RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2470
(858 letters)
>gnl|CDD|224557 COG1643, HrpA, HrpA-like helicases [DNA replication, recombination,
and repair].
Length = 845
Score = 216 bits (553), Expect = 3e-59
Identities = 87/208 (41%), Positives = 118/208 (56%), Gaps = 9/208 (4%)
Query: 338 AFAEQLKPLKRTQLKLIISSATVDAEEICQFYNISASSNATILSVKGHLYPVSVYYSNDP 397
+ L +R LKLII SAT+DAE ++ NA ++ ++G YPV + Y +
Sbjct: 183 GLLKDLLARRRDDLKLIIMSATLDAERFSAYFG-----NAPVIEIEGRTYPVEIRYLPEA 237
Query: 398 VVNY-VQGVVDTAIKIHESMPVGDILAFVIGLEQIEHIIGILKQYHNQREDLKLLILPMH 456
+Y + + A+ IH G IL F+ G +IE L++ + L ILP++
Sbjct: 238 EADYILLDAIVAAVDIHLREGSGSILVFLPGQREIERTAEWLEKAELGDD---LEILPLY 294
Query: 457 GSLPNNEQIKVFRPTPRAMRKIVIATNIAETSITIPGIVYVIDPGFVKARWFNPNTLTNS 516
G+L EQ++VF P P RK+V+ATNIAETS+TIPGI YVID G K + ++P T
Sbjct: 295 GALSAEEQVRVFEPAPGGKRKVVLATNIAETSLTIPGIRYVIDSGLAKEKRYDPRTGLTR 354
Query: 517 LVVVPISKASAVQRAGRAGRVRSGHVYR 544
L PISKASA QRAGRAGR G YR
Sbjct: 355 LETEPISKASADQRAGRAGRTGPGICYR 382
Score = 170 bits (434), Expect = 6e-44
Identities = 60/115 (52%), Positives = 81/115 (70%), Gaps = 2/115 (1%)
Query: 587 QYLLEAGWCYDTKLIGITEPRRISVTSLANRVSEELRTTLGHTVGYTIRFDDCTTEDVTK 646
Q+LLE G K IG T+PRR++ S+A RV+EEL LG TVGY+IRF+ + T+
Sbjct: 84 QFLLEEGLGIAGK-IGCTQPRRLAARSVAERVAEELGEKLGETVGYSIRFESKVSPR-TR 141
Query: 647 IKYMTEGILMREMMTDPLLRKYSVIMLDEVHERTIFTDILMGLLKKILKDKERDF 701
IK MT+GIL+RE+ DPLL YSV+++DE HER++ TDIL+GLLK +L + D
Sbjct: 142 IKVMTDGILLREIQNDPLLSGYSVVIIDEAHERSLNTDILLGLLKDLLARRRDDL 196
Score = 111 bits (280), Expect = 4e-25
Identities = 50/109 (45%), Positives = 67/109 (61%), Gaps = 4/109 (3%)
Query: 46 RLYTEASFSQLNECTPPEMQRTELSSAVLQLKALGI-HNILRFSFPSPPPAQNLRVALEL 104
RLY+E F E T PE+ RT+LS VLQLK+LGI +I F F PPP ++ AL L
Sbjct: 382 RLYSEEDFLAFPEFTLPEILRTDLSGLVLQLKSLGIGQDIAPFPFLDPPPEAAIQAALTL 441
Query: 105 LYSLGAMDVNGNLTKPVGETMAEMPLHPIHAKVLLSSGS--VLDSAVEI 151
L LGA+D +G LT P+G+ M+ +PL P A++LL++ L A I
Sbjct: 442 LQELGALDDSGKLT-PLGKQMSLLPLDPRLARMLLTAPEGGCLGEAATI 489
Score = 72.7 bits (179), Expect = 4e-13
Identities = 42/180 (23%), Positives = 63/180 (35%), Gaps = 34/180 (18%)
Query: 699 RDFECSDEIASILSLLQVQDI---FIKPSSGALSLKARVL-----RRNFEVEQGDLLTLL 750
+ C E A+I S+L QD F + A+ L RRN +GD L LL
Sbjct: 478 PEGGCLGEAATIASMLSEQDRESDFSRDVKLRKQRTAQDLLKRLKRRNAADPRGDHLLLL 537
Query: 751 NIF------KFYEKQENKKQFCHKYFFNYKVLKRAAELKNQMILLLKK------SSIPL- 797
F K + + + C F K L RA + +++ ++ +
Sbjct: 538 EAFPDRIARKRAKGEYLRANGCRAMLFPTKALSRAPWIIAALLVQTSALAGRILAAAEID 597
Query: 798 ------------VTSPRNTNAVLKCLTNGFFSNAAYLHYSGV-YRTVRGNEDLYIHPSSV 844
S + + L G N A L G Y T+ N ++ HPSSV
Sbjct: 598 EDEWAAQHLPEHCYSEPIWDDIRGALAAGRKLNIAQLQLDGRPYVTLSDNTPVFAHPSSV 657
Score = 50.8 bits (122), Expect = 3e-06
Identities = 18/38 (47%), Positives = 29/38 (76%)
Query: 1 MTEGILIENDDHDPSVEKYSVIMLDKVHERTIFTDILM 38
MT+GIL+ +DP + YSV+++D+ HER++ TDIL+
Sbjct: 145 MTDGILLREIQNDPLLSGYSVVIIDEAHERSLNTDILL 182
>gnl|CDD|220325 pfam09637, Med18, Med18 protein. Med18 is one subunit of Mediator,
a head-module multiprotein complex, that stimulates
basal RNA polymerase II (Pol II) transcription. Med18
consists of an eight-stranded beta-barrel with a central
pore and three flanking helices. It complexes with Med8
and Med20 proteins by forming a heterodimer of two-fold
symmetry with Med20 and binding the C-terminal
alpha-helix region of Med8 across the top of its barrel.
This complex creates a multipartite TBP-binding site
that can be modulated by transcriptional activators.
