTHVFNYDLPDDCEDYVHRIGRTGRAGASGHSISL 358
Score = 251 bits (644), Expect = 8e-75
Identities = 134/342 (39%), Positives = 184/342 (53%), Gaps = 21/342 (6%)
Query: 604 YPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTT 663
+P+++ LE F +PIQA A P+ ++G D+ G AQTGTGKT AFL A H +L +
Sbjct: 16 HPQVVEALEKKGFHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFL-TATFH-YLLSH 73
Query: 664 PISE---RAGPSVLVMAPTRELATQIEREVNK-IDYKGLKAVCVYGGKELEPQLEKIREG 719
P E P L+MAPTRELA QI + GLK YGG + QL+ + G
Sbjct: 74 PAPEDRKVNQPRALIMAPTRELAVQIHADAEPLAQATGLKLGLAYGGDGYDKQLKVLESG 133
Query: 720 CHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYI-----NPN 774
ILI T GRL D+ + I+L A+ VVLDEADRM DLGF I ++ N
Sbjct: 134 VDILIGTTGRLIDYAKQNHINLGAIQVVVLDEADRMFDLGFIKDIR----WLFRRMPPAN 189
Query: 775 -RQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLME 833
R ++ SAT + V+ +A ++M NP V V H + +++ +EK L
Sbjct: 190 QRLNMLFSATLSYRVRELAFEHMNNPEYVEVEPEQKTG-HRIKEELFYPSNEEKMRLLQT 248
Query: 834 FFDNMDEE-RDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGY 892
++EE D+ ++F K + LA + L GD++Q+ R LE+ T G
Sbjct: 249 L---IEEEWPDRAIIFANTKHRCEEIWGHLAADGHRVGLLTGDVAQKKRLRILEEFTRGD 305
Query: 893 ARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTG 934
I VATDVA+RGL +P +THV NYD P E+YVHR+GRTG
Sbjct: 306 LDILVATDVAARGLHIPAVTHVFNYDLPDDCEDYVHRIGRTG 347
>gnl|CDD|236722 PRK10590, PRK10590, ATP-dependent RNA helicase RhlE; Provisional.
Length = 456
Score = 259 bits (663), Expect = 2e-77
Identities = 134/345 (38%), Positives = 206/345 (59%), Gaps = 8/345 (2%)
Query: 85 PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTP 144
P+ILR + + P+PIQ QA P ++ G D++ AQTGTGKT F LP L H +
Sbjct: 10 PDILRAVAEQGYREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPH 69
Query: 145 ISERAGPSVLVMAPTRELATQIEREVNKID-YKGLKAVCVYGGKEIEPQLEKIREGCHIL 203
R L++ PTRELA QI V Y ++++ V+GG I PQ+ K+R G +L
Sbjct: 70 AKGRRPVRALILTPTRELAAQIGENVRDYSKYLNIRSLVVFGGVSINPQMMKLRGGVDVL 129
Query: 204 IATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSAT 263
+ATPGRL D + ++ L V +VLDEADRMLD+GF I + + RQ ++ SAT
Sbjct: 130 VATPGRLLDLEHQNAVKLDQVEILVLDEADRMLDMGFIHDIRRVLAKLPAKRQNLLFSAT 189
Query: 264 WNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERD 323
++ D++ +A+K + NP+++ V + A+ VTQ + +D+ K+ E M + +
Sbjct: 190 FSDDIKALAEKLLHNPLEIEVARRN-TASEQVTQHVHFVDKKRKR----ELLSQMIGKGN 244
Query: 324 --KVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDV 381
+V+VF K + ++ L +S +++G+ SQ R AL D SG R+ VATD+
Sbjct: 245 WQQVLVFTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKSGDIRVLVATDI 304
Query: 382 ASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGRAGKSGESITLM 426
A+RGLD+ +L HV+NY+ P+ E+YVHR+GRTGRA +GE+++L+
Sbjct: 305 AARGLDIEELPHVVNYELPNVPEDYVHRIGRTGRAAATGEALSLV 349
Score = 245 bits (627), Expect = 4e-72
Identities = 128/333 (38%), Positives = 196/333 (58%), Gaps = 8/333 (2%)
Query: 605 PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTP 664
P+ILR + + P+PIQ QA P ++ G D++ AQTGTGKT F LP L H +
Sbjct: 10 PDILRAVAEQGYREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPH 69
Query: 665 ISERAGPSVLVMAPTRELATQIEREVNKID-YKGLKAVCVYGGKELEPQLEKIREGCHIL 723
R L++ PTRELA QI V Y ++++ V+GG + PQ+ K+R G +L
Sbjct: 70 AKGRRPVRALILTPTRELAAQIGENVRDYSKYLNIRSLVVFGGVSINPQMMKLRGGVDVL 129
Query: 724 IATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSAT 783
+ATPGRL D + ++ L V +VLDEADRMLD+GF I + + RQ ++ SAT
Sbjct: 130 VATPGRLLDLEHQNAVKLDQVEILVLDEADRMLDMGFIHDIRRVLAKLPAKRQNLLFSAT 189
Query: 784 WNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERD 843
++ D++ +A+K + NP+++ V + A+ VTQ + +D+ K+ E M + +
Sbjct: 190 FSDDIKALAEKLLHNPLEIEVARRN-TASEQVTQHVHFVDKKRKR----ELLSQMIGKGN 244
Query: 844 --KVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDV 901
+V+VF K + ++ L +S +++G+ SQ R AL D SG R+ VATD+
Sbjct: 245 WQQVLVFTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKSGDIRVLVATDI 304
Query: 902 ASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTG 934
A+RGLD+ +L HV+NY+ P+ E+YVHR+GRTG
Sbjct: 305 AARGLDIEELPHVVNYELPNVPEDYVHRIGRTG 337
>gnl|CDD|236977 PRK11776, PRK11776, ATP-dependent RNA helicase DbpA; Provisional.
Length = 460
Score = 258 bits (661), Expect = 9e-77
Identities = 124/358 (34%), Positives = 200/358 (55%), Gaps = 18/358 (5%)
Query: 85 PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTP 144
P +L L L +T +PIQAQ+ P +++G D+I A+TG+GKT AF L L+ L
Sbjct: 13 PALLANLNELGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGL-GLLQ-KLDVK- 69
Query: 145 ISERAGPSVLVMAPTRELATQIEREVNK----IDYKGLKAVCVYGGKEIEPQLEKIREGC 200
R LV+ PTRELA Q+ +E+ + I +K + + GG + PQ++ + G
Sbjct: 70 ---RFRVQALVLCPTRELADQVAKEIRRLARFIP--NIKVLTLCGGVPMGPQIDSLEHGA 124
Query: 201 HILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMT 260
HI++ TPGR+ D + + ++DL A++ +VLDEADRMLD+GF+ I+ RQT++
Sbjct: 125 HIIVGTPGRILDHLRKGTLDLDALNTLVLDEADRMLDMGFQDAIDAIIRQAPARRQTLLF 184
Query: 261 SATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDE 320
SAT+ + + +++++ +PV+V V S + Q+ + DE+ L +
Sbjct: 185 SATYPEGIAAISQRFQRDPVEVKVESTH--DLPAIEQRFYEVSPDERLPALQRL---LLH 239
Query: 321 ER-DKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVAT 379
+ + +VF K ++ L Q + +L+GDL Q DR+ L + + VAT
Sbjct: 240 HQPESCVVFCNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRFANRSCSVLVAT 299
Query: 380 DVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGRAGKSGESITLMTRKDWSHAHEI 437
DVA+RGLD+ L VINY+ E +VHR+GRTGRAG G +++L+ ++ A+ I
Sbjct: 300 DVAARGLDIKALEAVINYELARDPEVHVHRIGRTGRAGSKGLALSLVAPEEMQRANAI 357
Score = 239 bits (613), Expect = 4e-70
Identities = 117/335 (34%), Positives = 186/335 (55%), Gaps = 18/335 (5%)
Query: 605 PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTP 664
P +L L L +T +PIQAQ+ P +++G D+I A+TG+GKT AF L L+ L
Sbjct: 13 PALLANLNELGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGL-GLLQ-KLDVK- 69
Query: 665 ISERAGPSVLVMAPTRELATQIEREVNK----IDYKGLKAVCVYGGKELEPQLEKIREGC 720
R LV+ PTRELA Q+ +E+ + I +K + + GG + PQ++ + G
Sbjct: 70 ---RFRVQALVLCPTRELADQVAKEIRRLARFIP--NIKVLTLCGGVPMGPQIDSLEHGA 124
Query: 721 HILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMT 780
HI++ TPGR+ D + + ++DL A++ +VLDEADRMLD+GF+ I+ RQT++
Sbjct: 125 HIIVGTPGRILDHLRKGTLDLDALNTLVLDEADRMLDMGFQDAIDAIIRQAPARRQTLLF 184
Query: 781 SATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDE 840
SAT+ + + +++++ +PV+V V S + Q+ + DE+ L +
Sbjct: 185 SATYPEGIAAISQRFQRDPVEVKVESTH--DLPAIEQRFYEVSPDERLPALQRL---LLH 239
Query: 841 ER-DKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVAT 899
+ + +VF K ++ L Q + +L+GDL Q DR+ L + + VAT
Sbjct: 240 HQPESCVVFCNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRFANRSCSVLVAT 299
Query: 900 DVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTG 934
DVA+RGLD+ L VINY+ E +VHR+GRTG
Sbjct: 300 DVAARGLDIKALEAVINYELARDPEVHVHRIGRTG 334
>gnl|CDD|234938 PRK01297, PRK01297, ATP-dependent RNA helicase RhlB; Provisional.
Length = 475
Score = 257 bits (657), Expect = 3e-76
Identities = 145/371 (39%), Positives = 204/371 (54%), Gaps = 11/371 (2%)
Query: 67 DFQI-PNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTG 125
DF + P + F PE++ + +L F +PIQAQ ++GHD IG AQTGTG
Sbjct: 77 DFVVEPQEGKTRFHDFNLAPELMHAIHDLGFPYCTPIQAQVLGYTLAGHDAIGRAQTGTG 136
Query: 126 KTFAFLLPALIHTHLQTTPISER--AGPSVLVMAPTRELATQIEREVNKI-DYKGLKAVC 182
KT AFL+ ++I+ LQT P ER P L++APTREL QI ++ + Y GL +
Sbjct: 137 KTAAFLI-SIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAKDAAALTKYTGLNVMT 195
Query: 183 VYGGKEIEPQLEKIREG-CHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFE 241
GG + + QL+++ C IL+ATPGRL DF R + L V +VLDEADRMLD+GF
Sbjct: 196 FVGGMDFDKQLKQLEARFCDILVATPGRLLDFNQRGEVHLDMVEVMVLDEADRMLDMGFI 255
Query: 242 PQINKTSIYINP--NRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKI 299
PQ+ + RQT++ SAT+ DV +AK++ +P V + ++A + TV Q +
Sbjct: 256 PQVRQIIRQTPRKEERQTLLFSATFTDDVMNLAKQWTTDPAIVEIEPENVA-SDTVEQHV 314
Query: 300 IILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQE 359
+ +K L ++VMVF RK V + L + L GD+ Q
Sbjct: 315 YAVAGSDKYKLLYNLVT--QNPWERVMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQH 372
Query: 360 DREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGRAGKS 419
R LE G R+ VATDVA RG+ + ++HVIN+ P ++YVHR+GRTGRAG S
Sbjct: 373 KRIKTLEGFREGKIRVLVATDVAGRGIHIDGISHVINFTLPEDPDDYVHRIGRTGRAGAS 432
Query: 420 GESITLMTRKD 430
G SI+ D
Sbjct: 433 GVSISFAGEDD 443
Score = 242 bits (620), Expect = 6e-71
Identities = 137/355 (38%), Positives = 195/355 (54%), Gaps = 11/355 (3%)
Query: 587 DFQI-PNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTG 645
DF + P + F PE++ + +L F +PIQAQ ++GHD IG AQTGTG
Sbjct: 77 DFVVEPQEGKTRFHDFNLAPELMHAIHDLGFPYCTPIQAQVLGYTLAGHDAIGRAQTGTG 136
Query: 646 KTFAFLLPALIHTHLQTTPISER--AGPSVLVMAPTRELATQIEREVNKI-DYKGLKAVC 702
KT AFL+ ++I+ LQT P ER P L++APTREL QI ++ + Y GL +
Sbjct: 137 KTAAFLI-SIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAKDAAALTKYTGLNVMT 195
Query: 703 VYGGKELEPQLEKIREG-CHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFE 761
GG + + QL+++ C IL+ATPGRL DF R + L V +VLDEADRMLD+GF
Sbjct: 196 FVGGMDFDKQLKQLEARFCDILVATPGRLLDFNQRGEVHLDMVEVMVLDEADRMLDMGFI 255
Query: 762 PQINKTSIYINP--NRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKI 819
PQ+ + RQT++ SAT+ DV +AK++ +P V + ++A + TV Q +
Sbjct: 256 PQVRQIIRQTPRKEERQTLLFSATFTDDVMNLAKQWTTDPAIVEIEPENVA-SDTVEQHV 314
Query: 820 IILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQE 879
+ +K L ++VMVF RK V + L + L GD+ Q
Sbjct: 315 YAVAGSDKYKLLYNLVT--QNPWERVMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQH 372
Query: 880 DREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTG 934
R LE G R+ VATDVA RG+ + ++HVIN+ P ++YVHR+GRTG
Sbjct: 373 KRIKTLEGFREGKIRVLVATDVAGRGIHIDGISHVINFTLPEDPDDYVHRIGRTG 427
>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional.
Length = 434
Score = 243 bits (622), Expect = 1e-71
Identities = 123/344 (35%), Positives = 186/344 (54%), Gaps = 8/344 (2%)
Query: 85 PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTP 144
+L L++ +T P+ IQA+A P + G D++G A TGTGKT AFLLPAL HL P
Sbjct: 10 ESLLEALQDKGYTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPAL--QHLLDFP 67
Query: 145 ISERAGPSVLVMAPTRELATQIEREVNKI-DYKGLKAVCVYGGKEIEPQLEKIREGCHIL 203
+ P +L++ PTRELA Q+ + ++ + L + GG E E I+
Sbjct: 68 RRKSGPPRILILTPTRELAMQVADQARELAKHTHLDIATITGGVAYMNHAEVFSENQDIV 127
Query: 204 IATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSAT 263
+ATPGRL ++ + D +AV ++LDEADRMLD+GF I + +QT++ SAT
Sbjct: 128 VATPGRLLQYIKEENFDCRAVETLILDEADRMLDMGFAQDIETIAAETRWRKQTLLFSAT 187
Query: 264 WN-KDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKK-DWLMEFFDNMDEE 321
VQ A++ + +PV+V + Q D+ E K L +
Sbjct: 188 LEGDAVQDFAERLLNDPVEVEAEP-SRRERKKIHQWYYRADDLEHKTALLCHLLKQPEVT 246
Query: 322 RDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDV 381
R +VF+ + V ++ L C L G++ Q R A++ +T G + VATDV
Sbjct: 247 R--SIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRLTDGRVNVLVATDV 304
Query: 382 ASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGRAGKSGESITL 425
A+RG+D+ D++HVIN+D P + Y+HR+GRTGRAG+ G +I+L
Sbjct: 305 AARGIDIDDVSHVINFDMPRSADTYLHRIGRTGRAGRKGTAISL 348
Score = 228 bits (583), Expect = 3e-66
Identities = 117/333 (35%), Positives = 177/333 (53%), Gaps = 8/333 (2%)
Query: 605 PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTP 664
+L L++ +T P+ IQA+A P + G D++G A TGTGKT AFLLPAL HL P
Sbjct: 10 ESLLEALQDKGYTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPAL--QHLLDFP 67
Query: 665 ISERAGPSVLVMAPTRELATQIEREVNKI-DYKGLKAVCVYGGKELEPQLEKIREGCHIL 723
+ P +L++ PTRELA Q+ + ++ + L + GG E E I+
Sbjct: 68 RRKSGPPRILILTPTRELAMQVADQARELAKHTHLDIATITGGVAYMNHAEVFSENQDIV 127
Query: 724 IATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSAT 783
+ATPGRL ++ + D +AV ++LDEADRMLD+GF I + +QT++ SAT
Sbjct: 128 VATPGRLLQYIKEENFDCRAVETLILDEADRMLDMGFAQDIETIAAETRWRKQTLLFSAT 187
Query: 784 WN-KDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKK-DWLMEFFDNMDEE 841
VQ A++ + +PV+V + Q D+ E K L +
Sbjct: 188 LEGDAVQDFAERLLNDPVEVEAEP-SRRERKKIHQWYYRADDLEHKTALLCHLLKQPEVT 246
Query: 842 RDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDV 901
R +VF+ + V ++ L C L G++ Q R A++ +T G + VATDV
Sbjct: 247 R--SIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRLTDGRVNVLVATDV 304
Query: 902 ASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTG 934
A+RG+D+ D++HVIN+D P + Y+HR+GRTG
Sbjct: 305 AARGIDIDDVSHVINFDMPRSADTYLHRIGRTG 337
>gnl|CDD|236941 PRK11634, PRK11634, ATP-dependent RNA helicase DeaD; Provisional.
