RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2071
(302 letters)
>gnl|CDD|224557 COG1643, HrpA, HrpA-like helicases [DNA replication, recombination,
and repair].
Length = 845
Score = 305 bits (782), Expect = 2e-97
Identities = 109/223 (48%), Positives = 154/223 (69%), Gaps = 2/223 (0%)
Query: 28 SVSTSIASNLQVNPFTGYPYTPRYHELHRKRITLPVFEYRTEFMTLLAQNQCIVLVGETG 87
+ + + ++ + + ++ R LPV R E + + QNQ +++VGETG
Sbjct: 16 AAMQEMKNQVRGSGMDARSRSANVPDILEYRSGLPVTAVRDEILKAIEQNQVVIIVGETG 75
Query: 88 SGKTTQIPQWCVEYSKSVGAKAVACTQPRRVAAMSVAQRVSEEMDCQLGQEVGYSIRFED 147
SGKTTQ+PQ+ +E A + CTQPRR+AA SVA+RV+EE+ +LG+ VGYSIRFE
Sbjct: 76 SGKTTQLPQFLLEEGL-GIAGKIGCTQPRRLAARSVAERVAEELGEKLGETVGYSIRFES 134
Query: 148 CSSPKTVLKYMTDGMLLREGMSDPMLENYQVILLDEAHERTLATDILMGVLKEVIKQ-RA 206
SP+T +K MTDG+LLRE +DP+L Y V+++DEAHER+L TDIL+G+LK+++ + R
Sbjct: 135 KVSPRTRIKVMTDGILLREIQNDPLLSGYSVVIIDEAHERSLNTDILLGLLKDLLARRRD 194
Query: 207 DLKLVIMSATLDAGKFQQYFDNAPLMNVPGRTHPVEIFYTPEP 249
DLKL+IMSATLDA +F YF NAP++ + GRT+PVEI Y PE
Sbjct: 195 DLKLIIMSATLDAERFSAYFGNAPVIEIEGRTYPVEIRYLPEA 237
Score = 27.7 bits (62), Expect = 8.8
Identities = 10/42 (23%), Positives = 17/42 (40%), Gaps = 4/42 (9%)
Query: 261 FTRPNEAKKAADDAK-MRFAHI---DGDHLTLLNVYHAFKQR 298
+ + + A D K ++ + GDHL LL + R
Sbjct: 505 DVKLRKQRTAQDLLKRLKRRNAADPRGDHLLLLEAFPDRIAR 546
>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 = 217 bits (555), Expect = 5e-64
Identities = 90/187 (48%), Positives = 131/187 (70%), Gaps = 1/187 (0%)
Query: 61 LPVFEYRTEFMTLLAQNQCIVLVGETGSGKTTQIPQWCVEYSKSVGAKAVACTQPRRVAA 120
LPV R + +A+NQ +++ GETGSGKTTQ+P+ C+E + + TQPRR+AA
Sbjct: 66 LPVSAKREDIAEAIAENQVVIIAGETGSGKTTQLPKICLELGRGSHG-LIGHTQPRRLAA 124
Query: 121 MSVAQRVSEEMDCQLGQEVGYSIRFEDCSSPKTVLKYMTDGMLLREGMSDPMLENYQVIL 180
+VAQR++EE+ LG++VGY +RF D S T++K MTDG+LL E D L Y I+
Sbjct: 125 RTVAQRIAEELGTPLGEKVGYKVRFHDQVSSNTLVKLMTDGILLAETQQDRFLSRYDTII 184
Query: 181 LDEAHERTLATDILMGVLKEVIKQRADLKLVIMSATLDAGKFQQYFDNAPLMNVPGRTHP 240
+DEAHER+L D L+G LK+++ +R DLK++I SAT+D +F ++F+NAP++ V GRT+P
Sbjct: 185 IDEAHERSLNIDFLLGYLKQLLPRRPDLKIIITSATIDPERFSRHFNNAPIIEVSGRTYP 244
Query: 241 VEIFYTP 247
VE+ Y P
Sbjct: 245 VEVRYRP 251
Score = 32.0 bits (73), Expect = 0.49
Identities = 12/35 (34%), Positives = 20/35 (57%)
Query: 263 RPNEAKKAADDAKMRFAHIDGDHLTLLNVYHAFKQ 297
RP E ++AAD A RF D L+ +N++ ++
Sbjct: 520 RPMEKQQAADQAHARFKDPRSDFLSRVNLWRHIEE 554
>gnl|CDD|182986 PRK11131, PRK11131, ATP-dependent RNA helicase HrpA; Provisional.
Length = 1294
Score = 214 bits (547), Expect = 7e-63
Identities = 87/187 (46%), Positives = 132/187 (70%), Gaps = 1/187 (0%)
Query: 61 LPVFEYRTEFMTLLAQNQCIVLVGETGSGKTTQIPQWCVEYSKSVGAKAVACTQPRRVAA 120
LPV + + + + + +Q +++ GETGSGKTTQ+P+ C+E + V + TQPRR+AA
Sbjct: 73 LPVSQKKQDILEAIRDHQVVIVAGETGSGKTTQLPKICLELGRGVKG-LIGHTQPRRLAA 131
Query: 121 MSVAQRVSEEMDCQLGQEVGYSIRFEDCSSPKTVLKYMTDGMLLREGMSDPMLENYQVIL 180
+VA R++EE++ +LG VGY +RF D S T++K MTDG+LL E D +L Y I+
Sbjct: 132 RTVANRIAEELETELGGCVGYKVRFNDQVSDNTMVKLMTDGILLAEIQQDRLLMQYDTII 191
Query: 181 LDEAHERTLATDILMGVLKEVIKQRADLKLVIMSATLDAGKFQQYFDNAPLMNVPGRTHP 240
+DEAHER+L D ++G LKE++ +R DLK++I SAT+D +F ++F+NAP++ V GRT+P
Sbjct: 192 IDEAHERSLNIDFILGYLKELLPRRPDLKVIITSATIDPERFSRHFNNAPIIEVSGRTYP 251
Query: 241 VEIFYTP 247
VE+ Y P
Sbjct: 252 VEVRYRP 258
Score = 37.0 bits (86), Expect = 0.012
Identities = 10/35 (28%), Positives = 22/35 (62%)
Query: 263 RPNEAKKAADDAKMRFAHIDGDHLTLLNVYHAFKQ 297
RP + ++A+D+ RFA + D L +N+++ ++
Sbjct: 529 RPMDKQQASDEKHRRFADKESDFLAFVNLWNYLQE 563
>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 = 154 bits (390), Expect = 4e-42
Identities = 66/204 (32%), Positives = 102/204 (50%), Gaps = 13/204 (6%)
Query: 61 LPVFEYRTEFMTLLAQNQCIVLVGETGSGKTTQIP----QWCVEYSKSVGAKAVACTQPR 116
LP+ LA + +VL G+GK+T +P K + +PR
Sbjct: 1 LPIHAVLPALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAPGIGGK------IIMLEPR 54
Query: 117 RVAAMSVAQRVSEEMDCQLGQEVGYSIRFEDCSSPKTVLKYMTDGMLLREGMSDPMLENY 176
R+AA S AQR++ ++ +GQ VGY +R E+ S +T L+ +T+G+L R DP L+
Sbjct: 55 RLAARSAAQRLASQLGEAVGQTVGYRVRGENKVSRRTRLEVVTEGILTRMIQDDPELDGV 114
Query: 177 QVILLDEAHERTLATDILMGVLKEVIKQ-RADLKLVIMSATLDAGKFQQYFDNAPLMNVP 235
++ DE HER+L D+ + + +V R DLK++ MSATLD + +AP++
Sbjct: 115 GALIFDEFHERSLDADLGLALALDVQSSLREDLKILAMSATLDGERLSSLLPDAPVVESE 174
Query: 236 GRTHPVEIFYTPEPPLGAGPWLPQ 259
GR+ PVEI Y P
Sbjct: 175 GRSFPVEIRYLPLRG--DQRLEDA 196
>gnl|CDD|236950 PRK11664, PRK11664, ATP-dependent RNA helicase HrpB; Provisional.
Length = 812
Score = 132 bits (334), Expect = 2e-34
Identities = 74/190 (38%), Positives = 112/190 (58%), Gaps = 7/190 (3%)
Query: 61 LPVFEYRTEFMTLLAQNQCIVLVGETGSGKTTQIPQWCVEYSKSVGAKAVACTQPRRVAA 120
LPV E +T L ++L TG+GK+T +P ++ + K + +PRR+AA
Sbjct: 4 LPVAAVLPELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQ-HGGINGKIIM-LEPRRLAA 61
Query: 121 MSVAQRVSEEMDCQLGQEVGYSIRFEDCSSPKTVLKYMTDGMLLREGMSDPMLENYQVIL 180
+VAQR++E++ + G+ VGY +R E P T L+ +T+G+L R DP L +++
Sbjct: 62 RNVAQRLAEQLGEKPGETVGYRMRAESKVGPNTRLEVVTEGILTRMIQRDPELSGVGLVI 121
Query: 181 LDEAHERTLATDILMGVLKEVIKQ---RADLKLVIMSATLDAGKFQQYFDNAPLMNVPGR 237
LDE HER+L D+ + +L +V Q R DLKL+IMSATLD + QQ +AP++ GR
Sbjct: 122 LDEFHERSLQADLALALLLDV--QQGLRDDLKLLIMSATLDNDRLQQLLPDAPVIVSEGR 179
Query: 238 THPVEIFYTP 247
+ PVE Y P
Sbjct: 180 SFPVERRYQP 189
>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 = 117 bits (296), Expect = 6e-33
Identities = 45/145 (31%), Positives = 66/145 (45%), Gaps = 10/145 (6%)
Query: 80 IVLVGETGSGKTTQIPQWCVEYSKSVGAKAVACTQPRRVAAMSVAQRVSEEMDCQLGQEV 139
++L TGSGKT +E S+ V P R A VA+R+ E G +V
Sbjct: 3 VLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFGE--GIKV 60
Query: 140 GYSIRFEDCS------SPKTVLKYMTDGMLLREGMSDPM-LENYQVILLDEAHERTLATD 192
GY I S KT + T G LL E + L+ +++LDEAH
Sbjct: 61 GYLIGGTSIKQQEKLLSGKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAHRLLNQGF 120
Query: 193 ILMGVLKEVIKQRADLKLVIMSATL 217
L+G LK ++K D +++++SAT
Sbjct: 121 GLLG-LKILLKLPKDRQVLLLSATP 144
>gnl|CDD|214692 smart00487, DEXDc, DEAD-like helicases superfamily.