Length = 243
Score = 151 bits (384), Expect = 2e-41
Identities = 78/233 (33%), Positives = 109/233 (46%), Gaps = 30/233 (12%)
Query: 138 LLSSGSVLDSAVEILLHRLRGLCDNVDSGPETFHDHEMCFSI-----------RGNQTQP 186
L GSV D VE+LLHRL GL P+TF + + F + Q Q
Sbjct: 3 LSLYGSVPDGDVELLLHRLAGLTGM---QPQTFLERRLVFKPNRSYKPENLPGKNGQVQQ 59
Query: 187 LLLRVRRALDFPDMPYQLRYIG---QPEMGPLLLRVRRALDFPD-MPYQLRYIGQPEMGV 242
LR+RR L+ + Y L+ I + + G ++ + P+ LRY PE G
Sbjct: 60 TRLRLRRRLNRELLSYSLQIIYKVTEDDFGIEASKLFSGDEDDGEAPWTLRYSDIPEAG- 118
Query: 243 GDKARPTIVRSSIDVA-CSCTVVEFLTEMGCRMDFEYISRGYMFRKGRMKILVSKIFKMS 301
RP VR+ I+ S ++++FL E+G R D+EYI++G F KG + I +SK+FK+
Sbjct: 119 --NNRPVTVRTIIESDLPSGSLLQFLKELGYRFDYEYITKGVRFFKGDIVITLSKVFKIP 176
Query: 302 QGKPSDSGV---EPISQSYLVELSILAPGGQDVIGEDM-----KAFAEQLKPL 346
DS S SYLVE SI P G D+ + EQLK L
Sbjct: 177 DEGQEDSSPLELLDPSGSYLVEASINVPKGTDIEAMNKAVAELLKLKEQLKGL 229
>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 = 151 bits (382), Expect = 1e-37
Identities = 87/264 (32%), Positives = 132/264 (50%), Gaps = 26/264 (9%)
Query: 286 RKGRMKILVSKIF-KMSQGKPSDSGVEPISQSYLVELSILAPGGQDVIGEDMKAFAEQLK 344
R+ R++++ I +M Q P GV + E S+ A G A A ++
Sbjct: 89 RRTRLEVVTEGILTRMIQDDPELDGVGALIFDEFHERSLDADLGL--------ALALDVQ 140
Query: 345 PLKRTQLKLIISSATVDAEEICQFYNISASSNATILSVKGHLYPVSVYY----SNDPVVN 400
R LK++ SAT+D E + +A ++ +G +PV + Y + + +
Sbjct: 141 SSLREDLKILAMSATLDGERLSSLLP-----DAPVVESEGRSFPVEIRYLPLRGDQRLED 195
Query: 401 YVQGVVDTAIKIHESMPVGDILAFVIGLEQIEHIIGILKQYHNQREDLKLLILPMHGSLP 460
V V+ A+ E+ G IL F+ G +I +++ +R D +LI P++G L
Sbjct: 196 AVSRAVEHALA-SET---GSILVFLPGQAEIRR----VQEQLAERLDSDVLICPLYGELS 247
Query: 461 NNEQIKVFRPTPRAMRKIVIATNIAETSITIPGIVYVIDPGFVKARWFNPNTLTNSLVVV 520
Q + +P P+ RK+V+ATNIAETS+TI GI VID G + F+P T L V
Sbjct: 248 LAAQDRAIKPDPQGRRKVVLATNIAETSLTIEGIRVVIDSGLARVARFDPKTGITRLETV 307
Query: 521 PISKASAVQRAGRAGRVRSGHVYR 544
IS+ASA QRAGRAGR+ G YR
Sbjct: 308 RISQASATQRAGRAGRLEPGVCYR 331
Score = 79.0 bits (195), Expect = 5e-15
Identities = 32/90 (35%), Positives = 54/90 (60%), Gaps = 1/90 (1%)
Query: 601 IGITEPRRISVTSLANRVSEELRTTLGHTVGYTIRFDDCTTEDVTKIKYMTEGILMREMM 660
I + EPRR++ S A R++ +L +G TVGY +R ++ + T+++ +TEGIL R +
Sbjct: 48 IIMLEPRRLAARSAAQRLASQLGEAVGQTVGYRVRGENKVSRR-TRLEVVTEGILTRMIQ 106
Query: 661 TDPLLRKYSVIMLDEVHERTIFTDILMGLL 690
DP L ++ DE HER++ D+ + L
Sbjct: 107 DDPELDGVGALIFDEFHERSLDADLGLALA 136
Score = 71.0 bits (174), Expect = 2e-12
Identities = 60/201 (29%), Positives = 88/201 (43%), Gaps = 20/201 (9%)
Query: 46 RLYTEASFSQLNECTPPEMQRTELSSAVLQLKALGIHNILRFSFPSPPPAQNLRVALELL 105
RL++E +L PE+ + +LS L+L G + + PP+ L A +LL
Sbjct: 331 RLWSEEQHQRLPAQDEPEILQADLSGLALELAQWGAKDPSDLRWLDAPPSVALAAARQLL 390
Query: 106 YSLGAMDVNGNLTKPVGETMAEMPLHPIHAKVLLSSGS--VLDSAVEI--LL---HRLRG 158
LGA+D G LT G+ MA + HP A +LLS+ S + A ++ LL R
Sbjct: 391 QRLGALDAQGRLTA-HGKAMAALGCHPRLAAMLLSAHSTGLAALACDLAALLEERGLPRQ 449
Query: 159 LCDNVDSGPETFHDHEMCFSIRGNQTQPLLLRVRRALDFPDMPYQLRYIGQPEMGPLLLR 218
++ + H + RG + Q L ++RR L F I +G LL
Sbjct: 450 GGADLMN---RLHRLQQGRQGRGQRAQQLAKKLRRRLRFSQAD--SGAIASHALGLLL-- 502
Query: 219 VRRALDFPDMPYQLRYIGQPE 239
AL FPD + R GQP
Sbjct: 503 ---ALAFPDRIAKRR--GQPG 518
Score = 33.6 bits (77), Expect = 0.61
Identities = 12/35 (34%), Positives = 20/35 (57%)
Query: 2 TEGILIENDDHDPSVEKYSVIMLDKVHERTIFTDI 36
TEGIL DP ++ ++ D+ HER++ D+
Sbjct: 97 TEGILTRMIQDDPELDGVGALIFDEFHERSLDADL 131
>gnl|CDD|182986 PRK11131, PRK11131, ATP-dependent RNA helicase HrpA; Provisional.