Length = 629
Score = 232 bits (592), Expect = 1e-65
Identities = 128/340 (37%), Positives = 196/340 (57%), Gaps = 11/340 (3%)
Query: 86 EILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPI 145
IL L +L + PSPIQA+ P L++G D++G+AQTG+GKT AF LP L +
Sbjct: 16 PILEALNDLGYEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNLD------ 69
Query: 146 SERAGPSVLVMAPTRELATQIEREVNKID--YKGLKAVCVYGGKEIEPQLEKIREGCHIL 203
E P +LV+APTRELA Q+ + +G+ V +YGG+ + QL +R+G I+
Sbjct: 70 PELKAPQILVLAPTRELAVQVAEAMTDFSKHMRGVNVVALYGGQRYDVQLRALRQGPQIV 129
Query: 204 IATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSAT 263
+ TPGRL D + R ++DL +S +VLDEAD ML +GF + I QT + SAT
Sbjct: 130 VGTPGRLLDHLKRGTLDLSKLSGLVLDEADEMLRMGFIEDVETIMAQIPEGHQTALFSAT 189
Query: 264 WNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERD 323
+ ++R+ +++M P +V + S + ++Q + K + L+ F + E+ D
Sbjct: 190 MPEAIRRITRRFMKEPQEVRIQS-SVTTRPDISQSYWTVWGMRKNEALVRFLEA--EDFD 246
Query: 324 KVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVAS 383
++F+ K + ++ L S +L GD++Q RE LE + G I +ATDVA+
Sbjct: 247 AAIIFVRTKNATLEVAEALERNGYNSAALNGDMNQALREQTLERLKDGRLDILIATDVAA 306
Query: 384 RGLDVPDLTHVINYDFPSHIEEYVHRVGRTGRAGKSGESI 423
RGLDV ++ V+NYD P E YVHR+GRTGRAG++G ++
Sbjct: 307 RGLDVERISLVVNYDIPMDSESYVHRIGRTGRAGRAGRAL 346
Score = 221 bits (564), Expect = 8e-62
Identities = 124/331 (37%), Positives = 188/331 (56%), Gaps = 11/331 (3%)
Query: 606 EILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPI 665
IL L +L + PSPIQA+ P L++G D++G+AQTG+GKT AF LP L +
Sbjct: 16 PILEALNDLGYEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNLD------ 69
Query: 666 SERAGPSVLVMAPTRELATQIEREVNKID--YKGLKAVCVYGGKELEPQLEKIREGCHIL 723
E P +LV+APTRELA Q+ + +G+ V +YGG+ + QL +R+G I+
Sbjct: 70 PELKAPQILVLAPTRELAVQVAEAMTDFSKHMRGVNVVALYGGQRYDVQLRALRQGPQIV 129
Query: 724 IATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSAT 783
+ TPGRL D + R ++DL +S +VLDEAD ML +GF + I QT + SAT
Sbjct: 130 VGTPGRLLDHLKRGTLDLSKLSGLVLDEADEMLRMGFIEDVETIMAQIPEGHQTALFSAT 189
Query: 784 WNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERD 843
+ ++R+ +++M P +V + S + ++Q + K + L+ F + E+ D
Sbjct: 190 MPEAIRRITRRFMKEPQEVRIQS-SVTTRPDISQSYWTVWGMRKNEALVRFLEA--EDFD 246
Query: 844 KVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVAS 903
++F+ K + ++ L S +L GD++Q RE LE + G I +ATDVA+
Sbjct: 247 AAIIFVRTKNATLEVAEALERNGYNSAALNGDMNQALREQTLERLKDGRLDILIATDVAA 306
Query: 904 RGLDVPDLTHVINYDFPSHIEEYVHRVGRTG 934
RGLDV ++ V+NYD P E YVHR+GRTG
Sbjct: 307 RGLDVERISLVVNYDIPMDSESYVHRIGRTG 337
>gnl|CDD|235307 PRK04537, PRK04537, ATP-dependent RNA helicase RhlB; Provisional.
Length = 572
Score = 219 bits (558), Expect = 2e-61
Identities = 138/360 (38%), Positives = 201/360 (55%), Gaps = 11/360 (3%)
Query: 73 PVTSFK-QAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFL 131
P+T +F +P +L LE+ FT +PIQA P+ + G D+ G AQTGTGKT AFL
Sbjct: 5 PLTDLTFSSFDLHPALLAGLESAGFTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFL 64
Query: 132 LPALIHTHLQTTPISER--AGPSVLVMAPTRELATQIEREVNKIDYK-GLKAVCVYGGKE 188
+ A+++ L +++R P L++APTRELA QI ++ K GL+ VYGG +
Sbjct: 65 V-AVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHKDAVKFGADLGLRFALVYGGVD 123
Query: 189 IEPQLEKIREGCHILIATPGRLNDFVSRASI-DLKAVSFVVLDEADRMLDLGFEPQIN-- 245
+ Q E +++G ++IATPGRL D+V + + L A VLDEADRM DLGF I
Sbjct: 124 YDKQRELLQQGVDVIIATPGRLIDYVKQHKVVSLHACEICVLDEADRMFDLGFIKDIRFL 183
Query: 246 KTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDED 305
+ RQT++ SAT + V +A ++M P K+ V + + A V Q+I ++
Sbjct: 184 LRRMPERGTRQTLLFSATLSHRVLELAYEHMNEPEKLVVETETITAAR-VRQRIYFPADE 242
Query: 306 EKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIAL 365
EK+ L+ E + MVF+ KA V ++ L + L GD+ Q+ RE L
Sbjct: 243 EKQTLLLGLLSR--SEGARTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLL 300
Query: 366 EDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGRAGKSGESITL 425
G I VATDVA+RGL + + +V NYD P E+YVHR+GRT R G+ G++I+
Sbjct: 301 NRFQKGQLEILVATDVAARGLHIDGVKYVYNYDLPFDAEDYVHRIGRTARLGEEGDAISF 360
Score = 209 bits (533), Expect = 4e-58
Identities = 134/348 (38%), Positives = 193/348 (55%), Gaps = 11/348 (3%)
Query: 593 PVTSFK-QAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFL 651
P+T +F +P +L LE+ FT +PIQA P+ + G D+ G AQTGTGKT AFL
Sbjct: 5 PLTDLTFSSFDLHPALLAGLESAGFTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFL 64
Query: 652 LPALIHTHLQTTPISER--AGPSVLVMAPTRELATQIEREVNKIDYK-GLKAVCVYGGKE 708
+ A+++ L +++R P L++APTRELA QI ++ K GL+ VYGG +
Sbjct: 65 V-AVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHKDAVKFGADLGLRFALVYGGVD 123
Query: 709 LEPQLEKIREGCHILIATPGRLNDFVSRASI-DLKAVSFVVLDEADRMLDLGFEPQIN-- 765
+ Q E +++G ++IATPGRL D+V + + L A VLDEADRM DLGF I
Sbjct: 124 YDKQRELLQQGVDVIIATPGRLIDYVKQHKVVSLHACEICVLDEADRMFDLGFIKDIRFL 183
Query: 766 KTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDED 825
+ RQT++ SAT + V +A ++M P K+ V + + A V Q+I ++
Sbjct: 184 LRRMPERGTRQTLLFSATLSHRVLELAYEHMNEPEKLVVETETITAAR-VRQRIYFPADE 242
Query: 826 EKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIAL 885
EK+ L+ E + MVF+ KA V ++ L + L GD+ Q+ RE L
Sbjct: 243 EKQTLLLGLLSR--SEGARTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLL 300
Query: 886 EDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRT 933
G I VATDVA+RGL + + +V NYD P E+YVHR+GRT
Sbjct: 301 NRFQKGQLEILVATDVAARGLHIDGVKYVYNYDLPFDAEDYVHRIGRT 348
>gnl|CDD|185609 PTZ00424, PTZ00424, helicase 45; Provisional.
Length = 401
Score = 203 bits (517), Expect = 2e-57
Identities = 118/388 (30%), Positives = 205/388 (52%), Gaps = 16/388 (4%)
Query: 52 SVSVVTSDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILM 111
V S G I+ N D V SF A + ++LR + + F PS IQ + ++
Sbjct: 9 QSEQVASTGTIESNYD----EIVDSF-DALKLNEDLLRGIYSYGFEKPSAIQQRGIKPIL 63
Query: 112 SGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVN 171
G+D IG AQ+GTGKT F++ AL Q A L++APTRELA QI++ V
Sbjct: 64 DGYDTIGQAQSGTGKTATFVIAAL-----QLIDYDLNAC-QALILAPTRELAQQIQKVVL 117
Query: 172 KI-DYKGLKAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLD 230
+ DY ++ GG + + K++ G H+++ TPGR+ D + + + + + +LD
Sbjct: 118 ALGDYLKVRCHACVGGTVVRDDINKLKAGVHMVVGTPGRVYDMIDKRHLRVDDLKLFILD 177
Query: 231 EADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLA 290
EAD ML GF+ QI + P+ Q + SAT ++ + K+M +P ++ V +L
Sbjct: 178 EADEMLSRGFKGQIYDVFKKLPPDVQVALFSATMPNEILELTTKFMRDPKRILVKKDEL- 236
Query: 291 ATHTVTQKIIILDEDEKK-DWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKS 349
+ Q + ++++E K D L + ++ + + +++ + V ++ + +
Sbjct: 237 TLEGIRQFYVAVEKEEWKFDTLCDLYETL--TITQAIIYCNTRRKVDYLTKKMHERDFTV 294
Query: 350 CSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHR 409
++GD+ Q+DR++ + + SG R+ + TD+ +RG+DV ++ VINYD P+ E Y+HR
Sbjct: 295 SCMHGDMDQKDRDLIMREFRSGSTRVLITTDLLARGIDVQQVSLVINYDLPASPENYIHR 354
Query: 410 VGRTGRAGKSGESITLMTRKDWSHAHEI 437
+GR+GR G+ G +I +T D EI
Sbjct: 355 IGRSGRFGRKGVAINFVTPDDIEQLKEI 382
Score = 189 bits (482), Expect = 8e-53
Identities = 111/367 (30%), Positives = 195/367 (53%), Gaps = 16/367 (4%)
Query: 572 SVSVVTSDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILM 631
V S G I+ N D V SF A + ++LR + + F PS IQ + ++
Sbjct: 9 QSEQVASTGTIESNYD----EIVDSF-DALKLNEDLLRGIYSYGFEKPSAIQQRGIKPIL 63
Query: 632 SGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVN 691
G+D IG AQ+GTGKT F++ AL Q A L++APTRELA QI++ V
Sbjct: 64 DGYDTIGQAQSGTGKTATFVIAAL-----QLIDYDLNAC-QALILAPTRELAQQIQKVVL 117
Query: 692 KI-DYKGLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLD 750
+ DY ++ GG + + K++ G H+++ TPGR+ D + + + + + +LD
Sbjct: 118 ALGDYLKVRCHACVGGTVVRDDINKLKAGVHMVVGTPGRVYDMIDKRHLRVDDLKLFILD 177
Query: 751 EADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLA 810
EAD ML GF+ QI + P+ Q + SAT ++ + K+M +P ++ V +L
Sbjct: 178 EADEMLSRGFKGQIYDVFKKLPPDVQVALFSATMPNEILELTTKFMRDPKRILVKKDEL- 236
Query: 811 ATHTVTQKIIILDEDEKK-DWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKS 869
+ Q + ++++E K D L + ++ + + +++ + V ++ + +
Sbjct: 237 TLEGIRQFYVAVEKEEWKFDTLCDLYETL--TITQAIIYCNTRRKVDYLTKKMHERDFTV 294
Query: 870 CSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHR 929
++GD+ Q+DR++ + + SG R+ + TD+ +RG+DV ++ VINYD P+ E Y+HR
Sbjct: 295 SCMHGDMDQKDRDLIMREFRSGSTRVLITTDLLARGIDVQQVSLVINYDLPASPENYIHR 354
Query: 930 VGRTGEF 936
+GR+G F
Sbjct: 355 IGRSGRF 361
>gnl|CDD|215103 PLN00206, PLN00206, DEAD-box ATP-dependent RNA helicase;
Provisional.
Length = 518
Score = 205 bits (523), Expect = 4e-57
Identities = 128/430 (29%), Positives = 220/430 (51%), Gaps = 34/430 (7%)
Query: 27 YKEDPEVAN-MTPEQVEAFRKKNNDISVSVVTSDGQIDENPDFQIPNPVTSFKQAFQHYP 85
Y DP + ++ Q E R+K + + V +P P+ SF P
Sbjct: 85 YVRDPGSTSGLSSSQAELLRRK---LEIHVKGEA----------VPPPILSFSSC-GLPP 130
Query: 86 EILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIH-THLQTTP 144
++L LE + P+PIQ QA P +SG ++ A TG+GKT +FL+P + +++
Sbjct: 131 KLLLNLETAGYEFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFLVPIISRCCTIRSGH 190
Query: 145 ISERAGPSVLVMAPTRELATQIEREVNKIDYKGL--KAVCVYGGKEIEPQLEKIREGCHI 202
SE+ P +V+ PTREL Q+E + K+ KGL K V GG + QL +I++G +
Sbjct: 191 PSEQRNPLAMVLTPTRELCVQVE-DQAKVLGKGLPFKTALVVGGDAMPQQLYRIQQGVEL 249
Query: 203 LIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYIN-PNRQTVMTS 261
++ TPGRL D +S+ I+L VS +VLDE D ML+ GF Q+ I+ Q ++ S
Sbjct: 250 IVGTPGRLIDLLSKHDIELDNVSVLVLDEVDCMLERGFRDQV--MQIFQALSQPQVLLFS 307
Query: 262 ATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEE 321
AT + +V++ A + + +++G+ + V Q I ++ +KK L + +
Sbjct: 308 ATVSPEVEKFASSLAKDIILISIGNPN-RPNKAVKQLAIWVETKQKKQKLFDILKSKQHF 366
Query: 322 RDKVMVFMGRKASVSAMSSDLACQY------RKSCSLYGDLSQEDREIALEDITSGYARI 375
+ +VF+ S + +DL K+ S++G+ S ++R ++ G +
Sbjct: 367 KPPAVVFVS-----SRLGADLLANAITVVTGLKALSIHGEKSMKERREVMKSFLVGEVPV 421
Query: 376 CVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGRAGKSGESITLMTRKDWSHAH 435
VAT V RG+D+ + VI +D P+ I+EY+H++GR R G+ G +I + +D +
Sbjct: 422 IVATGVLGRGVDLLRVRQVIIFDMPNTIKEYIHQIGRASRMGEKGTAIVFVNEEDRNLFP 481
Query: 436 EIIPILEEGG 445
E++ +L+ G
Sbjct: 482 ELVALLKSSG 491
Score = 196 bits (500), Expect = 4e-54
Identities = 120/397 (30%), Positives = 203/397 (51%), Gaps = 34/397 (8%)
Query: 547 YKEDPEVAN-MTPEQVEAFRKKNNDISVSVVTSDGQIDENPDFQIPNPVTSFKQAFQHYP 605
Y DP + ++ Q E R+K + + V +P P+ SF P
Sbjct: 85 YVRDPGSTSGLSSSQAELLRRK---LEIHVKGEA----------VPPPILSFSSC-GLPP 130
Query: 606 EILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIH-THLQTTP 664
++L LE + P+PIQ QA P +SG ++ A TG+GKT +FL+P + +++
Sbjct: 131 KLLLNLETAGYEFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFLVPIISRCCTIRSGH 190
Query: 665 ISERAGPSVLVMAPTRELATQIEREVNKIDYKGL--KAVCVYGGKELEPQLEKIREGCHI 722
SE+ P +V+ PTREL Q+E + K+ KGL K V GG + QL +I++G +
Sbjct: 191 PSEQRNPLAMVLTPTRELCVQVE-DQAKVLGKGLPFKTALVVGGDAMPQQLYRIQQGVEL 249
Query: 723 LIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYIN-PNRQTVMTS 781
++ TPGRL D +S+ I+L VS +VLDE D ML+ GF Q+ I+ Q ++ S
Sbjct: 250 IVGTPGRLIDLLSKHDIELDNVSVLVLDEVDCMLERGFRDQV--MQIFQALSQPQVLLFS 307
Query: 782 ATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEE 841
AT + +V++ A + + +++G+ + V Q I ++ +KK L + +
Sbjct: 308 ATVSPEVEKFASSLAKDIILISIGNPN-RPNKAVKQLAIWVETKQKKQKLFDILKSKQHF 366
Query: 842 RDKVMVFMGRKASVSAMSSDLACQY------RKSCSLYGDLSQEDREIALEDITSGYARI 895
+ +VF+ S + +DL K+ S++G+ S ++R ++ G +
Sbjct: 367 KPPAVVFVS-----SRLGADLLANAITVVTGLKALSIHGEKSMKERREVMKSFLVGEVPV 421
Query: 896 CVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGR 932
VAT V RG+D+ + VI +D P+ I+EY+H++GR
Sbjct: 422 IVATGVLGRGVDLLRVRQVIIFDMPNTIKEYIHQIGR 458
>gnl|CDD|215832 pfam00270, DEAD, DEAD/DEAH box helicase. Members of this family
include the DEAD and DEAH box helicases. Helicases are
involved in unwinding nucleic acids. The DEAD box
helicases are involved in various aspects of RNA
metabolism, including nuclear transcription, pre mRNA
splicing, ribosome biogenesis, nucleocytoplasmic
transport, translation, RNA decay and organellar gene
expression.
Length = 169
Score = 191 bits (488), Expect = 2e-56
Identities = 71/175 (40%), Positives = 108/175 (61%), Gaps = 9/175 (5%)
Query: 100 SPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPT 159
+PIQAQA P ++SG D++ A TG+GKT AFLLP L + ++ GP LV+APT
Sbjct: 1 TPIQAQAIPAILSGKDVLVQAPTGSGKTLAFLLPILQAL------LPKKGGPQALVLAPT 54
Query: 160 RELATQIEREVNKI-DYKGLKAVCVYGGKEIEPQLEKIREG-CHILIATPGRLNDFVSRA 217
RELA QI E+ K+ GL+ + GG ++ Q K+++G IL+ TPGRL D + R
Sbjct: 55 RELAEQIYEELKKLFKILGLRVALLTGGTSLKEQARKLKKGKADILVGTPGRLLDLLRRG 114
Query: 218 SIDL-KAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRV 271
+ L K + +VLDEA R+LD+GF + + + P+RQ ++ SAT ++++ +
Sbjct: 115 KLKLLKNLKLLVLDEAHRLLDMGFGDDLEEILSRLPPDRQILLLSATLPRNLEDL 169
Score = 191 bits (487), Expect = 2e-56
Identities = 72/175 (41%), Positives = 108/175 (61%), Gaps = 9/175 (5%)
Query: 620 SPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPT 679
+PIQAQA P ++SG D++ A TG+GKT AFLLP L + ++ GP LV+APT
Sbjct: 1 TPIQAQAIPAILSGKDVLVQAPTGSGKTLAFLLPILQAL------LPKKGGPQALVLAPT 54
Query: 680 RELATQIEREVNKI-DYKGLKAVCVYGGKELEPQLEKIREG-CHILIATPGRLNDFVSRA 737
RELA QI E+ K+ GL+ + GG L+ Q K+++G IL+ TPGRL D + R
Sbjct: 55 RELAEQIYEELKKLFKILGLRVALLTGGTSLKEQARKLKKGKADILVGTPGRLLDLLRRG 114
Query: 738 SIDL-KAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRV 791
+ L K + +VLDEA R+LD+GF + + + P+RQ ++ SAT ++++ +
Sbjct: 115 KLKLLKNLKLLVLDEAHRLLDMGFGDDLEEILSRLPPDRQILLLSATLPRNLEDL 169
>gnl|CDD|214692 smart00487, DEXDc, DEAD-like helicases superfamily.
