RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9590
(350 letters)
>gnl|CDD|224557 COG1643, HrpA, HrpA-like helicases [DNA replication, recombination,
and repair].
Length = 845
Score = 235 bits (601), Expect = 1e-70
Identities = 81/147 (55%), Positives = 108/147 (73%)
Query: 122 KKTNLTIVEQRQSLPIYKLKHELIKAVSDNQILIVIGETGSGKTTQITQYLAEAGFTARG 181
I+E R LP+ ++ E++KA+ NQ++I++GETGSGKTTQ+ Q+L E G G
Sbjct: 36 SANVPDILEYRSGLPVTAVRDEILKAIEQNQVVIIVGETGSGKTTQLPQFLLEEGLGIAG 95
Query: 182 KIGCTQPRRVAAMSVAKRVAEEFGCRLGQEVGYTIRFEDCTSSETLIKYMTDGMLLRECL 241
KIGCTQPRR+AA SVA+RVAEE G +LG+ VGY+IRFE S T IK MTDG+LLRE
Sbjct: 96 KIGCTQPRRLAARSVAERVAEELGEKLGETVGYSIRFESKVSPRTRIKVMTDGILLREIQ 155
Query: 242 VDLDLNNYSVIMLDEAHERTIHTDVLF 268
D L+ YSV+++DEAHER+++TD+L
Sbjct: 156 NDPLLSGYSVVIIDEAHERSLNTDILL 182
Score = 147 bits (374), Expect = 2e-39
Identities = 51/100 (51%), Positives = 64/100 (64%), Gaps = 5/100 (5%)
Query: 4 GQEEIDTACEILYERMKSLGPDVPELIILPVYSALPSEMQTRIFEAAPPGSRKVVIATNI 63
GQ EI+ E L + +L ILP+Y AL +E Q R+FE AP G RKVV+ATNI
Sbjct: 268 GQREIERTAEWLEKAEL-----GDDLEILPLYGALSAEEQVRVFEPAPGGKRKVVLATNI 322
Query: 64 AETSLTIDGIFYVVDPGFVKQKVYNSKTGMDSLVVTPISQ 103
AETSLTI GI YV+D G K+K Y+ +TG+ L PIS+
Sbjct: 323 AETSLTIPGIRYVIDSGLAKEKRYDPRTGLTRLETEPISK 362
Score = 94.3 bits (235), Expect = 4e-21
Identities = 37/87 (42%), Positives = 47/87 (54%), Gaps = 10/87 (11%)
Query: 270 PTKLSKFKKNQRLE--PLY--------NKYEEPNAWRISRVVIATNIAETSLTIDGIFYV 319
L K + LE PLY + EP +VV+ATNIAETSLTI GI YV
Sbjct: 276 AEWLEKAELGDDLEILPLYGALSAEEQVRVFEPAPGGKRKVVLATNIAETSLTIPGIRYV 335
Query: 320 VDPGFVKQKVYNSKTGMDSLVVTPISQ 346
+D G K+K Y+ +TG+ L PIS+
Sbjct: 336 IDSGLAKEKRYDPRTGLTRLETEPISK 362
>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 = 166 bits (421), Expect = 2e-45
Identities = 67/135 (49%), Positives = 97/135 (71%)
Query: 133 QSLPIYKLKHELIKAVSDNQILIVIGETGSGKTTQITQYLAEAGFTARGKIGCTQPRRVA 192
+LP+ + ++ +A+++NQ++I+ GETGSGKTTQ+ + E G + G IG TQPRR+A
Sbjct: 64 DNLPVSAKREDIAEAIAENQVVIIAGETGSGKTTQLPKICLELGRGSHGLIGHTQPRRLA 123
Query: 193 AMSVAKRVAEEFGCRLGQEVGYTIRFEDCTSSETLIKYMTDGMLLRECLVDLDLNNYSVI 252
A +VA+R+AEE G LG++VGY +RF D SS TL+K MTDG+LL E D L+ Y I
Sbjct: 124 ARTVAQRIAEELGTPLGEKVGYKVRFHDQVSSNTLVKLMTDGILLAETQQDRFLSRYDTI 183
Query: 253 MLDEAHERTIHTDVL 267
++DEAHER+++ D L
Sbjct: 184 IIDEAHERSLNIDFL 198
Score = 77.1 bits (190), Expect = 2e-15
Identities = 41/100 (41%), Positives = 62/100 (62%), Gaps = 8/100 (8%)
Query: 4 GQEEIDTACEILYERMKSLGPDVPELIILPVYSALPSEMQTRIFEAAPPGSRKVVIATNI 63
G+ EI A EIL +R ++ ILP+Y+ L ++ Q R+F+ P R++V+ATN+
Sbjct: 288 GEREIRDAAEILRKR------NLRHTEILPLYARLSNKEQQRVFQ--PHSGRRIVLATNV 339
Query: 64 AETSLTIDGIFYVVDPGFVKQKVYNSKTGMDSLVVTPISQ 103
AETSLT+ GI YV+D G + Y+ +T + L + PISQ
Sbjct: 340 AETSLTVPGIHYVIDTGTARISRYSYRTKVQRLPIEPISQ 379
Score = 59.8 bits (145), Expect = 1e-09
Identities = 29/71 (40%), Positives = 42/71 (59%), Gaps = 10/71 (14%)
Query: 284 PLYNK--YEEPNAWRI------SRVVIATNIAETSLTIDGIFYVVDPGFVKQKVYNSKTG 335
PLY + +E R+ R+V+ATN+AETSLT+ GI YV+D G + Y+ +T
Sbjct: 311 PLYARLSNKEQQ--RVFQPHSGRRIVLATNVAETSLTVPGIHYVIDTGTARISRYSYRTK 368
Query: 336 MDSLVVTPISQ 346
+ L + PISQ
Sbjct: 369 VQRLPIEPISQ 379
>gnl|CDD|182986 PRK11131, PRK11131, ATP-dependent RNA helicase HrpA; Provisional.
Length = 1294
Score = 163 bits (415), Expect = 1e-44
Identities = 67/150 (44%), Positives = 95/150 (63%), Gaps = 10/150 (6%)
Query: 129 VEQRQS----------LPIYKLKHELIKAVSDNQILIVIGETGSGKTTQITQYLAEAGFT 178
V R++ LP+ + K ++++A+ D+Q++IV GETGSGKTTQ+ + E G
Sbjct: 57 VLLREAARPEITYPENLPVSQKKQDILEAIRDHQVVIVAGETGSGKTTQLPKICLELGRG 116
Query: 179 ARGKIGCTQPRRVAAMSVAKRVAEEFGCRLGQEVGYTIRFEDCTSSETLIKYMTDGMLLR 238
+G IG TQPRR+AA +VA R+AEE LG VGY +RF D S T++K MTDG+LL
Sbjct: 117 VKGLIGHTQPRRLAARTVANRIAEELETELGGCVGYKVRFNDQVSDNTMVKLMTDGILLA 176
Query: 239 ECLVDLDLNNYSVIMLDEAHERTIHTDVLF 268
E D L Y I++DEAHER+++ D +
Sbjct: 177 EIQQDRLLMQYDTIIIDEAHERSLNIDFIL 206
Score = 80.1 bits (198), Expect = 2e-16
Identities = 40/101 (39%), Positives = 61/101 (60%), Gaps = 10/101 (9%)
Query: 4 GQEEI-DTACEILYERMKSLGPDVPELIILPVYSALPSEMQTRIFEAAPPGSRKVVIATN 62
G+ EI DTA + L + ++ ILP+Y+ L + Q R+F+ R++V+ATN
Sbjct: 295 GEREIRDTA-DALNKL------NLRHTEILPLYARLSNSEQNRVFQ--SHSGRRIVLATN 345
Query: 63 IAETSLTIDGIFYVVDPGFVKQKVYNSKTGMDSLVVTPISQ 103
+AETSLT+ GI YV+DPG + Y+ +T + L + PISQ
Sbjct: 346 VAETSLTVPGIKYVIDPGTARISRYSYRTKVQRLPIEPISQ 386
Score = 62.8 bits (153), Expect = 1e-10
Identities = 30/71 (42%), Positives = 44/71 (61%), Gaps = 10/71 (14%)
Query: 284 PLY--------NKYEEPNAWRISRVVIATNIAETSLTIDGIFYVVDPGFVKQKVYNSKTG 335
PLY N+ + ++ R R+V+ATN+AETSLT+ GI YV+DPG + Y+ +T
Sbjct: 318 PLYARLSNSEQNRVFQSHSGR--RIVLATNVAETSLTVPGIKYVIDPGTARISRYSYRTK 375
Query: 336 MDSLVVTPISQ 346
+ L + PISQ
Sbjct: 376 VQRLPIEPISQ 386
>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 = 106 bits (266), Expect = 5e-28
Identities = 41/139 (29%), Positives = 59/139 (42%), Gaps = 10/139 (7%)
Query: 152 QILIVIGETGSGKTTQITQYLAEAGFT-ARGKIGCTQPRRVAAMSVAKRVAEEFGCRLGQ 210
+ +++ TGSGKT + E + G++ P R A VA+R+ E FG G
Sbjct: 1 RDVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFGE--GI 58
Query: 211 EVGYTIRFEDCTSSETL------IKYMTDGMLLRECLVD-LDLNNYSVIMLDEAHERTIH 263
+VGY I E L I T G LL E L L +++LDEAH
Sbjct: 59 KVGYLIGGTSIKQQEKLLSGKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAHRLLNQ 118
Query: 264 TDVLFDPTKLSKFKKNQRL 282
L L K K++++
Sbjct: 119 GFGLLGLKILLKLPKDRQV 137
>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 = 106 bits (265), Expect = 4e-25
Identities = 45/132 (34%), Positives = 75/132 (56%), Gaps = 3/132 (2%)
Query: 135 LPIYKLKHELIKAVSDNQILIVIGETGSGKTTQIT-QYLAEAGFTARGKIGCTQPRRVAA 193
LPI+ + L A++ + +++ G+GK+T + L G GKI +PRR+AA
Sbjct: 1 LPIHAVLPALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAPGIG--GKIIMLEPRRLAA 58
Query: 194 MSVAKRVAEEFGCRLGQEVGYTIRFEDCTSSETLIKYMTDGMLLRECLVDLDLNNYSVIM 253
S A+R+A + G +GQ VGY +R E+ S T ++ +T+G+L R D +L+ ++
Sbjct: 59 RSAAQRLASQLGEAVGQTVGYRVRGENKVSRRTRLEVVTEGILTRMIQDDPELDGVGALI 118
Query: 254 LDEAHERTIHTD 265
DE HER++ D
Sbjct: 119 FDEFHERSLDAD 130
Score = 95.6 bits (238), Expect = 1e-21
Identities = 46/100 (46%), Positives = 56/100 (56%), Gaps = 6/100 (6%)
Query: 4 GQEEIDTACEILYERMKSLGPDVPELIILPVYSALPSEMQTRIFEAAPPGSRKVVIATNI 63
GQ EI E L ER L DV +I P+Y L Q R + P G RKVV+ATNI
Sbjct: 218 GQAEIRRVQEQLAER---LDSDV---LICPLYGELSLAAQDRAIKPDPQGRRKVVLATNI 271
Query: 64 AETSLTIDGIFYVVDPGFVKQKVYNSKTGMDSLVVTPISQ 103
AETSLTI+GI V+D G + ++ KTG+ L ISQ
Sbjct: 272 AETSLTIEGIRVVIDSGLARVARFDPKTGITRLETVRISQ 311
Score = 62.9 bits (153), Expect = 8e-11
Identities = 29/71 (40%), Positives = 40/71 (56%), Gaps = 8/71 (11%)
Query: 284 PLYNKYE--------EPNAWRISRVVIATNIAETSLTIDGIFYVVDPGFVKQKVYNSKTG 335
PLY + +P+ +VV+ATNIAETSLTI+GI V+D G + ++ KTG
Sbjct: 241 PLYGELSLAAQDRAIKPDPQGRRKVVLATNIAETSLTIEGIRVVIDSGLARVARFDPKTG 300
Query: 336 MDSLVVTPISQ 346
+ L ISQ
Sbjct: 301 ITRLETVRISQ 311
>gnl|CDD|236950 PRK11664, PRK11664, ATP-dependent RNA helicase HrpB; Provisional.