Length = 1294
Score = 141 bits (358), Expect = 2e-34
Identities = 81/207 (39%), Positives = 117/207 (56%), Gaps = 23/207 (11%)
Query: 342 QLKPLKRTQLKLIISSATVDAEEICQFYNISASSNATILSVKGHLYPVSVYY------SN 395
+L P +R LK+II+SAT+D E + +N NA I+ V G YPV V Y ++
Sbjct: 211 ELLP-RRPDLKVIITSATIDPERFSRHFN-----NAPIIEVSGRTYPVEVRYRPIVEEAD 264
Query: 396 DPVVNYVQGVVDTAIKI-HESMPVGDILAFVIGLEQIEHIIGILKQYHNQREDLKLL-IL 453
D + +Q + D ++ E GDIL F+ G +I L + +L+ IL
Sbjct: 265 DTERDQLQAIFDAVDELGREGP--GDILIFMSGEREIRDTADAL-----NKLNLRHTEIL 317
Query: 454 PMHGSLPNNEQIKVFRPTPRAMRKIVIATNIAETSITIPGIVYVIDPGFVKARWFNPNTL 513
P++ L N+EQ +VF+ + R+IV+ATN+AETS+T+PGI YVIDPG + ++ T
Sbjct: 318 PLYARLSNSEQNRVFQS--HSGRRIVLATNVAETSLTVPGIKYVIDPGTARISRYSYRTK 375
Query: 514 TNSLVVVPISKASAVQRAGRAGRVRSG 540
L + PIS+ASA QR GR GRV G
Sbjct: 376 VQRLPIEPISQASANQRKGRCGRVSEG 402
Score = 109 bits (274), Expect = 3e-24
Identities = 45/95 (47%), Positives = 70/95 (73%), Gaps = 1/95 (1%)
Query: 600 LIGITEPRRISVTSLANRVSEELRTTLGHTVGYTIRFDDCTTEDVTKIKYMTEGILMREM 659
LIG T+PRR++ ++ANR++EEL T LG VGY +RF+D +++ T +K MT+GIL+ E+
Sbjct: 120 LIGHTQPRRLAARTVANRIAEELETELGGCVGYKVRFNDQVSDN-TMVKLMTDGILLAEI 178
Query: 660 MTDPLLRKYSVIMLDEVHERTIFTDILMGLLKKIL 694
D LL +Y I++DE HER++ D ++G LK++L
Sbjct: 179 QQDRLLMQYDTIIIDEAHERSLNIDFILGYLKELL 213
Score = 70.1 bits (172), Expect = 4e-12
Identities = 37/101 (36%), Positives = 59/101 (58%), Gaps = 6/101 (5%)
Query: 46 RLYTEASFSQLNECTPPEMQRTELSSAVLQLKALGIHNILRFSFPSPPPAQNLRVALELL 105
RLY+E F E T PE+ RT L+S +LQ+ ALG+ +I F F P +N++ + LL
Sbjct: 406 RLYSEDDFLSRPEFTDPEILRTNLASVILQMTALGLGDIAAFPFVEAPDKRNIQDGVRLL 465
Query: 106 YSLGAMDVNGN-----LTKPVGETMAEMPLHPIHAKVLLSS 141
LGA+ + LT P+G +A++P+ P A+++L +
Sbjct: 466 EELGAITTDEQASAYKLT-PLGRQLAQLPVDPRLARMVLEA 505
Score = 37.3 bits (87), Expect = 0.037
Identities = 37/165 (22%), Positives = 70/165 (42%), Gaps = 19/165 (11%)
Query: 699 RDFECSDEIASILSLLQVQDIFIKPSSGALSLKARVLRRNFEVEQGDLLTLLNIFKFYEK 758
+ C E+ I S L +QD +P + + R F ++ D L +N++ + ++
Sbjct: 506 QKHGCVREVMIITSALSIQDPRERPMDKQQASDEK--HRRFADKESDFLAFVNLWNYLQE 563
Query: 759 QE---NKKQF---CHKYFFNYKVLKRAAELKNQMILLLKKSSIPLVTSPRNTNAVLKCLT 812
Q+ + QF C + NY ++ ++ Q+ ++K+ IP+ + P + L
Sbjct: 564 QQKALSSNQFRRLCRTDYLNYLRVREWQDIYTQLRQVVKELGIPVNSEPAEYREIHTALL 623
Query: 813 NGFFS-----NAAYLHYSGVYRTVRGNEDLYIHPSSVLYTLQQPQ 852
G S +A Y+G R R I P S L+ + P+
Sbjct: 624 TGLLSHIGMKDAEKQEYTGA-RNAR----FSIFPGSGLFK-KPPK 662
Score = 33.5 bits (77), Expect = 0.69
Identities = 13/38 (34%), Positives = 24/38 (63%)
Query: 1 MTEGILIENDDHDPSVEKYSVIMLDKVHERTIFTDILM 38
MT+GIL+ D + +Y I++D+ HER++ D ++
Sbjct: 169 MTDGILLAEIQQDRLLMQYDTIIIDEAHERSLNIDFIL 206
>gnl|CDD|233659 TIGR01967, DEAH_box_HrpA, ATP-dependent helicase HrpA. This model
represents HrpA, one of two related but uncharacterized
DEAH-box ATP-dependent helicases in many Proteobacteria
and a few high-GC Gram-positive bacteria. HrpA is about
1300 amino acids long, while its paralog HrpB, also
uncharacterized, is about 800 amino acids long. Related
characterized eukarotic proteins are RNA helicases
associated with pre-mRNA processing [Unknown function,
Enzymes of unknown specificity].