Length = 201
Score = 178 bits (454), Expect = 2e-51
Identities = 78/202 (38%), Positives = 109/202 (53%), Gaps = 10/202 (4%)
Query: 91 LENLSFTTPSPIQAQAWPILMSG-HDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERA 149
+E F P Q +A L+SG D+I A TG+GKT A LLPAL +
Sbjct: 1 IEKFGFEPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEA-------LKRGK 53
Query: 150 GPSVLVMAPTRELATQIEREVNKI-DYKGLKAVCVYGGKEIEPQLEKIREGC-HILIATP 207
G VLV+ PTRELA Q E+ K+ GLK V +YGG QL K+ G IL+ TP
Sbjct: 54 GGRVLVLVPTRELAEQWAEELKKLGPSLGLKVVGLYGGDSKREQLRKLESGKTDILVTTP 113
Query: 208 GRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKD 267
GRL D + + L V V+LDEA R+LD GF Q+ K + N Q ++ SAT ++
Sbjct: 114 GRLLDLLENDKLSLSNVDLVILDEAHRLLDGGFGDQLEKLLKLLPKNVQLLLLSATPPEE 173
Query: 268 VQRVAKKYMVNPVKVNVGSLDL 289
++ + + ++ +PV ++VG L
Sbjct: 174 IENLLELFLNDPVFIDVGFTPL 195
Score = 178 bits (452), Expect = 4e-51
Identities = 78/202 (38%), Positives = 109/202 (53%), Gaps = 10/202 (4%)
Query: 611 LENLSFTTPSPIQAQAWPILMSG-HDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERA 669
+E F P Q +A L+SG D+I A TG+GKT A LLPAL +
Sbjct: 1 IEKFGFEPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEA-------LKRGK 53
Query: 670 GPSVLVMAPTRELATQIEREVNKI-DYKGLKAVCVYGGKELEPQLEKIREGC-HILIATP 727
G VLV+ PTRELA Q E+ K+ GLK V +YGG QL K+ G IL+ TP
Sbjct: 54 GGRVLVLVPTRELAEQWAEELKKLGPSLGLKVVGLYGGDSKREQLRKLESGKTDILVTTP 113
Query: 728 GRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKD 787
GRL D + + L V V+LDEA R+LD GF Q+ K + N Q ++ SAT ++
Sbjct: 114 GRLLDLLENDKLSLSNVDLVILDEAHRLLDGGFGDQLEKLLKLLPKNVQLLLLSATPPEE 173
Query: 788 VQRVAKKYMVNPVKVNVGSLDL 809
++ + + ++ +PV ++VG L
Sbjct: 174 IENLLELFLNDPVFIDVGFTPL 195
>gnl|CDD|238005 cd00046, DEXDc, DEAD-like helicases superfamily. A diverse family
of proteins involved in ATP-dependent RNA or DNA
unwinding. This domain contains the ATP-binding region.
Length = 144
Score = 141 bits (358), Expect = 3e-39
Identities = 54/151 (35%), Positives = 83/151 (54%), Gaps = 7/151 (4%)
Query: 114 HDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI 173
D++ A TG+GKT A LLP L + G VLV+APTRELA Q+ + ++
Sbjct: 1 RDVLLAAPTGSGKTLAALLPILEL-------LDSLKGGQVLVLAPTRELANQVAERLKEL 53
Query: 174 DYKGLKAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEAD 233
+G+K + GG I+ Q + + I++ TPGRL D + R + LK + ++LDEA
Sbjct: 54 FGEGIKVGYLIGGTSIKQQEKLLSGKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAH 113
Query: 234 RMLDLGFEPQINKTSIYINPNRQTVMTSATW 264
R+L+ GF K + + +RQ ++ SAT
Sbjct: 114 RLLNQGFGLLGLKILLKLPKDRQVLLLSATP 144
Score = 140 bits (355), Expect = 9e-39
Identities = 53/151 (35%), Positives = 83/151 (54%), Gaps = 7/151 (4%)
Query: 634 HDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI 693
D++ A TG+GKT A LLP L + G VLV+APTRELA Q+ + ++
Sbjct: 1 RDVLLAAPTGSGKTLAALLPILEL-------LDSLKGGQVLVLAPTRELANQVAERLKEL 53
Query: 694 DYKGLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEAD 753
+G+K + GG ++ Q + + I++ TPGRL D + R + LK + ++LDEA
Sbjct: 54 FGEGIKVGYLIGGTSIKQQEKLLSGKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAH 113
Query: 754 RMLDLGFEPQINKTSIYINPNRQTVMTSATW 784
R+L+ GF K + + +RQ ++ SAT
Sbjct: 114 RLLNQGFGLLGLKILLKLPKDRQVLLLSATP 144
>gnl|CDD|238034 cd00079, HELICc, Helicase superfamily c-terminal domain; associated
with DEXDc-, DEAD-, and DEAH-box proteins, yeast
initiation factor 4A, Ski2p, and Hepatitis C virus NS3
helicases; this domain is found in a wide variety of
helicases and helicase related proteins; may not be an
autonomously folding unit, but an integral part of the
helicase; 4 helicase superfamilies at present according
to the organization of their signature motifs; all
helicases share the ability to unwind nucleic acid
duplexes with a distinct directional polarity; they
utilize the free energy from nucleoside triphosphate
hydrolysis to fuel their translocation along DNA,
unwinding the duplex in the process.
Length = 131
Score = 121 bits (306), Expect = 3e-32
Identities = 49/122 (40%), Positives = 73/122 (59%)
Query: 304 EDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREI 363
EDEK + L+E ++ KV++F K + ++ L K +L+GD SQE+RE
Sbjct: 10 EDEKLEALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRKPGIKVAALHGDGSQEEREE 69
Query: 364 ALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGRAGKSGESI 423
L+D G + VATDV +RG+D+P+++ VINYD P Y+ R+GR GRAG+ G +I
Sbjct: 70 VLKDFREGEIVVLVATDVIARGIDLPNVSVVINYDLPWSPSSYLQRIGRAGRAGQKGTAI 129
Query: 424 TL 425
L
Sbjct: 130 LL 131
Score = 107 bits (269), Expect = 2e-27
Identities = 43/111 (38%), Positives = 65/111 (58%)
Query: 824 EDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREI 883
EDEK + L+E ++ KV++F K + ++ L K +L+GD SQE+RE
Sbjct: 10 EDEKLEALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRKPGIKVAALHGDGSQEEREE 69
Query: 884 ALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTG 934
L+D G + VATDV +RG+D+P+++ VINYD P Y+ R+GR G
Sbjct: 70 VLKDFREGEIVVLVATDVIARGIDLPNVSVVINYDLPWSPSSYLQRIGRAG 120
Score = 34.9 bits (81), Expect = 0.057
Identities = 24/92 (26%), Positives = 42/92 (45%), Gaps = 13/92 (14%)
Query: 150 GPSVLVMAPTRELATQIEREVNKIDYKGLKAVCVYGGKEIEP---QLEKIREG-CHILIA 205
G VL+ P++++ ++ + K G+K ++G E L+ REG +L+A
Sbjct: 28 GGKVLIFCPSKKMLDELAELLRK---PGIKVAALHGDGSQEEREEVLKDFREGEIVVLVA 84
Query: 206 TPGRLNDFVSRASIDLKAVSFVVLDEADRMLD 237
T D ++R IDL VS V+ +
Sbjct: 85 T-----DVIARG-IDLPNVSVVINYDLPWSPS 110
Score = 34.5 bits (80), Expect = 0.058
Identities = 24/92 (26%), Positives = 42/92 (45%), Gaps = 13/92 (14%)
Query: 670 GPSVLVMAPTRELATQIEREVNKIDYKGLKAVCVYGGKELEP---QLEKIREG-CHILIA 725
G VL+ P++++ ++ + K G+K ++G E L+ REG +L+A
Sbjct: 28 GGKVLIFCPSKKMLDELAELLRK---PGIKVAALHGDGSQEEREEVLKDFREGEIVVLVA 84
Query: 726 TPGRLNDFVSRASIDLKAVSFVVLDEADRMLD 757
T D ++R IDL VS V+ +
Sbjct: 85 T-----DVIARG-IDLPNVSVVINYDLPWSPS 110
>gnl|CDD|201125 pfam00271, Helicase_C, Helicase conserved C-terminal domain. The
Prosite family is restricted to DEAD/H helicases,
whereas this domain family is found in a wide variety of
helicases and helicase related proteins. It may be that
this is not an autonomously folding unit, but an
integral part of the helicase.
Length = 78
Score = 98.7 bits (247), Expect = 6e-25
Identities = 38/70 (54%), Positives = 50/70 (71%)
Query: 348 KSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYV 407
K L+G LSQE+RE LED +G +++ VATDVA RG+D+PD+ VINYD P + Y+
Sbjct: 9 KVARLHGGLSQEEREEILEDFRNGKSKVLVATDVAGRGIDLPDVNLVINYDLPWNPASYI 68
Query: 408 HRVGRTGRAG 417
R+GR GRAG
Sbjct: 69 QRIGRAGRAG 78
Score = 91.8 bits (229), Expect = 1e-22
Identities = 35/67 (52%), Positives = 47/67 (70%)
Query: 868 KSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYV 927
K L+G LSQE+RE LED +G +++ VATDVA RG+D+PD+ VINYD P + Y+
Sbjct: 9 KVARLHGGLSQEEREEILEDFRNGKSKVLVATDVAGRGIDLPDVNLVINYDLPWNPASYI 68
Query: 928 HRVGRTG 934
R+GR G
Sbjct: 69 QRIGRAG 75
>gnl|CDD|197757 smart00490, HELICc, helicase superfamily c-terminal domain.
Length = 82
Score = 93.4 bits (233), Expect = 4e-23
Identities = 35/70 (50%), Positives = 45/70 (64%)
Query: 348 KSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYV 407
K L+G LSQE+RE L+ +G ++ VATDVA RGLD+P + VI YD P Y+
Sbjct: 13 KVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYI 72
Query: 408 HRVGRTGRAG 417
R+GR GRAG
Sbjct: 73 QRIGRAGRAG 82
Score = 87.3 bits (217), Expect = 7e-21
Identities = 32/67 (47%), Positives = 42/67 (62%)
Query: 868 KSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYV 927
K L+G LSQE+RE L+ +G ++ VATDVA RGLD+P + VI YD P Y+
Sbjct: 13 KVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYI 72
Query: 928 HRVGRTG 934
R+GR G
Sbjct: 73 QRIGRAG 79
>gnl|CDD|224126 COG1205, COG1205, Distinct helicase family with a unique C-terminal
domain including a metal-binding cysteine cluster
[General function prediction only].
Length = 851
Score = 75.5 bits (186), Expect = 9e-14
Identities = 75/364 (20%), Positives = 124/364 (34%), Gaps = 71/364 (19%)
Query: 103 QAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTREL 162
Q A ++ G +++ TG+GKT +FLLP L S RA L++ PT L
Sbjct: 75 QVDALRLIREGRNVVVTTGTGSGKTESFLLPIL---DHLLRDPSARA----LLLYPTNAL 127
Query: 163 AT-QIER--EVNKIDYKGLKAVCVYGGKEIEPQ--LEKIREGCHILIATPGRLNDFVSRA 217
A Q ER E+ + Y G + P+ IR IL+ P L+ + R
Sbjct: 128 ANDQAERLRELISDLPGKVTFG-RYTG-DTPPEERRAIIRNPPDILLTNPDMLHYLLLRN 185
Query: 218 S----IDLKAVSFVVLDEA---------------DRMLDLGFEPQINKTSIYINPNRQTV 258
L+ + ++V+DE R+L + Q +
Sbjct: 186 HDAWLWLLRNLKYLVVDELHTYRGVQGSEVALLLRRLLRR-----LR----RYGSPLQII 236
Query: 259 MTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNM 318
TSAT + A++ +V V D + + + ++ +
Sbjct: 237 CTSATL-ANPGEFAEELFGRDFEVPV-DEDGSPRGLR--YFVRREPPIRELAESIRRSAL 292
Query: 319 DE----------ERDKVMVFM-GRK----------ASVSAMSSDLACQYRKSCSLYGDLS 357
E + +VF RK + L + L
Sbjct: 293 AELATLAALLVRNGIQTLVFFRSRKQVELLYLSPRRRLVREGGKLL---DAVSTYRAGLH 349
Query: 358 QEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSH-IEEYVHRVGRTGRA 416
+E+R + G +AT+ G+D+ L VI Y +P + + R GR GR
Sbjct: 350 REERRRIEAEFKEGELLGVIATNALELGIDIGSLDAVIAYGYPGVSVLSFRQRAGRAGRR 409
Query: 417 GKSG 420
G+
Sbjct: 410 GQES 413
Score = 69.0 bits (169), Expect = 8e-12
Identities = 71/357 (19%), Positives = 118/357 (33%), Gaps = 69/357 (19%)
Query: 623 QAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTREL 682
Q A ++ G +++ TG+GKT +FLLP L S RA L++ PT L
Sbjct: 75 QVDALRLIREGRNVVVTTGTGSGKTESFLLPIL---DHLLRDPSARA----LLLYPTNAL 127
Query: 683 AT-QIER--EVNKIDYKGLKAVCVYGGKELEPQLEKIREG-CHILIATPGRLNDFVSRAS 738
A Q ER E+ + Y G + I IL+ P L+ + R
Sbjct: 128 ANDQAERLRELISDLPGKVTFG-RYTGDTPPEERRAIIRNPPDILLTNPDMLHYLLLRNH 186
Query: 739 ----IDLKAVSFVVLDEA---------------DRMLDLGFEPQINKTSIYINPNRQTVM 779
L+ + ++V+DE R+L + Q +
Sbjct: 187 DAWLWLLRNLKYLVVDELHTYRGVQGSEVALLLRRLLRR-----LR----RYGSPLQIIC 237
Query: 780 TSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMD 839
TSAT + A++ +V V D + + + ++ +
Sbjct: 238 TSATL-ANPGEFAEELFGRDFEVPV-DEDGSPRGLR--YFVRREPPIRELAESIRRSALA 293
Query: 840 E----------ERDKVMVFM-GRK----------ASVSAMSSDLACQYRKSCSLYGDLSQ 878
E + +VF RK + L + L +
Sbjct: 294 ELATLAALLVRNGIQTLVFFRSRKQVELLYLSPRRRLVREGGKLL---DAVSTYRAGLHR 350
Query: 879 EDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSH-IEEYVHRVGRTG 934
E+R + G +AT+ G+D+ L VI Y +P + + R GR G
Sbjct: 351 EERRRIEAEFKEGELLGVIATNALELGIDIGSLDAVIAYGYPGVSVLSFRQRAGRAG 407
>gnl|CDD|223588 COG0514, RecQ, Superfamily II DNA helicase [DNA replication,
recombination, and repair].
Length = 590
Score = 73.9 bits (182), Expect = 2e-13
Identities = 79/346 (22%), Positives = 148/346 (42%), Gaps = 31/346 (8%)
Query: 103 QAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTREL 162
Q + L+SG D + + TG GK+ + +PAL+ G LV++P L
Sbjct: 22 QQEIIDALLSGKDTLVVMPTGGGKSLCYQIPALL-----------LEGL-TLVVSP---L 66
Query: 163 ATQIEREVNKIDYKGLKAVCVYGG---KEIEPQLEKIREG-CHILIATPGRLNDFVSRAS 218
+ ++ +V++++ G++A + +E + L +++ G +L +P RL
Sbjct: 67 ISLMKDQVDQLEAAGIRAAYLNSTLSREERQQVLNQLKSGQLKLLYISPERLMSPRFLEL 126
Query: 219 IDLKAVSFVVLDEADRMLDLG--FEPQINKTSIYIN--PNRQTVMTSATWNKDVQRVAKK 274
+ +S V +DEA + G F P + PN + +AT V+ ++
Sbjct: 127 LKRLPISLVAIDEAHCISQWGHDFRPDYRRLGRLRAGLPNPPVLALTATATPRVRDDIRE 186
Query: 275 YM-VNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERDK-VMVFMGRK 332
+ + + GS D K++ E + + F + + K +++ +
Sbjct: 187 QLGLQDANIFRGSFDRPNLAL---KVVEKGEPSDQ---LAFLATVLPQLSKSGIIYCLTR 240
Query: 333 ASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLT 392
V ++ L + + + LS E+RE + + ++ VAT+ G+D PD+
Sbjct: 241 KKVEELAEWLRKNGISAGAYHAGLSNEERERVQQAFLNDEIKVMVATNAFGMGIDKPDVR 300
Query: 393 HVINYDFPSHIEEYVHRVGRTGRAGKSGESITLMTRKDWSHAHEII 438
VI+YD P IE Y GR GR G E+I L + +D +I
Sbjct: 301 FVIHYDLPGSIESYYQETGRAGRDGLPAEAILLYSPEDIRWQRYLI 346
Score = 59.2 bits (144), Expect = 6e-09
Identities = 72/322 (22%), Positives = 137/322 (42%), Gaps = 31/322 (9%)
Query: 623 QAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTREL 682
Q + L+SG D + + TG GK+ + +PAL+ G LV++P L
Sbjct: 22 QQEIIDALLSGKDTLVVMPTGGGKSLCYQIPALL-----------LEGL-TLVVSP---L 66
Query: 683 ATQIEREVNKIDYKGLKAVCVYGG---KELEPQLEKIREG-CHILIATPGRLNDFVSRAS 738
+ ++ +V++++ G++A + +E + L +++ G +L +P RL
Sbjct: 67 ISLMKDQVDQLEAAGIRAAYLNSTLSREERQQVLNQLKSGQLKLLYISPERLMSPRFLEL 126
Query: 739 IDLKAVSFVVLDEADRMLDLG--FEPQINKTSIYIN--PNRQTVMTSATWNKDVQRVAKK 794
+ +S V +DEA + G F P + PN + +AT V+ ++
Sbjct: 127 LKRLPISLVAIDEAHCISQWGHDFRPDYRRLGRLRAGLPNPPVLALTATATPRVRDDIRE 186
Query: 795 YM-VNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERDK-VMVFMGRK 852
+ + + GS D K++ E + + F + + K +++ +
Sbjct: 187 QLGLQDANIFRGSFDRPNLAL---KVVEKGEPSDQ---LAFLATVLPQLSKSGIIYCLTR 240
Query: 853 ASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLT 912
V ++ L + + + LS E+RE + + ++ VAT+ G+D PD+
Sbjct: 241 KKVEELAEWLRKNGISAGAYHAGLSNEERERVQQAFLNDEIKVMVATNAFGMGIDKPDVR 300
Query: 913 HVINYDFPSHIEEYVHRVGRTG 934
VI+YD P IE Y GR G
Sbjct: 301 FVIHYDLPGSIESYYQETGRAG 322
>gnl|CDD|224122 COG1201, Lhr, Lhr-like helicases [General function prediction
only].
