RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2764
(419 letters)
>gnl|CDD|226947 COG4581, COG4581, Superfamily II RNA helicase [DNA replication,
recombination, and repair].
Length = 1041
Score = 403 bits (1038), Expect = e-131
Identities = 178/378 (47%), Positives = 225/378 (59%), Gaps = 23/378 (6%)
Query: 59 FDAKVPI----MAHTWPFELDVFQKQAIIKLEEHNHVFVTAHTSAGKTVIAEYAIALSQN 114
DA+ P A +PFELD FQ++AI LE V V A TS+GKTV+AEYAIAL+
Sbjct: 101 PDAESPFDLAPPAREYPFELDPFQQEAIAILERGESVLVCAPTSSGKTVVAEYAIALALR 160
Query: 115 HKTRTIYTSPIKALSNQKYRDFRETFQDV----GLVTGDFQINTTASCLVMTTEILRSML 170
R IYTSPIKALSNQKYRD F DV GL+TGD IN A CLVMTTEILR+ML
Sbjct: 161 DGQRVIYTSPIKALSNQKYRDLLAKFGDVADMVGLMTGDVSINPDAPCLVMTTEILRNML 220
Query: 171 YRGSDVLRDLEYVIFDEVHYINDSERGHVWEEVLILLPKEVCIVMLSATVPNTLEFADWV 230
YRGS+ LRD+E+V+FDEVHYI D ERG VWEEV+ILLP V V LSATVPN EFA+W+
Sbjct: 221 YRGSESLRDIEWVVFDEVHYIGDRERGVVWEEVIILLPDHVRFVFLSATVPNAEEFAEWI 280
Query: 231 GNTKKTKVYVVSTLKRPVPLKHFLYVGPVLEKNQLFLIREAEGEFLTRGYLAAKEV-KCR 289
++VVST RPVPL+HF+YVG LF + + + +F + +A C
Sbjct: 281 QRVHSQPIHVVSTEHRPVPLEHFVYVG-----KGLFDLVDEKKKFNAENFPSANRSLSCF 335
Query: 290 KQLEKGGSGGGKLNGPFTRGAEKNLFIS------FLNYLRKSQNLPVVLFTLSRKRCDQN 343
+ + G A + +N L K LP ++F+ SR+ C++
Sbjct: 336 SEKVRETDDGDVGRYARRTKALRGSAKGPAGRPEIVNKLDKDNLLPAIVFSFSRRGCEEA 395
Query: 344 AANLLSMDFSTATEKS-KIHRFFQDSIRNLQNEDDRALP-QVKRLEQLLKNGIGVHHSGI 401
A L ++D EK I +I +L E DR LP Q+ + LL GI VHH+G+
Sbjct: 396 AQILSTLDLVLTEEKERAIREIIDHAIGDLAEE-DRELPLQILEISALLLRGIAVHHAGL 454
Query: 402 LPILKEIVEMLFQKGLVK 419
LP +KE+VE LFQ+GLVK
Sbjct: 455 LPAIKELVEELFQEGLVK 472
>gnl|CDD|224125 COG1204, COG1204, Superfamily II helicase [General function
prediction only].
Length = 766
Score = 146 bits (371), Expect = 3e-38
Identities = 88/348 (25%), Positives = 146/348 (41%), Gaps = 62/348 (17%)
Query: 85 LEEHNHVFVTAHTSAGKTVIAEYAIALS--QNHKTRTIYTSPIKALSNQKYRDFR--ETF 140
L +V ++A T +GKT+IA AI LS + +Y P+KAL+ +KY +F E
Sbjct: 44 LLSDENVLISAPTGSGKTLIALLAI-LSTLLEGGGKVVYIVPLKALAEEKYEEFSRLEEL 102
Query: 141 QD-VGLVTGDFQINTT----ASCLVMTTEILRSMLYRGSDVLRDLEYVIFDEVHYINDSE 195
VG+ TGD+ ++ +V T E L S+ + + +++ V+ DE+H + D
Sbjct: 103 GIRVGISTGDYDLDDERLARYDVIVTTPEKLDSLTRKRPSWIEEVDLVVIDEIHLLGDRT 162
Query: 196 RGHVWEEVLILLP---KEVCIVMLSATVPNTLEFADWVGNTKKTKVYVVSTLKRPVPLKH 252
RG V E ++ + + + IV LSAT+PN E ADW+ +V + RPVPL+
Sbjct: 163 RGPVLESIVARMRRLNELIRIVGLSATLPNAEEVADWLN------AKLVESDWRPVPLRR 216
Query: 253 FLYVGPVLEKNQLFLIREAEGEFLTRGYLAAKEVKCRKQLEKGGSGGGKLNGPFTRGAEK 312
V + + A E + L +GG
Sbjct: 217 -----GVPYVGAFLGADGKKKTWPLLIDNLALE-LVLESLAEGG---------------- 254
Query: 313 NLFISFLNYLRKSQNLPVVLFTLSRKRCDQNAANLLSMDFSTATEKSKIHRFFQ-DSIRN 371
V++F SRK ++ A L +T ++ KI I
Sbjct: 255 ----------------QVLVFVHSRKEAEKTAKKLRIKMSATLSDDEKIVLDEGASPILI 298
Query: 372 LQNEDDRALPQVKRLEQLLKNGIGVHHSGILPILKEIVEMLFQKGLVK 419
+ + L +L+ G+ HH+G+ +++VE F+KG +K
Sbjct: 299 PETPTSE----DEELAELVLRGVAFHHAGLPREDRQLVEDAFRKGKIK 342
>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 = 120 bits (304), Expect = 1e-32
Identities = 50/164 (30%), Positives = 78/164 (47%), Gaps = 16/164 (9%)
Query: 78 QKQAIIKLEEHNHVFVTAHTSAGKTVIAEYAIA---LSQNHKTRTIYTSPIKALSNQKYR 134
Q QAI + V V A T +GKT+ I L + + + +P + L+ Q Y
Sbjct: 4 QAQAIPAILSGKDVLVQAPTGSGKTLAFLLPILQALLPKKGGPQALVLAPTRELAEQIYE 63
Query: 135 DFRETFQ----DVGLVTGDFQINT--------TASCLVMTTEILRSMLYRGS-DVLRDLE 181
+ ++ F+ V L+TG + A LV T L +L RG +L++L+
Sbjct: 64 ELKKLFKILGLRVALLTGGTSLKEQARKLKKGKADILVGTPGRLLDLLRRGKLKLLKNLK 123
Query: 182 YVIFDEVHYINDSERGHVWEEVLILLPKEVCIVMLSATVPNTLE 225
++ DE H + D G EE+L LP + I++LSAT+P LE
Sbjct: 124 LLVLDEAHRLLDMGFGDDLEEILSRLPPDRQILLLSATLPRNLE 167
>gnl|CDD|214692 smart00487, DEXDc, DEAD-like helicases superfamily.