Length = 1283
Score = 140 bits (355), Expect = 6e-34
Identities = 78/200 (39%), Positives = 115/200 (57%), Gaps = 18/200 (9%)
Query: 347 KRTQLKLIISSATVDAEEICQFYNISASSNATILSVKGHLYPVSVYY------SNDPVVN 400
+R LK+II+SAT+D E + +N NA I+ V G YPV V Y D ++
Sbjct: 208 RRPDLKIIITSATIDPERFSRHFN-----NAPIIEVSGRTYPVEVRYRPLVEEQEDDDLD 262
Query: 401 YVQGVVDTAIKIHESMPVGDILAFVIGLEQIEHIIGILKQYHNQREDLKLLILPMHGSLP 460
++ ++D ++ P GDIL F+ G +I IL++ + + + ILP++ L
Sbjct: 263 QLEAILDAVDELFAEGP-GDILIFLPGEREIRDAAEILRKRNLRHTE----ILPLYARLS 317
Query: 461 NNEQIKVFRPTPRAMRKIVIATNIAETSITIPGIVYVIDPGFVKARWFNPNTLTNSLVVV 520
N EQ +VF+P + R+IV+ATN+AETS+T+PGI YVID G + ++ T L +
Sbjct: 318 NKEQQRVFQP--HSGRRIVLATNVAETSLTVPGIHYVIDTGTARISRYSYRTKVQRLPIE 375
Query: 521 PISKASAVQRAGRAGRVRSG 540
PIS+ASA QR GR GRV G
Sbjct: 376 PISQASANQRKGRCGRVAPG 395
Score = 111 bits (278), Expect = 1e-24
Identities = 44/96 (45%), Positives = 65/96 (67%), Gaps = 1/96 (1%)
Query: 600 LIGITEPRRISVTSLANRVSEELRTTLGHTVGYTIRFDDCTTEDVTKIKYMTEGILMREM 659
LIG T+PRR++ ++A R++EEL T LG VGY +RF D + + T +K MT+GIL+ E
Sbjct: 113 LIGHTQPRRLAARTVAQRIAEELGTPLGEKVGYKVRFHDQVSSN-TLVKLMTDGILLAET 171
Query: 660 MTDPLLRKYSVIMLDEVHERTIFTDILMGLLKKILK 695
D L +Y I++DE HER++ D L+G LK++L
Sbjct: 172 QQDRFLSRYDTIIIDEAHERSLNIDFLLGYLKQLLP 207
Score = 74.4 bits (183), Expect = 2e-13
Identities = 38/99 (38%), Positives = 57/99 (57%), Gaps = 4/99 (4%)
Query: 46 RLYTEASFSQLNECTPPEMQRTELSSAVLQLKALGIHNILRFSFPSPPPAQNLRVALELL 105
RLY+E F+ E T PE+ RT L+S +LQ+ AL + +I F F P + +R LL
Sbjct: 399 RLYSEEDFNSRPEFTDPEILRTNLASVILQMLALRLGDIAAFPFIEAPDPRAIRDGFRLL 458
Query: 106 YSLGAMD---VNGNLTKPVGETMAEMPLHPIHAKVLLSS 141
LGA+D LT P+G +A++P+ P A++LL +
Sbjct: 459 EELGALDDDEAEPQLT-PIGRQLAQLPVDPRLARMLLEA 496
Score = 43.2 bits (102), Expect = 7e-04
Identities = 40/163 (24%), Positives = 72/163 (44%), Gaps = 10/163 (6%)
Query: 690 LKKILKDKERDFECSDEIASILSLLQVQDIFIKPSSGALSLKARVLRRNFEVEQGDLLTL 749
L ++L + R C E+ I S L +QD +P A F+ + D L+
Sbjct: 489 LARMLLEAHR-LGCLQEVLIIASALSIQDPRERPM--EKQQAADQAHARFKDPRSDFLSR 545
Query: 750 LNIFKFYEKQE---NKKQF---CHKYFFNYKVLKRAAELKNQMILLLKKSSIPLVTSPRN 803
+N+++ E+Q + QF C K + NY ++ ++ Q+ ++K+ + L P +
Sbjct: 546 VNLWRHIEEQRQALSANQFRNACRKQYLNYLRVREWQDIYRQLTQVVKELGLKLNEEPAD 605
Query: 804 TNAVLKCLTNGFFSNAAYLHYSGVYRTVRGNEDLYIHPSSVLY 846
+A+ K L +G S Y RG + +I P S L+
Sbjct: 606 YDAIHKALLSGLLSQIGMKDEKHEYDGARGRK-FHIFPGSPLF 647
Score = 37.1 bits (86), Expect = 0.054
Identities = 14/38 (36%), Positives = 24/38 (63%)
Query: 1 MTEGILIENDDHDPSVEKYSVIMLDKVHERTIFTDILM 38
MT+GIL+ D + +Y I++D+ HER++ D L+
Sbjct: 162 MTDGILLAETQQDRFLSRYDTIIIDEAHERSLNIDFLL 199
>gnl|CDD|236950 PRK11664, PRK11664, ATP-dependent RNA helicase HrpB; Provisional.
Length = 812
Score = 124 bits (314), Expect = 3e-29
Identities = 74/208 (35%), Positives = 105/208 (50%), Gaps = 26/208 (12%)
Query: 348 RTQLKLIISSATVDAEEICQFYNISASSNATILSVKGHLYPVSVYY----SNDPVVNYVQ 403
R LKL+I SAT+D + + Q +A ++ +G +PV Y ++
Sbjct: 147 RDDLKLLIMSATLDNDRLQQLL-----PDAPVIVSEGRSFPVERRYQPLPAHQRFDE--- 198
Query: 404 GVVDTAIK---IHESMPVGDILAFVIGLEQIEHIIGILKQYHNQREDLKLLILPMHGSLP 460
V A ES G +L F+ G+ +I+ + L D+ L+ P++G+L
Sbjct: 199 -AVARATAELLRQES---GSLLLFLPGVGEIQRVQEQL--ASRVASDV--LLCPLYGALS 250
Query: 461 NNEQIKVFRPTPRAMRKIVIATNIAETSITIPGIVYVIDPGFVKARWFNPNTLTNSLVVV 520
EQ K P P RK+V+ATNIAETS+TI GI V+D G + F+P T LV
Sbjct: 251 LAEQQKAILPAPAGRRKVVLATNIAETSLTIEGIRLVVDSGLERVARFDPKTGLTRLVTQ 310
Query: 521 PISKASAVQRAGRAGRVRSG---HVYRK 545
IS+AS QRAGRAGR+ G H+Y K
Sbjct: 311 RISQASMTQRAGRAGRLEPGICLHLYSK 338
Score = 74.6 bits (184), Expect = 1e-13
Identities = 33/86 (38%), Positives = 55/86 (63%), Gaps = 1/86 (1%)
Query: 605 EPRRISVTSLANRVSEELRTTLGHTVGYTIRFDDCTTEDVTKIKYMTEGILMREMMTDPL 664
EPRR++ ++A R++E+L G TVGY +R + + T+++ +TEGIL R + DP
Sbjct: 55 EPRRLAARNVAQRLAEQLGEKPGETVGYRMRAESKVGPN-TRLEVVTEGILTRMIQRDPE 113
Query: 665 LRKYSVIMLDEVHERTIFTDILMGLL 690
L +++LDE HER++ D+ + LL
Sbjct: 114 LSGVGLVILDEFHERSLQADLALALL 139
Score = 64.9 bits (159), Expect = 1e-10
Identities = 31/98 (31%), Positives = 49/98 (50%), Gaps = 1/98 (1%)
Query: 46 RLYTEASFSQLNECTPPEMQRTELSSAVLQLKALGIHNILRFSFPSPPPAQNLRVALELL 105
LY++ + + PE+ ++LS +L+L G H+ + S+ PPA L A LL
Sbjct: 334 HLYSKEQAERAAAQSEPEILHSDLSGLLLELLQWGCHDPAQLSWLDQPPAAALAAAKRLL 393
Query: 106 YSLGAMDVNGNLTKPVGETMAEMPLHPIHAKVLLSSGS 143
LGA+D G LT G MA + P A +L+++
Sbjct: 394 QQLGALDGQGRLT-ARGRKMAALGNDPRLAAMLVAAKE 430
Score = 31.4 bits (72), Expect = 2.2
Identities = 13/35 (37%), Positives = 21/35 (60%)
Query: 2 TEGILIENDDHDPSVEKYSVIMLDKVHERTIFTDI 36
TEGIL DP + +++LD+ HER++ D+
Sbjct: 100 TEGILTRMIQRDPELSGVGLVILDEFHERSLQADL 134
>gnl|CDD|197757 smart00490, HELICc, helicase superfamily c-terminal domain.