Length = 814
Score = 69.2 bits (170), Expect = 7e-12
Identities = 91/368 (24%), Positives = 159/368 (43%), Gaps = 56/368 (15%)
Query: 80 AFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTH 139
F +R+ FT+ +P Q A P + SG +++ IA TG+GKT A LP +
Sbjct: 4 IFNILDPRVREWFKRKFTSLTPPQRYAIPEIHSGENVLIIAPTGSGKTEAAFLPVINELL 63
Query: 140 LQTTPISERAGPSVLVMAPTRELATQIEREVNK-IDYKGLKAVCVYGGKEIEPQLEK--- 195
E G L ++P + L I R + + + G++ V V G PQ EK
Sbjct: 64 SLGKGKLE-DGIYALYISPLKALNNDIRRRLEEPLRELGIE-VAVRHGD--TPQSEKQKM 119
Query: 196 IREGCHILIATPGRLNDFVS--RASIDLKAVSFVVLDEADRMLDLGFEPQINKTSI---- 249
++ HILI TP L ++ + L+ V +V++DE + + +K +
Sbjct: 120 LKNPPHILITTPESLAILLNSPKFRELLRDVRYVIVDEIHALAE-------SKRGVQLAL 172
Query: 250 ------YINPNRQTVMTSATWNKDVQRVAKKYMV---NPVKVNVGSLDLAATHTVTQKII 300
+ + Q + SAT + VA K++V +P ++ +D++A + K+I
Sbjct: 173 SLERLRELAGDFQRIGLSAT-VGPPEEVA-KFLVGFGDPCEI----VDVSAAKKLEIKVI 226
Query: 301 ILDED---EKKDW--LMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGD 355
ED +++ W L E + ++ ++F + + + LA + +K L D
Sbjct: 227 SPVEDLIYDEELWAALYERIAELVKKHRTTLIFTNTR----SGAERLAFRLKK---LGPD 279
Query: 356 --------LSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYV 407
LS+E R E + G + VAT G+D+ D+ VI P + ++
Sbjct: 280 IIEVHHGSLSRELRLEVEERLKEGELKAVVATSSLELGIDIGDIDLVIQLGSPKSVNRFL 339
Query: 408 HRVGRTGR 415
R+GR G
Sbjct: 340 QRIGRAGH 347
Score = 68.1 bits (167), Expect = 1e-11
Identities = 91/367 (24%), Positives = 159/367 (43%), Gaps = 56/367 (15%)
Query: 600 AFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTH 659
F +R+ FT+ +P Q A P + SG +++ IA TG+GKT A LP +
Sbjct: 4 IFNILDPRVREWFKRKFTSLTPPQRYAIPEIHSGENVLIIAPTGSGKTEAAFLPVINELL 63
Query: 660 LQTTPISERAGPSVLVMAPTRELATQIEREVNK-IDYKGLKAVCVYGGKELEPQLEK--- 715
E G L ++P + L I R + + + G++ V V G PQ EK
Sbjct: 64 SLGKGKLE-DGIYALYISPLKALNNDIRRRLEEPLRELGIE-VAVRHGD--TPQSEKQKM 119
Query: 716 IREGCHILIATPGRLNDFVS--RASIDLKAVSFVVLDEADRMLDLGFEPQINKTSI---- 769
++ HILI TP L ++ + L+ V +V++DE + + +K +
Sbjct: 120 LKNPPHILITTPESLAILLNSPKFRELLRDVRYVIVDEIHALAE-------SKRGVQLAL 172
Query: 770 ------YINPNRQTVMTSATWNKDVQRVAKKYMV---NPVKVNVGSLDLAATHTVTQKII 820
+ + Q + SAT + VA K++V +P ++ +D++A + K+I
Sbjct: 173 SLERLRELAGDFQRIGLSAT-VGPPEEVA-KFLVGFGDPCEI----VDVSAAKKLEIKVI 226
Query: 821 ILDED---EKKDW--LMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGD 875
ED +++ W L E + ++ ++F + + + LA + +K L D
Sbjct: 227 SPVEDLIYDEELWAALYERIAELVKKHRTTLIFTNTR----SGAERLAFRLKK---LGPD 279
Query: 876 --------LSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYV 927
LS+E R E + G + VAT G+D+ D+ VI P + ++
Sbjct: 280 IIEVHHGSLSRELRLEVEERLKEGELKAVVATSSLELGIDIGDIDLVIQLGSPKSVNRFL 339
Query: 928 HRVGRTG 934
R+GR G
Sbjct: 340 QRIGRAG 346
>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 [DNA metabolism, DNA
replication, recombination, and repair].
Length = 591
Score = 64.7 bits (158), Expect = 1e-10
Identities = 77/352 (21%), Positives = 143/352 (40%), Gaps = 59/352 (16%)
Query: 110 LMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIERE 169
++ G D++ + TG GK+ + +PAL+ G +V V++P L + ++ +
Sbjct: 25 VLDGRDVLVVMPTGGGKSLCYQVPALL-----------LKGLTV-VISP---LISLMKDQ 69
Query: 170 VNKIDYKGLKAVCVYGGKEIEPQLE---KIREG-CHILIATPGRLN-----DFVSRASID 220
V+++ G+ A + + Q + + G +L P RL + + R I
Sbjct: 70 VDQLRAAGVAAAYLNSTLSAKEQQDIEKALVNGELKLLYVAPERLEQDYFLNMLQRIPIA 129
Query: 221 LKAVSFVVLDEADRMLDLG--FEPQINKTSIYIN--PNRQTVMTSATWNKDVQRVAKKYM 276
L AV DEA + G F P+ + P + +AT + + ++ ++
Sbjct: 130 LVAV-----DEAHCVSQWGHDFRPEYQRLGSLAERFPQVPRIALTATADAETRQDIREL- 183
Query: 277 VNPVKVNVGSLDLAATHTVTQKIIILDEDE----------KKDWLMEFFDNMDEERDKVM 326
L LA + + I D K+ +L+++ + ++
Sbjct: 184 ----------LRLADAN---EFITSFDRPNLRFSVVKKNNKQKFLLDYL-KKHRGQSGII 229
Query: 327 VFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGL 386
RK V ++ L Q + + + LS + R ED ++ VAT+ G+
Sbjct: 230 YASSRK-KVEELAERLESQGISALAYHAGLSNKVRAENQEDFLYDDVKVMVATNAFGMGI 288
Query: 387 DVPDLTHVINYDFPSHIEEYVHRVGRTGRAGKSGESITLMTRKDWSHAHEII 438
D P++ VI+YD P ++E Y GR GR G E+I L + D + I
Sbjct: 289 DKPNVRFVIHYDMPGNLESYYQEAGRAGRDGLPAEAILLYSPADIALLKRRI 340
Score = 52.4 bits (126), Expect = 8e-07
Identities = 70/328 (21%), Positives = 133/328 (40%), Gaps = 59/328 (17%)
Query: 630 LMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIERE 689
++ G D++ + TG GK+ + +PAL+ G +V V++P L + ++ +
Sbjct: 25 VLDGRDVLVVMPTGGGKSLCYQVPALL-----------LKGLTV-VISP---LISLMKDQ 69
Query: 690 VNKIDYKGLKAVCVYGGKELEPQLE---KIREG-CHILIATPGRLN-----DFVSRASID 740
V+++ G+ A + + Q + + G +L P RL + + R I
Sbjct: 70 VDQLRAAGVAAAYLNSTLSAKEQQDIEKALVNGELKLLYVAPERLEQDYFLNMLQRIPIA 129
Query: 741 LKAVSFVVLDEADRMLDLG--FEPQINKTSIYIN--PNRQTVMTSATWNKDVQRVAKKYM 796
L AV DEA + G F P+ + P + +AT + + ++ ++
Sbjct: 130 LVAV-----DEAHCVSQWGHDFRPEYQRLGSLAERFPQVPRIALTATADAETRQDIREL- 183
Query: 797 VNPVKVNVGSLDLAATHTVTQKIIILDEDE----------KKDWLMEFFDNMDEERDKVM 846
L LA + + I D K+ +L+++ + ++
Sbjct: 184 ----------LRLADAN---EFITSFDRPNLRFSVVKKNNKQKFLLDYL-KKHRGQSGII 229
Query: 847 VFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGL 906
RK V ++ L Q + + + LS + R ED ++ VAT+ G+
Sbjct: 230 YASSRK-KVEELAERLESQGISALAYHAGLSNKVRAENQEDFLYDDVKVMVATNAFGMGI 288
Query: 907 DVPDLTHVINYDFPSHIEEYVHRVGRTG 934
D P++ VI+YD P ++E Y GR G
Sbjct: 289 DKPNVRFVIHYDMPGNLESYYQEAGRAG 316
>gnl|CDD|223989 COG1061, SSL2, DNA or RNA helicases of superfamily II
[Transcription / DNA replication, recombination, and
repair].
Length = 442
Score = 58.6 bits (142), Expect = 9e-09
Identities = 67/379 (17%), Positives = 122/379 (32%), Gaps = 86/379 (22%)
Query: 97 TTPSPIQAQA----WPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPS 152
P Q +A + + + TG GKT S
Sbjct: 35 FELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAE------------AIAELKRS 82
Query: 153 VLVMAPTRELATQ----IEREVNKIDYKGLKAVCVYGGKEIEPQLEKIREGCHILIATPG 208
LV+ PT+EL Q +++ + D G +YGG E E E + +AT
Sbjct: 83 TLVLVPTKELLDQWAEALKKFLLLNDEIG-----IYGGGEKEL------EPAKVTVAT-- 129
Query: 209 RLNDFVSRASIDLK---AVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSAT-W 264
+ R +D ++ DE + + + + +T AT
Sbjct: 130 -VQTLARRQLLDEFLGNEFGLIIFDEVHHLPAPSYR---RILELLSAAYPRLGLT-ATPE 184
Query: 265 NKDVQRVAKKYMVNPVKV-NVGSLDLA-----ATHTVTQKIIILDEDEKKDWLMEFFDNM 318
+D R+ + + V V +L A + + + L EDE++++ E
Sbjct: 185 REDGGRIGDLFDLIGPIVYEVSLKELIDEGYLAPYKYVEIKVTLTEDEEREYAKESARFR 244
Query: 319 D-----------------------------------EERDKVMVFMGRKASVSAMSSDLA 343
+ DK ++F ++
Sbjct: 245 ELLRARGTLRAENEARRIAIASERKIAAVRGLLLKHARGDKTLIFASDVEHAYEIAKLF- 303
Query: 344 CQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHI 403
++ G+ +E+RE LE +G ++ V V G+D+PD +I P+
Sbjct: 304 LAPGIVEAITGETPKEEREAILERFRTGGIKVLVTVKVLDEGVDIPDADVLI-ILRPTGS 362
Query: 404 E-EYVHRVGRTGRAGKSGE 421
++ R+GR R + E
Sbjct: 363 RRLFIQRLGRGLRPAEGKE 381
Score = 54.4 bits (131), Expect = 2e-07
Identities = 65/370 (17%), Positives = 119/370 (32%), Gaps = 86/370 (23%)
Query: 617 TTPSPIQAQA----WPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPS 672
P Q +A + + + TG GKT S
Sbjct: 35 FELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAE------------AIAELKRS 82
Query: 673 VLVMAPTRELATQ----IEREVNKIDYKGLKAVCVYGGKELEPQLEKIREGCHILIATPG 728
LV+ PT+EL Q +++ + D G +YGG EK E + +AT
Sbjct: 83 TLVLVPTKELLDQWAEALKKFLLLNDEIG-----IYGGG------EKELEPAKVTVAT-- 129
Query: 729 RLNDFVSRASIDLK---AVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSAT-W 784
+ R +D ++ DE + + + + +T AT
Sbjct: 130 -VQTLARRQLLDEFLGNEFGLIIFDEVHHLPAPSYR---RILELLSAAYPRLGLT-ATPE 184
Query: 785 NKDVQRVAKKYMVNPVKV-NVGSLDLA-----ATHTVTQKIIILDEDEKKDWLMEFFDNM 838
+D R+ + + V V +L A + + + L EDE++++ E
Sbjct: 185 REDGGRIGDLFDLIGPIVYEVSLKELIDEGYLAPYKYVEIKVTLTEDEEREYAKESARFR 244
Query: 839 D-----------------------------------EERDKVMVFMGRKASVSAMSSDLA 863
+ DK ++F ++
Sbjct: 245 ELLRARGTLRAENEARRIAIASERKIAAVRGLLLKHARGDKTLIFASDVEHAYEIAKLF- 303
Query: 864 CQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHI 923
++ G+ +E+RE LE +G ++ V V G+D+PD +I P+
Sbjct: 304 LAPGIVEAITGETPKEEREAILERFRTGGIKVLVTVKVLDEGVDIPDADVLI-ILRPTGS 362
Query: 924 E-EYVHRVGR 932
++ R+GR
Sbjct: 363 RRLFIQRLGR 372
>gnl|CDD|224125 COG1204, COG1204, Superfamily II helicase [General function
prediction only].
Length = 766
Score = 56.6 bits (137), Expect = 5e-08
Identities = 32/132 (24%), Positives = 61/132 (46%), Gaps = 11/132 (8%)
Query: 621 PIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTR 680
P Q L+S +++ A TG+GKT LL A++ T + E G V + P +
Sbjct: 35 PQQEAVEKGLLSDENVLISAPTGSGKTLIALL-AILST------LLEGGGKVVYI-VPLK 86
Query: 681 ELATQIEREVNKIDYKGLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASID 740
LA + E ++++ G++ G +L+ + +++ TP +L+ +
Sbjct: 87 ALAEEKYEEFSRLEELGIRVGISTGDYDLDDERLA---RYDVIVTTPEKLDSLTRKRPSW 143
Query: 741 LKAVSFVVLDEA 752
++ V VV+DE
Sbjct: 144 IEEVDLVVIDEI 155
Score = 54.7 bits (132), Expect = 2e-07
Identities = 31/132 (23%), Positives = 61/132 (46%), Gaps = 11/132 (8%)
Query: 101 PIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTR 160
P Q L+S +++ A TG+GKT LL A++ T + E G V + P +
Sbjct: 35 PQQEAVEKGLLSDENVLISAPTGSGKTLIALL-AILST------LLEGGGKVVYI-VPLK 86
Query: 161 ELATQIEREVNKIDYKGLKAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSRASID 220
LA + E ++++ G++ G +++ + +++ TP +L+ +
Sbjct: 87 ALAEEKYEEFSRLEELGIRVGISTGDYDLDDERLA---RYDVIVTTPEKLDSLTRKRPSW 143
Query: 221 LKAVSFVVLDEA 232
++ V VV+DE
Sbjct: 144 IEEVDLVVIDEI 155
>gnl|CDD|234478 TIGR04121, DEXH_lig_assoc, DEXH box helicase, DNA
ligase-associated. Members of this protein family are
DEAD/DEAH box helicases found associated with a
bacterial ATP-dependent DNA ligase, part of a four-gene
system that occurs in about 12 % of prokaryotic
reference genomes. The actual motif in this family is
DE[VILW]H.
Length = 803
Score = 55.6 bits (135), Expect = 9e-08
Identities = 44/147 (29%), Positives = 58/147 (39%), Gaps = 24/147 (16%)
Query: 98 TPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMA 157
TP P Q + W + G + IA TG+GKT A LP+LI P + G L +
Sbjct: 13 TPRPFQLEMWAAALEGRSGLLIAPTGSGKTLAGFLPSLIDLAGPEKP---KKGLHTLYIT 69
Query: 158 PTRELATQIEREVNKIDYKGLKAVCVYGGKEIE--------PQLEKIREGC---HILIAT 206
P R LA I R L+A G I E+ R+ IL+ T
Sbjct: 70 PLRALAVDIAR--------NLQAPIEELGLPIRVETRTGDTSSSERARQRKKPPDILLTT 121
Query: 207 PGRLNDFVSRASID--LKAVSFVVLDE 231
P L +S K + VV+DE
Sbjct: 122 PESLALLLSYPDAARLFKDLRCVVVDE 148
Score = 55.2 bits (134), Expect = 1e-07
Identities = 27/71 (38%), Positives = 34/71 (47%), Gaps = 3/71 (4%)
Query: 618 TPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMA 677
TP P Q + W + G + IA TG+GKT A LP+LI P + G L +
Sbjct: 13 TPRPFQLEMWAAALEGRSGLLIAPTGSGKTLAGFLPSLIDLAGPEKP---KKGLHTLYIT 69
Query: 678 PTRELATQIER 688
P R LA I R
Sbjct: 70 PLRALAVDIAR 80
>gnl|CDD|224036 COG1111, MPH1, ERCC4-like helicases [DNA replication,
recombination, and repair].
Length = 542
Score = 52.3 bits (126), Expect = 8e-07
Identities = 27/83 (32%), Positives = 46/83 (55%), Gaps = 5/83 (6%)
Query: 356 LSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYD-FPSHIEEYVHRVGRTG 414
+SQ++++ ++ G + VAT V GLD+P++ VI Y+ PS I + R GRTG
Sbjct: 409 MSQKEQKEIIDQFRKGEYNVLVATSVGEEGLDIPEVDLVIFYEPVPSEI-RSIQRKGRTG 467
Query: 415 RAGKSGESITLMTRK--DWSHAH 435
R + G + L+T D ++ +
Sbjct: 468 R-KRKGRVVVLVTEGTRDEAYYY 489
Score = 43.1 bits (102), Expect = 5e-04
Identities = 22/60 (36%), Positives = 35/60 (58%), Gaps = 2/60 (3%)
Query: 876 LSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYD-FPSHIEEYVHRVGRTG 934
+SQ++++ ++ G + VAT V GLD+P++ VI Y+ PS I + R GRTG
Sbjct: 409 MSQKEQKEIIDQFRKGEYNVLVATSVGEEGLDIPEVDLVIFYEPVPSEI-RSIQRKGRTG 467
Score = 36.5 bits (85), Expect = 0.072
Identities = 34/115 (29%), Positives = 51/115 (44%), Gaps = 12/115 (10%)
Query: 122 TGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAV 181
TG GKTF + +I L+ VL +APT+ L Q K+ +
Sbjct: 38 TGLGKTFIAAM--VIANRLRWFG------GKVLFLAPTKPLVLQHAEFCRKVTGIPEDEI 89
Query: 182 CVYGGKEIEPQL-EKIREGCHILIATPGRL-NDFVSRASIDLKAVSFVVLDEADR 234
G E+ P+ E++ + +ATP + ND + IDL VS ++ DEA R
Sbjct: 90 AALTG-EVRPEEREELWAKKKVFVATPQVVENDLKA-GRIDLDDVSLLIFDEAHR 142
Score = 35.0 bits (81), Expect = 0.23
Identities = 32/114 (28%), Positives = 49/114 (42%), Gaps = 10/114 (8%)
Query: 642 TGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAV 701
TG GKTF + +I L+ VL +APT+ L Q K+ +
Sbjct: 38 TGLGKTFIAAM--VIANRLRWFG------GKVLFLAPTKPLVLQHAEFCRKVTGIPEDEI 89
Query: 702 CVYGGKELEPQLEKIREGCHILIATPGRL-NDFVSRASIDLKAVSFVVLDEADR 754
G+ + E++ + +ATP + ND + IDL VS ++ DEA R
Sbjct: 90 AALTGEVRPEEREELWAKKKVFVATPQVVENDLKA-GRIDLDDVSLLIFDEAHR 142
>gnl|CDD|129701 TIGR00614, recQ_fam, ATP-dependent DNA helicase, RecQ family. All
proteins in this family for which functions are known
are 3'-5' DNA-DNA helicases. These proteins are used for
recombination, recombinational repair, and possibly
maintenance of chromosome stability. This family is
based on the phylogenomic analysis of JA Eisen (1999,
Ph.D. Thesis, Stanford University) [DNA metabolism, DNA
replication, recombination, and repair].
