RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17856
(79 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 = 97.7 bits (244), Expect = 1e-25
Identities = 33/47 (70%), Positives = 35/47 (74%)
Query: 32 LSDREDQSILCTGESGAGKTENTKKVIQYLAYVAASKPKGSSTAPHS 78
L DRE+QSIL TGESGAGKTENTKKVIQYLA VAAS K +
Sbjct: 86 LQDRENQSILITGESGAGKTENTKKVIQYLASVAASSKKKKQSGKGQ 132
>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 = 79.5 bits (197), Expect = 3e-19
Identities = 26/42 (61%), Positives = 35/42 (83%)
Query: 32 LSDREDQSILCTGESGAGKTENTKKVIQYLAYVAASKPKGSS 73
L+D+E+QSI+ +GESGAGKTENTKK++QYLA V+ S + S
Sbjct: 87 LNDKENQSIIISGESGAGKTENTKKIMQYLASVSGSNTEVGS 128
>gnl|CDD|215687 pfam00063, Myosin_head, Myosin head (motor domain).
Length = 679
Score = 76.2 bits (188), Expect = 4e-18
Identities = 25/43 (58%), Positives = 32/43 (74%)
Query: 32 LSDREDQSILCTGESGAGKTENTKKVIQYLAYVAASKPKGSST 74
L D+E+Q I+ +GESGAGKTENTKK++QYLA V+ S P
Sbjct: 80 LRDKENQCIVISGESGAGKTENTKKLMQYLASVSGSTPSAVGP 122
>gnl|CDD|227355 COG5022, COG5022, Myosin heavy chain [Cytoskeleton].
Length = 1463
Score = 69.7 bits (171), Expect = 8e-16
Identities = 23/42 (54%), Positives = 33/42 (78%)
Query: 32 LSDREDQSILCTGESGAGKTENTKKVIQYLAYVAASKPKGSS 73
LS++E+Q+I+ +GESGAGKTEN K+++QYLA V +S S
Sbjct: 147 LSEKENQTIIISGESGAGKTENAKRIMQYLASVTSSSTVEIS 188
>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 = 65.4 bits (160), Expect = 3e-14
Identities = 23/36 (63%), Positives = 30/36 (83%)
Query: 32 LSDREDQSILCTGESGAGKTENTKKVIQYLAYVAAS 67
L DR +QSI+ +GESGAGKTENTK +++YLA +A S
Sbjct: 81 LRDRRNQSIIISGESGAGKTENTKLIMKYLASLAGS 116
>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 = 54.5 bits (132), Expect = 2e-10
Identities = 21/46 (45%), Positives = 30/46 (65%), Gaps = 3/46 (6%)
Query: 28 DQVY---LSDREDQSILCTGESGAGKTENTKKVIQYLAYVAASKPK 70
D Y S+ E+Q ++ +GESGAGKTE KK++QY+A V+ K
Sbjct: 74 DNAYRSMKSENENQCVIISGESGAGKTEAAKKIMQYIAAVSGGGQK 119
>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 = 53.5 bits (129), Expect = 5e-10
Identities = 19/37 (51%), Positives = 29/37 (78%)
Query: 29 QVYLSDREDQSILCTGESGAGKTENTKKVIQYLAYVA 65
+ +++ + QSIL +GESGAGKTE TK +++YLAY+
Sbjct: 80 RAMINEGKSQSILVSGESGAGKTETTKMLMRYLAYMG 116
>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 = 50.1 bits (120), Expect = 6e-09
Identities = 17/28 (60%), Positives = 25/28 (89%)
Query: 35 REDQSILCTGESGAGKTENTKKVIQYLA 62
+++Q I+ +GESGAGKTE+TK ++QYLA
Sbjct: 84 KKNQCIIISGESGAGKTESTKLILQYLA 111
>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 = 46.7 bits (111), Expect = 9e-08
Identities = 18/29 (62%), Positives = 23/29 (79%)
Query: 35 REDQSILCTGESGAGKTENTKKVIQYLAY 63
+ QSI+ +GESGAGKTENTK V++YL
Sbjct: 89 KMSQSIIVSGESGAGKTENTKFVLRYLTE 117
>gnl|CDD|240229 PTZ00014, PTZ00014, myosin-A; Provisional.