Length = 201
Score = 106 bits (267), Expect = 5e-27
Identities = 53/194 (27%), Positives = 80/194 (41%), Gaps = 15/194 (7%)
Query: 71 PFELDVFQKQAI-IKLEEHNHVFVTAHTSAGKTVIAEYAI--ALSQNHKTRTIYTSPIKA 127
L +QK+AI L V + A T +GKT+ A AL + R + P +
Sbjct: 6 FEPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALKRGKGGRVLVLVPTRE 65
Query: 128 LSNQKYRDFRETFQD-----VGLVTGD-------FQINTTASCLVMTTEILRSMLYRGSD 175
L+ Q + ++ VGL GD + LV T L +L
Sbjct: 66 LAEQWAEELKKLGPSLGLKVVGLYGGDSKREQLRKLESGKTDILVTTPGRLLDLLENDKL 125
Query: 176 VLRDLEYVIFDEVHYINDSERGHVWEEVLILLPKEVCIVMLSATVPNTLEFADWVGNTKK 235
L +++ VI DE H + D G E++L LLPK V +++LSAT P +E +
Sbjct: 126 SLSNVDLVILDEAHRLLDGGFGDQLEKLLKLLPKNVQLLLLSATPPEEIENLLELFLNDP 185
Query: 236 TKVYVVSTLKRPVP 249
+ V T P+
Sbjct: 186 VFIDVGFTPLEPIE 199
>gnl|CDD|100801 PRK01172, PRK01172, ski2-like helicase; Provisional.
Length = 674
Score = 104 bits (261), Expect = 4e-24
Identities = 85/360 (23%), Positives = 153/360 (42%), Gaps = 79/360 (21%)
Query: 72 FELDVFQKQAIIKLEEHNHVFVTAHTSAGKTVIAEYAIALSQNHKTRTIYTSPIKALSNQ 131
FEL Q+ AI +L + +V V+ T+AGKT+IA AI + ++IY P+++L+ +
Sbjct: 21 FELYDHQRMAIEQLRKGENVIVSVPTAAGKTLIAYSAIYETFLAGLKSIYIVPLRSLAME 80
Query: 132 KYRD---FRETFQDVGLVTGDFQINTTAS------CLVMTTEILRSMLYRGSDVLRDLEY 182
KY + R V + GD+ + +++T+E S+++ ++ D+
Sbjct: 81 KYEELSRLRSLGMRVKISIGDY--DDPPDFIKRYDVVILTSEKADSLIHHDPYIINDVGL 138
Query: 183 VIFDEVHYINDSERGHVWEEVLI---LLPKEVCIVMLSATVPNTLEFADWVGNTKKTKVY 239
++ DE+H I D +RG E VL + + I+ LSATV N E A W+ +
Sbjct: 139 IVADEIHIIGDEDRGPTLETVLSSARYVNPDARILALSATVSNANELAQWLNAS-----L 193
Query: 240 VVSTLKRPVPLKHFLYVGPVLEKNQLFLIREAEGEFLTRGYLAAKEVKCRKQLEKGGSGG 299
+ S RPVPLK +G +L + +L L R + + ++ + GG
Sbjct: 194 IKSNF-RPVPLK----LG-ILYRKRLILDGYE------RSQVDINSL-IKETVNDGGQ-- 238
Query: 300 GKLNGPFTRGAEKNLFISFLNYLRKSQNLPVVLFTLSRKRCDQNAANLLSMDFSTATEKS 359
V++F SRK + A L
Sbjct: 239 ------------------------------VLVFVSSRKNAEDYAEML------------ 256
Query: 360 KIHRFFQDSIRNLQNEDDRALPQVKRLEQLLKNGIGVHHSGILPILKEIVEMLFQKGLVK 419
I F + + + +E++ L ++L +G+ HH+G+ + +E +F+ +K
Sbjct: 257 -IQHFPEFNDFKVSSENNNVYDDS--LNEMLPHGVAFHHAGLSNEQRRFIEEMFRNRYIK 313
>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 = 87.4 bits (217), Expect = 1e-20
Identities = 39/143 (27%), Positives = 64/143 (44%), Gaps = 12/143 (8%)
Query: 89 NHVFVTAHTSAGKTVIAEYAI--ALSQNHKTRTIYTSPIKALSNQKYRDFRETFQ---DV 143
V + A T +GKT+ A I L + + +P + L+NQ +E F V
Sbjct: 1 RDVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFGEGIKV 60
Query: 144 GLVTGDFQI-------NTTASCLVMTTEILRSMLYRGSDVLRDLEYVIFDEVHYINDSER 196
G + G I + +V T L L R L+ L+ +I DE H + +
Sbjct: 61 GYLIGGTSIKQQEKLLSGKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAHRLLNQGF 120
Query: 197 GHVWEEVLILLPKEVCIVMLSAT 219
G + ++L+ LPK+ +++LSAT
Sbjct: 121 GLLGLKILLKLPKDRQVLLLSAT 143
>gnl|CDD|224123 COG1202, COG1202, Superfamily II helicase, archaea-specific
[General function prediction only].
