RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3667
(266 letters)
>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 = 228 bits (583), Expect = 4e-70
Identities = 91/193 (47%), Positives = 113/193 (58%), Gaps = 37/193 (19%)
Query: 22 PMGIMALLDEECWFPKATDRSFVEKLVQSHSQHAKFKKT-DFRGVADFAIVHYAGKGMF- 79
PMGI++LLDEEC FPKATD++FVEKL +H +KFKK + A F++VHYAG +
Sbjct: 447 PMGILSLLDEECVFPKATDKTFVEKLYDNHLGKSKFKKPKKGKAKAHFSLVHYAGTVDYN 506
Query: 80 -------------RTVSQLYKEQLTKLMVTLRNTNPNFVRCIIPNHE--------KRAGI 118
V L K+ KL+ L F + + K+ G
Sbjct: 507 IDGWLEKNKDPLNDNVVGLLKKSSDKLVAEL------FKDYAEASGDGGGGGGKKKKGGS 560
Query: 119 PRV--------LGRLMVTLRNTNPNFVRCIIPNHEKRAGKIDAPLVLDQLRCNGVLEGIR 170
R L +LM TLR+TNP+FVRCIIPN EK+ GK+DA LVLDQLRCNGVLEGIR
Sbjct: 561 FRTVSQLYKEQLNKLMTTLRSTNPHFVRCIIPNEEKKPGKLDAHLVLDQLRCNGVLEGIR 620
Query: 171 ICRQGFPNRIPFQ 183
ICR+GFPNRI +
Sbjct: 621 ICRKGFPNRILYA 633
>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 = 199 bits (508), Expect = 2e-59
Identities = 84/211 (39%), Positives = 112/211 (53%), Gaps = 39/211 (18%)
Query: 10 KYILFFFN-----LLF-SPMGIMALLDEECWFPKATDRSFVEKLVQSHSQHAKFKKTDFR 63
+I FF N L+ P GI++LLDEEC FPK TD++F+EKL Q H +H F K +
Sbjct: 423 TFIDFFDNQDCIDLIEKKPPGILSLLDEECRFPKGTDQTFLEKLNQHHKKHPHFSKPKKK 482
Query: 64 GVADFAIVHYAGKGMFRTVSQLY---------KEQLTK-LMVTLRNTNPNFVRCIIPNHE 113
G +F I HYAG V+ Y K+ L+ L+ L+++ + + P+
Sbjct: 483 GRTEFIIKHYAGD-----VT--YDVTGFLEKNKDTLSDDLIELLQSSKNPLIASLFPSGV 535
Query: 114 KRA---GIPRVLG--------RLMVTLRNTNPNFVRCIIPNHEKRAGKIDAPLVLDQLRC 162
A + +G LM TL +TNP+F+RCI PN EK+ G D+ LVL QLR
Sbjct: 536 SNAGSKKRFQTVGSQFKEQLNELMDTLNSTNPHFIRCIKPNEEKKPGDFDSSLVLHQLRY 595
Query: 163 NGVLEGIRICRQGFPNRIPFQMSVPQPFLFR 193
GVLE IRI R GFP R+PF FL R
Sbjct: 596 LGVLENIRIRRAGFPYRLPF-----DEFLQR 621
>gnl|CDD|215687 pfam00063, Myosin_head, Myosin head (motor domain).
Length = 679
Score = 181 bits (461), Expect = 9e-53
Identities = 84/205 (40%), Positives = 104/205 (50%), Gaps = 38/205 (18%)
Query: 22 PMGIMALLDEECWFPKATDRSFVEKLVQSHSQ-HAKFKKTDF-RGVADFAIVHYAGK--- 76
P GI++LLDEEC FPKATD++F+EKL+ + S H F K F +G F + HYAG
Sbjct: 436 PPGILSLLDEECRFPKATDQTFLEKLLDTFSSKHPHFSKPRFGQGDTSFTVKHYAGDVEY 495
Query: 77 -----------GMFRTVSQLYKEQLTKLMVTLRN----------TNPNFVRCIIPNHEKR 115
+F + L K L++ L + C K+
Sbjct: 496 NATGFLEKNKDPLFDDLISLLKSSSDPLVLELFPEEELDEEEFAGRYARLGCGKGKDGKK 555
Query: 116 AGIPRV-------LGRLMVTLRNTNPNFVRCIIPNHEKRAGKIDAPLVLDQLRCNGVLEG 168
+ LG LM TLR+TNP+FVRCI PN +K AG D+ LVL QLRC GVLEG
Sbjct: 556 SNFETAGSQFKESLGNLMKTLRSTNPHFVRCIKPNEKKAAGPFDSSLVLHQLRCLGVLEG 615
Query: 169 IRICRQGFPNRIPFQMSVPQPFLFR 193
IRI R GFPNRI F FL R
Sbjct: 616 IRIRRAGFPNRITF-----DEFLQR 635
>gnl|CDD|227355 COG5022, COG5022, Myosin heavy chain [Cytoskeleton].