Length = 82
Score = 67.6 bits (166), Expect = 5e-14
Identities = 25/91 (27%), Positives = 42/91 (46%), Gaps = 18/91 (19%)
Query: 446 EDLKLLILPMHGSLPNNEQIKVFRPTPRAMRKIVIATNIAETSITIPGIVYVIDPGFVKA 505
++L + + +HG L E+ ++ K+++AT++AE + +PG+ VI
Sbjct: 8 KELGIKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDL--- 64
Query: 506 RWFNPNTLTNSLVVVPISKASAVQRAGRAGR 536
P S AS +QR GRAGR
Sbjct: 65 ---------------PWSPASYIQRIGRAGR 80
>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 = 68.1 bits (167), Expect = 2e-13
Identities = 30/123 (24%), Positives = 47/123 (38%), Gaps = 8/123 (6%)
Query: 583 FSFFQYLLEAGWCYDTKLIGITEPRRISVTSLANRVSEELRTTLGHTVGYTIRFDDCTTE 642
+ +LE + + P R +A R+ E G VGY I +
Sbjct: 15 LAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFG--EGIKVGYLIGGTSIKQQ 72
Query: 643 DV-----TKIKYMTEGILMREMMTDPL-LRKYSVIMLDEVHERTIFTDILMGLLKKILKD 696
+ T I T G L+ E+ L L+K +++LDE H L+GL +
Sbjct: 73 EKLLSGKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAHRLLNQGFGLLGLKILLKLP 132
Query: 697 KER 699
K+R
Sbjct: 133 KDR 135
>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 = 62.2 bits (152), Expect = 4e-12
Identities = 22/94 (23%), Positives = 38/94 (40%), Gaps = 18/94 (19%)
Query: 444 QREDLKLLILPMHGSLPNNEQIKVFRPTPRAMRKIVIATNIAETSITIPGIVYVIDPGFV 503
+ + +HG L E+ ++ K+++AT++A I +P + VI+
Sbjct: 2 LLRKPGIKVARLHGGLSQEEREEILEDFRNGKSKVLVATDVAGRGIDLPDVNLVINYDL- 60
Query: 504 KARWFNPNTLTNSLVVVPISKASAVQRAGRAGRV 537
P + AS +QR GRAGR
Sbjct: 61 -----------------PWNPASYIQRIGRAGRA 77
>gnl|CDD|218070 pfam04408, HA2, Helicase associated domain (HA2). This presumed
domain is about 90 amino acid residues in length. It is
found is a diverse set of RNA helicases. Its function is
unknown, however it seems likely to be involved in
nucleic acid binding.
Length = 91
Score = 58.8 bits (143), Expect = 8e-11
Identities = 28/53 (52%), Positives = 34/53 (64%), Gaps = 3/53 (5%)
Query: 101 ALELLYSLGAMDVNGNLTKPVGETMAEMPLHPIHAKVLLSSGSV--LDSAVEI 151
ALELLY LGA+D +G LT P+G MAE+PL P K+LL S LD + I
Sbjct: 2 ALELLYELGALDDDGELT-PLGRQMAELPLDPRLGKMLLLSAEFGCLDEILTI 53
Score = 48.0 bits (115), Expect = 6e-07
Identities = 19/52 (36%), Positives = 26/52 (50%), Gaps = 2/52 (3%)
Query: 699 RDFECSDEIASILSLLQVQDIFIKPSSGALSLKARVLRRNFEVEQGDLLTLL 750
+F C DEI +I ++L V F +P +A RR F + D LTLL
Sbjct: 42 AEFGCLDEILTIAAMLSVPSPFYRPKE--KEEEADAARRKFASAESDHLTLL 91
>gnl|CDD|219532 pfam07717, OB_NTP_bind, Oligonucleotide/oligosaccharide-binding
(OB)-fold. This family is found towards the C-terminus
of the DEAD-box helicases (pfam00270). In these
helicases it is apparently always found in association
with pfam04408. There do seem to be a couple of
instances where it occurs by itself - . The structure
PDB:3i4u adopts an OB-fold. helicases (pfam00270). In
these helicases it is apparently always found in
association with pfam04408. This C-terminal domain of
the yeast helicase contains an
oligonucleotide/oligosaccharide-binding (OB)-fold which
seems to be placed at the entrance of the putative
nucleic acid cavity. It also constitutes the binding
site for the G-patch-containing domain of Pfa1p. When
found on DEAH/RHA helicases, this domain is central to
the regulation of the helicase activity through its
binding of both RNA and G-patch domain proteins.
Length = 109
Score = 56.2 bits (136), Expect = 1e-09
Identities = 20/77 (25%), Positives = 37/77 (48%), Gaps = 7/77 (9%)
Query: 784 NQMILLLKKSSIPLVT------SPRNTNAVLKCLTNGFFSNAAYLHYSGVY-RTVRGNED 836
Q++ +L++ +P S + + K L G F N A L +T++ +
Sbjct: 1 KQLLEILERLGLPEEPSSLLNSSSNDYELIRKALCAGLFPNVARLVDEKGEYKTLKEGQP 60
Query: 837 LYIHPSSVLYTLQQPQC 853
++IHPSSVL+ + P+
Sbjct: 61 VFIHPSSVLFGKKPPEW 77
>gnl|CDD|214692 smart00487, DEXDc, DEAD-like helicases superfamily.
