RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7658
(114 letters)
>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 = 170 bits (433), Expect = 3e-51
Identities = 68/114 (59%), Positives = 92/114 (80%), Gaps = 1/114 (0%)
Query: 1 MYDMYGLDMVKKYEGQILGTLSPHLFAIGSAAYSALATSG-NQVVVISGESGSGKTECTK 59
M+ +YG + V++Y G+ LG PHLFAI + A++ + + NQ V+ISGESGSGKTE TK
Sbjct: 46 MFPIYGPEQVQQYAGRALGENPPHLFAIANLAFAKMLDAKQNQCVIISGESGSGKTEATK 105
Query: 60 LVMQYLAAVNKSPSNLITEQILEASPLLESFGNAKTVRNDNSSRFGKFLQVHFK 113
L+++YLAA+N+ S +ITEQILEA+PLLE+FGNAKTVRNDNSSRFGKF+++ +
Sbjct: 106 LILRYLAAMNQGGSAVITEQILEATPLLEAFGNAKTVRNDNSSRFGKFVEIFLE 159
>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 = 170 bits (432), Expect = 6e-51
Identities = 60/113 (53%), Positives = 84/113 (74%), Gaps = 3/113 (2%)
Query: 5 YGLDMVKKYEGQILGTLSPHLFAIGSAAYSALATSG-NQVVVISGESGSGKTECTKLVMQ 63
Y +++KKY G+ G L PH+FAI AY + NQ ++ISGESG+GKTE TK +MQ
Sbjct: 55 YTDEVIKKYRGKSRGELPPHVFAIADNAYRNMLNDKENQSIIISGESGAGKTENTKKIMQ 114
Query: 64 YLAAVNKSPS--NLITEQILEASPLLESFGNAKTVRNDNSSRFGKFLQVHFKE 114
YLA+V+ S + + +QILE++P+LE+FGNAKT+RN+NSSRFGKF+++HF
Sbjct: 115 YLASVSGSNTEVGSVEDQILESNPILEAFGNAKTLRNNNSSRFGKFIEIHFDA 167
>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 = 161 bits (409), Expect = 9e-48
Identities = 59/109 (54%), Positives = 80/109 (73%), Gaps = 1/109 (0%)
Query: 5 YGLDMVKKYEGQILGTLSPHLFAIGSAAYSAL-ATSGNQVVVISGESGSGKTECTKLVMQ 63
YG + ++KY G+ L PH+FAI AY + NQ ++ISGESG+GKTE TKL+M+
Sbjct: 49 YGPETIRKYRGKSRSELPPHVFAIADRAYRNMLRDRRNQSIIISGESGAGKTENTKLIMK 108
Query: 64 YLAAVNKSPSNLITEQILEASPLLESFGNAKTVRNDNSSRFGKFLQVHF 112
YLA++ S I E+IL A+P+LE+FGNAKTVRN+NSSRFGKF+++ F
Sbjct: 109 YLASLAGSNDTGIEEKILAANPILEAFGNAKTVRNNNSSRFGKFIELQF 157
>gnl|CDD|227355 COG5022, COG5022, Myosin heavy chain [Cytoskeleton].
Length = 1463
Score = 152 bits (385), Expect = 4e-44
Identities = 59/116 (50%), Positives = 81/116 (69%), Gaps = 4/116 (3%)
Query: 3 DMYGLDMVKKYEGQILGTLSPHLFAIGSAAYSALATSG-NQVVVISGESGSGKTECTKLV 61
+Y D+++ Y G+ L PH+FAI AY L + NQ ++ISGESG+GKTE K +
Sbjct: 113 GIYTDDIIQSYSGKNRLELEPHVFAIAEEAYRNLLSEKENQTIIISGESGAGKTENAKRI 172
Query: 62 MQYLAAVNKSPSNLIT---EQILEASPLLESFGNAKTVRNDNSSRFGKFLQVHFKE 114
MQYLA+V S + I+ +QIL +P+LE+FGNAKTVRNDNSSRFGK++++ F E
Sbjct: 173 MQYLASVTSSSTVEISSIEKQILATNPILEAFGNAKTVRNDNSSRFGKYIKIEFDE 228
>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 = 150 bits (381), Expect = 7e-44
Identities = 58/115 (50%), Positives = 87/115 (75%), Gaps = 4/115 (3%)
Query: 4 MYGLDMVKKYEGQILGTLSPHLFAIGSAAYSALATSG-NQVVVISGESGSGKTECTKLVM 62
+Y + M+++Y+G LG LSPH+FAI AAY A+ G +Q +++SGESG+GKTE TK++M
Sbjct: 50 LYDVHMMEQYKGAALGELSPHVFAIADAAYRAMINEGKSQSILVSGESGAGKTETTKMLM 109
Query: 63 QYLAAVNKSPSNL---ITEQILEASPLLESFGNAKTVRNDNSSRFGKFLQVHFKE 114
+YLA + + +Q+LE++P+LE+FGNAKTVRN+NSSRFGKF+++ F +
Sbjct: 110 RYLAYMGGRAGVEGRTVEQQVLESNPVLEAFGNAKTVRNNNSSRFGKFVEIQFDD 164
>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 = 147 bits (373), Expect = 1e-42
Identities = 51/113 (45%), Positives = 79/113 (69%), Gaps = 3/113 (2%)
Query: 3 DMYGLDMVKKYEGQILGTLSPHLFAIGSAAYSALATSG-NQVVVISGESGSGKTECTKLV 61
+Y + ++ Y+G+ L PH++A+ AY ++ + NQ V+ISGESG+GKTE K +
Sbjct: 47 PIYTDETIELYKGKSRYELPPHIYALADNAYRSMKSENENQCVIISGESGAGKTEAAKKI 106
Query: 62 MQYLAAV--NKSPSNLITEQILEASPLLESFGNAKTVRNDNSSRFGKFLQVHF 112
MQY+AAV + + IL+++PLLE+FGNAKT+RN+NSSRFGK++++ F
Sbjct: 107 MQYIAAVSGGGQKVERVKDVILQSNPLLEAFGNAKTLRNNNSSRFGKYMEIQF 159
>gnl|CDD|215687 pfam00063, Myosin_head, Myosin head (motor domain).