Length = 1463
Score = 153 bits (388), Expect = 4e-42
Identities = 72/182 (39%), Positives = 92/182 (50%), Gaps = 26/182 (14%)
Query: 22 PMGIMALLDEECWFPKATDRSFVEKLVQ----SHSQHAKFKKTDFRGVADFAIVHYAGKG 77
P+GI++LLDEEC P ATD SF KL Q + + FKK+ FR F + HYAG
Sbjct: 501 PLGILSLLDEECVMPHATDESFTSKLAQRLNKNSNPK--FKKSRFRDNK-FVVKHYAGDV 557
Query: 78 MFRTVSQLYK------EQLTKLMVTLRNTNPNFVRCIIPNHEKRA--GIPRVLG------ 123
+ L K + L +L L+ + FV + + E G LG
Sbjct: 558 EYDVEGFLDKNKDPLNDDLLEL---LKASTNEFVSTLFDDEENIESKGRFPTLGSRFKES 614
Query: 124 --RLMVTLRNTNPNFVRCIIPNHEKRAGKIDAPLVLDQLRCNGVLEGIRICRQGFPNRIP 181
LM TL +T P+++RCI PN EK D +VL QLRC GVLE IRI R GFP+R
Sbjct: 615 LNSLMSTLNSTQPHYIRCIKPNEEKSPWTFDNQMVLSQLRCCGVLETIRISRAGFPSRWT 674
Query: 182 FQ 183
F
Sbjct: 675 FD 676
>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 = 147 bits (372), Expect = 3e-40
Identities = 65/187 (34%), Positives = 90/187 (48%), Gaps = 25/187 (13%)
Query: 22 PMGIMALLDEECWFPKATDRSFVEKLVQSHSQHAKFKKTDFRGVADFAIVHYAGKGMFRT 81
P G+++LLDEEC FPK TD +F+EKL + F +F I HYAG +
Sbjct: 434 PGGLLSLLDEECLFPKGTDETFLEKLNNKLKSNNAFYPAKKNAPTEFTIKHYAGDVTYDA 493
Query: 82 VSQLYK--EQLTK-LMVTLRNTNPNFVRCIIPNHEKRAGIPRVLGR-------------- 124
L K + L+ L+ L++++ F+R + + + G
Sbjct: 494 RGFLEKNKDVLSPELVSLLKSSSNPFIRELFESELSKTGNSSTGSTSSKGKKKKGQTVGS 553
Query: 125 --------LMVTLRNTNPNFVRCIIPNHEKRAGKIDAPLVLDQLRCNGVLEGIRICRQGF 176
LM TL +T P+F+RCI PN EK+ D+ VL QLR G+LE IRI R GF
Sbjct: 554 QFRTSLDALMATLNSTEPHFIRCIKPNEEKKPNAFDSGKVLQQLRYLGILETIRIRRLGF 613
Query: 177 PNRIPFQ 183
RIPF
Sbjct: 614 SVRIPFD 620
>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 = 117 bits (296), Expect = 5e-30
Identities = 65/179 (36%), Positives = 86/179 (48%), Gaps = 23/179 (12%)
Query: 22 PMGIMALLDEECWFPKATDRSFVEKLVQSHSQHAKFKKTDFRGVADFAIVHYAGKGMFRT 81
P GI+ALLDE C FPK+T +F +KL Q+ H +F+K F I HYAG ++T
Sbjct: 439 PGGIIALLDEACMFPKSTHETFAQKLYQTFKDHKRFEKPKL-SRTAFTIDHYAGDVTYQT 497
Query: 82 VSQLYK-------EQLTKLMVTLRNTNPNFVRCIIPNHEKRAG-----------IPRVLG 123
L K E L +N +FV + P + + L
Sbjct: 498 DQFLDKNKDYVVAEHQALLN----ASNCSFVAGLFPPLPEETSKSSKFSSIGSRFKQQLQ 553
Query: 124 RLMVTLRNTNPNFVRCIIPNHEKRAGKIDAPLVLDQLRCNGVLEGIRICRQGFPNRIPF 182
LM TL T P+++RCI PN+ + G + VL QLRC GVLE IRI G+P R F
Sbjct: 554 SLMETLSTTEPHYIRCIKPNNVLKPGIFENENVLQQLRCGGVLEAIRISCAGYPTRRTF 612
>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 = 114 bits (288), Expect = 8e-29
Identities = 60/200 (30%), Positives = 95/200 (47%), Gaps = 34/200 (17%)
Query: 17 NLLFSPMGIMALLDEECWFPKATDRSFVEKLVQSHSQ--HAKFKKTDFRGVADFAIVHYA 74
+L+ S +GI++LLDEEC PK +D S+ +KL + + F+K F G F + H+A
Sbjct: 434 DLIESKLGILSLLDEECRLPKGSDESWAQKLYNKLPKKKNPHFEKPRF-GQTSFTVKHFA 492
Query: 75 GKGMFRTVSQLYKEQLT---KLMVTLRNTNPNFVRCII--------PNHEKRAGIPRV-- 121
+ L K + T + + L+ + F++ ++ + ++
Sbjct: 493 DDVEYDVDGFLEKNRDTVSDEHLDVLKASKNPFLKEVLDAAELASSSSSSAKSKPAAKRP 552
Query: 122 ------------------LGRLMVTLRNTNPNFVRCIIPNHEKRAGKIDAPLVLDQLRCN 163
