RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16310
(1493 letters)
>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 = 303 bits (778), Expect = 1e-90
Identities = 139/520 (26%), Positives = 227/520 (43%), Gaps = 83/520 (15%)
Query: 738 KKKKKQTYTSANKELLEVDTSNNEDMFVQMAEWVKFNIPETIIRALYQKGFKTPTKIQSM 797
++ K V S E+ E+ + +++AL GF+ PT IQ
Sbjct: 1 LAREDYDRFVKLKSAHNVALSRGEEKT--PPEFASLGLSPELLQALKDLGFEEPTPIQLA 58
Query: 798 VMPSALLARKDIVGAAETGSGKTLAFGIPILTGIVNKLENPTEEDENDSGLEEEAEEVLE 857
+P +LA +D++G A+TG+GKT AF +P+L I+
Sbjct: 59 AIP-LILAGRDVLGQAQTGTGKTAAFLLPLLQKIL------------------------- 92
Query: 858 ELEEESANTTEFVKKTRNKLYALILAPTRELAIQVQNHILDAGKYTP-VKVACVVGGMST 916
R + ALILAPTRELA+Q+ + GK ++VA V GG+S
Sbjct: 93 ------------KSVERKYVSALILAPTRELAVQIAEELRKLGKNLGGLRVAVVYGGVSI 140
Query: 917 EKQLRILNKCPHILVATPGRLWEFIQLGHFHLTELYKINYLVIDETDRMIESGHFPELKN 976
KQ+ L + I+VATPGRL + I+ G L + LV+DE DRM++ G +++
Sbjct: 141 RKQIEALKRGVDIVVATPGRLLDLIKRGKLDL---SGVETLVLDEADRMLDMGFIDDIEK 197
Query: 977 ILDRVTMTETSQPRQTFVFSATLTHSLKNSLNLKKGQSKSKKVSKGDPSIKRLQDLLNIK 1036
IL + RQT +FSAT+ +++++ + L D + I+
Sbjct: 198 ILKALPP-----DRQTLLFSATMP-------------DDIRELAR-----RYLNDPVEIE 234
Query: 1037 SPKIVDLTEKIGITKTLTESKILCKH-DEKDSYLYYFI-LQHPGRTLVFCNSISSVKRLT 1094
V + + K + + + + +EK L + + GR +VF + V+ L
Sbjct: 235 ----VSVEKLERTLKKIKQFYLEVESEEEKLELLLKLLKDEDEGRVIVFVRTKRLVEELA 290
Query: 1095 QLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSILLATDVAARGLDIPGIEHVIHYHV 1154
+ L LH + Q +R + L++F+D +L+ATDVAARGLDIP + HVI+Y +
Sbjct: 291 ESLRKRGFKVAALHGDLPQEERDRALEKFKDGELRVLVATDVAARGLDIPDVSHVINYDL 350
Query: 1155 PRTSEIYIHRSGRTARANNEGLTLVLIESDEIPLYIK-----MFNSLEKKVDLPDFPIDE 1209
P E Y+HR GRT RA +G+ + + +E +K + L V LP ++
Sbjct: 351 PLDPEDYVHRIGRTGRAGRKGVAISFVTEEEEVKKLKRIEKRLERKLPSAVLLPLDEPED 410
Query: 1210 SVLSLIKKRIDLAKSIEYLESKIKKNRPDNWLHRSGRTAR 1249
K +E + + ++
Sbjct: 411 -----AKLLKTTRPGLEEESDISDEIKKLKSSKKALLRGL 445
Score = 175 bits (446), Expect = 2e-46
Identities = 86/297 (28%), Positives = 132/297 (44%), Gaps = 52/297 (17%)
Query: 121 KKKKKQTYTSANKELLEVDTSNNEDMFVQMAEWVKFNIPETIIRALYQKGFKTPTKIQSM 180
++ K V S E+ E+ + +++AL GF+ PT IQ
Sbjct: 1 LAREDYDRFVKLKSAHNVALSRGEEKT--PPEFASLGLSPELLQALKDLGFEEPTPIQLA 58
Query: 181 VMPSALLARKDIVGAAETGSGKTLAFGIPILTGIVNKLENPTEEDENDSGLEEEAEEVLE 240
+P +LA +D++G A+TG+GKT AF +P+L I+
Sbjct: 59 AIP-LILAGRDVLGQAQTGTGKTAAFLLPLLQKIL------------------------- 92
Query: 241 ELEEESANTTEFVKKTRNKLYALILAPTRELAIQVQNHILDAGKYTP-VKVACVVGGMST 299
R + ALILAPTRELA+Q+ + GK ++VA V GG+S
Sbjct: 93 ------------KSVERKYVSALILAPTRELAVQIAEELRKLGKNLGGLRVAVVYGGVSI 140
Query: 300 EKQLRILNKCPHILVATPGRLWEFIQLGHFHLTELYKINYLVIDETDRMIESGHFPELKN 359
KQ+ L + I+VATPGRL + I+ G L + LV+DE DRM++ G +++
Sbjct: 141 RKQIEALKRGVDIVVATPGRLLDLIKRGKLD---LSGVETLVLDEADRMLDMGFIDDIEK 197
Query: 360 ILDRVTMTETSQPRQTMIESGHFPELKNILDRVTMTETSQPRQTFVFSATLTHSLKN 416
IL + RQT++ S P+ L R + + P + V L +LK
Sbjct: 198 ILKALPP-----DRQTLLFSATMPDDIRELARRYLND---PVEIEVSVEKLERTLKK 246
Score = 140 bits (355), Expect = 8e-35
Identities = 60/227 (26%), Positives = 96/227 (42%), Gaps = 18/227 (7%)
Query: 528 KHDEKDSYLYYFI-LQHPGRTLVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKN 586
+EK L + + GR +VF + V+ L + L LH + Q +R +
Sbjct: 256 SEEEKLELLLKLLKDEDEGRVIVFVRTKRLVEELAESLRKRGFKVAALHGDLPQEERDRA 315
Query: 587 LDRFRDQNNSILLATDVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGRTARANNEGLTVV 646
L++F+D +L+ATDVAARGLDIP + HVI+Y +P E Y+HR GRT RA +G+ +
Sbjct: 316 LEKFKDGELRVLVATDVAARGLDIPDVSHVINYDLPLDPEDYVHRIGRTGRAGRKGVAIS 375
Query: 647 LIESDE---------------IPLKTKFNLQEEENNEEEERAEADKEKTEDINVTVSSKK 691
+ +E +P L E E+ + + E+ DI+ + K
Sbjct: 376 FVTEEEEVKKLKRIEKRLERKLPSAVLLPLDEPEDAKLLKTTRPGLEEESDISDEIKKLK 435
Query: 692 KKLKR--KQNPSQVEVSELSANTNDPDDQVNKTEEIQSDEPHSKKLK 736
K + + +S+L AN I +
Sbjct: 436 SSKKALLRGLGVRFTLSKLLANLGKEIPGAGDAVTIDPELERRSPNS 482
Score = 79.1 bits (195), Expect = 6e-15
Identities = 29/58 (50%), Positives = 38/58 (65%), Gaps = 1/58 (1%)
Query: 1356 ALILAPTRELAIQVQNHILDAGKYTP-VKVACVVGGMSTEKQLRILNKCPHILVATPG 1412
ALILAPTRELA+Q+ + GK ++VA V GG+S KQ+ L + I+VATPG
Sbjct: 102 ALILAPTRELAVQIAEELRKLGKNLGGLRVAVVYGGVSIRKQIEALKRGVDIVVATPG 159
Score = 40.5 bits (95), Expect = 0.007
Identities = 19/94 (20%), Positives = 36/94 (38%), Gaps = 10/94 (10%)
Query: 1237 PDNWLHRSGRTARANNEGLTLVLIESDEIPLYIK-----MFNSLEKKVDLPDFPIDESVL 1291
P++++HR GRT RA +G+ + + +E +K + L V LP ++
Sbjct: 354 PEDYVHRIGRTGRAGRKGVAISFVTEEEEVKKLKRIEKRLERKLPSAVLLPLDEPED--- 410
Query: 1292 SLIKKRIDLAKSIEYLESKIKKNRPDNWLEKAAK 1325
K +E + + +KA
Sbjct: 411 --AKLLKTTRPGLEEESDISDEIKKLKSSKKALL 442
>gnl|CDD|236977 PRK11776, PRK11776, ATP-dependent RNA helicase DbpA; Provisional.
Length = 460
Score = 222 bits (568), Expect = 5e-63
Identities = 126/403 (31%), Positives = 186/403 (46%), Gaps = 79/403 (19%)
Query: 787 GFKTPTKIQSMVMPSALLARKDIVGAAETGSGKTLAFGIPILTGIVNKLENPTEEDENDS 846
G+ T IQ+ +P A+LA KD++ A+TGSGKT AFG+ +L KL
Sbjct: 23 GYTEMTPIQAQSLP-AILAGKDVIAQAKTGSGKTAAFGLGLL----QKL----------- 66
Query: 847 GLEEEAEEVLEELEEESANTTEFVKKTRNKLYALILAPTRELAIQVQNHILDAGKYTP-V 905
+ F ++ AL+L PTRELA QV I ++ P +
Sbjct: 67 ------------------DVKRF------RVQALVLCPTRELADQVAKEIRRLARFIPNI 102
Query: 906 KVACVVGGMSTEKQLRILNKCPHILVATPGRLWEFIQLGHFHLTELYKINYLVIDETDRM 965
KV + GG+ Q+ L HI+V TPGR+ + ++ G L L N LV+DE DRM
Sbjct: 103 KVLTLCGGVPMGPQIDSLEHGAHIIVGTPGRILDHLRKGTLDLDAL---NTLVLDEADRM 159
Query: 966 IESGHFPELKNILDRVTMTETSQPRQTFVFSATLTHSLKNSLNLKKGQSKSKKVSKGDPS 1025
++ G + I+ + RQT +FSAT
Sbjct: 160 LDMGFQDAIDAIIRQ-----APARRQTLLFSATYP-----------------------EG 191
Query: 1026 IKRL--QDLLNIKSPKIVDLTEKIGITKTLTESKILCKHDEKDSYLYYFILQH-PGRTLV 1082
I + + + K+ + I + E DE+ L +L H P +V
Sbjct: 192 IAAISQRFQRDPVEVKVESTHDLPAIEQRFYE----VSPDERLPALQRLLLHHQPESCVV 247
Query: 1083 FCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSILLATDVAARGLD 1142
FCN+ + + L S L LH + QR R + L RF +++ S+L+ATDVAARGLD
Sbjct: 248 FCNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRFANRSCSVLVATDVAARGLD 307
Query: 1143 IPGIEHVIHYHVPRTSEIYIHRSGRTARANNEGLTLVLIESDE 1185
I +E VI+Y + R E+++HR GRT RA ++GL L L+ +E
Sbjct: 308 IKALEAVINYELARDPEVHVHRIGRTGRAGSKGLALSLVAPEE 350
Score = 120 bits (303), Expect = 2e-28
Identities = 69/216 (31%), Positives = 102/216 (47%), Gaps = 49/216 (22%)
Query: 170 GFKTPTKIQSMVMPSALLARKDIVGAAETGSGKTLAFGIPILTGIVNKLENPTEEDENDS 229
G+ T IQ+ +P A+LA KD++ A+TGSGKT AFG+ +L KL
Sbjct: 23 GYTEMTPIQAQSLP-AILAGKDVIAQAKTGSGKTAAFGLGLL----QKL----------- 66
Query: 230 GLEEEAEEVLEELEEESANTTEFVKKTRNKLYALILAPTRELAIQVQNHILDAGKYTP-V 288
+ F ++ AL+L PTRELA QV I ++ P +
Sbjct: 67 ------------------DVKRF------RVQALVLCPTRELADQVAKEIRRLARFIPNI 102
Query: 289 KVACVVGGMSTEKQLRILNKCPHILVATPGRLWEFIQLGHFHLTELYKINYLVIDETDRM 348
KV + GG+ Q+ L HI+V TPGR+ + ++ G L L N LV+DE DRM
Sbjct: 103 KVLTLCGGVPMGPQIDSLEHGAHIIVGTPGRILDHLRKGTLDLDAL---NTLVLDEADRM 159
Query: 349 IESGHFPELKNILDRVTMTETSQPRQTMIESGHFPE 384
++ G + I+ + RQT++ S +PE
Sbjct: 160 LDMGFQDAIDAIIRQ-----APARRQTLLFSATYPE 190
Score = 117 bits (297), Expect = 1e-27
Identities = 48/115 (41%), Positives = 71/115 (61%), Gaps = 2/115 (1%)
Query: 540 ILQH--PGRTLVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSI 597
+L H P +VFCN+ + + L S L LH + QR R + L RF +++ S+
Sbjct: 236 LLLHHQPESCVVFCNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRFANRSCSV 295
Query: 598 LLATDVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGRTARANNEGLTVVLIESDE 652
L+ATDVAARGLDI +E VI+Y + R E+++HR GRT RA ++GL + L+ +E
Sbjct: 296 LVATDVAARGLDIKALEAVINYELARDPEVHVHRIGRTGRAGSKGLALSLVAPEE 350
Score = 52.5 bits (127), Expect = 1e-06
Identities = 25/58 (43%), Positives = 33/58 (56%), Gaps = 1/58 (1%)
Query: 1356 ALILAPTRELAIQVQNHILDAGKYTP-VKVACVVGGMSTEKQLRILNKCPHILVATPG 1412
AL+L PTRELA QV I ++ P +KV + GG+ Q+ L HI+V TPG
Sbjct: 75 ALVLCPTRELADQVAKEIRRLARFIPNIKVLTLCGGVPMGPQIDSLEHGAHIIVGTPG 132
Score = 32.5 bits (75), Expect = 1.7
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 1242 HRSGRTARANNEGLTLVLIESDE 1264
HR GRT RA ++GL L L+ +E
Sbjct: 328 HRIGRTGRAGSKGLALSLVAPEE 350
>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 = 200 bits (511), Expect = 1e-58
Identities = 81/233 (34%), Positives = 122/233 (52%), Gaps = 46/233 (19%)
Query: 773 FNIPETIIRALYQKGFKTPTKIQSMVMPSALLARKDIVGAAETGSGKTLAFGIPILTGIV 832
+ ++R +Y GF+ PT IQ+ +P LL+ +D++G A+TGSGKT AF IPIL +
Sbjct: 4 LGLSPELLRGIYALGFEKPTPIQARAIP-PLLSGRDVIGQAQTGSGKTAAFLIPILEKLD 62
Query: 833 NKLENPTEEDENDSGLEEEAEEVLEELEEESANTTEFVKKTRNKLYALILAPTRELAIQV 892
++ ALILAPTRELA+Q+
Sbjct: 63 PS-------------------------------------PKKDGPQALILAPTRELALQI 85
Query: 893 QNHILDAGKYTPVKVACVVGGMSTEKQLRILNKCPHILVATPGRLWEFIQLGHFHLTELY 952
GK+T +KV + GG S +KQ+R L + PHI+VATPGRL + ++ G L+
Sbjct: 86 AEVARKLGKHTNLKVVVIYGGTSIDKQIRKLKRGPHIVVATPGRLLDLLERGKLDLS--- 142
Query: 953 KINYLVIDETDRMIESGHFPELKNILDRVTMTETSQPRQTFVFSATLTHSLKN 1005
K+ YLV+DE DRM++ G +++ IL + RQT +FSAT+ +++
Sbjct: 143 KVKYLVLDEADRMLDMGFEDQIREILKLLPKD-----RQTLLFSATMPKEVRD 190
Score = 191 bits (488), Expect = 2e-55
Identities = 79/229 (34%), Positives = 118/229 (51%), Gaps = 46/229 (20%)
Query: 156 FNIPETIIRALYQKGFKTPTKIQSMVMPSALLARKDIVGAAETGSGKTLAFGIPILTGIV 215
+ ++R +Y GF+ PT IQ+ +P LL+ +D++G A+TGSGKT AF IPIL +
Sbjct: 4 LGLSPELLRGIYALGFEKPTPIQARAIP-PLLSGRDVIGQAQTGSGKTAAFLIPILEKLD 62
Query: 216 NKLENPTEEDENDSGLEEEAEEVLEELEEESANTTEFVKKTRNKLYALILAPTRELAIQV 275
++ ALILAPTRELA+Q+
Sbjct: 63 PS-------------------------------------PKKDGPQALILAPTRELALQI 85
Query: 276 QNHILDAGKYTPVKVACVVGGMSTEKQLRILNKCPHILVATPGRLWEFIQLGHFHLTELY 335
GK+T +KV + GG S +KQ+R L + PHI+VATPGRL + ++ G L+
Sbjct: 86 AEVARKLGKHTNLKVVVIYGGTSIDKQIRKLKRGPHIVVATPGRLLDLLERGKLDLS--- 142
Query: 336 KINYLVIDETDRMIESGHFPELKNILDRVTMTETSQPRQTMIESGHFPE 384
K+ YLV+DE DRM++ G +++ IL + RQT++ S P+
Sbjct: 143 KVKYLVLDEADRMLDMGFEDQIREILKLLPKD-----RQTLLFSATMPK 186
Score = 89.5 bits (223), Expect = 5e-20
Identities = 39/77 (50%), Positives = 52/77 (67%), Gaps = 5/77 (6%)
Query: 1356 ALILAPTRELAIQVQNHILDAGKYTPVKVACVVGGMSTEKQLRILNKCPHILVATPGAL- 1414
ALILAPTRELA+Q+ GK+T +KV + GG S +KQ+R L + PHI+VATPG L
Sbjct: 72 ALILAPTRELALQIAEVARKLGKHTNLKVVVIYGGTSIDKQIRKLKRGPHIVVATPGRLL 131
Query: 1415 -SLKR--IDLAKSIEYL 1428
L+R +DL ++YL
Sbjct: 132 DLLERGKLDL-SKVKYL 147
>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional.
Length = 434
Score = 199 bits (507), Expect = 3e-55
Identities = 123/424 (29%), Positives = 200/424 (47%), Gaps = 81/424 (19%)
Query: 773 FNIPETIIRALYQKGFKTPTKIQSMVMPSALLARKDIVGAAETGSGKTLAFGIPILTGIV 832
+ E+++ AL KG+ PT IQ+ +P AL R D++G+A TG+GKT AF +P L ++
Sbjct: 6 LELDESLLEALQDKGYTRPTAIQAEAIPPALDGR-DVLGSAPTGTGKTAAFLLPALQHLL 64
Query: 833 NKLENPTEEDENDSGLEEEAEEVLEELEEESANTTEFVKKTRNKLYALILAPTRELAIQV 892
+F ++ LIL PTRELA+QV
Sbjct: 65 -----------------------------------DFPRRKSGPPRILILTPTRELAMQV 89
Query: 893 QNHILDAGKYTPVKVACVVGGMSTEKQLRILNKCPHILVATPGRLWEFIQLGHFHLTELY 952
+ + K+T + +A + GG++ + ++ I+VATPGRL ++I+ +F
Sbjct: 90 ADQARELAKHTHLDIATITGGVAYMNHAEVFSENQDIVVATPGRLLQYIKEENFDCRA-- 147
Query: 953 KINYLVIDETDRMIESGHFPELKNILDRVTMTETSQPRQTFVFSATLTHSLKNSLNLKKG 1012
+ L++DE DRM++ G +++ I ET +QT +FSATL
Sbjct: 148 -VETLILDEADRMLDMGFAQDIETI-----AAETRWRKQTLLFSATL------------- 188
Query: 1013 QSKSKKVSKGDPSIKRLQDLLNIKSPKIVDLT----EKIGITKTLTESKILCKHDEKDSY 1068
+GD + LLN P V+ E+ K + + E +
Sbjct: 189 --------EGDAVQDFAERLLN--DPVEVEAEPSRRER----KKIHQWYYRADDLEHKTA 234
Query: 1069 LYYFILQHP--GRTLVFCNSISSVKRLTQLLTM--LKCSPLPLHASMNQRQRLKNLDRFR 1124
L +L+ P R++VF + V L L + C L M Q +R + + R
Sbjct: 235 LLCHLLKQPEVTRSIVFVRTRERVHELAGWLRKAGINCCYL--EGEMVQAKRNEAIKRLT 292
Query: 1125 DQNNSILLATDVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGRTARANNEGLTLVLIESD 1184
D ++L+ATDVAARG+DI + HVI++ +PR+++ Y+HR GRT RA +G + L+E+
Sbjct: 293 DGRVNVLVATDVAARGIDIDDVSHVINFDMPRSADTYLHRIGRTGRAGRKGTAISLVEAH 352
Query: 1185 EIPL 1188
+ L
Sbjct: 353 DHLL 356
Score = 116 bits (292), Expect = 4e-27
Identities = 65/224 (29%), Positives = 110/224 (49%), Gaps = 44/224 (19%)
Query: 156 FNIPETIIRALYQKGFKTPTKIQSMVMPSALLARKDIVGAAETGSGKTLAFGIPILTGIV 215
+ E+++ AL KG+ PT IQ+ +P AL R D++G+A TG+GKT AF +P L ++
Sbjct: 6 LELDESLLEALQDKGYTRPTAIQAEAIPPALDGR-DVLGSAPTGTGKTAAFLLPALQHLL 64
Query: 216 NKLENPTEEDENDSGLEEEAEEVLEELEEESANTTEFVKKTRNKLYALILAPTRELAIQV 275
+F ++ LIL PTRELA+QV
Sbjct: 65 -----------------------------------DFPRRKSGPPRILILTPTRELAMQV 89
Query: 276 QNHILDAGKYTPVKVACVVGGMSTEKQLRILNKCPHILVATPGRLWEFIQLGHFHLTELY 335
+ + K+T + +A + GG++ + ++ I+VATPGRL ++I+ +F
Sbjct: 90 ADQARELAKHTHLDIATITGGVAYMNHAEVFSENQDIVVATPGRLLQYIKEENFDCRA-- 147
Query: 336 KINYLVIDETDRMIESGHFPELKNILDRVTMTETSQPRQTMIES 379
+ L++DE DRM++ G +++ I ET +QT++ S
Sbjct: 148 -VETLILDEADRMLDMGFAQDIETI-----AAETRWRKQTLLFS 185
Score = 103 bits (260), Expect = 4e-23
Identities = 53/174 (30%), Positives = 90/174 (51%), Gaps = 15/174 (8%)
Query: 540 ILQHP--GRTLVFCNSISSVKRLTQLLTM--LKCSPLPLHASMNQRQRLKNLDRFRDQNN 595
+L+ P R++VF + V L L + C L M Q +R + + R D
Sbjct: 239 LLKQPEVTRSIVFVRTRERVHELAGWLRKAGINCCYL--EGEMVQAKRNEAIKRLTDGRV 296
Query: 596 SILLATDVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGRTARANNEGLTVVLIESDEIPL 655
++L+ATDVAARG+DI + HVI++ +PR+++ Y+HR GRT RA +G + L+E+ + L
Sbjct: 297 NVLVATDVAARGIDIDDVSHVINFDMPRSADTYLHRIGRTGRAGRKGTAISLVEAHDHLL 356
Query: 656 --KTKFNLQEE------ENNEEEERAEADKE-KTEDINVTVSSKKKKLKRKQNP 700
K + ++E + + +A ++K+ V +KK K K+ P
Sbjct: 357 LGKIERYIEEPLKARVIDELRPKTKAPSEKKTGKPSKKVLAKRAEKKEKEKEKP 410
Score = 57.3 bits (139), Expect = 4e-08
Identities = 23/58 (39%), Positives = 36/58 (62%)
Query: 1357 LILAPTRELAIQVQNHILDAGKYTPVKVACVVGGMSTEKQLRILNKCPHILVATPGAL 1414
LIL PTRELA+QV + + K+T + +A + GG++ + ++ I+VATPG L
Sbjct: 77 LILTPTRELAMQVADQARELAKHTHLDIATITGGVAYMNHAEVFSENQDIVVATPGRL 134
Score = 33.8 bits (78), Expect = 0.66
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 1238 DNWLHRSGRTARANNEGLTLVLIESDEIPL 1267
D +LHR GRT RA +G + L+E+ + L
Sbjct: 327 DTYLHRIGRTGRAGRKGTAISLVEAHDHLL 356
>gnl|CDD|234938 PRK01297, PRK01297, ATP-dependent RNA helicase RhlB; Provisional.