Length = 470
Score = 52.1 bits (125), Expect = 1e-06
Identities = 75/369 (20%), Positives = 136/369 (36%), Gaps = 49/369 (13%)
Query: 101 PIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTR 160
P+Q + ++ G D + TG GK+ + LPAL + LV++P
Sbjct: 14 PVQLEVINAVLLGRDCFVVMPTGGGKSLCYQLPALCSDGI------------TLVISPLI 61
Query: 161 ELATQIEREVNKIDYKGLKAVCVYGGKEIEPQLE---KIREG-CHILIATPGRL---NDF 213
L +E +V ++ G+ A + + E Q +++G +L TP + N
Sbjct: 62 SL---MEDQVLQLKASGIPATFLNSSQSKEQQKNVLTDLKDGKIKLLYVTPEKCSASNRL 118
Query: 214 VSRASIDLKAVSFVVLDEADRMLDLG--FEPQ-----INKTSIYINPNRQTVMTSATWNK 266
+ K ++ + +DEA + G F P K PN + +AT +
Sbjct: 119 LQTLEER-KGITLIAVDEAHCISQWGHDFRPDYKALGSLKQKF---PNVPIMALTATASP 174
Query: 267 DVQRVAKKYM-VNPVKVNVGSLDLAATH-TVTQKIIILDEDEKKDWLMEFFDNMDEERDK 324
V+ + + + ++ S D + V +K + ED L+ F + +
Sbjct: 175 SVREDILRQLNLKNPQIFCTSFDRPNLYYEVRRKTPKILED-----LLRFIRKEFKGKSG 229
Query: 325 VMVFMGRKASVSAMSSDLACQYRK---SCSLY-GDLSQEDREIALEDITSGYARICVATD 380
++ RK S + + + Y L R+ ++ VAT
Sbjct: 230 IIYCPSRK-----KSEQVTASLQNLGIAAGAYHAGLEISARDDVHHKFQRDEIQVVVATV 284
Query: 381 VASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGRAGKSGESITLMTRKDWSHAHEIIPI 440
G++ PD+ VI+Y P +E Y GR GR G E D + ++
Sbjct: 285 AFGMGINKPDVRFVIHYSLPKSMESYYQESGRAGRDGLPSECHLFYAPADINRLRRLLME 344
Query: 441 LEEGGHESY 449
+G +Y
Sbjct: 345 EPDGQQRTY 353
Score = 47.1 bits (112), Expect = 3e-05
Identities = 69/334 (20%), Positives = 125/334 (37%), Gaps = 49/334 (14%)
Query: 621 PIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTR 680
P+Q + ++ G D + TG GK+ + LPAL + LV++P
Sbjct: 14 PVQLEVINAVLLGRDCFVVMPTGGGKSLCYQLPALCSDGI------------TLVISPLI 61
Query: 681 ELATQIEREVNKIDYKGLKAVCVYGGKELEPQLE---KIREG-CHILIATPGRL---NDF 733
L +E +V ++ G+ A + + E Q +++G +L TP + N
Sbjct: 62 SL---MEDQVLQLKASGIPATFLNSSQSKEQQKNVLTDLKDGKIKLLYVTPEKCSASNRL 118
Query: 734 VSRASIDLKAVSFVVLDEADRMLDLG--FEPQ-----INKTSIYINPNRQTVMTSATWNK 786
+ K ++ + +DEA + G F P K PN + +AT +
Sbjct: 119 LQTLEER-KGITLIAVDEAHCISQWGHDFRPDYKALGSLKQKF---PNVPIMALTATASP 174
Query: 787 DVQRVAKKYM-VNPVKVNVGSLDLAATH-TVTQKIIILDEDEKKDWLMEFFDNMDEERDK 844
V+ + + + ++ S D + V +K + ED L+ F + +
Sbjct: 175 SVREDILRQLNLKNPQIFCTSFDRPNLYYEVRRKTPKILED-----LLRFIRKEFKGKSG 229
Query: 845 VMVFMGRKASVSAMSSDLACQYRK---SCSLY-GDLSQEDREIALEDITSGYARICVATD 900
++ RK S + + + Y L R+ ++ VAT
Sbjct: 230 IIYCPSRK-----KSEQVTASLQNLGIAAGAYHAGLEISARDDVHHKFQRDEIQVVVATV 284
Query: 901 VASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTG 934
G++ PD+ VI+Y P +E Y GR G
Sbjct: 285 AFGMGINKPDVRFVIHYSLPKSMESYYQESGRAG 318
>gnl|CDD|234365 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 = 51.7 bits (124), Expect = 2e-06
Identities = 36/152 (23%), Positives = 70/152 (46%), Gaps = 12/152 (7%)
Query: 85 PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTP 144
P+++ LE P QA+A + +G ++ T +GK+ A+ LP L +
Sbjct: 23 PDVVAALEAAGIHRPWQHQARAAELAHAGRHVVVATGTASGKSLAYQLPVL-------SA 75
Query: 145 ISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAVCVYGGKEIEPQLEKIREGCHILI 204
+++ + L +APT+ LA R V ++ +G++ Y G + RE ++
Sbjct: 76 LADDPRATALYLAPTKALAADQLRAVRELTLRGVRP-ATYDGDTPTEERRWAREHARYVL 134
Query: 205 ATPGRLNDFV----SRASIDLKAVSFVVLDEA 232
P L+ + +R + L+ + +VV+DE
Sbjct: 135 TNPDMLHRGILPSHARWARFLRRLRYVVIDEC 166
Score = 51.3 bits (123), Expect = 2e-06
Identities = 36/152 (23%), Positives = 70/152 (46%), Gaps = 12/152 (7%)
Query: 605 PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTP 664
P+++ LE P QA+A + +G ++ T +GK+ A+ LP L +
Sbjct: 23 PDVVAALEAAGIHRPWQHQARAAELAHAGRHVVVATGTASGKSLAYQLPVL-------SA 75
Query: 665 ISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAVCVYGGKELEPQLEKIREGCHILI 724
+++ + L +APT+ LA R V ++ +G++ Y G + RE ++
Sbjct: 76 LADDPRATALYLAPTKALAADQLRAVRELTLRGVRP-ATYDGDTPTEERRWAREHARYVL 134
Query: 725 ATPGRLNDFV----SRASIDLKAVSFVVLDEA 752
P L+ + +R + L+ + +VV+DE
Sbjct: 135 TNPDMLHRGILPSHARWARFLRRLRYVVIDEC 166
Score = 33.2 bits (76), Expect = 0.78
Identities = 30/109 (27%), Positives = 45/109 (41%), Gaps = 14/109 (12%)
Query: 327 VFMGRKASVSAMSSDLACQ---YRKSCSLYGDLSQEDREI--ALEDITSGYARICVATDV 381
V + + + DLA + YR G L ++ RE+ AL D G T+
Sbjct: 287 VAAIARRLLGEVDPDLAERVAAYRA-----GYLPEDRRELERALRD---GELLGVATTNA 338
Query: 382 ASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGRAGKSGESITLMTRKD 430
G+D+ L V+ FP + GR GR G+ G + L+ R D
Sbjct: 339 LELGVDISGLDAVVIAGFPGTRASLWQQAGRAGRRGQ-GALVVLVARDD 386
>gnl|CDD|237496 PRK13766, PRK13766, Hef nuclease; Provisional.
Length = 773
Score = 47.2 bits (113), Expect = 4e-05
Identities = 26/75 (34%), Positives = 42/75 (56%), Gaps = 3/75 (4%)
Query: 356 LSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYD-FPSHIEEYVHRVGRTG 414
+SQ+++ L+ +G + V+T VA GLD+P + VI Y+ PS I + R GRTG
Sbjct: 407 MSQKEQIEILDKFRAGEFNVLVSTSVAEEGLDIPSVDLVIFYEPVPSEI-RSIQRKGRTG 465
Query: 415 RAGKSGESITLMTRK 429
R + G + L+ +
Sbjct: 466 R-QEEGRVVVLIAKG 479
Score = 36.8 bits (86), Expect = 0.061
Identities = 23/60 (38%), Positives = 35/60 (58%), Gaps = 2/60 (3%)
Query: 876 LSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYD-FPSHIEEYVHRVGRTG 934
+SQ+++ L+ +G + V+T VA GLD+P + VI Y+ PS I + R GRTG
Sbjct: 407 MSQKEQIEILDKFRAGEFNVLVSTSVAEEGLDIPSVDLVIFYEPVPSEI-RSIQRKGRTG 465
Score = 36.4 bits (85), Expect = 0.086
Identities = 38/118 (32%), Positives = 57/118 (48%), Gaps = 18/118 (15%)
Query: 122 TGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIE---REVNKIDYKGL 178
TG GKT LL +I L + G VL++APT+ L Q R+ I
Sbjct: 38 TGLGKTAIALL--VIAERLH------KKGGKVLILAPTKPLVEQHAEFFRKFLNIP--EE 87
Query: 179 KAVCVYGGKEIEP-QLEKIREGCHILIATPGRL-NDFVSRASIDLKAVSFVVLDEADR 234
K V G E+ P + ++ E +++ATP + ND ++ I L+ VS ++ DEA R
Sbjct: 88 KIVVFTG--EVSPEKRAELWEKAKVIVATPQVIENDLIAG-RISLEDVSLLIFDEAHR 142
Score = 34.5 bits (80), Expect = 0.29
Identities = 38/118 (32%), Positives = 57/118 (48%), Gaps = 18/118 (15%)
Query: 642 TGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIE---REVNKIDYKGL 698
TG GKT LL +I L + G VL++APT+ L Q R+ I
Sbjct: 38 TGLGKTAIALL--VIAERLH------KKGGKVLILAPTKPLVEQHAEFFRKFLNIP--EE 87
Query: 699 KAVCVYGGKELEP-QLEKIREGCHILIATPGRL-NDFVSRASIDLKAVSFVVLDEADR 754
K V G E+ P + ++ E +++ATP + ND ++ I L+ VS ++ DEA R
Sbjct: 88 KIVVFTG--EVSPEKRAELWEKAKVIVATPQVIENDLIAG-RISLEDVSLLIFDEAHR 142
>gnl|CDD|182933 PRK11057, PRK11057, ATP-dependent DNA helicase RecQ; Provisional.
Length = 607
Score = 42.0 bits (99), Expect = 0.002
Identities = 79/337 (23%), Positives = 150/337 (44%), Gaps = 57/337 (16%)
Query: 111 MSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREV 170
+SG D + + TG GK+ + +PAL+ L LV++P L + ++ +V
Sbjct: 38 LSGRDCLVVMPTGGGKSLCYQIPALVLDGL------------TLVVSP---LISLMKDQV 82
Query: 171 NKIDYKGLKAVCVYGGKEIEPQLEKIREGCH-----ILIATPGRL--NDFVSR-ASIDLK 222
+++ G+ A C+ + E QLE + GC +L P RL ++F+ A +
Sbjct: 83 DQLLANGVAAACLNSTQTREQQLE-VMAGCRTGQIKLLYIAPERLMMDNFLEHLAHWNP- 140
Query: 223 AVSFVVLDEADRMLDLG--FEP------QINKTSIYINPNRQTVMTSATWN----KDVQR 270
+ + +DEA + G F P Q+ + P + +AT + +D+ R
Sbjct: 141 --ALLAVDEAHCISQWGHDFRPEYAALGQLRQRF----PTLPFMALTATADDTTRQDIVR 194
Query: 271 VAKKYMVNPVKVNVGSLDLAAT-HTVTQKIIILDEDEKKDWLMEFFDNMDEERDKV-MVF 328
+ + +P+ + + S D +T+ +K LD+ LM + + E+R K +++
Sbjct: 195 LLG--LNDPL-IQISSFDRPNIRYTLVEKFKPLDQ------LMRY---VQEQRGKSGIIY 242
Query: 329 MGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDV 388
+A V ++ L + + + + L + R E +I VAT G++
Sbjct: 243 CNSRAKVEDTAARLQSRGISAAAYHAGLDNDVRADVQEAFQRDDLQIVVATVAFGMGINK 302
Query: 389 PDLTHVINYDFPSHIEEYVHRVGRTGRAGKSGESITL 425
P++ V+++D P +IE Y GR GR G E++
Sbjct: 303 PNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLF 339
Score = 36.2 bits (84), Expect = 0.085
Identities = 76/326 (23%), Positives = 145/326 (44%), Gaps = 57/326 (17%)
Query: 631 MSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREV 690
+SG D + + TG GK+ + +PAL+ L LV++P L + ++ +V
Sbjct: 38 LSGRDCLVVMPTGGGKSLCYQIPALVLDGL------------TLVVSP---LISLMKDQV 82
Query: 691 NKIDYKGLKAVCVYGGKELEPQLEKIREGCH-----ILIATPGRL--NDFVSR-ASIDLK 742
+++ G+ A C+ + E QLE + GC +L P RL ++F+ A +
Sbjct: 83 DQLLANGVAAACLNSTQTREQQLE-VMAGCRTGQIKLLYIAPERLMMDNFLEHLAHWNP- 140
Query: 743 AVSFVVLDEADRMLDLG--FEP------QINKTSIYINPNRQTVMTSATWN----KDVQR 790
+ + +DEA + G F P Q+ + P + +AT + +D+ R
Sbjct: 141 --ALLAVDEAHCISQWGHDFRPEYAALGQLRQRF----PTLPFMALTATADDTTRQDIVR 194
Query: 791 VAKKYMVNPVKVNVGSLDLAAT-HTVTQKIIILDEDEKKDWLMEFFDNMDEERDKV-MVF 848
+ + +P+ + + S D +T+ +K LD+ LM + + E+R K +++
Sbjct: 195 LLG--LNDPL-IQISSFDRPNIRYTLVEKFKPLDQ------LMRY---VQEQRGKSGIIY 242
Query: 849 MGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDV 908
+A V ++ L + + + + L + R E +I VAT G++
Sbjct: 243 CNSRAKVEDTAARLQSRGISAAAYHAGLDNDVRADVQEAFQRDDLQIVVATVAFGMGINK 302
Query: 909 PDLTHVINYDFPSHIEEYVHRVGRTG 934
P++ V+++D P +IE Y GR G
Sbjct: 303 PNVRFVVHFDIPRNIESYYQETGRAG 328
>gnl|CDD|137505 PRK09751, PRK09751, putative ATP-dependent helicase Lhr;
Provisional.
Length = 1490
Score = 41.4 bits (97), Expect = 0.003
Identities = 39/132 (29%), Positives = 57/132 (43%), Gaps = 20/132 (15%)
Query: 119 IAQTGTGKTFAFLLPALIHTHLQTTPISERAGPS----VLVMAPTRELATQIEREVNKID 174
IA TG+GKT A L AL + + A +L ++P + L T ++R + +I
Sbjct: 2 IAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNL-QIP 60
Query: 175 YKGLKAVCVYGGK-EIE----------PQLEK---IREGCHILIATPGRLN-DFVSRASI 219
KG+ G+ E+ P E+ R ILI TP L SRA
Sbjct: 61 LKGIADERRRRGETEVNLRVGIRTGDTPAQERSKLTRNPPDILITTPESLYLMLTSRARE 120
Query: 220 DLKAVSFVVLDE 231
L+ V V++DE
Sbjct: 121 TLRGVETVIIDE 132
Score = 41.1 bits (96), Expect = 0.004
Identities = 40/133 (30%), Positives = 56/133 (42%), Gaps = 22/133 (16%)
Query: 639 IAQTGTGKTFAFLLPALIHTHLQTTPISERAGPS----VLVMAPTRELATQIEREVNKID 694
IA TG+GKT A L AL + + A +L ++P + L T ++R + +I
Sbjct: 2 IAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNL-QIP 60
Query: 695 YKGLKAVCVYGGKELE------------PQLEK---IREGCHILIATPGRLN-DFVSRAS 738
KG+ G E E P E+ R ILI TP L SRA
Sbjct: 61 LKGIADERRRRG-ETEVNLRVGIRTGDTPAQERSKLTRNPPDILITTPESLYLMLTSRAR 119
Query: 739 IDLKAVSFVVLDE 751
L+ V V++DE
Sbjct: 120 ETLRGVETVIIDE 132
Score = 35.7 bits (82), Expect = 0.14
Identities = 26/82 (31%), Positives = 38/82 (46%), Gaps = 2/82 (2%)
Query: 351 SLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRV 410
S +G +S+E R I + + SG R VAT G+D+ + VI P + + R+
Sbjct: 306 SHHGSVSKEQRAITEQALKSGELRCVVATSSLELGIDMGAVDLVIQVATPLSVASGLQRI 365
Query: 411 GRTGR--AGKSGESITLMTRKD 430
GR G G S TR+D
Sbjct: 366 GRAGHQVGGVSKGLFFPRTRRD 387
Score = 34.9 bits (80), Expect = 0.23
Identities = 21/64 (32%), Positives = 32/64 (50%)
Query: 871 SLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRV 930
S +G +S+E R I + + SG R VAT G+D+ + VI P + + R+
Sbjct: 306 SHHGSVSKEQRAITEQALKSGELRCVVATSSLELGIDMGAVDLVIQVATPLSVASGLQRI 365
Query: 931 GRTG 934
GR G
Sbjct: 366 GRAG 369
>gnl|CDD|224035 COG1110, COG1110, Reverse gyrase [DNA replication, recombination,
and repair].