Length = 679
Score = 145 bits (369), Expect = 4e-42
Identities = 57/114 (50%), Positives = 80/114 (70%), Gaps = 4/114 (3%)
Query: 3 DMYGLDMVKKYEGQILGTLSPHLFAIGSAAY-SALATSGNQVVVISGESGSGKTECTKLV 61
+Y + + +Y G+ G L PH+FA+ AY L NQ +VISGESG+GKTE TK +
Sbjct: 46 PIYTEEPIGEYRGKRRGELPPHIFALADRAYRHMLRDKENQCIVISGESGAGKTENTKKL 105
Query: 62 MQYLAAV---NKSPSNLITEQILEASPLLESFGNAKTVRNDNSSRFGKFLQVHF 112
MQYLA+V S + +QIL+++P+LE+FGNAKT+RN+NSSRFGKF+++ F
Sbjct: 106 MQYLASVSGSTPSAVGPLEDQILQSNPILEAFGNAKTLRNNNSSRFGKFIEIQF 159
>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 = 145 bits (368), Expect = 4e-42
Identities = 61/112 (54%), Positives = 85/112 (75%), Gaps = 2/112 (1%)
Query: 4 MYGLDMVKKYEGQILGTLSPHLFAIGSAAYSALATSG-NQVVVISGESGSGKTECTKLVM 62
+Y D +K Y+ + +G L PH+FAI AY+ + NQ ++ISGESG+GKTE TKL++
Sbjct: 48 IYTADEIKLYKNKSIGELPPHIFAISDNAYTNMQREKKNQCIIISGESGAGKTESTKLIL 107
Query: 63 QYLAAVNKSPSNLITEQILEASPLLESFGNAKTVRNDNSSRFGKFLQVHFKE 114
QYLAA++ S I +QILEA+P+LE+FGNAKT+RNDNSSRFGK++ +HF +
Sbjct: 108 QYLAAISGKHS-WIEQQILEANPILEAFGNAKTIRNDNSSRFGKYIDIHFNK 158
>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 = 140 bits (355), Expect = 3e-40
Identities = 57/118 (48%), Positives = 81/118 (68%), Gaps = 10/118 (8%)
Query: 5 YGLDMVKKYEGQILGTLSPHLFAIGSAAYSALATSG-NQVVVISGESGSGKTECTKLVMQ 63
Y ++V+ Y G+ + PH+FAI AY ++ NQ ++I+GESG+GKTE TK V+Q
Sbjct: 54 YTEEVVEMYRGKKREEMPPHIFAIADNAYRSMLQDRENQSILITGESGAGKTENTKKVIQ 113
Query: 64 YLAAV---------NKSPSNLITEQILEASPLLESFGNAKTVRNDNSSRFGKFLQVHF 112
YLA+V + + +QIL+A+P+LE+FGNAKTVRNDNSSRFGKF+++HF
Sbjct: 114 YLASVAASSKKKKQSGKGQGTLEDQILQANPILEAFGNAKTVRNDNSSRFGKFIRIHF 171
>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 = 140 bits (355), Expect = 4e-40
Identities = 53/118 (44%), Positives = 79/118 (66%), Gaps = 6/118 (5%)
Query: 3 DMYGLDMVKKYEGQILGTLSPHLFAIGSAAYSALAT-SGNQVVVISGESGSGKTECTKLV 61
+YG ++++ Y GQ G L PH+FAI AY + NQ +++SGESG+GKT K +
Sbjct: 47 PIYGEEIIQAYSGQRKGELDPHIFAIAEEAYKQMTRDEKNQSIIVSGESGAGKTVSAKYI 106
Query: 62 MQYLAAVNKSPSNL-----ITEQILEASPLLESFGNAKTVRNDNSSRFGKFLQVHFKE 114
M+Y A+V S S + E++L ++P++E+FGNAKT RNDNSSRFGK++Q+ F +
Sbjct: 107 MRYFASVGGSDSREVSETQVEEKVLASNPIMEAFGNAKTTRNDNSSRFGKYIQILFDK 164
>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 = 137 bits (348), Expect = 3e-39
Identities = 60/113 (53%), Positives = 83/113 (73%), Gaps = 2/113 (1%)
Query: 3 DMYGLDMVKKYEGQILGTLSPHLFAIGSAAYSALATSG-NQVVVISGESGSGKTECTKLV 61
+Y D +KKY+G+ LGTL PH+FAI AY + +Q +++SGESG+GKTE TK V
Sbjct: 52 KLYSSDTIKKYQGKSLGTLPPHVFAIADKAYRDMKVLKMSQSIIVSGESGAGKTENTKFV 111
Query: 62 MQYLAAVNKSPSNLITEQILEASPLLESFGNAKTVRNDNSSRFGKFLQVHFKE 114
++YL + I ++I+EA+PLLE+FGNAKTVRN+NSSRFGKF+++HF E
Sbjct: 112 LRYLTE-SYGSGQDIDDRIVEANPLLEAFGNAKTVRNNNSSRFGKFVEIHFNE 163
>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 = 121 bits (305), Expect = 2e-33
Identities = 54/112 (48%), Positives = 77/112 (68%), Gaps = 5/112 (4%)
Query: 4 MYGLDMVKKYEGQILGTLSPHLFAIGSAAYSALATSG-NQVVVISGESGSGKTECTKLVM 62
+YG D ++ Y + SPH++AI AY+ + NQ ++ISGESG+GKTE K+ M
Sbjct: 56 LYGNDYIEAYRKKSND--SPHVYAIADTAYNEMMRDEVNQSIIISGESGAGKTETAKIAM 113
Query: 63 QYLAAVNKSPSNLITEQILEASPLLESFGNAKTVRNDNSSRFGKFLQVHFKE 114
QYLA++ + I +IL+ +P+LE+FGNAKT RNDNSSRFGK +++HF E
Sbjct: 114 QYLASLGGG--SGIEYEILQTNPILEAFGNAKTSRNDNSSRFGKLIEIHFSE 163
>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 = 112 bits (282), Expect = 2e-30
Identities = 60/115 (52%), Positives = 78/115 (67%), Gaps = 4/115 (3%)
Query: 4 MYGLDMVKKYEGQ-ILGTLSPHLFAIGSAAY-SALATSGNQVVVISGESGSGKTECTKLV 61
+Y V+ YE Q LG L PH+FAI AY + L NQ +VISGESGSGKTE T +
Sbjct: 55 IYNPKYVRLYENQQRLGKLPPHIFAIADVAYYNMLRKKVNQCIVISGESGSGKTESTNFL 114
Query: 62 MQYLAAVN-KSPSNLITEQ-ILEASPLLESFGNAKTVRNDNSSRFGKFLQVHFKE 114
+ +L A++ K + EQ IL A P+LE+FGNAKT N+NSSRFGKF+QV+++E
Sbjct: 115 IHHLTALSQKGYAGSGVEQTILSAGPVLEAFGNAKTAHNNNSSRFGKFIQVNYRE 169
>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 = 111 bits (279), Expect = 7e-30
Identities = 52/110 (47%), Positives = 75/110 (68%), Gaps = 1/110 (0%)
Query: 4 MYGLDMVKKYEGQILGTLSPHLFAIGSAAYSALAT-SGNQVVVISGESGSGKTECTKLVM 62
+Y + Y GQ + PH+FAI AAY +L T + +Q +VISGESGSGKTE L++
Sbjct: 48 LYTTQHSRLYTGQKRSSNPPHIFAIADAAYQSLVTYNQDQCIVISGESGSGKTESAHLLV 107
Query: 63 QYLAAVNKSPSNLITEQILEASPLLESFGNAKTVRNDNSSRFGKFLQVHF 112
Q L + K+ + + E+IL+ + L+E+FGNA+T NDNSSRFGK+L++ F
Sbjct: 108 QQLTVLGKANNRTLQEKILQVNSLVEAFGNARTGINDNSSRFGKYLEMKF 157
>gnl|CDD|240229 PTZ00014, PTZ00014, myosin-A; Provisional.