Length = 812
Score = 101 bits (253), Expect = 2e-23
Identities = 48/133 (36%), Positives = 79/133 (59%), Gaps = 3/133 (2%)
Query: 134 SLPIYKLKHELIKAVSDNQILIVIGETGSGKTTQIT-QYLAEAGFTARGKIGCTQPRRVA 192
SLP+ + EL+ A+ +++ TG+GK+T + Q L G GKI +PRR+A
Sbjct: 3 SLPVAAVLPELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQHGGIN--GKIIMLEPRRLA 60
Query: 193 AMSVAKRVAEEFGCRLGQEVGYTIRFEDCTSSETLIKYMTDGMLLRECLVDLDLNNYSVI 252
A +VA+R+AE+ G + G+ VGY +R E T ++ +T+G+L R D +L+ ++
Sbjct: 61 ARNVAQRLAEQLGEKPGETVGYRMRAESKVGPNTRLEVVTEGILTRMIQRDPELSGVGLV 120
Query: 253 MLDEAHERTIHTD 265
+LDE HER++ D
Sbjct: 121 ILDEFHERSLQAD 133
Score = 87.3 bits (217), Expect = 8e-19
Identities = 45/100 (45%), Positives = 56/100 (56%), Gaps = 6/100 (6%)
Query: 4 GQEEIDTACEILYERMKSLGPDVPELIILPVYSALPSEMQTRIFEAAPPGSRKVVIATNI 63
G EI E L R + DV ++ P+Y AL Q + AP G RKVV+ATNI
Sbjct: 221 GVGEIQRVQEQLASR---VASDV---LLCPLYGALSLAEQQKAILPAPAGRRKVVLATNI 274
Query: 64 AETSLTIDGIFYVVDPGFVKQKVYNSKTGMDSLVVTPISQ 103
AETSLTI+GI VVD G + ++ KTG+ LV ISQ
Sbjct: 275 AETSLTIEGIRLVVDSGLERVARFDPKTGLTRLVTQRISQ 314
Score = 61.5 bits (150), Expect = 2e-10
Identities = 27/48 (56%), Positives = 34/48 (70%)
Query: 299 RVVIATNIAETSLTIDGIFYVVDPGFVKQKVYNSKTGMDSLVVTPISQ 346
+VV+ATNIAETSLTI+GI VVD G + ++ KTG+ LV ISQ
Sbjct: 267 KVVLATNIAETSLTIEGIRLVVDSGLERVARFDPKTGLTRLVTQRISQ 314
>gnl|CDD|214692 smart00487, DEXDc, DEAD-like helicases superfamily.
Length = 201
Score = 84.1 bits (208), Expect = 4e-19
Identities = 34/138 (24%), Positives = 54/138 (39%), Gaps = 17/138 (12%)
Query: 131 QRQSLPIYKLKHELIKAVSDNQILIVIGETGSGKTTQITQYLAEAGF-TARGKIGCTQPR 189
Q++++ +S + +I+ TGSGKT EA G++ P
Sbjct: 13 QKEAIE---------ALLSGLRDVILAAPTGSGKTLAALLPALEALKRGKGGRVLVLVPT 63
Query: 190 RVAAMSVAKRVAEEFGCRLGQEVGYT------IRFEDCTSSETLIKYMTDGMLLRECLVD 243
R A A+ + + + VG + S +T I T G LL D
Sbjct: 64 RELAEQWAEELKKLGPSLGLKVVGLYGGDSKREQLRKLESGKTDILVTTPGRLLDLLEND 123
Query: 244 -LDLNNYSVIMLDEAHER 260
L L+N +++LDEAH
Sbjct: 124 KLSLSNVDLVILDEAHRL 141
>gnl|CDD|197757 smart00490, HELICc, helicase superfamily c-terminal domain.
Length = 82
Score = 53.0 bits (128), Expect = 3e-09
Identities = 19/69 (27%), Positives = 33/69 (47%), Gaps = 5/69 (7%)
Query: 13 EILYERMKSLGPDVPELIILPVYSALPSEMQTRIFEAAPPGSRKVVIATNIAETSLTIDG 72
E L E +K LG + + ++ L E + I + G KV++AT++AE L + G
Sbjct: 1 EELAELLKELG-----IKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPG 55
Query: 73 IFYVVDPGF 81
+ V+
Sbjct: 56 VDLVIIYDL 64
Score = 32.6 bits (75), Expect = 0.051
Identities = 11/51 (21%), Positives = 24/51 (47%), Gaps = 5/51 (9%)
Query: 274 SKFKKNQRLEPLYNKYEEPNAWRISRVVIATNIAETSLTIDGIFYVVDPGF 324
+ +R E + +K+ +V++AT++AE L + G+ V+
Sbjct: 19 GGLSQEEREE-ILDKFNNGK----IKVLVATDVAERGLDLPGVDLVIIYDL 64
>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 = 40.6 bits (96), Expect = 6e-05
Identities = 12/52 (23%), Positives = 26/52 (50%)
Query: 27 PELIILPVYSALPSEMQTRIFEAAPPGSRKVVIATNIAETSLTIDGIFYVVD 78
P + + ++ L E + I E G KV++AT++A + + + V++
Sbjct: 6 PGIKVARLHGGLSQEEREEILEDFRNGKSKVLVATDVAGRGIDLPDVNLVIN 57
Score = 29.0 bits (66), Expect = 0.76
Identities = 6/24 (25%), Positives = 16/24 (66%)
Query: 298 SRVVIATNIAETSLTIDGIFYVVD 321
S+V++AT++A + + + V++
Sbjct: 34 SKVLVATDVAGRGIDLPDVNLVIN 57
>gnl|CDD|221970 pfam13191, AAA_16, AAA ATPase domain. This family of domains
contain a P-loop motif that is characteristic of the AAA
superfamily.
Length = 154
Score = 36.0 bits (83), Expect = 0.009
Identities = 23/109 (21%), Positives = 42/109 (38%), Gaps = 4/109 (3%)
Query: 152 QILIVIGETGSGKTTQITQYLAEAGFTARGKIGCTQPRRVAAMSVA-KRVAEEFGCRLGQ 210
+++ G +G+GKT+ + + L E A GK + A S A + + + L
Sbjct: 25 PSVLLTGPSGTGKTS-LLRELLEGLLVAAGKCDQAERNPPYAFSQALRELLRQLLRELAA 83
Query: 211 EVGYTIRFEDCTSSETLIKYMTDGMLLRECLVDLDLNNYSVIMLDEAHE 259
E+ LI+ + D L+ L V++LD+
Sbjct: 84 ELLLLREALLAALGAELIEGLQD--LVELLERLLARARPLVLVLDDLQW 130
>gnl|CDD|238071 cd00124, MYSc, Myosin motor domain. This catalytic (head) domain
has ATPase activity and belongs to the larger group of
P-loop NTPases. Myosins are actin-dependent molecular
motors that play important roles in muscle contraction,
cell motility, and organelle transport. The head domain
is a molecular motor, which utilizes ATP hydrolysis to
generate directed movement toward the plus end along
actin filaments. A cyclical interaction between myosin
and actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 679
Score = 36.1 bits (84), Expect = 0.027
Identities = 14/36 (38%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 151 NQILIVIGETGSGKTT---QITQYLAEAGFTARGKI 183
NQ +I+ GE+G+GKT I +YLA + I
Sbjct: 86 NQSIIISGESGAGKTENTKLIMKYLASLAGSNDTGI 121
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 34.2 bits (79), Expect = 0.029
Identities = 19/112 (16%), Positives = 43/112 (38%), Gaps = 24/112 (21%)
Query: 148 VSDNQILIVIGETGSGKTTQITQYLAEAGFTARGKIGCTQPRRVAAMSVAKRV-AEEFGC 206
I ++ GE+GSGKTT + + + RRV + ++
Sbjct: 1 RRGAGIGVLTGESGSGKTTLLRRLARQL-----------PNRRVVYVEAPSLGTPKDLLR 49
Query: 207 RLGQEVGYTIRFEDCTSSETLIKYMTDGMLLRECLVDLDLNNYSVIMLDEAH 258
++ + +G + ++ L++ + D L+ ++++DEA
Sbjct: 50 KILRALGLPLSGG---TTAELLEAILD--ALKRRGRP-------LLIIDEAQ 89
>gnl|CDD|222005 pfam13245, AAA_19, Part of AAA domain.
Length = 73
Score = 32.3 bits (74), Expect = 0.049
Identities = 15/59 (25%), Positives = 24/59 (40%), Gaps = 1/59 (1%)
Query: 144 LIKAVSDNQILIVIGETGSGKTTQITQYLAEAGFTARGKIGCTQPRRVAAMSVAKRVAE 202
+ A S + +V G G+GKT +A A + P AA + +R+A
Sbjct: 3 VEAAASGRSLFVVDGGPGTGKTATAAAIIARL-LAAGRSVLVVAPTGRAARRLRERLAA 60
>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 = 33.8 bits (78), Expect = 0.059
Identities = 29/126 (23%), Positives = 45/126 (35%), Gaps = 12/126 (9%)
Query: 145 IKAVSDNQILIVIGETGSGKTTQITQYLAEAGFTARGKIGC--TQPRRVAAMSVAKRVAE 202
I A+ + ++V TGSGKT + +A +G P R A + + +
Sbjct: 8 IPAILSGKDVLVQAPTGSGKTLAFLLPILQALLPKKGGPQALVLAPTRELAEQIYEE-LK 66
Query: 203 EFGCRLGQEVGYTI-------RFEDCTSSETLIKYMTDGMLLR--ECLVDLDLNNYSVIM 253
+ LG V + + I T G LL L N +++
Sbjct: 67 KLFKILGLRVALLTGGTSLKEQARKLKKGKADILVGTPGRLLDLLRRGKLKLLKNLKLLV 126
Query: 254 LDEAHE 259
LDEAH
Sbjct: 127 LDEAHR 132
>gnl|CDD|131806 TIGR02759, TraD_Ftype, type IV conjugative transfer system coupling
protein TraD. The TraD protein performs an essential
coupling function in conjugative type IV secretion
systems. This protein sits at the inner membrane in
contact with the assembled pilus and its scaffold as
well as the relaxosome-plasmid DNA complex (through
TraM).
Length = 566
Score = 35.1 bits (81), Expect = 0.060
Identities = 21/64 (32%), Positives = 33/64 (51%)
Query: 109 KKHVIGGKKSSFGKKTNLTIVEQRQSLPIYKLKHELIKAVSDNQILIVIGETGSGKTTQI 168
K H I G + S K+ + + R++ I LIK S+ Q +++ G TGSGK+ I
Sbjct: 134 KDHFIRGSQLSSPKELIKKLKKSRRASDIKIGGLPLIKFGSETQHILIHGTTGSGKSVAI 193
Query: 169 TQYL 172
+ L
Sbjct: 194 RKLL 197
>gnl|CDD|214580 smart00242, MYSc, Myosin. Large ATPases. ATPase; molecular motor.
Muscle contraction consists of a cyclical interaction
between myosin and actin. The core of the myosin
structure is similar in fold to that of kinesin.
Length = 677
Score = 34.4 bits (80), Expect = 0.080
Identities = 23/71 (32%), Positives = 33/71 (46%), Gaps = 27/71 (38%)
Query: 133 QSLPIY----------KLKHEL---IKAVSD-----------NQILIVIGETGSGKTT-- 166
+ LPIY K + EL + A++D NQ +I+ GE+G+GKT
Sbjct: 50 KQLPIYTDEVIKKYRGKSRGELPPHVFAIADNAYRNMLNDKENQSIIISGESGAGKTENT 109
Query: 167 -QITQYLAEAG 176
+I QYLA
Sbjct: 110 KKIMQYLASVS 120
>gnl|CDD|235331 PRK05022, PRK05022, anaerobic nitric oxide reductase transcription
regulator; Provisional.
Length = 509
Score = 34.0 bits (79), Expect = 0.12
Identities = 16/33 (48%), Positives = 22/33 (66%), Gaps = 2/33 (6%)
Query: 133 QSLPIYKLKHEL-IKAVSDNQILIVIGETGSGK 164
QS + +LK E+ + A SD +LI +GETG GK
Sbjct: 192 QSPAMQQLKKEIEVVAASDLNVLI-LGETGVGK 223
>gnl|CDD|183703 PRK12724, PRK12724, flagellar biosynthesis regulator FlhF;
Provisional.
Length = 432
Score = 33.8 bits (77), Expect = 0.12
Identities = 36/121 (29%), Positives = 56/121 (46%), Gaps = 12/121 (9%)
Query: 90 KTGMDSLVVTPISQDLPEWKKHVIGGKKSSFGKKTNLTIVEQRQSLPIYKLKHELIKAVS 149
+ GM V ++ L E V G+ + ++ +T +E+R S+ +L
Sbjct: 166 REGMSQSYVEEMASKLEERLSPVDQGRNHNVTERA-VTYLEERVSV-----DSDLFSGTG 219
Query: 150 DNQ--ILIVIGETGSGKTTQITQYLAEAGFTARGK---IGCTQPRRVAAMSVAKRVAEEF 204
NQ ++ +G TGSGKTT I + LA F GK + T R+AA+ KR A+
Sbjct: 220 KNQRKVVFFVGPTGSGKTTSIAK-LAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRYADTM 278
Query: 205 G 205
G
Sbjct: 279 G 279
>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 = 32.2 bits (74), Expect = 0.13
Identities = 10/77 (12%), Positives = 26/77 (33%), Gaps = 14/77 (18%)
Query: 12 CEILYERMKSLGPDVPELIILPVYSALPSEMQTRIFEAAPPGSRKVVIATNIAETSLTID 71
+ L E ++ G + + ++ E + + + G V++AT++
Sbjct: 41 LDELAELLRKPG-----IKVAALHGDGSQEEREEVLKDFREGEIVVLVATDVIA------ 89
Query: 72 GIFYVVDPGFVKQKVYN 88
+D V +
Sbjct: 90 ---RGIDLPNVSVVINY 103
>gnl|CDD|227355 COG5022, COG5022, Myosin heavy chain [Cytoskeleton].
Length = 1463
Score = 33.9 bits (78), Expect = 0.14
Identities = 14/38 (36%), Positives = 23/38 (60%), Gaps = 3/38 (7%)
Query: 142 HELIKAVSDNQILIVIGETGSGKTT---QITQYLAEAG 176
+ + + +NQ +I+ GE+G+GKT +I QYLA
Sbjct: 143 YRNLLSEKENQTIIISGESGAGKTENAKRIMQYLASVT 180
>gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of
cellular Activities) superfamily represents an ancient
group of ATPases belonging to the ASCE (for additional
strand, catalytic E) division of the P-loop NTPase fold.