Length = 201
Score = 57.5 bits (139), Expect = 3e-09
Identities = 27/124 (21%), Positives = 41/124 (33%), Gaps = 10/124 (8%)
Query: 583 FSFFQYLLEAGWCYDTKLIGITEPRRISVTSLANRVSEELRTTLGHTVGYT------IRF 636
+ LEA + + P R A + + + VG +
Sbjct: 39 LAALLPALEALKRGKGGRVLVLVPTRELAEQWAEELKKLGPSLGLKVVGLYGGDSKREQL 98
Query: 637 DDCTTEDVTKIKYMTEGILMREMMTDPL-LRKYSVIMLDEVHERT--IFTDILMGLLKKI 693
T I T G L+ + D L L +++LDE H F D L LLK +
Sbjct: 99 RKL-ESGKTDILVTTPGRLLDLLENDKLSLSNVDLVILDEAHRLLDGGFGDQLEKLLKLL 157
Query: 694 LKDK 697
K+
Sbjct: 158 PKNV 161
>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 = 54.6 bits (132), Expect = 7e-09
Identities = 29/144 (20%), Positives = 56/144 (38%), Gaps = 33/144 (22%)
Query: 405 VVDTAIKIHESMPVGDILAFVIGLEQIEHIIGILKQYHNQREDLKLLILPMHGSLPNNE- 463
+ +K H G +L F + ++ + +L++ + + +HG E
Sbjct: 16 ALLELLKEHLKKG-GKVLIFCPSKKMLDELAELLRK-------PGIKVAALHGDGSQEER 67
Query: 464 --QIKVFRPTPRAMRKIVIATNIAETSITIPGIVYVIDPGFVKARWFNPNTLTNSLVVVP 521
+K FR +++AT++ I +P + VI+ ++ P
Sbjct: 68 EEVLKDFREGEI---VVLVATDVIARGIDLPNVSVVIN--------YDL----------P 106
Query: 522 ISKASAVQRAGRAGRV-RSGHVYR 544
S +S +QR GRAGR + G
Sbjct: 107 WSPSSYLQRIGRAGRAGQKGTAIL 130
>gnl|CDD|214852 smart00847, HA2, Helicase associated domain (HA2) Add an
annotation. This presumed domain is about 90 amino acid
residues in length. It is found is a diverse set of RNA
helicases. Its function is unknown, however it seems
likely to be involved in nucleic acid binding.
Length = 82
Score = 48.0 bits (115), Expect = 4e-07
Identities = 22/46 (47%), Positives = 29/46 (63%), Gaps = 2/46 (4%)
Query: 107 SLGAMDVNGNLTKPVGETMAEMPLHPIHAKVLLSSGSVLDSAVEIL 152
LGA+D +G LT P+G MAE+PL P AK+LL + + EIL
Sbjct: 1 ELGALDDDGRLT-PLGRKMAELPLDPRLAKMLL-AAAEFGCLDEIL 44
Score = 44.2 bits (105), Expect = 9e-06
Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 4/52 (7%)
Query: 699 RDFECSDEIASILSLLQVQDIFIKPSSGALSLKARVLRRNFEVEQGDLLTLL 750
+F C DEI +I+++L V D K RR F + D LTLL
Sbjct: 35 AEFGCLDEILTIVAMLSVGDPRPKEKREDADAA----RRRFADPESDHLTLL 82
>gnl|CDD|177443 PHA02653, PHA02653, RNA helicase NPH-II; Provisional.
Length = 675
Score = 46.1 bits (110), Expect = 8e-05
Identities = 35/122 (28%), Positives = 53/122 (43%), Gaps = 15/122 (12%)
Query: 424 FVIGLEQIEHIIGILKQYHNQREDLKLLILPMHGSLPN-NEQIKVFRPTPRAMRKIVIAT 482
FV + Q E L++ +HG +PN +E ++ + I+I+T
Sbjct: 401 FVASVSQCEEYKKYLEKRLPI-----YDFYIIHGKVPNIDEILEKVYSSKNP--SIIIST 453
Query: 483 NIAETSITIPGIVYVIDPGFVKARWFNPNTLTNSLVVVPISKASAVQRAGRAGRVRSG-H 541
E+S+TI +V D G R + P + ISK+ QR GR GRV G +
Sbjct: 454 PYLESSVTIRNATHVYDTG----RVYVPEPFGGKEMF--ISKSMRTQRKGRVGRVSPGTY 507
Query: 542 VY 543
VY
Sbjct: 508 VY 509
Score = 33.8 bits (78), Expect = 0.51
Identities = 10/28 (35%), Positives = 17/28 (60%)
Query: 665 LRKYSVIMLDEVHERTIFTDILMGLLKK 692
L Y +++DEVHE DI++ + +K
Sbjct: 289 LFDYGTVIIDEVHEHDQIGDIIIAVARK 316
>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 = 36.6 bits (85), Expect = 0.059
Identities = 33/120 (27%), Positives = 44/120 (36%), Gaps = 24/120 (20%)
Query: 422 LAFVIGLEQIEHIIGILKQYHNQ--REDLKLL--ILPMHGSLPNNEQIKVFRPTPRAMRK 477
L F +Q+E + + RE KLL + L E+ ++
Sbjct: 310 LVFFRSRKQVELL---YLSPRRRLVREGGKLLDAVSTYRAGLHREERRRIEAEFKEGELL 366
Query: 478 IVIATNIAETSITIPGIVYVIDPGFVKARWFNPNTLTNSLVVVPISKASAVQRAGRAGRV 537
VIATN E I I + VI G+ P +S S QRAGRAGR
Sbjct: 367 GVIATNALELGIDIGSLDAVIAYGY-------P----------GVSVLSFRQRAGRAGRR 409
>gnl|CDD|177007 CHL00067, rps2, ribosomal protein S2.
Length = 230
Score = 34.1 bits (79), Expect = 0.19
Identities = 21/106 (19%), Positives = 33/106 (31%), Gaps = 27/106 (25%)
Query: 731 KARVLRRNFEVEQ---GDLLT-------LLNIFKFYEKQENKKQFCHKYFFNYKVLKRAA 780
A + R V + G +LT L + +E F K AA
Sbjct: 86 SAAIRARCHYVNKRWLGGMLTNWSTTKTRLQKLRDLRMEEKTGLF---NRLPKKE---AA 139
Query: 781 ELKNQMILLLKK-------SSIP----LVTSPRNTNAVLKCLTNGF 815
LK Q+ L K + +P ++ A+ +C G
Sbjct: 140 ILKRQLSRLEKYLGGIKYMTKLPDIVIIIDQQEEYTALRECRKLGI 185
>gnl|CDD|224036 COG1111, MPH1, ERCC4-like helicases [DNA replication,
recombination, and repair].