Length = 1187
Score = 40.8 bits (96), Expect = 0.003
Identities = 39/127 (30%), Positives = 55/127 (43%), Gaps = 22/127 (17%)
Query: 639 IAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI--DYK 696
IA TG GKT LL +L G V ++ PT L Q+ + K D
Sbjct: 103 IAPTGVGKTTFGLLMSLYLAK---------KGKRVYIIVPTTTLVRQVYERLKKFAEDAG 153
Query: 697 GLKAVCVYGG----KELEPQLEKIREG-CHILIATPGRLNDFVSRASIDLKAV--SFVVL 749
L + VY KE E LE+I G ILI T + F+S+ +L + F+ +
Sbjct: 154 SLDVLVVYHSALPTKEKEEALERIESGDFDILITT----SQFLSKRFEELSKLKFDFIFV 209
Query: 750 DEADRML 756
D+ D +L
Sbjct: 210 DDVDAIL 216
Score = 40.8 bits (96), Expect = 0.004
Identities = 39/127 (30%), Positives = 55/127 (43%), Gaps = 22/127 (17%)
Query: 119 IAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI--DYK 176
IA TG GKT LL +L G V ++ PT L Q+ + K D
Sbjct: 103 IAPTGVGKTTFGLLMSLYLAK---------KGKRVYIIVPTTTLVRQVYERLKKFAEDAG 153
Query: 177 GLKAVCVYGG----KEIEPQLEKIREG-CHILIATPGRLNDFVSRASIDLKAV--SFVVL 229
L + VY KE E LE+I G ILI T + F+S+ +L + F+ +
Sbjct: 154 SLDVLVVYHSALPTKEKEEALERIESGDFDILITT----SQFLSKRFEELSKLKFDFIFV 209
Query: 230 DEADRML 236
D+ D +L
Sbjct: 210 DDVDAIL 216
>gnl|CDD|224120 COG1199, DinG, Rad3-related DNA helicases [Transcription / DNA
replication, recombination, and repair].
Length = 654
Score = 38.2 bits (89), Expect = 0.021
Identities = 29/116 (25%), Positives = 44/116 (37%), Gaps = 13/116 (11%)
Query: 630 LMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIERE 689
L G ++ A TGTGKT A+LLPAL + + G V++ T+ L Q+ E
Sbjct: 31 LKGGEGLLIEAPTGTGKTLAYLLPALAY--------AREEGKKVIISTRTKALQEQLLEE 82
Query: 690 ----VNKIDYKGLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASIDL 741
+ G K + G L ++ + L +A DL
Sbjct: 83 DLPIHKLLKKLGGKFALLKGRSNYL-CLSRLERLAQLGGDDDDYLQSLALKALADL 137
Score = 37.1 bits (86), Expect = 0.046
Identities = 24/80 (30%), Positives = 35/80 (43%), Gaps = 12/80 (15%)
Query: 110 LMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIERE 169
L G ++ A TGTGKT A+LLPAL + + G V++ T+ L Q+ E
Sbjct: 31 LKGGEGLLIEAPTGTGKTLAYLLPALAY--------AREEGKKVIISTRTKALQEQLLEE 82
Query: 170 ----VNKIDYKGLKAVCVYG 185
+ G K + G
Sbjct: 83 DLPIHKLLKKLGGKFALLKG 102
>gnl|CDD|233069 TIGR00643, recG, ATP-dependent DNA helicase RecG. [DNA metabolism,
DNA replication, recombination, and repair].
Length = 630
Score = 38.1 bits (89), Expect = 0.026
Identities = 72/309 (23%), Positives = 119/309 (38%), Gaps = 73/309 (23%)
Query: 643 GTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQ----IEREVNKIDYK-G 697
G+GKT L L AG V +MAPT LA Q + + + +
Sbjct: 266 GSGKTLVAALAML-----AAIE----AGYQVALMAPTEILAEQHYNSLRNLLAPLGIEVA 316
Query: 698 LKAVCVYGGKELEPQLEKIREG-CHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRML 756
L + G + E LE I G H+++ T + + ++ K ++ V++DE R
Sbjct: 317 LLTGSLKGKRRKE-LLETIASGQIHLVVGTHALIQE-----KVEFKRLALVIIDEQHRFG 370
Query: 757 DLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNV-----GSLDLAA 811
+ K P+ VM+ AT P+ + G LD +
Sbjct: 371 VEQRKKLREKGQGGFTPH-VLVMS-AT---------------PIPRTLALTVYGDLDTSI 413
Query: 812 THTVT--QKIII--LDEDEKKDWLMEFFDNMDEERDKVMVFMGRKA-------------- 853
+ +K I L + ++KD + EF ++EE K GR+A
Sbjct: 414 IDELPPGRKPITTVLIKHDEKDIVYEF---IEEEIAK-----GRQAYVVYPLIEESEKLD 465
Query: 854 --SVSAMSSDL--ACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVP 909
+ A+ L A L+G + +++E +E+ G I VAT V G+DVP
Sbjct: 466 LKAAEALYERLKKAFPKYNVGLLHGRMKSDEKEAVMEEFREGEVDILVATTVIEVGVDVP 525
Query: 910 DLTHVINYD 918
+ T ++ D
Sbjct: 526 NATVMVIED 534
Score = 37.7 bits (88), Expect = 0.028
Identities = 78/333 (23%), Positives = 127/333 (38%), Gaps = 77/333 (23%)
Query: 123 GTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI--DYKGLKA 180
G+GKT L L AG V +MAPT LA Q + + G++
Sbjct: 266 GSGKTLVAALAML-----AAIE----AGYQVALMAPTEILAEQHYNSLRNLLAPL-GIEV 315
Query: 181 VCVYG---GKEIEPQLEKIREG-CHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRML 236
+ G GK + LE I G H+++ T + + ++ K ++ V++DE R
Sbjct: 316 ALLTGSLKGKRRKELLETIASGQIHLVVGTHALIQE-----KVEFKRLALVIIDEQHRFG 370
Query: 237 DLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNV-----GSLDLAA 291
+ K P+ VM+ AT P+ + G LD +
Sbjct: 371 VEQRKKLREKGQGGFTPH-VLVMS-AT---------------PIPRTLALTVYGDLDTSI 413
Query: 292 THTVT--QKIII--LDEDEKKDWLMEFFDNMDEERDKVMVFMGRKA-------------- 333
+ +K I L + ++KD + EF ++EE K GR+A
Sbjct: 414 IDELPPGRKPITTVLIKHDEKDIVYEF---IEEEIAK-----GRQAYVVYPLIEESEKLD 465
Query: 334 --SVSAMSSDL--ACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVP 389
+ A+ L A L+G + +++E +E+ G I VAT V G+DVP
Sbjct: 466 LKAAEALYERLKKAFPKYNVGLLHGRMKSDEKEAVMEEFREGEVDILVATTVIEVGVDVP 525
Query: 390 DLTHVINYDFP----SHIEEYVHRVGRTGRAGK 418
+ T ++ D S + + RVGR
Sbjct: 526 NATVMVIEDAERFGLSQLHQLRGRVGRGDHQSY 558
>gnl|CDD|215770 pfam00176, SNF2_N, SNF2 family N-terminal domain. This domain is
found in proteins involved in a variety of processes
including transcription regulation (e.g., SNF2, STH1,
brahma, MOT1), DNA repair (e.g. ERCC6, RAD16, RAD5), DNA
recombination (e.g. RAD54), and chromatin unwinding
(e.g. ISWI) as well as a variety of other proteins with
little functional information (e.g. lodestar, ETL1).
Length = 301
Score = 35.8 bits (83), Expect = 0.081
Identities = 33/141 (23%), Positives = 47/141 (33%), Gaps = 38/141 (26%)
Query: 629 ILMSGHDMIGIAQTGTGKTF---AFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQ 685
IL +M G GKT A L L + P LV+ P
Sbjct: 20 IL--ADEM------GLGKTLQTIALLATYLKEGKDRRGPT--------LVVCPL-STLHN 62
Query: 686 IEREVNKIDYKGLKAVCVYGG-----KELEPQLEKIREGCHILIAT------PGRLNDFV 734
E K + V VY G +L + K + ++I T +L +
Sbjct: 63 WLNEFEK--WAPALRVVVYHGDGRERSKLRQSMAKRLDTYDVVITTYEVLRKDKKLLSLL 120
Query: 735 SRASIDLKAVSFVVLDEADRM 755
++ D VVLDEA R+
Sbjct: 121 NKVEWD-----RVVLDEAHRL 136
Score = 35.8 bits (83), Expect = 0.088
Identities = 32/141 (22%), Positives = 47/141 (33%), Gaps = 38/141 (26%)
Query: 109 ILMSGHDMIGIAQTGTGKTF---AFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQ 165
IL +M G GKT A L L + P LV+ P
Sbjct: 20 IL--ADEM------GLGKTLQTIALLATYLKEGKDRRGPT--------LVVCPL-STLHN 62
Query: 166 IEREVNKIDYKGLKAVCVYGG-----KEIEPQLEKIREGCHILIAT------PGRLNDFV 214
E K + V VY G ++ + K + ++I T +L +
Sbjct: 63 WLNEFEK--WAPALRVVVYHGDGRERSKLRQSMAKRLDTYDVVITTYEVLRKDKKLLSLL 120
Query: 215 SRASIDLKAVSFVVLDEADRM 235
++ D VVLDEA R+
Sbjct: 121 NKVEWD-----RVVLDEAHRL 136
>gnl|CDD|236148 PRK08074, PRK08074, bifunctional ATP-dependent DNA helicase/DNA
polymerase III subunit epsilon; Validated.
Length = 928
Score = 36.1 bits (84), Expect = 0.11
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 120 AQTGTGKTFAFLLPALIHTHLQTTPI 145
A TGTGK+ A+LLPA + P+
Sbjct: 283 AGTGTGKSLAYLLPAAYFAKKKEEPV 308
Score = 36.1 bits (84), Expect = 0.11
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 640 AQTGTGKTFAFLLPALIHTHLQTTPI 665
A TGTGK+ A+LLPA + P+
Sbjct: 283 AGTGTGKSLAYLLPAAYFAKKKEEPV 308
>gnl|CDD|232933 TIGR00348, hsdR, type I site-specific deoxyribonuclease, HsdR
family. This gene is part of the type I restriction and
modification system which is composed of three
polypeptides R (restriction endonuclease), M
(modification) and S (specificity). This group of
enzymes recognize specific short DNA sequences and have
an absolute requirement for ATP (or dATP) and
S-adenosyl-L-methionine. They also catalyse the
reactions of EC 2.1.1.72 and EC 2.1.1.73, with similar
site specificity.(J. Mol. Biol. 271 (3), 342-348
(1997)). Members of this family are assumed to differ
from each other in DNA site specificity [DNA metabolism,
Restriction/modification].
Length = 667
Score = 35.8 bits (83), Expect = 0.12
Identities = 34/120 (28%), Positives = 48/120 (40%), Gaps = 22/120 (18%)
Query: 642 TGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAV 701
G+GKT L A L P V + REL Q+ +E ++ L+
Sbjct: 272 QGSGKTLTMLFAARKALELLKNPK-------VFFVVDRRELDYQLMKE-----FQSLQKD 319
Query: 702 CVYGG---KELEPQLEKIREGCHILIAT----PGRLNDFVSRASIDLKAVSFVVLDEADR 754
C EL+ LEK G I+I T +L + + +D K V V+ DEA R
Sbjct: 320 CAERIESIAELKELLEKDDGG--IIITTIQKFDKKLKEEEEKFPVDRKEV-VVIFDEAHR 376
Score = 33.9 bits (78), Expect = 0.50
Identities = 33/120 (27%), Positives = 48/120 (40%), Gaps = 22/120 (18%)
Query: 122 TGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAV 181
G+GKT L A L P V + REL Q+ +E ++ L+
Sbjct: 272 QGSGKTLTMLFAARKALELLKNPK-------VFFVVDRRELDYQLMKE-----FQSLQKD 319
Query: 182 CVYGG---KEIEPQLEKIREGCHILIAT----PGRLNDFVSRASIDLKAVSFVVLDEADR 234
C E++ LEK G I+I T +L + + +D K V V+ DEA R
Sbjct: 320 CAERIESIAELKELLEKDDGG--IIITTIQKFDKKLKEEEEKFPVDRKEV-VVIFDEAHR 376
>gnl|CDD|233660 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 [Unknown function, Enzymes of unknown
specificity].
Length = 819
Score = 35.5 bits (82), Expect = 0.16
Identities = 28/116 (24%), Positives = 54/116 (46%), Gaps = 15/116 (12%)
Query: 320 EERDKVMVFMGRKASVSAMSSDLACQYRKS---CSLYGDLSQEDREIALEDITSGYARIC 376
E ++VF+ +A + + LA + C LYG+LS ++ A++ G ++
Sbjct: 207 SETGSILVFLPGQAEIRRVQEQLAERLDSDVLICPLYGELSLAAQDRAIKPDPQGRRKVV 266
Query: 377 VATDVASRGLDVPDLTHVIN--------YDFPSHIEEY-VHRVGR---TGRAGKSG 420
+AT++A L + + VI+ +D + I R+ + T RAG++G
Sbjct: 267 LATNIAETSLTIEGIRVVIDSGLARVARFDPKTGITRLETVRISQASATQRAGRAG 322
Score = 34.4 bits (79), Expect = 0.32
Identities = 20/80 (25%), Positives = 40/80 (50%), Gaps = 3/80 (3%)
Query: 840 EERDKVMVFMGRKASVSAMSSDLACQYRKS---CSLYGDLSQEDREIALEDITSGYARIC 896
E ++VF+ +A + + LA + C LYG+LS ++ A++ G ++
Sbjct: 207 SETGSILVFLPGQAEIRRVQEQLAERLDSDVLICPLYGELSLAAQDRAIKPDPQGRRKVV 266
Query: 897 VATDVASRGLDVPDLTHVIN 916
+AT++A L + + VI+
Sbjct: 267 LATNIAETSLTIEGIRVVID 286
>gnl|CDD|180905 PRK07246, PRK07246, bifunctional ATP-dependent DNA helicase/DNA
polymerase III subunit epsilon; Validated.
Length = 820
Score = 34.7 bits (80), Expect = 0.25
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 11/55 (20%)
Query: 120 AQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQI-EREVNKI 173
AQTG GKT+ +LLP L + + ++V PT+ L QI EV I
Sbjct: 271 AQTGIGKTYGYLLPLLAQSDQR----------QIIVSVPTKILQDQIMAEEVKAI 315
Score = 34.7 bits (80), Expect = 0.25
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 11/55 (20%)
Query: 640 AQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQI-EREVNKI 693
AQTG GKT+ +LLP L + + ++V PT+ L QI EV I
Sbjct: 271 AQTGIGKTYGYLLPLLAQSDQR----------QIIVSVPTKILQDQIMAEEVKAI 315
>gnl|CDD|215597 PLN03137, PLN03137, ATP-dependent DNA helicase; Q4-like;
Provisional.
Length = 1195
Score = 34.9 bits (80), Expect = 0.29
Identities = 18/44 (40%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 375 ICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGRAGK 418
IC AT G++ PD+ VI++ P IE Y GR GR G+
Sbjct: 734 IC-ATVAFGMGINKPDVRFVIHHSLPKSIEGYHQECGRAGRDGQ 776
Score = 32.9 bits (75), Expect = 0.90
Identities = 35/133 (26%), Positives = 59/133 (44%), Gaps = 26/133 (19%)
Query: 631 MSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREV 690
MSG+D+ + TG GK+ + LPALI LV++P L + I+ ++
Sbjct: 473 MSGYDVFVLMPTGGGKSLTYQLPALI------------CPGITLVISP---LVSLIQDQI 517
Query: 691 NKIDYKGLKAVCVYGGKELEPQLEKIREGC------HILIATPGRL--NDFVSRASIDLK 742
+ + A + G E QLE ++E +L TP ++ +D + R +L
Sbjct: 518 MNLLQANIPAASLSAGMEWAEQLEILQELSSEYSKYKLLYVTPEKVAKSDSLLRHLENLN 577
Query: 743 AVSF---VVLDEA 752
+ V+DEA
Sbjct: 578 SRGLLARFVIDEA 590
Score = 32.6 bits (74), Expect = 1.2
Identities = 35/133 (26%), Positives = 59/133 (44%), Gaps = 26/133 (19%)
Query: 111 MSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREV 170
MSG+D+ + TG GK+ + LPALI LV++P L + I+ ++
Sbjct: 473 MSGYDVFVLMPTGGGKSLTYQLPALI------------CPGITLVISP---LVSLIQDQI 517
Query: 171 NKIDYKGLKAVCVYGGKEIEPQLEKIREGC------HILIATPGRL--NDFVSRASIDLK 222
+ + A + G E QLE ++E +L TP ++ +D + R +L
Sbjct: 518 MNLLQANIPAASLSAGMEWAEQLEILQELSSEYSKYKLLYVTPEKVAKSDSLLRHLENLN 577
Query: 223 AVSF---VVLDEA 232
+ V+DEA
Sbjct: 578 SRGLLARFVIDEA 590
Score = 30.2 bits (68), Expect = 5.8
Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 895 ICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTG 934
IC AT G++ PD+ VI++ P IE Y GR G
Sbjct: 734 IC-ATVAFGMGINKPDVRFVIHHSLPKSIEGYHQECGRAG 772
>gnl|CDD|224124 COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense
mechanisms].