L LM TL +TNP+++RCI PN EK+ K + VL QLR
Sbjct: 553 PKRAKQHKPTVGSQFKSSLIELMSTLNSTNPHYIRCIKPNDEKKPFKFEPKRVLQQLRAC 612
Query: 164 GVLEGIRICRQGFPNRIPFQ 183
GVLE IRI GFP+R ++
Sbjct: 613 GVLETIRISAAGFPSRWTYE 632
>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 = 109 bits (276), Expect = 3e-27
Identities = 60/190 (31%), Positives = 87/190 (45%), Gaps = 26/190 (13%)
Query: 21 SPMGIMALLDEECWFP-KATDRSFVEKLVQSHSQHAKFKKTDFRGVADFAIVHYAGK--- 76
P GI ++LD+ C P + TD++F+EKL + S H +F I HYAG
Sbjct: 438 RPPGIFSILDDVCATPHEGTDQTFLEKLNKKFSSHPHSDHFSSGS-DEFRIKHYAGDVTY 496
Query: 77 ---GM-FRTVSQLYKEQLTKLMVTLRNTNPNFVRC----IIPNHEKR---AG--IPRVLG 123
G + L+K+ L +LM + ++NP + +KR AG I
Sbjct: 497 SVEGFCDKNKDTLFKD-LIELMQS--SSNPFLRSLFPEKSDADSKKRPTTAGFKIKTSAN 553
Query: 124 RLMVTLRNTNPNFVRCIIPNHEKRAGKIDAPLVLDQLRCNGVLEGIRICRQGFPNRIPFQ 183
L+ TL P+++RCI PN K D VL Q++ G+LE +R+ R GF R F
Sbjct: 554 ALVETLMKCTPHYIRCIKPNETKSPNDFDESRVLHQVKYLGLLENVRVRRAGFAYRQTF- 612
Query: 184 MSVPQPFLFR 193
FL R
Sbjct: 613 ----DKFLQR 618
>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 = 109 bits (273), Expect = 5e-27
Identities = 63/186 (33%), Positives = 90/186 (48%), Gaps = 27/186 (14%)
Query: 22 PMGIMALLDEECWFPKATDRSFVEKLVQSHSQHAKFKKTDFRGVADFAIVHYAGKGMFRT 81
P+G+++LLDEE FP ATD +F KL Q ++ F+ RG A F + HYAG+ + T
Sbjct: 437 PLGLLSLLDEESTFPNATDLTFANKLKQHLKTNSCFRGE--RGGA-FTVRHYAGEVTYDT 493
Query: 82 VSQLYKEQ------LTKLMVTLRNTNPNFVRCIIPNHEKRAGIPRVLG------------ 123
L K + +L+ + + P + G V
Sbjct: 494 TGFLEKNRDLLHSDSIQLLSSCKCQLPQLFASSMLIQSPVVGPLYVASAADSQKLSVGTK 553
Query: 124 ------RLMVTLRNTNPNFVRCIIPNHEKRAGKIDAPLVLDQLRCNGVLEGIRICRQGFP 177
+LM L NT P+F+RCI PN+++ G + LVL QLRC GVLE +RI R G+P
Sbjct: 554 FKGQLFKLMQQLENTTPHFIRCIKPNNKQLPGIYEQGLVLQQLRCCGVLEVVRISRSGYP 613
Query: 178 NRIPFQ 183
R+ Q
Sbjct: 614 TRMTHQ 619
>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 = 108 bits (271), Expect = 1e-26
Identities = 64/187 (34%), Positives = 90/187 (48%), Gaps = 20/187 (10%)
Query: 22 PMGIMALLDEECWFPKATDRSFVEKLVQSHSQHAKFKKTDFRGVADFAIVHYAGKGMFRT 81
P+ IM+L+DEE FPK TD++ +EKL H H+ + K F I H+AG + T
Sbjct: 434 PLNIMSLIDEESKFPKGTDQTMLEKLHSQHGLHSNYLKPKSTQETQFGINHFAGVVFYDT 493
Query: 82 VSQLYKEQLT---KLMVTLRNTNPNFVRCIIPN-----HEKRAGIP-------RVLGRLM 126
L K + T L ++++ F++ I E R P R L LM
Sbjct: 494 RGFLEKNRDTFSGDLSQLVQSSKNKFLKQIFQADVEMGAETRKKKPTLSSQFRRSLDLLM 553
Query: 127 VTLRNTNPNFVRCIIPNHEKRAGKIDAPLVLDQLRCNGVLEGIRICRQGFPNRIPFQMSV 186
TL + P F+RCI PN K D L + QLR +G++E IRI R G+P R F
Sbjct: 554 RTLSSCQPFFIRCIKPNEYKEPMVFDRELCVRQLRYSGMMETIRIRRAGYPIRHTF---- 609
Query: 187 PQPFLFR 193
+ F+ R
Sbjct: 610 -REFVER 615
>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 = 107 bits (268), Expect = 3e-26
Identities = 58/188 (30%), Positives = 88/188 (46%), Gaps = 28/188 (14%)
Query: 22 PMGIMALLDEECWFPKATDRSFVEKLVQSHSQHAKFKKTDFRGVADFAIVHYAGKGMF-- 79
P GI+ +LD++C FP+ATD +F++K H + + K + +F I HYAGK +