The ASCE division also includes ABC, RecA-like,
VirD4-like, PilT-like, and SF1/2 helicases. Members of
the AAA+ ATPases function as molecular chaperons, ATPase
subunits of proteases, helicases, or nucleic-acid
stimulated ATPases. The AAA+ proteins contain several
distinct features in addition to the conserved
alpha-beta-alpha core domain structure and the Walker A
and B motifs of the P-loop NTPases.
Length = 151
Score = 32.5 bits (74), Expect = 0.16
Identities = 28/185 (15%), Positives = 48/185 (25%), Gaps = 53/185 (28%)
Query: 139 KLKHELIKAVSDNQ--ILIVIGETGSGKTT---QITQYLAEAGFTARGKIGCTQPRRVAA 193
+ L +A+ L++ G G+GKTT I L G
Sbjct: 5 EAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPGA------------PFLY 52
Query: 194 MSVAKRVAEEFGCRLGQEVGYTIRFEDCTSSETLIKYMTDGMLLRECLVDLDLNNYSVIM 253
++ + + L + FE + V+
Sbjct: 53 LNASDLLEGLVVAELFGHFLVRLLFE-----------------------LAEKAKPGVLF 89
Query: 254 LDEAHERTIHTDVLFDPTKLSKFKKNQRLEPLYNKYEEPNAWRISRVVIATNIAETSLTI 313
+DE LS+ +N L L + RV+ ATN
Sbjct: 90 IDEID-------------SLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLD 136
Query: 314 DGIFY 318
++
Sbjct: 137 RALYD 141
>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 = 32.0 bits (72), Expect = 0.20
Identities = 29/180 (16%), Positives = 49/180 (27%), Gaps = 42/180 (23%)
Query: 151 NQILIVIGETGSGKTTQITQYLAEAGFTARG--KIGCTQPRRVAAMSVAKRVAEEFGCRL 208
++++++G GSGKTT E G G I + +
Sbjct: 2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASG 61
Query: 209 GQEVGYTIRFEDCTSSETLIKYMTDGMLLRECLVDLDLNNYSVIMLDEAHERTIHTDVLF 268
E+ + L R+ V++LDE L
Sbjct: 62 SGELRLRLALA----------------LARK-------LKPDVLILDEITS-------LL 91
Query: 269 DPTKLSKFKKNQRLEPLYNKYEEPNAWRISRVVIATNI------AETSLTIDGIFYVVDP 322
D + + + L L E N V++ TN A D ++
Sbjct: 92 DAEQEALLLLLEELRLLLLLKSEKNL----TVILTTNDEKDLGPALLRRRFDRRIVLLLI 147
>gnl|CDD|213224 cd03257, ABC_NikE_OppD_transporters, ATP-binding cassette domain of
nickel/oligopeptides specific transporters. The ABC
transporter subfamily specific for the transport of
dipeptides, oligopeptides (OppD), and nickel (NikDE).
The NikABCDE system of E. coli belongs to this family
and is composed of the periplasmic binding protein NikA,
two integral membrane components (NikB and NikC), and
two ATPase (NikD and NikE). The NikABCDE transporter is
synthesized under anaerobic conditions to meet the
increased demand for nickel resulting from hydrogenase
synthesis. The molecular mechanism of nickel uptake in
many bacteria and most archaea is not known. Many other
members of this ABC family are also involved in the
uptake of dipeptides and oligopeptides. The oligopeptide
transport system (Opp) is a five-component ABC transport
composed of a membrane-anchored substrate binding
proteins (SRP), OppA, two transmembrane proteins, OppB
and OppC, and two ATP-binding domains, OppD and OppF.
Length = 228
Score = 32.5 bits (75), Expect = 0.21
Identities = 13/53 (24%), Positives = 24/53 (45%), Gaps = 8/53 (15%)
Query: 138 YKLKHELIKAVSD-------NQILIVIGETGSGKTTQITQYLAEAGFTARGKI 183
+ +KA+ D + L ++GE+GSGK+T + + + G I
Sbjct: 11 FPTGGGSVKALDDVSFSIKKGETLGLVGESGSGKST-LARAILGLLKPTSGSI 62
>gnl|CDD|222258 pfam13604, AAA_30, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins. There is a Walker A and
Walker B.
Length = 195
Score = 32.5 bits (75), Expect = 0.21
Identities = 24/124 (19%), Positives = 42/124 (33%), Gaps = 37/124 (29%)
Query: 142 HELIKAV--SDNQILIVIGETGSGKTT---QITQYLAEAGFTARGKIGCTQPRRVAAMS- 195
E ++ V S +++ +V G G+GKTT + AG+ G A +
Sbjct: 7 REAVRHVLTSGDRVAVVQGPAGTGKTTSLKAAREAWEAAGYRVIG----------LAPTG 56
Query: 196 -VAKRVAEEFGCRLGQEVGYTI-RFEDCTSSETLIKYMTDGMLLRECLVDLDLNNYSVIM 253
AK + EE G T+ L+ ++++
Sbjct: 57 KAAKVLGEELGIE-----ARTLASLLHRWDKGEDPGR--------------VLDAGTLLV 97
Query: 254 LDEA 257
+DEA
Sbjct: 98 VDEA 101
>gnl|CDD|238673 cd01377, MYSc_type_II, Myosin motor domain, type II myosins. Myosin
II mediates cortical contraction in cell motility, and
is the motor in smooth and skeletal muscle. This
catalytic (head) domain has ATPase activity and belongs
to the larger group of P-loop NTPases. Myosins are
actin-dependent molecular motors that play important
roles in muscle contraction, cell motility, and
organelle transport. The head domain is a molecular
motor, which utilizes ATP hydrolysis to generate
directed movement toward the plus end along actin
filaments. A cyclical interaction between myosin and
actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 693
Score = 32.9 bits (76), Expect = 0.27
Identities = 21/66 (31%), Positives = 32/66 (48%), Gaps = 27/66 (40%)
Query: 135 LPIY----------KLKHEL---IKAVSD-----------NQILIVIGETGSGK---TTQ 167
LPIY K + E+ I A++D NQ +++ GE+G+GK T +
Sbjct: 51 LPIYTEEVVEMYRGKKREEMPPHIFAIADNAYRSMLQDRENQSILITGESGAGKTENTKK 110
Query: 168 ITQYLA 173
+ QYLA
Sbjct: 111 VIQYLA 116
>gnl|CDD|215920 pfam00437, T2SE, Type II/IV secretion system protein. This family
contains both type II and type IV pathway secretion
proteins from bacteria. VirB11 ATPase is a subunit of
the Agrobacterium tumefaciens transfer DNA (T-DNA)
transfer system, a type IV secretion pathway required
for delivery of T-DNA and effector proteins to plant
cells during infection.
Length = 273
Score = 32.2 bits (74), Expect = 0.30
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 144 LIKAVSDNQILIVIGETGSGKTT 166
L +AV ++V G TGSGKTT
Sbjct: 122 LRQAVQARGNILVSGGTGSGKTT 144
>gnl|CDD|184377 PRK13894, PRK13894, conjugal transfer ATPase TrbB; Provisional.
Length = 319
Score = 32.4 bits (74), Expect = 0.31
Identities = 13/23 (56%), Positives = 18/23 (78%)
Query: 144 LIKAVSDNQILIVIGETGSGKTT 166
+I AV ++ ++VIG TGSGKTT
Sbjct: 141 IIAAVRAHRNILVIGGTGSGKTT 163
>gnl|CDD|226592 COG4107, PhnK, ABC-type phosphonate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 258
Score = 32.0 bits (73), Expect = 0.33
Identities = 19/51 (37%), Positives = 29/51 (56%), Gaps = 3/51 (5%)
Query: 152 QILIVIGETGSGKTT---QITQYLAEAGFTARGKIGCTQPRRVAAMSVAKR 199
++L ++GE+GSGKTT I+ L T ++ QPR + MS A+R
Sbjct: 33 EVLGIVGESGSGKTTLLKCISGRLTPDAGTVTYRMRDGQPRDLYTMSEAER 83
>gnl|CDD|188208 TIGR02323, CP_lyasePhnK, phosphonate C-P lyase system protein PhnK.
Members of this family are the PhnK protein of C-P
lyase systems for utilization of phosphonates. These
systems resemble phosphonatase-based systems in having a
three component ABC transporter, where TIGR01097 is the
permease, TIGR01098 is the phosphonates binding protein,
and TIGR02315 is the ATP-binding cassette (ABC) protein.
They differ, however, in having, typically, ten or more
additional genes, many of which are believed to form a
membrane-associated complex. This protein (PhnK) and the
adjacent-encoded PhnL resemble transporter ATP-binding
proteins but are suggested, based on mutatgenesis
studies, to be part of this complex rather than part of
a transporter per se [Central intermediary metabolism,
Phosphorus compounds].
Length = 253
Score = 31.7 bits (72), Expect = 0.41
Identities = 13/55 (23%), Positives = 25/55 (45%), Gaps = 11/55 (20%)
Query: 152 QILIVIGETGSGKTT-------QITQYLAEAGFTARGKIGCTQPRRVAAMSVAKR 199
++L ++GE+GSGK+T ++ A + R + +S A+R
Sbjct: 30 EVLGIVGESGSGKSTLLGCLAGRLAPDHGTATYIMRSG----AELELYQLSEAER 80
>gnl|CDD|225363 COG2804, PulE, Type II secretory pathway, ATPase PulE/Tfp pilus
assembly pathway, ATPase PilB [Cell motility and
secretion / Intracellular trafficking and secretion].
Length = 500
Score = 32.3 bits (74), Expect = 0.42
Identities = 21/66 (31%), Positives = 37/66 (56%), Gaps = 8/66 (12%)
Query: 118 SSFGKKTNLTIVEQRQ-SLPIYKL------KHELIKAVSDNQ-ILIVIGETGSGKTTQIT 169
+ +G+K L I+++ Q L + KL L++ ++ Q +++V G TGSGKTT +
Sbjct: 217 TFYGEKVVLRILDKDQVILDLEKLGMSPFQLARLLRLLNRPQGLILVTGPTGSGKTTTLY 276
Query: 170 QYLAEA 175
L+E
Sbjct: 277 AALSEL 282
>gnl|CDD|223521 COG0444, DppD, ABC-type dipeptide/oligopeptide/nickel transport
system, ATPase component [Amino acid transport and
metabolism / Inorganic ion transport and metabolism].
Length = 316
Score = 31.8 bits (73), Expect = 0.43
Identities = 11/36 (30%), Positives = 19/36 (52%), Gaps = 7/36 (19%)
Query: 138 YKLKHELIKAVSD-------NQILIVIGETGSGKTT 166
+ ++KAV +IL ++GE+GSGK+
Sbjct: 11 FPTDAGVVKAVDGVSFELKKGEILGIVGESGSGKSV 46
>gnl|CDD|227922 COG5635, COG5635, Predicted NTPase (NACHT family) [Signal
transduction mechanisms].
Length = 824
Score = 32.5 bits (74), Expect = 0.44
Identities = 18/85 (21%), Positives = 30/85 (35%), Gaps = 9/85 (10%)
Query: 94 DSLVVTPISQDLPEWKKHVIGGKKSSFGKKTNLTIVEQRQSLPIYKLKHELIKAVSD--- 150
D L+ I +++P + + K E+ + +
Sbjct: 163 DKLIDVNILEEVPLASQRSK--RIFDLNTKGEKRFDEEFLLELTQSADDQDALPGLEALE 220
Query: 151 --NQILIVIGETGSGKTTQITQYLA 173
++LI+ G GSGKTT Q LA
Sbjct: 221 KYAKLLIL-GAPGSGKTT-FLQRLA 243
>gnl|CDD|190347 pfam02562, PhoH, PhoH-like protein. PhoH is a cytoplasmic protein
and predicted ATPase that is induced by phosphate
starvation.
Length = 205
Score = 31.3 bits (72), Expect = 0.46
Identities = 12/32 (37%), Positives = 17/32 (53%), Gaps = 5/32 (15%)
Query: 142 HELIKAVSDNQILIVIGETGSGKTTQITQYLA 173
++A+ N I+ IG G+GKT YLA
Sbjct: 10 KRYVEAIRKNDIVFGIGPAGTGKT-----YLA 36
>gnl|CDD|182838 PRK10919, PRK10919, ATP-dependent DNA helicase Rep; Provisional.
Length = 672
Score = 32.1 bits (73), Expect = 0.54
Identities = 19/63 (30%), Positives = 29/63 (46%), Gaps = 13/63 (20%)
Query: 155 IVIGETGSGKTTQITQYLA----EAGFTARGKIGCTQPRRVAAMSVAKRVAEEFGCRLGQ 210
+V+ GSGKT IT +A G+ Q R +AA++ + A E R+ Q
Sbjct: 19 LVLAGAGSGKTRVITNKIAHLIRGCGY---------QARHIAAVTFTNKAAREMKERVAQ 69
Query: 211 EVG 213
+G
Sbjct: 70 TLG 72
>gnl|CDD|183280 PRK11701, phnK, phosphonate C-P lyase system protein PhnK;
Provisional.