Length = 201
Score = 102 bits (257), Expect = 2e-26
Identities = 50/185 (27%), Positives = 76/185 (41%), Gaps = 16/185 (8%)
Query: 73 LLAQNQCIVLVGETGSGKTTQIPQWCVEYSKSVGAKAVACTQPRRVAAMSVAQRVSEEMD 132
LL+ + ++L TGSGKT +E K V P R A A+ + +
Sbjct: 20 LLSGLRDVILAAPTGSGKTLAALLPALEALKRGKGGRVLVLVPTRELAEQWAEELKKLGP 79
Query: 133 CQLGQEVGY------SIRFEDCSSPKTVLKYMTDGMLLREGMSDPM-LENYQVILLDEAH 185
+ VG + S KT + T G LL +D + L N +++LDEAH
Sbjct: 80 SLGLKVVGLYGGDSKREQLRKLESGKTDILVTTPGRLLDLLENDKLSLSNVDLVILDEAH 139
Query: 186 ERT--LATDILMGVLKEVIKQRADLKLVIMSATL--DAGKFQQYFDNAPLMNVPGRT--H 239
D L +LK + K +L+++SAT + + F N P+ G T
Sbjct: 140 RLLDGGFGDQLEKLLKLLPKNV---QLLLLSATPPEEIENLLELFLNDPVFIDVGFTPLE 196
Query: 240 PVEIF 244
P+E F
Sbjct: 197 PIEQF 201
>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 = 46.4 bits (110), Expect = 1e-05
Identities = 30/88 (34%), Positives = 36/88 (40%), Gaps = 16/88 (18%)
Query: 16 KNREERLATVNASVSTSIASNL-QVNPFTGYP-YTPRYHELHRKRITLPVFE-------- 65
KN R + T S L VNPF P Y P+Y L+ + L
Sbjct: 25 KNLRHRFL--QGHIYTYAGSILVAVNPFKFLPIYNPKYVRLYENQQRLGKLPPHIFAIAD 82
Query: 66 --YRTEFMTLLAQNQCIVLVGETGSGKT 91
Y M NQCIV+ GE+GSGKT
Sbjct: 83 VAYYN--MLRKKVNQCIVISGESGSGKT 108
>gnl|CDD|218070 pfam04408, HA2, Helicase associated domain (HA2). This presumed
domain is about 90 amino acid residues in length. It is
found is a diverse set of RNA helicases. Its function is
unknown, however it seems likely to be involved in
nucleic acid binding.
Length = 91
Score = 42.6 bits (101), Expect = 1e-05
Identities = 16/32 (50%), Positives = 21/32 (65%)
Query: 258 PQCFTRPNEAKKAADDAKMRFAHIDGDHLTLL 289
P F RP E ++ AD A+ +FA + DHLTLL
Sbjct: 60 PSPFYRPKEKEEEADAARRKFASAESDHLTLL 91
>gnl|CDD|177443 PHA02653, PHA02653, RNA helicase NPH-II; Provisional.
Length = 675
Score = 45.0 bits (107), Expect = 3e-05
Identities = 23/69 (33%), Positives = 40/69 (57%), Gaps = 6/69 (8%)
Query: 173 LENYQVILLDEAHERTLATDILMGVL-KEVIKQRADLKLVIMSATL--DAGKFQQYFDNA 229
L +Y +++DE HE DI++ V K + K R+ L +M+ATL D + +++F N
Sbjct: 289 LFDYGTVIIDEVHEHDQIGDIIIAVARKHIDKIRS---LFLMTATLEDDRDRIKEFFPNP 345
Query: 230 PLMNVPGRT 238
+++PG T
Sbjct: 346 AFVHIPGGT 354
Score = 30.7 bits (70), Expect = 1.2
Identities = 10/16 (62%), Positives = 13/16 (81%)
Query: 80 IVLVGETGSGKTTQIP 95
+VL G TG GKT+Q+P
Sbjct: 182 VVLTGGTGVGKTSQVP 197
>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 = 44.2 bits (105), Expect = 6e-05
Identities = 23/64 (35%), Positives = 30/64 (46%), Gaps = 12/64 (18%)
Query: 39 VNPFTGYP-YTPRYHEL--HRKRITLP--VFE-----YRTEFMTLLAQNQCIVLVGETGS 88
VNP+ P Y P + R LP VF YR M +NQ I++ GE+G+
Sbjct: 40 VNPYKDLPNYGPETIRKYRGKSRSELPPHVFAIADRAYR--NMLRDRRNQSIIISGESGA 97
Query: 89 GKTT 92
GKT
Sbjct: 98 GKTE 101
>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 = 42.1 bits (100), Expect = 3e-04
Identities = 23/64 (35%), Positives = 31/64 (48%), Gaps = 12/64 (18%)
Query: 39 VNPFTGYP-YTPRYHEL--HRKRITLP--VFE-----YRTEFMTLLAQNQCIVLVGETGS 88
VNP+ P YT + + R LP VF YR M +NQ I++ GE+G+
Sbjct: 46 VNPYKQLPIYTDEVIKKYRGKSRGELPPHVFAIADNAYRN--MLNDKENQSIIISGESGA 103
Query: 89 GKTT 92
GKT
Sbjct: 104 GKTE 107
>gnl|CDD|215687 pfam00063, Myosin_head, Myosin head (motor domain).
Length = 679
Score = 40.4 bits (95), Expect = 8e-04
Identities = 25/64 (39%), Positives = 33/64 (51%), Gaps = 12/64 (18%)
Query: 39 VNPFTGYP-YTPRYHELHR--KRITLP--VFE-----YRTEFMTLLAQNQCIVLVGETGS 88
VNP+ P YT +R +R LP +F YR M +NQCIV+ GE+G+
Sbjct: 39 VNPYKRLPIYTEEPIGEYRGKRRGELPPHIFALADRAYR--HMLRDKENQCIVISGESGA 96
Query: 89 GKTT 92
GKT
Sbjct: 97 GKTE 100
>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 = 37.4 bits (86), Expect = 0.003
Identities = 21/149 (14%), Positives = 40/149 (26%), Gaps = 29/149 (19%)
Query: 76 QNQCIVLVGETGSGKTTQIPQWCVEYSK-SVGAKAVACTQPRRVAAMSVAQRVSEEMDCQ 134
+ I++VG GSGKTT E G + + +
Sbjct: 1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKAS 60
Query: 135 LGQEVGYSIRFEDCSSPKTVLKYMTDGMLLREGMSDPMLENYQVILLDEAH-----ERTL 189
E+ + K V++LDE E+
Sbjct: 61 GSGELRLRLALALARKLK-----------------------PDVLILDEITSLLDAEQEA 97
Query: 190 ATDILMGVLKEVIKQRADLKLVIMSATLD 218
+L + ++ + VI++ +
Sbjct: 98 LLLLLEELRLLLLLKSEKNLTVILTTNDE 126
>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 = 38.0 bits (89), Expect = 0.005
Identities = 24/63 (38%), Positives = 35/63 (55%), Gaps = 12/63 (19%)
Query: 39 VNPFTGYP-YTPRYHELHR--KRITLP--VFE-----YRTEFMTLLAQNQCIVLVGETGS 88
VNPF P YT EL++ R LP ++ YR+ M +NQC+++ GE+G+
Sbjct: 40 VNPFKQLPIYTDETIELYKGKSRYELPPHIYALADNAYRS--MKSENENQCVIISGESGA 97
Query: 89 GKT 91
GKT
Sbjct: 98 GKT 100
>gnl|CDD|214852 smart00847, HA2, Helicase associated domain (HA2) Add an
annotation. This presumed domain is about 90 amino acid
residues in length. It is found is a diverse set of RNA
helicases. Its function is unknown, however it seems
likely to be involved in nucleic acid binding.
Length = 82
Score = 34.6 bits (80), Expect = 0.007
Identities = 15/27 (55%), Positives = 19/27 (70%)
Query: 263 RPNEAKKAADDAKMRFAHIDGDHLTLL 289
RP E ++ AD A+ RFA + DHLTLL
Sbjct: 56 RPKEKREDADAARRRFADPESDHLTLL 82
>gnl|CDD|227355 COG5022, COG5022, Myosin heavy chain [Cytoskeleton].
Length = 1463
Score = 37.4 bits (87), Expect = 0.008
Identities = 19/61 (31%), Positives = 28/61 (45%), Gaps = 8/61 (13%)
Query: 39 VNPFTGYP-YT----PRYHELHRKRITLPVF---EYRTEFMTLLAQNQCIVLVGETGSGK 90
VNP+ YT Y +R + VF E + +NQ I++ GE+G+GK
Sbjct: 106 VNPYRDLGIYTDDIIQSYSGKNRLELEPHVFAIAEEAYRNLLSEKENQTIIISGESGAGK 165
Query: 91 T 91
T
Sbjct: 166 T 166
>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 = 36.1 bits (84), Expect = 0.008
Identities = 37/155 (23%), Positives = 66/155 (42%), Gaps = 26/155 (16%)
Query: 80 IVLVGETGSGKTT--QIPQWCVEYSKSVGAKAVACTQPRRVAAMSVAQRVSE-----EMD 132
+++ TGSGKT +P K G +A+ P R A + + + + +
Sbjct: 17 VLVQAPTGSGKTLAFLLPILQALLPKKGGPQAL-VLAPTRELAEQIYEELKKLFKILGLR 75
Query: 133 CQL---GQEVGYSIRFEDCSSPKTVLKYMTDGMLLR--EGMSDPMLENYQVILLDEAHER 187
L G + R + T G LL +L+N ++++LDEAH
Sbjct: 76 VALLTGGTSLKEQARKLKKGKADIL--VGTPGRLLDLLRRGKLKLLKNLKLLVLDEAHR- 132
Query: 188 TLATDIL-MG---VLKEVIKQ-RADLKLVIMSATL 217
+L MG L+E++ + D +++++SATL
Sbjct: 133 -----LLDMGFGDDLEEILSRLPPDRQILLLSATL 162
>gnl|CDD|183703 PRK12724, PRK12724, flagellar biosynthesis regulator FlhF;
Provisional.
Length = 432
Score = 36.9 bits (85), Expect = 0.010
Identities = 19/57 (33%), Positives = 31/57 (54%), Gaps = 1/57 (1%)
Query: 76 QNQCIVLVGETGSGKTTQIPQWCVEYSKSVGAK-AVACTQPRRVAAMSVAQRVSEEM 131
Q + + VG TGSGKTT I + +Y +G ++ T R+AA+ +R ++ M
Sbjct: 222 QRKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRYADTM 278
>gnl|CDD|238675 cd01379, MYSc_type_III, Myosin motor domain, type III myosins.