Length = 821
Score = 107 bits (270), Expect = 1e-28
Identities = 44/92 (47%), Positives = 63/92 (68%), Gaps = 2/92 (2%)
Query: 21 LSPHLFAIGSAAYSAL-ATSGNQVVVISGESGSGKTECTKLVMQYLAAVNKSPSNL-ITE 78
L PH+F A L +Q +++SGESG+GKTE TK +M+Y A+ +L I
Sbjct: 162 LPPHVFTTARRALENLHGVKKSQTIIVSGESGAGKTEATKQIMRYFASSKSGNMDLKIQN 221
Query: 79 QILEASPLLESFGNAKTVRNDNSSRFGKFLQV 110
I+ A+P+LE+FGNAKT+RN+NSSRFG+F+Q+
Sbjct: 222 AIMAANPVLEAFGNAKTIRNNNSSRFGRFMQL 253
>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 = 66.0 bits (161), Expect = 6e-14
Identities = 32/94 (34%), Positives = 53/94 (56%), Gaps = 2/94 (2%)
Query: 21 LSPHLFAIGSAAYSA-LATSGNQVVVISGESGSGKTECTKLVMQYLAAVNKSPSNLIT-E 78
+ PH++++ AY A L T +Q ++ G SG+GKT K ++YLA S ++ E
Sbjct: 65 MPPHIYSLAQTAYRALLETRRDQSIIFLGRSGAGKTTSCKHALEYLALAAGSVDGRVSVE 124
Query: 79 QILEASPLLESFGNAKTVRNDNSSRFGKFLQVHF 112
++ +LE+FGN T N N++RF + L + F
Sbjct: 125 KVRALFTILEAFGNVSTALNGNATRFTQILSLDF 158
>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 = 50.2 bits (120), Expect = 1e-08
Identities = 18/90 (20%), Positives = 33/90 (36%), Gaps = 6/90 (6%)
Query: 25 LFAIGSAAYSALATSGNQVVVISGESGSGKTECTKLVMQYLAAVNKSPSNLITEQILEAS 84
+F + N + G++GSGKT T + A + +++
Sbjct: 8 VFRDVGPLLQSALDGYNVCIFAYGQTGSGKT-YTMEGKREGAGIIPR----TVTDVIDLM 62
Query: 85 PLLESFG-NAKTVRNDNSSRFGKFLQVHFK 113
+ A T N++SSR ++HF
Sbjct: 63 DKGNANRTTAATAMNEHSSRSHSVFRIHFG 92
>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 = 38.2 bits (89), Expect = 4e-04
Identities = 13/19 (68%), Positives = 17/19 (89%)
Query: 37 ATSGNQVVVISGESGSGKT 55
A + NQVV+I+GE+GSGKT
Sbjct: 78 AIAENQVVIIAGETGSGKT 96
>gnl|CDD|182986 PRK11131, PRK11131, ATP-dependent RNA helicase HrpA; Provisional.
Length = 1294
Score = 36.2 bits (84), Expect = 0.002
Identities = 11/19 (57%), Positives = 16/19 (84%)
Query: 37 ATSGNQVVVISGESGSGKT 55
A +QVV+++GE+GSGKT
Sbjct: 85 AIRDHQVVIVAGETGSGKT 103
>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 = 0.005
Identities = 17/37 (45%), Positives = 21/37 (56%), Gaps = 5/37 (13%)
Query: 19 GTLSPHLFAIGSAAYSALATSGNQVVVISGESGSGKT 55
GT SP AAY LA + ++ISG +GSGKT
Sbjct: 8 GTFSPLQ-----AAYLWLAVEARKNILISGGTGSGKT 39
>gnl|CDD|224557 COG1643, HrpA, HrpA-like helicases [DNA replication,
recombination, and repair].
Length = 845
Score = 33.4 bits (77), Expect = 0.014
Identities = 15/27 (55%), Positives = 18/27 (66%), Gaps = 2/27 (7%)
Query: 41 NQVVVISGESGSGKTECTKLVMQYLAA 67
NQVV+I GE+GSGKT T+L L
Sbjct: 65 NQVVIIVGETGSGKT--TQLPQFLLEE 89
>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular
activities. AAA - ATPases associated with a variety of
cellular activities. This profile/alignment only
detects a fraction of this vast family. The poorly
conserved N-terminal helix is missing from the
alignment.