Sbjct: 433 PYGILRILDDQCCFPQATDHTFLQKCHYHHGANPLYSKPKM-PLPEFTIKHYAGKVTYQV 491
Query: 80 ------------------------RTVSQLYKEQLTKLMVTLRNTNPNFVRCIIPNHEKR 115
R V+ L+ R + + H
Sbjct: 492 HKFLDKNHDQVRQDVLDLFVSSRTRVVAHLFS-SHAAQRAPKRLGKSSSGTRLYKAHTVA 550
Query: 116 AGIPRVLGRLMVTLRNTNPNFVRCIIPNHEKRAGKIDAPLVLDQLRCNGVLEGIRICRQG 175
A + L L+ + NP FVRC+ PNH+K G + +V+ QLR +GVLE +RI ++G
Sbjct: 551 AKFQQSLLDLVEKMERCNPLFVRCLKPNHKKEPGLFEPDVVMAQLRYSGVLETVRIRKEG 610
Query: 176 FPNRIPFQ 183
FP R+PFQ
Sbjct: 611 FPVRLPFQ 618
>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 = 106 bits (265), Expect = 7e-26
Identities = 64/170 (37%), Positives = 87/170 (51%), Gaps = 20/170 (11%)
Query: 18 LLFSPMGIMALLDEECWFPKATDRSFVEKLVQSHSQHAKFKKTDF---RGVA-DFAIVHY 73
L P+G++ALLDEE FP+ATD++ VEK K F + V F I HY
Sbjct: 441 FLQKPLGLLALLDEESRFPQATDQTLVEKF------EDNLKSKFFWRPKRVELSFGIHHY 494
Query: 74 AGKGMFRTVSQLYKEQLTKLMVTLRNTNPNFVRCIIPNHEKRAGIPRV-LGRLMVTLRNT 132
AGK ++ L K R+ P + ++ + + A R L L+ +
Sbjct: 495 AGKVLYNASGFLEKN---------RDFLPADIVLLLRSSQTVASYFRYSLMDLLSKMVVG 545
Query: 133 NPNFVRCIIPNHEKRAGKIDAPLVLDQLRCNGVLEGIRICRQGFPNRIPF 182
P+FVRCI PN +++A K DA VL QLR G+LE RI RQGF +RI F
Sbjct: 546 QPHFVRCIKPNEDRQAKKFDAEKVLKQLRYTGILETARIRRQGFSHRILF 595
>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 = 101 bits (253), Expect = 2e-24
Identities = 65/197 (32%), Positives = 92/197 (46%), Gaps = 30/197 (15%)
Query: 19 LFS--PMGIMALLDEECWFPKATDRSFVEKLVQSHSQHAKFKKTDFRGVADFAIVHYAGK 76
LFS P G++ LLDEE FP AT ++ + K Q H + ++ + A F I HYAGK
Sbjct: 444 LFSKKPTGLLYLLDEESNFPHATSQTLLAKFNQQHKDNKYYEGPQVKEPA-FIIQHYAGK 502
Query: 77 GMFRTVSQLYKEQLTKLM-----VTLRNTNPNFVRCII---PNHEKRAGIPRV------- 121
++ ++E+ LM L+ ++ ++VR +I P R + R
Sbjct: 503 VKYQIKD--FREKNMDLMRQDIVALLKGSDSSYVRELIGMDPVAVFRWAVLRAAFRAMAA 560
Query: 122 ----------LGRLMVTLRNTNPNFVRCIIPNHEKRAGKIDAPLVLDQLRCNGVLEGIRI 171
L +LM TL P F+RCI N EK D LVL QLR G+LE +RI
Sbjct: 561 PSVSAQFQTSLNKLMETLGKAEPFFIRCIKSNAEKIENCFDDELVLRQLRYTGMLETVRI 620
Query: 172 CRQGFPNRIPFQMSVPQ 188
R G+ R +Q Q
Sbjct: 621 RRAGYSVRYTYQDFTQQ 637
>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 = 77.5 bits (191), Expect = 3e-16
Identities = 47/189 (24%), Positives = 80/189 (42%), Gaps = 28/189 (14%)
Query: 22 PMGIMALLDEECWFPKATDRSFVEKLVQSHSQH------AKFKKTDFRGVAD---FAIVH 72
GI+ +LDEE P+ +D+ F + Q H H K K R + D F I H
Sbjct: 469 LNGILDILDEENRLPQPSDQHFTSVVHQKHKDHFRLTIPRKSKLAVHRNLRDDEGFIIRH 528
Query: 73 YAGKGMFRTVSQLYKEQ---LTKLMVTLRNTNPNFVRCIIPNHEKRAGIPRV-------- 121
+AG + T + K L + + F+R + + +
Sbjct: 529 FAGAVCYETTQFVEKNNDALHMSLESLICESKDKFLRSLFESSTNNNDTKQKAGKLSFIS 588
Query: 122 --------LGRLMVTLRNTNPNFVRCIIPNHEKRAGKIDAPLVLDQLRCNGVLEGIRICR 173
L L+ LR+T +F+RCI PN + + + + +L QL+C+G++ + + +
Sbjct: 589 VGNKFKTQLNLLLEKLRSTGSSFIRCIKPNLKMVSHQFEGAQILSQLQCSGMVSVLDLMQ 648
Query: 174 QGFPNRIPF 182
GFP+R F
Sbjct: 649 GGFPSRASF 657
>gnl|CDD|240229 PTZ00014, PTZ00014, myosin-A; Provisional.