Myosin III has been shown to play a role in the vision
process in insects and in hearing in mammals. Myosin
III, 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 = 653
Score = 36.0 bits (83), Expect = 0.025
Identities = 29/95 (30%), Positives = 48/95 (50%), Gaps = 11/95 (11%)
Query: 6 LDVIDPYITKKNREERLATVNASVSTSIASNL-QVNPFTGYP-YTPRYHELH--RKRITL 61
L+V+D + ++R T + T + L VNPF YT ++ L+ +KR +
Sbjct: 8 LEVLDEDTIVEQLQKRYET--NQIYTYVGDILIAVNPFQQLGLYTTQHSRLYTGQKRSSN 65
Query: 62 P-----VFEYRTEFMTLLAQNQCIVLVGETGSGKT 91
P + + + + Q+QCIV+ GE+GSGKT
Sbjct: 66 PPHIFAIADAAYQSLVTYNQDQCIVISGESGSGKT 100
>gnl|CDD|224337 COG1419, FlhF, Flagellar GTP-binding protein [Cell motility and
secretion].
Length = 407
Score = 35.4 bits (82), Expect = 0.026
Identities = 30/111 (27%), Positives = 43/111 (38%), Gaps = 24/111 (21%)
Query: 76 QNQCIVLVGETGSGKTTQIPQWCVEYSKSVGAKAVA--CTQPRRVAAMSVAQRVSEEMDC 133
Q + I LVG TG GKTT + + Y K VA T R+ A+ + ++ M
Sbjct: 202 QKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGV 261
Query: 134 QLGQEVGYSIRFEDCSSPKTVLKYMTDGMLLREGMSDPMLENYQVILLDEA 184
L E SPK + + + L + VIL+D A
Sbjct: 262 PL----------EVVYSPKELAEAIEA------------LRDCDVILVDTA 290
>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 = 34.6 bits (80), Expect = 0.031
Identities = 10/25 (40%), Positives = 16/25 (64%), Gaps = 1/25 (4%)
Query: 69 EFMTLLAQNQC-IVLVGETGSGKTT 92
++ L + + I++ G TGSGKTT
Sbjct: 16 AYLWLAVEARKNILISGGTGSGKTT 40
>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 = 33.7 bits (77), Expect = 0.042
Identities = 25/151 (16%), Positives = 47/151 (31%), Gaps = 42/151 (27%)
Query: 74 LAQNQCIVLVGETGSGKTTQIPQWCVEYSKSVGAKAVA---CTQPRRVAAMSVAQRVSEE 130
L + ++L G G+GKTT + A+A+A ++ + +
Sbjct: 16 LPPPKNLLLYGPPGTGKTT-L------------ARAIANELFRPGAPFLYLNASDLLEGL 62
Query: 131 MDCQLGQEVGYSIRFEDCSSPKTVLKYMTDGMLLREGMSDPMLENYQVILLDEAHE-RTL 189
+ +L + FE V+ +DE
Sbjct: 63 VVAELFGHFLVRLLFE-----------------------LAEKAKPGVLFIDEIDSLSRG 99
Query: 190 ATDILMGVLKEVIKQRADLK--LVIMSATLD 218
A + L+ VL+ + R D + VI +
Sbjct: 100 AQNALLRVLETLNDLRIDRENVRVIGATNRP 130
>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 = 33.9 bits (79), Expect = 0.044
Identities = 7/19 (36%), Positives = 13/19 (68%)
Query: 74 LAQNQCIVLVGETGSGKTT 92
+ + + +VG +GSGK+T
Sbjct: 25 IKPGEKVAIVGPSGSGKST 43
>gnl|CDD|215925 pfam00448, SRP54, SRP54-type protein, GTPase domain. This family
includes relatives of the G-domain of the SRP54 family
of proteins.
Length = 196
Score = 34.1 bits (79), Expect = 0.049
Identities = 42/142 (29%), Positives = 60/142 (42%), Gaps = 24/142 (16%)
Query: 80 IVLVGETGSGKTTQIPQWCVEYSKSVGAK-AVACTQPRRVAAMSVAQRVSEEMDCQLGQE 138
I+LVG GSGKTT I + K G K + R AA+ E++ QL +
Sbjct: 4 ILLVGLQGSGKTTTIAKLAAYLKKQ-GKKVLLVAADTFRAAAI-------EQLK-QLAER 54
Query: 139 VG-YSIRFEDCSSPKTVLKYMTDGMLLREGMSDPMLENYQVILLDEAHERTLATD-ILMG 196
+G S P V + + ENY V+L+D A R L D LM
Sbjct: 55 LGVPVFGSGTGSDPAAVAF---------DAVEKAKAENYDVVLVDTAG-R-LQNDKNLMD 103
Query: 197 VLKEVIKQ-RADLKLVIMSATL 217
LK++ + D L+++ AT
Sbjct: 104 ELKKIKRVIAPDEVLLVLDATT 125
>gnl|CDD|234232 TIGR03499, FlhF, flagellar biosynthetic protein FlhF. [Cellular
processes, Chemotaxis and motility].
Length = 283
Score = 34.2 bits (79), Expect = 0.058
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 8/48 (16%)
Query: 72 TLLAQNQCIVLVGETGSGKTTQIPQWCVEYSKSVGAKAVACTQPRRVA 119
+L + I LVG TG GKTT + +K + A+ V ++VA
Sbjct: 190 PILERGGVIALVGPTGVGKTTTL-------AK-LAARFVLEHGKKKVA 229
>gnl|CDD|224124 COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense
mechanisms].
Length = 733
Score = 34.0 bits (78), Expect = 0.097
Identities = 12/45 (26%), Positives = 25/45 (55%), Gaps = 4/45 (8%)
Query: 178 VILLDEAHERTLATDILMGVLKEVIKQRADL--KLVIMSATLDAG 220
+++LDE H A + ++ L +++ A+ +++MSATL
Sbjct: 341 LVILDEVH--LYADETMLAALLALLEALAEAGVPVLLMSATLPPF 383
Score = 29.0 bits (65), Expect = 4.1
Identities = 10/45 (22%), Positives = 19/45 (42%), Gaps = 4/45 (8%)
Query: 52 HELHRKRITLPVFEYRTEFMTLLAQNQC----IVLVGETGSGKTT 92
+ I +E + + + L+ + + +VL TG GKT
Sbjct: 185 INKFKSFIEHEGYELQEKALELILRLEKRSLLVVLEAPTGYGKTE 229
>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 = 33.3 bits (77), Expect = 0.15
Identities = 24/63 (38%), Positives = 34/63 (53%), Gaps = 12/63 (19%)
Query: 39 VNPFTGYP-YTPRYHELHR--KRITLP--VFE-----YRTEFMTLLAQNQCIVLVGETGS 88
VNP+ P YT E++R KR +P +F YR M +NQ I++ GE+G+
Sbjct: 45 VNPYKRLPIYTEEVVEMYRGKKREEMPPHIFAIADNAYR--SMLQDRENQSILITGESGA 102
Query: 89 GKT 91
GKT
Sbjct: 103 GKT 105
>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 = 33.5 bits (77), Expect = 0.16
Identities = 20/62 (32%), Positives = 29/62 (46%), Gaps = 10/62 (16%)
Query: 39 VNPFTGYP-YTPR----YHELHRKRITLP----VFEYRTEFMTLLAQNQCIVLVGETGSG 89
+NP+ P Y Y RK P + E + MT +NQ I++ GE+G+G
Sbjct: 40 INPYARLPIYGEEIIQAYSG-QRKGELDPHIFAIAEEAYKQMTRDEKNQSIIVSGESGAG 98
Query: 90 KT 91
KT
Sbjct: 99 KT 100
>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 = 0.17
Identities = 9/19 (47%), Positives = 15/19 (78%)
Query: 74 LAQNQCIVLVGETGSGKTT 92
+ + + + LVGE+GSGK+T
Sbjct: 28 IKKGETLGLVGESGSGKST 46
>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 = 32.4 bits (75), Expect = 0.17
Identities = 7/19 (36%), Positives = 14/19 (73%)
Query: 74 LAQNQCIVLVGETGSGKTT 92
+ + + +++VG GSGK+T
Sbjct: 24 IKKGEFVLIVGPNGSGKST 42
>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 = 33.2 bits (76), Expect = 0.20
Identities = 20/61 (32%), Positives = 31/61 (50%), Gaps = 8/61 (13%)
Query: 39 VNPFTGYP-YTPRYHELH--RKRITLP-----VFEYRTEFMTLLAQNQCIVLVGETGSGK 90
VNP+ P YT +L+ + LP + + M +NQCI++ GE+G+GK
Sbjct: 40 VNPYQILPIYTADEIKLYKNKSIGELPPHIFAISDNAYTNMQREKKNQCIIISGESGAGK 99
Query: 91 T 91
T
Sbjct: 100 T 100
>gnl|CDD|224047 COG1122, CbiO, ABC-type cobalt transport system, ATPase component
[Inorganic ion transport and metabolism].
Length = 235
Score = 32.2 bits (74), Expect = 0.23
Identities = 7/21 (33%), Positives = 15/21 (71%)
Query: 74 LAQNQCIVLVGETGSGKTTQI 94
+ + + ++L+G GSGK+T +
Sbjct: 27 IEKGERVLLIGPNGSGKSTLL 47
>gnl|CDD|183859 PRK13103, secA, preprotein translocase subunit SecA; Reviewed.
Length = 913
Score = 32.6 bits (74), Expect = 0.26
Identities = 18/55 (32%), Positives = 31/55 (56%)
Query: 172 MLENYQVILLDEAHERTLATDILMGVLKEVIKQRADLKLVIMSATLDAGKFQQYF 226
++++ QV+L+DE RT+ L L + I+ + +L + S TL + FQ YF
Sbjct: 327 IVQDGQVLLIDEHTGRTMPGRRLSEGLHQAIEAKENLNIQAESQTLASTTFQNYF 381
>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 = 32.6 bits (74), Expect = 0.28
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 71 MTLLAQNQCIVLVGETGSGKT 91
M QNQC+++ GE+GSGKT
Sbjct: 81 MLDAKQNQCVIISGESGSGKT 101
>gnl|CDD|163646 cd07403, MPP_TTHA0053, Thermus thermophilus TTHA0053 and related
proteins, metallophosphatase domain. TTHA0053 is an
uncharacterized Thermus thermophilus protein with a
domain that belongs to the metallophosphatase (MPP)
superfamily. MPPs are functionally diverse, but all
share a conserved domain with an active site consisting
of two metal ions (usually manganese, iron, or zinc)
coordinated with octahedral geometry by a cage of
histidine, aspartate, and asparagine residues. The MPP
superfamily includes: Mre11/SbcD-like exonucleases,
Dbr1-like RNA lariat debranching enzymes, YfcE-like
phosphodiesterases, purple acid phosphatases (PAPs),
YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). The conserved domain is a
double beta-sheet sandwich with a di-metal active site
made up of residues located at the C-terminal side of
the sheets. This domain is thought to allow for
productive metal coordination.