Length = 148
Score = 32.7 bits (74), Expect = 0.018
Identities = 9/31 (29%), Positives = 15/31 (48%)
Query: 41 NQVVVISGESGSGKTECTKLVMQYLAAVNKS 71
+V++I G GSGKT + + + L
Sbjct: 2 GEVILIVGPPGSGKTTLARALARELGPPGGG 32
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 32.2 bits (74), Expect = 0.022
Identities = 11/39 (28%), Positives = 18/39 (46%), Gaps = 3/39 (7%)
Query: 39 SGNQVVVISGESGSGKTECTKLVMQYLAAVNKSPSNLIT 77
G + V++GESGSGK T L+ + + +
Sbjct: 2 RGAGIGVLTGESGSGK---TTLLRRLARQLPNRRVVYVE 37
>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 = 31.8 bits (72), Expect = 0.040
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 31 AAYSALATSGNQVVVISGESGSGKT 55
A + G V+++G SG+GKT
Sbjct: 14 DALRRARSGGPPSVLLTGPSGTGKT 38
>gnl|CDD|225183 COG2274, SunT, ABC-type bacteriocin/lantibiotic exporters, contain
an N-terminal double-glycine peptidase domain [Defense
mechanisms].
Length = 709
Score = 31.8 bits (73), Expect = 0.054
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 40 GNQVVVISGESGSGKTECTKLVM 62
+ V I G SGSGK+ KL++
Sbjct: 498 PGEKVAIVGRSGSGKSTLLKLLL 520
>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 = 31.2 bits (71), Expect = 0.066
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 9/63 (14%)
Query: 42 QVVVISGESGSGKTECTKLVMQYLAAVNK-------SPSNLITEQILEASPLLESFGNAK 94
+ V+++ +GSGKT L + L K +P+ + Q+ E L E FG
Sbjct: 1 RDVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAER--LKELFGEGI 58
Query: 95 TVR 97
V
Sbjct: 59 KVG 61
>gnl|CDD|222258 pfam13604, AAA_30, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins. There is a Walker A and
Walker B.
Length = 195
Score = 31.0 bits (71), Expect = 0.069
Identities = 13/37 (35%), Positives = 20/37 (54%)
Query: 31 AAYSALATSGNQVVVISGESGSGKTECTKLVMQYLAA 67
A + TSG++V V+ G +G+GKT K + A
Sbjct: 8 EAVRHVLTSGDRVAVVQGPAGTGKTTSLKAAREAWEA 44
>gnl|CDD|222005 pfam13245, AAA_19, Part of AAA domain.
Length = 73
Score = 29.6 bits (67), Expect = 0.096
Identities = 12/36 (33%), Positives = 18/36 (50%)
Query: 36 LATSGNQVVVISGESGSGKTECTKLVMQYLAAVNKS 71
A SG + V+ G G+GKT ++ L A +S
Sbjct: 5 AAASGRSLFVVDGGPGTGKTATAAAIIARLLAAGRS 40
>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 = 29.9 bits (68), Expect = 0.10
Identities = 7/30 (23%), Positives = 12/30 (40%)
Query: 44 VVISGESGSGKTECTKLVMQYLAAVNKSPS 73
+ + G G GK+ K + + L P
Sbjct: 1 IWLYGPPGCGKSTLAKYLARALLKHLGLPK 30
>gnl|CDD|214692 smart00487, DEXDc, DEAD-like helicases superfamily.
Length = 201
Score = 30.5 bits (69), Expect = 0.10
Identities = 13/51 (25%), Positives = 22/51 (43%), Gaps = 7/51 (13%)
Query: 39 SGNQVVVISGESGSGKTEC-TKLVMQYLAAVNK------SPSNLITEQILE 82
SG + V+++ +GSGKT ++ L P+ + EQ E
Sbjct: 22 SGLRDVILAAPTGSGKTLAALLPALEALKRGKGGRVLVLVPTRELAEQWAE 72
>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 = 30.4 bits (70), Expect = 0.11
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 41 NQVVVISGESGSGKTECTKLVM 62
+ V I G SGSGK+ KL++
Sbjct: 28 GEKVAIVGPSGSGKSTLLKLLL 49
>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 = 30.3 bits (69), Expect = 0.12
Identities = 11/40 (27%), Positives = 18/40 (45%)
Query: 43 VVVISGESGSGKTECTKLVMQYLAAVNKSPSNLITEQILE 82
+ I+G G GKT K V++ L + T ++ E
Sbjct: 1 RIFITGPPGVGKTTLVKKVIELLKSEGVKVGGFYTPEVRE 40
>gnl|CDD|226641 COG4172, COG4172, ABC-type uncharacterized transport system,
duplicated ATPase component [General function
prediction only].
Length = 534
Score = 30.7 bits (70), Expect = 0.12
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 4/48 (8%)
Query: 42 QVVVISGESGSGKTECTKLVMQYL---AAVNKSPSNLIT-EQILEASP 85
+ + + GESGSGK+ ++ L AA + S S L E +L AS
Sbjct: 37 ETLALVGESGSGKSVTALSILGLLPSPAAAHPSGSILFDGEDLLAASE 84
Score = 25.3 bits (56), Expect = 8.5
Identities = 8/15 (53%), Positives = 11/15 (73%)
Query: 41 NQVVVISGESGSGKT 55
Q + + GESGSGK+
Sbjct: 313 GQTLGLVGESGSGKS 327
>gnl|CDD|224048 COG1123, COG1123, ATPase components of various ABC-type transport
systems, contain duplicated ATPase [General function
prediction only].
Length = 539
Score = 30.6 bits (70), Expect = 0.12
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 42 QVVVISGESGSGKTECTKLVMQYL 65
+++ I GESGSGK+ +M L
Sbjct: 36 EILGIVGESGSGKSTLALALMGLL 59
Score = 27.2 bits (61), Expect = 1.8
Identities = 8/24 (33%), Positives = 15/24 (62%)
Query: 42 QVVVISGESGSGKTECTKLVMQYL 65
+ + + GESGSGK+ +++ L
Sbjct: 318 ETLGLVGESGSGKSTLARILAGLL 341
>gnl|CDD|225114 COG2204, AtoC, Response regulator containing CheY-like receiver,
AAA-type ATPase, and DNA-binding domains [Signal
transduction mechanisms].