Length = 258
Score = 31.4 bits (72), Expect = 0.55
Identities = 18/55 (32%), Positives = 30/55 (54%), Gaps = 11/55 (20%)
Query: 152 QILIVIGETGSGKTTQI----TQYLAEAG---FTARGKIGCTQPRRVAAMSVAKR 199
++L ++GE+GSGKTT + + +AG + R Q R + A+S A+R
Sbjct: 33 EVLGIVGESGSGKTTLLNALSARLAPDAGEVHYRMRDG----QLRDLYALSEAER 83
>gnl|CDD|238550 cd01130, VirB11-like_ATPase, Type IV secretory pathway component
VirB11, and related ATPases. The homohexamer, VirB11 is
one of eleven Vir proteins, which are required for
T-pilus biogenesis and virulence in the transfer of
T-DNA from the Ti (tumor-inducing) plasmid of bacterial
to plant cells. The pilus is a fibrous cell surface
organelle, which mediates adhesion between bacteria
during conjugative transfer or between bacteria and host
eukaryotic cells during infection. VirB11- related
ATPases include the archaeal flagella biosynthesis
protein and the pilus assembly proteins CpaF/TadA and
TrbB. This alignment contains the C-terminal domain,
which is the ATPase.
Length = 186
Score = 31.1 bits (71), Expect = 0.58
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 144 LIKAVSDNQILIVIGETGSGKTT 166
L AV + +++ G TGSGKTT
Sbjct: 18 LWLAVEARKNILISGGTGSGKTT 40
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 31.9 bits (72), Expect = 0.66
Identities = 15/31 (48%), Positives = 24/31 (77%), Gaps = 1/31 (3%)
Query: 143 ELIKAVSDNQILIVIGETGSGKTTQITQYLA 173
+L+ + +N+ +++GETG+GKTT I QYLA
Sbjct: 456 QLLWNIQNNEPTLLVGETGTGKTTMI-QYLA 485
>gnl|CDD|234011 TIGR02782, TrbB_P, P-type conjugative transfer ATPase TrbB. The
TrbB protein is found in the trb locus of Agrobacterium
Ti plasmids where it is involved in the type IV
secretion system for plasmid conjugative transfer. TrbB
is a homolog of the vir system VirB11 ATPase , and the
Flp pilus sytem ATPase TadA [Cellular processes,
Conjugation].
Length = 299
Score = 30.9 bits (70), Expect = 0.83
Identities = 15/31 (48%), Positives = 20/31 (64%)
Query: 144 LIKAVSDNQILIVIGETGSGKTTQITQYLAE 174
L +AV + ++V+G TGSGKTT LAE
Sbjct: 125 LREAVLARKNILVVGGTGSGKTTLANALLAE 155
>gnl|CDD|179349 PRK01906, PRK01906, tetraacyldisaccharide 4'-kinase; Provisional.
Length = 338
Score = 30.9 bits (70), Expect = 0.90
Identities = 18/61 (29%), Positives = 25/61 (40%), Gaps = 11/61 (18%)
Query: 154 LIVIGET---GSGKTTQI---TQYLAEAGFT----ARG-KIGCTQPRRVAAMSVAKRVAE 202
++V+G G+GKT + L AGFT +RG P V S A +
Sbjct: 58 VVVVGNVTVGGTGKTPTVIALVDALRAAGFTPGVVSRGYGAKIKHPTAVTPASRASDAGD 117
Query: 203 E 203
E
Sbjct: 118 E 118
>gnl|CDD|238677 cd01381, MYSc_type_VII, Myosin motor domain, type VII myosins.
Myosins in this group have been associated with
functions in sensory systems such as vision and hearing.
This catalytic (head) domain has ATPase activity and
belongs to the larger group of P-loop NTPases. Myosins
are actin-dependent molecular motors that play important
roles in muscle contraction, cell motility, and
organelle transport. The head domain is a molecular
motor, which utilizes ATP hydrolysis to generate
directed movement toward the plus end along actin
filaments. A cyclical interaction between myosin and
actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 671
Score = 31.3 bits (71), Expect = 0.99
Identities = 28/75 (37%), Positives = 33/75 (44%), Gaps = 27/75 (36%)
Query: 126 LTIVEQRQSLPIY----------KLKHEL---IKAVSDN-----------QILIVIGETG 161
L V Q LPIY K EL I A+SDN Q +I+ GE+G
Sbjct: 37 LVAVNPYQILPIYTADEIKLYKNKSIGELPPHIFAISDNAYTNMQREKKNQCIIISGESG 96
Query: 162 SGKTTQ---ITQYLA 173
+GKT I QYLA
Sbjct: 97 AGKTESTKLILQYLA 111
>gnl|CDD|238683 cd01387, MYSc_type_XV, Myosin motor domain, type XV myosins. In
vertebrates, myosin XV appears to be expressed in
sensory tissue and play a role in hearing. This
catalytic (head) domain has ATPase activity and belongs
to the larger group of P-loop NTPases. Myosins are
actin-dependent molecular motors that play important
roles in muscle contraction, cell motility, and
organelle transport. The head domain is a molecular
motor, which utilizes ATP hydrolysis to generate
directed movement toward the plus end along actin
filaments. A cyclical interaction between myosin and
actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 677
Score = 31.1 bits (70), Expect = 1.1
Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 3/40 (7%)
Query: 137 IYKLKHELIKAVSDNQILIVIGETGSGKTTQ---ITQYLA 173
I L + NQ +I+ GE+GSGKT I +YLA
Sbjct: 73 IANLAFAKMLDAKQNQCVIISGESGSGKTEATKLILRYLA 112
>gnl|CDD|233418 TIGR01448, recD_rel, helicase, putative, RecD/TraA family. This
model describes a family similar to RecD, the
exodeoxyribonuclease V alpha chain of TIGR01447. Members
of this family, however, are not found in a context of
RecB and RecC and are longer by about 200 amino acids at
the amino end. Chlamydia muridarum has both a member of
this family and a RecD [Unknown function, Enzymes of
unknown specificity].
Length = 720
Score = 30.9 bits (70), Expect = 1.1
Identities = 21/79 (26%), Positives = 41/79 (51%), Gaps = 7/79 (8%)
Query: 129 VEQRQSLPIYKLKHELIKAVSDNQILIVIGETGSGKTTQITQYLAEAGFTARGKIGCTQP 188
VE++ + + + + + ++++I+ G G+GKTT IT+ + E ++G P
Sbjct: 316 VEKKLRKGLSEEQKQALDTAIQHKVVILTGGPGTGKTT-ITRAIIELA----EELGGLLP 370
Query: 189 RRVAAMS--VAKRVAEEFG 205
+AA + AKR+ E G
Sbjct: 371 VGLAAPTGRAAKRLGEVTG 389
>gnl|CDD|224048 COG1123, COG1123, ATPase components of various ABC-type transport
systems, contain duplicated ATPase [General function
prediction only].
Length = 539
Score = 30.6 bits (70), Expect = 1.2
Identities = 18/66 (27%), Positives = 30/66 (45%), Gaps = 12/66 (18%)
Query: 125 NLTIVEQRQSLPIYKLKHELIKAVS----DNQILIVIGETGSGKTT---QITQYLAEAGF 177
NLT+ + ++ VS +IL ++GE+GSGK+T + L E G
Sbjct: 10 NLTV-----EFATDGGRVPAVRDVSFEVEPGEILGIVGESGSGKSTLALALMGLLPEGGR 64
Query: 178 TARGKI 183
G++
Sbjct: 65 ITSGEV 70
Score = 28.3 bits (64), Expect = 6.6
Identities = 8/15 (53%), Positives = 13/15 (86%)
Query: 152 QILIVIGETGSGKTT 166
+ L ++GE+GSGK+T
Sbjct: 318 ETLGLVGESGSGKST 332
>gnl|CDD|130146 TIGR01074, rep, ATP-dependent DNA helicase Rep. Designed to
identify rep members of the uvrD/rep subfamily [DNA
metabolism, DNA replication, recombination, and repair].
Length = 664
Score = 30.5 bits (69), Expect = 1.3
Identities = 17/63 (26%), Positives = 28/63 (44%), Gaps = 11/63 (17%)
Query: 154 LIVIGETGSGKTTQITQ---YLAEAGFTARGKIGCTQPRRVAAMSVAKRVAEEFGCRLGQ 210
+V+ GSGKT IT YL + + R +AA++ + A E R+ +
Sbjct: 17 CLVLAGAGSGKTRVITNKIAYLIQN--------CGYKARNIAAVTFTNKAAREMKERVAK 68
Query: 211 EVG 213
+G
Sbjct: 69 TLG 71
>gnl|CDD|226967 COG4608, AppF, ABC-type oligopeptide transport system, ATPase
component [Amino acid transport and metabolism].
Length = 268
Score = 30.3 bits (69), Expect = 1.4
Identities = 7/19 (36%), Positives = 14/19 (73%)
Query: 148 VSDNQILIVIGETGSGKTT 166
+ + + L ++GE+G GK+T
Sbjct: 36 IKEGETLGLVGESGCGKST 54
>gnl|CDD|226952 COG4586, COG4586, ABC-type uncharacterized transport system, ATPase
component [General function prediction only].
Length = 325
Score = 30.0 bits (68), Expect = 1.5
Identities = 11/39 (28%), Positives = 19/39 (48%), Gaps = 7/39 (17%)
Query: 137 IYKLKHELIKAVSD-------NQILIVIGETGSGKTTQI 168
+ K I+AV D +I+ +G G+GK+T +
Sbjct: 29 FFHRKERSIEAVQDISFEIPKGEIVGFLGANGAGKSTTL 67
>gnl|CDD|224059 COG1136, SalX, ABC-type antimicrobial peptide transport system,
ATPase component [Defense mechanisms].
Length = 226
Score = 29.8 bits (68), Expect = 1.7
Identities = 12/37 (32%), Positives = 21/37 (56%), Gaps = 7/37 (18%)
Query: 137 IYKLKHELIKAVSD-------NQILIVIGETGSGKTT 166
IY L E ++A+ D + + ++G +GSGK+T
Sbjct: 10 IYGLGGEKVEALKDVNLEIEAGEFVAIVGPSGSGKST 46
>gnl|CDD|184204 PRK13645, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 289
Score = 30.0 bits (67), Expect = 1.8
Identities = 22/62 (35%), Positives = 31/62 (50%), Gaps = 6/62 (9%)
Query: 148 VSDNQILIVIGETGSGKTT--QITQYL--AEAGFTARGKIGCTQPRRVAAMSVAKRVAEE 203
N++ VIG TGSGK+T Q+T L +E G T G P + + KR+ +E
Sbjct: 34 FKKNKVTCVIGTTGSGKSTMIQLTNGLIISETGQTIVGDYAI--PANLKKIKEVKRLRKE 91
Query: 204 FG 205
G
Sbjct: 92 IG 93
>gnl|CDD|222307 pfam13671, AAA_33, AAA domain. This family of domains contain only
a P-loop motif, that is characteristic of the AAA
superfamily. Many of the proteins in this family are
just short fragments so there is no Walker B motif.
Length = 143
Score = 29.2 bits (66), Expect = 1.8
Identities = 9/26 (34%), Positives = 16/26 (61%)
Query: 153 ILIVIGETGSGKTTQITQYLAEAGFT 178
+++++G GSGK+T + L E G
Sbjct: 1 LILMVGLPGSGKSTFARRLLRELGAV 26
>gnl|CDD|238681 cd01385, MYSc_type_IX, Myosin motor domain, type IX myosins. Myosin
IX is a processive single-headed motor, which might play
a role in signalling. This catalytic (head) domain has
ATPase activity and belongs to the larger group of
P-loop NTPases. Myosins are actin-dependent molecular
motors that play important roles in muscle contraction,
cell motility, and organelle transport. The head domain
is a molecular motor, which utilizes ATP hydrolysis to
generate directed movement toward the plus end along
actin filaments. A cyclical interaction between myosin
and actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 692
Score = 30.2 bits (68), Expect = 1.9
Identities = 32/115 (27%), Positives = 50/115 (43%), Gaps = 11/115 (9%)
Query: 151 NQILIVIGETGSGKTTQITQYLAE--AGFTARGKIGCTQPRRVAAMSVAKRVAEEFGCRL 208
NQ +++ GE+GSGK T+ T +L + +G G + + + A V E FG
Sbjct: 94 NQCIVISGESGSGK-TESTNFLIHHLTALSQKGYAGSGVEQTILS---AGPVLEAFGNAK 149
Query: 209 GQEVGYTIRFEDCTSSETLIKYMTDGMLLRECLVDLDLNNYSVIMLDEAHERTIH 263
+ RF + Y +GM +R +V+ L S I+ E ER H
Sbjct: 150 TAHNNNSSRFGKFIQ----VNYRENGM-VRGAVVEKYLLEKSRIVSQEKDERNYH 199
>gnl|CDD|213179 cd00267, ABC_ATPase, ATP-binding cassette transporter
nucleotide-binding domain. ABC transporters are a large
family of proteins involved in the transport of a wide
variety of different compounds, like sugars, ions,
peptides, and more complex organic molecules. The
nucleotide-binding domain shows the highest similarity
between all members of the family. ABC transporters are
a subset of nucleotide hydrolases that contain a
signature motif, Q-loop, and H-loop/switch region, in
addition to, the Walker A motif/P-loop and Walker B
motif commonly found in a number of ATP- and GTP-binding
and hydrolyzing proteins.
Length = 157
Score = 29.1 bits (66), Expect = 2.1
Identities = 7/19 (36%), Positives = 13/19 (68%)
Query: 148 VSDNQILIVIGETGSGKTT 166
+ +I+ ++G GSGK+T
Sbjct: 22 LKAGEIVALVGPNGSGKST 40
>gnl|CDD|164822 PHA00547, PHA00547, hypothetical protein.