Length = 475
Score = 198 bits (504), Expect = 1e-54
Identities = 145/502 (28%), Positives = 224/502 (44%), Gaps = 70/502 (13%)
Query: 690 KKKKLKRKQNPSQVEVSELSANTNDPDDQVNKTEEIQSDEPHSKKLKQKKKKKQTYTSAN 749
KK K + +A P ++ P + + +K KK
Sbjct: 6 KKIFGKGEAEQPAPAPPSPAAAPAPPPPAKTAAPATKAAAPAAAAPRAEKPKKDKPRRER 65
Query: 750 KELLEVDTSNNEDMFVQMAE----WVKFNIPETIIRALYQKGFKTPTKIQSMVMPSALLA 805
K ED V+ E + FN+ ++ A++ GF T IQ+ V+ LA
Sbjct: 66 KPK-PASLWKLEDFVVEPQEGKTRFHDFNLAPELMHAIHDLGFPYCTPIQAQVL-GYTLA 123
Query: 806 RKDIVGAAETGSGKTLAFGIPILTGIVNKLENPTEEDENDSGLEEEAEEVLEELEEESAN 865
D +G A+TG+GKT AF I I+ + L+ P ++
Sbjct: 124 GHDAIGRAQTGTGKTAAFLISIINQL---LQTPPPKE----------------------- 157
Query: 866 TTEFVKKTRNKLYALILAPTRELAIQVQNHILDAGKYTPVKVACVVGGMSTEKQLRILN- 924
+ + ALI+APTREL +Q+ KYT + V VGGM +KQL+ L
Sbjct: 158 ------RYMGEPRALIIAPTRELVVQIAKDAAALTKYTGLNVMTFVGGMDFDKQLKQLEA 211
Query: 925 KCPHILVATPGRLWEFIQLGHFHLTELYKINYLVIDETDRMIESGHFPELKNILDRVTMT 984
+ ILVATPGRL +F Q G HL + +V+DE DRM++ G P+++ I + T
Sbjct: 212 RFCDILVATPGRLLDFNQRGEVHLDM---VEVMVLDEADRMLDMGFIPQVRQI---IRQT 265
Query: 985 ETSQPRQTFVFSATLTHSLKNSLNLKKGQSKSKKVSKGDPSIKRLQDLLNIKSPKIVDLT 1044
+ RQT +FSAT T + +NL K Q + P IV++
Sbjct: 266 PRKEERQTLLFSATFTDDV---MNLAK------------------QWTTD---PAIVEIE 301
Query: 1045 EKIGITKTLTESKILCKHDEKDSYLYYFILQHP-GRTLVFCNSISSVKRLTQLLTMLKCS 1103
+ + T+ + +K LY + Q+P R +VF N V+R+ + L +
Sbjct: 302 PENVASDTVEQHVYAVAGSDKYKLLYNLVTQNPWERVMVFANRKDEVRRIEERLVKDGIN 361
Query: 1104 PLPLHASMNQRQRLKNLDRFRDQNNSILLATDVAARGLDIPGIEHVIHYHVPRTSEIYIH 1163
L + Q +R+K L+ FR+ +L+ATDVA RG+ I GI HVI++ +P + Y+H
Sbjct: 362 AAQLSGDVPQHKRIKTLEGFREGKIRVLVATDVAGRGIHIDGISHVINFTLPEDPDDYVH 421
Query: 1164 RSGRTARANNEGLTLVLIESDE 1185
R GRT RA G+++ D+
Sbjct: 422 RIGRTGRAGASGVSISFAGEDD 443
Score = 124 bits (312), Expect = 1e-29
Identities = 90/317 (28%), Positives = 138/317 (43%), Gaps = 45/317 (14%)
Query: 73 KKKKLKRKQNPSQVEVSELSANTNDPDDQVNKTEEIQSDEPSSKKLKQKKKKKQTYTSAN 132
KK K + +A P ++ P++ + +K KK
Sbjct: 6 KKIFGKGEAEQPAPAPPSPAAAPAPPPPAKTAAPATKAAAPAAAAPRAEKPKKDKPRRER 65
Query: 133 KELLEVDTSNNEDMFVQMAE----WVKFNIPETIIRALYQKGFKTPTKIQSMVMPSALLA 188
K ED V+ E + FN+ ++ A++ GF T IQ+ V+ LA
Sbjct: 66 KPK-PASLWKLEDFVVEPQEGKTRFHDFNLAPELMHAIHDLGFPYCTPIQAQVL-GYTLA 123
Query: 189 RKDIVGAAETGSGKTLAFGIPILTGIVNKLENPTEEDENDSGLEEEAEEVLEELEEESAN 248
D +G A+TG+GKT AF I I+ + L+ P ++
Sbjct: 124 GHDAIGRAQTGTGKTAAFLISIINQL---LQTPPPKE----------------------- 157
Query: 249 TTEFVKKTRNKLYALILAPTRELAIQVQNHILDAGKYTPVKVACVVGGMSTEKQLRILN- 307
+ + ALI+APTREL +Q+ KYT + V VGGM +KQL+ L
Sbjct: 158 ------RYMGEPRALIIAPTRELVVQIAKDAAALTKYTGLNVMTFVGGMDFDKQLKQLEA 211
Query: 308 KCPHILVATPGRLWEFIQLGHFHLTELYKINYLVIDETDRMIESGHFPELKNILDRVTMT 367
+ ILVATPGRL +F Q G HL + +V+DE DRM++ G P+++ I + T
Sbjct: 212 RFCDILVATPGRLLDFNQRGEVHLDM---VEVMVLDEADRMLDMGFIPQVRQI---IRQT 265
Query: 368 ETSQPRQTMIESGHFPE 384
+ RQT++ S F +
Sbjct: 266 PRKEERQTLLFSATFTD 282
Score = 86.1 bits (213), Expect = 3e-17
Identities = 44/123 (35%), Positives = 69/123 (56%), Gaps = 1/123 (0%)
Query: 531 EKDSYLYYFILQHP-GRTLVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKNLDR 589
+K LY + Q+P R +VF N V+R+ + L + L + Q +R+K L+
Sbjct: 321 DKYKLLYNLVTQNPWERVMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRIKTLEG 380
Query: 590 FRDQNNSILLATDVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGRTARANNEGLTVVLIE 649
FR+ +L+ATDVA RG+ I GI HVI++ +P + Y+HR GRT RA G+++
Sbjct: 381 FREGKIRVLVATDVAGRGIHIDGISHVINFTLPEDPDDYVHRIGRTGRAGASGVSISFAG 440
Query: 650 SDE 652
D+
Sbjct: 441 EDD 443
Score = 59.9 bits (145), Expect = 6e-09
Identities = 30/60 (50%), Positives = 37/60 (61%), Gaps = 1/60 (1%)
Query: 1356 ALILAPTRELAIQVQNHILDAGKYTPVKVACVVGGMSTEKQLRILN-KCPHILVATPGAL 1414
ALI+APTREL +Q+ KYT + V VGGM +KQL+ L + ILVATPG L
Sbjct: 165 ALIIAPTRELVVQIAKDAAALTKYTGLNVMTFVGGMDFDKQLKQLEARFCDILVATPGRL 224
>gnl|CDD|240273 PTZ00110, PTZ00110, helicase; Provisional.
Length = 545
Score = 187 bits (477), Expect = 3e-50
Identities = 126/426 (29%), Positives = 200/426 (46%), Gaps = 81/426 (19%)
Query: 771 VKFN---IPETIIRALYQKGFKTPTKIQSMVMPSALLARKDIVGAAETGSGKTLAFGIPI 827
V F P+ I+++L GF PT IQ P AL R D++G AETGSGKTLAF +P
Sbjct: 130 VSFEYTSFPDYILKSLKNAGFTEPTPIQVQGWPIALSGR-DMIGIAETGSGKTLAFLLPA 188
Query: 828 LTGIVNKLENPTEEDENDSGLEEEAEEVLEELEEESANTTEFVKKTRNKLYALILAPTRE 887
+ I N ++ + L+LAPTRE
Sbjct: 189 IVHI---------------------------------NAQPLLRYGDGPI-VLVLAPTRE 214
Query: 888 LAIQVQNHILDAGKYTPVKVACVVGGMSTEKQLRILNKCPHILVATPGRLWEFIQLGHFH 947
LA Q++ G + ++ GG+ Q+ L + IL+A PGRL +F++
Sbjct: 215 LAEQIREQCNKFGASSKIRNTVAYGGVPKRGQIYALRRGVEILIACPGRLIDFLESN--- 271
Query: 948 LTELYKINYLVIDETDRMIESGHFPELKNILDRVTMTETSQP-RQTFVFSATLTHSLKNS 1006
+T L ++ YLV+DE DRM++ G P+++ I+ ++ +P RQT ++SAT
Sbjct: 272 VTNLRRVTYLVLDEADRMLDMGFEPQIRKIVSQI------RPDRQTLMWSATWP------ 319
Query: 1007 LNLKKGQSKSKKVSKGDP------SIKRLQDLLNIKSP-KIVDLTEKIGITKTLTESKIL 1059
K+ QS ++ + K +P S+ L NIK +V+ EK G K L +
Sbjct: 320 ---KEVQSLARDLCKEEPVHVNVGSLD-LTACHNIKQEVFVVEEHEKRGKLKMLLQR--- 372
Query: 1060 CKHDEKDSYLYYFILQHPGRTLVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKN 1119
I++ + L+F + LT+ L + L +H Q +R
Sbjct: 373 -------------IMRDGDKILIFVETKKGADFLTKELRLDGWPALCIHGDKKQEERTWV 419
Query: 1120 LDRFRDQNNSILLATDVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGRTARANNEGLTLV 1179
L+ F+ + I++ATDVA+RGLD+ +++VI++ P E Y+HR GRT RA +G +
Sbjct: 420 LNEFKTGKSPIMIATDVASRGLDVKDVKYVINFDFPNQIEDYVHRIGRTGRAGAKGASYT 479
Query: 1180 LIESDE 1185
+ D+
Sbjct: 480 FLTPDK 485
Score = 122 bits (307), Expect = 1e-28
Identities = 86/285 (30%), Positives = 134/285 (47%), Gaps = 57/285 (20%)
Query: 154 VKFN---IPETIIRALYQKGFKTPTKIQSMVMPSALLARKDIVGAAETGSGKTLAFGIPI 210
V F P+ I+++L GF PT IQ P AL R D++G AETGSGKTLAF +P
Sbjct: 130 VSFEYTSFPDYILKSLKNAGFTEPTPIQVQGWPIALSGR-DMIGIAETGSGKTLAFLLPA 188
Query: 211 LTGIVNKLENPTEEDENDSGLEEEAEEVLEELEEESANTTEFVKKTRNKLYALILAPTRE 270
+ I N ++ + L+LAPTRE
Sbjct: 189 IVHI---------------------------------NAQPLLRYGDGPI-VLVLAPTRE 214
Query: 271 LAIQVQNHILDAGKYTPVKVACVVGGMSTEKQLRILNKCPHILVATPGRLWEFIQLGHFH 330
LA Q++ G + ++ GG+ Q+ L + IL+A PGRL +F++
Sbjct: 215 LAEQIREQCNKFGASSKIRNTVAYGGVPKRGQIYALRRGVEILIACPGRLIDFLESN--- 271
Query: 331 LTELYKINYLVIDETDRMIESGHFPELKNILDRVTMTETSQP-RQTMIESGHFPELKNIL 389
+T L ++ YLV+DE DRM++ G P+++ I+ ++ +P RQT++ S +P+ L
Sbjct: 272 VTNLRRVTYLVLDEADRMLDMGFEPQIRKIVSQI------RPDRQTLMWSATWPKEVQSL 325
Query: 390 DRVTMTETSQPRQTFVFSATLT--HSLKNSLNL-----KKGQSKS 427
R E +P V S LT H++K + + K+G+ K
Sbjct: 326 ARDLCKE--EPVHVNVGSLDLTACHNIKQEVFVVEEHEKRGKLKM 368
Score = 85.2 bits (211), Expect = 8e-17
Identities = 52/171 (30%), Positives = 87/171 (50%), Gaps = 10/171 (5%)
Query: 485 LQHPGRTLCEEIQDLLNIKSPKIVDLTEKIGITKTLTESKILCKHDEKDSYLYYF---IL 541
+Q R LC+E +N+ S +DLT I + E ++ +H EK L I+
Sbjct: 322 VQSLARDLCKEEPVHVNVGS---LDLTACHNIKQ---EVFVVEEH-EKRGKLKMLLQRIM 374
Query: 542 QHPGRTLVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSILLAT 601
+ + L+F + LT+ L + L +H Q +R L+ F+ + I++AT
Sbjct: 375 RDGDKILIFVETKKGADFLTKELRLDGWPALCIHGDKKQEERTWVLNEFKTGKSPIMIAT 434
Query: 602 DVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGRTARANNEGLTVVLIESDE 652
DVA+RGLD+ +++VI++ P E Y+HR GRT RA +G + + D+
Sbjct: 435 DVASRGLDVKDVKYVINFDFPNQIEDYVHRIGRTGRAGAKGASYTFLTPDK 485
Score = 47.1 bits (112), Expect = 6e-05
Identities = 25/76 (32%), Positives = 38/76 (50%), Gaps = 10/76 (13%)
Query: 1357 LILAPTRELAIQVQNHILDAGKYTPVKVACVVGGMSTEKQLRILNKCPHILVATPGALSL 1416
L+LAPTRELA Q++ G + ++ GG+ Q+ L + IL+A PG L
Sbjct: 207 LVLAPTRELAEQIREQCNKFGASSKIRNTVAYGGVPKRGQIYALRRGVEILIACPGRL-- 264
Query: 1417 KRIDLAKSIEYLESKI 1432
I++LES +
Sbjct: 265 --------IDFLESNV 272
>gnl|CDD|236722 PRK10590, PRK10590, ATP-dependent RNA helicase RhlE; Provisional.
Length = 456
Score = 169 bits (429), Expect = 7e-45
Identities = 124/441 (28%), Positives = 205/441 (46%), Gaps = 78/441 (17%)
Query: 779 IIRALYQKGFKTPTKIQSMVMPSALLARKDIVGAAETGSGKTLAFGIPILTGIVNKLENP 838
I+RA+ ++G++ PT IQ +P A+L +D++ +A+TG+GKT F +P+L ++ + +
Sbjct: 12 ILRAVAEQGYREPTPIQQQAIP-AVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHA 70
Query: 839 TEEDENDSGLEEEAEEVLEELEEESANTTEFVKKTRNKLYALILAPTRELAIQVQNHILD 898
K R + ALIL PTRELA Q+ ++ D
Sbjct: 71 ---------------------------------KGRRPVRALILTPTRELAAQIGENVRD 97
Query: 899 AGKYTPVKVACVVGGMSTEKQLRILNKCPHILVATPGRLWEFIQLGHFHLTELYKINYLV 958
KY ++ V GG+S Q+ L +LVATPGRL + L H + +L ++ LV
Sbjct: 98 YSKYLNIRSLVVFGGVSINPQMMKLRGGVDVLVATPGRL---LDLEHQNAVKLDQVEILV 154
Query: 959 IDETDRMIESGHFPELKNILDRVTMTETSQPRQTFVFSATLTHSLKNSLNLKKGQSKSKK 1018
+DE DRM++ G +++ +L ++ RQ +FSAT +
Sbjct: 155 LDEADRMLDMGFIHDIRRVLAKL-----PAKRQNLLFSATFSD----------------- 192
Query: 1019 VSKGDPSIKRLQDLLNIKSPKIVDLTEKIGITKTLTESKILCKHDEKDSYLYYFILQHPG 1078
IK L + L + +P +++ + ++ +T+ K L I G
Sbjct: 193 ------DIKALAEKL-LHNPLEIEVARRNTASEQVTQHVHFVDKKRKRELLSQMI----G 241
Query: 1079 R-----TLVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSILLA 1133
+ LVF + L + L +H + +Q R + L F+ + +L+A
Sbjct: 242 KGNWQQVLVFTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKSGDIRVLVA 301
Query: 1134 TDVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGRTARANNEGLTLVLIESDEIPLYIKMF 1193
TD+AARGLDI + HV++Y +P E Y+HR GRT RA G L L+ DE L +
Sbjct: 302 TDIAARGLDIEELPHVVNYELPNVPEDYVHRIGRTGRAAATGEALSLVCVDEHKLLRDIE 361
Query: 1194 NSLEK---KVDLPDFPIDESV 1211
L+K ++ +P + D S+
Sbjct: 362 KLLKKEIPRIAIPGYEPDPSI 382
Score = 109 bits (275), Expect = 6e-25
Identities = 68/228 (29%), Positives = 116/228 (50%), Gaps = 43/228 (18%)
Query: 162 IIRALYQKGFKTPTKIQSMVMPSALLARKDIVGAAETGSGKTLAFGIPILTGIVNKLENP 221
I+RA+ ++G++ PT IQ +P A+L +D++ +A+TG+GKT F +P+L ++ + +
Sbjct: 12 ILRAVAEQGYREPTPIQQQAIP-AVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHA 70
Query: 222 TEEDENDSGLEEEAEEVLEELEEESANTTEFVKKTRNKLYALILAPTRELAIQVQNHILD 281
K R + ALIL PTRELA Q+ ++ D
Sbjct: 71 ---------------------------------KGRRPVRALILTPTRELAAQIGENVRD 97
Query: 282 AGKYTPVKVACVVGGMSTEKQLRILNKCPHILVATPGRLWEFIQLGHFHLTELYKINYLV 341
KY ++ V GG+S Q+ L +LVATPGRL + L H + +L ++ LV
Sbjct: 98 YSKYLNIRSLVVFGGVSINPQMMKLRGGVDVLVATPGRL---LDLEHQNAVKLDQVEILV 154
Query: 342 IDETDRMIESGHFPELKNILDRVTMTETSQPRQTMIESGHFP-ELKNI 388
+DE DRM++ G +++ +L ++ RQ ++ S F ++K +
Sbjct: 155 LDEADRMLDMGFIHDIRRVLAKL-----PAKRQNLLFSATFSDDIKAL 197
Score = 73.3 bits (180), Expect = 3e-13
Identities = 39/108 (36%), Positives = 57/108 (52%)
Query: 548 LVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSILLATDVAARG 607
LVF + L + L +H + +Q R + L F+ + +L+ATD+AARG
Sbjct: 249 LVFTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKSGDIRVLVATDIAARG 308
Query: 608 LDIPGIEHVIHYHVPRTSEIYIHRSGRTARANNEGLTVVLIESDEIPL 655
LDI + HV++Y +P E Y+HR GRT RA G + L+ DE L
Sbjct: 309 LDIEELPHVVNYELPNVPEDYVHRIGRTGRAAATGEALSLVCVDEHKL 356
Score = 54.8 bits (132), Expect = 2e-07
Identities = 27/59 (45%), Positives = 35/59 (59%)
Query: 1356 ALILAPTRELAIQVQNHILDAGKYTPVKVACVVGGMSTEKQLRILNKCPHILVATPGAL 1414
ALIL PTRELA Q+ ++ D KY ++ V GG+S Q+ L +LVATPG L
Sbjct: 78 ALILTPTRELAAQIGENVRDYSKYLNIRSLVVFGGVSINPQMMKLRGGVDVLVATPGRL 136
Score = 31.3 bits (71), Expect = 4.4
Identities = 20/59 (33%), Positives = 32/59 (54%), Gaps = 3/59 (5%)
Query: 1235 NRPDNWLHRSGRTARANNEGLTLVLIESDEIPLYIKMFNSLEK---KVDLPDFPIDESV 1290
N P++++HR GRT RA G L L+ DE L + L+K ++ +P + D S+
Sbjct: 324 NVPEDYVHRIGRTGRAAATGEALSLVCVDEHKLLRDIEKLLKKEIPRIAIPGYEPDPSI 382
>gnl|CDD|235307 PRK04537, PRK04537, ATP-dependent RNA helicase RhlB; Provisional.
Length = 572
Score = 170 bits (433), Expect = 2e-44
Identities = 127/406 (31%), Positives = 197/406 (48%), Gaps = 67/406 (16%)
Query: 773 FNIPETIIRALYQKGFKTPTKIQSMVMPSALLARKDIVGAAETGSGKTLAFGIPILTGIV 832
F++ ++ L GF T IQ++ +P AL D+ G A+TG+GKTLAF L ++
Sbjct: 14 FDLHPALLAGLESAGFTRCTPIQALTLPVALPGG-DVAGQAQTGTGKTLAF----LVAVM 68
Query: 833 NKLEN-PTEEDENDSGLEEEAEEVLEELEEESANTTEFVKKTRNKLYALILAPTRELAIQ 891
N+L + P D E+ ALILAPTRELAIQ
Sbjct: 69 NRLLSRPALADRK----PEDPR-------------------------ALILAPTRELAIQ 99
Query: 892 VQNHILDAGKYTPVKVACVVGGMSTEKQLRILNKCPHILVATPGRLWEFIQLGHFHLTEL 951
+ + G ++ A V GG+ +KQ +L + +++ATPGRL ++++ + L
Sbjct: 100 IHKDAVKFGADLGLRFALVYGGVDYDKQRELLQQGVDVIIATPGRLIDYVK--QHKVVSL 157
Query: 952 YKINYLVIDETDRMIESGHFPELKNILDRVTMTETSQPRQTFVFSATLTHSLKNSLNLKK 1011
+ V+DE DRM + G +++ +L R+ T RQT +FSATL+H +
Sbjct: 158 HACEICVLDEADRMFDLGFIKDIRFLLRRMPERGT---RQTLLFSATLSHRV-------- 206
Query: 1012 GQSKSKKVSKGDPSIKRLQDLLNIKSPKIVDLTEKIGITKTLTESKILCKHDEKDSYLYY 1071
++ + +N + K+V TE IT +I DE+ L
Sbjct: 207 --------------LELAYEHMN-EPEKLVVETET--ITAARVRQRIYFPADEEKQTLLL 249
Query: 1072 FILQHP--GRTLVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNS 1129
+L RT+VF N+ + V+R+ + L L + Q++R L+RF+
Sbjct: 250 GLLSRSEGARTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLLNRFQKGQLE 309
Query: 1130 ILLATDVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGRTARANNEG 1175
IL+ATDVAARGL I G+++V +Y +P +E Y+HR GRTAR EG
Sbjct: 310 ILVATDVAARGLHIDGVKYVYNYDLPFDAEDYVHRIGRTARLGEEG 355
Score = 105 bits (263), Expect = 4e-23
Identities = 77/258 (29%), Positives = 118/258 (45%), Gaps = 68/258 (26%)
Query: 156 FNIPETIIRALYQKGFKTPTKIQSMVMPSALLARKDIVGAAETGSGKTLAFGIPILTGIV 215
F++ ++ L GF T IQ++ +P AL D+ G A+TG+GKTLAF L ++
Sbjct: 14 FDLHPALLAGLESAGFTRCTPIQALTLPVALPGG-DVAGQAQTGTGKTLAF----LVAVM 68
Query: 216 NKLEN-PTEEDENDSGLEEEAEEVLEELEEESANTTEFVKKTRNKLYALILAPTRELAIQ 274
N+L + P D E+ ALILAPTRELAIQ
Sbjct: 69 NRLLSRPALADRK----PEDPR-------------------------ALILAPTRELAIQ 99
Query: 275 VQNHILDAGKYTPVKVACVVGGMSTEKQLRILNKCPHILVATPGRLWEFIQLGHFHLTEL 334
+ + G ++ A V GG+ +KQ +L + +++ATPGRL ++++ + L
Sbjct: 100 IHKDAVKFGADLGLRFALVYGGVDYDKQRELLQQGVDVIIATPGRLIDYVK--QHKVVSL 157
Query: 335 YKINYLVIDETDRMIESGHFPELKNILDRVTMTETSQPRQTMIESGHFPELKNILDRVTM 394
+ V+DE DRM + G +++ +L R+ PE R T
Sbjct: 158 HACEICVLDEADRMFDLGFIKDIRFLLRRM------------------PE------RGT- 192
Query: 395 TETSQPRQTFVFSATLTH 412
RQT +FSATL+H
Sbjct: 193 ------RQTLLFSATLSH 204
Score = 78.1 bits (192), Expect = 1e-14
Identities = 45/114 (39%), Positives = 68/114 (59%), Gaps = 1/114 (0%)
Query: 530 DEKDSYLYYFILQHPG-RTLVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKNLD 588
+EK + L + + G RT+VF N+ + V+R+ + L L + Q++R L+
Sbjct: 242 EEKQTLLLGLLSRSEGARTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLLN 301
Query: 589 RFRDQNNSILLATDVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGRTARANNEG 642
RF+ IL+ATDVAARGL I G+++V +Y +P +E Y+HR GRTAR EG
Sbjct: 302 RFQKGQLEILVATDVAARGLHIDGVKYVYNYDLPFDAEDYVHRIGRTARLGEEG 355
Score = 55.7 bits (134), Expect = 2e-07
Identities = 29/68 (42%), Positives = 40/68 (58%), Gaps = 4/68 (5%)
Query: 1356 ALILAPTRELAIQVQNHILDAGKYTPVKVACVVGGMSTEKQLRILNKCPHILVATPGALS 1415
ALILAPTRELAIQ+ + G ++ A V GG+ +KQ +L + +++ATPG L
Sbjct: 87 ALILAPTRELAIQIHKDAVKFGADLGLRFALVYGGVDYDKQRELLQQGVDVIIATPGRL- 145
Query: 1416 LKRIDLAK 1423
ID K
Sbjct: 146 ---IDYVK 150
>gnl|CDD|236941 PRK11634, PRK11634, ATP-dependent RNA helicase DeaD; Provisional.