Length = 464
Score = 30.7 bits (70), Expect = 0.13
Identities = 24/77 (31%), Positives = 36/77 (46%), Gaps = 17/77 (22%)
Query: 44 VVISGESGSGKTECTKLVMQYL---AAVNKSP-----SNLITEQILEASPLLESFGNAKT 95
V+I+GESG+GK LV + + + K P I E +LE+ E FG+ K
Sbjct: 167 VLITGESGTGKE----LVARAIHQASPRAKGPFIAVNCAAIPENLLES----ELFGHEKG 218
Query: 96 VRND-NSSRFGKFLQVH 111
+ R G+F Q +
Sbjct: 219 AFTGAITRRIGRFEQAN 235
>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 = 0.15
Identities = 13/38 (34%), Positives = 19/38 (50%), Gaps = 4/38 (10%)
Query: 41 NQVVVISGESGSGKTECTKLVMQYLAAVNKSPSNLITE 78
+++ I GESGSGK+ K +M L P+ I
Sbjct: 31 GEILGIVGESGSGKSVLAKAIMGLL----PKPNARIVG 64
>gnl|CDD|235450 PRK05416, PRK05416, glmZ(sRNA)-inactivating NTPase; Provisional.
Length = 288
Score = 30.5 bits (70), Expect = 0.15
Identities = 6/19 (31%), Positives = 14/19 (73%)
Query: 37 ATSGNQVVVISGESGSGKT 55
+ ++V+++G SG+GK+
Sbjct: 2 TAAPMRLVIVTGLSGAGKS 20
>gnl|CDD|238026 cd00071, GMPK, Guanosine monophosphate kinase (GMPK, EC 2.7.4.8),
also known as guanylate kinase (GKase), catalyzes the
reversible phosphoryl transfer from adenosine
triphosphate (ATP) to guanosine monophosphate (GMP) to
yield adenosine diphosphate (ADP) and guanosine
diphosphate (GDP). It plays an essential role in the
biosynthesis of guanosine triphosphate (GTP). This
enzyme is also important for the activation of some
antiviral and anticancer agents, such as acyclovir,
ganciclovir, carbovir, and thiopurines.
Length = 137
Score = 29.8 bits (68), Expect = 0.17
Identities = 8/21 (38%), Positives = 15/21 (71%)
Query: 43 VVVISGESGSGKTECTKLVMQ 63
++V+SG SG GK+ K +++
Sbjct: 1 LIVLSGPSGVGKSTLLKRLLE 21
>gnl|CDD|224930 COG2019, AdkA, Archaeal adenylate kinase [Nucleotide transport
and metabolism].
Length = 189
Score = 29.7 bits (67), Expect = 0.22
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 38 TSGNQVVVISGESGSGKTECTKLVMQYLA 66
G +VVVI+G G GKT K+ ++ L
Sbjct: 1 MKGRKVVVITGVPGVGKTTVLKIALKELV 29
>gnl|CDD|233461 TIGR01547, phage_term_2, phage terminase, large subunit, PBSX
family. This model detects members of a highly
divergent family of the large subunit of phage
terminase. All members are encoded by phage genomes or
within prophage regions of bacterial genomes. This is a
distinct family from pfam03354 [Mobile and
extrachromosomal element functions, Prophage functions].
Length = 396
Score = 30.1 bits (68), Expect = 0.22
Identities = 18/79 (22%), Positives = 26/79 (32%), Gaps = 16/79 (20%)
Query: 43 VVVISGESGSGKTECTKLVMQYLAAVNKSPSNLIT-------------EQILEASPLLES 89
++ G SGKT L + A+NK N++ + I LL
Sbjct: 3 EIIAKGGRRSGKTFAIALKLVEKLAINKKQQNILAARKVQNSIRDSVFKDIEN---LLSI 59
Query: 90 FGNAKTVRNDNSSRFGKFL 108
G + SS K L
Sbjct: 60 EGINYEFKKSKSSMEIKIL 78
>gnl|CDD|233417 TIGR01447, recD, exodeoxyribonuclease V, alpha subunit. This
family describes the exodeoxyribonuclease V alpha
subunit, RecD. RecD is part of a RecBCD complex. A
related family in the Gram-positive bacteria separates
in a phylogenetic tree, has an additional N-terminal
extension of about 200 residues, and is not supported as
a member of a RecBCD complex by neighboring genes. The
related family is consequently described by a different
model [DNA metabolism, DNA replication, recombination,
and repair].
Length = 586
Score = 30.1 bits (68), Expect = 0.23
Identities = 26/86 (30%), Positives = 34/86 (39%), Gaps = 12/86 (13%)
Query: 16 QILGTLSPHLFAIGSAAYS-ALATSGNQVVVISGESGSGKTECTKLVMQYLAAVNKSPSN 74
IL L P L + ALA N +I+G G+GK T V + L A+ K
Sbjct: 135 AILENLFPLLNEQNWQKVAVALALKSN-FSLITGGPGTGK---TTTVARLLLALVKQSPK 190
Query: 75 LITEQILEASP-------LLESFGNA 93
+I A+P L ES A
Sbjct: 191 QGKLRIALAAPTGKAAARLAESLRKA 216
>gnl|CDD|213219 cd03252, ABCC_Hemolysin, ATP-binding cassette domain of hemolysin
B, subfamily C. The ABC-transporter hemolysin B is a
central component of the secretion machinery that
translocates the toxin, hemolysin A, in a
Sec-independent fashion across both membranes of E.
coli. The hemolysin A (HlyA) transport machinery is
composed of the ATP-binding cassette (ABC) transporter
HlyB located in the inner membrane, hemolysin D (HlyD),
also anchored in the inner membrane, and TolC, which
resides in the outer membrane. HlyD apparently forms a
continuous channel that bridges the entire periplasm,
interacting with TolC and HlyB. This arrangement
prevents the appearance of periplasmic intermediates of
HlyA during substrate transport. Little is known about
the molecular details of HlyA transport, but it is
evident that ATP-hydrolysis by the ABC-transporter HlyB
is a necessary source of energy.
Length = 237
Score = 29.8 bits (67), Expect = 0.25
Identities = 12/20 (60%), Positives = 15/20 (75%)
Query: 42 QVVVISGESGSGKTECTKLV 61
+VV I G SGSGK+ TKL+
Sbjct: 29 EVVGIVGRSGSGKSTLTKLI 48
>gnl|CDD|224126 COG1205, COG1205, Distinct helicase family with a unique C-terminal
domain including a metal-binding cysteine cluster
[General function prediction only].