Length = 821
Score = 45.4 bits (108), Expect = 3e-07
Identities = 15/26 (57%), Positives = 22/26 (84%)
Query: 38 QSILCTGESGAGKTENTKKVIQYLAY 63
Q+I+ +GESGAGKTE TK++++Y A
Sbjct: 184 QTIIVSGESGAGKTEATKQIMRYFAS 209
>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 = 45.0 bits (107), Expect = 4e-07
Identities = 18/42 (42%), Positives = 27/42 (64%)
Query: 34 DREDQSILCTGESGAGKTENTKKVIQYLAYVAASKPKGSSTA 75
D ++QSI+ +GESGAGKT + K +++Y A V S + S
Sbjct: 83 DEKNQSIIVSGESGAGKTVSAKYIMRYFASVGGSDSREVSET 124
>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 = 42.9 bits (101), Expect = 2e-06
Identities = 18/29 (62%), Positives = 22/29 (75%)
Query: 34 DREDQSILCTGESGAGKTENTKKVIQYLA 62
D +QSI+ +GESGAGKTE K +QYLA
Sbjct: 89 DEVNQSIIISGESGAGKTETAKIAMQYLA 117
>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 = 42.1 bits (99), Expect = 4e-06
Identities = 19/36 (52%), Positives = 23/36 (63%)
Query: 32 LSDREDQSILCTGESGAGKTENTKKVIQYLAYVAAS 67
L R DQSI+ G SGAGKT + K ++YLA A S
Sbjct: 81 LETRRDQSIIFLGRSGAGKTTSCKHALEYLALAAGS 116
>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 = 41.1 bits (96), Expect = 9e-06
Identities = 18/41 (43%), Positives = 28/41 (68%), Gaps = 3/41 (7%)
Query: 32 LSDREDQSILCTGESGAGKTENTKKVIQYLAYVAASKPKGS 72
L +++Q ++ +GESG+GKTE TK +++YL AA GS
Sbjct: 82 LDAKQNQCVIISGESGSGKTEATKLILRYL---AAMNQGGS 119
>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 = 40.2 bits (94), Expect = 2e-05
Identities = 14/36 (38%), Positives = 24/36 (66%)
Query: 29 QVYLSDREDQSILCTGESGAGKTENTKKVIQYLAYV 64
Q ++ +DQ I+ +GESG+GKTE+ ++Q L +
Sbjct: 78 QSLVTYNQDQCIVISGESGSGKTESAHLLVQQLTVL 113
>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 = 36.8 bits (85), Expect = 3e-04
Identities = 16/43 (37%), Positives = 26/43 (60%)
Query: 32 LSDREDQSILCTGESGAGKTENTKKVIQYLAYVAASKPKGSST 74
L + +Q I+ +GESG+GKTE+T +I +L ++ GS
Sbjct: 89 LRKKVNQCIVISGESGSGKTESTNFLIHHLTALSQKGYAGSGV 131
>gnl|CDD|226641 COG4172, COG4172, ABC-type uncharacterized transport system,
duplicated ATPase component [General function
prediction only].
Length = 534
Score = 33.8 bits (78), Expect = 0.004
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 44 GESGAGKTENTKKVIQYLAYVAASKPKGS 72
GESG+GK+ ++ L AA+ P GS
Sbjct: 43 GESGSGKSVTALSILGLLPSPAAAHPSGS 71
Score = 26.9 bits (60), Expect = 1.2
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 28 DQVYLSDREDQSILCTGESGAGKT 51
D + L+ R Q++ GESG+GK+
Sbjct: 304 DGISLTLRRGQTLGLVGESGSGKS 327
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 30.7 bits (70), Expect = 0.032
Identities = 11/28 (39%), Positives = 16/28 (57%), Gaps = 4/28 (14%)
Query: 35 REDQSILCTGESGAGKTENTKKVIQYLA 62
R + TGESG+GKT +++ LA
Sbjct: 2 RGAGIGVLTGESGSGKT----TLLRRLA 25
>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 = 31.0 bits (70), Expect = 0.035
Identities = 8/35 (22%), Positives = 13/35 (37%), Gaps = 6/35 (17%)
Query: 34 DREDQSILCTGESGAGKTENT------KKVIQYLA 62
D + I G++G+GKT +I
Sbjct: 21 DGYNVCIFAYGQTGSGKTYTMEGKREGAGIIPRTV 55
>gnl|CDD|179118 PRK00771, PRK00771, signal recognition particle protein Srp54;
Provisional.