Length = 830
Score = 86.4 bits (214), Expect = 4e-18
Identities = 65/213 (30%), Positives = 98/213 (46%), Gaps = 26/213 (12%)
Query: 85 LEEHNHVFVTAHTSAGKTVIAEYA-IALSQNHKTRTIYTSPIKALSNQKYRDFRETFQDV 143
L E ++ V + T++GKT+I E A I + + ++ P+ AL+NQKY DF+E + +
Sbjct: 229 LLEGENLLVVSATASGKTLIGELAGIPRLLSGGKKMLFLVPLVALANQKYEDFKERYSKL 288
Query: 144 GLVT----GDFQINTTASCLVMTTEILRSM----------LYRGSDVLRDLEYVIFDEVH 189
GL G +I T +V+ T + L R L D+ V+ DE+H
Sbjct: 289 GLKVAIRVGMSRIKTREEPVVVDTSPDADIIVGTYEGIDYLLRTGKDLGDIGTVVIDEIH 348
Query: 190 YINDSERGHVWEEV---LILLPKEVCIVMLSATVPNTLEFADWVGNTKKTKVYVVSTLKR 246
+ D ERG + + L L + LSATV N E A KK +V +R
Sbjct: 349 TLEDEERGPRLDGLIGRLRYLFPGAQFIYLSATVGNPEELA------KKLGAKLVLYDER 402
Query: 247 PVPL-KHFLYVGPVLEKNQLFLIREAEGEFLTR 278
PVPL +H ++ EK + R + EF T
Sbjct: 403 PVPLERHLVFARNESEKWDIIA-RLVKREFSTE 434
>gnl|CDD|234702 PRK00254, PRK00254, ski2-like helicase; Provisional.
Length = 720
Score = 82.9 bits (205), Expect = 5e-17
Identities = 89/336 (26%), Positives = 151/336 (44%), Gaps = 73/336 (21%)
Query: 97 TSAGKTVIAEYAIA---LSQNHKTRTIYTSPIKALSNQKYRDFRETFQDVGL----VTGD 149
T++GKT++AE + L + K +Y P+KAL+ +KYR+F++ ++ +GL TGD
Sbjct: 48 TASGKTLVAEIVMVNKLLREGGKA--VYLVPLKALAEEKYREFKD-WEKLGLRVAMTTGD 104
Query: 150 FQINTTASCL------VMTTEILRSMLYRGSDVLRDLEYVIFDEVHYINDSERGHVWEEV 203
+ ++T L + T E S+L GS ++D++ V+ DE+H I +RG E +
Sbjct: 105 Y--DSTDEWLGKYDIIIATAEKFDSLLRHGSSWIKDVKLVVADEIHLIGSYDRGATLEMI 162
Query: 204 LILLPKEVCIVMLSATVPNTLEFADWVGNTKKTKVYVVSTLKRPVPLKHFLYVGPVLEKN 263
L + I+ LSATV N E A+W+ N + VVS RPV L+ ++
Sbjct: 163 LTHMLGRAQILGLSATVGNAEELAEWL-NAE----LVVSDW-RPVKLRKGVFY------- 209
Query: 264 QLFLIREAEGEFLTRGYLAAKEVKCRKQLEKGGSGGGKLNGPFTRGAEKNLFISFLNYLR 323
Q FL E + + E ++KG +GA + F+N R
Sbjct: 210 QGFLFWEDGK---IERFPNSWESLVYDAVKKG------------KGA-----LVFVNTRR 249
Query: 324 KSQNLPVVLFTLSRKRCDQNAANLLSMDFSTATEKSKIHRFFQDSIRNLQNEDDRALPQV 383
++ L++K L T E + N NE
Sbjct: 250 SAEK---EALELAKK-----IKRFL-----TKPELRALKELADSLEENPTNE-------- 288
Query: 384 KRLEQLLKNGIGVHHSGILPILKEIVEMLFQKGLVK 419
+L++ L+ G+ HH+G+ + ++E F++GL+K
Sbjct: 289 -KLKKALRGGVAFHHAGLGRTERVLIEDAFREGLIK 323
>gnl|CDD|235032 PRK02362, PRK02362, ski2-like helicase; Provisional.
Length = 737
Score = 82.3 bits (204), Expect = 8e-17
Identities = 53/167 (31%), Positives = 90/167 (53%), Gaps = 20/167 (11%)
Query: 97 TSAGKTVIAEYAIALSQNHKTRTIYTSPIKALSNQKYRDFRETFQ---DVGLVTGDFQIN 153
T++GKT+IAE A+ + + +Y P++AL+++K+ +F + VG+ TGD+ +
Sbjct: 48 TASGKTLIAELAMLKAIARGGKALYIVPLRALASEKFEEFERFEELGVRVGISTGDY--D 105
Query: 154 TTASCL------VMTTEILRSMLYRGSDVLRDLEYVIFDEVHYINDSERGHVWEEVLILL 207
+ L V T+E + S+L G+ L D+ V+ DEVH I+ + RG E L L
Sbjct: 106 SRDEWLGDNDIIVATSEKVDSLLRNGAPWLDDITCVVVDEVHLIDSANRGPTLEVTLAKL 165
Query: 208 PK---EVCIVMLSATVPNTLEFADWVGNTKKTKVYVVSTLKRPVPLK 251
+ ++ +V LSAT+ N E ADW+ +V + RP+ L+
Sbjct: 166 RRLNPDLQVVALSATIGNADELADWLDAE------LVDSEWRPIDLR 206
Score = 30.7 bits (70), Expect = 1.9
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 390 LKNGIGVHHSGILPILKEIVEMLFQKGLVK 419
+ G HH+G+ +E+VE F+ L+K
Sbjct: 302 VAKGAAFHHAGLSREHRELVEDAFRDRLIK 331
>gnl|CDD|224122 COG1201, Lhr, Lhr-like helicases [General function prediction
only].
Length = 814
Score = 69.6 bits (171), Expect = 1e-12
Identities = 58/215 (26%), Positives = 92/215 (42%), Gaps = 38/215 (17%)
Query: 78 QKQAIIKLEEHNHVFVTAHTSAGKTVIAEYAI--------ALSQNHKTRTIYTSPIKALS 129
Q+ AI ++ +V + A T +GKT A + +Y SP+KAL+
Sbjct: 27 QRYAIPEIHSGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALN 86
Query: 130 NQKYRDFRETFQDVGLV----TGDFQINTTAS-----------CLVMTTEILRSML--YR 172
N R E +++G+ GD T S L+ T E L +L +
Sbjct: 87 NDIRRRLEEPLRELGIEVAVRHGD----TPQSEKQKMLKNPPHILITTPESLAILLNSPK 142
Query: 173 GSDVLRDLEYVIFDEVHYINDSERGH---VWEEVLILLPKEVCIVMLSATVPNTLEFADW 229
++LRD+ YVI DE+H + +S+RG + E L L + + LSATV E A +
Sbjct: 143 FRELLRDVRYVIVDEIHALAESKRGVQLALSLERLRELAGDFQRIGLSATVGPPEEVAKF 202
Query: 230 -VGNTKKTKVYVVSTLKRP-----VPLKHFLYVGP 258
VG ++ VS K+ P++ +Y
Sbjct: 203 LVGFGDPCEIVDVSAAKKLEIKVISPVEDLIYDEE 237
>gnl|CDD|234478 TIGR04121, DEXH_lig_assoc, DEXH box helicase, DNA
ligase-associated. Members of this protein family are
DEAD/DEAH box helicases found associated with a
bacterial ATP-dependent DNA ligase, part of a four-gene
system that occurs in about 12 % of prokaryotic
reference genomes. The actual motif in this family is
DE[VILW]H.