Length = 542
Score = 35.0 bits (81), Expect = 0.20
Identities = 24/84 (28%), Positives = 36/84 (42%), Gaps = 25/84 (29%)
Query: 462 NEQIKVFRPTPRAMRKIVIATNIAETSITIPGIVYVI--DPGFVKARWFNPNTLTNSLVV 519
E I FR + +++AT++ E + IP + VI +P
Sbjct: 415 KEIIDQFR---KGEYNVLVATSVGEEGLDIPEVDLVIFYEP------------------- 452
Query: 520 VPISKASAVQRAGRAGRVRSGHVY 543
VP S+ ++QR GR GR R G V
Sbjct: 453 VP-SEIRSIQRKGRTGRKRKGRVV 475
>gnl|CDD|107218 cd00237, p23, p23 binds heat shock protein (Hsp)90 and participates
in the folding of a number of Hsp90 clients, including
the progesterone receptor. p23 also has a passive
chaperoning activity and in addition may participate in
prostaglandin synthesis.
Length = 106
Score = 31.7 bits (72), Expect = 0.44
Identities = 16/39 (41%), Positives = 19/39 (48%), Gaps = 11/39 (28%)
Query: 549 YNR---LFIHFCVSRNIPTIPNDPKDVKCDVMFHKVFFS 584
Y+R +FI FCV D KDVK D K+ FS
Sbjct: 7 YDRRDYVFIEFCVE--------DSKDVKVDFEKSKLTFS 37
>gnl|CDD|169406 PRK08366, vorA, 2-ketoisovalerate ferredoxin oxidoreductase subunit
alpha; Reviewed.
Length = 390
Score = 33.4 bits (76), Expect = 0.54
Identities = 19/67 (28%), Positives = 32/67 (47%), Gaps = 13/67 (19%)
Query: 297 IFKMSQGKPSDSGVEPISQSYLVELSILAPGGQDVIGEDMKAFAEQLKPLKRTQLKLIIS 356
+F ++G ++ PI ++Y+V L GG+D D+KA AE +K +I
Sbjct: 329 LFTEAKGALYNTDARPIMKNYIVGL-----GGRDFTVNDVKAIAEDMKK--------VIE 375
Query: 357 SATVDAE 363
+D E
Sbjct: 376 KGKLDKE 382
>gnl|CDD|185289 PRK15391, PRK15391, fumarate hydratase FumB; Provisional.
Length = 548
Score = 31.9 bits (72), Expect = 1.4
Identities = 15/66 (22%), Positives = 36/66 (54%), Gaps = 2/66 (3%)
Query: 113 VNGNLTKPVGETMAEMPLHPIHAKVLLSSGSVLDSAVEILLHRLRGLCDNVDSGPETFHD 172
V +L +P+ E +A++ +P+ ++ L +G+++ +I +L+ L D P+ D
Sbjct: 359 VKVDLNRPMKEILAQLSQYPVSTRLSL-TGTII-VGRDIAHAKLKELIDAGKELPQYIKD 416
Query: 173 HEMCFS 178
H + ++
Sbjct: 417 HPIYYA 422
>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 = 31.7 bits (72), Expect = 2.0
Identities = 33/148 (22%), Positives = 59/148 (39%), Gaps = 41/148 (27%)
Query: 421 ILAFVIGLEQIEHIIGILK-QYHNQREDLKLLILPMHGSLPNN-EQIKVFRPTPRAMRKI 478
+L F +E +E + LK + + I +H + E+++ FR +
Sbjct: 308 VLIFFPEIETMEQVAAALKKKLPKET------IASVHSEDQHRKEKVEAFR---DGKITL 358
Query: 479 VIATNIAETSITIPGI-VYVIDPGFVKARWFNPNTLTNSLVVVPISKASAVQRAGRAGRV 537
+I T I E +T P + V+V+ + R F ++++ VQ AGR GR
Sbjct: 359 LITTTILERGVTFPNVDVFVLG---AEHRVF--------------TESALVQIAGRVGRS 401
Query: 538 R---SGHVYRKNFMYNRLFIHFCVSRNI 562
+G V F H+ S+ +
Sbjct: 402 LERPTGDVL---------FFHYGKSKAM 420
>gnl|CDD|161761 TIGR00200, cinA_nterm, competence/damage-inducible protein CinA
N-terminal domain. cinA is a DNA damage- or
competence-inducible protein that is polycistronic with
recA in a number of species [DNA metabolism, DNA
replication, recombination, and repair].
Length = 413
Score = 31.4 bits (71), Expect = 2.2
Identities = 29/149 (19%), Positives = 45/149 (30%), Gaps = 32/149 (21%)
Query: 195 LDFPDMPYQLRYIGQPEMGPLLLRVRRALDFPDMPYQLRYIGQPEMGVGDKARPTIVRSS 254
L P +P + R + + E P L R P L G+G+ + S
Sbjct: 148 LFTPGVPSEFRVMVEHEALPRL---RERFSLPQPIVSLVLRFF---GIGESQLEADLADS 201
Query: 255 IDVACSCTVVEFLTEMGCRMDFEYISRGYMFRKGRMKILVSKIFKMSQGKPSDSGVEPIS 314
+D + T M +G + + K +E +
Sbjct: 202 LDTLTNPTGAP------------------MAYRGEVPLRELK--LTGPESEQQRAMEKL- 240
Query: 315 QSYLVELSILAPGGQDVIGEDMKAFAEQL 343
L I GQ VIGED + Q+
Sbjct: 241 -----WLDIKRVAGQSVIGEDTEGLPAQI 264
>gnl|CDD|237496 PRK13766, PRK13766, Hef nuclease; Provisional.