Length = 821
Score = 56.6 bits (137), Expect = 4e-09
Identities = 45/172 (26%), Positives = 75/172 (43%), Gaps = 14/172 (8%)
Query: 25 IMALLDEECWFPKATDRSFVEKLVQSHSQHAKFKKTDFRGVADFAIVHYAGKGMFRTVSQ 84
++++L+++C P TD FV + + K+K +F I H G +
Sbjct: 537 VLSILEDQCLAPGGTDEKFVSSCNTNLKNNPKYKPAKVDSNKNFVIKHTIGDIQYCASGF 596
Query: 85 LYKEQ--LTKLMVTLRNTNPN-FVRCIIPNHEKRAG-----------IPRVLGRLMVTLR 130
L+K + L +V + +PN VR + E G L LM +
Sbjct: 597 LFKNKDVLRPELVEVVKASPNPLVRDLFEGVEVEKGKLAKGQLIGSQFLNQLDSLMSLIN 656
Query: 131 NTNPNFVRCIIPNHEKRAGKIDAPLVLDQLRCNGVLEGIRICRQGFPNRIPF 182
+T P+F+RCI PN K+ ++ VL QL +LE +++ + GF R F
Sbjct: 657 STEPHFIRCIKPNENKKPLDWNSSKVLIQLHSLSILEALQLRQLGFSYRRTF 708
>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 = 45.6 bits (108), Expect = 1e-05
Identities = 27/98 (27%), Positives = 42/98 (42%), Gaps = 14/98 (14%)
Query: 87 KEQLTKLMVTLRNTNPNFVRCIIPNHEKRAGIPRVLGRLMVTLRNTNPNFVRCIIPNHEK 146
K Q+ L+ TLR + +FV C +P H + R + ++
Sbjct: 616 KLQVDALIDTLRRSGLHFVHCYLPQHNGGKAMAR------------TASPSPQQSEDNGV 663
Query: 147 RAG--KIDAPLVLDQLRCNGVLEGIRICRQGFPNRIPF 182
A +D PL+ QLR + +LE R+ R GFP +P
Sbjct: 664 AAEPLALDIPLLRSQLRGSQILEAARLHRLGFPISVPL 701
>gnl|CDD|99858 cd06105, ScCit1-2_like, Saccharomyces cerevisiae (Sc) citrate
synthases Cit1-2_like. Citrate synthases (CS) catalyzes
the condensation of acetyl coenzyme A (AcCoA) with
oxaloacetate (OAA) to form citrate and coenzyme A (CoA),
the first step in the citric acid cycle (TCA or Krebs
cycle). Some CS proteins function as 2-methylcitrate
synthase (2MCS). 2MCS catalyzes the condensation of
propionyl-coenzyme A (PrCoA) and OAA to form
2-methylcitrate and CoA during propionate metabolism.
The overall CS reaction is thought to proceed through
three partial reactions and involves both closed and
open conformational forms of the enzyme: a) the
carbanion or equivalent is generated from AcCoA by base
abstraction of a proton, b) the nucleophilic attack of
this carbanion on OAA to generate citryl-CoA, and c) the
hydrolysis of citryl-CoA to produce citrate and CoA.
There are two types of CSs: type I CS and type II CSs.
Type I CSs are found in eukarya, gram-positive bacteria,
archaea, and in some gram-negative bacteria and are
homodimers with both subunits participating in the
active site. Type II CSs are unique to gram-negative
bacteria and are homohexamers of identical subunits
(approximated as a trimer of dimers). ScCit1 is a
nuclear-encoded mitochondrial CS with highly specificity
for AcCoA. In addition to its CS function, ScCit1 plays
a part in the construction of the TCA cycle metabolon.
Yeast cells deleted for Cit1 are hyper-susceptible to
apoptosis induced by heat and aging stress. ScCit2 is a
peroxisomal CS involved in the glyoxylate cycle; in
addition to having activity with AcCoA, it may have
activity with PrCoA. Chicken and pig heart CS, two
Arabidopsis thaliana (Ath) CSs, CSY4 and -5, and
Aspergillus niger (An) CS also belong to this group. Ath
CSY4 has a mitochondrial targeting sequence; AthCSY5 has
no identifiable targeting sequence. AnCS encoded by the
citA gene has both an N-terminal mitochondrial import
signal and a C-terminal peroxisiomal target sequence; it
is not known if both these signals are functional in
vivo. This group contains proteins which functions
exclusively as either a CS or a 2MCS, as well as those
with relaxed specificity which have dual functions as
both a CS and a 2MCS.