Length = 437
Score = 30.6 bits (70), Expect = 0.053
Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 5/54 (9%)
Query: 13 PDEH---IHYE--VDLTGGPDQVYLSDREDQSILCTGESGAGKTENTKKVIQYL 61
P EH I YE V L G + + + Q+I+ G G+GKT K+ +Y
Sbjct: 66 PREHVIKIVYEELVKLLGEETEPLVLPLKPQTIMLVGLQGSGKTTTAAKLARYF 119
>gnl|CDD|217465 pfam03266, NTPase_1, NTPase. This domain is found across all
species from bacteria to human, and the function was
determined first in a hyperthermophilic bacterium to be
an NTPase. The structure of one member-sequence
represents a variation of the RecA fold, and implies
that the function might be that of a DNA/RNA modifying
enzyme. The sequence carries both a Walker A and Walker
B motif which together are characteristic of ATPases or
GTPases. The protein exhibits an increased expression
profile in human liver cholangiocarcinoma when compared
to normal tissue.
Length = 168
Score = 28.3 bits (64), Expect = 0.25
Identities = 12/23 (52%), Positives = 13/23 (56%)
Query: 40 ILCTGESGAGKTENTKKVIQYLA 62
I TG G GKT KKVI+ L
Sbjct: 2 IFITGPPGVGKTTLVKKVIELLK 24
>gnl|CDD|237475 PRK13695, PRK13695, putative NTPase; Provisional.
Length = 174
Score = 27.6 bits (62), Expect = 0.44
Identities = 9/23 (39%), Positives = 11/23 (47%)
Query: 40 ILCTGESGAGKTENTKKVIQYLA 62
I TG G GKT K+ + L
Sbjct: 3 IGITGPPGVGKTTLVLKIAELLK 25
>gnl|CDD|224410 COG1493, HprK, Serine kinase of the HPr protein, regulates
carbohydrate metabolism [Signal transduction
mechanisms].
Length = 308
Score = 27.2 bits (61), Expect = 0.73
Identities = 9/13 (69%), Positives = 11/13 (84%)
Query: 40 ILCTGESGAGKTE 52
+L TG SGAGK+E
Sbjct: 148 VLITGPSGAGKSE 160
>gnl|CDD|233584 TIGR01817, nifA, Nif-specific regulatory protein. This model
represents NifA, a DNA-binding regulatory protein for
nitrogen fixation. The model produces scores between the
trusted and noise cutoffs for a well-described NifA
homolog in Aquifex aeolicus (which lacks nitrogenase),
for transcriptional activators of alternative
nitrogenases (VFe or FeFe instead of MoFe), and
truncated forms [Central intermediary metabolism,
Nitrogen fixation, Regulatory functions, DNA
interactions].
Length = 534
Score = 27.0 bits (60), Expect = 0.85
Identities = 17/42 (40%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 28 DQVYLSDREDQSILCTGESGAGKTENTKKVIQYLAYVAASKP 69
DQ + R + ++L GESG GK E K I YL+ A +P
Sbjct: 210 DQARVVARSNSTVLLRGESGTGK-ELIAKAIHYLS-PRAKRP 249
>gnl|CDD|238899 cd01918, HprK_C, HprK/P, the bifunctional histidine-containing
protein kinase/phosphatase, controls the
phosphorylation state of the phosphocarrier protein HPr
and regulates the utilization of carbon sources by
gram-positive bacteria. It catalyzes both the
ATP-dependent phosphorylation of Ser-46 of HPr and its
dephosphorylation by phosphorolysis. The latter
reaction uses inorganic phosphate as substrate and
produces pyrophosphate. Phosphoenolpyruvate
carboxykinase (PEPCK) and the C-terminal catalytic
domain of HprK/P are structurally similar with
conserved active site residues suggesting these two
phosphotransferases have related functions. The HprK/P
N-terminal domain is structurally similar to the
N-terminal domains of the MurE and MurF amino acid
ligases.
Length = 149
Score = 26.8 bits (60), Expect = 0.99
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 40 ILCTGESGAGKTE 52
+L TG SG GK+E
Sbjct: 17 VLITGPSGIGKSE 29
>gnl|CDD|226646 COG4178, COG4178, ABC-type uncharacterized transport system,
permease and ATPase components [General function
prediction only].
Length = 604
Score = 26.9 bits (60), Expect = 1.00
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 38 QSILCTGESGAGKT 51
+ +L TGESGAGKT
Sbjct: 420 ERLLITGESGAGKT 433
>gnl|CDD|224533 COG1618, COG1618, Predicted nucleotide kinase [Nucleotide
transport and metabolism].
Length = 179
Score = 26.9 bits (60), Expect = 1.0
Identities = 9/23 (39%), Positives = 11/23 (47%)
Query: 39 SILCTGESGAGKTENTKKVIQYL 61
I TG G GKT K+ + L
Sbjct: 7 KIFITGRPGVGKTTLVLKIAEKL 29
>gnl|CDD|236461 PRK09302, PRK09302, circadian clock protein KaiC; Reviewed.