Length = 129
Score = 31.1 bits (71), Expect = 0.29
Identities = 12/34 (35%), Positives = 15/34 (44%), Gaps = 1/34 (2%)
Query: 222 FQQYFDNAPLMNVPGRTHPVEIFYTPEPPLGAGP 255
+ N P+ V G H V+I T PP G G
Sbjct: 39 YLVTMLNVPVYYVHG-NHDVDILLTHAPPAGIGD 71
>gnl|CDD|236982 PRK11784, PRK11784, tRNA 2-selenouridine synthase; Provisional.
Length = 345
Score = 32.1 bits (74), Expect = 0.29
Identities = 13/30 (43%), Positives = 14/30 (46%), Gaps = 4/30 (13%)
Query: 66 YRT----EFMTLLAQNQCIVLVGETGSGKT 91
YR AQ +VL G TGSGKT
Sbjct: 126 YRRFVIDTLEEAPAQFPLVVLGGNTGSGKT 155
>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 = 0.32
Identities = 13/25 (52%), Positives = 17/25 (68%), Gaps = 1/25 (4%)
Query: 69 EFMTLLAQNQCIVLV-GETGSGKTT 92
+ LL + Q ++LV G TGSGKTT
Sbjct: 249 RLLRLLNRPQGLILVTGPTGSGKTT 273
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 30.7 bits (70), Expect = 0.33
Identities = 20/109 (18%), Positives = 40/109 (36%), Gaps = 25/109 (22%)
Query: 78 QCIVLVGETGSGKTTQIPQWCVEYSKSVGAKAVACTQPRRVAAMSVAQRVSEEMDCQ-LG 136
VL GE+GSGKTT + + RRV + + + + +
Sbjct: 5 GIGVLTGESGSGKTT------------LLRRLARQLPNRRVVYVEAPSLGTPKDLLRKIL 52
Query: 137 QEVGYSIRFEDCSSPKTVLKYMTDGMLLREGMSDPMLENYQVILLDEAH 185
+ +G + + +L+ + D L+ ++++DEA
Sbjct: 53 RALGLPLSGG---TTAELLEAILD--ALKRRGR-------PLLIIDEAQ 89
>gnl|CDD|182838 PRK10919, PRK10919, ATP-dependent DNA helicase Rep; Provisional.
Length = 672
Score = 31.7 bits (72), Expect = 0.46
Identities = 22/72 (30%), Positives = 33/72 (45%), Gaps = 11/72 (15%)
Query: 69 EFMTLLAQNQCIVLVGETGSGKTTQIPQWCVEYSKSVGAKAVACTQPRRVAAMSVAQRVS 128
EF+T C+VL G GSGKT I + G Q R +AA++ + +
Sbjct: 12 EFVT----GPCLVLAG-AGSGKTRVITNKIAHLIRGCG------YQARHIAAVTFTNKAA 60
Query: 129 EEMDCQLGQEVG 140
EM ++ Q +G
Sbjct: 61 REMKERVAQTLG 72
>gnl|CDD|214940 smart00962, SRP54, SRP54-type protein, GTPase domain. This entry
represents the GTPase domain of the 54 kDa SRP54
component, a GTP-binding protein that interacts with the
signal sequence when it emerges from the ribosome. SRP54
of the signal recognition particle has a three-domain
structure: an N-terminal helical bundle domain, a GTPase
domain, and the M-domain that binds the 7s RNA and also
binds the signal sequence. The extreme C-terminal region
is glycine-rich and lower in complexity and poorly
conserved between species. The GTPase domain is
evolutionary related to P-loop NTPase domains found in a
variety of other proteins.
Length = 197
Score = 30.8 bits (71), Expect = 0.52
Identities = 36/146 (24%), Positives = 56/146 (38%), Gaps = 33/146 (22%)
Query: 80 IVLVGETGSGKTTQIP---QWCV-EYSKSVGAKAVACTQPRRVAAMSVAQRVSEEMDCQL 135
I+LVG G GKTT I + K V + R AA+ + +E +
Sbjct: 4 ILLVGPNGVGKTTTIAKLAARLKLKGGKKV---LLVAADTFRAAAVEQLKTYAEILGVVP 60
Query: 136 GQEVGYSIRFEDCSSPKTVLKYMTDGMLLREGMSDPMLENYQVILLDEAHERT---LATD 192
+ + + P V K D + L + Y V+L+D T L D
Sbjct: 61 -------VAGGEGADPVAVAK---DAVELAK------ARGYDVVLID-----TAGRLHND 99
Query: 193 I-LMGVLKEVIKQ-RADLKLVIMSAT 216
LM LK++ + + D L++ AT
Sbjct: 100 ENLMEELKKIKRVIKPDEVLLVSDAT 125
>gnl|CDD|226641 COG4172, COG4172, ABC-type uncharacterized transport system,
duplicated ATPase component [General function prediction
only].
Length = 534
Score = 31.5 bits (72), Expect = 0.54
Identities = 11/19 (57%), Positives = 15/19 (78%)
Query: 74 LAQNQCIVLVGETGSGKTT 92
L + Q + LVGE+GSGK+T
Sbjct: 310 LRRGQTLGLVGESGSGKST 328
>gnl|CDD|223615 COG0541, Ffh, Signal recognition particle GTPase [Intracellular
trafficking and secretion].
Length = 451
Score = 31.3 bits (72), Expect = 0.55
Identities = 39/159 (24%), Positives = 66/159 (41%), Gaps = 32/159 (20%)
Query: 80 IVLVGETGSGKTT---QIPQWCVEYSKSVGAKAVACTQPRRVAAMSVAQRVSEEMDCQLG 136
I++VG GSGKTT ++ ++ + K V + R AA+ + QL
Sbjct: 103 ILMVGLQGSGKTTTAGKLAKYLKKKGKKVL---LVAADTYRPAAIEQLK--------QLA 151
Query: 137 QEVG---YSIRFEDCSSPKTVLKYMTDGMLLREGMSDPMLENYQVILLDEAHERTLATDI 193
++VG + E P + K + E Y V+++D A R +
Sbjct: 152 EQVGVPFFGSGTEK--DPVEIAK---------AALEKAKEEGYDVVIVDTAG-RLHIDEE 199
Query: 194 LMGVLKEVIKQ-RADLKLVIMSATL--DAGKFQQYFDNA 229
LM LKE+ + D L+++ A + DA + F+ A
Sbjct: 200 LMDELKEIKEVINPDETLLVVDAMIGQDAVNTAKAFNEA 238
>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 = 30.6 bits (69), Expect = 0.56
Identities = 20/138 (14%), Positives = 56/138 (40%), Gaps = 10/138 (7%)
Query: 78 QCIVLVGETGSGKTTQIPQWCVEYSKSVGAKAVACTQPRRVAAMSVAQRVSEEMDCQLGQ 137
++L G +G+GKT+ + + +E K + A + + QL +
Sbjct: 25 PSVLLTGPSGTGKTSLL-RELLEGLLVAAGKCDQAERNPPYAFSQALRELLR----QLLR 79
Query: 138 EVGYSIRFEDCSSPKTVLKYMTDGMLLREGMSDPMLENYQ--VILLDEAHERTLATDILM 195
E+ + + + + +G+ + + +L + V++LD+ + +
Sbjct: 80 ELAAELLLLREALLAALGAELIEGLQDLVELLERLLARARPLVLVLDDLQWADEES---L 136
Query: 196 GVLKEVIKQRADLKLVIM 213
+L ++++ L L+++
Sbjct: 137 DLLAALLRRLERLPLLVV 154
>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 = 30.6 bits (69), Expect = 0.73
Identities = 14/32 (43%), Positives = 16/32 (50%), Gaps = 2/32 (6%)
Query: 62 PVFEYRTEFM--TLLAQNQCIVLVGETGSGKT 91
PVF + L N CI G+TGSGKT
Sbjct: 7 PVFRDVGPLLQSALDGYNVCIFAYGQTGSGKT 38
>gnl|CDD|238835 cd01672, TMPK, Thymidine monophosphate kinase (TMPK), also known as
thymidylate kinase, catalyzes the phosphorylation of
thymidine monophosphate (TMP) to thymidine diphosphate
(TDP) utilizing ATP as its preferred phophoryl donor.
TMPK represents the rate-limiting step in either de novo
or salvage biosynthesis of thymidine triphosphate (TTP).
Length = 200
Score = 30.3 bits (69), Expect = 0.79
Identities = 13/36 (36%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 80 IVLVGETGSGKTTQIPQWCVEYSKSVGAKAVACTQP 115
IV G G+GKTT I + E ++ G + V +P
Sbjct: 3 IVFEGIDGAGKTTLI-ELLAERLEARGYEVVLTREP 37
>gnl|CDD|239389 cd03115, SRP, The signal recognition particle (SRP) mediates the
transport to or across the plasma membrane in bacteria
and the endoplasmic reticulum in eukaryotes. SRP
recognizes N-terminal sighnal sequences of newly
synthesized polypeptides at the ribosome. The
SRP-polypeptide complex is then targeted to the membrane
by an interaction between SRP and its cognated receptor
(SR). In mammals, SRP consists of six protein subunits
and a 7SL RNA. One of these subunits is a 54 kd protein
(SRP54), which is a GTP-binding protein that interacts
with the signal sequence when it emerges from the
ribosome. SRP54 is a multidomain protein that consists
of an N-terminal domain, followed by a central G
(GTPase) domain and a C-terminal M domain.
Length = 173
Score = 30.2 bits (69), Expect = 0.80
Identities = 42/158 (26%), Positives = 68/158 (43%), Gaps = 30/158 (18%)
Query: 80 IVLVGETGSGKTTQIPQ---WCVEYSKSVGAKAVAC-TQPRRVAAMSVAQRVSEEMDCQL 135
I+LVG G GKTT + + + K V VA T R AA+ + L
Sbjct: 3 ILLVGLQGVGKTTTAAKLALYLKKKGKKVL--LVAADTY--RPAAIEQLR--------VL 50
Query: 136 GQEVGYSIRFEDCSSPKTVLKYMTDGMLLREGMSDPMLENYQVILLDEAHERTLATD-IL 194
G++VG + FE+ V + + + EN+ V+++D A L D L
Sbjct: 51 GEQVGVPV-FEEGEGKDPV-------SIAKRAIEHAREENFDVVIVDTAGR--LQIDENL 100
Query: 195 MGVLKEVIKQ-RADLKLVIMSATL--DAGKFQQYFDNA 229
M LK++ + + D L+++ A DA + F+ A
Sbjct: 101 MEELKKIKRVVKPDEVLLVVDAMTGQDAVNQAKAFNEA 138
>gnl|CDD|237182 PRK12727, PRK12727, flagellar biosynthesis regulator FlhF;
Provisional.