Length = 427
Score = 34.6 bits (80), Expect = 0.043
Identities = 16/36 (44%), Positives = 21/36 (58%), Gaps = 2/36 (5%)
Query: 54 HAKFKKTDFRGVA--DFAIVHYAGKGMFRTVSQLYK 87
HA +KTD R +FA+ H +F+ VSQLYK
Sbjct: 314 HAVLRKTDPRYTCQREFALKHLPNDPLFKLVSQLYK 349
>gnl|CDD|237798 PRK14714, PRK14714, DNA polymerase II large subunit; Provisional.
Length = 1337
Score = 32.7 bits (75), Expect = 0.19
Identities = 14/23 (60%), Positives = 17/23 (73%), Gaps = 2/23 (8%)
Query: 135 NFVRCIIPNHEKRAGKIDAPLVL 157
NF + +P EKR GK+DAPLVL
Sbjct: 1104 NFSKSFLP--EKRGGKMDAPLVL 1124
>gnl|CDD|224844 COG1933, COG1933, Archaeal DNA polymerase II, large subunit [DNA
replication, recombination, and repair].
Length = 253
Score = 31.2 bits (71), Expect = 0.39
Identities = 15/23 (65%), Positives = 17/23 (73%), Gaps = 2/23 (8%)
Query: 135 NFVRCIIPNHEKRAGKIDAPLVL 157
NF R +P EKR GK+DAPLVL
Sbjct: 18 NFSRYYLP--EKRGGKMDAPLVL 38
>gnl|CDD|235202 PRK04023, PRK04023, DNA polymerase II large subunit; Validated.
Length = 1121
Score = 31.4 bits (72), Expect = 0.53
Identities = 13/23 (56%), Positives = 17/23 (73%), Gaps = 2/23 (8%)
Query: 135 NFVRCIIPNHEKRAGKIDAPLVL 157
NF R +P +KR G++DAPLVL
Sbjct: 888 NFSRSYLP--DKRGGQMDAPLVL 908
>gnl|CDD|130853 TIGR01793, cit_synth_euk, citrate (Si)-synthase, eukaryotic. This
model includes both mitochondrial and peroxisomal forms
of citrate synthase. Citrate synthase is the entry point
to the TCA cycle from acetyl-CoA. Peroxisomal forms,
such as SP:P08679 from yeast (recognized by the
C-terminal targeting motif SKL) act in the glyoxylate
cycle. Eukaryotic homologs excluded by the high trusted
cutoff of this model include a Tetrahymena thermophila
citrate synthase that doubles as a filament protein, a
putative citrate synthase from Plasmodium falciparum (no
TCA cycle), and a methylcitrate synthase from
Aspergillus nidulans.
Length = 427
Score = 31.0 bits (70), Expect = 0.68
Identities = 15/36 (41%), Positives = 21/36 (58%), Gaps = 2/36 (5%)
Query: 54 HAKFKKTDFRGVA--DFAIVHYAGKGMFRTVSQLYK 87
HA +KTD R + +FA+ H +F+ VS LYK
Sbjct: 317 HAVLRKTDPRYICQREFALKHLPDDPLFKLVSNLYK 352
>gnl|CDD|215864 pfam00335, Tetraspannin, Tetraspanin family.
Length = 221
Score = 30.1 bits (68), Expect = 1.00
Identities = 9/13 (69%), Positives = 11/13 (84%)
Query: 8 CIKYILFFFNLLF 20
C+KY+LF NLLF
Sbjct: 1 CLKYLLFLLNLLF 13
>gnl|CDD|99857 cd06103, ScCS-like, Saccharomyces cerevisiae (Sc) citrate synthase
(CS)-like. CS catalyzes the condensation of acetyl
coenzyme A (AcCoA) with oxaloacetate (OAA) to form
citrate and coenzyme A (CoA), the first step in the
citric acid cycle (TCA or Krebs cycle). Some CS proteins
function as 2-methylcitrate synthase (2MCS). 2MCS
catalyzes the condensation of propionyl-coenzyme A
(PrCoA) and OAA to form 2-methylcitrate and CoA during
propionate metabolism. The overall CS reaction is
thought to proceed through three partial reactions and
involves both closed and open conformational forms of
the enzyme: a) the carbanion or equivalent is generated
from AcCoA by base abstraction of a proton, b) the
nucleophilic attack of this carbanion on OAA to generate
citryl-CoA, and c) the hydrolysis of citryl-CoA to
produce citrate and CoA. There are two types of CSs:
type I CS and type II CSs. Type I CSs are found in
eukarya, gram-positive bacteria, archaea, and in some
gram-negative bacteria and are homodimers with both
subunits participating in the active site. Type II CSs
are unique to gram-negative bacteria and are
homohexamers of identical subunits (approximated as a
trimer of dimers). This group includes three S.
cerevisiae CS proteins, ScCit1,-2,-3. ScCit1 is a
nuclear-encoded mitochondrial CS with highly specificity
for AcCoA; in addition to having activity with AcCoA, it
plays a part in the construction of the TCA cycle
metabolon. Yeast cells deleted for Cit1 are
hyper-susceptible to apoptosis induced by heat and aging
stress. ScCit2 is a peroxisomal CS involved in the
glyoxylate cycle; in addition to having activity with
AcCoA, it may have activity with PrCoA. ScCit3 is a
mitochondrial CS and functions in the metabolism of
PrCoA; it is a dual specificity CS and 2MCS, having
similar catalytic efficiency with both AcCoA and PrCoA.