Length = 509
Score = 26.8 bits (60), Expect = 1.0
Identities = 7/15 (46%), Positives = 9/15 (60%)
Query: 37 DQSILCTGESGAGKT 51
IL +G +G GKT
Sbjct: 273 GSIILVSGATGTGKT 287
>gnl|CDD|177952 PLN02318, PLN02318, phosphoribulokinase/uridine kinase.
Length = 656
Score = 26.7 bits (59), Expect = 1.2
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 44 GESGAGKTENTKKVIQYLAYVA 65
G SGAGKT T+KV+ ++ +A
Sbjct: 72 GPSGAGKTVFTEKVLNFMPSIA 93
>gnl|CDD|148849 pfam07475, Hpr_kinase_C, HPr Serine kinase C-terminal domain.
This family represents the C terminal kinase domain of
Hpr Serine/threonine kinase PtsK. This kinase is the
sensor in a multicomponent phosphorelay system in
control of carbon catabolic repression in bacteria.
This kinase in unusual in that it recognises the
tertiary structure of its target and is a member of a
novel family unrelated to any previously described
protein phosphorylating enzymes. X-ray analysis of the
full-length crystalline enzyme from Staphylococcus
xylosus at a resolution of 1.95 A shows the enzyme to
consist of two clearly separated domains that are
assembled in a hexameric structure resembling a
three-bladed propeller.
Length = 171
Score = 26.6 bits (60), Expect = 1.3
Identities = 9/13 (69%), Positives = 11/13 (84%)
Query: 40 ILCTGESGAGKTE 52
+L TGESG GK+E
Sbjct: 21 VLITGESGIGKSE 33
>gnl|CDD|132060 TIGR03015, pepcterm_ATPase, putative secretion ATPase, PEP-CTERM
locus subfamily. Members of this protein are marked as
probable ATPases by the nucleotide binding P-loop motif
GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of
helicases, and extensive homology to ATPases of
MSHA-type pilus systems and to GspA proteins associated
with type II protein secretion systems [Protein fate,
Protein and peptide secretion and trafficking].
Length = 269
Score = 26.6 bits (59), Expect = 1.3
Identities = 14/20 (70%), Positives = 14/20 (70%), Gaps = 1/20 (5%)
Query: 32 LSDREDQSILCTGESGAGKT 51
LS RE IL TGE GAGKT
Sbjct: 39 LSQREG-FILITGEVGAGKT 57
>gnl|CDD|237870 PRK14964, PRK14964, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 491
Score = 26.3 bits (58), Expect = 1.5
Identities = 10/14 (71%), Positives = 10/14 (71%)
Query: 38 QSILCTGESGAGKT 51
QSIL G SG GKT
Sbjct: 36 QSILLVGASGVGKT 49
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 26.5 bits (58), Expect = 1.6
Identities = 14/44 (31%), Positives = 22/44 (50%), Gaps = 4/44 (9%)
Query: 25 GGPDQVYLSDREDQSILCTGESGAGKTENTKKVIQYLAYVAASK 68
+Q+ + + ++ L GE+G GKT +IQYLA K
Sbjct: 452 WLLEQLLWNIQNNEPTLLVGETGTGKT----TMIQYLALKLHFK 491
>gnl|CDD|221803 pfam12846, AAA_10, AAA-like domain. This family of domains
contain a P-loop motif that is characteristic of the
AAA superfamily. Many of the proteins in this family
are conjugative transfer proteins.
Length = 316
Score = 26.2 bits (58), Expect = 1.6
Identities = 11/39 (28%), Positives = 17/39 (43%), Gaps = 4/39 (10%)
Query: 39 SILCTGESGAGKTENTKK----VIQYLAYVAASKPKGSS 73
++L G SG+GK+ K ++ V PKG
Sbjct: 3 NMLIVGPSGSGKSTLLKLLALRLLARGGRVIVIDPKGEY 41
>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 = 26.2 bits (57), Expect = 1.6
Identities = 8/24 (33%), Positives = 13/24 (54%)
Query: 38 QSILCTGESGAGKTENTKKVIQYL 61
+ IL G G+GKT + + + L
Sbjct: 3 EVILIVGPPGSGKTTLARALAREL 26
>gnl|CDD|219536 pfam07724, AAA_2, AAA domain (Cdc48 subfamily). This Pfam entry
includes some of the AAA proteins not detected by the
pfam00004 model.