Length = 851
Score = 29.7 bits (67), Expect = 0.26
Identities = 12/22 (54%), Positives = 14/22 (63%), Gaps = 1/22 (4%)
Query: 36 LATSGNQVVVISGESGSGKTEC 57
L G VVV +G +GSGKTE
Sbjct: 81 LIREGRNVVVTTG-TGSGKTES 101
>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 = 29.6 bits (67), Expect = 0.28
Identities = 15/37 (40%), Positives = 20/37 (54%), Gaps = 5/37 (13%)
Query: 19 GTLSPHLFAIGSAAYSALATSGNQVVVISGESGSGKT 55
GT+SP AAY LA + ++I G + SGKT
Sbjct: 126 GTISPE-----QAAYLWLAIEARKSIIICGGTASGKT 157
>gnl|CDD|139158 PRK12692, flgG, flagellar basal body rod protein FlgG; Reviewed.
Length = 262
Score = 29.4 bits (66), Expect = 0.29
Identities = 23/72 (31%), Positives = 28/72 (38%), Gaps = 12/72 (16%)
Query: 16 QILGTLSPHLFA-------IGSAAYSALATSGNQVVVISGESGSGKTECTKLVMQYLAAV 68
Q LG L+ FA +G+ Y SG VV G+ G GK + YL
Sbjct: 168 QNLGQLTLANFANESGLEPLGNGLYRETPASGAPVVGNPGDVGFGKIQ-----QGYLEGS 222
Query: 69 NKSPSNLITEQI 80
N P IT I
Sbjct: 223 NVDPVKEITSLI 234
>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 = 29.1 bits (66), Expect = 0.33
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 44 VVISGESGSGKTEC 57
V+I+G SG GK+E
Sbjct: 17 VLITGPSGIGKSEL 30
>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 = 29.5 bits (67), Expect = 0.34
Identities = 14/38 (36%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 44 VVISGESGSGKTECTKLVMQYL-AAVNKSPSNLITEQI 80
V I G++G+GKT TK VM+ L A ++T +
Sbjct: 43 VFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYV 80
>gnl|CDD|238991 cd02034, CooC, The accessory protein CooC, which contains a
nucleotide-binding domain (P-loop) near the N-terminus,
participates in the maturation of the nickel center of
carbon monoxide dehydrogenase (CODH). CODH from
Rhodospirillum rubrum catalyzes the reversible
oxidation of CO to CO2. CODH contains a
nickel-iron-sulfur cluster (C-center) and an
iron-sulfur cluster (B-center). CO oxidation occurs at
the C-center. Three accessory proteins encoded by
cooCTJ genes are involved in nickel incorporation into
a nickel site. CooC functions as a nickel insertase
that mobilizes nickel to apoCODH using energy released
from ATP hydrolysis. CooC is a homodimer and has NTPase
activities. Mutation at the P-loop abolishs its
function.
Length = 116
Score = 28.7 bits (65), Expect = 0.35
Identities = 13/43 (30%), Positives = 19/43 (44%), Gaps = 7/43 (16%)
Query: 43 VVVISGESGSGKTECTKLVMQYLAAVNKS-------PSNLITE 78
+ I+G+ G GKT L+ +YLA K P +L
Sbjct: 1 KIAITGKGGVGKTTIAALLARYLAEKGKPVLAIDADPDDLPER 43
>gnl|CDD|237475 PRK13695, PRK13695, putative NTPase; Provisional.
Length = 174
Score = 29.1 bits (66), Expect = 0.35
Identities = 10/39 (25%), Positives = 16/39 (41%)
Query: 44 VVISGESGSGKTECTKLVMQYLAAVNKSPSNLITEQILE 82
+ I+G G GKT + + L TE++ E
Sbjct: 3 IGITGPPGVGKTTLVLKIAELLKEEGYKVGGFYTEEVRE 41
>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 = 29.0 bits (66), Expect = 0.38
Identities = 8/26 (30%), Positives = 14/26 (53%)
Query: 43 VVVISGESGSGKTECTKLVMQYLAAV 68
+ + GESGSGK+ + ++ L
Sbjct: 33 TLGLVGESGSGKSTLARAILGLLKPT 58
>gnl|CDD|235514 PRK05580, PRK05580, primosome assembly protein PriA; Validated.
Length = 679
Score = 29.4 bits (67), Expect = 0.43
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 7/39 (17%)
Query: 31 AAYSAL-ATSGNQVVVISGESGSGKTECTKLVMQYLAAV 68
AA A+ A +G ++ G +GSGKTE V YL A+
Sbjct: 151 AAVEAIRAAAGFSPFLLDGVTGSGKTE----V--YLQAI 183
>gnl|CDD|218940 pfam06209, COBRA1, Cofactor of BRCA1 (COBRA1). This family
consists of several cofactor of BRCA1 (COBRA1) like
proteins. It is thought that COBRA1 along with BRCA1 is
involved in chromatin unfolding. COBRA1 is recruited to
the chromosome site by the first BRCT repeat of BRCA1,
and is itself sufficient to induce chromatin unfolding.
BRCA1 mutations that enhance chromatin unfolding also
increase its affinity for, and recruitment of, COBRA1.
It is thought that that reorganisation of higher levels
of chromatin structure is an important regulated step in
BRCA1-mediated nuclear functions.
Length = 475
Score = 29.0 bits (65), Expect = 0.43
Identities = 16/33 (48%), Positives = 20/33 (60%), Gaps = 3/33 (9%)
Query: 7 LDMVKKYEGQILGTLSPHL---FAIGSAAYSAL 36
LD VKK + Q+LG LS L FAI + A S +
Sbjct: 182 LDGVKKGQEQVLGDLSMILCDPFAINTLALSTI 214
>gnl|CDD|220440 pfam09848, DUF2075, Uncharacterized conserved protein (DUF2075).
This domain, found in various prokaryotic proteins
(including putative ATP/GTP binding proteins), has no
known function.
Length = 348
Score = 28.7 bits (65), Expect = 0.52
Identities = 15/74 (20%), Positives = 28/74 (37%), Gaps = 10/74 (13%)
Query: 42 QVVVISGESGSGKTECTKLVMQYLAA-VNKSPSNLITEQILEASPLLESF-----GNAKT 95
V +++G G+GKT +V L A ++ S + PL+ G+ K
Sbjct: 2 AVFLVTGGPGTGKT----VVALNLFAELSDSDLGRTAVFLSGNHPLVLVLYEALAGDLKV 57
Query: 96 VRNDNSSRFGKFLQ 109
+ + F+
Sbjct: 58 RKKKLFRKPTSFIN 71
>gnl|CDD|233418 TIGR01448, recD_rel, helicase, putative, RecD/TraA family. This
model describes a family similar to RecD, the
exodeoxyribonuclease V alpha chain of TIGR01447. Members
of this family, however, are not found in a context of
RecB and RecC and are longer by about 200 amino acids at
the amino end. Chlamydia muridarum has both a member of
this family and a RecD [Unknown function, Enzymes of
unknown specificity].