Length = 559
Score = 30.7 bits (69), Expect = 0.94
Identities = 24/73 (32%), Positives = 34/73 (46%), Gaps = 5/73 (6%)
Query: 53 ELHRKR-ITLPVFEYRTEFMTL--LAQNQCIVLVGETGSGKTTQIPQWCVEYSKSVGAKA 109
ELHR R + L + R + L + I LVG TG+GKTT I + ++ +
Sbjct: 323 ELHRGRGLMLGLLSKRLPVAPVDPLERGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRD 382
Query: 110 VA--CTQPRRVAA 120
VA T +RV
Sbjct: 383 VALVTTDTQRVGG 395
>gnl|CDD|238680 cd01384, MYSc_type_XI, Myosin motor domain, plant-specific type XI
myosin, involved in organelle transport. 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 = 30.8 bits (70), Expect = 0.98
Identities = 21/64 (32%), Positives = 29/64 (45%), Gaps = 13/64 (20%)
Query: 39 VNPFTGYP--YTPRYHELHRKRI--TLP--VFE-----YRTEFMTLLAQNQCIVLVGETG 87
VNPF P Y E ++ L VF YR M ++Q I++ GE+G
Sbjct: 41 VNPFQRLPHLYDVHMMEQYKGAALGELSPHVFAIADAAYRA--MINEGKSQSILVSGESG 98
Query: 88 SGKT 91
+GKT
Sbjct: 99 AGKT 102
>gnl|CDD|222160 pfam13476, AAA_23, AAA domain.
Length = 204
Score = 30.2 bits (68), Expect = 1.0
Identities = 7/13 (53%), Positives = 9/13 (69%)
Query: 80 IVLVGETGSGKTT 92
++ G GSGKTT
Sbjct: 22 TLIYGPNGSGKTT 34
>gnl|CDD|184214 PRK13657, PRK13657, cyclic beta-1,2-glucan ABC transporter;
Provisional.
Length = 588
Score = 30.7 bits (70), Expect = 1.1
Identities = 9/17 (52%), Positives = 13/17 (76%)
Query: 78 QCIVLVGETGSGKTTQI 94
Q + +VG TG+GK+T I
Sbjct: 362 QTVAIVGPTGAGKSTLI 378
>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 = 30.5 bits (69), Expect = 1.1
Identities = 35/168 (20%), Positives = 60/168 (35%), Gaps = 32/168 (19%)
Query: 79 CIVLVGETGSGKTTQIPQWCVEYSKSVGAKAVACTQPRRVAAMSVAQRVSEEMDCQLGQE 138
+V+ TG GKT W + KS A V P R ++ +R E LG
Sbjct: 1 LLVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKELFGSNLGLL 60
Query: 139 VGYS--IRFEDCSSPKTVLK-----YMTDGMLLREGMS-----------DPMLENYQ--- 177
S R ++ + ++ L + ++ +Y+
Sbjct: 61 HSSSSFKRIKEMGDSEEFEHLFPLYIHSNDKLFLDPITVCTIDQVLKSVFGEFGHYEFTL 120
Query: 178 ------VILLDEAHERTLATDILMGVLK--EVIKQRADLKLVIMSATL 217
+++ DE H L +L EV+K D+ +++MSATL
Sbjct: 121 ASIANSLLIFDEVH--FYDEYTLALILAVLEVLK-DNDVPILLMSATL 165
>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 = 29.8 bits (67), Expect = 1.1
Identities = 25/108 (23%), Positives = 34/108 (31%), Gaps = 18/108 (16%)
Query: 80 IVLVGETGSGKTT---QIPQWCVEYSKSVGAKAVACTQPRRVAAMSVAQRVSEEMDCQLG 136
I++ G TGSGKTT Q+ V V + + +R+ E G
Sbjct: 2 ILVFGPTGSGKTTLALQLALNIATKGGKVV--YVDIEEEIE----ELTERLIGESL--KG 53
Query: 137 QEVGYSIRFEDCSSPKTVLKYMTDGMLLREGMSDPMLENYQVILLDEA 184
I F P L G D +I+LDE
Sbjct: 54 ALDNLIIVFATADDPAAARLLSKAERLRERGGDD-------LIILDEL 94
>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 = 1.1
Identities = 8/19 (42%), Positives = 14/19 (73%)
Query: 74 LAQNQCIVLVGETGSGKTT 92
+ + + + LVGE+G GK+T
Sbjct: 36 IKEGETLGLVGESGCGKST 54
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 30.7 bits (69), Expect = 1.2
Identities = 12/34 (35%), Positives = 18/34 (52%)
Query: 77 NQCIVLVGETGSGKTTQIPQWCVEYSKSVGAKAV 110
N+ +LVGETG+GKTT I ++ +
Sbjct: 464 NEPTLLVGETGTGKTTMIQYLALKLHFKLTVINK 497
>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 = 29.5 bits (67), Expect = 1.2
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 74 LAQNQCIVLVGETGSGKTT 92
L + + LVG GSGK+T
Sbjct: 22 LKAGEIVALVGPNGSGKST 40
>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 = 30.0 bits (68), Expect = 1.3
Identities = 12/26 (46%), Positives = 17/26 (65%), Gaps = 1/26 (3%)
Query: 68 TEFMTLLAQN-QCIVLVGETGSGKTT 92
EF+ L + + I++ G TGSGKTT
Sbjct: 134 KEFLRLAIASRKNIIISGGTGSGKTT 159
>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 = 29.9 bits (68), Expect = 1.3
Identities = 8/19 (42%), Positives = 15/19 (78%)
Query: 74 LAQNQCIVLVGETGSGKTT 92
+ + + + +VGE+GSGK+T
Sbjct: 30 IERGETLGIVGESGSGKST 48
>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 = 30.2 bits (69), Expect = 1.3
Identities = 8/19 (42%), Positives = 14/19 (73%)
Query: 74 LAQNQCIVLVGETGSGKTT 92
L + + + +VGE+GSGK+
Sbjct: 28 LKKGEILGIVGESGSGKSV 46
>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 = 30.1 bits (68), Expect = 1.6
Identities = 14/44 (31%), Positives = 23/44 (52%), Gaps = 5/44 (11%)
Query: 176 YQVILLDEAHERTLATDILMGVLK--EVIKQRADLKLVIMSATL 217
+++ DE H L +L EV+K D+ +++MSATL
Sbjct: 124 NSLLIFDEVH--FYDEYTLALILAVLEVLK-DNDVPILLMSATL 164
>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 = 30.2 bits (68), Expect = 1.6
Identities = 23/76 (30%), Positives = 37/76 (48%), Gaps = 7/76 (9%)
Query: 37 LQVNPFTGYP-YTPRYHELHRKRI-----TLPVFEYRTEFMTLLAQNQCIVLVGETGSGK 90
+ VNPF P Y Y E +RK+ + + M NQ I++ GE+G+GK
Sbjct: 46 VAVNPFKEVPLYGNDYIEAYRKKSNDSPHVYAIADTAYNEMMRDEVNQSIIISGESGAGK 105
Query: 91 TTQIPQWCVEYSKSVG 106
T+ + ++Y S+G
Sbjct: 106 -TETAKIAMQYLASLG 120
>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 = 29.7 bits (67), Expect = 1.6
Identities = 10/34 (29%), Positives = 14/34 (41%), Gaps = 4/34 (11%)
Query: 77 NQCIVLVGETGSGKTT----QIPQWCVEYSKSVG 106
+ I+L TG GKTT ++ VG
Sbjct: 30 GELIILTAGTGVGKTTFLREYALDLITQHGVRVG 63
>gnl|CDD|184210 PRK13651, PRK13651, cobalt transporter ATP-binding subunit;
Provisional.
Length = 305
Score = 29.7 bits (67), Expect = 1.8
Identities = 11/19 (57%), Positives = 15/19 (78%)
Query: 76 QNQCIVLVGETGSGKTTQI 94
Q + I ++G+TGSGKTT I
Sbjct: 32 QGEFIAIIGQTGSGKTTFI 50
>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 = 29.5 bits (67), Expect = 1.9
Identities = 13/25 (52%), Positives = 16/25 (64%), Gaps = 1/25 (4%)
Query: 69 EFMTLLAQNQCIVLV-GETGSGKTT 92
EF+ Q + +LV G TGSGKTT
Sbjct: 120 EFLRQAVQARGNILVSGGTGSGKTT 144
>gnl|CDD|214609 smart00311, PWI, PWI, domain in splicing factors.
Length = 74
Score = 27.7 bits (62), Expect = 2.0
Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 1 MSKRRLDVIDPYITKKNREERLATVNASVSTSIASNLQVN 40
+SK +LD I P+ITKK E L ++ I S ++ +
Sbjct: 1 LSKLKLDEIKPWITKKVI-EFLGFEEDTLVEFILSQIRQH 39
>gnl|CDD|226359 COG3839, MalK, ABC-type sugar transport systems, ATPase
components [Carbohydrate transport and metabolism].
Length = 338
Score = 29.5 bits (67), Expect = 2.0
Identities = 7/19 (36%), Positives = 13/19 (68%)
Query: 74 LAQNQCIVLVGETGSGKTT 92
+ + +VL+G +G GK+T
Sbjct: 26 IEDGEFVVLLGPSGCGKST 44
>gnl|CDD|223873 COG0802, COG0802, Predicted ATPase or kinase [General function
prediction only].
Length = 149
Score = 28.8 bits (65), Expect = 2.0
Identities = 8/25 (32%), Positives = 12/25 (48%)
Query: 68 TEFMTLLAQNQCIVLVGETGSGKTT 92
L ++L G+ G+GKTT
Sbjct: 16 ERLAEALKAGDVVLLSGDLGAGKTT 40
>gnl|CDD|131817 TIGR02770, nickel_nikD, nickel import ATP-binding protein NikD.
This family represents the NikD subunit of a
multisubunit nickel import ABC transporter complex.
Nickel, once imported, may be used in urease and in
certain classes of hydrogenase and superoxide
dismutase. NikD and NikE are homologous [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 230
Score = 29.3 bits (66), Expect = 2.2
Identities = 9/19 (47%), Positives = 14/19 (73%)
Query: 74 LAQNQCIVLVGETGSGKTT 92
L + + + LVGE+GSGK+
Sbjct: 9 LKRGEVLALVGESGSGKSL 27
>gnl|CDD|237802 PRK14723, flhF, flagellar biosynthesis regulator FlhF; Provisional.
Length = 767
Score = 29.8 bits (67), Expect = 2.2
Identities = 19/52 (36%), Positives = 22/52 (42%), Gaps = 3/52 (5%)
Query: 60 TLPVFEYRTEFMTLLAQNQCIVLVGETGSGKTTQIPQWCVEYSKSVGAKAVA 111
LPV LLAQ + LVG TG GKTT + GA +A
Sbjct: 171 HLPVLRDEDA---LLAQGGVLALVGPTGVGKTTTTAKLAARCVAREGADQLA 219
>gnl|CDD|179118 PRK00771, PRK00771, signal recognition particle protein Srp54;
Provisional.