Length = 168
Score = 26.0 bits (58), Expect = 1.7
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 39 SILCTGESGAGKTENTKKVIQYL 61
S L G +G GKTE K + + L
Sbjct: 5 SFLFLGPTGVGKTELAKALAELL 27
>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 = 26.0 bits (57), Expect = 1.7
Identities = 8/35 (22%), Positives = 14/35 (40%)
Query: 29 QVYLSDREDQSILCTGESGAGKTENTKKVIQYLAY 63
+ L +++L G G GKT + + L
Sbjct: 11 REALELPPPKNLLLYGPPGTGKTTLARAIANELFR 45
>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 = 26.0 bits (57), Expect = 1.8
Identities = 9/14 (64%), Positives = 10/14 (71%)
Query: 38 QSILCTGESGAGKT 51
S+L TG SG GKT
Sbjct: 25 PSVLLTGPSGTGKT 38
>gnl|CDD|224142 COG1221, PspF, Transcriptional regulators containing an AAA-type
ATPase domain and a DNA-binding domain [Transcription /
Signal transduction mechanisms].
Length = 403
Score = 26.2 bits (58), Expect = 1.9
Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 37 DQSILCTGESGAGKTENTKKVIQYLAYVAASKPK 70
+L GE+G GK E ++I L+ A P
Sbjct: 101 GLPVLIIGETGTGK-ELFARLIHALSARRAEAPF 133
>gnl|CDD|235459 PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional.
Length = 308
Score = 25.9 bits (58), Expect = 2.2
Identities = 9/13 (69%), Positives = 11/13 (84%)
Query: 40 ILCTGESGAGKTE 52
+L TGESG GK+E
Sbjct: 149 VLITGESGIGKSE 161
>gnl|CDD|216186 pfam00910, RNA_helicase, RNA helicase. This family includes RNA
helicases thought to be involved in duplex unwinding
during viral RNA replication. Members of this family
are found in a variety of single stranded RNA viruses.
Length = 105
Score = 25.3 bits (56), Expect = 2.3
Identities = 9/33 (27%), Positives = 12/33 (36%)
Query: 40 ILCTGESGAGKTENTKKVIQYLAYVAASKPKGS 72
I G G GK+ K + + L K S
Sbjct: 1 IWLYGPPGCGKSTLAKYLARALLKHLGLPKKDS 33
>gnl|CDD|214361 CHL00095, clpC, Clp protease ATP binding subunit.
Length = 821
Score = 25.8 bits (57), Expect = 2.3
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 39 SILCTGESGAGKTENTKKVIQYL 61
S L +G +G GKTE TK + Y
Sbjct: 541 SFLFSGPTGVGKTELTKALASYF 563
>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ
chaperones [Posttranslational modification, protein
turnover, chaperones].
Length = 786
Score = 25.7 bits (57), Expect = 2.9
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 39 SILCTGESGAGKTENTKKVIQYL 61
S L G +G GKTE K + + L
Sbjct: 523 SFLFLGPTGVGKTELAKALAEAL 545
>gnl|CDD|233088 TIGR00679, hpr-ser, Hpr(Ser) kinase/phosphatase. Members of this
family are the bifunctional enzyme, HPr
kinase/phosphatase. All members of the seed alignment
(n=57) have a gene tightly clustered with a gene for the
phospocarrier protein HPr, its target [Regulatory
functions, Protein interactions, Signal transduction,
PTS].
Length = 300
Score = 25.5 bits (57), Expect = 3.1
Identities = 9/13 (69%), Positives = 11/13 (84%)
Query: 40 ILCTGESGAGKTE 52
+L TGESG GK+E
Sbjct: 146 VLITGESGIGKSE 158
>gnl|CDD|219158 pfam06745, KaiC, KaiC. This family represents a conserved region
within bacterial and archaeal proteins, most of which
are hypothetical. More than one copy is sometimes found
in each protein. This family includes KaiC, which is
one of the Kai proteins among which direct
protein-protein association may be a critical process
in the generation of circadian rhythms in
cyanobacteria.
Length = 231
Score = 25.3 bits (56), Expect = 3.2
Identities = 7/16 (43%), Positives = 9/16 (56%)
Query: 36 EDQSILCTGESGAGKT 51
+ +L TG G GKT
Sbjct: 18 RGRVVLITGGPGTGKT 33
>gnl|CDD|131806 TIGR02759, TraD_Ftype, type IV conjugative transfer system coupling
protein TraD. The TraD protein performs an essential
coupling function in conjugative type IV secretion
systems. This protein sits at the inner membrane in
contact with the assembled pilus and its scaffold as
well as the relaxosome-plasmid DNA complex (through
TraM).