Length = 720
Score = 29.0 bits (65), Expect = 0.52
Identities = 13/40 (32%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 34 SALAT-SGNQVVVISGESGSGKTECTKLVMQYLAAVNKSP 72
AL T ++VV+++G G+GKT T+ +++ LA
Sbjct: 330 QALDTAIQHKVVILTGGPGTGKTTITRAIIE-LAEELGGL 368
>gnl|CDD|200512 cd11251, Sema_3C, The Sema domain, a protein interacting module, of
semaphorin 3C (Sema3C). Sema3C is a secreted semaphorin
expressed in and adjacent to cardiac neural crest cells,
and causes impaired migration of neural crest cells to
the developing cardiac outflow tract, resulting in the
interruption of the aortic arch and persistent truncus
arteriosus. It has been proposed that Sema3C acts as a
guidance molecule, regulating migration of neural crest
cells that express semaphorin receptors such as plexin
A2. Sema3C may also participate in tumor progression.
The cleavage of Sema3C induced by ADAMTS1 promotes the
migration of breast cancer cells. Sema3C is a member of
the class 3 semaphorin family of secreted proteins.
Semaphorins are regulatory molecules in the development
of the nervous system and in axonal guidance. They also
play important roles in other biological processes, such
as angiogenesis, immune regulation, respiration systems
and cancer. The Sema domain is located at the N-terminus
and contains four disulfide bonds formed by eight
conserved cysteine residues. It serves as a
receptor-recognition and -binding module.
Length = 470
Score = 28.7 bits (64), Expect = 0.61
Identities = 14/42 (33%), Positives = 20/42 (47%), Gaps = 7/42 (16%)
Query: 24 HLFAIGSAAYSALAT-------SGNQVVVISGESGSGKTECT 58
HL+ GS A+S + S QV I ++ SGK C+
Sbjct: 82 HLYVCGSGAFSPVCVYVNRGRRSEEQVFHIDSKAESGKGRCS 123
>gnl|CDD|224051 COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase
component [Amino acid transport and metabolism].
Length = 240
Score = 28.6 bits (65), Expect = 0.63
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 42 QVVVISGESGSGKT 55
+VVVI G SGSGK+
Sbjct: 29 EVVVIIGPSGSGKS 42
>gnl|CDD|234734 PRK00349, uvrA, excinuclease ABC subunit A; Reviewed.
Length = 943
Score = 28.5 bits (65), Expect = 0.68
Identities = 8/14 (57%), Positives = 12/14 (85%)
Query: 41 NQVVVISGESGSGK 54
+++VV +G SGSGK
Sbjct: 26 DKLVVFTGLSGSGK 39
>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 = 28.3 bits (64), Expect = 0.70
Identities = 12/43 (27%), Positives = 18/43 (41%), Gaps = 6/43 (13%)
Query: 46 ISGESGSGKTECTKLVMQYLAAVNKSPSNLITEQILEASPLLE 88
G +G GKTE K + + L LI ++ S +E
Sbjct: 8 FLGPTGVGKTELAKALAELL---FGDERALI---RIDMSEYME 44
>gnl|CDD|235825 PRK06547, PRK06547, hypothetical protein; Provisional.
Length = 172
Score = 28.2 bits (63), Expect = 0.74
Identities = 9/13 (69%), Positives = 10/13 (76%)
Query: 43 VVVISGESGSGKT 55
V+I G SGSGKT
Sbjct: 17 TVLIDGRSGSGKT 29
>gnl|CDD|221983 pfam13207, AAA_17, AAA domain.
Length = 114
Score = 28.0 bits (62), Expect = 0.74
Identities = 8/23 (34%), Positives = 15/23 (65%)
Query: 43 VVVISGESGSGKTECTKLVMQYL 65
+++I+G GSGK+ K + + L
Sbjct: 1 IILITGPPGSGKSTLAKKLAEKL 23
>gnl|CDD|223543 COG0467, RAD55, RecA-superfamily ATPases implicated in signal
transduction [Signal transduction mechanisms].
Length = 260
Score = 28.2 bits (63), Expect = 0.76
Identities = 17/58 (29%), Positives = 27/58 (46%), Gaps = 13/58 (22%)
Query: 41 NQVVVISGESGSGKTECTKLVMQYLAAVNKS--PSNLIT-----EQILEASPLLESFG 91
VV+I+G G+GK T +Q+L + P ++ E++LE SFG
Sbjct: 23 GSVVLITGPPGTGK---TIFALQFLYEGAREGEPVLYVSTEESPEELLE---NARSFG 74
>gnl|CDD|131542 TIGR02489, flgE_epsilon, flagellar hook protein FlgE, epsilon
proteobacterial. Members of this family are flagellar
hook proteins, designated FlgE, as found in the epsilon
subdivision of the Proteobacteria (Helicobacter,
Wolinella, and Campylobacter). These proteins differ
significantly in architecture from proteins designated
FlgE in other lineages; the N-terminal and C-terminal
domains are homologous, but members of this family only
contain a large central domain that is surface-exposed
and variable between strains.
Length = 719
Score = 28.4 bits (63), Expect = 0.80
Identities = 14/38 (36%), Positives = 18/38 (47%)
Query: 25 LFAIGSAAYSALATSGNQVVVISGESGSGKTECTKLVM 62
L A G +S A SG VV +G G G+ + L M
Sbjct: 641 LQAEGGNLFSQTANSGEPVVGEAGTGGRGEMSTSALEM 678
>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 = 28.0 bits (63), Expect = 0.80
Identities = 9/27 (33%), Positives = 17/27 (62%)
Query: 43 VVVISGESGSGKTECTKLVMQYLAAVN 69
V++ G+ G+GKTE + +++ L N
Sbjct: 14 AVLLGGQPGAGKTELARALLEELGGGN 40
>gnl|CDD|220758 pfam10443, RNA12, RNA12 protein. This family includes RNA12 from
S. cerevisiae. That protein contains an RRM domain.
This region is C-terminal to that and includes a P-loop
motif suggesting this region binds to NTP. The RNA12
proteins is involved in pre-rRNA maturation.