Length = 733
Score = 34.4 bits (79), Expect = 0.36
Identities = 69/341 (20%), Positives = 116/341 (34%), Gaps = 64/341 (18%)
Query: 119 IAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGL 178
A TG GKT A L+ AL + + V+ + P R + + R +I
Sbjct: 220 EAPTGYGKTEASLILALALLDEKI-----KLKSRVIYVLPFRTIIEDMYRRAKEIFGLFS 274
Query: 179 KAVCVYGGKEIEPQLEKIRE---------------GCHILIATP-------GRLNDFVSR 216
EP L + + +++ TP + F
Sbjct: 275 VIGKSLHSSSKEPLLLEPDQDILLTLTTNDSYKKLLLALIVVTPIQILIFSVKGFKFEFL 334
Query: 217 ASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVM-TSATWNKDVQRVAKKY 275
A + S V+LDE D + + V+ SAT ++ KK
Sbjct: 335 ALL---LTSLVILDEVHLYADETMLAALLALLEALAEAGVPVLLMSATLPPFLKEKLKKA 391
Query: 276 MVNPVKV--NVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKA 333
+ +V N + +K + ED ++ L + + EE + G+K
Sbjct: 392 LGKGREVVENAKFCPKEDEPGLKRKERVDVEDGPQEEL---IELISEEVKE-----GKKV 443
Query: 334 SVSAMSSDLACQ-YRK-------SCSLYGDLSQEDREIALEDITSGYAR----ICVATDV 381
V + D A + Y K L+ + +DRE ++ + + I VAT V
Sbjct: 444 LVIVNTVDRAIELYEKLKEKGPKVLLLHSRFTLKDREEKERELKKLFKQNEGFIVVATQV 503
Query: 382 ASRGLDVPDLTHVINYDF----PSHIEEYVHRVGRTGRAGK 418
G+D I++D + I+ + R GR R GK
Sbjct: 504 IEAGVD-------IDFDVLITELAPIDSLIQRAGRVNRHGK 537
Score = 32.0 bits (73), Expect = 1.7
Identities = 60/307 (19%), Positives = 103/307 (33%), Gaps = 53/307 (17%)
Query: 639 IAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGL 698
A TG GKT A L+ AL + + V+ + P R + + R +I
Sbjct: 220 EAPTGYGKTEASLILALALLDEKI-----KLKSRVIYVLPFRTIIEDMYRRAKEIFGLFS 274
Query: 699 KAVCVYGGKELEPQLEKIRE---------------GCHILIATP-------GRLNDFVSR 736
EP L + + +++ TP + F
Sbjct: 275 VIGKSLHSSSKEPLLLEPDQDILLTLTTNDSYKKLLLALIVVTPIQILIFSVKGFKFEFL 334
Query: 737 ASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVM-TSATWNKDVQRVAKKY 795
A + S V+LDE D + + V+ SAT ++ KK
Sbjct: 335 ALL---LTSLVILDEVHLYADETMLAALLALLEALAEAGVPVLLMSATLPPFLKEKLKKA 391
Query: 796 MVNPVKV--NVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKA 853
+ +V N + +K + ED ++ L + + EE + G+K
Sbjct: 392 LGKGREVVENAKFCPKEDEPGLKRKERVDVEDGPQEEL---IELISEEVKE-----GKKV 443
Query: 854 SVSAMSSDLACQ-YRK-------SCSLYGDLSQEDREIALEDITSGYAR----ICVATDV 901
V + D A + Y K L+ + +DRE ++ + + I VAT V
Sbjct: 444 LVIVNTVDRAIELYEKLKEKGPKVLLLHSRFTLKDREEKERELKKLFKQNEGFIVVATQV 503
Query: 902 ASRGLDV 908
G+D+
Sbjct: 504 IEAGVDI 510
>gnl|CDD|226947 COG4581, COG4581, Superfamily II RNA helicase [DNA replication,
recombination, and repair].
Length = 1041
Score = 33.5 bits (77), Expect = 0.60
Identities = 57/277 (20%), Positives = 94/277 (33%), Gaps = 48/277 (17%)
Query: 516 DPEPTMEELMALSDRKERDKW-AREPKIIKNVYKEDPEVAN---MTPEQVEAFRKKNNDI 571
+ ++ SD ER ++PK + K + + + R + ++
Sbjct: 32 EESLKNIDI---SDLFERSVDMNKDPKEATDQVKAVDKHSEIESLNVGMRLDVRLSSKEL 88
Query: 572 SVSVVTSDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILM 631
S V D D PD + ++ F P Q +A IL
Sbjct: 89 SDVAVPDD--YDMVPDAE-------------SPFDLAPPAREYPFE-LDPFQQEAIAILE 132
Query: 632 SGHDMIGIAQTGTGKTF-AFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREV 690
G ++ A T +GKT A AL Q V+ +P + L+ Q R++
Sbjct: 133 RGESVLVCAPTSSGKTVVAEYAIALALRDGQ----------RVIYTSPIKALSNQKYRDL 182
Query: 691 NKIDYKGLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLD 750
V + G I L+ T L + + R S L+ + +VV D
Sbjct: 183 LAKFGDVADMVGLMTGDV------SINPDAPCLVMTTEILRNMLYRGSESLRDIEWVVFD 236
Query: 751 E----ADRMLDLGFEPQINKTSIYINPNRQTVMTSAT 783
E DR + +E I I + + + V SAT
Sbjct: 237 EVHYIGDRERGVVWEEVI----ILLPDHVRFVFLSAT 269
Score = 33.1 bits (76), Expect = 0.88
Identities = 43/188 (22%), Positives = 68/188 (36%), Gaps = 26/188 (13%)
Query: 81 FQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTF-AFLLPALIHTH 139
+ ++ F P Q +A IL G ++ A T +GKT A AL
Sbjct: 103 AESPFDLAPPAREYPFE-LDPFQQEAIAILERGESVLVCAPTSSGKTVVAEYAIALALRD 161
Query: 140 LQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAVCVYGGKEIEPQLEKIREG 199
Q V+ +P + L+ Q R++ V + G I
Sbjct: 162 GQ----------RVIYTSPIKALSNQKYRDLLAKFGDVADMVGLMTGDV------SINPD 205
Query: 200 CHILIATPGRLNDFVSRASIDLKAVSFVVLDE----ADRMLDLGFEPQINKTSIYINPNR 255
L+ T L + + R S L+ + +VV DE DR + +E I I + +
Sbjct: 206 APCLVMTTEILRNMLYRGSESLRDIEWVVFDEVHYIGDRERGVVWEEVI----ILLPDHV 261
Query: 256 QTVMTSAT 263
+ V SAT
Sbjct: 262 RFVFLSAT 269
>gnl|CDD|233398 TIGR01407, dinG_rel, DnaQ family exonuclease/DinG family helicase,
putative. This model represents a family of proteins in
Gram-positive bacteria. The N-terminal region of about
200 amino acids resembles the epsilon subunit of E. coli
DNA polymerase III and the homologous region of the
Gram-positive type DNA polymerase III alpha subunit. The
epsilon subunit contains an exonuclease domain. The
remainder of this protein family resembles a predicted
ATP-dependent helicase, the DNA damage-inducible protein
DinG of E. coli [DNA metabolism, DNA replication,
recombination, and repair].
Length = 850
Score = 32.9 bits (75), Expect = 0.89
Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 9/47 (19%)
Query: 120 AQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQI 166
A TGTGKT +LLPAL + V++ T+ L +Q+
Sbjct: 271 APTGTGKTLGYLLPALYYAIT---------EKPVVISTNTKVLQSQL 308
Score = 32.9 bits (75), Expect = 0.89
Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 9/47 (19%)
Query: 640 AQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQI 686
A TGTGKT +LLPAL + V++ T+ L +Q+
Sbjct: 271 APTGTGKTLGYLLPALYYAIT---------EKPVVISTNTKVLQSQL 308
>gnl|CDD|236498 PRK09401, PRK09401, reverse gyrase; Reviewed.
Length = 1176
Score = 33.0 bits (76), Expect = 1.0
Identities = 45/163 (27%), Positives = 69/163 (42%), Gaps = 40/163 (24%)
Query: 639 IAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGL 698
IA TG GKT L+ +L ++++ S ++ PTR L Q+ V K++ G
Sbjct: 101 IAPTGVGKTTFGLVMSLY--------LAKKGKKSYIIF-PTRLLVEQV---VEKLEKFGE 148
Query: 699 KAVCVYGG---------KELEPQLEKIREG-CHILIATPGRLNDFVSR--ASIDLKAVSF 746
K C KE E LE+++EG IL+ T F+S+ + K F
Sbjct: 149 KVGCGVKILYYHSSLKKKEKEEFLERLKEGDFDILVTTSQ----FLSKNFDELPKKKFDF 204
Query: 747 VVLDEAD----------RMLDL-GFEPQ-INKTSIYINPNRQT 777
V +D+ D ++L L GF + I K I R+
Sbjct: 205 VFVDDVDAVLKSSKNIDKLLYLLGFSEEDIEKAMELIRLKRKY 247
Score = 33.0 bits (76), Expect = 1.1
Identities = 45/163 (27%), Positives = 69/163 (42%), Gaps = 40/163 (24%)
Query: 119 IAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGL 178
IA TG GKT L+ +L ++++ S ++ PTR L Q+ V K++ G
Sbjct: 101 IAPTGVGKTTFGLVMSLY--------LAKKGKKSYIIF-PTRLLVEQV---VEKLEKFGE 148
Query: 179 KAVCVYGG---------KEIEPQLEKIREG-CHILIATPGRLNDFVSR--ASIDLKAVSF 226
K C KE E LE+++EG IL+ T F+S+ + K F
Sbjct: 149 KVGCGVKILYYHSSLKKKEKEEFLERLKEGDFDILVTTSQ----FLSKNFDELPKKKFDF 204
Query: 227 VVLDEAD----------RMLDL-GFEPQ-INKTSIYINPNRQT 257
V +D+ D ++L L GF + I K I R+
Sbjct: 205 VFVDDVDAVLKSSKNIDKLLYLLGFSEEDIEKAMELIRLKRKY 247
>gnl|CDD|224557 COG1643, HrpA, HrpA-like helicases [DNA replication, recombination,
and repair].
Length = 845
Score = 32.7 bits (75), Expect = 1.1
Identities = 25/90 (27%), Positives = 40/90 (44%), Gaps = 17/90 (18%)
Query: 350 CSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHR 409
LYG LS E++ E G ++ +AT++A L +P + +VI+ + + Y R
Sbjct: 291 LPLYGALSAEEQVRVFEPAPGGKRKVVLATNIAETSLTIPGIRYVIDSGL-AKEKRYDPR 349
Query: 410 VG----------------RTGRAGKSGESI 423
G R GRAG++G I
Sbjct: 350 TGLTRLETEPISKASADQRAGRAGRTGPGI 379
Score = 30.0 bits (68), Expect = 7.4
Identities = 15/46 (32%), Positives = 25/46 (54%)
Query: 870 CSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVI 915
LYG LS E++ E G ++ +AT++A L +P + +VI
Sbjct: 291 LPLYGALSAEEQVRVFEPAPGGKRKVVLATNIAETSLTIPGIRYVI 336
>gnl|CDD|233040 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) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 505
Score = 32.4 bits (74), Expect = 1.2
Identities = 19/71 (26%), Positives = 33/71 (46%), Gaps = 12/71 (16%)
Query: 365 LEDITSGYARICVATDVASRGLDVPDLT--HVINYDFPSHIEEY---------VHRV-GR 412
L +G A I + T + ++G P++T V++ D H ++ + +V GR
Sbjct: 305 LNQFANGKADILIGTQMIAKGHHFPNVTLVGVLDADSGLHSPDFRAAERGFQLLTQVAGR 364
Query: 413 TGRAGKSGESI 423
GRA G+ I
Sbjct: 365 AGRAEDPGQVI 375
>gnl|CDD|235514 PRK05580, PRK05580, primosome assembly protein PriA; Validated.
Length = 679
Score = 32.4 bits (75), Expect = 1.3
Identities = 20/69 (28%), Positives = 32/69 (46%), Gaps = 12/69 (17%)
Query: 365 LEDITSGYARICVATDVASRGLDVPDLTHV--INYDFPSHIEEY---------VHRV-GR 412
L G A I + T + ++G D P++T V ++ D ++ + +V GR
Sbjct: 473 LAQFARGEADILIGTQMLAKGHDFPNVTLVGVLDADLGLFSPDFRASERTFQLLTQVAGR 532
Query: 413 TGRAGKSGE 421
GRA K GE
Sbjct: 533 AGRAEKPGE 541
>gnl|CDD|233251 TIGR01054, rgy, reverse gyrase. This model describes reverse
gyrase, found in both archaeal and bacterial
thermophiles. This enzyme, a fusion of a type I
topoisomerase domain and a helicase domain, introduces
positive supercoiling to increase the melting
temperature of DNA double strands. 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 [DNA metabolism, DNA replication,
recombination, and repair].
Length = 1171
Score = 32.5 bits (74), Expect = 1.4
Identities = 31/126 (24%), Positives = 49/126 (38%), Gaps = 20/126 (15%)
Query: 639 IAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYK-- 696
IA TG GKT L +L + G ++ PT L Q+ +++ + K
Sbjct: 99 IAPTGVGKTTFGLAMSLFLA---------KKGKRCYIILPTTLLVIQVAEKISSLAEKAG 149
Query: 697 -GLKAVCVYGG----KELEPQLEKIREGCH-ILIATPGRLNDFVSRASIDLKAVSFVVLD 750
G + Y KE + +E+I G ILI T L+ F+ +D
Sbjct: 150 VGTVNIGAYHSRLPTKEKKEFMERIENGDFDILITTTMFLSKNYDELGPKFD---FIFVD 206
Query: 751 EADRML 756
+ D +L
Sbjct: 207 DVDALL 212
Score = 32.1 bits (73), Expect = 1.6
Identities = 31/126 (24%), Positives = 49/126 (38%), Gaps = 20/126 (15%)
Query: 119 IAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYK-- 176
IA TG GKT L +L + G ++ PT L Q+ +++ + K
Sbjct: 99 IAPTGVGKTTFGLAMSLFLA---------KKGKRCYIILPTTLLVIQVAEKISSLAEKAG 149
Query: 177 -GLKAVCVYGG----KEIEPQLEKIREGCH-ILIATPGRLNDFVSRASIDLKAVSFVVLD 230
G + Y KE + +E+I G ILI T L+ F+ +D
Sbjct: 150 VGTVNIGAYHSRLPTKEKKEFMERIENGDFDILITTTMFLSKNYDELGPKFD---FIFVD 206
Query: 231 EADRML 236
+ D +L
Sbjct: 207 DVDALL 212
>gnl|CDD|240833 cd12387, RRM3_hnRNPM_like, RNA recognition motif 3 in heterogeneous
nuclear ribonucleoprotein M (hnRNP M) and similar
proteins. This subfamily corresponds to the RRM3 of
heterogeneous nuclear ribonucleoprotein M (hnRNP M),
myelin expression factor 2 (MEF-2 or MyEF-2 or MST156)
and similar proteins. hnRNP M is pre-mRNA binding
protein that may play an important role in the pre-mRNA
processing. It also preferentially binds to poly(G) and
poly(U) RNA homopolymers. hnRNP M is able to interact
with early spliceosomes, further influencing splicing
patterns of specific pre-mRNAs. hnRNP M functions as the
receptor of carcinoembryonic antigen (CEA) that contains
the penta-peptide sequence PELPK signaling motif. In
addition, hnRNP M and another splicing factor Nova-1
work together as dopamine D2 receptor (D2R)
pre-mRNA-binding proteins. They regulate alternative
splicing of D2R pre-mRNA in an antagonistic manner.
hnRNP M contains three RNA recognition motifs (RRMs),
also termed RBDs (RNA binding domains) or RNPs
(ribonucleoprotein domains), and an unusual
hexapeptide-repeat region rich in methionine and
arginine residues (MR repeat motif). MEF-2 is a
sequence-specific single-stranded DNA (ssDNA) binding
protein that binds specifically to ssDNA derived from
the proximal (MB1) element of the myelin basic protein
(MBP) promoter and represses transcription of the MBP
gene. MEF-2 shows high sequence homology with hnRNP M.
It also contains three RRMs, which may be responsible
for its ssDNA binding activity. .
Length = 72
Score = 28.8 bits (65), Expect = 2.0
Identities = 11/27 (40%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 491 VVMEGEEEGEVAIQMINKIDL-GRHID 516
V+ E E+ + AI+M N DL GR ++
Sbjct: 44 VLFESPEDAQRAIEMFNGYDLEGRELE 70
>gnl|CDD|224119 COG1198, PriA, Primosomal protein N' (replication factor Y) -
superfamily II helicase [DNA replication, recombination,
and repair].
Length = 730
Score = 31.9 bits (73), Expect = 2.1
Identities = 22/71 (30%), Positives = 33/71 (46%), Gaps = 14/71 (19%)
Query: 364 ALEDITSGYARICVATDVASRGLDVPDLTHVI---------NYDFPSHIEEYVHRV---- 410
L+ +G A I + T + ++G D P++T V + DF + E +
Sbjct: 526 LLDQFANGEADILIGTQMIAKGHDFPNVTLVGVLDADTGLGSPDFRAS-ERTFQLLMQVA 584
Query: 411 GRTGRAGKSGE 421
GR GRAGK GE
Sbjct: 585 GRAGRAGKPGE 595
>gnl|CDD|224123 COG1202, COG1202, Superfamily II helicase, archaea-specific
[General function prediction only].
Length = 830
Score = 31.7 bits (72), Expect = 2.3
Identities = 98/463 (21%), Positives = 171/463 (36%), Gaps = 62/463 (13%)
Query: 85 PEILRQLENLSFTTPSPIQAQAWPI-LMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTT 143
+ R L+ P+Q A L+ G +++ ++ T +GKT L A I L
Sbjct: 203 EKFKRMLKREGIEELLPVQVLAVEAGLLEGENLLVVSATASGKTLIGEL-AGIPRLL--- 258
Query: 144 PISERAGPSVLVMAPTRELATQIEREV-NKIDYKGLKAVCVYGGKEIEPQLEKIRE---- 198
G +L + P LA Q + + GLK G I+ + E +
Sbjct: 259 ----SGGKKMLFLVPLVALANQKYEDFKERYSKLGLKVAIRVGMSRIKTREEPVVVDTSP 314
Query: 199 GCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQIN---KTSIYINPNR 255
I++ T + D++ R DL + VV+DE + D P+++ Y+ P
Sbjct: 315 DADIIVGTYEGI-DYLLRTGKDLGDIGTVVIDEIHTLEDEERGPRLDGLIGRLRYLFPGA 373
Query: 256 QTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEF- 314
Q + SAT + + +AKK V + + L H V + +E EK D +
Sbjct: 374 QFIYLSATV-GNPEELAKKLGAKLVLYDERPVPL-ERHLVFAR----NESEKWDIIARLV 427
Query: 315 ---FDNMDEE--RDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDIT 369
F + R + +VF + ++ L + K+ + L ++R+
Sbjct: 428 KREFSTESSKGYRGQTIVFTYSRRRCHELADALTGKGLKAAPYHAGLPYKERKSVERAFA 487
Query: 370 SGYARICVATDVASRGLDVPDLTHVINYDFPS--------HIEEYVHRVGRTGRAGKSGE 421
+ V T + G+D P + VI F S + E+ +GR G
Sbjct: 488 AQELAAVVTTAALAAGVDFP-ASQVI---FESLAMGIEWLSVREFQQMLGRAG------- 536
Query: 422 SITLMTRKDWSHAHEIIPILEEGGHESYMIWRRDSRIALHVILEGGEEVVEEEEGGEDGM 481
R D+ ++ ++E G + + +A +LE E V E ED
Sbjct: 537 ------RPDYHDRGKVYLLVEPGKKYHASMEETEDEVAFK-LLESEPEPVIVEYDEEDEE 589
Query: 482 EILVGVDLEVVMEGEEEGEVAIQMINKIDLGRHIDPEPTMEEL 524
E + L I+ +N + LG DP+ + +L
Sbjct: 590 ENV----LASAGVTNSLSV--IERVNSLMLGAAFDPKKALSKL 626
>gnl|CDD|223683 COG0610, COG0610, Type I site-specific restriction-modification
system, R (restriction) subunit and related helicases
[Defense mechanisms].