Length = 629
Score = 168 bits (426), Expect = 3e-43
Identities = 119/408 (29%), Positives = 198/408 (48%), Gaps = 72/408 (17%)
Query: 779 IIRALYQKGFKTPTKIQSMVMPSALLARKDIVGAAETGSGKTLAFGIPILTGIVNKLENP 838
I+ AL G++ P+ IQ+ +P LL +D++G A+TGSGKT AF +P+L + +L+ P
Sbjct: 17 ILEALNDLGYEKPSPIQAECIPH-LLNGRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAP 75
Query: 839 TEEDENDSGLEEEAEEVLEELEEESANTTEFVKKTRNKLYALILAPTRELAIQVQNHILD 898
L+LAPTRELA+QV + D
Sbjct: 76 Q---------------------------------------ILVLAPTRELAVQVAEAMTD 96
Query: 899 AGKYTP-VKVACVVGGMSTEKQLRILNKCPHILVATPGRLWEFIQLGHFHLTELYKINYL 957
K+ V V + GG + QLR L + P I+V TPGRL + ++ G L++L + L
Sbjct: 97 FSKHMRGVNVVALYGGQRYDVQLRALRQGPQIVVGTPGRLLDHLKRGTLDLSKL---SGL 153
Query: 958 VIDETDRMIESGHFPELKNILDRVTMTETSQPRQTFVFSATLTHSLKNSLNLKKGQSKSK 1017
V+DE D M+ G +++ I M + + QT +FSAT+ +++ ++
Sbjct: 154 VLDEADEMLRMGFIEDVETI-----MAQIPEGHQTALFSATMPEAIRRI---------TR 199
Query: 1018 KVSKGDPSIKRLQDLLNIKSPKIVDLTEKIGITKTLTESKILCKHDEKDSYLYYFILQHP 1077
+ K +P R+Q + + D+++ + +++ L + E + +
Sbjct: 200 RFMK-EPQEVRIQSSVTTRP----DISQSYWTVWGMRKNEALVRFLEAEDF--------- 245
Query: 1078 GRTLVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSILLATDVA 1137
++F + ++ + + L + L+ MNQ R + L+R +D IL+ATDVA
Sbjct: 246 DAAIIFVRTKNATLEVAEALERNGYNSAALNGDMNQALREQTLERLKDGRLDILIATDVA 305
Query: 1138 ARGLDIPGIEHVIHYHVPRTSEIYIHRSGRTARANNEGLTLVLIESDE 1185
ARGLD+ I V++Y +P SE Y+HR GRT RA G L+ +E+ E
Sbjct: 306 ARGLDVERISLVVNYDIPMDSESYVHRIGRTGRAGRAGRALLFVENRE 353
Score = 109 bits (273), Expect = 4e-24
Identities = 75/241 (31%), Positives = 114/241 (47%), Gaps = 49/241 (20%)
Query: 162 IIRALYQKGFKTPTKIQSMVMPSALLARKDIVGAAETGSGKTLAFGIPILTGIVNKLENP 221
I+ AL G++ P+ IQ+ +P LL +D++G A+TGSGKT AF +P+L + +L+ P
Sbjct: 17 ILEALNDLGYEKPSPIQAECIPH-LLNGRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAP 75
Query: 222 TEEDENDSGLEEEAEEVLEELEEESANTTEFVKKTRNKLYALILAPTRELAIQVQNHILD 281
L+LAPTRELA+QV + D
Sbjct: 76 Q---------------------------------------ILVLAPTRELAVQVAEAMTD 96
Query: 282 AGKYTP-VKVACVVGGMSTEKQLRILNKCPHILVATPGRLWEFIQLGHFHLTELYKINYL 340
K+ V V + GG + QLR L + P I+V TPGRL + ++ G L++L + L
Sbjct: 97 FSKHMRGVNVVALYGGQRYDVQLRALRQGPQIVVGTPGRLLDHLKRGTLDLSKL---SGL 153
Query: 341 VIDETDRMIESGHFPELKNILDRVTMTETSQPRQTMIESGHFPELKNILDRVTMTETSQP 400
V+DE D M+ G +++ I M + + QT + S PE + R M E +
Sbjct: 154 VLDEADEMLRMGFIEDVETI-----MAQIPEGHQTALFSATMPEAIRRITRRFMKEPQEV 208
Query: 401 R 401
R
Sbjct: 209 R 209
Score = 80.3 bits (198), Expect = 4e-15
Identities = 37/79 (46%), Positives = 51/79 (64%)
Query: 574 LHASMNQRQRLKNLDRFRDQNNSILLATDVAARGLDIPGIEHVIHYHVPRTSEIYIHRSG 633
L+ MNQ R + L+R +D IL+ATDVAARGLD+ I V++Y +P SE Y+HR G
Sbjct: 275 LNGDMNQALREQTLERLKDGRLDILIATDVAARGLDVERISLVVNYDIPMDSESYVHRIG 334
Query: 634 RTARANNEGLTVVLIESDE 652
RT RA G ++ +E+ E
Sbjct: 335 RTGRAGRAGRALLFVENRE 353
Score = 56.4 bits (136), Expect = 1e-07
Identities = 34/72 (47%), Positives = 44/72 (61%), Gaps = 5/72 (6%)
Query: 1357 LILAPTRELAIQVQNHILDAGKYTP-VKVACVVGGMSTEKQLRILNKCPHILVATPGAL- 1414
L+LAPTRELA+QV + D K+ V V + GG + QLR L + P I+V TPG L
Sbjct: 78 LVLAPTRELAVQVAEAMTDFSKHMRGVNVVALYGGQRYDVQLRALRQGPQIVVGTPGRLL 137
Query: 1415 -SLKR--IDLAK 1423
LKR +DL+K
Sbjct: 138 DHLKRGTLDLSK 149
>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 = 145 bits (368), Expect = 7e-40
Identities = 70/215 (32%), Positives = 103/215 (47%), Gaps = 48/215 (22%)
Query: 792 TKIQSMVMPSALLARKDIVGAAETGSGKTLAFGIPILTGIVNKLENPTEEDENDSGLEEE 851
T IQ+ +P A+L+ KD++ A TGSGKTLAF +PIL
Sbjct: 1 TPIQAQAIP-AILSGKDVLVQAPTGSGKTLAFLLPIL----------------------- 36
Query: 852 AEEVLEELEEESANTTEFVKKTRNKLYALILAPTRELAIQVQNHILDAGKYTPVKVACVV 911
+ + + AL+LAPTRELA Q+ + K ++VA +
Sbjct: 37 ----------------QALLPKKGGPQALVLAPTRELAEQIYEELKKLFKILGLRVALLT 80
Query: 912 GGMSTEKQLRILNK-CPHILVATPGRLWEFIQLGHFHLTELYKINYLVIDETDRMIESGH 970
GG S ++Q R L K ILV TPGRL + ++ G L L + LV+DE R+++ G
Sbjct: 81 GGTSLKEQARKLKKGKADILVGTPGRLLDLLRRGKLKL--LKNLKLLVLDEAHRLLDMGF 138
Query: 971 FPELKNILDRVTMTETSQPRQTFVFSATLTHSLKN 1005
+L+ IL R+ RQ + SATL +L++
Sbjct: 139 GDDLEEILSRL-----PPDRQILLLSATLPRNLED 168
Score = 134 bits (340), Expect = 4e-36
Identities = 70/243 (28%), Positives = 103/243 (42%), Gaps = 76/243 (31%)
Query: 175 TKIQSMVMPSALLARKDIVGAAETGSGKTLAFGIPILTGIVNKLENPTEEDENDSGLEEE 234
T IQ+ +P A+L+ KD++ A TGSGKTLAF +PIL
Sbjct: 1 TPIQAQAIP-AILSGKDVLVQAPTGSGKTLAFLLPIL----------------------- 36
Query: 235 AEEVLEELEEESANTTEFVKKTRNKLYALILAPTRELAIQVQNHILDAGKYTPVKVACVV 294
+ + + AL+LAPTRELA Q+ + K ++VA +
Sbjct: 37 ----------------QALLPKKGGPQALVLAPTRELAEQIYEELKKLFKILGLRVALLT 80
Query: 295 GGMSTEKQLRILNK-CPHILVATPGRLWEFIQLGHFHLTELYKINYLVIDETDRMIESGH 353
GG S ++Q R L K ILV TPGRL + ++ G L L + LV+DE R+++ G
Sbjct: 81 GGTSLKEQARKLKKGKADILVGTPGRLLDLLRRGKLKL--LKNLKLLVLDEAHRLLDMGF 138
Query: 354 FPELKNILDRVTMTETSQPRQTMIESGHFPELKNILDRVTMTETSQPRQTFVFSATLTHS 413
+L+ IL R+ RQ + SATL +
Sbjct: 139 GDDLEEILSRL---------------------------------PPDRQILLLSATLPRN 165
Query: 414 LKN 416
L++
Sbjct: 166 LED 168
Score = 71.9 bits (177), Expect = 3e-14
Identities = 31/78 (39%), Positives = 44/78 (56%), Gaps = 5/78 (6%)
Query: 1356 ALILAPTRELAIQVQNHILDAGKYTPVKVACVVGGMSTEKQLRILNK-CPHILVATPGAL 1414
AL+LAPTRELA Q+ + K ++VA + GG S ++Q R L K ILV TPG L
Sbjct: 48 ALVLAPTRELAEQIYEELKKLFKILGLRVALLTGGTSLKEQARKLKKGKADILVGTPGRL 107
Query: 1415 ----SLKRIDLAKSIEYL 1428
++ L K+++ L
Sbjct: 108 LDLLRRGKLKLLKNLKLL 125
>gnl|CDD|185609 PTZ00424, PTZ00424, helicase 45; Provisional.
Length = 401
Score = 137 bits (347), Expect = 1e-34
Identities = 117/450 (26%), Positives = 196/450 (43%), Gaps = 78/450 (17%)
Query: 738 KKKKKQTYTSANKELLEVDTSNNEDMFVQMAEWVKFNIPETIIRALYQKGFKTPTKIQSM 797
++K Q+ A+ +E +N D V + +K N E ++R +Y GF+ P+ IQ
Sbjct: 4 SEQKNQSEQVASTGTIE----SNYDEIVDSFDALKLN--EDLLRGIYSYGFEKPSAIQQR 57
Query: 798 -VMPSALLARKDIVGAAETGSGKTLAFGIPILTGIVNKLENPTEEDENDSGLEEEAEEVL 856
+ P +L D +G A++G+GKT F I L I L
Sbjct: 58 GIKP--ILDGYDTIGQAQSGTGKTATFVIAALQLIDYDL--------------------- 94
Query: 857 EELEEESANTTEFVKKTRNKLYALILAPTRELAIQVQNHILDAGKYTPVKVACVVGGMST 916
N ALILAPTRELA Q+Q +L G Y V+ VGG
Sbjct: 95 ------------------NACQALILAPTRELAQQIQKVVLALGDYLKVRCHACVGGTVV 136
Query: 917 EKQLRILNKCPHILVATPGRLWEFIQLGHFHLTELYKINYLVIDETDRMIESGHFPELKN 976
+ L H++V TPGR+++ I H + + ++DE D M+ G ++ +
Sbjct: 137 RDDINKLKAGVHMVVGTPGRVYDMIDKRHLRVD---DLKLFILDEADEMLSRGFKGQIYD 193
Query: 977 ILDRVTMTETSQPRQTFVFSATLTHSLKNSLNLKKGQSKSKKVSKGDPSIKRLQDLLNIK 1036
+ ++ Q +FSAT+ + + L L + K + I +D L ++
Sbjct: 194 VFKKLP-----PDVQVALFSATMPNEI---LEL------TTKFMRDPKRILVKKDELTLE 239
Query: 1037 SPKIVDLTEKIGITKTLTESKILCKHDEKDSYLYYFILQHPGRTLVFCNSISSVKRLTQL 1096
+ + + K + LC D Y I Q +++CN+ V LT+
Sbjct: 240 GIRQF----YVAVEKEEWKFDTLC-----DLYETLTITQ----AIIYCNTRRKVDYLTKK 286
Query: 1097 LTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSILLATDVAARGLDIPGIEHVIHYHVPR 1156
+ + +H M+Q+ R + FR + +L+ TD+ ARG+D+ + VI+Y +P
Sbjct: 287 MHERDFTVSCMHGDMDQKDRDLIMREFRSGSTRVLITTDLLARGIDVQQVSLVINYDLPA 346
Query: 1157 TSEIYIHRSGRTARANNEGLTLVLIESDEI 1186
+ E YIHR GR+ R +G+ + + D+I
Sbjct: 347 SPENYIHRIGRSGRFGRKGVAINFVTPDDI 376
Score = 86.0 bits (213), Expect = 2e-17
Identities = 66/233 (28%), Positives = 99/233 (42%), Gaps = 51/233 (21%)
Query: 121 KKKKKQTYTSANKELLEVDTSNNEDMFVQMAEWVKFNIPETIIRALYQKGFKTPTKIQSM 180
++K Q+ A+ +E +N D V + +K N E ++R +Y GF+ P+ IQ
Sbjct: 4 SEQKNQSEQVASTGTIE----SNYDEIVDSFDALKLN--EDLLRGIYSYGFEKPSAIQQR 57
Query: 181 -VMPSALLARKDIVGAAETGSGKTLAFGIPILTGIVNKLENPTEEDENDSGLEEEAEEVL 239
+ P +L D +G A++G+GKT F I L I L
Sbjct: 58 GIKP--ILDGYDTIGQAQSGTGKTATFVIAALQLIDYDL--------------------- 94
Query: 240 EELEEESANTTEFVKKTRNKLYALILAPTRELAIQVQNHILDAGKYTPVKVACVVGGMST 299
N ALILAPTRELA Q+Q +L G Y V+ VGG
Sbjct: 95 ------------------NACQALILAPTRELAQQIQKVVLALGDYLKVRCHACVGGTVV 136
Query: 300 EKQLRILNKCPHILVATPGRLWEFIQLGHFHLTELYKINYLVIDETDRMIESG 352
+ L H++V TPGR+++ I H + + ++DE D M+ G
Sbjct: 137 RDDINKLKAGVHMVVGTPGRVYDMIDKRHLRVD---DLKLFILDEADEMLSRG 186
Score = 72.2 bits (177), Expect = 7e-13
Identities = 37/124 (29%), Positives = 68/124 (54%), Gaps = 4/124 (3%)
Query: 546 RTLVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSILLATDVAA 605
+ +++CN+ V LT+ + + +H M+Q+ R + FR + +L+ TD+ A
Sbjct: 269 QAIIYCNTRRKVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRSGSTRVLITTDLLA 328
Query: 606 RGLDIPGIEHVIHYHVPRTSEIYIHRSGRTARANNEGLTVVLIESDEIP----LKTKFNL 661
RG+D+ + VI+Y +P + E YIHR GR+ R +G+ + + D+I ++ +N
Sbjct: 329 RGIDVQQVSLVINYDLPASPENYIHRIGRSGRFGRKGVAINFVTPDDIEQLKEIERHYNT 388
Query: 662 QEEE 665
Q EE
Sbjct: 389 QIEE 392
Score = 50.2 bits (120), Expect = 5e-06
Identities = 26/57 (45%), Positives = 32/57 (56%)
Query: 1356 ALILAPTRELAIQVQNHILDAGKYTPVKVACVVGGMSTEKQLRILNKCPHILVATPG 1412
ALILAPTRELA Q+Q +L G Y V+ VGG + L H++V TPG
Sbjct: 99 ALILAPTRELAQQIQKVVLALGDYLKVRCHACVGGTVVRDDINKLKAGVHMVVGTPG 155
>gnl|CDD|214692 smart00487, DEXDc, DEAD-like helicases superfamily.
Length = 201
Score = 129 bits (326), Expect = 6e-34
Identities = 58/228 (25%), Positives = 93/228 (40%), Gaps = 49/228 (21%)
Query: 783 LYQKGFKTPTKIQSMVMPSALLARKDIVGAAETGSGKTLAFGIPILTGIVNKLENPTEED 842
+ + GF+ Q + + L +D++ AA TGSGKTLA +P L
Sbjct: 1 IEKFGFEPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALE------------- 47
Query: 843 ENDSGLEEEAEEVLEELEEESANTTEFVKKTRNKLYALILAPTRELAIQVQNHILDAGKY 902
K L+L PTRELA Q + G
Sbjct: 48 ---------------------------ALKRGKGGRVLVLVPTRELAEQWAEELKKLGPS 80
Query: 903 TPVKVACVVGGMSTEKQLR-ILNKCPHILVATPGRLWEFIQLGHFHLTELYKINYLVIDE 961
+KV + GG S +QLR + + ILV TPGRL + ++ L ++ +++DE
Sbjct: 81 LGLKVVGLYGGDSKREQLRKLESGKTDILVTTPGRLLDLLENDKL---SLSNVDLVILDE 137
Query: 962 TDRMIESGHFPELKNILDRVTMTETSQPRQTFVFSATLTHSLKNSLNL 1009
R+++ G +L+ +L + + Q + SAT ++N L L
Sbjct: 138 AHRLLDGGFGDQLEKLLKLL-----PKNVQLLLLSATPPEEIENLLEL 180
Score = 119 bits (299), Expect = 3e-30
Identities = 51/200 (25%), Positives = 82/200 (41%), Gaps = 44/200 (22%)
Query: 166 LYQKGFKTPTKIQSMVMPSALLARKDIVGAAETGSGKTLAFGIPILTGIVNKLENPTEED 225
+ + GF+ Q + + L +D++ AA TGSGKTLA +P L
Sbjct: 1 IEKFGFEPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALE------------- 47
Query: 226 ENDSGLEEEAEEVLEELEEESANTTEFVKKTRNKLYALILAPTRELAIQVQNHILDAGKY 285
K L+L PTRELA Q + G
Sbjct: 48 ---------------------------ALKRGKGGRVLVLVPTRELAEQWAEELKKLGPS 80
Query: 286 TPVKVACVVGGMSTEKQLR-ILNKCPHILVATPGRLWEFIQLGHFHLTELYKINYLVIDE 344
+KV + GG S +QLR + + ILV TPGRL + ++ L ++ +++DE
Sbjct: 81 LGLKVVGLYGGDSKREQLRKLESGKTDILVTTPGRLLDLLENDKL---SLSNVDLVILDE 137
Query: 345 TDRMIESGHFPELKNILDRV 364
R+++ G +L+ +L +
Sbjct: 138 AHRLLDGGFGDQLEKLLKLL 157
Score = 64.1 bits (156), Expect = 3e-11
Identities = 27/75 (36%), Positives = 35/75 (46%), Gaps = 1/75 (1%)
Query: 1341 QLLIFESRNLRYSWDALILAPTRELAIQVQNHILDAGKYTPVKVACVVGGMSTEKQLR-I 1399
L E+ L+L PTRELA Q + G +KV + GG S +QLR +
Sbjct: 42 LLPALEALKRGKGGRVLVLVPTRELAEQWAEELKKLGPSLGLKVVGLYGGDSKREQLRKL 101
Query: 1400 LNKCPHILVATPGAL 1414
+ ILV TPG L
Sbjct: 102 ESGKTDILVTTPGRL 116
>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 = 125 bits (317), Expect = 1e-33
Identities = 42/121 (34%), Positives = 64/121 (52%), Gaps = 3/121 (2%)
Query: 530 DEKDSYLYYFILQH---PGRTLVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKN 586
DEK L + +H G+ L+FC S + L +LL LH +Q +R +
Sbjct: 11 DEKLEALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRKPGIKVAALHGDGSQEEREEV 70
Query: 587 LDRFRDQNNSILLATDVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGRTARANNEGLTVV 646
L FR+ +L+ATDV ARG+D+P + VI+Y +P + Y+ R GR RA +G ++
Sbjct: 71 LKDFREGEIVVLVATDVIARGIDLPNVSVVINYDLPWSPSSYLQRIGRAGRAGQKGTAIL 130
Query: 647 L 647
L
Sbjct: 131 L 131
Score = 125 bits (316), Expect = 2e-33
Identities = 42/121 (34%), Positives = 64/121 (52%), Gaps = 3/121 (2%)
Query: 1063 DEKDSYLYYFILQH---PGRTLVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKN 1119
DEK L + +H G+ L+FC S + L +LL LH +Q +R +
Sbjct: 11 DEKLEALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRKPGIKVAALHGDGSQEEREEV 70
Query: 1120 LDRFRDQNNSILLATDVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGRTARANNEGLTLV 1179
L FR+ +L+ATDV ARG+D+P + VI+Y +P + Y+ R GR RA +G ++
Sbjct: 71 LKDFREGEIVVLVATDVIARGIDLPNVSVVINYDLPWSPSSYLQRIGRAGRAGQKGTAIL 130
Query: 1180 L 1180
L
Sbjct: 131 L 131
Score = 28.7 bits (65), Expect = 9.3
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 1237 PDNWLHRSGRTARANNEGLTLVL 1259
P ++L R GR RA +G ++L
Sbjct: 109 PSSYLQRIGRAGRAGQKGTAILL 131
>gnl|CDD|215103 PLN00206, PLN00206, DEAD-box ATP-dependent RNA helicase; Provisional.
Length = 518
Score = 136 bits (344), Expect = 2e-33
Identities = 117/428 (27%), Positives = 198/428 (46%), Gaps = 86/428 (20%)
Query: 774 NIPETIIRALYQKGFKTPTKIQSMVMPSALLARKDIVGAAETGSGKTLAFGIPILTGIVN 833
+P ++ L G++ PT IQ +P+AL + + ++ +A+TGSGKT +F +PI++
Sbjct: 127 GLPPKLLLNLETAGYEFPTPIQMQAIPAAL-SGRSLLVSADTGSGKTASFLVPIISRCCT 185
Query: 834 -KLENPTEEDENDSGLEEEAEEVLEELEEESANTTEFVKKTRNKLYALILAPTRELAIQV 892
+ +P+E+ RN L A++L PTREL +QV
Sbjct: 186 IRSGHPSEQ--------------------------------RNPL-AMVLTPTRELCVQV 212
Query: 893 QNHILDAGKYTPVKVACVVGGMSTEKQLRILNKCPHILVATPGRLWEFIQLGHFHLTELY 952
++ GK P K A VVGG + +QL + + ++V TPGRL I L H EL
Sbjct: 213 EDQAKVLGKGLPFKTALVVGGDAMPQQLYRIQQGVELIVGTPGRL---IDLLSKHDIELD 269
Query: 953 KINYLVIDETDRMIESGHFPELKNILDRVTMTETSQPRQTFVFSATLTHSLKNSLNLKKG 1012
++ LV+DE D M+E G ++ I + SQP Q +FSAT++ ++ K
Sbjct: 270 NVSVLVLDEVDCMLERGFRDQVMQIFQAL-----SQP-QVLLFSATVSPEVE-----KFA 318
Query: 1013 QSKSKK---VSKGDPSIKRLQDLLNIKSPKIVDLTEKIGITKTLTESKILCKHDEKDSYL 1069
S +K +S G+P+ P K + + I + +K L
Sbjct: 319 SSLAKDIILISIGNPN-----------RP-----------NKAVKQLAIWVETKQKKQKL 356
Query: 1070 YYFIL--QH---PGRTLVFCNSISSVKRLTQLLTM---LKCSPLPLHASMNQRQRLKNLD 1121
+ + QH P +VF +S L +T+ LK L +H + ++R + +
Sbjct: 357 FDILKSKQHFKPPA--VVFVSSRLGADLLANAITVVTGLKA--LSIHGEKSMKERREVMK 412
Query: 1122 RFRDQNNSILLATDVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGRTARANNEGLTLVLI 1181
F +++AT V RG+D+ + VI + +P T + YIH+ GR +R +G +V +
Sbjct: 413 SFLVGEVPVIVATGVLGRGVDLLRVRQVIIFDMPNTIKEYIHQIGRASRMGEKGTAIVFV 472
Query: 1182 ESDEIPLY 1189
++ L+
Sbjct: 473 NEEDRNLF 480
Score = 101 bits (252), Expect = 8e-22
Identities = 64/197 (32%), Positives = 100/197 (50%), Gaps = 38/197 (19%)
Query: 157 NIPETIIRALYQKGFKTPTKIQSMVMPSALLARKDIVGAAETGSGKTLAFGIPILTGIVN 216
+P ++ L G++ PT IQ +P+AL + + ++ +A+TGSGKT +F +PI++
Sbjct: 127 GLPPKLLLNLETAGYEFPTPIQMQAIPAAL-SGRSLLVSADTGSGKTASFLVPIISRCCT 185
Query: 217 -KLENPTEEDENDSGLEEEAEEVLEELEEESANTTEFVKKTRNKLYALILAPTRELAIQV 275
+ +P+E+ RN L A++L PTREL +QV
Sbjct: 186 IRSGHPSEQ--------------------------------RNPL-AMVLTPTRELCVQV 212
Query: 276 QNHILDAGKYTPVKVACVVGGMSTEKQLRILNKCPHILVATPGRLWEFIQLGHFHLTELY 335
++ GK P K A VVGG + +QL + + ++V TPGRL I L H EL
Sbjct: 213 EDQAKVLGKGLPFKTALVVGGDAMPQQLYRIQQGVELIVGTPGRL---IDLLSKHDIELD 269
Query: 336 KINYLVIDETDRMIESG 352
++ LV+DE D M+E G
Sbjct: 270 NVSVLVLDEVDCMLERG 286
Score = 53.6 bits (129), Expect = 6e-07
Identities = 29/107 (27%), Positives = 54/107 (50%), Gaps = 5/107 (4%)
Query: 548 LVFCNSISSVKRLTQLLTM---LKCSPLPLHASMNQRQRLKNLDRFRDQNNSILLATDVA 604
+VF +S L +T+ LK L +H + ++R + + F +++AT V
Sbjct: 371 VVFVSSRLGADLLANAITVVTGLKA--LSIHGEKSMKERREVMKSFLVGEVPVIVATGVL 428
Query: 605 ARGLDIPGIEHVIHYHVPRTSEIYIHRSGRTARANNEGLTVVLIESD 651
RG+D+ + VI + +P T + YIH+ GR +R +G +V + +
Sbjct: 429 GRGVDLLRVRQVIIFDMPNTIKEYIHQIGRASRMGEKGTAIVFVNEE 475
Score = 52.5 bits (126), Expect = 1e-06
Identities = 28/66 (42%), Positives = 39/66 (59%), Gaps = 4/66 (6%)
Query: 1356 ALILAPTRELAIQVQNHILDAGKYTPVKVACVVGGMSTEKQLRILNKCPHILVATPGALS 1415
A++L PTREL +QV++ GK P K A VVGG + +QL + + ++V TPG L
Sbjct: 199 AMVLTPTRELCVQVEDQAKVLGKGLPFKTALVVGGDAMPQQLYRIQQGVELIVGTPGRL- 257
Query: 1416 LKRIDL 1421
IDL
Sbjct: 258 ---IDL 260
>gnl|CDD|235314 PRK04837, PRK04837, ATP-dependent RNA helicase RhlB; Provisional.