Length = 337
Score = 29.9 bits (67), Expect = 2.2
Identities = 12/32 (37%), Positives = 22/32 (68%), Gaps = 1/32 (3%)
Query: 143 ELIKAVSDNQILIVIGETGSGKTTQITQYLAE 174
L+ + DN + ++IG+ G+GKT +T YL++
Sbjct: 67 RLVNFIWDNPLSVIIGKLGTGKTLLLT-YLSQ 97
>gnl|CDD|220739 pfam10412, TrwB_AAD_bind, Type IV secretion-system coupling protein
DNA-binding domain. The plasmid conjugative coupling
protein TrwB forms hexamers from six structurally very
similar protomers. This hexamer contains a central
channel running from the cytosolic pole (made up by the
AADs) to the membrane pole ending at the transmembrane
pore shaped by 12 transmembrane helices, rendering an
overall mushroom-like structure. The TrwB_AAD (all-alpha
domain) domain appears to be the DNA-binding domain of
the structure. TrwB, a basic integral inner-membrane
nucleoside-triphosphate-binding protein, is the
structural prototype for the type IV secretion system
coupling proteins, a family of proteins essential for
macromolecular transport between cells and export.
Length = 386
Score = 29.9 bits (68), Expect = 2.2
Identities = 12/34 (35%), Positives = 21/34 (61%), Gaps = 2/34 (5%)
Query: 149 SDNQILIVIGETGSGKTTQITQYLAEAGFTARGK 182
S+ Q ++++G TG+GKT + + L + ARG
Sbjct: 13 SETQHILIVGTTGTGKTQALRELLDQI--RARGD 44
>gnl|CDD|206692 cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab18) and 32
(Rab32). Rab38/Rab32 subfamily. Rab32 and Rab38 are
members of the Rab family of small GTPases. Human Rab32
was first identified in platelets but it is expressed in
a variety of cell types, where it functions as an
A-kinase anchoring protein (AKAP). Rab38 has been shown
to be melanocyte-specific. GTPase activating proteins
(GAPs) interact with GTP-bound Rab and accelerate the
hydrolysis of GTP to GDP. Guanine nucleotide exchange
factors (GEFs) interact with GDP-bound Rabs to promote
the formation of the GTP-bound state. Rabs are further
regulated by guanine nucleotide dissociation inhibitors
(GDIs), which facilitate Rab recycling by masking
C-terminal lipid binding and promoting cytosolic
localization. Most Rab GTPases contain a lipid
modification site at the C-terminus, with sequence
motifs CC, CXC, or CCX. Lipid binding is essential for
membrane attachment, a key feature of most Rab proteins.
Length = 201
Score = 29.2 bits (66), Expect = 2.2
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 154 LIVIGETGSGKTTQITQY 171
++VIG+ G GKT+ I +Y
Sbjct: 3 VLVIGDLGVGKTSIIKRY 20
>gnl|CDD|238679 cd01383, MYSc_type_VIII, Myosin motor domain, plant-specific type
VIII myosins, a subgroup which has been associated with
endocytosis, cytokinesis, cell-to-cell coupling and
gating at plasmodesmata. This catalytic (head) domain
has ATPase activity and belongs to the larger group of
P-loop NTPases. Myosins are actin-dependent molecular
motors that play important roles in muscle contraction,
cell motility, and organelle transport. The head domain
is a molecular motor, which utilizes ATP hydrolysis to
generate directed movement toward the plus end along
actin filaments. A cyclical interaction between myosin
and actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 677
Score = 29.8 bits (67), Expect = 2.2
Identities = 14/29 (48%), Positives = 18/29 (62%), Gaps = 3/29 (10%)
Query: 151 NQILIVIGETGSGKTTQIT---QYLAEAG 176
NQ +I+ GE+G+GKT QYLA G
Sbjct: 92 NQSIIISGESGAGKTETAKIAMQYLASLG 120
>gnl|CDD|224047 COG1122, CbiO, ABC-type cobalt transport system, ATPase component
[Inorganic ion transport and metabolism].
Length = 235
Score = 29.5 bits (67), Expect = 2.2
Identities = 7/22 (31%), Positives = 14/22 (63%)
Query: 147 AVSDNQILIVIGETGSGKTTQI 168
+ + +++IG GSGK+T +
Sbjct: 26 EIEKGERVLLIGPNGSGKSTLL 47
>gnl|CDD|227297 COG4962, CpaF, Flp pilus assembly protein, ATPase CpaF
[Intracellular trafficking and secretion].
Length = 355
Score = 29.6 bits (67), Expect = 2.4
Identities = 12/38 (31%), Positives = 17/38 (44%)
Query: 144 LIKAVSDNQILIVIGETGSGKTTQITQYLAEAGFTARG 181
L +AV +++ G TGSGKTT + R
Sbjct: 166 LRRAVGIRCNILISGGTGSGKTTLLNALSGFIDSDERV 203
>gnl|CDD|226425 COG3910, COG3910, Predicted ATPase [General function prediction
only].
Length = 233
Score = 29.3 bits (66), Expect = 2.4
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 2/48 (4%)
Query: 134 SLPIYKLKHELIKAVSDNQILIVIGETGSGKTTQITQYLAEAGFTARG 181
SLP ++ E ++ + I + GE GSGK+T + A GF A G
Sbjct: 22 SLPAFRHLEERLEFRA--PITFITGENGSGKSTLLEAIAAGMGFNAAG 67
>gnl|CDD|213196 cd03229, ABC_Class3, ATP-binding cassette domain of the binding
protein-dependent transport systems. This class is
comprised of all BPD (Binding Protein Dependent) systems
that are largely represented in archaea and eubacteria
and are primarily involved in scavenging solutes from
the environment. ABC transporters are a large family of
proteins involved in the transport of a wide variety of
different compounds, like sugars, ions, peptides, and
more complex organic molecules. The nucleotide binding
domain shows the highest similarity between all members
of the family. ABC transporters are a subset of
nucleotide hydrolases that contain a signature motif,
Q-loop, and H-loop/switch region, in addition to, the
Walker A motif/P-loop and Walker B motif commonly found
in a number of ATP- and GTP-binding and hydrolyzing
proteins.
Length = 178
Score = 29.1 bits (66), Expect = 2.6
Identities = 7/19 (36%), Positives = 14/19 (73%)
Query: 148 VSDNQILIVIGETGSGKTT 166
+ +I+ ++G +GSGK+T
Sbjct: 23 IEAGEIVALLGPSGSGKST 41
>gnl|CDD|222290 pfam13654, AAA_32, AAA domain. This family includes a wide variety
of AAA domains including some that have lost essential
nucleotide binding residues in the P-loop.
Length = 509
Score = 29.7 bits (68), Expect = 2.6
Identities = 10/20 (50%), Positives = 15/20 (75%)
Query: 156 VIGETGSGKTTQITQYLAEA 175
V+GE G+G+TT + +YL E
Sbjct: 35 VLGEPGTGRTTLVRRYLEER 54
>gnl|CDD|238676 cd01380, MYSc_type_V, Myosin motor domain, type V myosins. Myosins
V transport a variety of intracellular cargo
processively along actin filaments, such as membraneous
organelles and mRNA. This catalytic (head) domain has
ATPase activity and belongs to the larger group of
P-loop NTPases. Myosins are actin-dependent molecular
motors that play important roles in muscle contraction,
cell motility, and organelle transport. The head domain
is a molecular motor, which utilizes ATP hydrolysis to
generate directed movement toward the plus end along
actin filaments. A cyclical interaction between myosin
and actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 691
Score = 29.6 bits (67), Expect = 2.7
Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 3/40 (7%)
Query: 151 NQILIVIGETGSGKTTQ---ITQYLAEAGFTARGKIGCTQ 187
NQ +IV GE+G+GKT I +Y A G + ++ TQ
Sbjct: 86 NQSIIVSGESGAGKTVSAKYIMRYFASVGGSDSREVSETQ 125
>gnl|CDD|215687 pfam00063, Myosin_head, Myosin head (motor domain).
Length = 679
Score = 29.6 bits (67), Expect = 2.7
Identities = 23/79 (29%), Positives = 36/79 (45%), Gaps = 27/79 (34%)
Query: 133 QSLPIY----------KLKHEL---IKAVSD-----------NQILIVIGETGSGKTT-- 166
+ LPIY K + EL I A++D NQ +++ GE+G+GKT
Sbjct: 43 KRLPIYTEEPIGEYRGKRRGELPPHIFALADRAYRHMLRDKENQCIVISGESGAGKTENT 102
Query: 167 -QITQYLAEAGFTARGKIG 184
++ QYLA + +G
Sbjct: 103 KKLMQYLASVSGSTPSAVG 121
>gnl|CDD|232804 TIGR00064, ftsY, signal recognition particle-docking protein FtsY.
There is a weak division between FtsY and SRP54; both
are GTPases. In E.coli, ftsY is an essential gene
located in an operon with cell division genes ftsE and
ftsX, but its apparent function is as the signal
recognition particle docking protein [Protein fate,
Protein and peptide secretion and trafficking].
Length = 272
Score = 29.1 bits (66), Expect = 2.8
Identities = 19/74 (25%), Positives = 32/74 (43%), Gaps = 9/74 (12%)
Query: 97 VVTPISQDLPEWKKHVIGGKKSSFGKKTNLTIVEQRQSLPIYKLKHELIKAVSDNQ--IL 154
VV I + L KK + G K + ++ L + +L V +N+ ++
Sbjct: 23 VVEKIIEAL---KKELKGKKVKDAELLKEILKEYLKEIL----KETDLELIVEENKPNVI 75
Query: 155 IVIGETGSGKTTQI 168
+ +G G GKTT I
Sbjct: 76 LFVGVNGVGKTTTI 89
>gnl|CDD|221983 pfam13207, AAA_17, AAA domain.
Length = 114
Score = 28.0 bits (62), Expect = 2.8
Identities = 10/23 (43%), Positives = 16/23 (69%), Gaps = 1/23 (4%)
Query: 153 ILIVIGETGSGKTTQITQYLAEA 175
I+++ G GSGK+T + + LAE
Sbjct: 1 IILITGPPGSGKST-LAKKLAEK 22
>gnl|CDD|240229 PTZ00014, PTZ00014, myosin-A; Provisional.
Length = 821
Score = 29.6 bits (67), Expect = 2.9
Identities = 14/32 (43%), Positives = 20/32 (62%), Gaps = 3/32 (9%)
Query: 147 AVSDNQILIVIGETGSGKT---TQITQYLAEA 175
V +Q +IV GE+G+GKT QI +Y A +
Sbjct: 179 GVKKSQTIIVSGESGAGKTEATKQIMRYFASS 210
>gnl|CDD|238979 cd02021, GntK, Gluconate kinase (GntK) catalyzes the phosphoryl
transfer from ATP to gluconate. The resulting product
gluconate-6-phoshate is an important precursor of
gluconate metabolism. GntK acts as a dimmer composed of
two identical subunits.
Length = 150
Score = 28.8 bits (65), Expect = 2.9
Identities = 11/23 (47%), Positives = 18/23 (78%), Gaps = 1/23 (4%)
Query: 153 ILIVIGETGSGKTTQITQYLAEA 175
I++V+G +GSGK+T + + LAE
Sbjct: 1 IIVVMGVSGSGKST-VGKALAER 22
>gnl|CDD|219538 pfam07728, AAA_5, AAA domain (dynein-related subfamily). This Pfam
entry includes some of the AAA proteins not detected by
the pfam00004 model.
Length = 135
Score = 28.4 bits (64), Expect = 3.1
Identities = 7/22 (31%), Positives = 15/22 (68%), Gaps = 1/22 (4%)
Query: 154 LIVIGETGSGKTTQITQYLAEA 175
++++G G+GK+ + + LA A
Sbjct: 2 VLLVGPPGTGKSE-LAERLAAA 22
>gnl|CDD|238659 cd01363, Motor_domain, Myosin and Kinesin motor domain. These
ATPases belong to the P-loop NTPase family and provide
the driving force in myosin and kinesin mediated
processes.
Length = 186
Score = 28.7 bits (64), Expect = 3.1
Identities = 11/32 (34%), Positives = 19/32 (59%), Gaps = 2/32 (6%)
Query: 136 PIYKLKHELIKAVSD--NQILIVIGETGSGKT 165
P+++ L+++ D N + G+TGSGKT
Sbjct: 7 PVFRDVGPLLQSALDGYNVCIFAYGQTGSGKT 38
>gnl|CDD|238674 cd01378, MYSc_type_I, Myosin motor domain, type I myosins. Myosin I
generates movement at the leading edge in cell motility,
and class I myosins have been implicated in phagocytosis
and vesicle transport. Myosin I, an unconventional
myosin, does not form dimers. This catalytic (head)
domain has ATPase activity and belongs to the larger
group of P-loop NTPases. Myosins are actin-dependent
molecular motors that play important roles in muscle
contraction, cell motility, and organelle transport. The
head domain is a molecular motor, which utilizes ATP
hydrolysis to generate directed movement toward the plus
end along actin filaments. A cyclical interaction
between myosin and actin provides the driving force.
Rates of ATP hydrolysis and consequently the speed of
movement along actin filaments vary widely, from about
0.04 micrometer per second for myosin I to 4.5
micrometer per second for myosin II in skeletal muscle.
Myosin II moves in discrete steps about 5-10 nm long and
generates 1-5 piconewtons of force. Upon ATP binding,
the myosin head dissociates from an actin filament. ATP
hydrolysis causes the head to pivot and associate with a
new actin subunit. The release of Pi causes the head to
pivot and move the filament (power stroke). Release of
ADP completes the cycle.