The pattern of expression of the ScCIT3 gene follows
that of the ScCIT1 gene and its expression is increased
in the presence of a ScCIT1 deletion. Included in this
group is the Tetrahymena 14 nm filament protein which
functions as a CS in mitochondria and as a cytoskeletal
component in cytoplasm and Geobacter sulfurreducens
(GSu) CS. GSuCS is dimeric and eukaryotic-like; it lacks
2MCS activity and is inhibited by ATP. In contrast to
eukaryotic and other prokaryotic CSs, GSuCIT is not
stimulated by K+ ions. This group contains proteins
which functions exclusively as either a CS or a 2MCS, as
well as those with relaxed specificity which have dual
functions as both a CS and a 2MCS.
Length = 426
Score = 30.3 bits (69), Expect = 1.2
Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 4/54 (7%)
Query: 54 HAKFKKTDFRGVA--DFAIVHYAGKGMFRTVSQLYKEQLTKLMVT--LRNTNPN 103
HA +KTD R +FA+ H +F+ V+Q YK L ++N PN
Sbjct: 316 HAVLRKTDPRFTCQREFALKHLPDDPLFKLVAQCYKIIPGVLKEHGKVKNPYPN 369
>gnl|CDD|237799 PRK14715, PRK14715, DNA polymerase II large subunit; Provisional.
Length = 1627
Score = 30.6 bits (69), Expect = 1.2
Identities = 12/23 (52%), Positives = 17/23 (73%), Gaps = 2/23 (8%)
Query: 135 NFVRCIIPNHEKRAGKIDAPLVL 157
NF + +P +KR G++DAPLVL
Sbjct: 1393 NFSKYFLP--DKRGGQMDAPLVL 1413
>gnl|CDD|130084 TIGR01011, rpsB_bact, ribosomal protein S2, bacterial type. This
model describes the bacterial, ribosomal, and
chloroplast forms of ribosomal protein S2. TIGR01012
describes the archaeal and cytosolic forms [Protein
synthesis, Ribosomal proteins: synthesis and
modification].
Length = 225
Score = 28.4 bits (64), Expect = 3.7
Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 13/65 (20%)
Query: 87 KEQLTKLMVTLRNTN--PNFVRCIIPNHEKRA-------GIPRVLGRLMVTLRNTNPNFV 137
KE+L K + +++ P+ + I P EK A GIP V + N +P+ V
Sbjct: 139 KEKLEKSLGGIKDMKKLPDLLFVIDPVKEKIAVAEARKLGIPVV----AIVDTNCDPDLV 194
Query: 138 RCIIP 142
IP
Sbjct: 195 DYPIP 199
>gnl|CDD|232935 TIGR00354, polC, DNA polymerase, archaeal type II, large subunit.
This model represents the large subunit, DP2, of a two
subunit novel Archaeal replicative DNA polymerase first
characterized for Pyrococcus furiosus. Structure of DP2
appears to be organized as a ~950 residue component
separated from a ~300 residue component by a ~150
residue intein. The other subunit, DP1, has sequence
similarity to the eukaryotic DNA polymerase delta small
subunit [DNA metabolism, DNA replication, recombination,
and repair].
Length = 1095
Score = 28.7 bits (64), Expect = 4.0
Identities = 12/23 (52%), Positives = 17/23 (73%), Gaps = 2/23 (8%)
Query: 135 NFVRCIIPNHEKRAGKIDAPLVL 157
NF + +P+ KR G++DAPLVL
Sbjct: 863 NFSKKFLPD--KRGGQMDAPLVL 883
>gnl|CDD|224729 COG1816, Add, Adenosine deaminase [Nucleotide transport and
metabolism].
Length = 345
Score = 28.0 bits (63), Expect = 5.1
Identities = 10/34 (29%), Positives = 14/34 (41%), Gaps = 1/34 (2%)
Query: 187 PQPFLFRSNSVRSEFDSGVVEVFSALCLEFGVHS 220
P R SV G++ F +FG+HS
Sbjct: 108 PYLHTKRGLSV-DTVVEGLIAGFRPAERDFGIHS 140
>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 = 27.5 bits (61), Expect = 6.0
Identities = 13/72 (18%), Positives = 24/72 (33%), Gaps = 16/72 (22%)
Query: 76 KGMFRTVSQLYKEQLTKLMVTLRNTNPNFVRCIIPNHEKRAGIPRVLGRLMVTLR----- 130
+G T + + L+ L + E+ + +P +L L+
Sbjct: 126 EGSRLTETANINKSLSTLGNVISALA-----------ERDSHVPYRESKLTRLLQDSLGG 174
Query: 131 NTNPNFVRCIIP 142
N+ V CI P
Sbjct: 175 NSRTLMVACISP 186
>gnl|CDD|239868 cd04403, RhoGAP_ARHGAP27_15_12_9, RhoGAP_ARHGAP27_15_12_9:
GTPase-activator protein (GAP) domain for Rho-like
GTPases found in ARHGAP27 (also called CAMGAP1),
ARHGAP15, 12 and 9-like proteins; This subgroup of
ARHGAPs are multidomain proteins that contain RhoGAP,
PH, SH3 and WW domains. Most members that are studied
show GAP activity towards Rac1, some additionally show
activity towards Cdc42. Small GTPases cluster into
distinct families, and all act as molecular switches,
active in their GTP-bound form but inactive when
GDP-bound. The Rho family of GTPases activates effectors
involved in a wide variety of developmental processes,
including regulation of cytoskeleton formation, cell
proliferation and the JNK signaling pathway. GTPases
generally have a low intrinsic GTPase hydrolytic
activity but there are family-specific groups of GAPs
that enhance the rate of GTP hydrolysis by several
orders of magnitude.