Length = 437
Score = 29.4 bits (67), Expect = 2.4
Identities = 41/157 (26%), Positives = 68/157 (43%), Gaps = 26/157 (16%)
Query: 78 QCIVLVGETGSGKTTQIPQWCVEYSKSVGAK-AVACTQPRRVAAMSVAQRVSEEMDCQLG 136
Q I+LVG GSGKTT + + K G K + R AA + QL
Sbjct: 96 QTIMLVGLQGSGKTTTAAKLARYFKKK-GLKVGLVAADTYRPAAYDQLK--------QLA 146
Query: 137 QEVGYSIRFEDCSSPKTVLKYMTDGMLLREGMSDPMLENYQVILLDEAHERTLATDIL-- 194
+++G + D + K ++ + +EG+ + VI++D A L D++
Sbjct: 147 EKIGVPF-YGDPDN-KDAVE------IAKEGLEK--FKKADVIIVDTAGRHALEEDLIEE 196
Query: 195 MGVLKEVIKQRADLKLVIMSATL--DAGKFQQYFDNA 229
M +KE +K D L+++ AT+ A + F A
Sbjct: 197 MKEIKEAVK--PDEVLLVIDATIGQQAKNQAKAFHEA 231
>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 = 29.1 bits (66), Expect = 2.4
Identities = 9/16 (56%), Positives = 13/16 (81%)
Query: 79 CIVLVGETGSGKTTQI 94
I++VGE+G GK+T I
Sbjct: 6 NIMVVGESGLGKSTFI 21
>gnl|CDD|238678 cd01382, MYSc_type_VI, Myosin motor domain, type VI myosins. Myosin
VI is a monomeric myosin, which moves towards the
minus-end of actin filaments, in contrast to most other
myosins. It has been implicated in endocytosis,
secretion, and cell migration. 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
minus 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 = 717
Score = 29.4 bits (66), Expect = 2.5
Identities = 26/83 (31%), Positives = 42/83 (50%), Gaps = 14/83 (16%)
Query: 21 RLATVNASVSTSIASNL-QVNPFTGYP--YTPRYHELHRKRI--TLP--VF-----EYRT 68
R+ + T +A+ L VNP+ P Y+ + ++ + TLP VF YR
Sbjct: 25 RVRYSKDKIYTYVANILIAVNPYFDIPKLYSSDTIKKYQGKSLGTLPPHVFAIADKAYRD 84
Query: 69 EFMTLLAQNQCIVLVGETGSGKT 91
M +L +Q I++ GE+G+GKT
Sbjct: 85 --MKVLKMSQSIIVSGESGAGKT 105
>gnl|CDD|213221 cd03254, ABCC_Glucan_exporter_like, ATP-binding cassette domain
of glucan transporter and related proteins, subfamily
C. Glucan exporter ATP-binding protein. In A.
tumefaciens cyclic beta-1, 2-glucan must be transported
into the periplasmic space to exert its action as a
virulence factor. This subfamily belongs to the
MRP-like family and is involved in drug, peptide, and
lipid export. 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 = 229
Score = 29.1 bits (66), Expect = 2.6
Identities = 9/15 (60%), Positives = 12/15 (80%)
Query: 80 IVLVGETGSGKTTQI 94
+ +VG TG+GKTT I
Sbjct: 32 VAIVGPTGAGKTTLI 46
>gnl|CDD|181414 PRK08410, PRK08410, 2-hydroxyacid dehydrogenase; Provisional.
Length = 311
Score = 29.2 bits (66), Expect = 2.9
Identities = 15/48 (31%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 173 LENYQVILLDEAHERTLATDILMG---VL-KEVIKQRADLKLVIMSAT 216
+ Y +E ER +I++ V+ KEV+ Q +LKL+ ++AT
Sbjct: 25 FQIYPTTSPEEVIERIKDANIIITNKVVIDKEVLSQLPNLKLICITAT 72
>gnl|CDD|224048 COG1123, COG1123, ATPase components of various ABC-type transport
systems, contain duplicated ATPase [General function
prediction only].
Length = 539
Score = 29.1 bits (66), Expect = 2.9
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 74 LAQNQCIVLVGETGSGKTT 92
L + + + LVGE+GSGK+T
Sbjct: 314 LREGETLGLVGESGSGKST 332
Score = 27.9 bits (63), Expect = 8.0
Identities = 8/11 (72%), Positives = 11/11 (100%)
Query: 82 LVGETGSGKTT 92
+VGE+GSGK+T
Sbjct: 40 IVGESGSGKST 50
>gnl|CDD|237421 PRK13539, PRK13539, cytochrome c biogenesis protein CcmA;
Provisional.
Length = 207
Score = 28.7 bits (65), Expect = 3.0
Identities = 11/19 (57%), Positives = 13/19 (68%)
Query: 74 LAQNQCIVLVGETGSGKTT 92
LA + +VL G GSGKTT
Sbjct: 25 LAAGEALVLTGPNGSGKTT 43
>gnl|CDD|225364 COG2805, PilT, Tfp pilus assembly protein, pilus retraction ATPase
PilT [Cell motility and secretion / Intracellular
trafficking and secretion].
Length = 353
Score = 29.2 bits (66), Expect = 3.1
Identities = 10/24 (41%), Positives = 14/24 (58%), Gaps = 1/24 (4%)
Query: 70 FMTLLAQNQCIVLV-GETGSGKTT 92
L + ++LV G TGSGK+T
Sbjct: 117 VRELAESPRGLILVTGPTGSGKST 140
>gnl|CDD|235422 PRK05342, clpX, ATP-dependent protease ATP-binding subunit ClpX;
Provisional.
Length = 412
Score = 29.0 bits (66), Expect = 3.2
Identities = 9/12 (75%), Positives = 11/12 (91%)
Query: 80 IVLVGETGSGKT 91
I+L+G TGSGKT
Sbjct: 111 ILLIGPTGSGKT 122
>gnl|CDD|130492 TIGR01425, SRP54_euk, signal recognition particle protein SRP54.
This model represents examples from the eukaryotic
cytosol of the signal recognition particle protein
component, SRP54. This GTP-binding protein is a
component of the eukaryotic signal recognition particle,
along with several other protein subunits and a 7S RNA.
Some species, including Arabidopsis, have several
closely related forms. The extreme C-terminal region is
glycine-rich and lower in complexity, poorly conserved
between species, and excluded from this model.
Length = 429
Score = 29.0 bits (65), Expect = 3.3
Identities = 20/73 (27%), Positives = 27/73 (36%), Gaps = 8/73 (10%)
Query: 56 RKRITLPVFEY-------RTEFMTLLAQNQCIVL-VGETGSGKTTQIPQWCVEYSKSVGA 107
RK I VF+ E T Q +++ VG GSGKTT + Y +
Sbjct: 71 RKMIQHAVFKELCNLVDPGVEAFTPKKGKQNVIMFVGLQGSGKTTTCTKLAYYYQRKGFK 130
Query: 108 KAVACTQPRRVAA 120
+ C R A
Sbjct: 131 PCLVCADTFRAGA 143
>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 = 3.3
Identities = 8/15 (53%), Positives = 11/15 (73%)
Query: 80 IVLVGETGSGKTTQI 94
I++ G T SGKTT +
Sbjct: 146 IIICGGTASGKTTLL 160
>gnl|CDD|236870 PRK11174, PRK11174, cysteine/glutathione ABC transporter
membrane/ATP-binding component; Reviewed.
Length = 588
Score = 29.0 bits (66), Expect = 3.4
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 74 LAQNQCIVLVGETGSGKTT 92
L Q I LVG +G+GKT+
Sbjct: 373 LPAGQRIALVGPSGAGKTS 391
>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 = 28.8 bits (65), Expect = 3.4
Identities = 14/24 (58%), Positives = 16/24 (66%), Gaps = 1/24 (4%)
Query: 70 FMTLLAQNQCIVLV-GETGSGKTT 92
F LL + I+LV G TGSGKTT
Sbjct: 72 FRKLLEKPHGIILVTGPTGSGKTT 95
>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 = 28.9 bits (65), Expect = 3.7
Identities = 18/62 (29%), Positives = 30/62 (48%), Gaps = 7/62 (11%)
Query: 79 CIVLVGETGSGKTTQIPQWCVEYSKSVGAKAVACTQPRRVAAMSVAQRVSEEMDCQLGQE 138
C+VL G GSGKT I ++ G K R +AA++ + + EM ++ +
Sbjct: 17 CLVLAG-AGSGKTRVITNKIAYLIQNCGYK------ARNIAAVTFTNKAAREMKERVAKT 69
Query: 139 VG 140
+G
Sbjct: 70 LG 71
>gnl|CDD|213230 cd03263, ABC_subfamily_A, ATP-binding cassette domain of the
lipid transporters, subfamily A. The ABCA subfamily
mediates the transport of a variety of lipid compounds.
Mutations of members of ABCA subfamily are associated
with human genetic diseases, such as, familial
high-density lipoprotein (HDL) deficiency, neonatal
surfactant deficiency, degenerative retinopathies, and
congenital keratinization disorders. The ABCA1 protein
is involved in disorders of cholesterol transport and
high-density lipoprotein (HDL) biosynthesis. The ABCA4
(ABCR) protein transports vitamin A derivatives in the
outer segments of photoreceptor cells, and therefore,
performs a crucial step in the visual cycle. The ABCA
genes are not present in yeast. However, evolutionary
studies of ABCA genes indicate that they arose as
transporters that subsequently duplicated and that
certain sets of ABCA genes were lost in different
eukaryotic lineages.
Length = 220
Score = 28.2 bits (64), Expect = 4.2
Identities = 9/36 (25%), Positives = 16/36 (44%), Gaps = 11/36 (30%)
Query: 57 KRITLPVFEYRTEFMTLLAQNQCIVLVGETGSGKTT 92
++L V++ + L+G G+GKTT
Sbjct: 19 DDLSLNVYK-----------GEIFGLLGHNGAGKTT 43
>gnl|CDD|236694 PRK10436, PRK10436, hypothetical protein; Provisional.
Length = 462
Score = 28.7 bits (65), Expect = 4.2
Identities = 13/25 (52%), Positives = 16/25 (64%), Gaps = 1/25 (4%)
Query: 68 TEFMTLLAQNQCIVLV-GETGSGKT 91
+F L Q Q ++LV G TGSGKT
Sbjct: 208 AQFRQALQQPQGLILVTGPTGSGKT 232
>gnl|CDD|219517 pfam07691, PA14, PA14 domain. This domain forms an insert in
bacterial beta-glucosidases and is found in other
glycosidases, glycosyltransferases, proteases, amidases,
yeast adhesins, and bacterial toxins, including anthrax
protective antigen (PA). The domain also occurs in a
Dictyostelium prespore-cell-inducing factor Psi and in
fibrocystin, the mammalian protein whose mutation leads
to polycystic kidney and hepatic disease. The crystal
structure of PA shows that this domain (named PA14 after
its location in the PA20 pro-peptide) has a beta-barrel
structure. The PA14 domain sequence suggests a binding
function, rather than a catalytic role. The PA14 domain
distribution is compatible with carbohydrate binding.