Length = 674
Score = 29.5 bits (67), Expect = 3.2
Identities = 14/31 (45%), Positives = 23/31 (74%), Gaps = 3/31 (9%)
Query: 146 KAVSDNQILIVIGETGSGKTT---QITQYLA 173
K+ ++NQ +I+ GE+G+GKT +I QY+A
Sbjct: 81 KSENENQCVIISGESGAGKTEAAKKIMQYIA 111
>gnl|CDD|184588 PRK14243, PRK14243, phosphate transporter ATP-binding protein;
Provisional.
Length = 264
Score = 29.0 bits (65), Expect = 3.4
Identities = 19/69 (27%), Positives = 29/69 (42%), Gaps = 10/69 (14%)
Query: 124 TNLTIVEQRQSLPIYKLKHELIKAVS----DNQILIVIGETGSGKTTQITQY-----LAE 174
V + ++L +Y +K V NQI IG +G GK+T + + L
Sbjct: 5 NGTETVLRTENLNVYYGSFLAVKNVWLDIPKNQITAFIGPSGCGKSTILRCFNRLNDLIP 64
Query: 175 AGFTARGKI 183
GF GK+
Sbjct: 65 -GFRVEGKV 72
>gnl|CDD|224054 COG1131, CcmA, ABC-type multidrug transport system, ATPase
component [Defense mechanisms].
Length = 293
Score = 28.8 bits (65), Expect = 3.6
Identities = 10/34 (29%), Positives = 15/34 (44%), Gaps = 4/34 (11%)
Query: 137 IYKLKHELIKAVS----DNQILIVIGETGSGKTT 166
Y + VS +I ++G G+GKTT
Sbjct: 13 KYGGDKTALDGVSFEVEPGEIFGLLGPNGAGKTT 46
>gnl|CDD|236461 PRK09302, PRK09302, circadian clock protein KaiC; Reviewed.
Length = 509
Score = 29.1 bits (66), Expect = 3.7
Identities = 9/26 (34%), Positives = 15/26 (57%), Gaps = 1/26 (3%)
Query: 150 DNQILIVIGETGSGKTTQITQYLAEA 175
+ IL+ G TG+GKT +++ A
Sbjct: 273 GSIILVS-GATGTGKTLLASKFAEAA 297
>gnl|CDD|213243 cd03276, ABC_SMC6_euk, ATP-binding cassette domain of eukaryotic
SM6 proteins. The structural maintenance of chromosomes
(SMC) proteins are large (approximately 110 to 170 kDa),
and each is arranged into five recognizable domains.
Amino-acid sequence homology of SMC proteins between
species is largely confined to the amino- and
carboxy-terminal globular domains. The amino-terminal
domain contains a 'Walker A' nucleotide-binding domain
(GxxGxGKS/T, in the single-letter amino-acid code),
which by mutational studies has been shown to be
essential in several proteins. The carboxy-terminal
domain contains a sequence (the DA-box) that resembles a
'Walker B' motif, and a motif with homology to the
signature sequence of the ATP-binding cassette (ABC)
family of ATPases. The sequence homology within the
carboxy-terminal domain is relatively high within the
SMC1-SMC4 group, whereas SMC5 and SMC6 show some
divergence in both of these sequences. In eukaryotic
cells, the proteins are found as heterodimers of SMC1
paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6
(formerly known as Rad18).
Length = 198
Score = 28.7 bits (65), Expect = 3.7
Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 11/47 (23%)
Query: 152 QILIVIGETGSGKT---TQITQYL-AEAGFTARG-------KIGCTQ 187
++ ++G GSGK+ T +T L +A T RG K G +
Sbjct: 22 RVNFIVGNNGSGKSAILTALTIGLGGKASDTNRGSSLKDLIKDGESS 68
>gnl|CDD|217424 pfam03205, MobB, Molybdopterin guanine dinucleotide synthesis
protein B. This protein contains a P-loop.
Length = 126
Score = 27.7 bits (62), Expect = 3.9
Identities = 18/87 (20%), Positives = 23/87 (26%), Gaps = 24/87 (27%)
Query: 153 ILIVIGETGSGKTTQIT---QYLAEAG---------------FTARGKIGCTQPRRVAAM 194
I++V+G SGKTT I YL G GKI A
Sbjct: 2 IVLVVGPKDSGKTTLIRKLLNYLKRRGYRVAVVKHLDHGQGEIDKPGKIAALSIEEPAD- 60
Query: 195 SVAKRVAEEFGCRLGQEVGYTIRFEDC 221
E F + +
Sbjct: 61 -----GPEGFHQEEEMPLEELLSRLSY 82
>gnl|CDD|216004 pfam00580, UvrD-helicase, UvrD/REP helicase N-terminal domain. The
Rep family helicases are composed of four structural
domains. The Rep family function as dimers. REP
helicases catalyze ATP dependent unwinding of double
stranded DNA to single stranded DNA. Some members have
large insertions near to the carboxy-terminus relative
to other members of the family.
Length = 267
Score = 28.8 bits (65), Expect = 3.9
Identities = 37/172 (21%), Positives = 59/172 (34%), Gaps = 33/172 (19%)
Query: 146 KAV-SDNQILIVIGETGSGKTTQITQ---YLAEAGFTARGKIGCTQPRRVAAMSVAKRVA 201
KAV L+V+ GSGKT +T+ YL G +I AA + +R+
Sbjct: 7 KAVTHLGGPLLVLAGAGSGKTRVLTERIAYLILEGGIDPEEILAVTFTNKAAREMKERIL 66
Query: 202 E----------------EFGCRL----GQEVGYTIRFE--DCTSSETLIKYMTDGMLLRE 239
+ F R+ +G F D L+K LL +
Sbjct: 67 KLLGKAELSELNISTFHSFCLRILRKYANRIGLLPNFSILDELDQLALLK-----ELLEK 121
Query: 240 CLVDLDLNNYSVIMLDEAHERTIHTDVLFDPTKLSKFKKNQRLEPLYNKYEE 291
++LD + L E + + L P +L + R + Y+E
Sbjct: 122 DRLNLDPKLLRKLELKELISKA--KNRLLSPEELQQGAATPRDKLAAEFYQE 171
>gnl|CDD|213204 cd03237, ABC_RNaseL_inhibitor_domain2, The ATP-binding cassette
domain 2 of RNase L inhibitor. The ABC ATPase, RNase L
inhibitor (RLI), is a key enzyme in ribosomal
biogenesis, formation of translation preinitiation
complexes, and assembly of HIV capsids. RLI's are not
transport proteins and thus cluster with a group of
soluble proteins that lack the transmembrane components
commonly found in other members of the family.
Structurally, RLI's have an N-terminal Fe-S domain and
two nucleotide-binding domains which are arranged to
form two composite active sites in their interface
cleft. RLI is one of the most conserved enzymes between
archaea and eukaryotes with a sequence identity of more
than 48%. The high degree of evolutionary conservation
suggests that RLI performs a central role in archaeal
and eukaryotic physiology.
Length = 246
Score = 28.9 bits (65), Expect = 4.0
Identities = 8/21 (38%), Positives = 16/21 (76%)
Query: 148 VSDNQILIVIGETGSGKTTQI 168
+S+++++ ++G G GKTT I
Sbjct: 22 ISESEVIGILGPNGIGKTTFI 42
>gnl|CDD|234938 PRK01297, PRK01297, ATP-dependent RNA helicase RhlB; Provisional.
Length = 475
Score = 29.1 bits (65), Expect = 4.1
Identities = 16/64 (25%), Positives = 32/64 (50%), Gaps = 5/64 (7%)
Query: 15 LYERMKSLGPDVPELIILPVYSALPSEMQTRIFEAAPPGSRKVVIATNIAETSLTIDGIF 74
+ ER+ G + +L +P + + E G +V++AT++A + IDGI
Sbjct: 351 IEERLVKDGINAAQL-----SGDVPQHKRIKTLEGFREGKIRVLVATDVAGRGIHIDGIS 405
Query: 75 YVVD 78
+V++
Sbjct: 406 HVIN 409
>gnl|CDD|185067 PRK15112, PRK15112, antimicrobial peptide ABC system ATP-binding
protein SapF; Provisional.
Length = 267
Score = 28.6 bits (64), Expect = 4.2
Identities = 13/28 (46%), Positives = 18/28 (64%), Gaps = 4/28 (14%)
Query: 143 ELIKAVS----DNQILIVIGETGSGKTT 166
E +K +S + Q L +IGE GSGK+T
Sbjct: 27 EAVKPLSFTLREGQTLAIIGENGSGKST 54
>gnl|CDD|223703 COG0630, VirB11, Type IV secretory pathway, VirB11 components, and
related ATPases involved in archaeal flagella
biosynthesis [Cell motility and secretion /
Intracellular trafficking and secretion].
Length = 312
Score = 28.9 bits (65), Expect = 4.3
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 144 LIKAVSDNQILIVIGETGSGKTTQI 168
L A+ + +I+ G T SGKTT +
Sbjct: 136 LWLAIEARKSIIICGGTASGKTTLL 160
>gnl|CDD|213217 cd03250, ABCC_MRP_domain1, ATP-binding cassette domain 1 of
multidrug resistance-associated protein, subfamily C.
This subfamily is also known as MRP (multidrug
resistance-associated protein). Some of the MRP members
have five additional transmembrane segments in their
N-terminus, but the function of these additional
membrane-spanning domains is not clear. The MRP was
found in the multidrug-resisting lung cancer cell in
which p-glycoprotein was not overexpressed. MRP exports
glutathione by drug stimulation, as well as, certain
substrates in conjugated forms with anions, such as
glutathione, glucuronate, and sulfate.
Length = 204
Score = 28.6 bits (65), Expect = 4.3
Identities = 5/16 (31%), Positives = 12/16 (75%)
Query: 151 NQILIVIGETGSGKTT 166
+++ ++G GSGK++
Sbjct: 31 GELVAIVGPVGSGKSS 46
>gnl|CDD|222000 pfam13238, AAA_18, AAA domain.
Length = 128
Score = 27.8 bits (62), Expect = 4.4
Identities = 10/22 (45%), Positives = 14/22 (63%), Gaps = 1/22 (4%)
Query: 155 IVIGETGSGKTTQITQYLAEAG 176
++ G GSGKTT + + LAE
Sbjct: 2 LITGTPGSGKTT-LAKELAERL 22
>gnl|CDD|238941 cd01983, Fer4_NifH, The Fer4_NifH superfamily contains a variety of
proteins which share a common ATP-binding domain.
Functionally, proteins in this superfamily use the
energy from hydrolysis of NTP to transfer electron or
ion.
Length = 99
Score = 27.4 bits (61), Expect = 4.4
Identities = 10/28 (35%), Positives = 16/28 (57%), Gaps = 3/28 (10%)
Query: 153 ILIVIGETGSGKTT---QITQYLAEAGF 177
+++V G+ G GKTT + LA+ G
Sbjct: 1 VIVVTGKGGVGKTTLAANLAAALAKRGK 28
>gnl|CDD|213195 cd03228, ABCC_MRP_Like, ATP-binding cassette domain of multidrug
resistance protein-like transporters. The MRP
(Multidrug Resistance Protein)-like transporters are
involved in drug, peptide, and lipid export. They belong
to the subfamily C of the ATP-binding cassette (ABC)
superfamily of transport proteins. The ABCC subfamily
contains transporters with a diverse functional spectrum
that includes ion transport, cell surface receptor, and
toxin secretion activities. The MRP-like family, similar
to all ABC proteins, have a common four-domain core
structure constituted by two membrane-spanning domains,
each composed of six transmembrane (TM) helices, and two
nucleotide-binding domains (NBD). ABC transporters are a
subset of nucleotide hydrolases that contain a signature
motif, Q-loop, and H-loop/switch region, in addition to,
the Walker A motif/P-loop and Walker B motif commonly
found in a number of ATP- and GTP-binding and
hydrolyzing proteins.
Length = 171
Score = 28.1 bits (64), Expect = 4.5
Identities = 6/16 (37%), Positives = 12/16 (75%)
Query: 151 NQILIVIGETGSGKTT 166
+ + ++G +GSGK+T
Sbjct: 28 GEKVAIVGPSGSGKST 43
>gnl|CDD|236803 PRK10946, entE, enterobactin synthase subunit E; Provisional.
Length = 536
Score = 28.8 bits (65), Expect = 4.7
Identities = 19/70 (27%), Positives = 28/70 (40%), Gaps = 30/70 (42%)
Query: 195 SVAKRVAEEFGCRLGQEVGYTIRFEDCTSSETLIKYMTDGMLLRECLVDLDLNNYSVIML 254
++A+R+ E GC+L Q G M +G LV NY+ L
Sbjct: 315 TLARRIPAELGCQLQQVFG-----------------MAEG------LV-----NYT--RL 344
Query: 255 DEAHERTIHT 264
D++ ER T
Sbjct: 345 DDSDERIFTT 354
>gnl|CDD|238682 cd01386, MYSc_type_XVIII, Myosin motor domain, type XVIII myosins.
This catalytic (head) domain has ATPase activity and
belongs to the larger group of P-loop NTPases. Myosins
are actin-dependent molecular motors that play important
roles in muscle contraction, cell motility, and
organelle transport. The head domain is a molecular
motor, which utilizes ATP hydrolysis to generate
directed movement toward the plus end along actin
filaments. A cyclical interaction between myosin and
actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 767
Score = 29.1 bits (65), Expect = 4.7
Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 9/59 (15%)
Query: 151 NQILIVIGETGSGKTT---QITQYLAEAGFTARGKIGCTQPRRVAAMSVAKRVAEEFGC 206
+Q +I +G +G+GKTT +YLA A A G +V A+ + E FG
Sbjct: 86 DQSIIFLGRSGAGKTTSCKHALEYLALA---AGSVDGRVSVEKVRALFT---ILEAFGN 138
>gnl|CDD|238542 cd01122, GP4d_helicase, GP4d_helicase is a homohexameric 5'-3'
helicases. Helicases couple NTP hydrolysis to the
unwinding of nucleic acid duplexes into their component
strands.