Length = 423
Score = 123 bits (312), Expect = 7e-30
Identities = 73/229 (31%), Positives = 113/229 (49%), Gaps = 39/229 (17%)
Query: 773 FNIPETIIRALYQKGFKTPTKIQSMVMPSALLARKDIVGAAETGSGKTLAFGIPILTGIV 832
F + ++ AL +KGF T IQ++ +P LA +D+ G A+TG+GKT+AF LT
Sbjct: 13 FALHPQVVEALEKKGFHNCTPIQALALP-LTLAGRDVAGQAQTGTGKTMAF----LTATF 67
Query: 833 NKLENPTEEDENDSGLEEEAEEVLEELEEESANTTEFVKKTRNKLYALILAPTRELAIQV 892
+ L L A E + N+ ALI+APTRELA+Q+
Sbjct: 68 HYL------------LSHPAPE----------------DRKVNQPRALIMAPTRELAVQI 99
Query: 893 QNHILDAGKYTPVKVACVVGGMSTEKQLRILNKCPHILVATPGRLWEFIQLGHFHLTELY 952
+ T +K+ GG +KQL++L IL+ T GRL ++ + H +L
Sbjct: 100 HADAEPLAQATGLKLGLAYGGDGYDKQLKVLESGVDILIGTTGRLIDYAKQNHINLGA-- 157
Query: 953 KINYLVIDETDRMIESGHFPELKNILDRVTMTETSQPRQTFVFSATLTH 1001
I +V+DE DRM + G +++ + R M +Q R +FSATL++
Sbjct: 158 -IQVVVLDEADRMFDLGFIKDIRWLFRR--MPPANQ-RLNMLFSATLSY 202
Score = 115 bits (290), Expect = 5e-27
Identities = 70/224 (31%), Positives = 108/224 (48%), Gaps = 39/224 (17%)
Query: 156 FNIPETIIRALYQKGFKTPTKIQSMVMPSALLARKDIVGAAETGSGKTLAFGIPILTGIV 215
F + ++ AL +KGF T IQ++ +P LA +D+ G A+TG+GKT+AF LT
Sbjct: 13 FALHPQVVEALEKKGFHNCTPIQALALP-LTLAGRDVAGQAQTGTGKTMAF----LTATF 67
Query: 216 NKLENPTEEDENDSGLEEEAEEVLEELEEESANTTEFVKKTRNKLYALILAPTRELAIQV 275
+ L L A E + N+ ALI+APTRELA+Q+
Sbjct: 68 HYL------------LSHPAPE----------------DRKVNQPRALIMAPTRELAVQI 99
Query: 276 QNHILDAGKYTPVKVACVVGGMSTEKQLRILNKCPHILVATPGRLWEFIQLGHFHLTELY 335
+ T +K+ GG +KQL++L IL+ T GRL ++ + H +L
Sbjct: 100 HADAEPLAQATGLKLGLAYGGDGYDKQLKVLESGVDILIGTTGRLIDYAKQNHINLGA-- 157
Query: 336 KINYLVIDETDRMIESGHFPELKNILDRVTMTETSQPRQTMIES 379
I +V+DE DRM + G +++ + R M +Q R M+ S
Sbjct: 158 -IQVVVLDEADRMFDLGFIKDIRWLFRR--MPPANQ-RLNMLFS 197
Score = 77.7 bits (192), Expect = 1e-14
Identities = 32/66 (48%), Positives = 44/66 (66%)
Query: 580 QRQRLKNLDRFRDQNNSILLATDVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGRTARAN 639
Q++RL+ L+ F + IL+ATDVAARGL IP + HV +Y +P E Y+HR GRT RA
Sbjct: 291 QKKRLRILEEFTRGDLDILVATDVAARGLHIPAVTHVFNYDLPDDCEDYVHRIGRTGRAG 350
Query: 640 NEGLTV 645
G ++
Sbjct: 351 ASGHSI 356
Score = 76.9 bits (190), Expect = 2e-14
Identities = 32/63 (50%), Positives = 42/63 (66%)
Query: 1113 QRQRLKNLDRFRDQNNSILLATDVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGRTARAN 1172
Q++RL+ L+ F + IL+ATDVAARGL IP + HV +Y +P E Y+HR GRT RA
Sbjct: 291 QKKRLRILEEFTRGDLDILVATDVAARGLHIPAVTHVFNYDLPDDCEDYVHRIGRTGRAG 350
Query: 1173 NEG 1175
G
Sbjct: 351 ASG 353
Score = 60.0 bits (146), Expect = 6e-09
Identities = 45/130 (34%), Positives = 63/130 (48%), Gaps = 12/130 (9%)
Query: 1356 ALILAPTRELAIQVQNHILDAGKYTPVKVACVVGGMSTEKQLRILNKCPHILVATPGALS 1415
ALI+APTRELA+Q+ + T +K+ GG +KQL++L IL+ T G L
Sbjct: 86 ALIMAPTRELAVQIHADAEPLAQATGLKLGLAYGGDGYDKQLKVLESGVDILIGTTGRL- 144
Query: 1416 LKRIDLAKSIEYLESKIKKNRPDNWLEKAAK--DMDIIIDDENLIQ--PKANSRENALMS 1471
ID AK I+ L++A + D+ I D L + P AN R N L S
Sbjct: 145 ---IDYAKQNHINLGAIQVVV----LDEADRMFDLGFIKDIRWLFRRMPPANQRLNMLFS 197
Query: 1472 KALVSKRKEL 1481
L + +EL
Sbjct: 198 ATLSYRVREL 207
>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 = 103 bits (259), Expect = 2e-26
Identities = 30/78 (38%), Positives = 45/78 (57%)
Query: 562 QLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSILLATDVAARGLDIPGIEHVIHYHV 621
+LL LH ++Q +R + L+ FR+ + +L+ATDVA RG+D+P + VI+Y +
Sbjct: 1 KLLRKPGIKVARLHGGLSQEEREEILEDFRNGKSKVLVATDVAGRGIDLPDVNLVINYDL 60
Query: 622 PRTSEIYIHRSGRTARAN 639
P YI R GR RA
Sbjct: 61 PWNPASYIQRIGRAGRAG 78
Score = 103 bits (259), Expect = 2e-26
Identities = 30/78 (38%), Positives = 45/78 (57%)
Query: 1095 QLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSILLATDVAARGLDIPGIEHVIHYHV 1154
+LL LH ++Q +R + L+ FR+ + +L+ATDVA RG+D+P + VI+Y +
Sbjct: 1 KLLRKPGIKVARLHGGLSQEEREEILEDFRNGKSKVLVATDVAGRGIDLPDVNLVINYDL 60
Query: 1155 PRTSEIYIHRSGRTARAN 1172
P YI R GR RA
Sbjct: 61 PWNPASYIQRIGRAGRAG 78
>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 = 105 bits (263), Expect = 4e-26
Identities = 53/193 (27%), Positives = 81/193 (41%), Gaps = 49/193 (25%)
Query: 807 KDIVGAAETGSGKTLAFGIPILTGIVNKLENPTEEDENDSGLEEEAEEVLEELEEESANT 866
+D++ AA TGSGKTLA +PIL
Sbjct: 1 RDVLLAAPTGSGKTLAALLPILE------------------------------------- 23
Query: 867 TEFVKKTRNKLYALILAPTRELAIQVQNHILDAGKYTPVKVACVVGGMSTEKQLRILNKC 926
+ + L+LAPTRELA QV + + +KV ++GG S ++Q ++L+
Sbjct: 24 ---LLDSLKGGQVLVLAPTRELANQVAERLKELFGE-GIKVGYLIGGTSIKQQEKLLSGK 79
Query: 927 PHILVATPGRLWEFIQLGHFHLTELYKINYLVIDETDRMIESGHFPELKNILDRVTMTET 986
I+V TPGRL + L K++ L++DE R++ G IL +
Sbjct: 80 TDIVVGTPGRL---LDELERLKLSLKKLDLLILDEAHRLLNQGFGLLGLKILLK-----L 131
Query: 987 SQPRQTFVFSATL 999
+ RQ + SAT
Sbjct: 132 PKDRQVLLLSATP 144
Score = 97.8 bits (244), Expect = 1e-23
Identities = 48/172 (27%), Positives = 73/172 (42%), Gaps = 44/172 (25%)
Query: 190 KDIVGAAETGSGKTLAFGIPILTGIVNKLENPTEEDENDSGLEEEAEEVLEELEEESANT 249
+D++ AA TGSGKTLA +PIL
Sbjct: 1 RDVLLAAPTGSGKTLAALLPILE------------------------------------- 23
Query: 250 TEFVKKTRNKLYALILAPTRELAIQVQNHILDAGKYTPVKVACVVGGMSTEKQLRILNKC 309
+ + L+LAPTRELA QV + + +KV ++GG S ++Q ++L+
Sbjct: 24 ---LLDSLKGGQVLVLAPTRELANQVAERLKELFGE-GIKVGYLIGGTSIKQQEKLLSGK 79
Query: 310 PHILVATPGRLWEFIQLGHFHLTELYKINYLVIDETDRMIESGHFPELKNIL 361
I+V TPGRL + L K++ L++DE R++ G IL
Sbjct: 80 TDIVVGTPGRL---LDELERLKLSLKKLDLLILDEAHRLLNQGFGLLGLKIL 128
Score = 61.6 bits (150), Expect = 6e-11
Identities = 26/78 (33%), Positives = 43/78 (55%), Gaps = 5/78 (6%)
Query: 1356 ALILAPTRELAIQVQNHILDAGKYTPVKVACVVGGMSTEKQLRILNKCPHILVATPGALS 1415
L+LAPTRELA QV + + +KV ++GG S ++Q ++L+ I+V TPG L
Sbjct: 33 VLVLAPTRELANQVAERLKELFGE-GIKVGYLIGGTSIKQQEKLLSGKTDIVVGTPGRL- 90
Query: 1416 LKRIDLAKSIEYLESKIK 1433
+D + ++ K+
Sbjct: 91 ---LDELERLKLSLKKLD 105
>gnl|CDD|197757 smart00490, HELICc, helicase superfamily c-terminal domain.
Length = 82
Score = 101 bits (254), Expect = 1e-25
Identities = 34/82 (41%), Positives = 49/82 (59%)
Query: 558 KRLTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSILLATDVAARGLDIPGIEHVI 617
+ L +LL L LH ++Q +R + LD+F + +L+ATDVA RGLD+PG++ VI
Sbjct: 1 EELAELLKELGIKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVI 60
Query: 618 HYHVPRTSEIYIHRSGRTARAN 639
Y +P + YI R GR RA
Sbjct: 61 IYDLPWSPASYIQRIGRAGRAG 82
Score = 101 bits (254), Expect = 1e-25
Identities = 34/82 (41%), Positives = 49/82 (59%)
Query: 1091 KRLTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSILLATDVAARGLDIPGIEHVI 1150
+ L +LL L LH ++Q +R + LD+F + +L+ATDVA RGLD+PG++ VI
Sbjct: 1 EELAELLKELGIKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVI 60
Query: 1151 HYHVPRTSEIYIHRSGRTARAN 1172
Y +P + YI R GR RA
Sbjct: 61 IYDLPWSPASYIQRIGRAGRAG 82
>gnl|CDD|237496 PRK13766, PRK13766, Hef nuclease; Provisional.
Length = 773
Score = 69.1 bits (170), Expect = 1e-11
Identities = 65/283 (22%), Positives = 118/283 (41%), Gaps = 55/283 (19%)
Query: 1011 KGQSKSKKVSKGDPSIKRL------QDLLNIKSPKIVDLTEKIGITKTLTESKILCKHDE 1064
G SK+ K DP ++ D+ + K K+ ++ + + L +
Sbjct: 317 SGGSKASKRLVEDPRFRKAVRKAKELDIEHPKLEKLREI-----VKEQLGK--------N 363
Query: 1065 KDSYLYYFILQHPGRTLVFCNSISSVKRLTQLLTMLKCSPLPL--HAS------MNQRQR 1116
DS R +VF + +++ LL + AS M+Q+++
Sbjct: 364 PDS-----------RIIVFTQYRDTAEKIVDLLEKEGIKAVRFVGQASKDGDKGMSQKEQ 412
Query: 1117 LKNLDRFRDQNNSILLATDVAARGLDIPGIEHVIHYH-VPRTSEI-YIHRSGRTARANNE 1174
++ LD+FR ++L++T VA GLDIP ++ VI Y VP SEI I R GRT R E
Sbjct: 413 IEILDKFRAGEFNVLVSTSVAEEGLDIPSVDLVIFYEPVP--SEIRSIQRKGRTGR-QEE 469
Query: 1175 GLTLVLIE---SDEIPLYI------KMFNSL---EKKVDLPDFPIDESVLSLIKKRIDLA 1222
G +VLI DE + KM L + ++ +DE +++ +
Sbjct: 470 GRVVVLIAKGTRDEAYYWSSRRKEKKMKEELKNLKGILNKKLQELDEEQKGEEEEKDEQL 529
Query: 1223 KSIEYLESKIKKNRPDNWLHRSGRTARANNEGLTLVLIESDEI 1265
++++SK K+ + + + ++++S E+
Sbjct: 530 SLDDFVKSKGKEEEEEEEKEEKDKETEEDEPEGPKIIVDSREL 572
Score = 68.7 bits (169), Expect = 2e-11
Identities = 57/200 (28%), Positives = 92/200 (46%), Gaps = 33/200 (16%)
Query: 546 RTLVFCNSISSVKRLTQLLTMLKCSPLPL--HAS------MNQRQRLKNLDRFRDQNNSI 597
R +VF + +++ LL + AS M+Q+++++ LD+FR ++
Sbjct: 367 RIIVFTQYRDTAEKIVDLLEKEGIKAVRFVGQASKDGDKGMSQKEQIEILDKFRAGEFNV 426
Query: 598 LLATDVAARGLDIPGIEHVIHYH-VPRTSEI-YIHRSGRTARANNEGLTVVLIE---SDE 652
L++T VA GLDIP ++ VI Y VP SEI I R GRT R EG VVLI DE
Sbjct: 427 LVSTSVAEEGLDIPSVDLVIFYEPVP--SEIRSIQRKGRTGR-QEEGRVVVLIAKGTRDE 483
Query: 653 I-----------------PLKTKFNLQEEENNEEEERAEADKEKTEDINVTVSSKKKKLK 695
LK N + +E +EE++ E +K++ ++ V SK K+ +
Sbjct: 484 AYYWSSRRKEKKMKEELKNLKGILNKKLQELDEEQKGEEEEKDEQLSLDDFVKSKGKEEE 543
Query: 696 RKQNPSQVEVSELSANTNDP 715
++ + + P
Sbjct: 544 EEEEKEEKDKETEEDEPEGP 563
Score = 32.5 bits (75), Expect = 2.1
Identities = 21/70 (30%), Positives = 30/70 (42%), Gaps = 1/70 (1%)
Query: 1342 LLIFESRNLRYSWDALILAPTRELAIQVQNHILDAGKYTPVKVACVVGGMSTEKQLRILN 1401
LL+ R + LILAPT+ L Q K+ G +S EK+ +
Sbjct: 47 LLVIAERLHKKGGKVLILAPTKPLVEQHAEFFRKFLNIPEEKIVVFTGEVSPEKRAELWE 106
Query: 1402 KCPHILVATP 1411
K ++VATP
Sbjct: 107 KA-KVIVATP 115
>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 = 66.2 bits (162), Expect = 8e-11
Identities = 51/237 (21%), Positives = 109/237 (45%), Gaps = 12/237 (5%)
Query: 494 EEIQDLLNIKSP-KIVDLTEKIGITKTLTESKILCKHDEKDSYLYYFILQHPGRT-LVFC 551
++I++LL + + + ++ + ++ + K +L ++ +H G++ +++
Sbjct: 178 QDIRELLRLADANEFITSFDRPNLRFSVVKKN------NKQKFLLDYLKKHRGQSGIIYA 231
Query: 552 NSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSILLATDVAARGLDIP 611
+S V+ L + L S L HA ++ + R +N + F + +++AT+ G+D P
Sbjct: 232 SSRKKVEELAERLESQGISALAYHAGLSNKVRAENQEDFLYDDVKVMVATNAFGMGIDKP 291
Query: 612 GIEHVIHYHVPRTSEIYIHRSGRTARANNEGLTVVLIESDEIPLKTKFNLQEEENNEEEE 671
+ VIHY +P E Y +GR R ++L +I L K +++ E +++ +
Sbjct: 292 NVRFVIHYDMPGNLESYYQEAGRAGRDGLPAEAILLYSPADIALL-KRRIEQSEADDDYK 350
Query: 672 RAEADKEKTEDINV--TVSSKKKKLKRKQNPSQVEVSELSANTNDPDDQVNKTEEIQ 726
+ E +K I T + ++ + R ++VE N DP + T E Q
Sbjct: 351 QIEREK-LRAMIAYCETQTCRRAYILRYFGENEVEPCGNCDNCLDPPKSYDATVEAQ 406
Score = 62.4 bits (152), Expect = 1e-09
Identities = 54/276 (19%), Positives = 112/276 (40%), Gaps = 46/276 (16%)
Query: 905 VKVACVVGGMSTEKQLRILNKCPH----ILVATPGRLWEFIQLGHF--HLTELYKINYLV 958
V A + +S ++Q I + +L P RL + +F L + I +
Sbjct: 78 VAAAYLNSTLSAKEQQDIEKALVNGELKLLYVAPERL----EQDYFLNMLQRI-PIALVA 132
Query: 959 IDETDRMIESGH-F-PELKNILDRVTMTETSQPRQTFVFSATLTHSLKNSLNLKKGQSKS 1016
+DE + + GH F PE + + ++ E +AT
Sbjct: 133 VDEAHCVSQWGHDFRPEYQRL---GSLAERFPQVPRIALTATAD---------------- 173
Query: 1017 KKVSKGDPSIKRLQDLLNIKSP-KIVDLTEKIGITKTLTESKILCKHDEKDSYLYYFILQ 1075
+ + +++LL + + + ++ + ++ + K +L ++ +
Sbjct: 174 ------AETRQDIRELLRLADANEFITSFDRPNLRFSVVKKN------NKQKFLLDYLKK 221
Query: 1076 HPGRT-LVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSILLAT 1134
H G++ +++ +S V+ L + L S L HA ++ + R +N + F + +++AT
Sbjct: 222 HRGQSGIIYASSRKKVEELAERLESQGISALAYHAGLSNKVRAENQEDFLYDDVKVMVAT 281
Query: 1135 DVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGRTAR 1170
+ G+D P + VIHY +P E Y +GR R
Sbjct: 282 NAFGMGIDKPNVRFVIHYDMPGNLESYYQEAGRAGR 317
>gnl|CDD|224122 COG1201, Lhr, Lhr-like helicases [General function prediction only].
Length = 814
Score = 66.1 bits (162), Expect = 1e-10
Identities = 87/399 (21%), Positives = 167/399 (41%), Gaps = 63/399 (15%)
Query: 773 FNIPETIIRALYQKGFKTPTKIQSMVMPSALLARKDIVGAAETGSGKTLAFGIPILTGIV 832
FNI + +R +++ F + T Q +P + + ++++ A TGSGKT A +P++ ++
Sbjct: 5 FNILDPRVREWFKRKFTSLTPPQRYAIP-EIHSGENVLIIAPTGSGKTEAAFLPVINELL 63
Query: 833 NKLENPTEEDENDSGLEEEAEEVLEELEEESANTTEFVKKTRNKLYALILAPTRELAIQV 892
+ + E+ +YAL ++P + L +
Sbjct: 64 SLGKGKLED----------------------------------GIYALYISPLKALNNDI 89
Query: 893 QNHILDAGKYTPVKVACVVGGMSTEKQLRILNKCPHILVATPGRLWEFIQLGHFHLTELY 952
+ + + + ++VA G ++ ++L PHIL+ TP L I L EL
Sbjct: 90 RRRLEEPLRELGIEVAVRHGDTPQSEKQKMLKNPPHILITTPESL--AILLNSPKFRELL 147
Query: 953 K-INYLVIDETDRMIES--GHFPELKNILDRVTMTETSQPRQTFVFSATLTHSLKNSLNL 1009
+ + Y+++DE + ES G +L L+R + E + Q SAT+ +
Sbjct: 148 RDVRYVIVDEIHALAESKRGV--QLALSLER--LRELAGDFQRIGLSATV-GPPEEVAKF 202
Query: 1010 KKGQSKSKKVSKGDPSIKRLQDLLNIKSPKIVDLTEKIGITKTLTESKILCKHDEKDSYL 1069
G ++ + K+L+ + + SP DL + L E
Sbjct: 203 LVGFGDPCEIVD-VSAAKKLE--IKVISPV-EDLIYDEELWAALYE-------------R 245
Query: 1070 YYFILQHPGRTLVFCNSISSVKRLTQLLTMLKCSPLPLH-ASMNQRQRLKNLDRFRDQNN 1128
+++ TL+F N+ S +RL L L + +H S+++ RL+ +R ++
Sbjct: 246 IAELVKKHRTTLIFTNTRSGAERLAFRLKKLGPDIIEVHHGSLSRELRLEVEERLKEGEL 305
Query: 1129 SILLATDVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGR 1167
++AT G+DI I+ VI P++ ++ R GR
Sbjct: 306 KAVVATSSLELGIDIGDIDLVIQLGSPKSVNRFLQRIGR 344
Score = 48.8 bits (117), Expect = 2e-05
Identities = 43/197 (21%), Positives = 86/197 (43%), Gaps = 38/197 (19%)
Query: 156 FNIPETIIRALYQKGFKTPTKIQSMVMPSALLARKDIVGAAETGSGKTLAFGIPILTGIV 215
FNI + +R +++ F + T Q +P + + ++++ A TGSGKT A +P++ ++
Sbjct: 5 FNILDPRVREWFKRKFTSLTPPQRYAIP-EIHSGENVLIIAPTGSGKTEAAFLPVINELL 63
Query: 216 NKLENPTEEDENDSGLEEEAEEVLEELEEESANTTEFVKKTRNKLYALILAPTRELAIQV 275
+ + E+ +YAL ++P + L +
Sbjct: 64 SLGKGKLED----------------------------------GIYALYISPLKALNNDI 89
Query: 276 QNHILDAGKYTPVKVACVVGGMSTEKQLRILNKCPHILVATPGRLWEFIQLGHFHLTELY 335
+ + + + ++VA G ++ ++L PHIL+ TP L I L EL
Sbjct: 90 RRRLEEPLRELGIEVAVRHGDTPQSEKQKMLKNPPHILITTPESL--AILLNSPKFRELL 147
Query: 336 K-INYLVIDETDRMIES 351
+ + Y+++DE + ES
Sbjct: 148 RDVRYVIVDEIHALAES 164
Score = 42.6 bits (101), Expect = 0.002
Identities = 27/108 (25%), Positives = 50/108 (46%), Gaps = 2/108 (1%)
Query: 529 HDEKDSY-LYYFILQHPGRTLVFCNSISSVKRLTQLLTMLKCSPLPLH-ASMNQRQRLKN 586
Y +++ TL+F N+ S +RL L L + +H S+++ RL+
Sbjct: 237 ELWAALYERIAELVKKHRTTLIFTNTRSGAERLAFRLKKLGPDIIEVHHGSLSRELRLEV 296
Query: 587 LDRFRDQNNSILLATDVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGR 634
+R ++ ++AT G+DI I+ VI P++ ++ R GR
Sbjct: 297 EERLKEGELKAVVATSSLELGIDIGDIDLVIQLGSPKSVNRFLQRIGR 344
>gnl|CDD|224036 COG1111, MPH1, ERCC4-like helicases [DNA replication,
recombination, and repair].