Length = 140
Score = 27.8 bits (62), Expect = 4.6
Identities = 18/68 (26%), Positives = 29/68 (42%), Gaps = 7/68 (10%)
Query: 209 KLVIMSATLDAGKFQQYFDNAPLMNVPGRTHPVEIFYTPEPPLGAGPWLPQC-FTRPNEA 267
+LVI + + ++ L + G T+P+ I Y G G L +T P+ A
Sbjct: 79 QLVIDNWGVHPAPPS---TSSTLYLLAGGTYPIRIEYF---EAGGGGSLISLSWTSPDGA 132
Query: 268 KKAADDAK 275
K+A D
Sbjct: 133 KEAIDQEV 140
>gnl|CDD|178512 PLN02924, PLN02924, thymidylate kinase.
Length = 220
Score = 28.2 bits (63), Expect = 4.6
Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 80 IVLVGETGSGKTTQIPQWCVEYSKSVGAKAVACTQPRRVAAM 121
IVL G SGK+TQ + V + K +G A P R ++
Sbjct: 19 IVLEGLDRSGKSTQCAK-LVSFLKGLGVAAELWRFPDRTTSV 59
>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 = 28.5 bits (64), Expect = 4.6
Identities = 13/24 (54%), Positives = 16/24 (66%), Gaps = 1/24 (4%)
Query: 70 FMTLLAQNQCIVLV-GETGSGKTT 92
F L+ + I+LV G TGSGKTT
Sbjct: 234 FERLIRRPHGIILVTGPTGSGKTT 257
>gnl|CDD|235570 PRK05703, flhF, flagellar biosynthesis regulator FlhF; Validated.
Length = 424
Score = 28.3 bits (64), Expect = 4.9
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 73 LLAQNQCIVLVGETGSGKTTQI 94
+L Q + LVG TG GKTT +
Sbjct: 217 ILKQGGVVALVGPTGVGKTTTL 238
>gnl|CDD|218100 pfam04466, Terminase_3, Phage terminase large subunit. Initiation
of packaging of double-stranded viral DNA involves the
specific interaction of the prohead with viral DNA in a
process mediated by a phage-encoded terminase protein.
The terminase enzymes are usually hetero-oligomers
composed of a small and a large subunit. This region is
found on the large subunit and possess an endonuclease
and ATPase activity that require Mg2+ and a neutral or
slightly basic reaction. This region is also found in
bacterial sequences.
Length = 387
Score = 28.5 bits (64), Expect = 5.2
Identities = 24/111 (21%), Positives = 39/111 (35%), Gaps = 9/111 (8%)
Query: 80 IVLVGETGSGKTTQIPQWCVEYSKSVGAKAVACTQPRRVAAMSVAQRVSEEMDCQLGQEV 139
V G GSGK+ I V + + R V ++ V ++ L
Sbjct: 5 KVAKGGRGSGKSYHIALKLVL-KLLMHPRTNLVI--REVKN-TIEDSVFTQLQEALSML- 59
Query: 140 GYSIRFEDCSSPKTVLKYMTDGMLLREGMSDPM----LENYQVILLDEAHE 186
G F+ SP + + L GM DP +++ ++EA E
Sbjct: 60 GLDHEFKISKSPIEITVKINGSKFLFYGMDDPAKIKSIKDVSDAWIEEAAE 110
>gnl|CDD|218745 pfam05783, DLIC, Dynein light intermediate chain (DLIC). This
family consists of several eukaryotic dynein light
intermediate chain proteins. The light intermediate
chains (LICs) of cytoplasmic dynein consist of multiple
isoforms, which undergo post-translational modification
to produce a large number of species. DLIC1 is known to
be involved in assembly, organisation, and function of
centrosomes and mitotic spindles when bound to
pericentrin. DLIC2 is a subunit of cytoplasmic dynein 2
that may play a role in maintaining Golgi organisation
by binding cytoplasmic dynein 2 to its Golgi-associated
cargo.
Length = 490
Score = 28.3 bits (63), Expect = 5.2
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 65 EYRTEFMTLLAQNQCIVLVGETGSGKTTQI 94
E T + L + ++++GE GSGKTT I
Sbjct: 33 EVSTRSRSKLPSGKNVLVLGEDGSGKTTLI 62
>gnl|CDD|234654 PRK00131, aroK, shikimate kinase; Reviewed.
Length = 175
Score = 27.8 bits (63), Expect = 5.4
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 79 CIVLVGETGSGKTT 92
IVL+G G+GK+T
Sbjct: 6 NIVLIGFMGAGKST 19
>gnl|CDD|222000 pfam13238, AAA_18, AAA domain.
Length = 128
Score = 27.4 bits (61), Expect = 5.4
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 80 IVLVGETGSGKTT 92
I++ G GSGKTT
Sbjct: 1 ILITGTPGSGKTT 13
>gnl|CDD|225183 COG2274, SunT, ABC-type bacteriocin/lantibiotic exporters, contain
an N-terminal double-glycine peptidase domain [Defense
mechanisms].
Length = 709
Score = 28.3 bits (64), Expect = 5.5
Identities = 10/36 (27%), Positives = 17/36 (47%), Gaps = 7/36 (19%)
Query: 64 FEYRTEFMTLLA-------QNQCIVLVGETGSGKTT 92
F Y + +L + + +VG +GSGK+T
Sbjct: 479 FRYGPDDPPVLEDLSLEIPPGEKVAIVGRSGSGKST 514
>gnl|CDD|182569 PRK10584, PRK10584, putative ABC transporter ATP-binding protein
YbbA; Provisional.
Length = 228
Score = 27.8 bits (62), Expect = 5.5
Identities = 9/15 (60%), Positives = 13/15 (86%)
Query: 78 QCIVLVGETGSGKTT 92
+ I L+GE+GSGK+T
Sbjct: 37 ETIALIGESGSGKST 51
>gnl|CDD|218199 pfam04665, Pox_A32, Poxvirus A32 protein. The A32 protein is
thought to be involved in viral DNA packaging.
Length = 241
Score = 28.1 bits (63), Expect = 5.7
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 65 EYRTEFMTLLAQNQCIVLVGETGSGKTT 92
E R + +LLA + +VG +GSGKTT
Sbjct: 1 EKRFDRDSLLAAPFRMAIVGGSGSGKTT 28
>gnl|CDD|206733 cd04170, EF-G_bact, Elongation factor G (EF-G) family.
Translocation is mediated by EF-G (also called
translocase). The structure of EF-G closely resembles
that of the complex between EF-Tu and tRNA. This is an
example of molecular mimicry; a protein domain evolved
so that it mimics the shape of a tRNA molecule. EF-G in
the GTP form binds to the ribosome, primarily through
the interaction of its EF-Tu-like domain with the 50S
subunit. The binding of EF-G to the ribosome in this
manner stimulates the GTPase activity of EF-G. On GTP
hydrolysis, EF-G undergoes a conformational change that
forces its arm deeper into the A site on the 30S
subunit. To accommodate this domain, the peptidyl-tRNA
in the A site moves to the P site, carrying the mRNA
and the deacylated tRNA with it. The ribosome may be
prepared for these rearrangements by the initial
binding of EF-G as well. The dissociation of EF-G
leaves the ribosome ready to accept the next
aminoacyl-tRNA into the A site. This group contains
only bacterial members.
Length = 268
Score = 27.9 bits (63), Expect = 5.9
Identities = 10/14 (71%), Positives = 11/14 (78%)
Query: 79 CIVLVGETGSGKTT 92
I LVG +GSGKTT
Sbjct: 1 NIALVGHSGSGKTT 14
>gnl|CDD|206651 cd01852, AIG1, AvrRpt2-Induced Gene 1 (AIG1). This group
represents Arabidoposis protein AIG1 (avrRpt2-induced
gene 1) that appears to be involved in plant resistance
to bacteria. The Arabidopsis disease resistance gene
RPS2 is involved in recognition of bacterial pathogens
carrying the avirulence gene avrRpt2. AIG1 exhibits
RPS2- and avrRpt1-dependent induction early after
infection with Pseudomonas syringae carrying avrRpt2.
This subfamily also includes IAN-4 protein, which has
GTP-binding activity and shares sequence homology with
a novel family of putative GTP-binding proteins: the
immuno-associated nucleotide (IAN) family. The
evolutionary conservation of the IAN family provides a
unique example of a plant pathogen response gene
conserved in animals. The IAN/IMAP subfamily has been
proposed to regulate apoptosis in vertebrates and
angiosperm plants, particularly in relation to cancer,
diabetes, and infections. The human IAN genes were
renamed GIMAP (GTPase of the immunity associated
proteins).
Length = 201
Score = 27.5 bits (62), Expect = 6.2
Identities = 8/13 (61%), Positives = 12/13 (92%)
Query: 80 IVLVGETGSGKTT 92
+VLVG+TG+GK+
Sbjct: 3 LVLVGKTGNGKSA 15
>gnl|CDD|224050 COG1125, OpuBA, ABC-type proline/glycine betaine transport
systems, ATPase components [Amino acid transport and
metabolism].
Length = 309
Score = 28.0 bits (63), Expect = 6.3
Identities = 9/13 (69%), Positives = 12/13 (92%)
Query: 80 IVLVGETGSGKTT 92
+VL+G +GSGKTT
Sbjct: 30 LVLIGPSGSGKTT 42
>gnl|CDD|237481 PRK13723, PRK13723, conjugal transfer pilus assembly protein TraH;
Provisional.
Length = 451
Score = 28.2 bits (63), Expect = 6.5
Identities = 15/51 (29%), Positives = 28/51 (54%), Gaps = 11/51 (21%)
Query: 154 VLKYMTDGMLLREGMSDPMLENYQVILLDEAHERTLATDILMGVLKEVIKQ 204
V KY+ D +L G+S+ ++ YQ+ + DIL+ ++E+I+Q
Sbjct: 339 VFKYLVDPQML--GVSNSLI--YQL-------TDYIGYDILLQYIQELIQQ 378
>gnl|CDD|218719 pfam05729, NACHT, NACHT domain. This NTPase domain is found in
apoptosis proteins as well as those involved in MHC
transcription activation. This family is closely
related to pfam00931.