Length = 271
Score = 28.5 bits (64), Expect = 4.9
Identities = 21/80 (26%), Positives = 34/80 (42%), Gaps = 8/80 (10%)
Query: 151 NQILIVIGETGSGKTTQITQYLAEAGFTARGKIGCTQPRRVAAMSVAKRVAEEFGCRLGQ 210
+++I+ TG GKTT + +Y + T G RV +S+ + V LGQ
Sbjct: 30 GELIILTAGTGVGKTTFLREYALDL-ITQHGV-------RVGTISLEEPVVRTARRLLGQ 81
Query: 211 EVGYTIRFEDCTSSETLIKY 230
G + D TL ++
Sbjct: 82 YAGKRLHLPDTVFIYTLEEF 101
>gnl|CDD|237451 PRK13631, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 320
Score = 28.7 bits (64), Expect = 5.0
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 151 NQILIVIGETGSGKTTQITQY 171
N+I +IG +GSGK+T +T +
Sbjct: 52 NKIYFIIGNSGSGKSTLVTHF 72
>gnl|CDD|200328 TIGR03819, heli_sec_ATPase, helicase/secretion neighborhood ATPase.
Members of this protein family comprise a distinct
clade of putative ATPase associated with an integral
membrane complex likely to act in pilus formation,
secretion, or conjugal transfer. The association of most
members with a nearby gene for a DEAH-box helicase
suggests a role in conjugal transfer.
Length = 340
Score = 28.5 bits (64), Expect = 5.2
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 154 LIVIGETGSGKTTQITQYLAEAGFTAR 180
+V G TGSGKTT ++ LA R
Sbjct: 181 FLVSGGTGSGKTTLLSALLALVPPDER 207
>gnl|CDD|224046 COG1121, ZnuC, ABC-type Mn/Zn transport systems, ATPase component
[Inorganic ion transport and metabolism].
Length = 254
Score = 28.3 bits (64), Expect = 5.2
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 148 VSDNQILIVIGETGSGKTT 166
V +I +IG G+GK+T
Sbjct: 27 VEKGEITALIGPNGAGKST 45
>gnl|CDD|132147 TIGR03103, trio_acet_GNAT, GNAT-family acetyltransferase TIGR03103.
Members of this protein family belong to the GNAT
family of acetyltransferases. Each is part of a
conserved three-gene cassette sparsely distributed
across at least twenty different species known so far,
including alpha, beta, and gamma Proteobacteria,
Mycobacterium, and Prosthecochloris, which is a member
of the Chlorobi. The other two members of the cassette
are a probable protease and an asparagine synthetase
family protein.
Length = 547
Score = 28.5 bits (64), Expect = 5.3
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 245 DLNNYSVIMLDEAHERTIHTDVL 267
DLN Y+ I++DEA R I +VL
Sbjct: 239 DLNPYARIIVDEARRRGIEVEVL 261
>gnl|CDD|240339 PTZ00265, PTZ00265, multidrug resistance protein (mdr1); Provisional.
Length = 1466
Score = 28.8 bits (64), Expect = 5.6
Identities = 14/35 (40%), Positives = 22/35 (62%), Gaps = 3/35 (8%)
Query: 132 RQSLPIYKLKHELIKAVSDNQILIVIGETGSGKTT 166
R ++PIYK +L + + ++GETGSGK+T
Sbjct: 1178 RPNVPIYK---DLTFSCDSKKTTAIVGETGSGKST 1209
>gnl|CDD|213261 cd03294, ABC_Pro_Gly_Betaine, ATP-binding cassette domain of the
osmoprotectant proline/glycine betaine uptake system.
This family comprises the glycine betaine/L-proline ATP
binding subunit in bacteria and its equivalents in
archaea. This transport system belong to the larger
ATP-Binding Cassette (ABC) transporter superfamily. The
characteristic feature of these transporters is the
obligatory coupling of ATP hydrolysis to substrate
translocation. ABC transporters are a subset of
nucleotide hydrolases that contain a signature motif,
Q-loop, and H-loop/switch region, in addition to, the
Walker A motif/P-loop and Walker B motif commonly found
in a number of ATP- and GTP-binding and hydrolyzing
proteins.
Length = 269
Score = 28.4 bits (64), Expect = 5.7
Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 11/56 (19%)
Query: 113 IGGKKSSFGKKTNLTIVEQRQSLPIYKLKHELIKAVSDNQILIVIGETGSGKTTQI 168
G K KKT T+ SL V + +I +++G +GSGK+T +
Sbjct: 23 KGKSKEEILKKTGQTVGVNDVSL-----------DVREGEIFVIMGLSGSGKSTLL 67
>gnl|CDD|237875 PRK14974, PRK14974, cell division protein FtsY; Provisional.
Length = 336
Score = 28.4 bits (64), Expect = 5.8
Identities = 17/79 (21%), Positives = 30/79 (37%), Gaps = 9/79 (11%)
Query: 109 KKHVIGGKKSSFGKKTNLTIVEQRQSL-----PIYKLKHELIKAVSDNQILIV-IGETGS 162
K+ ++G K + +++L ++IV +G G+
Sbjct: 92 KEKLVGKKVKRGEDVEEIVKNALKEALLEVLSVGDLFDLIEEIKSKGKPVVIVFVGVNGT 151
Query: 163 GKTTQI---TQYLAEAGFT 178
GKTT I YL + GF+
Sbjct: 152 GKTTTIAKLAYYLKKNGFS 170
>gnl|CDD|237421 PRK13539, PRK13539, cytochrome c biogenesis protein CcmA;
Provisional.
Length = 207
Score = 27.9 bits (63), Expect = 6.0
Identities = 8/20 (40%), Positives = 13/20 (65%)
Query: 147 AVSDNQILIVIGETGSGKTT 166
++ + L++ G GSGKTT
Sbjct: 24 TLAAGEALVLTGPNGSGKTT 43
>gnl|CDD|224050 COG1125, OpuBA, ABC-type proline/glycine betaine transport systems,
ATPase components [Amino acid transport and metabolism].
Length = 309
Score = 28.4 bits (64), Expect = 6.1
Identities = 9/19 (47%), Positives = 15/19 (78%)
Query: 148 VSDNQILIVIGETGSGKTT 166
+ + + L++IG +GSGKTT
Sbjct: 24 IEEGEFLVLIGPSGSGKTT 42
>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 = 28.2 bits (63), Expect = 6.6
Identities = 16/66 (24%), Positives = 32/66 (48%), Gaps = 1/66 (1%)
Query: 139 KLKHELIKAVSDNQILIVIGETGSGKTTQITQYLAEAGFTARGKIGCTQPRRVAAMSVAK 198
K ++L++ + + +V TG+GKT I Q + +A G++ PR + +
Sbjct: 104 KASNQLVQYIKQKEDTLVWAVTGAGKTEMIFQGIEQA-LNQGGRVCIASPRVDVCLELYP 162
Query: 199 RVAEEF 204
R+ + F
Sbjct: 163 RLKQAF 168
>gnl|CDD|219482 pfam07598, DUF1561, Protein of unknown function (DUF1561). A
family of paralogous proteins in Leptospira interrogans.
Length = 630
Score = 28.5 bits (64), Expect = 6.9
Identities = 22/71 (30%), Positives = 35/71 (49%), Gaps = 11/71 (15%)
Query: 72 GIFYVVDPGFVKQKVYNSKTGMDSLVVTPISQDLPEWKKHVIG--GKKSSF----GKKTN 125
G+ Y P ++++ NS T SL + +DL W ++V G GK + GKK N
Sbjct: 295 GVPYTAKPDYLEKDTTNSPT---SLFI--FDKDLERWNRYVNGNLGKTLQYCPAPGKKEN 349
Query: 126 LTIVEQRQSLP 136
+ ++SLP
Sbjct: 350 IVHTRVKRSLP 360
>gnl|CDD|131585 TIGR02533, type_II_gspE, type II secretion system protein E. This
family describes GspE, the E protein of the type II
secretion system, also called the main terminal branch
of the general secretion pathway. This model separates
GspE from the PilB protein of type IV pilin biosynthesis
[Protein fate, Protein and peptide secretion and
trafficking, Cellular processes, Pathogenesis].
Length = 486
Score = 28.1 bits (63), Expect = 7.0
Identities = 13/36 (36%), Positives = 18/36 (50%)
Query: 153 ILIVIGETGSGKTTQITQYLAEAGFTARGKIGCTQP 188
I++V G TGSGKTT + L+ R + P
Sbjct: 244 IILVTGPTGSGKTTTLYAALSRLNTPERNILTVEDP 279
>gnl|CDD|236694 PRK10436, PRK10436, hypothetical protein; Provisional.
Length = 462
Score = 28.4 bits (64), Expect = 7.1
Identities = 21/63 (33%), Positives = 30/63 (47%), Gaps = 12/63 (19%)
Query: 120 FGKKTNLTIVEQRQS--------LPIYKLKHELIKAVSDNQILI-VIGETGSGKTTQITQ 170
G+K L +++Q Q + +L +A+ Q LI V G TGSGKT +T
Sbjct: 179 GGEKVVLRLLQQVQQALDLETLGMTPAQLAQ-FRQALQQPQGLILVTGPTGSGKT--VTL 235
Query: 171 YLA 173
Y A
Sbjct: 236 YSA 238
>gnl|CDD|226164 COG3638, COG3638, ABC-type phosphate/phosphonate transport system,
ATPase component [Inorganic ion transport and
metabolism].
Length = 258
Score = 28.0 bits (63), Expect = 7.3
Identities = 10/34 (29%), Positives = 20/34 (58%), Gaps = 4/34 (11%)
Query: 137 IYKLKHELIKAVS----DNQILIVIGETGSGKTT 166
Y H+ +K V+ +++ +IG +G+GK+T
Sbjct: 12 TYPGGHQALKDVNLEINQGEMVAIIGPSGAGKST 45
>gnl|CDD|238544 cd01124, KaiC, KaiC is a circadian clock protein primarily found in
cyanobacteria KaiC is a RecA-like ATPase, having both
Walker A and Walker B motifs. A related protein is found
in archaea.
Length = 187
Score = 27.7 bits (62), Expect = 7.4
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 153 ILIVIGETGSGKTTQITQYLAEA 175
++ G G+GKTT Q+L
Sbjct: 1 STLLSGGPGTGKTTFALQFLYAG 23
>gnl|CDD|130427 TIGR01360, aden_kin_iso1, adenylate kinase, isozyme 1 subfamily.
Members of this family are adenylate kinase, EC 2.7.4.3.
This clade is found only in eukaryotes and includes
human adenylate kinase isozyme 1 (myokinase). Within the
adenylate kinase superfamily, this set appears
specifically closely related to a subfamily of
eukaryotic UMP-CMP kinases (TIGR01359), rather than to
the large clade of bacterial, archaeal, and eukaryotic
adenylate kinase family members in TIGR01351.
Length = 188
Score = 27.5 bits (61), Expect = 7.6
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 150 DNQILIVIGETGSGKTTQITQYLAEAGFT 178
+I+ ++G GSGK TQ + + + GFT
Sbjct: 2 KCKIIFIVGGPGSGKGTQCEKIVEKYGFT 30
>gnl|CDD|223106 COG0027, PurT, Formate-dependent phosphoribosylglycinamide
formyltransferase (GAR transformylase) [Nucleotide
transport and metabolism].
Length = 394
Score = 28.1 bits (63), Expect = 7.6
Identities = 29/82 (35%), Positives = 36/82 (43%), Gaps = 21/82 (25%)
Query: 39 PSEMQTRIFEAAPPGSRKVVIATNIAETSLTIDGIFYVVDPGFVK-QKVYNSK------- 90
P EM E A +++V A L G+F V FVK +V S+
Sbjct: 237 PQEMSEAALEEAQSIAKRVTDA-------LGGRGLFGV--ELFVKGDEVIFSEVSPRPHD 287
Query: 91 TGMDSLVVTPISQDLPEWKKHV 112
TGM VT ISQDL E+ HV
Sbjct: 288 TGM----VTLISQDLSEFALHV 305
>gnl|CDD|223637 COG0563, Adk, Adenylate kinase and related kinases [Nucleotide
transport and metabolism].
Length = 178
Score = 27.6 bits (62), Expect = 7.6
Identities = 5/14 (35%), Positives = 11/14 (78%)
Query: 154 LIVIGETGSGKTTQ 167
++++G G+GK+T
Sbjct: 3 ILILGPPGAGKSTL 16
>gnl|CDD|224041 COG1116, TauB, ABC-type nitrate/sulfonate/bicarbonate transport
system, ATPase component [Inorganic ion transport and
metabolism].
Length = 248
Score = 27.9 bits (63), Expect = 7.8
Identities = 6/19 (31%), Positives = 12/19 (63%)
Query: 148 VSDNQILIVIGETGSGKTT 166
V + + ++G +G GK+T
Sbjct: 26 VEKGEFVAILGPSGCGKST 44
>gnl|CDD|226482 COG3973, COG3973, Superfamily I DNA and RNA helicases [General
function prediction only].