Length = 773
Score = 31.4 bits (72), Expect = 2.9
Identities = 24/84 (28%), Positives = 39/84 (46%), Gaps = 24/84 (28%)
Query: 463 EQIKV---FRPTPRAMRKIVIATNIAETSITIPGIVYVIDPGFVKARWFNPNTLTNSLVV 519
EQI++ FR ++++T++AE + IP + VI ++ P
Sbjct: 411 EQIEILDKFR---AGEFNVLVSTSVAEEGLDIPSVDLVI--------FYEP--------- 450
Query: 520 VPISKASAVQRAGRAGRVRSGHVY 543
VP S+ ++QR GR GR G V
Sbjct: 451 VP-SEIRSIQRKGRTGRQEEGRVV 473
>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 = 31.2 bits (71), Expect = 3.0
Identities = 21/84 (25%), Positives = 31/84 (36%), Gaps = 18/84 (21%)
Query: 453 LPMHGSLPNNEQIKVFRPTPRAMRKIVIATNIAETSITIPGIVYVIDPGFVKARWFNPNT 512
L H L N + + K+++ATN I P + +VI ++
Sbjct: 252 LAYHAGLSNKVRAENQEDFLYDDVKVMVATNAFGMGIDKPNVRFVIH--------YDM-- 301
Query: 513 LTNSLVVVPISKASAVQRAGRAGR 536
P + S Q AGRAGR
Sbjct: 302 --------PGNLESYYQEAGRAGR 317
>gnl|CDD|179781 PRK04200, PRK04200, cofactor-independent phosphoglycerate mutase;
Provisional.
Length = 395
Score = 30.6 bits (70), Expect = 3.5
Identities = 18/65 (27%), Positives = 31/65 (47%), Gaps = 18/65 (27%)
Query: 413 HESMPVGDILAFVIGLEQI-EHIIGILKQYHNQREDLKLLILPMHGSLPNNEQIKVFRPT 471
HE GD+ A + +E I E ++G + + + ED ++L+LP H PT
Sbjct: 299 HE----GDLEAKIKAIEDIDERVVGPILEALKKYEDYRILVLPDH-------------PT 341
Query: 472 PRAMR 476
P ++
Sbjct: 342 PIELK 346
>gnl|CDD|221375 pfam12008, EcoR124_C, Type I restriction and modification enzyme -
subunit R C terminal. This enzyme has been
characterized and shown to belong to a new family of the
type I class of restriction and modification enzymes.
This family is involved in bacterial defence by making
double strand breaks in specific double stranded DNA
sequences, e.g. that of invading bacteriophages. EcoR124
is made up of three subunits, HsdR, HsdS and HsdM. The R
subunit has ATPase and restriction endonuclease
activity. This domain is the C terminal of the R
subunit.
Length = 269
Score = 30.3 bits (69), Expect = 3.9
Identities = 24/117 (20%), Positives = 48/117 (41%), Gaps = 19/117 (16%)
Query: 673 LDEVHERTIFTDILMGLLKKILKDKERDFECSDEIASILSLLQVQDIFIKPSSGALSLKA 732
L+ + I D ++ L+ K LK K + E + I+ LL+ SS L K
Sbjct: 114 LELIKSDEINVDYILELIAKYLKKKAKKDE--ELREEIIRLLR--------SSSLLRSKR 163
Query: 733 RVLRRNF--EVEQGDLLT------LLNIFKFYEKQENKKQFCHKYFFNYKVLKRAAE 781
++ F ++++G L FK +K++ ++ + + + LK +
Sbjct: 164 DLIE-EFINDLQKGKLKDGADIRDYFETFKAEKKEKELEELAEEEGLDEEALKEFID 219
>gnl|CDD|137505 PRK09751, PRK09751, putative ATP-dependent helicase Lhr;
Provisional.
Length = 1490
Score = 30.3 bits (68), Expect = 5.6
Identities = 18/64 (28%), Positives = 32/64 (50%), Gaps = 9/64 (14%)
Query: 518 VVVPISKASAVQRAGRAGR----VRSGHVY---RKNFMYNRLFIHFCVSRNIPTI--PND 568
V P+S AS +QR GRAG V G + R++ + + + + + + + P++
Sbjct: 352 VATPLSVASGLQRIGRAGHQVGGVSKGLFFPRTRRDLVDSAVIVECMFAGRLENLTPPHN 411
Query: 569 PKDV 572
P DV
Sbjct: 412 PLDV 415
>gnl|CDD|215296 PLN02540, PLN02540, methylenetetrahydrofolate reductase.
Length = 565
Score = 30.1 bits (68), Expect = 6.0
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 3/45 (6%)
Query: 59 CTPPEMQRTELSSAVLQLKALGIHNILRFSFPSPPPAQNLRVALE 103
CT M ++ A+ +K+ GI NIL PP Q+ V +E
Sbjct: 67 CT--NMPVEKIDHALETIKSNGIQNILALR-GDPPHGQDKFVQVE 108
>gnl|CDD|181371 PRK08306, PRK08306, dipicolinate synthase subunit A; Reviewed.
Length = 296
Score = 29.4 bits (67), Expect = 8.6
Identities = 16/61 (26%), Positives = 31/61 (50%), Gaps = 10/61 (16%)
Query: 424 FVIGLEQIEH-IIGILKQYHNQREDLK---LLILPMHGSLPNNEQIKVFRPTPRAMRKIV 479
++G +Q++H G K + E L ++ILP+ G+ N++ V T + K+V
Sbjct: 29 SLVGFDQLDHGFTGATK-SSSLEEALSDVDVIILPVPGT---NDEGNVD--TVFSNEKLV 82
Query: 480 I 480
+
Sbjct: 83 L 83
>gnl|CDD|234938 PRK01297, PRK01297, ATP-dependent RNA helicase RhlB; Provisional.
Length = 475
Score = 29.5 bits (66), Expect = 9.8
Identities = 20/82 (24%), Positives = 34/82 (41%), Gaps = 18/82 (21%)
Query: 455 MHGSLPNNEQIKVFRPTPRAMRKIVIATNIAETSITIPGIVYVIDPGFVKARWFNPNTLT 514
+ G +P +++IK ++++AT++A I I GI +VI+
Sbjct: 365 LSGDVPQHKRIKTLEGFREGKIRVLVATDVAGRGIHIDGISHVIN--------------- 409
Query: 515 NSLVVVPISKASAVQRAGRAGR 536
+P V R GR GR
Sbjct: 410 ---FTLPEDPDDYVHRIGRTGR 428
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
0.323 0.138 0.404
Gapped
Lambda K H
0.267 0.0751 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 44,044,543
Number of extensions: 4447876
Number of successful extensions: 3745
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3689
Number of HSP's successfully gapped: 62
Length of query: 858
Length of database: 10,937,602
Length adjustment: 105
Effective length of query: 753
Effective length of database: 6,280,432
Effective search space: 4729165296
Effective search space used: 4729165296
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 63 (28.0 bits)