Length = 566
Score = 25.4 bits (56), Expect = 3.4
Identities = 9/26 (34%), Positives = 18/26 (69%)
Query: 36 EDQSILCTGESGAGKTENTKKVIQYL 61
E Q IL G +G+GK+ +K+++++
Sbjct: 175 ETQHILIHGTTGSGKSVAIRKLLRWI 200
>gnl|CDD|213190 cd03223, ABCD_peroxisomal_ALDP, ATP-binding cassette domain of
peroxisomal transporter, subfamily D. Peroxisomal
ATP-binding cassette transporter (Pat) is involved in
the import of very long-chain fatty acids (VLCFA) into
the peroxisome. The peroxisomal membrane forms a
permeability barrier for a wide variety of metabolites
required for and formed during fatty acid
beta-oxidation. To communicate with the cytoplasm and
mitochondria, peroxisomes need dedicated proteins to
transport such hydrophilic molecules across their
membranes. X-linked adrenoleukodystrophy (X-ALD) is
caused by mutations in the ALD gene, which encodes ALDP
(adrenoleukodystrophy protein ), a peroxisomal integral
membrane protein that is a member of the ATP-binding
cassette (ABC) transporter protein family. The disease
is characterized by a striking and unpredictable
variation in phenotypic expression. Phenotypes include
the rapidly progressive childhood cerebral form
(CCALD), the milder adult form, adrenomyeloneuropathy
(AMN), and variants without neurologic involvement
(i.e. asymptomatic).
Length = 166
Score = 25.2 bits (56), Expect = 3.5
Identities = 7/14 (50%), Positives = 9/14 (64%)
Query: 38 QSILCTGESGAGKT 51
+L TG SG GK+
Sbjct: 28 DRLLITGPSGTGKS 41
>gnl|CDD|215758 pfam00158, Sigma54_activat, Sigma-54 interaction domain.
Length = 168
Score = 25.0 bits (56), Expect = 3.7
Identities = 9/15 (60%), Positives = 11/15 (73%)
Query: 37 DQSILCTGESGAGKT 51
D ++L TGESG GK
Sbjct: 22 DATVLITGESGTGKE 36
>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 = 25.2 bits (56), Expect = 3.9
Identities = 7/13 (53%), Positives = 10/13 (76%)
Query: 39 SILCTGESGAGKT 51
+I+ GESG GK+
Sbjct: 6 NIMVVGESGLGKS 18
>gnl|CDD|234401 TIGR03925, T7SS_EccC_b, type VII secretion protein EccCb. This
model represents the C-terminal domain or EccCb subunit
of the type VII secretion protein EccC as found in the
Actinobacteria. Type VII secretion is defined more
broadly as including secretion systems for ESAT-6-like
proteins in the Firmicutes as well as in the
Actinobacteria, but this family does not show close
homologs in the Firmicutes [Protein fate, Protein and
peptide secretion and trafficking].
Length = 566
Score = 25.3 bits (56), Expect = 4.0
Identities = 15/64 (23%), Positives = 20/64 (31%), Gaps = 18/64 (28%)
Query: 4 RSAYQVYLIPDEHIHYEVDLTGGPDQ----------------VYLSDREDQSILCTGESG 47
A V L+P + L VYL E +L G+S
Sbjct: 316 PPAPPVRLLP-ARLPLS-ALPARGGAPRLRVPLGIGESDLAPVYLDFAESPHLLVFGDSE 373
Query: 48 AGKT 51
+GKT
Sbjct: 374 SGKT 377
>gnl|CDD|238672 cd01376, KISc_KID_like, Kinesin motor domain, KIF22/Kid-like
subgroup. Members of this group might play a role in
regulating chromosomal movement along microtubules in
mitosis. This catalytic (head) domain has ATPase
activity and belongs to the larger group of P-loop
NTPases. Kinesins are microtubule-dependent molecular
motors that play important roles in intracellular
transport and in cell division. In most kinesins, the
motor domain is found at the N-terminus (N-type).
N-type kinesins are (+) end-directed motors, i.e. they
transport cargo towards the (+) end of the microtubule.
Kinesin motor domains hydrolyze ATP at a rate of about
80 per second, and move along the microtubule at a
speed of about 6400 Angstroms per second. To achieve
that, kinesin head groups work in pairs. Upon replacing
ADP with ATP, a kinesin motor domain increases its
affinity for microtubule binding and locks in place.
Also, the neck linker binds to the motor domain, which
repositions the other head domain through the
coiled-coil domain close to a second tubulin dimer,
about 80 Angstroms along the microtubule. Meanwhile,
ATP hydrolysis takes place, and when the second head
domain binds to the microtubule, the first domain again
replaces ADP with ATP, triggering a conformational
change that pulls the first domain forward.