Length = 187
Score = 27.4 bits (61), Expect = 6.2
Identities = 21/69 (30%), Positives = 30/69 (43%), Gaps = 11/69 (15%)
Query: 89 QLTKLMVTLRNTNPNFVRCIIPNHEKRA----GIPRVLGRLMVTLRNTNPNFVRCIIPNH 144
L L +T P FVR I EKR GI RV G L V + +R + +H
Sbjct: 4 HLEALCQRENSTVPKFVRLCIEAVEKRGLDVDGIYRVSGNLAVIQK------LRFAV-DH 56
Query: 145 EKRAGKIDA 153
+++ D+
Sbjct: 57 DEKLDLDDS 65
>gnl|CDD|238750 cd01473, vWA_CTRP, CTRP for CS protein-TRAP-related protein:
Adhesion of Plasmodium to host cells is an important
phenomenon in parasite invasion and in malaria
associated pathology.CTRP encodes a protein containing a
putative signal sequence followed by a long
extracellular region of 1990 amino acids, a
transmembrane domain, and a short cytoplasmic segment.
The extracellular region of CTRP contains two separated
adhesive domains. The first domain contains six
210-amino acid-long homologous VWA domain repeats. The
second domain contains seven repeats of 87-60 amino
acids in length, which share similarities with the
thrombospondin type 1 domain found in a variety of
adhesive molecules. Finally, CTRP also contains
consensus motifs found in the superfamily of
haematopoietin receptors. The VWA domains in these
proteins likely mediate protein-protein interactions.
Length = 192
Score = 27.3 bits (61), Expect = 6.8
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 73 YAGKGMFRTVSQLYKEQLTKLMV 95
A K + +S LYKE+ KL+V
Sbjct: 122 SASKKELQDISLLYKEENVKLLV 144
>gnl|CDD|223588 COG0514, RecQ, Superfamily II DNA helicase [DNA replication,
recombination, and repair].
Length = 590
Score = 27.6 bits (62), Expect = 8.4
Identities = 17/94 (18%), Positives = 28/94 (29%), Gaps = 5/94 (5%)
Query: 5 GMSCIKYILFFFNLLFSPMGIMALLDEECWFPKATDRSFVEKLVQSHSQHA----KFKKT 60
G +K L L S GI L ++ W + L QS + +
Sbjct: 436 GSKNLKIRLLGHEKL-STYGIGKDLSKKTWGSLIRQLIALGLLRQSLGTPGLKLTEKARN 494
Query: 61 DFRGVADFAIVHYAGKGMFRTVSQLYKEQLTKLM 94
RG + + + + E+L L
Sbjct: 495 VLRGELSVELAVPRLRALSIGEDRDLFERLRALR 528
>gnl|CDD|162338 TIGR01398, FlhA, flagellar biosynthesis protein FlhA. This model
describes flagellar biosynthesis protein FlhA, one of a
large number of genes associated with the biosynthesis
of functional bacterial flagella. Homologs of many such
proteins, including FlhA, function in type III protein
secretion systems. A separate model describes InvA
(Salmonella enterica), LcrD (Yersinia enterocolitica),
HrcV (Xanthomonas), etc., all of which score below the
noise cutoff for this model [Cellular processes,
Chemotaxis and motility].
Length = 678
Score = 27.6 bits (62), Expect = 9.4
Identities = 14/50 (28%), Positives = 24/50 (48%), Gaps = 4/50 (8%)
Query: 86 YKEQLTKLMVTLRNTNPNFVRCIIPNHEKRAGIPRVLGRLM---VTLRNT 132
+E + L+ L+ P V +IP+ I +VL L+ V++RN
Sbjct: 490 RQE-VQNLLDRLKEEYPKLVEELIPDKVPLGTIQKVLQLLLRERVSIRNL 538
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
0.325 0.138 0.431
Gapped
Lambda K H
0.267 0.0809 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,319,930
Number of extensions: 1233451
Number of successful extensions: 1235
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1206
Number of HSP's successfully gapped: 49
Length of query: 266
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 171
Effective length of database: 6,723,972
Effective search space: 1149799212
Effective search space used: 1149799212
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 58 (26.0 bits)