Length = 542
Score = 60.4 bits (147), Expect = 4e-09
Identities = 38/149 (25%), Positives = 64/149 (42%), Gaps = 20/149 (13%)
Query: 578 MNQRQRLKNLDRFRDQNNSILLATDVAARGLDIPGIEHVIHYHVPRTSEI-YIHRSGRTA 636
M+Q+++ + +D+FR ++L+AT V GLDIP ++ VI Y P SEI I R GRT
Sbjct: 409 MSQKEQKEIIDQFRKGEYNVLVATSVGEEGLDIPEVDLVIFYE-PVPSEIRSIQRKGRTG 467
Query: 637 RANNEGLTVVLIESDEIPLKTKFNLQEEENNEEEERAEADKEKTEDINVTVSSKKKKLKR 696
R G VVL+ E +E + + K + + ++ +LK
Sbjct: 468 RKRK-GRVVVLV---------------TEGTRDEAYYYSSRRKEQKMIESIRGLSLELKV 511
Query: 697 KQNPSQVEVSELSA--NTNDPDDQVNKTE 723
+ + + + +V E
Sbjct: 512 RLPEKEEPSGDGQKIPEDAETLLEVVGEE 540
Score = 55.0 bits (133), Expect = 2e-07
Identities = 30/76 (39%), Positives = 44/76 (57%), Gaps = 3/76 (3%)
Query: 1111 MNQRQRLKNLDRFRDQNNSILLATDVAARGLDIPGIEHVIHYHVPRTSEI-YIHRSGRTA 1169
M+Q+++ + +D+FR ++L+AT V GLDIP ++ VI Y P SEI I R GRT
Sbjct: 409 MSQKEQKEIIDQFRKGEYNVLVATSVGEEGLDIPEVDLVIFYE-PVPSEIRSIQRKGRTG 467
Query: 1170 RANNEGLTLVLIESDE 1185
R G +VL+
Sbjct: 468 RKRK-GRVVVLVTEGT 482
Score = 32.3 bits (74), Expect = 2.0
Identities = 19/89 (21%), Positives = 35/89 (39%), Gaps = 10/89 (11%)
Query: 1342 LLIFESRNLRYSWDALILAPTRELAIQVQNHILDAGKYTPVKVACVVGGMSTEKQLRILN 1401
++ +R + L LAPT+ L +Q ++A + G + E++ +
Sbjct: 47 AMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVTGIPEDEIAALTGEVRPEEREELWA 106
Query: 1402 KCPHILVATP---------GALSLKRIDL 1421
K + VATP G + L + L
Sbjct: 107 K-KKVFVATPQVVENDLKAGRIDLDDVSL 134
Score = 31.2 bits (71), Expect = 5.1
Identities = 21/92 (22%), Positives = 38/92 (41%), Gaps = 4/92 (4%)
Query: 256 TRNKLYALILAPTRELAIQVQNHILDAGKYTPVKVACVVGGMSTEKQLRILNKCPHILVA 315
L LAPT+ L +Q ++A + G + E++ + K + VA
Sbjct: 55 RWFGGKVLFLAPTKPLVLQHAEFCRKVTGIPEDEIAALTGEVRPEEREELWAK-KKVFVA 113
Query: 316 TPGRLWEFIQLGHFHLTELYKINYLVIDETDR 347
TP + ++ G L + ++ L+ DE R
Sbjct: 114 TPQVVENDLKAGRIDLDD---VSLLIFDEAHR 142
Score = 31.2 bits (71), Expect = 5.1
Identities = 21/92 (22%), Positives = 38/92 (41%), Gaps = 4/92 (4%)
Query: 873 TRNKLYALILAPTRELAIQVQNHILDAGKYTPVKVACVVGGMSTEKQLRILNKCPHILVA 932
L LAPT+ L +Q ++A + G + E++ + K + VA
Sbjct: 55 RWFGGKVLFLAPTKPLVLQHAEFCRKVTGIPEDEIAALTGEVRPEEREELWAK-KKVFVA 113
Query: 933 TPGRLWEFIQLGHFHLTELYKINYLVIDETDR 964
TP + ++ G L + ++ L+ DE R
Sbjct: 114 TPQVVENDLKAGRIDLDD---VSLLIFDEAHR 142
>gnl|CDD|223588 COG0514, RecQ, Superfamily II DNA helicase [DNA replication,
recombination, and repair].
Length = 590
Score = 60.0 bits (146), Expect = 7e-09
Identities = 52/283 (18%), Positives = 104/283 (36%), Gaps = 58/283 (20%)
Query: 905 VKVACVVGGMSTEKQLRILNKCPH----ILVATPGRL-----WEFIQLGHFHLTELYKIN 955
++ A + +S E++ ++LN+ +L +P RL E ++ I+
Sbjct: 82 IRAAYLNSTLSREERQQVLNQLKSGQLKLLYISPERLMSPRFLELLKRL--------PIS 133
Query: 956 YLVIDETDRMIESGH-F-PELKNILDRVTMTETSQPRQTFVFSATLTHSLKNSLNLKKGQ 1013
+ IDE + + GH F P+ + + + +AT T ++
Sbjct: 134 LVAIDEAHCISQWGHDFRPDYRRLGR---LRAGLPNPPVLALTATATPRVR--------- 181
Query: 1014 SKSKKVSKGDPSIKRLQDLLNIKSPKIVDLTEKIGITKTLTESKILCKHDEKDSYL--YY 1071
+++ L ++ I + + K EK
Sbjct: 182 -------------DDIREQLGLQDANI--------FRGSFDRPNLALKVVEKGEPSDQLA 220
Query: 1072 FIL----QHPGRTLVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQN 1127
F+ Q +++C + V+ L + L S HA ++ +R + F +
Sbjct: 221 FLATVLPQLSKSGIIYCLTRKKVEELAEWLRKNGISAGAYHAGLSNEERERVQQAFLNDE 280
Query: 1128 NSILLATDVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGRTAR 1170
+++AT+ G+D P + VIHY +P + E Y +GR R
Sbjct: 281 IKVMVATNAFGMGIDKPDVRFVIHYDLPGSIESYYQETGRAGR 323
Score = 54.6 bits (132), Expect = 3e-07
Identities = 26/105 (24%), Positives = 47/105 (44%), Gaps = 4/105 (3%)
Query: 537 YYFIL----QHPGRTLVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRD 592
F+ Q +++C + V+ L + L S HA ++ +R + F +
Sbjct: 219 LAFLATVLPQLSKSGIIYCLTRKKVEELAEWLRKNGISAGAYHAGLSNEERERVQQAFLN 278
Query: 593 QNNSILLATDVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGRTAR 637
+++AT+ G+D P + VIHY +P + E Y +GR R
Sbjct: 279 DEIKVMVATNAFGMGIDKPDVRFVIHYDLPGSIESYYQETGRAGR 323
>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 = 55.9 bits (135), Expect = 1e-07
Identities = 55/279 (19%), Positives = 103/279 (36%), Gaps = 53/279 (18%)
Query: 908 ACVVGGMST-EKQLRILNKCP----HILVATPGRLW---EFIQLGHFHLTELYKINYLVI 959
A + + E+Q +L +L TP + +Q L E I + +
Sbjct: 78 ATFLNSSQSKEQQKNVLTDLKDGKIKLLYVTPEKCSASNRLLQ----TLEERKGITLIAV 133
Query: 960 DETDRMIESGH-F-PELKNILDRVTMTETSQPRQTFV-FSATLTHSLKN----SLNLKKG 1012
DE + + GH F P+ K + + P + +AT + S++ LNLK
Sbjct: 134 DEAHCISQWGHDFRPDYK----ALGSLKQKFPNVPIMALTATASPSVREDILRQLNLKNP 189
Query: 1013 QSKSKKVSKGDPSIKRLQDLLNIKSPKIVDLTEKIGITKTLTESKILCKHDEKDSYLYYF 1072
Q + P++ ++ + DL +
Sbjct: 190 QIFCTSFDR--PNLY--YEVRRKTPKILEDLLR-------------------------FI 220
Query: 1073 ILQHPGRT-LVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSIL 1131
+ G++ +++C S +++T L L + HA + R +F+ ++
Sbjct: 221 RKEFKGKSGIIYCPSRKKSEQVTASLQNLGIAAGAYHAGLEISARDDVHHKFQRDEIQVV 280
Query: 1132 LATDVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGRTAR 1170
+AT G++ P + VIHY +P++ E Y SGR R
Sbjct: 281 VATVAFGMGINKPDVRFVIHYSLPKSMESYYQESGRAGR 319
Score = 53.2 bits (128), Expect = 8e-07
Identities = 37/156 (23%), Positives = 67/156 (42%), Gaps = 26/156 (16%)
Query: 494 EEIQDLLNIKSPKI-----------VDLTEKIGITKTLTESKILCKHDEKDSYLYYFILQ 542
E+I LN+K+P+I ++ K KIL + L + +
Sbjct: 178 EDILRQLNLKNPQIFCTSFDRPNLYYEVRRKTP--------KIL------EDLLRFIRKE 223
Query: 543 HPGRT-LVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSILLAT 601
G++ +++C S +++T L L + HA + R +F+ +++AT
Sbjct: 224 FKGKSGIIYCPSRKKSEQVTASLQNLGIAAGAYHAGLEISARDDVHHKFQRDEIQVVVAT 283
Query: 602 DVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGRTAR 637
G++ P + VIHY +P++ E Y SGR R
Sbjct: 284 VAFGMGINKPDVRFVIHYSLPKSMESYYQESGRAGR 319
>gnl|CDD|182933 PRK11057, PRK11057, ATP-dependent DNA helicase RecQ; Provisional.
Length = 607
Score = 53.2 bits (128), Expect = 8e-07
Identities = 67/280 (23%), Positives = 108/280 (38%), Gaps = 54/280 (19%)
Query: 905 VKVACVVGGMSTEKQLRILNKCP----HILVATPGRLW--EFI-QLGHFHLTELYKINYL 957
V AC+ + E+QL ++ C +L P RL F+ L H++ L
Sbjct: 90 VAAACLNSTQTREQQLEVMAGCRTGQIKLLYIAPERLMMDNFLEHLAHWNPA------LL 143
Query: 958 VIDETDRMIESGH-F-PELKNILDRVTMTETSQPRQTF----VFSATLTHSLKNSLNLKK 1011
+DE + + GH F PE + Q RQ F + T T
Sbjct: 144 AVDEAHCISQWGHDFRPEYAAL---------GQLRQRFPTLPFMALTAT----------- 183
Query: 1012 GQSKSKKVSKGDPSIKRLQDLLNIKSPKI-VDLTEKIGITKTLTESKILCKHDEKDSYLY 1070
+ ++ D I RL L + P I + ++ I TL E K D +
Sbjct: 184 ----ADDTTRQD--IVRL---LGLNDPLIQISSFDRPNIRYTLVE-----KFKPLDQLMR 229
Query: 1071 YFILQHPGRTLVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSI 1130
Y Q +++CNS + V+ L S HA ++ R + F+ + I
Sbjct: 230 YVQEQRGKSGIIYCNSRAKVEDTAARLQSRGISAAAYHAGLDNDVRADVQEAFQRDDLQI 289
Query: 1131 LLATDVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGRTAR 1170
++AT G++ P + V+H+ +PR E Y +GR R
Sbjct: 290 VVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGR 329
Score = 51.3 bits (123), Expect = 3e-06
Identities = 37/144 (25%), Positives = 62/144 (43%), Gaps = 6/144 (4%)
Query: 495 EIQDLLNIKSPKI-VDLTEKIGITKTLTESKILCKHDEKDSYLYYFILQHPGRTLVFCNS 553
+I LL + P I + ++ I TL E K D + Y Q +++CNS
Sbjct: 191 DIVRLLGLNDPLIQISSFDRPNIRYTLVE-----KFKPLDQLMRYVQEQRGKSGIIYCNS 245
Query: 554 ISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSILLATDVAARGLDIPGI 613
+ V+ L S HA ++ R + F+ + I++AT G++ P +
Sbjct: 246 RAKVEDTAARLQSRGISAAAYHAGLDNDVRADVQEAFQRDDLQIVVATVAFGMGINKPNV 305
Query: 614 EHVIHYHVPRTSEIYIHRSGRTAR 637
V+H+ +PR E Y +GR R
Sbjct: 306 RFVVHFDIPRNIESYYQETGRAGR 329
>gnl|CDD|222037 pfam13307, Helicase_C_2, Helicase C-terminal domain. This domain
is the second of two tandem AAA domains found in a wide
variety of helicase enzymes.
Length = 165
Score = 47.6 bits (114), Expect = 6e-06
Identities = 21/79 (26%), Positives = 36/79 (45%), Gaps = 4/79 (5%)
Query: 536 LYYFILQHPGRTLVFCNSISSVKRLTQLL--TMLKCSPLPLHASMNQRQRLKNLDRFRDQ 593
+ + PG LV S S ++++ +LL +L+ L R++L L+RF+
Sbjct: 1 ILELLEAIPGGVLVLFPSYSLLEQVAELLASELLEKGIELLVQGEGSREKL--LERFKKG 58
Query: 594 NNSILLATDVAARGLDIPG 612
+IL G+D PG
Sbjct: 59 KGAILFGVGSFWEGIDFPG 77
Score = 47.6 bits (114), Expect = 6e-06
Identities = 21/79 (26%), Positives = 36/79 (45%), Gaps = 4/79 (5%)
Query: 1069 LYYFILQHPGRTLVFCNSISSVKRLTQLL--TMLKCSPLPLHASMNQRQRLKNLDRFRDQ 1126
+ + PG LV S S ++++ +LL +L+ L R++L L+RF+
Sbjct: 1 ILELLEAIPGGVLVLFPSYSLLEQVAELLASELLEKGIELLVQGEGSREKL--LERFKKG 58
Query: 1127 NNSILLATDVAARGLDIPG 1145
+IL G+D PG
Sbjct: 59 KGAILFGVGSFWEGIDFPG 77
>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 = 48.2 bits (115), Expect = 4e-05
Identities = 51/298 (17%), Positives = 105/298 (35%), Gaps = 53/298 (17%)
Query: 1079 RTLVFCNSISSVKRLTQLLTM-LKCSPLPL-------HASMNQRQRLKNLDRFRDQNNSI 1130
+TLVF S V+ L L L A +++ +R + F++
Sbjct: 308 QTLVFFRSRKQVELLYLSPRRRLVREGGKLLDAVSTYRAGLHREERRRIEAEFKEGELLG 367
Query: 1131 LLATDVAARGLDIPGIEHVIHYHVPRTSEI-YIHRSGRTARANNEGLTLVLIESDEIPLY 1189
++AT+ G+DI ++ VI Y P S + + R+GR R E L LV++ SD + Y
Sbjct: 368 VIATNALELGIDIGSLDAVIAYGYPGVSVLSFRQRAGRAGRRGQESLVLVVLRSDPLDSY 427
Query: 1190 IK-----MFNSLEKKVDLP------DFPIDESVLSLIK-KRIDLAKSIEYLESKIKKNRP 1237
+ + V+ ++ +D +L + + + S ++
Sbjct: 428 YLRHPEELLETGFGPVESVRVDDNNEYLLDGHLLCADAELPLKDRELLPSDGSLEEEIAR 487
Query: 1238 -----------DNWLHRSGRTA-------RANNEGLTLVLIESDEIPLYIKMFNSLEKKV 1279
++ S R + + GL+ I + I + +K L ++V
Sbjct: 488 SLVGEGQLHHENDKYRPSSRGLCPREGASQVSLRGLSEDSIVA--IDVSLKETGRLLEEV 545
Query: 1280 DLPDFP---IDESVL-----SLIKKRIDLAKSIEYLESKIKKNRPDNWLEKAAKDMDI 1329
D ++ + +DLA+ ++ + ++ D+
Sbjct: 546 DESSAIRSLHPGAIYLHRGVTYAAVDLDLAEKKAFVR----ADDVAEYVTLPLDFTDL 599
Score = 45.1 bits (107), Expect = 3e-04
Identities = 31/115 (26%), Positives = 52/115 (45%), Gaps = 9/115 (7%)
Query: 546 RTLVFCNSISSVKRLTQLLTM-LKCSPLPL-------HASMNQRQRLKNLDRFRDQNNSI 597
+TLVF S V+ L L L A +++ +R + F++
Sbjct: 308 QTLVFFRSRKQVELLYLSPRRRLVREGGKLLDAVSTYRAGLHREERRRIEAEFKEGELLG 367
Query: 598 LLATDVAARGLDIPGIEHVIHYHVPRTSEI-YIHRSGRTARANNEGLTVVLIESD 651
++AT+ G+DI ++ VI Y P S + + R+GR R E L +V++ SD
Sbjct: 368 VIATNALELGIDIGSLDAVIAYGYPGVSVLSFRQRAGRAGRRGQESLVLVVLRSD 422
Score = 36.6 bits (85), Expect = 0.11
Identities = 37/163 (22%), Positives = 57/163 (34%), Gaps = 43/163 (26%)
Query: 185 ALLARKDIVGAAETGSGKTLAFGIPILTGIVNKLENPTEEDENDSGLEEEAEEVLEELEE 244
+ +++V TGSGKT +F +PI L+ L
Sbjct: 81 LIREGRNVVVTTGTGSGKTESFLLPI----------------------------LDHLLR 112
Query: 245 ESANTTEFVKKTRNKLYALILAPTRELAIQVQNHILDAGKYTPVKVACVVGGMST--EKQ 302
+ + AL+L PT LA + + P KV T E++
Sbjct: 113 DPSAR------------ALLLYPTNALANDQAERLRELISDLPGKVTFGRYTGDTPPEER 160
Query: 303 LRILNKCPHILVATPGRLW-EFIQLGHFHLTELYKINYLVIDE 344
I+ P IL+ P L ++ L L + YLV+DE
Sbjct: 161 RAIIRNPPDILLTNPDMLHYLLLRNHDAWLWLLRNLKYLVVDE 203
Score = 36.6 bits (85), Expect = 0.11
Identities = 37/163 (22%), Positives = 57/163 (34%), Gaps = 43/163 (26%)
Query: 802 ALLARKDIVGAAETGSGKTLAFGIPILTGIVNKLENPTEEDENDSGLEEEAEEVLEELEE 861
+ +++V TGSGKT +F +PI L+ L
Sbjct: 81 LIREGRNVVVTTGTGSGKTESFLLPI----------------------------LDHLLR 112
Query: 862 ESANTTEFVKKTRNKLYALILAPTRELAIQVQNHILDAGKYTPVKVACVVGGMST--EKQ 919
+ + AL+L PT LA + + P KV T E++
Sbjct: 113 DPSAR------------ALLLYPTNALANDQAERLRELISDLPGKVTFGRYTGDTPPEER 160
Query: 920 LRILNKCPHILVATPGRLW-EFIQLGHFHLTELYKINYLVIDE 961
I+ P IL+ P L ++ L L + YLV+DE
Sbjct: 161 RAIIRNPPDILLTNPDMLHYLLLRNHDAWLWLLRNLKYLVVDE 203
>gnl|CDD|224120 COG1199, DinG, Rad3-related DNA helicases [Transcription / DNA
replication, recombination, and repair].
Length = 654
Score = 46.0 bits (109), Expect = 1e-04
Identities = 23/114 (20%), Positives = 43/114 (37%), Gaps = 7/114 (6%)
Query: 502 IKSPKIVDLTEKIGITKTLTESKILCKHDEKD--SYLYYFILQHPGRTLVFCNSISSVKR 559
+ SP + ++ + L E + +YL + PG LV S +KR
Sbjct: 437 LPSPFNYEEQGQLYVPTDLPEPRE--PELLAKLAAYLREILKASPGGVLVLFPSYEYLKR 494
Query: 560 LTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQ-NNSILLATDVAARGLDIPG 612
+ + L + + +R + L++F+ IL+ G+D PG
Sbjct: 495 VAERLKD--ERSTLPVLTQGEDEREELLEKFKASGEGLILVGGGSFWEGVDFPG 546
Score = 46.0 bits (109), Expect = 1e-04
Identities = 23/114 (20%), Positives = 43/114 (37%), Gaps = 7/114 (6%)
Query: 1035 IKSPKIVDLTEKIGITKTLTESKILCKHDEKD--SYLYYFILQHPGRTLVFCNSISSVKR 1092
+ SP + ++ + L E + +YL + PG LV S +KR
Sbjct: 437 LPSPFNYEEQGQLYVPTDLPEPRE--PELLAKLAAYLREILKASPGGVLVLFPSYEYLKR 494
Query: 1093 LTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQ-NNSILLATDVAARGLDIPG 1145
+ + L + + +R + L++F+ IL+ G+D PG
Sbjct: 495 VAERLKD--ERSTLPVLTQGEDEREELLEKFKASGEGLILVGGGSFWEGVDFPG 546
>gnl|CDD|236498 PRK09401, PRK09401, reverse gyrase; Reviewed.
Length = 1176
Score = 43.4 bits (103), Expect = 0.001
Identities = 53/229 (23%), Positives = 93/229 (40%), Gaps = 58/229 (25%)
Query: 1118 KNLDRFRDQNNSIL--LAT--DVAARGLDIPG-IEHVIHYHVPRTSEIYIHR-SGRTARA 1171
+ ++F + +L +A+ V RG+D+P I + I Y VP+ + S A
Sbjct: 367 RKFEKFEEGEVDVLVGVASYYGVLVRGIDLPERIRYAIFYGVPK------FKFSLEEELA 420
Query: 1172 NNEGLTLVLI---ESDEIPLYIKMFNSLEKKVD-LPDFP-----IDESVLSLIKKRIDLA 1222
L +L ++ + L +++ L + L++ ++
Sbjct: 421 PPFLLLRLLSLLPLIKNDKEIRELVSYLRRRLRNLSPYELQMLAFAIREGELLEGVLEEL 480
Query: 1223 KSI--EYLES-----KIKKNR---------------PD--NWLHRSGRTARANNEGLTL- 1257
+S+ EYL+ KI ++ PD ++ SGRT+R GLT
Sbjct: 481 RSLVKEYLKDEEFLEKISESGDLVLRKEEGKYYIVIPDVTTYIQASGRTSRLYAGGLTKG 540
Query: 1258 --VLIESDEIPLYIKMFNSLEKKVD--LPDF---PIDESVLSLIKKRID 1299
VL+ DE K+F SL+KK+ LP+ P+ E L + + ID
Sbjct: 541 LSVLLVDDE-----KLFESLKKKLRWLLPEIEFKPLSEVDLEELLREID 584
>gnl|CDD|218177 pfam04615, Utp14, Utp14 protein. This protein is found to be part
of a large ribonucleoprotein complex containing the U3
snoRNA. Depletion of the Utp proteins impedes production
of the 18S rRNA, indicating that they are part of the
active pre-rRNA processing complex. This large RNP
complex has been termed the small subunit (SSU)
processome.
Length = 728
Score = 39.7 bits (93), Expect = 0.013
Identities = 26/110 (23%), Positives = 41/110 (37%), Gaps = 13/110 (11%)
Query: 662 QEEENNEEEERAEADKEKTEDIN---VTVSSKKKKLKRKQNPSQVEVSELSANTNDPDDQ 718
++EEN+ E E + E E+ + SKK +RK P E S +
Sbjct: 386 KKEENDAEIEELRRELEGEEESDEEENEEPSKKNVGRRKFGPENGEKEAESKKLKKENKN 445
Query: 719 VNKTEEIQSDEPHS---------KKLKQKKKKKQTYTSANKELLEVDTSN 759
E+ +SDE +K+ K K+ +E E+D N
Sbjct: 446 -EFKEKKESDEEEELEDEEEAKVEKVANKLLKRSEKAQKEEEEEELDEEN 494
Score = 34.6 bits (80), Expect = 0.47
Identities = 23/156 (14%), Positives = 53/156 (33%), Gaps = 17/156 (10%)
Query: 14 AKVKDGGVKKKRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTE---GINVTV 70
+ +RK K K + +E+ E E ++ + E +
Sbjct: 412 NEEPSKKNVGRRKFGPENGEKEAESKKLKKENKNEFKEKKESDEEEELEDEEEAKVEKVA 471
Query: 71 SSKKKKLKRKQNPSQVEVSELSA--------NTNDPDDQVNKTEEIQSDEPSSKKL---- 118
+ K+ ++ Q + E + Q +K + + ++ K+
Sbjct: 472 NKLLKRSEKAQKEEEEEELDEENPWLKTTSSVGKSAKKQDSKKKSSSKLDKAANKISKAA 531
Query: 119 --KQKKKKKQTYTSANKELLEVDTSNNEDMFVQMAE 152
+KKKKK+ + +L++ + S D+ + E
Sbjct: 532 VKVKKKKKKEKSIDLDDDLIDEEDSIKLDVDDEEDE 567
Score = 33.9 bits (78), Expect = 0.72
Identities = 26/111 (23%), Positives = 41/111 (36%), Gaps = 13/111 (11%)
Query: 44 QEAENNEEEVEEAEADKEKTEGIN---VTVSSKKKKLKRKQNPSQVEVSELSANTNDPDD 100
++ E N+ E+EE + E E + SKK +RK P E S +
Sbjct: 385 RKKEENDAEIEELRRELEGEEESDEEENEEPSKKNVGRRKFGPENGEKEAESKKLKKENK 444
Query: 101 QVNKTEEIQSDEPSS---------KKLKQKKKKKQTYTSANKELLEVDTSN 142
E+ +SDE +K+ K K+ +E E+D N
Sbjct: 445 N-EFKEKKESDEEEELEDEEEAKVEKVANKLLKRSEKAQKEEEEEELDEEN 494
>gnl|CDD|223989 COG1061, SSL2, DNA or RNA helicases of superfamily II
[Transcription / DNA replication, recombination, and
repair].