Length = 747
Score = 28.3 bits (63), Expect = 7.8
Identities = 21/60 (35%), Positives = 27/60 (45%), Gaps = 6/60 (10%)
Query: 151 NQILIVIGETGSGKTTQITQYLAEAGFTARGKIGCTQ-----PRRVAAMSVAKRVAEEFG 205
N+IL+V G GSGKTT +A + RG + P RV + RV E G
Sbjct: 226 NKILVVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVLVLGPNRV-FLEYISRVLPELG 284
>gnl|CDD|238549 cd01129, PulE-GspE, PulE/GspE The type II secretory pathway is the
main terminal branch of the general secretory pathway
(GSP). It is responsible for the export the majority of
Gram-negative bacterial exoenzymes and toxins. PulE is a
cytoplasmic protein of the GSP, which contains an ATP
binding site and a tetracysteine motif. This subgroup
also includes PillB and HofB.
Length = 264
Score = 28.0 bits (63), Expect = 7.8
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 153 ILIVIGETGSGKTT 166
I++V G TGSGKTT
Sbjct: 82 IILVTGPTGSGKTT 95
>gnl|CDD|226961 COG4598, HisP, ABC-type histidine transport system, ATPase
component [Amino acid transport and metabolism].
Length = 256
Score = 27.8 bits (62), Expect = 8.1
Identities = 12/29 (41%), Positives = 19/29 (65%), Gaps = 4/29 (13%)
Query: 142 HELIKAVS----DNQILIVIGETGSGKTT 166
HE++K VS ++ +IG +GSGK+T
Sbjct: 19 HEVLKGVSLQANAGDVISIIGSSGSGKST 47
>gnl|CDD|224049 COG1124, DppF, ABC-type dipeptide/oligopeptide/nickel transport
system, ATPase component [Amino acid transport and
metabolism / Inorganic ion transport and metabolism].
Length = 252
Score = 27.6 bits (62), Expect = 8.2
Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 9/46 (19%)
Query: 125 NLTIVEQRQSLPIYKLKHELIKAVS----DNQILIVIGETGSGKTT 166
NL+IV K + VS + L ++GE+GSGK+T
Sbjct: 8 NLSIVYGGG-----KFAFHALNNVSLEIERGETLGIVGESGSGKST 48
>gnl|CDD|215758 pfam00158, Sigma54_activat, Sigma-54 interaction domain.
Length = 168
Score = 27.3 bits (62), Expect = 8.4
Identities = 13/35 (37%), Positives = 17/35 (48%), Gaps = 8/35 (22%)
Query: 143 ELIKAVSDNQ--ILIVIGETGSGKTTQITQYLAEA 175
EL K V+ +LI GE+G+GK A A
Sbjct: 13 ELAKRVAPTDATVLI-TGESGTGKE-----LFARA 41
>gnl|CDD|206649 cd01850, CDC_Septin, CDC/Septin GTPase family. Septins are a
conserved family of GTP-binding proteins associated with
diverse processes in dividing and non-dividing cells.
They were first discovered in the budding yeast S.
cerevisiae as a set of genes (CDC3, CDC10, CDC11 and
CDC12) required for normal bud morphology. Septins are
also present in metazoan cells, where they are required
for cytokinesis in some systems, and implicated in a
variety of other processes involving organization of the
cell cortex and exocytosis. In humans, 12 septin genes
generate dozens of polypeptides, many of which comprise
heterooligomeric complexes. Since septin mutants are
commonly defective in cytokinesis and formation of the
neck formation of the neck filaments/septin rings,
septins have been considered to be the primary
constituents of the neck filaments. Septins belong to
the GTPase superfamily for their conserved GTPase motifs
and enzymatic activities.
Length = 275
Score = 27.9 bits (63), Expect = 8.4
Identities = 8/15 (53%), Positives = 13/15 (86%)
Query: 154 LIVIGETGSGKTTQI 168
++V+GE+G GK+T I
Sbjct: 7 IMVVGESGLGKSTFI 21
>gnl|CDD|184585 PRK14239, PRK14239, phosphate transporter ATP-binding protein;
Provisional.
Length = 252
Score = 27.8 bits (62), Expect = 8.6
Identities = 15/40 (37%), Positives = 23/40 (57%), Gaps = 4/40 (10%)
Query: 131 QRQSLPIYKLKHELIKAVS----DNQILIVIGETGSGKTT 166
Q L +Y K + + +VS N+I +IG +GSGK+T
Sbjct: 7 QVSDLSVYYNKKKALNSVSLDFYPNEITALIGPSGSGKST 46
>gnl|CDD|238547 cd01127, TrwB, Bacterial conjugation protein TrwB, ATP binding
domain. TrwB is a homohexamer encoded by conjugative
plasmids in Gram-negative bacteria. TrwB also has an all
alpha domain which has been hypothesized to be
responsible for DNA binding. TrwB is a component of Type
IV secretion and is responsible for the horizontal
transfer of DNA between bacteria.
Length = 410
Score = 28.1 bits (63), Expect = 8.6
Identities = 19/67 (28%), Positives = 31/67 (46%), Gaps = 1/67 (1%)
Query: 109 KKHVIGGKKSSFGKKTNLTIVEQRQSLPIYKLKHELIKAVSDNQILIVIGETGSGKTTQI 168
K+H+ G + K + ++ PI K ++ ++IG TG+GKTTQI
Sbjct: 1 KEHLRGSRLVDVRKLARKLRKKDGKASPITIAGLPFPKD-AEEAHTMIIGTTGTGKTTQI 59
Query: 169 TQYLAEA 175
+ LA
Sbjct: 60 RELLASI 66
>gnl|CDD|183702 PRK12723, PRK12723, flagellar biosynthesis regulator FlhF;
Provisional.
Length = 388
Score = 27.9 bits (62), Expect = 8.7
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 152 QILIVIGETGSGKTTQITQYLAEAGFTARGK 182
++ I++G TG GKTT I + A G + K
Sbjct: 175 RVFILVGPTGVGKTTTIAKLAAIYGINSDDK 205
>gnl|CDD|234015 TIGR02788, VirB11, P-type DNA transfer ATPase VirB11. The VirB11
protein is found in the vir locus of Agrobacterium Ti
plasmids where it is involved in the type IV secretion
system for DNA transfer. VirB11 is believed to be an
ATPase. VirB11 is a homolog of the P-like conjugation
system TrbB protein and the Flp pilus sytem protein
TadA.
Length = 308
Score = 27.7 bits (62), Expect = 8.8
Identities = 11/26 (42%), Positives = 18/26 (69%), Gaps = 1/26 (3%)
Query: 142 HELIK-AVSDNQILIVIGETGSGKTT 166
E ++ A++ + +I+ G TGSGKTT
Sbjct: 134 KEFLRLAIASRKNIIISGGTGSGKTT 159
>gnl|CDD|213194 cd03227, ABC_Class2, ATP-binding cassette domain of non-transporter
proteins. ABC-type Class 2 contains systems involved in
cellular processes other than transport. These families
are characterized by the fact that the ABC subunit is
made up of duplicated, fused ABC modules (ABC2). No
known transmembrane proteins or domains are associated
with these proteins.
Length = 162
Score = 27.3 bits (61), Expect = 8.9
Identities = 12/51 (23%), Positives = 17/51 (33%), Gaps = 7/51 (13%)
Query: 149 SDNQILIVIGETGSGKTTQITQYLAEAGFTAR-------GKIGCTQPRRVA 192
+ + I+ G GSGK+T + G K GC A
Sbjct: 19 GEGSLTIITGPNGSGKSTILDAIGLALGGAQSATRRRSGVKAGCIVAAVSA 69
>gnl|CDD|184210 PRK13651, PRK13651, cobalt transporter ATP-binding subunit;
Provisional.
Length = 305
Score = 27.7 bits (62), Expect = 8.9
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 148 VSDNQILIVIGETGSGKTTQI 168
++ + + +IG+TGSGKTT I
Sbjct: 30 INQGEFIAIIGQTGSGKTTFI 50
>gnl|CDD|235153 PRK03731, aroL, shikimate kinase II; Reviewed.
Length = 171
Score = 27.2 bits (61), Expect = 8.9
Identities = 18/61 (29%), Positives = 26/61 (42%), Gaps = 18/61 (29%)
Query: 151 NQILIVIGETGSGKTTQITQYLAEAGFTARGKIGCT--------QPRRVAAMSVAKRVAE 202
Q L ++G G GKTT + LA+A +G Q + M+VA+ V
Sbjct: 2 TQPLFLVGARGCGKTT-VGMALAQA-------LGYRFVDTDQWLQ--STSNMTVAEIVER 51
Query: 203 E 203
E
Sbjct: 52 E 52
>gnl|CDD|233193 TIGR00929, VirB4_CagE, type IV secretion/conjugal transfer ATPase,
VirB4 family. Type IV secretion systems are found in
Gram-negative pathogens. They export proteins, DNA, or
complexes in different systems and are related to
plasmid conjugation systems. This model represents
related ATPases that include VirB4 in Agrobacterium
tumefaciens (DNA export) CagE in Helicobacter pylori
(protein export) and plasmid TraB (conjugation).
Length = 785
Score = 28.1 bits (63), Expect = 9.1
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 155 IVIGETGSGKTTQITQYLAEAG 176
++ G TGSGKTT + LA+
Sbjct: 438 LIFGPTGSGKTTLLNFLLAQMQ 459
>gnl|CDD|213904 TIGR04291, arsen_driv_ArsA, arsenical pump-driving ATPase. The
broader family (TIGR00345) to which the current family
belongs consists of transport-energizing ATPases,
including to TRC40/GET3 family involved in
post-translational insertion of protein C-terminal
transmembrane anchors into membranes from the cyotosolic
face. This family, however, is restricted to ATPases
that energize pumps that export arsenite (or
antimonite).
Length = 566
Score = 27.7 bits (62), Expect = 9.7
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 5/43 (11%)
Query: 139 KLKHELIKAVSDNQILIVIGETGSGKTT---QITQYLAEAGFT 178
+L E+ K S+ +++ +G+ G GKTT I LA G
Sbjct: 311 RLIDEIAK--SEKGLIMTMGKGGVGKTTVAAAIAVRLANKGLD 351
>gnl|CDD|236977 PRK11776, PRK11776, ATP-dependent RNA helicase DbpA; Provisional.
Length = 460
Score = 27.8 bits (63), Expect = 9.8
Identities = 13/35 (37%), Positives = 17/35 (48%), Gaps = 10/35 (28%)
Query: 131 QRQSLPIYKLKHELIKAVSDNQILIVIGETGSGKT 165
Q QSLP A+ + +I +TGSGKT
Sbjct: 31 QAQSLP----------AILAGKDVIAQAKTGSGKT 55
>gnl|CDD|132302 TIGR03258, PhnT, 2-aminoethylphosphonate ABC transport system,
ATP-binding component PhnT. This ATP-binding component
of an ABC transport system is found in Salmonella and
Burkholderia lineages in the vicinity of enzymes for the
breakdown of 2-aminoethylphosphonate.
Length = 362
Score = 27.7 bits (61), Expect = 9.9
Identities = 14/38 (36%), Positives = 21/38 (55%), Gaps = 3/38 (7%)
Query: 152 QILIVIGETGSGKTT---QITQYLAEAGFTARGKIGCT 186
++L +IG++G GKTT I ++ AG T R I
Sbjct: 32 ELLALIGKSGCGKTTLLRAIAGFVKAAGLTGRIAIADR 69
>gnl|CDD|213192 cd03225, ABC_cobalt_CbiO_domain1, First domain of the ATP-binding
cassette component of cobalt transport system. Domain I
of the ABC component of a cobalt transport family found
in bacteria, archaea, and eukaryota. The transition
metal cobalt is an essential component of many enzymes
and must be transported into cells in appropriate
amounts when needed. This ABC transport system of the
CbiMNQO family is involved in cobalt transport in
association with the cobalamin (vitamin B12)
biosynthetic pathways. Most of cobalt (Cbi) transport
systems possess a separate CbiN component, the
cobalt-binding periplasmic protein, and they are encoded
by the conserved gene cluster cbiMNQO. Both the CbiM and
CbiQ proteins are integral cytoplasmic membrane
proteins, and the CbiO protein has the linker peptide
and the Walker A and B motifs commonly found in the
ATPase components of the ABC-type transport systems.
Length = 211
Score = 27.4 bits (62), Expect = 9.9
Identities = 6/19 (31%), Positives = 13/19 (68%)
Query: 148 VSDNQILIVIGETGSGKTT 166
+ + ++++G GSGK+T
Sbjct: 24 IKKGEFVLIVGPNGSGKST 42
>gnl|CDD|163592 TIGR03880, KaiC_arch_3, KaiC domain protein, AF_0351 family. This
model represents a rather narrowly distributed archaeal
protein family in which members have a single copy of
the KaiC domain. This stands in contrast to the
circadian clock protein KaiC itself, with two copies of
the domain. Members are expected to have weak ATPase
activity, by homology to the
autokinase/autophosphorylase KaiC itself.
Length = 224
Score = 27.4 bits (61), Expect = 10.0
Identities = 11/20 (55%), Positives = 16/20 (80%)
Query: 153 ILIVIGETGSGKTTQITQYL 172
+++VIGE G+GKTT Q+L
Sbjct: 18 VIVVIGEYGTGKTTFSLQFL 37
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.317 0.135 0.385
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: 17,764,533
Number of extensions: 1715801
Number of successful extensions: 2493
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2475
Number of HSP's successfully gapped: 188
Length of query: 350
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 252
Effective length of database: 6,590,910
Effective search space: 1660909320
Effective search space used: 1660909320
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 59 (26.4 bits)