Length = 803
Score = 64.5 bits (158), Expect = 4e-11
Identities = 50/206 (24%), Positives = 80/206 (38%), Gaps = 37/206 (17%)
Query: 77 FQKQAIIKLEEHNHVFVTAHTSAGKT------VIAEYAIALSQNHKTRTIYTSPIKALSN 130
FQ + E + A T +GKT + + A T+Y +P++AL+
Sbjct: 17 FQLEMWAAALEGRSGLLIAPTGSGKTLAGFLPSLIDLAGPEKPKKGLHTLYITPLRALAV 76
Query: 131 QKYRDFRETFQD------VGLVTGDFQINTTAS-----------CLVMTTEILRSMLYRG 173
R+ + ++ V TGD T++S L+ T E L +L
Sbjct: 77 DIARNLQAPIEELGLPIRVETRTGD----TSSSERARQRKKPPDILLTTPESLALLLSYP 132
Query: 174 --SDVLRDLEYVIFDEVHYINDSERGHVWEEVLIL-----LPKEVCIVMLSATVPNTLEF 226
+ + +DL V+ DE H + S+RG E L L L + LSAT+ N E
Sbjct: 133 DAARLFKDLRCVVVDEWHELAGSKRGDQLE--LALARLRRLAPGLRRWGLSATIGNLEEA 190
Query: 227 ADW-VGNTKKTKVYVVSTLKRPVPLK 251
+G V V L + +P+
Sbjct: 191 RRVLLGVGGAPAVLVRGKLPKAIPVI 216
>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 = 59.3 bits (144), Expect = 2e-09
Identities = 49/180 (27%), Positives = 73/180 (40%), Gaps = 33/180 (18%)
Query: 77 FQKQAIIKLEEHNHVFVTAHTSAGKTVIAEYAI--ALSQNHKTRTIYTSPIKALSNQKYR 134
Q A+ + E +V VT T +GKT I L ++ R + P AL+N +
Sbjct: 74 HQVDALRLIREGRNVVVTTGTGSGKTESFLLPILDHLLRDPSARALLLYPTNALANDQAE 133
Query: 135 DFRETFQDVG------LVTGDFQINTT-------ASCLVMTTEILRSMLYRGSD----VL 177
RE D+ TGD L+ ++L +L R D +L
Sbjct: 134 RLRELISDLPGKVTFGRYTGDTPPEERRAIIRNPPDILLTNPDMLHYLLLRNHDAWLWLL 193
Query: 178 RDLEYVIFDEVHYINDSERGHVWEEVLILL----------PKEVCIVMLSATVPNTLEFA 227
R+L+Y++ DE+H RG EV +LL + I+ SAT+ N EFA
Sbjct: 194 RNLKYLVVDELHTY----RGVQGSEVALLLRRLLRRLRRYGSPLQIICTSATLANPGEFA 249
>gnl|CDD|137505 PRK09751, PRK09751, putative ATP-dependent helicase Lhr;
Provisional.
Length = 1490
Score = 54.2 bits (130), Expect = 9e-08
Identities = 56/196 (28%), Positives = 81/196 (41%), Gaps = 41/196 (20%)
Query: 93 VTAHTSAGKTVIA----------EYAIALSQNHK---TRTIYTSPIKALSNQKYRDFRET 139
V A T +GKT+ A E + HK +R +Y SPIKAL R+ +
Sbjct: 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQIP 60
Query: 140 FQ----------------DVGLVTGDFQINTTA-------SCLVMTTEILRSMLY-RGSD 175
+ VG+ TGD + L+ T E L ML R +
Sbjct: 61 LKGIADERRRRGETEVNLRVGIRTGDTPAQERSKLTRNPPDILITTPESLYLMLTSRARE 120
Query: 176 VLRDLEYVIFDEVHYINDSERG-HV---WEEVLILLPKEVCIVMLSATVPNTLEFADWVG 231
LR +E VI DEVH + S+RG H+ E + LL + LSATV + + A ++G
Sbjct: 121 TLRGVETVIIDEVHAVAGSKRGAHLALSLERLDALLHTSAQRIGLSATVRSASDVAAFLG 180
Query: 232 NTKKTKVYVVSTLKRP 247
+ V ++ P
Sbjct: 181 GDRPVTVVNPPAMRHP 196
>gnl|CDD|237497 PRK13767, PRK13767, ATP-dependent helicase; Provisional.
Length = 876
Score = 46.0 bits (110), Expect = 3e-05
Identities = 40/158 (25%), Positives = 72/158 (45%), Gaps = 42/158 (26%)
Query: 78 QKQAIIKLEEHNHVFVTAHTSAGKTVIAEYAI-----ALSQN----HKTRTIYTSPIKAL 128
Q+ AI + E +V +++ T +GKT+ A AI L + K +Y SP++AL
Sbjct: 37 QRYAIPLIHEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRAL 96
Query: 129 SN--------------QKYRDFRETFQD--VGLVTGDFQINTTAS-----------CLVM 161
+N + ++ E + V + TGD T++ L+
Sbjct: 97 NNDIHRNLEEPLTEIREIAKERGEELPEIRVAIRTGD----TSSYEKQKMLKKPPHILIT 152
Query: 162 TTEILRSMLY--RGSDVLRDLEYVIFDEVHYINDSERG 197
T E L +L + + LR +++VI DE+H + +++RG
Sbjct: 153 TPESLAILLNSPKFREKLRTVKWVIVDEIHSLAENKRG 190
>gnl|CDD|187770 cd09639, Cas3_I, CRISPR/Cas system-associated protein Cas3. CRISPR
(Clustered Regularly Interspaced Short Palindromic
Repeats) and associated Cas proteins comprise a system
for heritable host defense by prokaryotic cells against
phage and other foreign DNA; DEAD/DEAH box helicase DNA
helicase cas3'; Often but not always is fused to HD
nuclease domain; signature gene for Type I.