Length = 442
Score = 39.0 bits (91), Expect = 0.017
Identities = 31/156 (19%), Positives = 55/156 (35%), Gaps = 10/156 (6%)
Query: 546 RTLVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSILLATDVAA 605
+TL+F + + + +L + + + +R L+RFR +L+ V
Sbjct: 285 KTLIFASDVEHAYEIAKLF-LAPGIVEAITGETPKEEREAILERFRTGGIKVLVTVKVLD 343
Query: 606 RGLDIPGIEHVIHYHVPRTSEI-YIHRSGRTARA--NNEGLTVVLIES-----DEIPLKT 657
G+DIP + +I P S +I R GR R E + E +
Sbjct: 344 EGVDIPDADVLI-ILRPTGSRRLFIQRLGRGLRPAEGKEDTLALDYSLVPDDLGEEDIAR 402
Query: 658 KFNLQEEENNEEEERAEADKEKTEDINVTVSSKKKK 693
+ L AD+E N+ + K +
Sbjct: 403 RRRLFLIRKGYTYRLLTADEEGELIPNLILGIKGYR 438
Score = 35.1 bits (81), Expect = 0.27
Identities = 24/108 (22%), Positives = 42/108 (38%), Gaps = 5/108 (4%)
Query: 1079 RTLVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSILLATDVAA 1138
+TL+F + + + +L + + + +R L+RFR +L+ V
Sbjct: 285 KTLIFASDVEHAYEIAKLF-LAPGIVEAITGETPKEEREAILERFRTGGIKVLVTVKVLD 343
Query: 1139 RGLDIPGIEHVIHYHVPRTSEI-YIHRSGRTARA--NNEGLTLVLIES 1183
G+DIP + +I P S +I R GR R E +
Sbjct: 344 EGVDIPDADVLI-ILRPTGSRRLFIQRLGRGLRPAEGKEDTLALDYSL 390
>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional.
Length = 2084
Score = 38.2 bits (88), Expect = 0.041
Identities = 26/118 (22%), Positives = 48/118 (40%), Gaps = 5/118 (4%)
Query: 14 AKVKDGGVKKKRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGINVTVSSK 73
AK K + + + K + + EE ++A+A K+K E +K
Sbjct: 1341 AKKAAEAAKAEAEAAADEAEAAEEKAE---AAEKKKEEAKKKADAAKKKAEEKKKADEAK 1397
Query: 74 KKKLKRKQNPSQVEVSELSANTNDPDDQVNKTEEIQSDEPSSKKLKQKKKKKQTYTSA 131
KK + K+ E+ + +A D+ K EE + + + KK ++ KK + A
Sbjct: 1398 KKAEEDKKKAD--ELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKADEAKKKA 1453
Score = 37.8 bits (87), Expect = 0.055
Identities = 30/134 (22%), Positives = 55/134 (41%), Gaps = 12/134 (8%)
Query: 9 APKTTAKVKDGGVKKKRKKKKPLKTKVKSKTKPNLQEAENNEEEV-------EEAEADKE 61
A K A+ + +K + + K K + K A+ EE ++AE DK+
Sbjct: 1347 AAKAEAEAAADEAEAAEEKAEAAEKK-KEEAKKKADAAKKKAEEKKKADEAKKKAEEDKK 1405
Query: 62 KTEGINVTVSSKKKKLKRKQNPSQV----EVSELSANTNDPDDQVNKTEEIQSDEPSSKK 117
K + + ++KKK + K+ + E + + D+ K EE + E + KK
Sbjct: 1406 KADELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKAEEAKKK 1465
Query: 118 LKQKKKKKQTYTSA 131
++ KK + A
Sbjct: 1466 AEEAKKADEAKKKA 1479
Score = 37.8 bits (87), Expect = 0.060
Identities = 31/153 (20%), Positives = 56/153 (36%), Gaps = 8/153 (5%)
Query: 11 KTTAKVKDGGVKKKRKKKKPLKTKVKSKTKPNLQEAENNEEEVEE--------AEADKEK 62
K K K KK +KKK + K K++ EA+ EE ++ AE K+
Sbjct: 1285 KAEEKKKADEAKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKA 1344
Query: 63 TEGINVTVSSKKKKLKRKQNPSQVEVSELSANTNDPDDQVNKTEEIQSDEPSSKKLKQKK 122
E + + + + ++ + D K EE + + + KK ++ K
Sbjct: 1345 AEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKKADEAKKKAEEDK 1404
Query: 123 KKKQTYTSANKELLEVDTSNNEDMFVQMAEWVK 155
KK A + D + + + A+ K
Sbjct: 1405 KKADELKKAAAAKKKADEAKKKAEEKKKADEAK 1437
Score = 36.3 bits (83), Expect = 0.18
Identities = 30/120 (25%), Positives = 51/120 (42%), Gaps = 3/120 (2%)
Query: 15 KVKDGGVKKKRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGINVTVSSKK 74
K + K + KKK + K + K EA+ EE ++A+ K+K E +KK
Sbjct: 1392 KADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKADEAKK 1451
Query: 75 KKLKRKQNPSQVEVSELSANTNDPDDQVNKTEEIQSDEPSSKKLKQKKKKKQTYTSANKE 134
K + K+ + +E D+ K EE + + + KK ++ KKK A +
Sbjct: 1452 KAEEAKKAEEAKKKAE---EAKKADEAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEA 1508
Score = 35.9 bits (82), Expect = 0.22
Identities = 31/117 (26%), Positives = 53/117 (45%), Gaps = 1/117 (0%)
Query: 9 APKTTAKVKDGGVKKKRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGINV 68
A K K +KK +KKK + K K++ K EA+ EE ++A+ K+K E
Sbjct: 1271 AIKAEEARKADELKKAEEKKKADEAK-KAEEKKKADEAKKKAEEAKKADEAKKKAEEAKK 1329
Query: 69 TVSSKKKKLKRKQNPSQVEVSELSANTNDPDDQVNKTEEIQSDEPSSKKLKQKKKKK 125
+ KKK + + ++ +E A ++ + K E + + +KK KKK
Sbjct: 1330 KADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKK 1386
Score = 34.3 bits (78), Expect = 0.57
Identities = 30/127 (23%), Positives = 53/127 (41%), Gaps = 6/127 (4%)
Query: 11 KTTAKVKDGGVKKKRK--KKKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGINV 68
A+ K KKK KKK + K + K +E + +E+++A A K+K +
Sbjct: 1366 AEAAEKKKEEAKKKADAAKKKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKK 1425
Query: 69 TVSSKKK----KLKRKQNPSQVEVSELSANTNDPDDQVNKTEEIQSDEPSSKKLKQKKKK 124
KKK K K ++ E + + ++ K EE + + + KK ++ KK
Sbjct: 1426 KAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKKA 1485
Query: 125 KQTYTSA 131
+ A
Sbjct: 1486 DEAKKKA 1492
Score = 34.3 bits (78), Expect = 0.57
Identities = 24/111 (21%), Positives = 50/111 (45%), Gaps = 1/111 (0%)
Query: 17 KDGGVKKKRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEAEAD-KEKTEGINVTVSSKKK 75
++ +K + KK + K K++ +E E E + EA+ +K E + + +KK
Sbjct: 1657 EENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEAKKAEELKKKEAEEKK 1716
Query: 76 KLKRKQNPSQVEVSELSANTNDPDDQVNKTEEIQSDEPSSKKLKQKKKKKQ 126
K + + + + + ++ K EE + DE KK+ KK+++
Sbjct: 1717 KAEELKKAEEENKIKAEEAKKEAEEDKKKAEEAKKDEEEKKKIAHLKKEEE 1767
Score = 32.8 bits (74), Expect = 2.0
Identities = 30/113 (26%), Positives = 52/113 (46%), Gaps = 5/113 (4%)
Query: 14 AKVKDGGVKKKRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGINVTVSSK 73
AK D KK + KK + K K++ EA+ EE ++A+ K+K E
Sbjct: 1443 AKKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKKADEA 1502
Query: 74 KKKLKRKQNPSQVEVSELSANTNDPDDQVNKTEEIQSDEPSSKKLKQKKKKKQ 126
KK + K+ + + +E + D+ K EE + + +KK ++KKK +
Sbjct: 1503 KKAAEAKKKADEAKKAEEAKKA----DEAKKAEEAKKAD-EAKKAEEKKKADE 1550
Score = 32.0 bits (72), Expect = 3.5
Identities = 19/118 (16%), Positives = 43/118 (36%)
Query: 655 LKTKFNLQEEENNEEEERAEADKEKTEDINVTVSSKKKKLKRKQNPSQVEVSELSANTND 714
K K +++ + +++AE K+ E + + + + ++ +
Sbjct: 1320 AKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKK 1379
Query: 715 PDDQVNKTEEIQSDEPHSKKLKQKKKKKQTYTSANKELLEVDTSNNEDMFVQMAEWVK 772
D K EE + + KK ++ KKK A + D + + + A+ K
Sbjct: 1380 ADAAKKKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADEAK 1437
Score = 32.0 bits (72), Expect = 3.7
Identities = 27/105 (25%), Positives = 52/105 (49%), Gaps = 4/105 (3%)
Query: 22 KKKRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGINVTVSSKKKKLKRKQ 81
KK + KK + K K++ +EA+ EE ++A+ K+K E +KKK + K+
Sbjct: 1438 KKAEEAKKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKK 1497
Query: 82 NPSQVEVSELSANTNDPDDQVNKTEEIQSDEPSSKKLKQKKKKKQ 126
+ + ++ +A D+ K EE + + +KK ++ KK +
Sbjct: 1498 ---KADEAKKAAEAKKKADEAKKAEEAKKAD-EAKKAEEAKKADE 1538
Score = 31.3 bits (70), Expect = 5.6
Identities = 17/84 (20%), Positives = 38/84 (45%), Gaps = 2/84 (2%)
Query: 662 QEEENNEEEE--RAEADKEKTEDINVTVSSKKKKLKRKQNPSQVEVSELSANTNDPDDQV 719
+E+E E + + +K E++ + +KKK + + + + + ++
Sbjct: 1684 EEDEKKAAEALKKEAEEAKKAEELKKKEAEEKKKAEELKKAEEENKIKAEEAKKEAEEDK 1743
Query: 720 NKTEEIQSDEPHSKKLKQKKKKKQ 743
K EE + DE KK+ KK+++
Sbjct: 1744 KKAEEAKKDEEEKKKIAHLKKEEE 1767
Score = 30.9 bits (69), Expect = 8.0
Identities = 26/119 (21%), Positives = 55/119 (46%)
Query: 17 KDGGVKKKRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGINVTVSSKKKK 76
K+ ++K + KK + +++ K +E + EE ++AE K K E + KKK
Sbjct: 1576 KNMALRKAEEAKKAEEARIEEVMKLYEEEKKMKAEEAKKAEEAKIKAEELKKAEEEKKKV 1635
Query: 77 LKRKQNPSQVEVSELSANTNDPDDQVNKTEEIQSDEPSSKKLKQKKKKKQTYTSANKEL 135
+ K+ ++ + + ++++ EE + E KK ++ KK ++ A + L
Sbjct: 1636 EQLKKKEAEEKKKAEELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEAL 1694
>gnl|CDD|215641 PLN03237, PLN03237, DNA topoisomerase 2; Provisional.
Length = 1465
Score = 37.5 bits (87), Expect = 0.060
Identities = 22/151 (14%), Positives = 57/151 (37%), Gaps = 8/151 (5%)
Query: 9 APKTTAKVKDGGVKKKRKKKKPLKTKVKSKTKP--NLQEAENNEEEVEEAEADKEKTEGI 66
A + K++ + + K + + K P ++A +E E + +TE +
Sbjct: 1175 AEEAREKLQRAAARGESGAAKKVSRQAPKKPAPKKTTKKASESETTEETYGSSAMETENV 1234
Query: 67 NVTVSSKKKKLKRKQNPSQVEVSELSANTNDPDDQVNKTEEIQSDEPSSKK------LKQ 120
V K + +K+ P+ + E D D++ + S+K +
Sbjct: 1235 AEVVKPKGRAGAKKKAPAAAKEKEEEDEILDLKDRLAAYNLDSAPAQSAKMEETVKAVPA 1294
Query: 121 KKKKKQTYTSANKELLEVDTSNNEDMFVQMA 151
++ + A+ ++ +++D V+++
Sbjct: 1295 RRAAARKKPLASVSVISDSDDDDDDFAVEVS 1325
>gnl|CDD|224123 COG1202, COG1202, Superfamily II helicase, archaea-specific
[General function prediction only].
Length = 830
Score = 37.5 bits (87), Expect = 0.068
Identities = 19/69 (27%), Positives = 29/69 (42%)
Query: 543 HPGRTLVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSILLATD 602
+ G+T+VF S L LT P HA + ++R F Q + ++ T
Sbjct: 439 YRGQTIVFTYSRRRCHELADALTGKGLKAAPYHAGLPYKERKSVERAFAAQELAAVVTTA 498
Query: 603 VAARGLDIP 611
A G+D P
Sbjct: 499 ALAAGVDFP 507
Score = 37.5 bits (87), Expect = 0.068
Identities = 19/69 (27%), Positives = 29/69 (42%)
Query: 1076 HPGRTLVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSILLATD 1135
+ G+T+VF S L LT P HA + ++R F Q + ++ T
Sbjct: 439 YRGQTIVFTYSRRRCHELADALTGKGLKAAPYHAGLPYKERKSVERAFAAQELAAVVTTA 498
Query: 1136 VAARGLDIP 1144
A G+D P
Sbjct: 499 ALAAGVDFP 507
Score = 35.9 bits (83), Expect = 0.20
Identities = 25/88 (28%), Positives = 41/88 (46%), Gaps = 3/88 (3%)
Query: 132 NKELLEVDTSNNEDMFVQMAEWVKFNIPETIIRALYQKGFKTPTKIQSMVMPSALLARKD 191
+ EL D E V+ + +IPE R L ++G + +Q + + + LL ++
Sbjct: 175 DPELTRYDEVTAETDEVERVPVDELDIPEKFKRMLKREGIEELLPVQVLAVEAGLLEGEN 234
Query: 192 IVGAAETGSGKTLAFGIPILTGIVNKLE 219
++ + T SGKTL I L GI L
Sbjct: 235 LLVVSATASGKTL---IGELAGIPRLLS 259
Score = 35.9 bits (83), Expect = 0.20
Identities = 25/88 (28%), Positives = 41/88 (46%), Gaps = 3/88 (3%)
Query: 749 NKELLEVDTSNNEDMFVQMAEWVKFNIPETIIRALYQKGFKTPTKIQSMVMPSALLARKD 808
+ EL D E V+ + +IPE R L ++G + +Q + + + LL ++
Sbjct: 175 DPELTRYDEVTAETDEVERVPVDELDIPEKFKRMLKREGIEELLPVQVLAVEAGLLEGEN 234
Query: 809 IVGAAETGSGKTLAFGIPILTGIVNKLE 836
++ + T SGKTL I L GI L
Sbjct: 235 LLVVSATASGKTL---IGELAGIPRLLS 259
>gnl|CDD|223627 COG0553, HepA, Superfamily II DNA/RNA helicases, SNF2 family
[Transcription / DNA replication, recombination, and
repair].
Length = 866
Score = 35.9 bits (82), Expect = 0.20
Identities = 21/104 (20%), Positives = 35/104 (33%), Gaps = 8/104 (7%)
Query: 540 ILQHPGRTLVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSILL 599
H + L+F + L L L + L S ++R + +DRF +
Sbjct: 707 EEGHYHKVLIFSQFTPVLDLLEDYLKALGIKYVRLDGSTPAKRRQELIDRFNADEEEKVF 766
Query: 600 ATDVAARGLDIPGIE--HVIHY------HVPRTSEIYIHRSGRT 635
+ A GL + VI + V + HR G+
Sbjct: 767 LLSLKAGGLGLNLTGADTVILFDPWWNPAVELQAIDRAHRIGQK 810
Score = 35.9 bits (82), Expect = 0.20
Identities = 21/104 (20%), Positives = 35/104 (33%), Gaps = 8/104 (7%)
Query: 1073 ILQHPGRTLVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSILL 1132
H + L+F + L L L + L S ++R + +DRF +
Sbjct: 707 EEGHYHKVLIFSQFTPVLDLLEDYLKALGIKYVRLDGSTPAKRRQELIDRFNADEEEKVF 766
Query: 1133 ATDVAARGLDIPGIE--HVIHY------HVPRTSEIYIHRSGRT 1168
+ A GL + VI + V + HR G+
Sbjct: 767 LLSLKAGGLGLNLTGADTVILFDPWWNPAVELQAIDRAHRIGQK 810
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 35.7 bits (83), Expect = 0.20
Identities = 21/72 (29%), Positives = 35/72 (48%)
Query: 10 PKTTAKVKDGGVKKKRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGINVT 69
K K V+K KK++ K + K K ++ E EEE E+ E +KE+ E
Sbjct: 405 SKKATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEE 464
Query: 70 VSSKKKKLKRKQ 81
++++ K+KQ
Sbjct: 465 EKEEEEEKKKKQ 476
Score = 34.5 bits (80), Expect = 0.41
Identities = 20/82 (24%), Positives = 37/82 (45%), Gaps = 5/82 (6%)
Query: 5 VVIGAPKTTAKVKDGGVKKKRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTE 64
+ G+ K T K+K K K +K + + K K K + EEE EE + KE+ +
Sbjct: 401 FLTGSKKATKKIK----KIVEKAEKKREEEKKEKKKKAFAGKKKEEEE-EEEKEKKEEEK 455
Query: 65 GINVTVSSKKKKLKRKQNPSQV 86
+ ++K+ + ++ Q
Sbjct: 456 EEEEEEAEEEKEEEEEKKKKQA 477
Score = 33.7 bits (78), Expect = 0.71
Identities = 19/83 (22%), Positives = 38/83 (45%), Gaps = 4/83 (4%)
Query: 49 NEEEVEEAEADKEKTEGINVTVSSKKKKLKRKQNPSQVEVSELSANTNDPDDQVNKTEE- 107
EEE+E K+ T+ I V +KK + ++ + + + +++ K EE
Sbjct: 395 TEEEIEFLTGSKKATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEE 454
Query: 108 ---IQSDEPSSKKLKQKKKKKQT 127
+ + K+ +++KKKKQ
Sbjct: 455 KEEEEEEAEEEKEEEEEKKKKQA 477
>gnl|CDD|220271 pfam09507, CDC27, DNA polymerase subunit Cdc27. This protein forms
the C subunit of DNA polymerase delta. It carries the
essential residues for binding to the Pol1 subunit of
polymerase alpha, from residues 293-332, which are
characterized by the motif D--G--VT, referred to as the
DPIM motif. The first 160 residues of the protein form
the minimal domain for binding to the B subunit, Cdc1,
of polymerase delta, the final 10 C-terminal residues,
362-372, being the DNA sliding clamp, PCNA, binding
motif.
Length = 427
Score = 35.2 bits (81), Expect = 0.25
Identities = 18/103 (17%), Positives = 39/103 (37%)
Query: 24 KRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGINVTVSSKKKKLKRKQNP 83
+ K K + +K E + V+ A + + N+ S KKK K K+
Sbjct: 173 SPEVKVKSAKKTQDTSKETTTEKTEGKTSVKAASLKRNPPKKSNIMSSFFKKKTKEKKEK 232
Query: 84 SQVEVSELSANTNDPDDQVNKTEEIQSDEPSSKKLKQKKKKKQ 126
+ S + + + + + E +S EP+ + + + +
Sbjct: 233 KEASESTVKEESEEESGKRDVILEDESAEPTGLDEDEDEDEPK 275
>gnl|CDD|224035 COG1110, COG1110, Reverse gyrase [DNA replication, recombination, and
repair].
Length = 1187
Score = 35.8 bits (83), Expect = 0.25
Identities = 47/234 (20%), Positives = 81/234 (34%), Gaps = 61/234 (26%)
Query: 1116 RLKNLDRFRDQNNSILLAT----DVAARGLDIPG-IEHVIHYHVPRTS------EIYIHR 1164
+ + L+ F + +L+ V RGLD+P I + + Y VP+ E R
Sbjct: 372 KEEALEDFEEGEVDVLVGVASYYGVLVRGLDLPHRIRYAVFYGVPKFRFRLTLEESDPKR 431
Query: 1165 SGRTARANNEGLTLVLIESDEIPLYIKM-----------FNSLEKKVDLPDFPIDESVLS 1213
A L+ S L ++ L K PD +D +
Sbjct: 432 LLYLLSA----LSDREARSRLEGLAGRLRRIIRRLSPYSLLKLMKLKKRPD--VDRHLAE 485
Query: 1214 LIKKRIDLAKSIEYLESKIKKNR------------------PD--NWLHRSGRTARANNE 1253
++ + + + E ++KK PD ++ SGRT+R
Sbjct: 486 EVRTLAEFVRELLKDEERVKKIAESADLVLVYEEGELYLEVPDVRTYIQASGRTSRLYAG 545
Query: 1254 GLTL---VLIESDEIPLYIKMFNSLEKKVDL--PDF---PIDESVLSLIKKRID 1299
GLT V++ D ++F L K++ + I E L + + ID
Sbjct: 546 GLTKGLSVVLVDDP-----EVFEGLIKRMSWKFIEIEFKEISEVDLEELLREID 594
Score = 30.4 bits (69), Expect = 9.5
Identities = 31/168 (18%), Positives = 60/168 (35%), Gaps = 25/168 (14%)
Query: 879 ALILAPTRELAIQVQNHILD-AGKYTPVKVACVVGGMSTEKQL-----RILNKCPHILVA 932
I+ PT L QV + A + V V K+ RI + IL+
Sbjct: 128 VYIIVPTTTLVRQVYERLKKFAEDAGSLDVLVVYHSALPTKEKEEALERIESGDFDILIT 187
Query: 933 TPGRLWEFIQLGHFHLTELYKINYLVIDETDRMIESGHFPELKNILDRVTMTETSQPRQT 992
T L + F K +++ +D+ D ++++ KN+ DR+
Sbjct: 188 TSQFLSK-----RFEELSKLKFDFIFVDDVDAILKAS-----KNV-DRLLR--------L 228
Query: 993 FVFSATLTHSLKNSLNLKKGQSKSKKVSKGDPSIKRLQDLLNIKSPKI 1040
FS + S + L++ K+ + ++ ++ K K+
Sbjct: 229 LGFSEEVIESAYELIKLRRKLYGEKRAERVREELREVEREREKKRRKL 276
>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common
bacterial type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. This family
represents the SMC protein of most bacteria. The smc
gene is often associated with scpB (TIGR00281) and scpA
genes, where scp stands for segregation and condensation
protein. SMC was shown (in Caulobacter crescentus) to be
induced early in S phase but present and bound to DNA
throughout the cell cycle [Cellular processes, Cell
division, DNA metabolism, Chromosome-associated
proteins].
Length = 1179
Score = 35.4 bits (82), Expect = 0.31
Identities = 24/131 (18%), Positives = 53/131 (40%), Gaps = 7/131 (5%)
Query: 21 VKKKRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGINV-------TVSSK 73
++ K + +++ K + +E E+ E E+EE EA+ E+ E T+ SK
Sbjct: 328 LESKLDELAEELAELEEKLEELKEELESLEAELEELEAELEELESRLEELEEQLETLRSK 387
Query: 74 KKKLKRKQNPSQVEVSELSANTNDPDDQVNKTEEIQSDEPSSKKLKQKKKKKQTYTSANK 133
+L+ + E+ L A +D+ + ++ + + + K+ + +
Sbjct: 388 VAQLELQIASLNNEIERLEARLERLEDRRERLQQEIEELLKKLEEAELKELQAELEELEE 447
Query: 134 ELLEVDTSNNE 144
EL E+
Sbjct: 448 ELEELQEELER 458
>gnl|CDD|224557 COG1643, HrpA, HrpA-like helicases [DNA replication, recombination,
and repair].
Length = 845
Score = 35.0 bits (81), Expect = 0.33
Identities = 20/80 (25%), Positives = 39/80 (48%), Gaps = 4/80 (5%)
Query: 542 QHPGRTLVFCNSISSVKRLTQLLTMLKCSP----LPLHASMNQRQRLKNLDRFRDQNNSI 597
+ G LVF ++R + L + LPL+ +++ ++++ + +
Sbjct: 257 EGSGSILVFLPGQREIERTAEWLEKAELGDDLEILPLYGALSAEEQVRVFEPAPGGKRKV 316
Query: 598 LLATDVAARGLDIPGIEHVI 617
+LAT++A L IPGI +VI
Sbjct: 317 VLATNIAETSLTIPGIRYVI 336
Score = 35.0 bits (81), Expect = 0.33
Identities = 20/80 (25%), Positives = 39/80 (48%), Gaps = 4/80 (5%)
Query: 1075 QHPGRTLVFCNSISSVKRLTQLLTMLKCSP----LPLHASMNQRQRLKNLDRFRDQNNSI 1130
+ G LVF ++R + L + LPL+ +++ ++++ + +
Sbjct: 257 EGSGSILVFLPGQREIERTAEWLEKAELGDDLEILPLYGALSAEEQVRVFEPAPGGKRKV 316
Query: 1131 LLATDVAARGLDIPGIEHVI 1150
+LAT++A L IPGI +VI
Sbjct: 317 VLATNIAETSLTIPGIRYVI 336
>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3. This
protein, which interacts with both microtubules and
TRAF3 (tumour necrosis factor receptor-associated factor
3), is conserved from worms to humans. The N-terminal
region is the microtubule binding domain and is
well-conserved; the C-terminal 100 residues, also
well-conserved, constitute the coiled-coil region which
binds to TRAF3. The central region of the protein is
rich in lysine and glutamic acid and carries KKE motifs
which may also be necessary for tubulin-binding, but
this region is the least well-conserved.