Length = 962
Score = 31.6 bits (72), Expect = 2.6
Identities = 29/118 (24%), Positives = 41/118 (34%), Gaps = 17/118 (14%)
Query: 642 TGTGKTF--AFLLPALIHTHLQTTPISERAG-PSVLVMAPTRELATQIEREVNKIDYKGL 698
G+GKT L L + E P VL + ++L Q E
Sbjct: 282 QGSGKTLTMFKL------ARL----LLELPKNPKVLFVVDRKDLDDQTSDEFQSFGKVAF 331
Query: 699 KAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVS-RASIDLKAVSFVVL-DEADR 754
EL+ LE + I++ T + N V LK + VV+ DEA R
Sbjct: 332 NDPKAESTSELKELLEDGKGK--IIVTTIQKFNKAVKEDELELLKRKNVVVIIDEAHR 387
>gnl|CDD|119361 cd06544, GH18_narbonin, Narbonin is a plant 2S protein from the
globulin fraction of narbon bean (Vicia narbonensis L.)
cotyledons with unknown function. Narbonin has a
glycosyl hydrolase family 18 (GH18) domain without the
conserved catalytic residues and with no known enzymatic
activity. Narbonin amounts to up to 3% of the total
seed globulins of mature seeds and was thought to be a
storage protein but was found to degrade too slowly
during germination. This family also includes the
VfNOD32 nodulin from Vicia faba.
Length = 253
Score = 30.4 bits (69), Expect = 3.3
Identities = 14/60 (23%), Positives = 25/60 (41%), Gaps = 8/60 (13%)
Query: 33 VANMTPEQVEAFRKKNNDISVSVVTSDGQIDENPDFQIP--------NPVTSFKQAFQHY 84
N+TPE V++ + ++ ++ V + + NP P N V+S Q Y
Sbjct: 53 TENLTPEAVKSIKAQHPNVKVVISIGGRGVQNNPTPFDPSNVDSWVSNAVSSLTSIIQTY 112
Score = 30.4 bits (69), Expect = 3.3
Identities = 14/60 (23%), Positives = 25/60 (41%), Gaps = 8/60 (13%)
Query: 553 VANMTPEQVEAFRKKNNDISVSVVTSDGQIDENPDFQIP--------NPVTSFKQAFQHY 604
N+TPE V++ + ++ ++ V + + NP P N V+S Q Y
Sbjct: 53 TENLTPEAVKSIKAQHPNVKVVISIGGRGVQNNPTPFDPSNVDSWVSNAVSSLTSIIQTY 112
>gnl|CDD|187839 cd09708, Csf4_U, CRISPR/Cas system-associated DinG family helicase
Csf4. CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
DinG family DNA helicase.
Length = 632
Score = 30.7 bits (69), Expect = 4.6
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 7/59 (11%)
Query: 120 AQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGL 178
A TG GKT A ++ AL T + ER + + PT L Q+ E+ ++ +GL
Sbjct: 23 ASTGVGKTLAMIMAAL-------TMLKERPDQKIAIAVPTLALMGQLWSELERLTAEGL 74
Score = 30.7 bits (69), Expect = 4.6
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 7/59 (11%)
Query: 640 AQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGL 698
A TG GKT A ++ AL T + ER + + PT L Q+ E+ ++ +GL
Sbjct: 23 ASTGVGKTLAMIMAAL-------TMLKERPDQKIAIAVPTLALMGQLWSELERLTAEGL 74
>gnl|CDD|234468 TIGR04095, dnd_restrict_1, DNA phosphorothioation system
restriction enzyme. The DNA phosphorothioate
modification system dnd (DNA instability during
electrophoresis) recently has been shown to provide a
modification essential to a restriction system. This
protein family was detected by Partial Phylogenetic
Profiling as linked to dnd, and its members usually are
clustered with the dndABCDE genes.
Length = 451
Score = 30.4 bits (69), Expect = 4.7
Identities = 27/97 (27%), Positives = 34/97 (35%), Gaps = 26/97 (26%)
Query: 642 TGTGKTFAFLLPALIHTHLQTTPISERAGPS----VLVMAPTRELATQIEREVNKIDYKG 697
TGTGKT L AL S+ +LV+ P + L Q RE K G
Sbjct: 33 TGTGKT----LTAL-------AAASKLYEKIGLLVLLVVCPYQHLVDQWAREAEKF---G 78
Query: 698 LKAVCVYGGK-----ELEPQLEKIREGC---HILIAT 726
L + Y EL L + G +I T
Sbjct: 79 LNPILCYESVSNWQSELSTGLYNLNSGNQKFLAIITT 115
>gnl|CDD|237497 PRK13767, PRK13767, ATP-dependent helicase; Provisional.
Length = 876
Score = 30.6 bits (70), Expect = 4.7
Identities = 45/178 (25%), Positives = 72/178 (40%), Gaps = 42/178 (23%)
Query: 606 EILRQLENL-------SFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTF-AFLLPALIH 657
EIL L F T +P Q A P++ G +++ + TG+GKT AFL A+I
Sbjct: 13 EILDLLRPYVREWFKEKFGTFTPPQRYAIPLIHEGKNVLISSPTGSGKTLAAFL--AIID 70
Query: 658 THLQTTPISERAG--PSVLVM--APTRELATQIEREVNKIDYKGLKAVCVYGGKELE--- 710
+ + V + +P R L I R + + ++ + G+EL
Sbjct: 71 ELFR---LGREGELEDKVYCLYVSPLRALNNDIHRNL-EEPLTEIREIAKERGEELPEIR 126
Query: 711 --------PQLEK---IREGCHILIATPGRLN------DFVSRASIDLKAVSFVVLDE 751
EK +++ HILI TP L F + L+ V +V++DE
Sbjct: 127 VAIRTGDTSSYEKQKMLKKPPHILITTPESLAILLNSPKFREK----LRTVKWVIVDE 180
Score = 30.2 bits (69), Expect = 6.2
Identities = 44/178 (24%), Positives = 72/178 (40%), Gaps = 42/178 (23%)
Query: 86 EILRQLENL-------SFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTF-AFLLPALIH 137
EIL L F T +P Q A P++ G +++ + TG+GKT AFL A+I
Sbjct: 13 EILDLLRPYVREWFKEKFGTFTPPQRYAIPLIHEGKNVLISSPTGSGKTLAAFL--AIID 70
Query: 138 THLQTTPISERAG--PSVLVM--APTRELATQIEREVNKIDYKGLKAVCVYGGKEIE--- 190
+ + V + +P R L I R + + ++ + G+E+
Sbjct: 71 ELFR---LGREGELEDKVYCLYVSPLRALNNDIHRNL-EEPLTEIREIAKERGEELPEIR 126
Query: 191 --------PQLEK---IREGCHILIATPGRLN------DFVSRASIDLKAVSFVVLDE 231
EK +++ HILI TP L F + L+ V +V++DE
Sbjct: 127 VAIRTGDTSSYEKQKMLKKPPHILITTPESLAILLNSPKFREK----LRTVKWVIVDE 180
>gnl|CDD|234113 TIGR03117, cas_csf4, CRISPR type AFERR-associated DEAD/DEAH-box
helicase Csf4. Members of this family show up near
CRISPR repeats in Acidithiobacillus ferrooxidans ATCC
23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens
DSM 15236. In the latter two species, the CRISPR/cas
locus is found on a plasmid. This family is one of
several characteristic of a type of CRISPR-associated
(cas) gene cluster we designate Aferr after A.
ferrooxidans, where it is both chromosomal and the only
type of cas gene cluster found. The gene is designated
csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein
1), as it lies farthest (fourth closest) from the
repeats in the A. ferrooxidans genome [Mobile and
extrachromosomal element functions, Other].
Length = 636
Score = 30.7 bits (69), Expect = 4.9
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 7/59 (11%)
Query: 120 AQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGL 178
A TG GKT A ++ AL T + ER + + PT L Q+ E+ ++ +GL
Sbjct: 23 ASTGVGKTLAMIMAAL-------TMLKERPDQKIAIAVPTLALMGQLWSELERLTAEGL 74
Score = 30.7 bits (69), Expect = 4.9
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 7/59 (11%)
Query: 640 AQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGL 698
A TG GKT A ++ AL T + ER + + PT L Q+ E+ ++ +GL
Sbjct: 23 ASTGVGKTLAMIMAAL-------TMLKERPDQKIAIAVPTLALMGQLWSELERLTAEGL 74
>gnl|CDD|218576 pfam05395, DARPP-32, Protein phosphatase inhibitor 1/DARPP-32.
This family consists of several mammalian protein
phosphatase inhibitor 1 (IPP-1) and dopamine- and
cAMP-regulated neuronal phosphoprotein (DARPP-32)
proteins. Protein phosphatase inhibitor-1 is involved in
signal transduction and is an endogenous inhibitor of
protein phosphatase-1. It has been demonstrated that
DARPP-32, if phosphorylated, can inhibit
protein-phosphatase-1. DARPP-32 has a key role in many
neurotransmitter pathways throughout the brain and has
been shown to be involved in controlling receptors, ion
channels and other physiological factors including the
brain's response to drugs of abuse, such as cocaine,
opiates and nicotine. DARPP-32 is reciprocally regulated
by the two neurotransmitters that are most often
implicated in schizophrenia - dopamine and glutamate.
Dopamine activates DARPP-32 through the D1 receptor
pathway and disables DARPP-32 through the D2 receptor.
Glutamate, acting through the N-methyl-d-aspartate
receptor, renders DARPP-32 inactive. A mutant form of
DARPP-32 has been linked with gastric cancers.
Length = 170
Score = 29.5 bits (66), Expect = 5.2
Identities = 15/67 (22%), Positives = 30/67 (44%), Gaps = 5/67 (7%)
Query: 34 ANMTPEQVEAFRKKNNDISVSVVTSDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLEN 93
+ P E R++ + V+ S+ E + + PN + K + Q P Q +N
Sbjct: 18 PQLDPRAAEMIRRRRPTPATLVLVSEQSSPEIDEERTPNQLQ--KGSLQMSP---SQRKN 72
Query: 94 LSFTTPS 100
+++T P+
Sbjct: 73 MAYTPPT 79
Score = 29.5 bits (66), Expect = 5.2
Identities = 15/67 (22%), Positives = 30/67 (44%), Gaps = 5/67 (7%)
Query: 554 ANMTPEQVEAFRKKNNDISVSVVTSDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLEN 613
+ P E R++ + V+ S+ E + + PN + K + Q P Q +N
Sbjct: 18 PQLDPRAAEMIRRRRPTPATLVLVSEQSSPEIDEERTPNQLQ--KGSLQMSP---SQRKN 72
Query: 614 LSFTTPS 620
+++T P+
Sbjct: 73 MAYTPPT 79
>gnl|CDD|236966 PRK11747, dinG, ATP-dependent DNA helicase DinG; Provisional.
Length = 697
Score = 30.2 bits (69), Expect = 5.7
Identities = 8/16 (50%), Positives = 11/16 (68%)
Query: 120 AQTGTGKTFAFLLPAL 135
A TG GKT ++LL +
Sbjct: 56 AGTGVGKTLSYLLAGI 71
Score = 30.2 bits (69), Expect = 5.7
Identities = 8/16 (50%), Positives = 11/16 (68%)
Query: 640 AQTGTGKTFAFLLPAL 655
A TG GKT ++LL +
Sbjct: 56 AGTGVGKTLSYLLAGI 71
>gnl|CDD|224015 COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase
[General function prediction only].
Length = 297
Score = 29.5 bits (67), Expect = 7.5
Identities = 11/45 (24%), Positives = 21/45 (46%), Gaps = 2/45 (4%)
Query: 437 IIPILEEGGHESYMIWRRDSRIA--LHVILEGGEEVVEEEEGGED 479
+ L +GGH+ ++ RR + + LH + E + + G D
Sbjct: 14 LTARLRKGGHQVTILTRRPPKASQNLHPNVTLWEGLADALTLGID 58
>gnl|CDD|133059 cd06437, CESA_CaSu_A2, Cellulose synthase catalytic subunit A2
(CESA2) is a catalytic subunit or a catalytic subunit
substitute of the cellulose synthase complex. Cellulose
synthase (CESA) catalyzes the polymerization reaction of
cellulose using UDP-glucose as the substrate. Cellulose
is an aggregate of unbranched polymers of
beta-1,4-linked glucose residues, which is an abundant
polysaccharide produced by plants and in varying degrees
by several other organisms including algae, bacteria,
fungi, and even some animals. Genomes from higher plants
harbor multiple CESA genes. There are ten in
Arabidopsis. At least three different CESA proteins are
required to form a functional complex. In Arabidopsis,
CESA1, 3 and 6 and CESA4, 7 and 8, are required for
cellulose biosynthesis during primary and secondary cell
wall formation. CESA2 is very closely related to CESA6
and is viewed as a prime substitute for CESA6. They
functionally compensate each other. The cesa2 and cesa6
double mutant plants were significantly smaller, while
the single mutant plants were almost normal.
Length = 232
Score = 29.2 bits (66), Expect = 7.9
Identities = 14/47 (29%), Positives = 20/47 (42%), Gaps = 7/47 (14%)
Query: 520 TMEELMALSDRKERDKWAREPKIIKNVYKEDPEVANMTPEQVEAFRK 566
T+ E + LS R + W K VY +D V P + A+R
Sbjct: 184 TLTEDLDLSYRAQLKGW-------KFVYLDDVVVPAELPASMSAYRS 223
>gnl|CDD|213220 cd03253, ABCC_ATM1_transporter, ATP-binding cassette domain of
iron-sulfur clusters transporter, subfamily C. ATM1 is
an ABC transporter that is expressed in the
mitochondria. Although the specific function of ATM1 is
unknown, its disruption results in the accumulation of
excess mitochondrial iron, loss of mitochondrial
cytochromes, oxidative damage to mitochondrial DNA, and
decreased levels of cytosolic heme proteins. ABC
transporters are a large family of proteins involved in
the transport of a wide variety of different compounds,
like sugars, ions, peptides, and more complex organic
molecules. The nucleotide binding domain shows the
highest similarity between all members of the family.
ABC transporters are a subset of nucleotide hydrolases
that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing proteins.
Length = 236
Score = 29.5 bits (67), Expect = 7.9
Identities = 16/57 (28%), Positives = 25/57 (43%), Gaps = 9/57 (15%)
Query: 214 VSRASIDLKAVSFVVLDEADRMLDLGFEPQI---------NKTSIYINPNRQTVMTS 261
V+ A LK ++LDEA LD E +I +T+I I T++ +
Sbjct: 146 VAIARAILKNPPILLLDEATSALDTHTEREIQAALRDVSKGRTTIVIAHRLSTIVNA 202
Score = 29.5 bits (67), Expect = 7.9
Identities = 16/57 (28%), Positives = 25/57 (43%), Gaps = 9/57 (15%)
Query: 734 VSRASIDLKAVSFVVLDEADRMLDLGFEPQI---------NKTSIYINPNRQTVMTS 781
V+ A LK ++LDEA LD E +I +T+I I T++ +
Sbjct: 146 VAIARAILKNPPILLLDEATSALDTHTEREIQAALRDVSKGRTTIVIAHRLSTIVNA 202
>gnl|CDD|132871 cd07044, CofD_YvcK, Family of CofD-like proteins and proteins
related to YvcK. CofD is a 2-phospho-L-lactate
transferase that catalyzes the last step in the
biosynthesis of coenzyme F(420)-0 (F(420) without
polyglutamate) by transferring the lactyl phosphate
moiety of lactyl(2)diphospho-(5')guanosine (LPPG) to
7,8-didemethyl-8-hydroxy-5-deazariboflavin ribitol (F0).
F420 is a hydride carrier, important for energy
metabolism of methanogenic archaea, as well as for the
biosynthesis of other natural products, like
tetracycline in Streptomyces. F420 and some of its
precursors are also utilized as cofactors for enzymes,
like DNA photolyase in Mycobacterium tuberculosis. YvcK
from Bacillus subtilis is a member of a family of mostly
uncharacterized proteins and has been proposed to play a
role in carbon metabolism, since its function is
essential for growth on intermediates of the Krebs cycle
and pentose phosphate pathway. Both families appear to
have a conserved phosphate binding site, but have
different substrate binding residues conserved within
each family.
Length = 309
Score = 29.5 bits (66), Expect = 9.2
Identities = 9/36 (25%), Positives = 16/36 (44%)
Query: 14 DKWAREPKIIKNVYKEDPEVANMTPEQVEAFRKKNN 49
+ K I V+ + A+ + E +EA K +N
Sbjct: 142 SFIPKGEKKIDRVFLTPVDEASPSREVLEAIEKADN 177
Score = 29.5 bits (66), Expect = 9.2
Identities = 9/36 (25%), Positives = 16/36 (44%)
Query: 534 DKWAREPKIIKNVYKEDPEVANMTPEQVEAFRKKNN 569
+ K I V+ + A+ + E +EA K +N
Sbjct: 142 SFIPKGEKKIDRVFLTPVDEASPSREVLEAIEKADN 177
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
0.317 0.134 0.386
Gapped
Lambda K H
0.267 0.0781 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 49,078,893
Number of extensions: 5009118
Number of successful extensions: 5682
Number of sequences better than 10.0: 1
Number of HSP's gapped: 5541
Number of HSP's successfully gapped: 166
Length of query: 936
Length of database: 10,937,602
Length adjustment: 106
Effective length of query: 830
Effective length of database: 6,236,078
Effective search space: 5175944740
Effective search space used: 5175944740
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 64 (28.3 bits)