Length = 353
Score = 45.1 bits (107), Expect = 4e-05
Identities = 40/192 (20%), Positives = 72/192 (37%), Gaps = 38/192 (19%)
Query: 91 VFVTAHTSAGKTVIAEYAIALSQNHKT---RTIYTSPIKALSNQKYRDFRETFQDVGLV- 146
+ + A T GKT A AL R I P +A N YR +E F + GL
Sbjct: 2 LVIEAPTGYGKTEAA-LLWALHSLKSQKADRVIIALPTRATINAMYRRAKEAFGETGLYH 60
Query: 147 -------------TGDF----------QINTTASCLVMTTEILRSMLYRGSDVLRDLEY- 182
+ +F + + T I + + +
Sbjct: 61 SSILSSRIKEMGDSEEFEHLFPLYIHSNDTLFLDPITVCT-IDQVLKSVFGEFGHYEFTL 119
Query: 183 -------VIFDEVHYINDSERGHVWEEVLILLPKEVCIVMLSATVPNTL-EFADWVGNTK 234
+IFDEVH+ ++ + + +L +V I+++SAT+P L E+A+ +G +
Sbjct: 120 ASIANSLLIFDEVHFYDEYTLALILAVLEVLKDNDVPILLMSATLPKFLKEYAEKIGYVE 179
Query: 235 KTKVYVVSTLKR 246
+ + + +R
Sbjct: 180 ENEPLDLKPNER 191
>gnl|CDD|218292 pfam04851, ResIII, Type III restriction enzyme, res subunit.
Length = 100
Score = 41.0 bits (97), Expect = 8e-05
Identities = 24/142 (16%), Positives = 47/142 (33%), Gaps = 52/142 (36%)
Query: 78 QKQAIIKLEEHNHVFVTAHTSAGKTVIAEYAIALSQNHKTRTIYTSPIKALSNQKYRDFR 137
Q++AI +L E + T +GKT+ A IA K + ++
Sbjct: 8 QEEAIERLLEKKRGLIVMATGSGKTLTAAALIARLAKGKKKVLF---------------- 51
Query: 138 ETFQDVGLVTGDFQINTTASCLVMTTEILRSMLYRGSDVLRDLEYVIFDEVHYINDSERG 197
+V ++L L +I DE H+ + +
Sbjct: 52 ---------------------VVPRKDLLEQAL-----------VIIIDEAHHSSAKTK- 78
Query: 198 HVWEEVLILLPKEVCIVMLSAT 219
+ ++ + K ++ L+AT
Sbjct: 79 --YRKI-LEKFKPAFLLGLTAT 97
>gnl|CDD|233483 TIGR01587, cas3_core, CRISPR-associated helicase Cas3. This model
represents the highly conserved core region of an
alignment of Cas3, a protein found in association with
CRISPR repeat elements in a broad range of bacteria and
archaea. Cas3 appears to be a helicase, with regions
found by pfam00270 (DEAD/DEAH box helicase) and
pfam00271 (Helicase conserved C-terminal domain). Some
but not all members have an N-terminal HD domain region
(pfam01966) that is not included within this model
[Mobile and extrachromosomal element functions, Other].
Length = 358
Score = 44.0 bits (104), Expect = 1e-04
Identities = 40/192 (20%), Positives = 68/192 (35%), Gaps = 37/192 (19%)
Query: 91 VFVTAHTSAGKTVIAEYAIALSQNHKT---RTIYTSPIKALSNQKYRDFRETFQD--VGL 145
+ + A T GKT A AL R I P +A N YR +E F L
Sbjct: 2 LVIEAPTGYGKTEAA-LLWALHSIKSQKADRVIIALPTRATINAMYRRAKELFGSNLGLL 60
Query: 146 VTGDFQINTTASCLVMTTEILRSMLYRGSD------------------VLRDLEY----- 182
+ E L + +D V + +
Sbjct: 61 HSSSSFKRIKEMGDSEEFEHLFPLYIHSNDKLFLDPITVCTIDQVLKSVFGEFGHYEFTL 120
Query: 183 -------VIFDEVHYINDSERGHVWEEVLILLPKEVCIVMLSATVPNTL-EFADWVGNTK 234
+IFDEVH+ ++ + + +L +V I+++SAT+P L E+A+ +G +
Sbjct: 121 ASIANSLLIFDEVHFYDEYTLALILAVLEVLKDNDVPILLMSATLPKFLKEYAEKIGYVE 180
Query: 235 KTKVYVVSTLKR 246
+ + +R
Sbjct: 181 FNEPLDLKEERR 192
>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 = 39.7 bits (93), Expect = 0.003
Identities = 35/119 (29%), Positives = 54/119 (45%), Gaps = 21/119 (17%)
Query: 90 HVFVTAHTSAGKTVIAEYAI--ALSQNHKTRTIYTSPIKALSNQKYRDFRE-TFQDVGLV 146
HV V T++GK++ + + AL+ + + +Y +P KAL+ + R RE T + V
Sbjct: 53 HVVVATGTASGKSLAYQLPVLSALADDPRATALYLAPTKALAADQLRAVRELTLRGVRPA 112
Query: 147 TGDFQINTTA-------SCLVMTTEILRSMLYRG--------SDVLRDLEYVIFDEVHY 190
T D T + V+T ML+RG + LR L YV+ DE H
Sbjct: 113 TYDGDTPTEERRWAREHARYVLTNP---DMLHRGILPSHARWARFLRRLRYVVIDECHS 168
>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 = 37.5 bits (88), Expect = 0.006
Identities = 40/166 (24%), Positives = 68/166 (40%), Gaps = 20/166 (12%)
Query: 78 QKQAIIKLEEHNHVFVTAHTSAGKTVIAEYAIAL-------SQNHKTRTIYTSPIKALSN 130
Q +AI L V A T +GKT A + I + + + + +P + L+
Sbjct: 26 QARAIPPLLSGRDVIGQAQTGSGKT--AAFLIPILEKLDPSPKKDGPQALILAPTRELAL 83
Query: 131 QKYRDFRE----TFQDVGLVTGD-------FQINTTASCLVMTTEILRSMLYRGSDVLRD 179
Q R+ T V ++ G ++ +V T L +L RG L
Sbjct: 84 QIAEVARKLGKHTNLKVVVIYGGTSIDKQIRKLKRGPHIVVATPGRLLDLLERGKLDLSK 143
Query: 180 LEYVIFDEVHYINDSERGHVWEEVLILLPKEVCIVMLSATVPNTLE 225
++Y++ DE + D E+L LLPK+ ++ SAT+P +
Sbjct: 144 VKYLVLDEADRMLDMGFEDQIREILKLLPKDRQTLLFSATMPKEVR 189
>gnl|CDD|224124 COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense
mechanisms].