Length = 506
Score = 34.9 bits (80), Expect = 0.33
Identities = 47/250 (18%), Positives = 79/250 (31%), Gaps = 8/250 (3%)
Query: 8 GAPKTTAKVKDGGVKKKRKKKKP-LKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGI 66
+ + K K K + K K + K K P +E E ++ E + ++EK
Sbjct: 109 EKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPRDREEEKKRER 168
Query: 67 NVTVSSKKKKLKRKQNPSQVEVSELSANTNDPDDQVNKTEEIQSDEPSSKKLKQKKKKKQ 126
S KK K+K + E E + V E +K + K ++
Sbjct: 169 VRAKSRPKKPPKKKPPNKKKEPPEEEKQRQAAREAVKGKPEEPDVNEEREKEEDDGKDRE 228
Query: 127 TYTSANKELLEVDTSNNEDMFVQMAEWVKFNIPETIIRALYQKGFKTPTKIQSMVM---P 183
T TS +E E S+ + P + +T T+ ++ +
Sbjct: 229 TTTSPMEE-DESRQSSEISRRSSSSLKKPDPSPSMASPETRESSKRTETRPRTSLRPPSA 287
Query: 184 SALLARKDIVGAAETGSGKTLAFGIPILTGIVN--KLENPTEEDENDSGLEEEAEEVLEE 241
AR L + IV+ LE EDE+D EA +
Sbjct: 288 RPASARPAPPRVKRKEIVTVLQ-DAQGVGKIVSNVILEGKKSEDEDDENFVVEAAAQAPD 346
Query: 242 LEEESANTTE 251
+ + E
Sbjct: 347 IVAGGEDEAE 356
Score = 31.0 bits (70), Expect = 5.9
Identities = 22/133 (16%), Positives = 48/133 (36%)
Query: 14 AKVKDGGVKKKRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGINVTVSSK 73
AK K+ +K+K + K K K +E + + EEA+ + E
Sbjct: 95 AKEPKNESGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKV 154
Query: 74 KKKLKRKQNPSQVEVSELSANTNDPDDQVNKTEEIQSDEPSSKKLKQKKKKKQTYTSANK 133
++ R++ + V S P + ++ +E ++ ++ K +
Sbjct: 155 EEPRDREEEKKRERVRAKSRPKKPPKKKPPNKKKEPPEEEKQRQAAREAVKGKPEEPDVN 214
Query: 134 ELLEVDTSNNEDM 146
E E + + +D
Sbjct: 215 EEREKEEDDGKDR 227
>gnl|CDD|237258 PRK12903, secA, preprotein translocase subunit SecA; Reviewed.
Length = 925
Score = 35.0 bits (81), Expect = 0.34
Identities = 24/100 (24%), Positives = 39/100 (39%), Gaps = 12/100 (12%)
Query: 645 VVLIESDEIPLKTKFNLQEEENNEEEERAEADKEKTEDINVTVSSKKKKLKRKQNPSQVE 704
+ LI ++ LK + L+ E E EE + E + V + KKL + V
Sbjct: 836 LELINEEQKNLKQEIKLELSEIQEAEEEIQNINENKNE-FVEFKNDPKKLNKLIIAKDVL 894
Query: 705 VSELSANTNDPDDQVNKTEEIQSDEPHSKKLKQKKKKKQT 744
V ++EI+ DE +KK K+ +K
Sbjct: 895 -----------IKLVISSDEIKQDEKTTKKKKKDLEKTDE 923
Score = 33.5 bits (77), Expect = 1.1
Identities = 22/102 (21%), Positives = 40/102 (39%), Gaps = 15/102 (14%)
Query: 26 KKKKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGINVTVSSKKKKLKRKQNPSQ 85
+ + +K + K L E + EEE++ +K + V + KKL +
Sbjct: 837 ELINEEQKNLKQEIKLELSEIQEAEEEIQNINENKNE----FVEFKNDPKKLNKLIIAKD 892
Query: 86 VEVSELSANTNDPDDQVNKTEEIQSDEPSSKKLKQKKKKKQT 127
V V ++EI+ DE ++KK K+ +K
Sbjct: 893 VL-----------IKLVISSDEIKQDEKTTKKKKKDLEKTDE 923
>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional.
Length = 1388
Score = 35.0 bits (81), Expect = 0.39
Identities = 30/137 (21%), Positives = 46/137 (33%), Gaps = 1/137 (0%)
Query: 10 PKTTAKVKDGGVKKKRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGINVT 69
L + K K P A D E G +
Sbjct: 1244 KSKKNNSSKSSEDNDEFSSDDLSKEGKPKNAPKRVSAVQYSPPPPSKRPDGESNGGSKPS 1303
Query: 70 VSSKKKKLKRKQNPSQVEVSELSANTNDPDDQVNKTEEIQ-SDEPSSKKLKQKKKKKQTY 128
+KKK KR + + + + +KT Q S SS+ L++ +KKK
Sbjct: 1304 SPTKKKVKKRLEGSLAALKKKKKSEKKTARKKKSKTRVKQASASQSSRLLRRPRKKKSDS 1363
Query: 129 TSANKELLEVDTSNNED 145
+S + + EVD S +ED
Sbjct: 1364 SSEDDDDSEVDDSEDED 1380
>gnl|CDD|215590 PLN03123, PLN03123, poly [ADP-ribose] polymerase; Provisional.
Length = 981
Score = 34.8 bits (80), Expect = 0.41
Identities = 29/119 (24%), Positives = 47/119 (39%), Gaps = 15/119 (12%)
Query: 28 KKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGINVTVSSKKKKLKRKQNPSQVE 87
++ + VK K+ +E + E + E + K K + + SKK K R + S
Sbjct: 176 QEAVLPLVK-KSPSEAKEEKAEERKQESKKGAKRKKDA-SGDDKSKKAKTDRDVSTSTA- 232
Query: 88 VSELSANTNDPDDQVNKTEEIQSDEPSSKKLKQKKKKKQTYTSANKELLEVDTSNNEDM 146
++ D + E QS E S K KK T+ +E+LE N +D
Sbjct: 233 ----ASQKKSSDLE--SKLEAQSKELWSLK---DDLKKHVSTAELREMLEA---NGQDT 279
Score = 34.0 bits (78), Expect = 0.82
Identities = 26/108 (24%), Positives = 45/108 (41%), Gaps = 13/108 (12%)
Query: 656 KTKFNLQEEENNEEEERAEADKEKTEDINVTVSSKKKKLKRKQNPSQVEVSELSANTNDP 715
K+ +EE+ E ++ ++ ++ +D + SKK K R + S ++
Sbjct: 185 KSPSEAKEEKAEERKQESKKGAKRKKDASGDDKSKKAKTDRDVSTSTA-----ASQKKSS 239
Query: 716 DDQVNKTEEIQSDEPHSKKLKQKKKKKQTYTSANKELLEVDTSNNEDM 763
D + E QS E S K KK T+ +E+LE N +D
Sbjct: 240 DLE--SKLEAQSKELWSLK---DDLKKHVSTAELREMLEA---NGQDT 279
>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 = 34.7 bits (80), Expect = 0.45
Identities = 23/85 (27%), Positives = 40/85 (47%), Gaps = 15/85 (17%)
Query: 542 QHPGRTLVFCNSISSVKRLTQLLT------MLKCSPLPLHASMN---QRQRLKNLDRFRD 592
G LVF + ++R+ + L +L C PL+ ++ Q + +K + R
Sbjct: 207 SETGSILVFLPGQAEIRRVQEQLAERLDSDVLIC---PLYGELSLAAQDRAIKPDPQGRR 263
Query: 593 QNNSILLATDVAARGLDIPGIEHVI 617
+ ++LAT++A L I GI VI
Sbjct: 264 K---VVLATNIAETSLTIEGIRVVI 285
Score = 34.7 bits (80), Expect = 0.45
Identities = 23/85 (27%), Positives = 40/85 (47%), Gaps = 15/85 (17%)
Query: 1075 QHPGRTLVFCNSISSVKRLTQLLT------MLKCSPLPLHASMN---QRQRLKNLDRFRD 1125
G LVF + ++R+ + L +L C PL+ ++ Q + +K + R
Sbjct: 207 SETGSILVFLPGQAEIRRVQEQLAERLDSDVLIC---PLYGELSLAAQDRAIKPDPQGRR 263
Query: 1126 QNNSILLATDVAARGLDIPGIEHVI 1150
+ ++LAT++A L I GI VI
Sbjct: 264 K---VVLATNIAETSLTIEGIRVVI 285
>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 = 34.7 bits (80), Expect = 0.45
Identities = 20/67 (29%), Positives = 33/67 (49%), Gaps = 6/67 (8%)
Query: 151 AEWVKFNIPETIIRALYQKGFKTPTKIQSMVMPSALLAR--KDIVGAAETGSGKTLAFGI 208
A W + ++ AL G P + Q+ A LA + +V A T SGK+LA+ +
Sbjct: 15 APWPAW-AHPDVVAALEAAGIHRPWQHQARA---AELAHAGRHVVVATGTASGKSLAYQL 70
Query: 209 PILTGIV 215
P+L+ +
Sbjct: 71 PVLSALA 77
Score = 34.7 bits (80), Expect = 0.45
Identities = 20/67 (29%), Positives = 33/67 (49%), Gaps = 6/67 (8%)
Query: 768 AEWVKFNIPETIIRALYQKGFKTPTKIQSMVMPSALLAR--KDIVGAAETGSGKTLAFGI 825
A W + ++ AL G P + Q+ A LA + +V A T SGK+LA+ +
Sbjct: 15 APWPAW-AHPDVVAALEAAGIHRPWQHQARA---AELAHAGRHVVVATGTASGKSLAYQL 70
Query: 826 PILTGIV 832
P+L+ +
Sbjct: 71 PVLSALA 77
>gnl|CDD|226583 COG4098, comFA, Superfamily II DNA/RNA helicase required for DNA
uptake (late competence protein) [DNA replication,
recombination, and repair].
Length = 441
Score = 34.4 bits (79), Expect = 0.53
Identities = 60/294 (20%), Positives = 108/294 (36%), Gaps = 56/294 (19%)
Query: 928 HILVATPGRLWEFIQLGHFHLTELYKINYLVIDETDRMIESGHFPELKNILDRVTMTETS 987
++VAT +L F Q F L L+IDE D FP + + + +
Sbjct: 187 PLVVATTHQLLRFKQ--AFDL--------LIIDEVDA------FPFSDDQSLQYAVKKAR 230
Query: 988 QPRQTFVF-SATLTHSLKNSLNLKKGQSKSKKVSKGDPSIKRLQDLLNIKSPKIVDLTEK 1046
+ ++ +AT T L+ + KG + K+ R P V
Sbjct: 231 KKEGATIYLTATPTKKLERKIL--KGNLRILKLPA------RFH-----GKPLPVPKFVW 277
Query: 1047 IG-ITKTLTESKILCKHDEKDSYLYYFILQH--PGR-TLVFCNSISSVKRLTQLLTMLKC 1102
IG K L +K+ K L ++ + GR L+F I +++++ L
Sbjct: 278 IGNWNKKLQRNKLPLK-------LKRWLEKQRKTGRPVLIFFPEIETMEQVAAALKKKLP 330
Query: 1103 SPLPLHASMNQRQRLKNLDRFRDQNNSILLATDVAARGLDIPGIEHVI--HYHVPRTSEI 1160
+ R + ++ FRD ++L+ T + RG+ P ++ + H T
Sbjct: 331 KETIASVHSEDQHRKEKVEAFRDGKITLLITTTILERGVTFPNVDVFVLGAEHRVFTESA 390
Query: 1161 YIHRSGRTARAN----------NEGLTLVLIESDEIPLYIKMFNSLEKKVDLPD 1204
+ +GR R+ + G + + ++ + IK N L K L D
Sbjct: 391 LVQIAGRVGRSLERPTGDVLFFHYGKSKAMKQARK---EIKEMNKLGFKRGLID 441
Score = 30.9 bits (70), Expect = 5.9
Identities = 18/93 (19%), Positives = 38/93 (40%), Gaps = 2/93 (2%)
Query: 547 TLVFCNSISSVKRLTQLLTMLKCSPLPLHASMNQRQRLKNLDRFRDQNNSILLATDVAAR 606
L+F I +++++ L + R + ++ FRD ++L+ T + R
Sbjct: 308 VLIFFPEIETMEQVAAALKKKLPKETIASVHSEDQHRKEKVEAFRDGKITLLITTTILER 367
Query: 607 GLDIPGIEHVI--HYHVPRTSEIYIHRSGRTAR 637
G+ P ++ + H T + +GR R
Sbjct: 368 GVTFPNVDVFVLGAEHRVFTESALVQIAGRVGR 400
>gnl|CDD|114629 pfam05917, DUF874, Helicobacter pylori protein of unknown function
(DUF874). This family consists of several hypothetical
proteins specific to Helicobacter pylori. The function
of this family is unknown.
Length = 417
Score = 34.1 bits (77), Expect = 0.66
Identities = 19/85 (22%), Positives = 42/85 (49%)
Query: 656 KTKFNLQEEENNEEEERAEADKEKTEDINVTVSSKKKKLKRKQNPSQVEVSELSANTNDP 715
K+ L++EE E+E+ + +KE E N + ++++K K +Q + E + +
Sbjct: 146 KSGIELEQEEQKTEQEKQKTEKEGIELANSQIKAEQEKQKTEQEKQKTEQEKQKTSNIAN 205
Query: 716 DDQVNKTEEIQSDEPHSKKLKQKKK 740
+ + +E Q E + L +++K
Sbjct: 206 KNAIELEQEKQKTENEKQDLIKEQK 230
Score = 33.7 bits (76), Expect = 0.83
Identities = 20/88 (22%), Positives = 37/88 (42%)
Query: 637 RANNEGLTVVLIESDEIPLKTKFNLQEEENNEEEERAEADKEKTEDINVTVSSKKKKLKR 696
RAN G+ + E K K + E + +AE +K+KTE +K+K
Sbjct: 143 RANKSGIELEQEEQKTEQEKQKTEKEGIELANSQIKAEQEKQKTEQEKQKTEQEKQKTSN 202
Query: 697 KQNPSQVEVSELSANTNDPDDQVNKTEE 724
N + +E+ + T + + K ++
Sbjct: 203 IANKNAIELEQEKQKTENEKQDLIKEQK 230
>gnl|CDD|185272 PRK15374, PRK15374, pathogenicity island 1 effector protein SipB;
Provisional.
Length = 593
Score = 33.8 bits (77), Expect = 0.83
Identities = 15/84 (17%), Positives = 29/84 (34%), Gaps = 5/84 (5%)
Query: 52 EVEEAEADKEKTEGINVTVSSKKKKLKRKQNPSQVEVSELSANTNDPDDQVNKTEEIQSD 111
E +EA E + T S ++K +Q ++ L DP D E +
Sbjct: 135 EAQEATDLYEASIKKTDTAKSVYDAAEKKLTQAQNKLQSL-----DPADPGYAQAEAAVE 189
Query: 112 EPSSKKLKQKKKKKQTYTSANKEL 135
+ + + K+ + + K
Sbjct: 190 QAGKEATEAKEALDKATDATVKAG 213
>gnl|CDD|220102 pfam09073, BUD22, BUD22. BUD22 has been shown in yeast to be a
nuclear protein involved in bud-site selection. It plays
a role in positioning the proximal bud pole signal. More
recently it has been shown to be involved in ribosome
biogenesis.
Length = 424
Score = 33.3 bits (76), Expect = 1.0
Identities = 29/149 (19%), Positives = 50/149 (33%), Gaps = 19/149 (12%)
Query: 14 AKVKDGGVKKKRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEA---EADKEKTEGINVTV 70
++ K K KKK K K + K + + + E E E+ E E
Sbjct: 140 LGIETKAKKGKAKKKT--KKSKKKEAKESSDKDDEEESESEDESKSEESAEDDSDDEEEE 197
Query: 71 SSKKKKLKR-------------KQNPSQVEVSE-LSANTNDPDDQVNKTEEIQSDEPSSK 116
S + + + + +E S + +D D SD S
Sbjct: 198 DSDSEDYSQYDGMLVDSSDEEEGEEAPSINYNEDTSESESDESDSEISESRSVSDSEESS 257
Query: 117 KLKQKKKKKQTYTSANKELLEVDTSNNED 145
+K K+K+T ++ L+ S +ED
Sbjct: 258 PPSKKPKEKKTSSTFLPSLMGGYFSGSED 286
>gnl|CDD|218752 pfam05793, TFIIF_alpha, Transcription initiation factor IIF, alpha
subunit (TFIIF-alpha). Transcription initiation factor
IIF, alpha subunit (TFIIF-alpha) or RNA polymerase
II-associating protein 74 (RAP74) is the large subunit
of transcription factor IIF (TFIIF), which is essential
for accurate initiation and stimulates elongation by RNA
polymerase II.
Length = 528
Score = 33.4 bits (76), Expect = 1.1
Identities = 22/96 (22%), Positives = 38/96 (39%), Gaps = 12/96 (12%)
Query: 30 PLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGINVTVSSKKKKLKR-KQNPSQVEV 88
+ S P E E +E+ E E E+ G+ S K KKLK+ K + ++
Sbjct: 298 EEREDKLSPEIPAKPEIEQDEDSEESEEEKNEEEGGL----SKKGKKLKKLKGKKNGLDK 353
Query: 89 SELSANTNDPDDQVNKTEEIQSDEPSSKKLKQKKKK 124
+ + + D ++ E S + KK+K
Sbjct: 354 DDSDSGDDSDDSDID-------GEDSVSLVTAKKQK 382
>gnl|CDD|234057 TIGR02915, PEP_resp_reg, PEP-CTERM-box response regulator
transcription factor. Members of this protein family
share full-length homology with (but do not include) the
acetoacetate metabolism regulatory protein AtoC (see
SP|Q06065). These proteins have a Fis family DNA binding
sequence (pfam02954), a response regulator receiver
domain (pfam00072), and sigma-54 interaction domain
(pfam00158) [Regulatory functions, DNA interactions].
Length = 445
Score = 33.2 bits (76), Expect = 1.3
Identities = 43/169 (25%), Positives = 70/169 (41%), Gaps = 21/169 (12%)
Query: 312 ILVATPGRLWEFIQLGHFHLTELYKINYLVID-------ETDRMIESGHFPE-LKNILDR 363
I+ AT L I G F Y+I + I + D ++ + F E L R
Sbjct: 277 IVCATNQDLKRMIAEGTFREDLFYRIAEISITIPPLRSRDGDAVLLANAFLERFARELKR 336
Query: 364 VTMTETSQPRQTMIESGHFP----ELKNILDR-VTMTETSQ-PRQTFVFSATLTHSLKNS 417
T T + +E+ +P EL+N + R V M E +Q + A
Sbjct: 337 KTKGFTDDALRA-LEAHAWPGNVRELENKVKRAVIMAEGNQITAEDLGLDARERAETPLE 395
Query: 418 LNLKKGQSK------SKKVSKGDPSIKRLQDLLNIKSPKIVDLTEKIGI 460
+NL++ + + K +++ D +I R +LL I P + DL +K GI
Sbjct: 396 VNLREVRERAEREAVRKAIARVDGNIARAAELLGITRPTLYDLMKKHGI 444
Score = 30.9 bits (70), Expect = 5.7
Identities = 25/89 (28%), Positives = 42/89 (47%), Gaps = 8/89 (8%)
Query: 969 GHFPELKNILDR-VTMTETSQ-PRQTFVFSATLTHSLKNSLNLKKGQSK------SKKVS 1020
G+ EL+N + R V M E +Q + A +NL++ + + K ++
Sbjct: 356 GNVRELENKVKRAVIMAEGNQITAEDLGLDARERAETPLEVNLREVRERAEREAVRKAIA 415
Query: 1021 KGDPSIKRLQDLLNIKSPKIVDLTEKIGI 1049
+ D +I R +LL I P + DL +K GI
Sbjct: 416 RVDGNIARAAELLGITRPTLYDLMKKHGI 444
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 33.4 bits (76), Expect = 1.3
Identities = 24/100 (24%), Positives = 45/100 (45%), Gaps = 4/100 (4%)
Query: 47 ENNEEEVEEAEADKEKTEGINVTVSSKKKKLKRKQNPSQVEVSELSANTND-PDDQVNKT 105
E+ + + E++ + E V+ + + + S+ E +L ND P+D N
Sbjct: 3844 EDTANQSDLDESEARELESDMNGVTKDSVVSENENSDSEEENQDLDEEVNDIPEDLSNSL 3903
Query: 106 EEIQSDEPSSKKLKQKKKKKQTYTSANKELLEVDTSNNED 145
E DEP+ + L + ++K ++AN E D + ED
Sbjct: 3904 NEKLWDEPNEEDLLETEQKSNEQSAANN---ESDLVSKED 3940
Score = 32.7 bits (74), Expect = 2.4
Identities = 27/103 (26%), Positives = 46/103 (44%), Gaps = 13/103 (12%)
Query: 662 QEEENNEEEERAEADKE-KTEDINVTVSSKKKKLKRKQNPSQVEVSELSANTND-PDDQV 719
Q + + E E+D T+D V+ + + + S+ E +L ND P+D
Sbjct: 3849 QSDLDESEARELESDMNGVTKDSVVS--------ENENSDSEEENQDLDEEVNDIPEDLS 3900
Query: 720 NKTEEIQSDEPHSKKLKQKKKKKQTYTSANKELLEVDTSNNED 762
N E DEP+ + L + ++K ++AN E D + ED
Sbjct: 3901 NSLNEKLWDEPNEEDLLETEQKSNEQSAANN---ESDLVSKED 3940
>gnl|CDD|182986 PRK11131, PRK11131, ATP-dependent RNA helicase HrpA; Provisional.
Length = 1294
Score = 33.1 bits (76), Expect = 1.6
Identities = 21/54 (38%), Positives = 28/54 (51%), Gaps = 18/54 (33%)
Query: 572 LPLHASMNQRQRLKNLDRFRDQN--------NSILLATDVAARGLDIPGIEHVI 617
LPL+A RL N +QN I+LAT+VA L +PGI++VI
Sbjct: 317 LPLYA------RLSN----SEQNRVFQSHSGRRIVLATNVAETSLTVPGIKYVI 360
Score = 33.1 bits (76), Expect = 1.6
Identities = 21/54 (38%), Positives = 28/54 (51%), Gaps = 18/54 (33%)
Query: 1105 LPLHASMNQRQRLKNLDRFRDQN--------NSILLATDVAARGLDIPGIEHVI 1150
LPL+A RL N +QN I+LAT+VA L +PGI++VI
Sbjct: 317 LPLYA------RLSN----SEQNRVFQSHSGRRIVLATNVAETSLTVPGIKYVI 360
>gnl|CDD|218148 pfam04557, tRNA_synt_1c_R2, Glutaminyl-tRNA synthetase,
non-specific RNA binding region part 2. This is a
region found N terminal to the catalytic domain of
glutaminyl-tRNA synthetase (EC 6.1.1.18) in eukaryotes
but not in Escherichia coli. This region is thought to
bind RNA in a non-specific manner, enhancing
interactions between the tRNA and enzyme, but is not
essential for enzyme function.
Length = 83
Score = 30.0 bits (68), Expect = 1.7
Identities = 16/42 (38%), Positives = 20/42 (47%), Gaps = 4/42 (9%)
Query: 10 PKTTAKVKDGGVKKKRKKKKPLKTKVKSKTKPNLQEAENNEE 51
PKT A + VKKK+KKKK + K AE+ E
Sbjct: 16 PKTEADL----VKKKKKKKKKKAEDTAATAKAKKATAEDVSE 53
>gnl|CDD|234659 PRK00137, rplI, 50S ribosomal protein L9; Reviewed.
Length = 147
Score = 31.2 bits (72), Expect = 1.9
Identities = 13/30 (43%), Positives = 18/30 (60%)
Query: 44 QEAENNEEEVEEAEADKEKTEGINVTVSSK 73
+ EE+ EAEA EK EG+ VT+ +K
Sbjct: 53 ELEAKAAEELAEAEALAEKLEGLTVTIKAK 82
>gnl|CDD|219563 pfam07767, Nop53, Nop53 (60S ribosomal biogenesis). This nucleolar
family of proteins are involved in 60S ribosomal
biogenesis. They are specifically involved in the
processing beyond the 27S stage of 25S rRNA maturation.
This family contains sequences that bear similarity to
the glioma tumour suppressor candidate region gene 2
protein (p60). This protein has been found to interact
with herpes simplex type 1 regulatory proteins.