Length = 319
Score = 25.1 bits (55), Expect = 4.3
Identities = 6/15 (40%), Positives = 10/15 (66%)
Query: 37 DQSILCTGESGAGKT 51
+ ++ G +GAGKT
Sbjct: 81 NATVFAYGSTGAGKT 95
>gnl|CDD|225114 COG2204, AtoC, Response regulator containing CheY-like receiver,
AAA-type ATPase, and DNA-binding domains [Signal
transduction mechanisms].
Length = 464
Score = 25.0 bits (55), Expect = 4.4
Identities = 10/14 (71%), Positives = 11/14 (78%)
Query: 37 DQSILCTGESGAGK 50
D S+L TGESG GK
Sbjct: 164 DASVLITGESGTGK 177
>gnl|CDD|234063 TIGR02928, TIGR02928, orc1/cdc6 family replication initiation
protein. Members of this protein family are found
exclusively in the archaea. This set of DNA binding
proteins shows homology to the origin recognition
complex subunit 1/cell division control protein 6
family in eukaryotes. Several members may be found in
genome and interact with each other [DNA metabolism,
DNA replication, recombination, and repair].
Length = 365
Score = 24.9 bits (55), Expect = 4.5
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 39 SILCTGESGAGKTENTKKVIQYLAYVAASK 68
++ G++G GKT TK V++ L A +
Sbjct: 42 NVFIYGKTGTGKTAVTKYVMKELEEAAEDR 71
>gnl|CDD|226350 COG3829, RocR, Transcriptional regulator containing PAS, AAA-type
ATPase, and DNA-binding domains [Transcription / Signal
transduction mechanisms].
Length = 560
Score = 25.0 bits (55), Expect = 4.5
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 37 DQSILCTGESGAGK 50
D ++L GESG GK
Sbjct: 268 DSTVLILGESGTGK 281
>gnl|CDD|219014 pfam06414, Zeta_toxin, Zeta toxin. This family consists of
several bacterial zeta toxin proteins. Zeta toxin is
thought to be part of a postregulational killing system
in bacteria. It relies on antitoxin/toxin systems that
secure stable inheritance of low and medium copy number
plasmids during cell division and kill cells that have
lost the plasmid.
Length = 191
Score = 24.9 bits (55), Expect = 4.7
Identities = 12/37 (32%), Positives = 20/37 (54%), Gaps = 4/37 (10%)
Query: 31 YLSDREDQ----SILCTGESGAGKTENTKKVIQYLAY 63
SD+ Q ++L G+ GAGKTE + +++ L
Sbjct: 2 LFSDKPPQERPVAVLLGGQPGAGKTELARALLEELGG 38
>gnl|CDD|237727 PRK14489, PRK14489, putative bifunctional molybdopterin-guanine
dinucleotide biosynthesis protein MobA/MobB;
Provisional.
Length = 366
Score = 25.1 bits (55), Expect = 5.1
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 43 TGESGAGKTENTKKVIQYL 61
G SG GKT +K+I L
Sbjct: 211 VGYSGTGKTTLLEKLIPEL 229
>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 = 25.1 bits (55), Expect = 5.2
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 35 REDQSILCTGESGAGKTENTKKV 57
E+Q ++ GE+G+GKT K+
Sbjct: 80 AENQVVIIAGETGSGKTTQLPKI 102
>gnl|CDD|182986 PRK11131, PRK11131, ATP-dependent RNA helicase HrpA; Provisional.
Length = 1294
Score = 24.6 bits (54), Expect = 5.8
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 35 REDQSILCTGESGAGKTENTKKV 57
R+ Q ++ GE+G+GKT K+
Sbjct: 87 RDHQVVIVAGETGSGKTTQLPKI 109
>gnl|CDD|213208 cd03241, ABC_RecN, ATP-binding cassette domain of RecN. RecN
ATPase involved in DNA repair; similar to ABC
(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 including 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 = 276
Score = 24.5 bits (54), Expect = 6.1
Identities = 7/8 (87%), Positives = 8/8 (100%)
Query: 43 TGESGAGK 50
TGE+GAGK
Sbjct: 27 TGETGAGK 34
>gnl|CDD|223571 COG0497, RecN, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 557
Score = 24.5 bits (54), Expect = 7.8
Identities = 7/9 (77%), Positives = 9/9 (100%)
Query: 43 TGESGAGKT 51
TGE+GAGK+
Sbjct: 28 TGETGAGKS 36
>gnl|CDD|99781 cd06184, flavohem_like_fad_nad_binding, FAD_NAD(P)H binding domain
of flavohemoglobin. Flavohemoglobins have a globin
domain containing a B-type heme fused with a ferredoxin
reductase-like FAD/NAD-binding domain. Flavohemoglobins
detoxify nitric oxide (NO) via an NO dioxygenase
reaction. The hemoglobin domain adopts a globin fold
with an embedded heme molecule. Flavohemoglobins also
have a C-terminal reductase domain with bindiing sites
for FAD and NAD(P)H. This domain catalyzes the
conversion of NO + O2 + NAD(P)H to NO3- + NAD(P)+.