Length = 733
Score = 38.6 bits (90), Expect = 0.007
Identities = 44/196 (22%), Positives = 72/196 (36%), Gaps = 40/196 (20%)
Query: 70 WPFELDVFQKQA-----IIKLEEHNHVFV-TAHTSAGKT-VIAEYAIALSQN---HKTRT 119
E + ++ Q I++LE+ + + V A T GKT A+AL K+R
Sbjct: 190 SFIEHEGYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEKIKLKSRV 249
Query: 120 IYTSPIKALSNQKYRDFRETFQDVGLVTGDFQ---------------------INTTASC 158
IY P + + YR +E F ++ ++
Sbjct: 250 IYVLPFRTIIEDMYRRAKEIFGLFSVIGKSLHSSSKEPLLLEPDQDILLTLTTNDSYKKL 309
Query: 159 L-----VMTTEILRSML-YRGSDVLRDLEY--VIFDEVHYINDSERGHVWEEVLILLPK- 209
L V +IL + + L L VI DEVH D +L L +
Sbjct: 310 LLALIVVTPIQILIFSVKGFKFEFLALLLTSLVILDEVHLYADETMLAALLALLEALAEA 369
Query: 210 EVCIVMLSATVPNTLE 225
V ++++SAT+P L+
Sbjct: 370 GVPVLLMSATLPPFLK 385
>gnl|CDD|223989 COG1061, SSL2, DNA or RNA helicases of superfamily II
[Transcription / DNA replication, recombination, and
repair].
Length = 442
Score = 37.4 bits (87), Expect = 0.011
Identities = 34/129 (26%), Positives = 57/129 (44%), Gaps = 18/129 (13%)
Query: 72 FELDVFQKQAIIKLEEHNH-----VFVTAHTSAGKTVIAEYAIALSQNHKTRTIYTSPIK 126
FEL +Q++A+ L ++ V V T AGKTV+A AIA K T+ P K
Sbjct: 35 FELRPYQEEALDALVKNRRTERRGVIVLP-TGAGKTVVAAEAIAEL---KRSTLVLVPTK 90
Query: 127 ALSNQKYRDFRETFQ---DVGLVTGDFQINTTASCLVMTTEILRSMLYRGSDVLRDLE-- 181
L +Q ++ ++G+ G + + + + T ++++ R
Sbjct: 91 ELLDQWAEALKKFLLLNDEIGIYGGG-EKELEPAKVTVAT--VQTLARRQLLDEFLGNEF 147
Query: 182 -YVIFDEVH 189
+IFDEVH
Sbjct: 148 GLIIFDEVH 156
>gnl|CDD|224036 COG1111, MPH1, ERCC4-like helicases [DNA replication,
recombination, and repair].
Length = 542
Score = 36.5 bits (85), Expect = 0.021
Identities = 27/111 (24%), Positives = 45/111 (40%), Gaps = 11/111 (9%)
Query: 90 HVFVTAHTSAGKTVIAEYAIALS-QNHKTRTIYTSPIKALSNQKYRDFRETF----QDVG 144
+ V T GKT IA IA + + ++ +P K L Q R+ ++
Sbjct: 31 NTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVTGIPEDEIA 90
Query: 145 LVTGDFQINT------TASCLVMTTEILRSMLYRGSDVLRDLEYVIFDEVH 189
+TG+ + V T +++ + L G L D+ +IFDE H
Sbjct: 91 ALTGEVRPEEREELWAKKKVFVATPQVVENDLKAGRIDLDDVSLLIFDEAH 141
>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 = 35.5 bits (82), Expect = 0.052
Identities = 42/202 (20%), Positives = 74/202 (36%), Gaps = 27/202 (13%)
Query: 78 QKQAIIKLEEHNHVFVTAHTSAGKTVIAEYAIAL-------SQNHKTRTIYTSPIKALSN 130
Q AI + V A T GKT A + + L + + +P + L+
Sbjct: 56 QLAAIPLILAGRDVLGQAQTGTGKT--AAFLLPLLQKILKSVERKYVSALILAPTRELAV 113
Query: 131 QKYRDFRE-----TFQDVGLVTGD-------FQINTTASCLVMTTEILRSMLYRGSDVLR 178
Q + R+ V +V G + +V T L ++ RG L
Sbjct: 114 QIAEELRKLGKNLGGLRVAVVYGGVSIRKQIEALKRGVDIVVATPGRLLDLIKRGKLDLS 173
Query: 179 DLEYVIFDEVHYINDSERGHVWEEVLILLPKEVCIVMLSATVPNTLEFADWVGNTKKTKV 238
+E ++ DE + D E++L LP + ++ SAT+P+ + + V
Sbjct: 174 GVETLVLDEADRMLDMGFIDDIEKILKALPPDRQTLLFSATMPD--DIRELARRYLNDPV 231
Query: 239 YV---VSTLKRPVP-LKHFLYV 256
+ V L+R + +K F
Sbjct: 232 EIEVSVEKLERTLKKIKQFYLE 253
>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 = 0.100
Identities = 50/200 (25%), Positives = 82/200 (41%), Gaps = 22/200 (11%)
Query: 69 TWPFELDVFQK----QAIIKLEEHNHVFVTAHTSAGKTVIAEYAIALSQNHKTRTIYTSP 124
W L QK Q + +++ V A T AGKT + I + N R SP
Sbjct: 93 QWKGTLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMIFQGIEQALNQGGRVCIASP 152
Query: 125 IKALSNQKYRDFRETFQ--DVGLVTGDFQINTTASCLVMTT-EILRSMLYRGSDVLRDLE 181
+ + Y ++ F D+ L+ GD A +V TT ++LR + D+L
Sbjct: 153 RVDVCLELYPRLKQAFSNCDIDLLYGDSDSYFRAPLVVATTHQLLR--FKQAFDLL---- 206
Query: 182 YVIFDEVH---YINDSERGHVWEEVLILLPKEVCIVMLSATVPNTLEFADWVGNTKKTKV 238
I DEV + +D + ++ KE + L+AT LE GN + K+
Sbjct: 207 --IIDEVDAFPFSDDQSLQYAVKKA---RKKEGATIYLTATPTKKLERKILKGNLRILKL 261
Query: 239 YVVSTLKRPVPLKHFLYVGP 258
+P+P+ F+++G
Sbjct: 262 -PARFHGKPLPVPKFVWIGN 280
>gnl|CDD|226581 COG4096, HsdR, Type I site-specific restriction-modification
system, R (restriction) subunit and related helicases
[Defense mechanisms].