Length = 165
Score = 27.3 bits (61), Expect = 6.6
Identities = 9/13 (69%), Positives = 11/13 (84%)
Query: 80 IVLVGETGSGKTT 92
++L GE GSGKTT
Sbjct: 3 VILQGEAGSGKTT 15
>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 = 28.3 bits (63), Expect = 6.6
Identities = 11/27 (40%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 66 YRTEFMTLLAQNQCIVLVGETGSGKTT 92
YR T ++Q I+ +G +G+GKTT
Sbjct: 77 YRALLET--RRDQSIIFLGRSGAGKTT 101
>gnl|CDD|227321 COG4988, CydD, ABC-type transport system involved in cytochrome bd
biosynthesis, ATPase and permease components [Energy
production and conversion / Posttranslational
modification, protein turnover, chaperones].
Length = 559
Score = 28.0 bits (63), Expect = 7.2
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 74 LAQNQCIVLVGETGSGKTT 92
+ Q LVG +G+GK+T
Sbjct: 344 IKAGQLTALVGASGAGKST 362
>gnl|CDD|130569 TIGR01505, tartro_sem_red, 2-hydroxy-3-oxopropionate reductase.
This model represents 2-hydroxy-3-oxopropionate
reductase (EC 1.1.1.60), also called tartronate
semialdehyde reductase. It follows glyoxylate
carboligase and precedes glycerate kinase in D-glycerate
pathway of glyoxylate degradation. The eventual product,
3-phosphoglycerate, is an intermediate of glycolysis and
is readily metabolized. Tartronic semialdehyde, the
substrate of this enzyme, may also come from other
pathways, such as D-glucarate catabolism.
Length = 291
Score = 27.9 bits (62), Expect = 7.3
Identities = 12/32 (37%), Positives = 17/32 (53%), Gaps = 2/32 (6%)
Query: 63 VFEYRTEFMTLLAQNQCIVLVGETGSGKTTQI 94
VF+ L +N IVLVG G G+T ++
Sbjct: 141 VFDRVKPLFEALGKN--IVLVGGNGDGQTCKV 170
>gnl|CDD|234132 TIGR03167, tRNA_sel_U_synt, tRNA 2-selenouridine synthase. The
Escherichia coli YbbB protein was shown to encode a
selenophosphate-dependent tRNA 2-selenouridine synthase,
essential for modification of some tRNAs to replace a
sulfur atom with selenium. This enzyme works with SelD,
the selenium donor protein, which also acts in
selenocysteine incorporation. Although the members of
this protein family show a fairly deep split, sequences
from both sides of the split are supported by
co-occurence with, and often proximity to, the selD gene
[Protein synthesis, tRNA and rRNA base modification].
Length = 311
Score = 27.9 bits (63), Expect = 7.4
Identities = 13/30 (43%), Positives = 14/30 (46%), Gaps = 4/30 (13%)
Query: 66 YRT----EFMTLLAQNQCIVLVGETGSGKT 91
YR + L IVL G TGSGKT
Sbjct: 112 YRRFVIDQLEELPQPFPLIVLGGMTGSGKT 141
>gnl|CDD|131377 TIGR02324, CP_lyasePhnL, phosphonate C-P lyase system protein
PhnL. Members of this family are the PhnL 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 C-P lysase complex. This protein
(PhnL) and the adjacent-encoded PhnK (TIGR02323)
resemble transporter ATP-binding proteins but are
suggested, based on mutatgenesis studies, to be part of
this C-P lyase complex rather than part of a
transporter per se.
Length = 224
Score = 27.7 bits (62), Expect = 7.5
Identities = 12/40 (30%), Positives = 22/40 (55%), Gaps = 4/40 (10%)
Query: 54 LHRKR-ITLPVFEYRTEFMTLLAQNQCIVLVGETGSGKTT 92
LH++ + LPV + + +C+ L G +G+GK+T
Sbjct: 13 LHQQGGVRLPVLK-NVSLT--VNAGECVALSGPSGAGKST 49
>gnl|CDD|224059 COG1136, SalX, ABC-type antimicrobial peptide transport system,
ATPase component [Defense mechanisms].
Length = 226
Score = 27.5 bits (62), Expect = 7.9
Identities = 7/13 (53%), Positives = 11/13 (84%)
Query: 80 IVLVGETGSGKTT 92
+ +VG +GSGK+T
Sbjct: 34 VAIVGPSGSGKST 46
>gnl|CDD|213207 cd03240, ABC_Rad50, ATP-binding cassette domain of Rad50. The
catalytic domains of Rad50 are similar to the
ATP-binding cassette of ABC transporters, but are not
associated with membrane-spanning domains. The conserved
ATP-binding motifs common to Rad50 and the ABC
transporter family include the Walker A and Walker B
motifs, the Q loop, a histidine residue in the switch
region, a D-loop, and a conserved LSGG sequence. This
conserved sequence, LSGG, is the most specific and
characteristic motif of this family and is thus known as
the ABC signature sequence.
Length = 204
Score = 27.6 bits (62), Expect = 7.9
Identities = 12/34 (35%), Positives = 20/34 (58%), Gaps = 7/34 (20%)
Query: 69 EFMTLLAQNQCIVLVGETGSGKTTQIPQWCVEYS 102
EF + L ++VG+ G+GKTT I ++Y+
Sbjct: 19 EFFSPLT-----LIVGQNGAGKTTIIE--ALKYA 45
>gnl|CDD|223203 COG0125, Tmk, Thymidylate kinase [Nucleotide transport and
metabolism].
Length = 208
Score = 27.3 bits (61), Expect = 8.1
Identities = 28/109 (25%), Positives = 41/109 (37%), Gaps = 26/109 (23%)
Query: 80 IVLVGETGSGKTTQIPQWCVEYSKSVGAKAVACTQPRRVAAMSVAQRVSEEMDCQLGQEV 139
IV+ G G+GKTTQ + E + G K V +P G +
Sbjct: 6 IVIEGIDGAGKTTQA-ELLKERLEERGIKVVLTREPG-------------------GTPI 45
Query: 140 GYSIR-----FEDCSSPKTVLK-YMTDGMLLREGMSDPMLENYQVILLD 182
G IR E+ SPK + D E + P L+ +V++ D
Sbjct: 46 GEKIRELLLNGEEKLSPKAEALLFAADRAQHLEEVIKPALKEGKVVICD 94
>gnl|CDD|213220 cd03253, ABCC_ATM1_transporter, ATP-binding cassette domain of
iron-sulfur clusters transporter, subfamily C. ATM1 is
an ABC transporter that is expressed in the
mitochondria. Although the specific function of ATM1 is
unknown, its disruption results in the accumulation of
excess mitochondrial iron, loss of mitochondrial
cytochromes, oxidative damage to mitochondrial DNA, and
decreased levels of cytosolic heme proteins. ABC
transporters are a large family of proteins involved in
the transport of a wide variety of different compounds,
like sugars, ions, peptides, and more complex organic
molecules. The nucleotide binding domain shows the
highest similarity between all members of the family.
ABC transporters are a subset of nucleotide hydrolases
that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing
proteins.
Length = 236
Score = 27.6 bits (62), Expect = 8.1
Identities = 10/35 (28%), Positives = 16/35 (45%), Gaps = 6/35 (17%)
Query: 64 FEYRTEFMTL------LAQNQCIVLVGETGSGKTT 92
F Y L + + + +VG +GSGK+T
Sbjct: 8 FAYDPGRPVLKDVSFTIPAGKKVAIVGPSGSGKST 42
>gnl|CDD|223637 COG0563, Adk, Adenylate kinase and related kinases [Nucleotide
transport and metabolism].
Length = 178
Score = 27.2 bits (61), Expect = 8.2
Identities = 6/14 (42%), Positives = 11/14 (78%)
Query: 80 IVLVGETGSGKTTQ 93
I+++G G+GK+T
Sbjct: 3 ILILGPPGAGKSTL 16
>gnl|CDD|201700 pfam01270, Glyco_hydro_8, Glycosyl hydrolases family 8.
Length = 325
Score = 27.4 bits (61), Expect = 8.6
Identities = 9/24 (37%), Positives = 11/24 (45%)
Query: 76 QNQCIVLVGETGSGKTTQIPQWCV 99
+ L+GE SGKT P W
Sbjct: 183 IDDGYRLLGEMRSGKTGLPPDWVA 206
>gnl|CDD|227118 COG4778, PhnL, ABC-type phosphonate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 235
Score = 27.4 bits (61), Expect = 8.7
Identities = 12/38 (31%), Positives = 19/38 (50%), Gaps = 3/38 (7%)
Query: 55 HRKRITLPVFEYRTEFMTLLAQNQCIVLVGETGSGKTT 92
+ + LPV + +C+VL G +GSGK+T
Sbjct: 18 QQGGVRLPVLR-NVSLS--VNAGECVVLHGPSGSGKST 52
>gnl|CDD|172477 PRK13974, PRK13974, thymidylate kinase; Provisional.
Length = 212
Score = 27.3 bits (61), Expect = 9.1
Identities = 11/15 (73%), Positives = 11/15 (73%)
Query: 80 IVLVGETGSGKTTQI 94
IVL G G GKTTQI
Sbjct: 6 IVLEGIDGCGKTTQI 20
>gnl|CDD|236865 PRK11160, PRK11160, cysteine/glutathione ABC transporter
membrane/ATP-binding component; Reviewed.
Length = 574
Score = 27.9 bits (63), Expect = 9.2
Identities = 7/19 (36%), Positives = 12/19 (63%)
Query: 74 LAQNQCIVLVGETGSGKTT 92
+ + + L+G TG GK+T
Sbjct: 363 IKAGEKVALLGRTGCGKST 381
>gnl|CDD|223775 COG0703, AroK, Shikimate kinase [Amino acid transport and
metabolism].
Length = 172
Score = 26.8 bits (60), Expect = 9.8
Identities = 9/17 (52%), Positives = 13/17 (76%)
Query: 76 QNQCIVLVGETGSGKTT 92
+N IVL+G G+GK+T
Sbjct: 1 RNMNIVLIGFMGAGKST 17
>gnl|CDD|224140 COG1219, ClpX, ATP-dependent protease Clp, ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 408
Score = 27.6 bits (62), Expect = 9.9
Identities = 9/12 (75%), Positives = 11/12 (91%)
Query: 80 IVLVGETGSGKT 91
I+L+G TGSGKT
Sbjct: 100 ILLIGPTGSGKT 111
>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 = 27.4 bits (61), Expect = 9.9
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 73 LLAQNQCIVLVGETGSGKTT 92
+ + I++VG TGSGKTT
Sbjct: 128 AVLARKNILVVGGTGSGKTT 147
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
0.321 0.135 0.401
Gapped
Lambda K H
0.267 0.0889 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,314,772
Number of extensions: 1434165
Number of successful extensions: 2037
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2020
Number of HSP's successfully gapped: 169
Length of query: 302
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 206
Effective length of database: 6,679,618
Effective search space: 1376001308
Effective search space used: 1376001308
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 59 (26.2 bits)