Instead of the oxygen transport function of hemoglobins,
flavohemoglobins seem to act in NO dioxygenation and NO
signalling.
Length = 247
Score = 24.4 bits (54), Expect = 8.0
Identities = 7/10 (70%), Positives = 8/10 (80%)
Query: 12 IPDEHIHYEV 21
+P E IHYEV
Sbjct: 233 VPAERIHYEV 242
>gnl|CDD|224162 COG1241, MCM2, Predicted ATPase involved in replication control,
Cdc46/Mcm family [DNA replication, recombination, and
repair].
Length = 682
Score = 24.2 bits (53), Expect = 8.2
Identities = 14/42 (33%), Positives = 19/42 (45%)
Query: 34 DREDQSILCTGESGAGKTENTKKVIQYLAYVAASKPKGSSTA 75
R D IL G+ G K++ K V + + KGSS A
Sbjct: 316 IRGDIHILLVGDPGTAKSQLLKYVAKLAPRGVYTSGKGSSAA 357
>gnl|CDD|178218 PLN02608, PLN02608, L-ascorbate peroxidase.
Length = 289
Score = 24.3 bits (53), Expect = 8.4
Identities = 13/41 (31%), Positives = 23/41 (56%), Gaps = 4/41 (9%)
Query: 21 VDLTGGPDQVYLSDREDQSILCTGESGAGKTENTKKVIQYL 61
V++TGGP ++ R+D + C E G+ + KK ++L
Sbjct: 103 VEVTGGPTIDFVPGRKDSNA-CPEE---GRLPDAKKGAKHL 139
>gnl|CDD|234425 TIGR03974, rSAM_six_Cys, SCIFF radical SAM maturase. Members of
this protein family are predicted radical SAM enzymes
universally associated with Six Cysteines in Forty-Five
protein, or SCIFF (family TIGR03973), a predicted
ribosomal natural product precursor that is nearly
universal in the class Clostridia. Similarity of this
family to radical SAM maturases (PqqE and subtilosin A
maturase) found in the vicinity of other peptide
precursors suggests this protein is the SCIFF radical
SAM maturase [Cellular processes, Biosynthesis of
natural products].
Length = 451
Score = 24.1 bits (53), Expect = 8.8
Identities = 7/10 (70%), Positives = 9/10 (90%)
Query: 18 HYEVDLTGGP 27
H+ +DLTGGP
Sbjct: 329 HFMIDLTGGP 338
>gnl|CDD|233857 TIGR02412, pepN_strep_liv, aminopeptidase N, Streptomyces
lividans type. This family is a subset of the members
of the zinc metallopeptidase family M1 (pfam01433),
with a single member characterized in Streptomyces
lividans 66 and designated aminopeptidase N. The
spectrum of activity may differ somewhat from the
aminopeptidase N clade of E. coli and most other
Proteobacteria, well separated phylogenetically within
the M1 family. The M1 family also includes leukotriene
A-4 hydrolase/aminopeptidase (with a bifunctional
active site).
Length = 831
Score = 24.4 bits (53), Expect = 8.9
Identities = 9/27 (33%), Positives = 13/27 (48%), Gaps = 4/27 (14%)
Query: 2 STRSAYQVYLIPDEHIHYEVDLTGGPD 28
R++ LI EH +DLTG +
Sbjct: 8 RLRAS----LITVEHYEIALDLTGADE 30
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
0.309 0.127 0.357
Gapped
Lambda K H
0.267 0.0534 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,752,066
Number of extensions: 270066
Number of successful extensions: 431
Number of sequences better than 10.0: 1
Number of HSP's gapped: 431
Number of HSP's successfully gapped: 68
Length of query: 79
Length of database: 10,937,602
Length adjustment: 48
Effective length of query: 31
Effective length of database: 8,808,610
Effective search space: 273066910
Effective search space used: 273066910
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 53 (24.6 bits)