Length = 875
Score = 34.3 bits (79), Expect = 0.12
Identities = 24/123 (19%), Positives = 40/123 (32%), Gaps = 10/123 (8%)
Query: 43 QTEWAEMLDVSKPVLDFDAKVPIMAHTWPFELDVFQKQAIIKLEE-----HNHVFVTAHT 97
Q E +L + + A + I + P +Q AI ++ E N + T
Sbjct: 138 QEELEGLLYRRQLRIQQLAYIDIDSAIGP---RYYQIIAIRRVIEAFSKGQNRALLVMAT 194
Query: 98 SAGKT--VIAEYAIALSQNHKTRTIYTSPIKALSNQKYRDFRETFQDVGLVTGDFQINTT 155
GKT IA + R ++ + AL +Q Y F + +
Sbjct: 195 GTGKTRTAIAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDFLPFGTKMNKIEDKKGD 254
Query: 156 ASC 158
S
Sbjct: 255 TSS 257
>gnl|CDD|222875 PHA02558, uvsW, UvsW helicase; Provisional.
Length = 501
Score = 33.8 bits (78), Expect = 0.16
Identities = 16/64 (25%), Positives = 33/64 (51%), Gaps = 3/64 (4%)
Query: 77 FQKQAIIKLEEHNHVFVTAHTSAGKTVIAEYAIAL--SQNHKTRTIYTSPIKALSNQKYR 134
+Q A+ + ++N + TSAGK++I Y ++ +N++ + + P +L Q
Sbjct: 118 YQYDAVYEGLKNNRRLLNLPTSAGKSLIQ-YLLSRYYLENYEGKVLIIVPTTSLVTQMID 176
Query: 135 DFRE 138
DF +
Sbjct: 177 DFVD 180
>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular
activities. AAA - ATPases associated with a variety of
cellular activities. This profile/alignment only detects
a fraction of this vast family. The poorly conserved
N-terminal helix is missing from the alignment.
Length = 148
Score = 30.4 bits (68), Expect = 0.87
Identities = 12/109 (11%), Positives = 27/109 (24%), Gaps = 15/109 (13%)
Query: 88 HNHVFVTAHTSAGKTVIAEYAIALSQNHKTRTIYTSPIKALSNQKYRDFRETFQDVGLVT 147
+ + +GKT +A IY L +
Sbjct: 2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASG 61
Query: 148 GDFQINTTASCLVMTTEILRSMLYRGSDVLRDLEYVIFDEVHYINDSER 196
+ ++ + + +I DE+ + D+E+
Sbjct: 62 SGELRL----------RLALALARKLKPDV-----LILDEITSLLDAEQ 95
>gnl|CDD|217382 pfam03135, CagE_TrbE_VirB, CagE, TrbE, VirB family, component of
type IV transporter system. This family includes the
Helicobacter pylori protein CagE, which together with
other proteins from the cag pathogenicity island (PAI),
encodes a type IV transporter secretion system. The
precise role of CagE is not known, but studies in animal
models have shown that it is essential for pathogenesis
in Helicobacter pylori induced gastritis and peptic
ulceration. Indeed, the expression of the cag PAI has
been shown to be essential for stimulating human gastric
epithelial cell apoptosis in vitro. Similar type IV
transport systems are also found in other bacteria. This
family includes the TrbE and VirB proteins from the
respective trb and Vir conjugal transfer systems in
Agrobacterium tumefaciens. Homologues of VirB proteins
from other species are also members of this family, e.g.
VirB from Brucella suis.
Length = 205
Score = 30.0 bits (68), Expect = 1.7
Identities = 18/77 (23%), Positives = 30/77 (38%), Gaps = 16/77 (20%)
Query: 358 KSKIHRFFQDSIRNLQNEDDRALPQVKRLEQLLKN------GIGVHHSGIL--------- 402
K K F + + L + D A Q++ LE+ L +G+HH ++
Sbjct: 104 KQKAKSFLKRFQKRLISISDDAKSQIEELEEALDELRSGDFVLGLHHLSLVVFAEDKEKL 163
Query: 403 -PILKEIVEMLFQKGLV 418
L E +L +G V
Sbjct: 164 DASLSEARNLLNAEGFV 180
>gnl|CDD|233063 TIGR00631, uvrb, excinuclease ABC, B subunit. All proteins in this
family for wich functions are known are DNA helicases
that function in the nucleotide excision repair and are
endonucleases that make the 3' incision next to DNA
damage. They are part of a pathway requiring UvrA, UvrB,
UvrC, and UvrD homologs. 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 = 655
Score = 30.0 bits (68), Expect = 2.8
Identities = 22/76 (28%), Positives = 32/76 (42%), Gaps = 24/76 (31%)
Query: 78 QKQAIIKLEE-----HNHVFVTAHTSAGKT-----VIAEY---AIALSQNHKTRTIYTSP 124
Q +AI KL E H + T +GKT VIA+ + ++ N
Sbjct: 14 QPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTMANVIAQVNRPTLVIAHN---------- 63
Query: 125 IKALSNQKYRDFRETF 140
K L+ Q Y +F+E F
Sbjct: 64 -KTLAAQLYNEFKEFF 78
>gnl|CDD|216619 pfam01637, Arch_ATPase, Archaeal ATPase. This family contain a
conserved P-loop motif that is involved in binding ATP.