Length = 387
Score = 32.4 bits (74), Expect = 1.9
Identities = 24/120 (20%), Positives = 53/120 (44%), Gaps = 11/120 (9%)
Query: 12 TTAKVKDGGVKKKRKKKKPLKTKV----KSKTKPNLQEAENNEEEVEEAEADKEKTEGIN 67
TT K+++K KKPLK+ +SK + + ++ ++ K+K++ ++
Sbjct: 47 TTGDEATIKKKRRKKLKKPLKSDEILENRSKVPAPSVKKRHVKK-----KSKKKKSKQVS 101
Query: 68 VTVSSKKKKLKRKQNPSQVEVSELSANTNDP--DDQVNKTEEIQSDEPSSKKLKQKKKKK 125
+ KKL R + + ++ S + D +++ T + + + L+Q KK
Sbjct: 102 RKELLRLKKLARGKKGGKAKLLNASKDNYDLWGEEEPPDTPKWPKKDLAEHTLEQVAKKT 161
>gnl|CDD|217502 pfam03343, SART-1, SART-1 family. SART-1 is a protein involved in
cell cycle arrest and pre-mRNA splicing. It has been
shown to be a component of U4/U6 x U5 tri-snRNP complex
in human, Schizosaccharomyces pombe and Saccharomyces
cerevisiae. SART-1 is a known tumour antigen in a range
of cancers recognised by T cells.
Length = 603
Score = 32.4 bits (74), Expect = 2.4
Identities = 26/104 (25%), Positives = 44/104 (42%), Gaps = 16/104 (15%)
Query: 22 KKKRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGINVTVSSKKKKLKRKQ 81
KK KKKK K K + + E E ++ + K+ E S KK+ + ++
Sbjct: 275 FKKPKKKKKKKKKRRKDLDEDELEPEAEGLGSSDSGSRKDVEEENARLEDSPKKRKEEQE 334
Query: 82 NPSQVEVSELSANTNDPDDQVNKTEEIQSDEPSSKKLKQKKKKK 125
+ VE DD +++Q+ ++L QKK+KK
Sbjct: 335 DDDFVE-----------DD-----DDLQASLAKQRRLAQKKRKK 362
Score = 30.9 bits (70), Expect = 6.0
Identities = 17/93 (18%), Positives = 36/93 (38%)
Query: 652 EIPLKTKFNLQEEENNEEEERAEADKEKTEDINVTVSSKKKKLKRKQNPSQVEVSELSAN 711
E+ K K N +++ E A + +E + KKKK K+K+ E
Sbjct: 242 EVKKKLKINNVSLDDDSTETPASDYYDVSEMVKFKKPKKKKKKKKKRRKDLDEDELEPEA 301
Query: 712 TNDPDDQVNKTEEIQSDEPHSKKLKQKKKKKQT 744
++++ + + +K+K++Q
Sbjct: 302 EGLGSSDSGSRKDVEEENARLEDSPKKRKEEQE 334
>gnl|CDD|233032 TIGR00580, mfd, transcription-repair coupling factor (mfd). All
proteins in this family for which functions are known are
DNA-dependent ATPases that function in the process of
transcription-coupled DNA repair in which the repair of
the transcribed strand of actively transcribed genes is
repaired at a higher rate than the repair of
non-transcribed regions of the genome and than the
non-transcribed strand of the same gene. This family is
based on the phylogenomic analysis of JA Eisen (1999,
Ph.D. Thesis, Stanford University). This family is
closely related to the RecG and UvrB families [DNA
metabolism, DNA replication, recombination, and repair].
Length = 926
Score = 32.3 bits (74), Expect = 2.8
Identities = 24/115 (20%), Positives = 46/115 (40%), Gaps = 11/115 (9%)
Query: 1078 GRTLVFCNSISSVKRLTQLLTML--KCSPLPLHASMNQRQRLKNLDRFRDQNNSILLATD 1135
G+ N I S+++L L L + H M + + + + F +L+ T
Sbjct: 661 GQVFYVHNRIESIEKLATQLRELVPEARIAIAHGQMTENELEEVMLEFYKGEFQVLVCTT 720
Query: 1136 VAARGLDIPG-----IEHVIHYHVPRTSEIYIHRSGRTARANNEGLTLVLIESDE 1185
+ G+DIP IE + + +++Y R GR R+ + +L +
Sbjct: 721 IIETGIDIPNANTIIIERADKFGL---AQLYQLR-GRVGRSKKKAYAYLLYPHQK 771
Score = 31.9 bits (73), Expect = 3.0
Identities = 24/115 (20%), Positives = 46/115 (40%), Gaps = 11/115 (9%)
Query: 545 GRTLVFCNSISSVKRLTQLLTML--KCSPLPLHASMNQRQRLKNLDRFRDQNNSILLATD 602
G+ N I S+++L L L + H M + + + + F +L+ T
Sbjct: 661 GQVFYVHNRIESIEKLATQLRELVPEARIAIAHGQMTENELEEVMLEFYKGEFQVLVCTT 720
Query: 603 VAARGLDIPG-----IEHVIHYHVPRTSEIYIHRSGRTARANNEGLTVVLIESDE 652
+ G+DIP IE + + +++Y R GR R+ + +L +
Sbjct: 721 IIETGIDIPNANTIIIERADKFGL---AQLYQLR-GRVGRSKKKAYAYLLYPHQK 771
>gnl|CDD|220267 pfam09494, Slx4, Slx4 endonuclease. The Slx4 protein is a
heteromeric structure-specific endonuclease found in
fungi. Slx4 with Slx1 acts as a nuclease on branched DNA
substrates, particularly simple-Y, 5'-flap, or
replication fork structures by cleaving the strand
bearing the 5' non-homologous arm at the branch junction
and thus generating ligatable nicked products from
5'-flap or replication fork substrates.
Length = 627
Score = 31.9 bits (72), Expect = 2.8
Identities = 24/111 (21%), Positives = 50/111 (45%), Gaps = 9/111 (8%)
Query: 21 VKKKRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGINVTVSSKKKK---- 76
K+ KKKK K K++ +TK ++ ++ EE + ++ + +S K+ K
Sbjct: 68 GKRVPKKKKIKKPKLRKRTKRKNKKIKSLTAFNEE-NFETDRAPSLLSYLSGKQSKVNDI 126
Query: 77 LKRKQNPSQVEVSELSANTNDPDDQVNKTEEIQSDEPSSKKLKQKKKKKQT 127
LKR ++ +++ S S +T + ++ E I K ++ + K
Sbjct: 127 LKRLESSKKIKNSRSSESTFETSALYSEDEWID----IVKLIRLRFPKLSE 173
>gnl|CDD|177089 CHL00189, infB, translation initiation factor 2; Provisional.
Length = 742
Score = 32.1 bits (73), Expect = 3.0
Identities = 35/167 (20%), Positives = 68/167 (40%), Gaps = 20/167 (11%)
Query: 24 KRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGINVTVSSKKKKLK-RKQN 82
K K K +++S K +L + N++ E+ + +K + SKK KLK +K+
Sbjct: 24 KNLKHSSYKIRLESDIKDSLLNLDINKKLHEKLDKKNKKFNKTDDLKDSKKTKLKQKKKI 83
Query: 83 PSQVEVSELSANTNDPDDQVNKTEEIQSDEPSSKKLKQ-------------KKKKKQTYT 129
++ + + N D + + + K + KKK+
Sbjct: 84 KKKLHIDDDYDNFFDSKNNSKQFAGPLAISLMRKPKPKTEKLKKKITVNKSTNKKKKKVL 143
Query: 130 SANKELLEVDTSNNEDMFVQMAEWV-----KFNIPET-IIRALYQKG 170
S+ EL++ D + + + + + IPET II++L+ KG
Sbjct: 144 SSKDELIKYDNNKPKSISIHSPLTIQELSTLLCIPETEIIKSLFLKG 190
>gnl|CDD|215597 PLN03137, PLN03137, ATP-dependent DNA helicase; Q4-like;
Provisional.
Length = 1195
Score = 31.8 bits (72), Expect = 3.5
Identities = 19/63 (30%), Positives = 31/63 (49%)
Query: 575 HASMNQRQRLKNLDRFRDQNNSILLATDVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGR 634
H SM+ QR ++ +I+ AT G++ P + VIH+ +P++ E Y GR
Sbjct: 711 HGSMDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEGYHQECGR 770
Query: 635 TAR 637
R
Sbjct: 771 AGR 773
Score = 31.8 bits (72), Expect = 3.5
Identities = 19/63 (30%), Positives = 31/63 (49%)
Query: 1108 HASMNQRQRLKNLDRFRDQNNSILLATDVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGR 1167
H SM+ QR ++ +I+ AT G++ P + VIH+ +P++ E Y GR
Sbjct: 711 HGSMDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEGYHQECGR 770
Query: 1168 TAR 1170
R
Sbjct: 771 AGR 773
>gnl|CDD|217476 pfam03286, Pox_Ag35, Pox virus Ag35 surface protein.
Length = 198
Score = 30.9 bits (70), Expect = 3.7
Identities = 17/86 (19%), Positives = 36/86 (41%), Gaps = 8/86 (9%)
Query: 22 KKKRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGINVTVSSKKKKLKRKQ 81
K+ +KK+ K + K ++ E EE ++ E+D +KTE + ++ ++
Sbjct: 49 KQPKKKRPTTPRKPATTKKSKKKDKEKLTEEEKKPESDDDKTEENENDPDNNEESGDSQE 108
Query: 82 NPSQVEVSELSANTNDPDDQVNKTEE 107
SAN+ D + ++
Sbjct: 109 --------SASANSLSDIDNEDDMDD 126
>gnl|CDD|115057 pfam06375, BLVR, Bovine leukaemia virus receptor (BLVR). This
family consists of several bovine specific leukaemia
virus receptors which are thought to function as
transmembrane proteins, although their exact function is
unknown.
Length = 561
Score = 31.2 bits (70), Expect = 4.8
Identities = 36/137 (26%), Positives = 57/137 (41%), Gaps = 10/137 (7%)
Query: 651 DEIPLKTKFNLQEEENNEEEERAEADKEKTEDINVTVSSKKKKLKRKQNPSQVE-----V 705
E +K E + E R EA K++ + + S KR Q+P VE
Sbjct: 4 KEEQRHSKPRHTEADEKELARRREARKQEQANNPFYIKSSPSPQKRYQDPPGVEHIPVVQ 63
Query: 706 SELSANTNDP----DDQVNKTEEIQSDEPHSKKLKQKKKKKQTYTSANKELLEVDTSNNE 761
+LS P DQ K EE + +K K++KKK++ + + T ++E
Sbjct: 64 IDLSVPLKVPGLPMSDQYVKLEEERRHRQRLEKDKREKKKREKEKRGRRRHHSLGTESDE 123
Query: 762 DMF-VQMAEWVKFNIPE 777
D+ QM + V +PE
Sbjct: 124 DIAPAQMVDIVTEEMPE 140
>gnl|CDD|217756 pfam03839, Sec62, Translocation protein Sec62.
Length = 217
Score = 30.5 bits (69), Expect = 4.9
Identities = 18/78 (23%), Positives = 33/78 (42%), Gaps = 4/78 (5%)
Query: 11 KTTAKVKDGGVKKKRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGINVTV 70
+ K K K + + ++ K+ K L E V++ + ++K E
Sbjct: 16 LESEKYKANKDKGNPEIYNKINSQDKAIEKFKLLIKAQMAERVKKLHSQEKKEEKKK--- 72
Query: 71 SSKKKKLKRKQNPSQVEV 88
KKKK+ + NP+Q+ V
Sbjct: 73 -PKKKKVPLQVNPAQLFV 89
>gnl|CDD|219901 pfam08555, DUF1754, Eukaryotic family of unknown function
(DUF1754). This is a eukaryotic protein family of
unknown function.
Length = 90
Score = 28.5 bits (64), Expect = 5.9
Identities = 15/60 (25%), Positives = 21/60 (35%), Gaps = 1/60 (1%)
Query: 17 KDGGVKKKRKKKKPLKTKVKSKTKPNLQEAENNE-EEVEEAEADKEKTEGINVTVSSKKK 75
KK+KKKK K K K + +E E + E + + E E I
Sbjct: 14 GKKIDVKKKKKKKKKKNKSKEEVVTEKEEEEKSSAESDLKEGEEDEDNEKIEQEEDGMNL 73
>gnl|CDD|237952 PRK15362, PRK15362, pathogenicity island 2 effector protein SseC;
Provisional.
Length = 473
Score = 30.9 bits (70), Expect = 6.2
Identities = 22/79 (27%), Positives = 34/79 (43%), Gaps = 8/79 (10%)
Query: 185 ALLARKDIVGAAETGSGKTLAFGIPILTGIVNKLENPTEEDENDSG---LEEEAEEVLEE 241
A +A + I AAE G ++ +V E EE + G E+ +++V E
Sbjct: 245 AFMATRGIAKAAEKVLDS--GAGEELVERMVGGSEEAIEELAEEFGKQVSEQVSKQVANE 302
Query: 242 LEEESANTTEFVKKTRNKL 260
L EESA EF + +
Sbjct: 303 LAEESA---EFSRNVEKNM 318
Score = 30.9 bits (70), Expect = 6.2
Identities = 22/79 (27%), Positives = 34/79 (43%), Gaps = 8/79 (10%)
Query: 802 ALLARKDIVGAAETGSGKTLAFGIPILTGIVNKLENPTEEDENDSG---LEEEAEEVLEE 858
A +A + I AAE G ++ +V E EE + G E+ +++V E
Sbjct: 245 AFMATRGIAKAAEKVLDS--GAGEELVERMVGGSEEAIEELAEEFGKQVSEQVSKQVANE 302
Query: 859 LEEESANTTEFVKKTRNKL 877
L EESA EF + +
Sbjct: 303 LAEESA---EFSRNVEKNM 318
>gnl|CDD|236555 PRK09537, pylS, pyrolysyl-tRNA synthetase; Reviewed.
Length = 417
Score = 30.6 bits (69), Expect = 6.6
Identities = 28/128 (21%), Positives = 44/128 (34%), Gaps = 13/128 (10%)
Query: 11 KTTAKVKDGGVKKKRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGINVTV 70
KT KVK K+KK P K N +AE+ K
Sbjct: 90 KTQVKVKVVSAPTKKKKAMPKSVVRAPKPLEN--------PVPAQAESSGSKPVPSIPVS 141
Query: 71 SSKKKKLKRKQNPSQVEVSELSANTNDPDDQVNKTEEIQSDEPSSKKLKQKKKK--KQTY 128
+ + K PSQ + E + P D+++ E + +L ++K KQ Y
Sbjct: 142 TPEVKAPAPALTPSQKDRLETLLS---PKDKISLNSEKPKFKELESELVSRRKNDLKQMY 198
Query: 129 TSANKELL 136
++ L
Sbjct: 199 EEDREDYL 206
>gnl|CDD|169423 PRK08392, PRK08392, hypothetical protein; Provisional.
Length = 215
Score = 30.1 bits (68), Expect = 7.2
Identities = 19/67 (28%), Positives = 25/67 (37%), Gaps = 11/67 (16%)
Query: 1139 RGLDIPGIEHVIHYHVPRTSEIYIHRSGRTARANNEGLTLVLIESDEIPLYIKMFNSLEK 1198
+GL + GI IHY P YI R +E + L IE+ N
Sbjct: 26 KGLRLVGISDHIHYFTPSKFNAYI-NEIRQWGEESEIVVLAGIEA----------NITPN 74
Query: 1199 KVDLPDF 1205
VD+ D
Sbjct: 75 GVDITDD 81
>gnl|CDD|237629 PRK14160, PRK14160, heat shock protein GrpE; Provisional.
Length = 211
Score = 30.1 bits (68), Expect = 7.3
Identities = 20/92 (21%), Positives = 36/92 (39%), Gaps = 9/92 (9%)
Query: 45 EAENNEEEVEEAEADKEKTEGINVTVSSKKKKLKRKQNPSQVEVSELSANTNDPDDQVNK 104
E E + + E E D K + K + K +E E+ D + +
Sbjct: 2 EKECKDAKHENMEEDCCKEN---------ENKEEDKGKEEDLEFEEIEKEEIIEDSEESN 52
Query: 105 TEEIQSDEPSSKKLKQKKKKKQTYTSANKELL 136
+I+ + + KLK++ KK + A K+ L
Sbjct: 53 EVKIEELKDENNKLKEENKKLENELEALKDRL 84
>gnl|CDD|180696 PRK06793, fliI, flagellum-specific ATP synthase; Validated.
Length = 432
Score = 30.3 bits (68), Expect = 7.6
Identities = 21/77 (27%), Positives = 39/77 (50%), Gaps = 17/77 (22%)
Query: 590 FRDQNNSILL-------------ATDVAARGLDIPGIEHVIHYHVPRTSEIYIHRSGRTA 636
FRDQ N++LL + D+A + L I G ++ ++ + E RSG+T
Sbjct: 241 FRDQGNNVLLMMDSVTRFADARRSVDIAVKELPIGGKTLLMESYMKKLLE----RSGKTQ 296
Query: 637 RANNEGLTVVLIESDEI 653
+ + G+ VL++ D++
Sbjct: 297 KGSITGIYTVLVDGDDL 313
>gnl|CDD|114011 pfam05262, Borrelia_P83, Borrelia P83/100 protein. This family
consists of several Borrelia P83/P100 antigen proteins.
Length = 489
Score = 30.4 bits (68), Expect = 8.0
Identities = 20/125 (16%), Positives = 49/125 (39%), Gaps = 4/125 (3%)
Query: 24 KRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGINVTVSSKKKKLKRKQNP 83
K ++K K + +++ + + + + E V ++K+++++ Q
Sbjct: 231 KAQQKADFAQDNADKQRDEVRQKQQEAKNLPKPADTSSPKEDKQVA-ENQKREIEKAQIE 289
Query: 84 SQVEVSELSANTNDPDDQVNKTEEIQSDEPSSKKLKQKKKKKQTYTSANKELLEVD---T 140
+ E + + + + E K+L+ +KK++ K +V+ T
Sbjct: 290 IKKNDEEALKAKDHKAFDLKQESKASEKEAEDKELEAQKKREPVAEDLQKTKPQVEAQPT 349
Query: 141 SNNED 145
S NED
Sbjct: 350 SLNED 354
>gnl|CDD|222727 pfam14388, DUF4419, Domain of unknown function (DUF4419). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria, eukaryotes and
viruses. Proteins in this family are typically between
348 and 454 amino acids in length.
Length = 297
Score = 30.3 bits (69), Expect = 8.2
Identities = 14/73 (19%), Positives = 32/73 (43%), Gaps = 7/73 (9%)
Query: 730 PHSKKLKQK----KKKKQTYTSANKELLEVDTSNNEDMFVQMAEWVKFNIPETIIRALYQ 785
++++L+ + KK+ L + D +++ + E ++ NI + +R L
Sbjct: 39 ANAEELRHLFVDHEGKKELVVEDPGLLYDNDW---DELTEEFTEEIQKNIKDPSLRDLIT 95
Query: 786 KGFKTPTKIQSMV 798
F T T + +V
Sbjct: 96 PDFSTTTPVDRVV 108
>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742).
This is a family of fungal proteins of unknown function.
Length = 182
Score = 29.7 bits (67), Expect = 8.5
Identities = 15/72 (20%), Positives = 34/72 (47%), Gaps = 5/72 (6%)
Query: 21 VKKKRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGINVTVSSKKKKLKRK 80
VKK+ ++K+ K K K K ++ + +++ ++ K++ E K + L +
Sbjct: 74 VKKEYEEKQKWKWKKKKSKKKKDKDKDKKDDKKDDKSEKKDEKE-----AEDKLEDLTKS 128
Query: 81 QNPSQVEVSELS 92
+ + +SEL
Sbjct: 129 YSETLSTLSELK 140
>gnl|CDD|227881 COG5594, COG5594, Uncharacterized integral membrane protein
[Function unknown].
Length = 827
Score = 30.5 bits (69), Expect = 8.9
Identities = 15/77 (19%), Positives = 28/77 (36%), Gaps = 4/77 (5%)
Query: 463 TLTESKILCKHDEKDSYLYYFILQHPGRTLCEEIQD-LLNIKSPKIVDLTEKIGITKTLT 521
T +ES + + D+ + YF G L E L K P+ + +G+++T
Sbjct: 739 TFSESTKVDEDDKFEEVWSYF---PDGFDLSIERSYPALRAKDPEEWLPEDPLGLSETAI 795
Query: 522 ESKILCKHDEKDSYLYY 538
+ D +
Sbjct: 796 SDSSGSLPENFDDNTTF 812
>gnl|CDD|225152 COG2243, CobF, Precorrin-2 methylase [Coenzyme metabolism].
Length = 234
Score = 30.0 bits (68), Expect = 8.9
Identities = 18/66 (27%), Positives = 24/66 (36%), Gaps = 7/66 (10%)
Query: 186 LLARKDIVGAAETGSGKTLAFGI--PILTGIVNKLE-----NPTEEDENDSGLEEEAEEV 238
L + D+V +LA I LT +E +E + EE A EV
Sbjct: 24 ALKKADVVYVPSKKGKGSLAREIVEDYLTPGSRIVELHFPMTTDMREELEDAWEEAAAEV 83
Query: 239 LEELEE 244
ELE
Sbjct: 84 AAELEA 89
Score = 30.0 bits (68), Expect = 8.9
Identities = 18/66 (27%), Positives = 24/66 (36%), Gaps = 7/66 (10%)
Query: 803 LLARKDIVGAAETGSGKTLAFGI--PILTGIVNKLE-----NPTEEDENDSGLEEEAEEV 855
L + D+V +LA I LT +E +E + EE A EV
Sbjct: 24 ALKKADVVYVPSKKGKGSLAREIVEDYLTPGSRIVELHFPMTTDMREELEDAWEEAAAEV 83
Query: 856 LEELEE 861
ELE
Sbjct: 84 AAELEA 89
>gnl|CDD|240246 PTZ00053, PTZ00053, methionine aminopeptidase 2; Provisional.
Length = 470
Score = 30.5 bits (69), Expect = 8.9
Identities = 19/86 (22%), Positives = 32/86 (37%), Gaps = 6/86 (6%)
Query: 56 AEADKEKTEGINVTVSSKKKKLKRKQNPSQVEVSELSANTNDPDDQVNKTEEIQSDEPSS 115
A + + E +K+K K+K S+ +V + A + E Q E
Sbjct: 1 AMNENGENEVKQQKQQNKQKGTKKKNKKSKKDVDDDDAFLAEL------ISENQEAENKQ 54
Query: 116 KKLKQKKKKKQTYTSANKELLEVDTS 141
K+KKKKK+ E ++
Sbjct: 55 NNKKKKKKKKKKKKKNLGEAYDLAYD 80
>gnl|CDD|240388 PTZ00372, PTZ00372, endonuclease 4-like protein; Provisional.
Length = 413
Score = 30.1 bits (68), Expect = 9.0
Identities = 17/98 (17%), Positives = 35/98 (35%), Gaps = 12/98 (12%)
Query: 22 KKKRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEAE--ADKEKTEGINVTVSSKKKKLKR 79
+++ K K K + K N + ++ +++ ++ E K + E + KK K +
Sbjct: 44 EEENKVATTSTKKDKKEDKNNESKKKSEKKKKKKKEKKEPKSEGETKLGFKTPKKSKKTK 103
Query: 80 KQNPSQVEVSELSANTNDPDDQVNKTEEIQSDEPSSKK 117
K+ P +D N +I S
Sbjct: 104 KKPPKPKPN----------EDVDNAFNKIAELAEKSNV 131
>gnl|CDD|219124 pfam06658, DUF1168, Protein of unknown function (DUF1168). This
family consists of several hypothetical eukaryotic
proteins of unknown function.
Length = 142
Score = 29.2 bits (66), Expect = 9.3
Identities = 15/54 (27%), Positives = 25/54 (46%)
Query: 22 KKKRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGINVTVSSKKK 75
+ KR+KKK K K K K N +E + + EE+ ++E+ E +
Sbjct: 87 RAKRQKKKQKKKKKKKAKKGNKKEEKEGSKSSEESSDEEEEGEEDKQEEPVEIM 140
>gnl|CDD|220237 pfam09428, DUF2011, Fungal protein of unknown function (DUF2011).
This is a family of fungal proteins whose function is
unknown.
Length = 130
Score = 28.8 bits (65), Expect = 9.8
Identities = 18/59 (30%), Positives = 25/59 (42%), Gaps = 8/59 (13%)
Query: 23 KKRKKKKPLKTKVKSKTKPNLQEAENNEEEVEEAEADKEKTEGINVTVSSKKKKLKRKQ 81
R+K+K K K K K + E E AE +K N ++KK KR+Q
Sbjct: 75 LLREKEKKKKRKRPGK-KRRIALRLRRERTKERAEKEKRT--RKN-----REKKFKRRQ 125
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.313 0.131 0.360
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: 74,819,192
Number of extensions: 7615761
Number of successful extensions: 12446
Number of sequences better than 10.0: 1
Number of HSP's gapped: 11786
Number of HSP's successfully gapped: 552
Length of query: 1493
Length of database: 10,937,602
Length adjustment: 109
Effective length of query: 1384
Effective length of database: 6,103,016
Effective search space: 8446574144
Effective search space used: 8446574144
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 66 (29.1 bits)