This family is almost exclusively found in
archaebacteria and particularly in Methanococcus
jannaschii that encodes sixteen members of this family.
Length = 223
Score = 29.2 bits (66), Expect = 3.8
Identities = 18/95 (18%), Positives = 34/95 (35%), Gaps = 8/95 (8%)
Query: 100 GKTVIAEYAIALSQNHKTRTIYTSPIKALSNQKYRDF---RETFQDVGLVTGDFQINTTA 156
GKT + + + R IY P++ +K F + + +G I +
Sbjct: 32 GKTALLREFLEELRELGYRVIYYDPLRREFEEKLDRFEEAKRLAEALGDALPKIGIAKSK 91
Query: 157 SCLVMTTEILRSMLYRGSDVLRDLEYVIFDEVHYI 191
+ T + + +G + +I DEV Y
Sbjct: 92 LAFLSLTLLFELLKRKGKKIA-----IIIDEVQYA 121
>gnl|CDD|143511 cd07376, PLPDE_III_DSD_D-TA_like, Type III Pyridoxal 5-phosphate
(PLP)-Dependent Enzymes Similar to D-Serine Dehydratase
and D-Threonine Aldolase. This family includes
eukaryotic D-serine dehydratases (DSD), cryptic DSDs
from bacteria, D-threonine aldolases (D-TA), low
specificity D-TAs, and similar uncharacterized proteins.
DSD catalyzes the dehydration of D-serine to
aminoacrylate, which is rapidly hydrolyzed to pyruvate
and ammonia. D-TA reversibly catalyzes the aldol
cleavage of D-threonine into glycine and acetaldehyde,
and the synthesis of D-threonine from glycine and
acetaldehyde. Members of this family are fold type III
PLP-dependent enzymes, similar to bacterial alanine
racemase (AR), which contains an N-terminal PLP-binding
TIM barrel domain and a C-terminal beta-sandwich domain.
AR exists as homodimers with active sites that lie at
the interface between the TIM barrel domain of one
subunit and the beta-sandwich domain of the other
subunit. Based on similarity to AR, it is possible
members of this family also form dimers in solution.
Length = 345
Score = 29.0 bits (65), Expect = 4.6
Identities = 12/37 (32%), Positives = 16/37 (43%)
Query: 367 DSIRNLQNEDDRALPQVKRLEQLLKNGIGVHHSGILP 403
DS L A RL +L+ +G H SG+ P
Sbjct: 93 DSPEALAALAAFAAAHGVRLRVMLEVDVGGHRSGVRP 129
>gnl|CDD|197757 smart00490, HELICc, helicase superfamily c-terminal domain.
Length = 82
Score = 26.8 bits (60), Expect = 5.5
Identities = 10/39 (25%), Positives = 17/39 (43%), Gaps = 3/39 (7%)
Query: 384 KRLEQLLKN---GIGVHHSGILPILKEIVEMLFQKGLVK 419
+ L +LLK + H G+ +E + F G +K
Sbjct: 1 EELAELLKELGIKVARLHGGLSQEEREEILDKFNNGKIK 39
>gnl|CDD|151398 pfam10951, DUF2776, Protein of unknown function (DUF2776). This
bacterial family of proteins has no known function.
Length = 347
Score = 28.9 bits (65), Expect = 5.6
Identities = 17/60 (28%), Positives = 24/60 (40%), Gaps = 9/60 (15%)
Query: 65 IMAHTWPFELDVFQKQAIIKLEEHNHVFVTAHTSAGKTVIAEYAIAL--SQNHKTRTIYT 122
++A W F L + +EH FV H AG I IAL + + R Y+
Sbjct: 166 LIAWIWAFTL-------LAHSDEHPAYFVAGHVMAGLACICTSLIALVATIARQIRNTYS 218
>gnl|CDD|238540 cd01120, RecA-like_NTPases, RecA-like NTPases. This family includes
the NTP binding domain of F1 and V1 H+ATPases, DnaB and
related helicases as well as bacterial RecA and related
eukaryotic and archaeal recombinases. This group also
includes bacterial conjugation proteins and related DNA
transfer proteins involved in type II and type IV
secretion.
Length = 165
Score = 27.8 bits (62), Expect = 7.4
Identities = 15/109 (13%), Positives = 30/109 (27%), Gaps = 9/109 (8%)
Query: 90 HVFVTAHTSAGKTVIAEYAIALSQNHKTRTIYTSPIKALSNQKYRDFRETFQDVGLVTGD 149
+ V T +GKT +A + +Y + + R E+ L
Sbjct: 1 LILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEELTERLIGES-LKGALDNLI 59
Query: 150 FQINTTASCLVMTTEILRSMLYRGSDVLRDLEYVIF--DEVHYINDSER 196
T +L + + + DE+ + + R
Sbjct: 60 IVFATA------DDPAAARLLSKAERLRERGGDDLIILDELTRLVRALR 102
>gnl|CDD|237496 PRK13766, PRK13766, Hef nuclease; Provisional.
Length = 773
Score = 28.3 bits (64), Expect = 9.9
Identities = 28/104 (26%), Positives = 43/104 (41%), Gaps = 11/104 (10%)
Query: 97 TSAGKTVIAEYAIA-LSQNHKTRTIYTSPIKALSNQKYRDFRETFQ----DVGLVTGDFQ 151
T GKT IA IA + + +P K L Q FR+ + + TG+
Sbjct: 38 TGLGKTAIALLVIAERLHKKGGKVLILAPTKPLVEQHAEFFRKFLNIPEEKIVVFTGEVS 97
Query: 152 ------INTTASCLVMTTEILRSMLYRGSDVLRDLEYVIFDEVH 189
+ A +V T +++ + L G L D+ +IFDE H
Sbjct: 98 PEKRAELWEKAKVIVATPQVIENDLIAGRISLEDVSLLIFDEAH 141
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
0.320 0.136 0.398
Gapped
Lambda K H
0.267 0.0724 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 21,362,336
Number of extensions: 2063883
Number of successful extensions: 1755
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1715
Number of HSP's successfully gapped: 59
Length of query: 419
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 320
Effective length of database: 6,546,556
Effective search space: 2094897920
Effective search space used: 2094897920
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 60 (26.9 bits)