Length = 428
Score = 28.0 bits (63), Expect = 0.91
Identities = 11/24 (45%), Positives = 13/24 (54%), Gaps = 3/24 (12%)
Query: 41 NQVVVISGESGSGKTECTKLVMQY 64
N +V+ G GSGK E LVM
Sbjct: 17 NTFIVVQGPRGSGKRE---LVMDR 37
>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 = 28.0 bits (63), Expect = 0.93
Identities = 17/62 (27%), Positives = 24/62 (38%), Gaps = 11/62 (17%)
Query: 44 VVISGESGSGKTECTKLVM-QYLAAVNKSPSNLI-------TEQILEASPLLESFGNAKT 95
V++ +GSGKT L + Q L P L+ EQI E L+
Sbjct: 17 VLVQAPTGSGKTLAFLLPILQALLPKKGGPQALVLAPTRELAEQIYEE---LKKLFKILG 73
Query: 96 VR 97
+R
Sbjct: 74 LR 75
>gnl|CDD|233596 TIGR01846, type_I_sec_HlyB, type I secretion system ABC
transporter, HlyB family. Type I protein secretion is a
system in some Gram-negative bacteria to export proteins
(often proteases) across both inner and outer membranes
to the extracellular medium. This is one of three
proteins of the type I secretion apparatus. Targeted
proteins are not cleaved at the N-terminus, but rather
carry signals located toward the extreme C-terminus to
direct type I secretion [Protein fate, Protein and
peptide secretion and trafficking].
Length = 694
Score = 28.2 bits (63), Expect = 1.0
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 36 LATSGNQVVVISGESGSGKTECTKLV 61
L + + I G SGSGK+ TKL+
Sbjct: 478 LDIKPGEFIGIVGPSGSGKSTLTKLL 503
>gnl|CDD|213237 cd03270, ABC_UvrA_I, ATP-binding cassette domain I of the
excision repair protein UvrA. Nucleotide excision
repair in eubacteria is a process that repairs DNA
damage by the removal of a 12-13-mer oligonucleotide
containing the lesion. Recognition and cleavage of the
damaged DNA is a multistep ATP-dependent reaction that
requires the UvrA, UvrB, and UvrC proteins. Both UvrA
and UvrB are ATPases, with UvrA having two ATP binding
sites, which have the characteristic signature of the
family of ABC proteins, and UvrB having one ATP binding
site that is structurally related to that of helicases.
Length = 226
Score = 28.0 bits (63), Expect = 1.1
Identities = 10/15 (66%), Positives = 14/15 (93%)
Query: 41 NQVVVISGESGSGKT 55
N++VVI+G SGSGK+
Sbjct: 21 NKLVVITGVSGSGKS 35
>gnl|CDD|233062 TIGR00630, uvra, excinuclease ABC, A subunit. This family is a
member of the ABC transporter superfamily of proteins
of which all members for which functions are known
except the UvrA proteins are involved in the transport
of material through membranes. UvrA orthologs are
involved in the recognition of DNA damage as a step in
nucleotide excision repair. This family is based on the
phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
Stanford University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 925
Score = 28.1 bits (63), Expect = 1.1
Identities = 9/15 (60%), Positives = 14/15 (93%)
Query: 41 NQVVVISGESGSGKT 55
+++VVI+G SGSGK+
Sbjct: 22 DKLVVITGLSGSGKS 36
>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 = 27.8 bits (63), Expect = 1.1
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 44 VVISGESGSGKTEC 57
V+I+GESG GK+E
Sbjct: 146 VLITGESGIGKSEL 159
>gnl|CDD|219538 pfam07728, AAA_5, AAA domain (dynein-related subfamily). This
Pfam entry includes some of the AAA proteins not
detected by the pfam00004 model.
Length = 135
Score = 27.6 bits (62), Expect = 1.1
Identities = 10/33 (30%), Positives = 18/33 (54%), Gaps = 3/33 (9%)
Query: 44 VVISGESGSGKTECTKLVMQYLAAVNKSPSNLI 76
V++ G G+GK+E L + AA++ P +
Sbjct: 2 VLLVGPPGTGKSE---LAERLAAALSNRPVFYV 31
>gnl|CDD|183280 PRK11701, phnK, phosphonate C-P lyase system protein PhnK;
Provisional.
Length = 258
Score = 28.0 bits (63), Expect = 1.1
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 42 QVVVISGESGSGKT 55
+V+ I GESGSGKT
Sbjct: 33 EVLGIVGESGSGKT 46
>gnl|CDD|223873 COG0802, COG0802, Predicted ATPase or kinase [General function
prediction only].
Length = 149
Score = 27.6 bits (62), Expect = 1.2
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 35 ALATSGNQVVVISGESGSGKTECTK 59
A A VV++SG+ G+GKT +
Sbjct: 19 AEALKAGDVVLLSGDLGAGKTTLVR 43
>gnl|CDD|240274 PTZ00112, PTZ00112, origin recognition complex 1 protein;
Provisional.
Length = 1164
Score = 28.0 bits (62), Expect = 1.3
Identities = 22/63 (34%), Positives = 30/63 (47%), Gaps = 5/63 (7%)
Query: 4 MYGLDMVKKYEGQILGTLSPHLFAIGSAAYSALATSG-NQVVVISGESGSGKTECTKLVM 62
M LD+V KY L + + S + SG NQ++ ISG G+GKT V+
Sbjct: 747 MMQLDVVPKY----LPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVI 802
Query: 63 QYL 65
Q L
Sbjct: 803 QLL 805
>gnl|CDD|224410 COG1493, HprK, Serine kinase of the HPr protein, regulates
carbohydrate metabolism [Signal transduction
mechanisms].
Length = 308
Score = 27.6 bits (62), Expect = 1.3
Identities = 8/14 (57%), Positives = 12/14 (85%)
Query: 44 VVISGESGSGKTEC 57
V+I+G SG+GK+E
Sbjct: 148 VLITGPSGAGKSEL 161
>gnl|CDD|180173 PRK05629, PRK05629, hypothetical protein; Validated.
Length = 318
Score = 27.5 bits (61), Expect = 1.3
Identities = 19/59 (32%), Positives = 30/59 (50%), Gaps = 15/59 (25%)
Query: 14 EGQILGTLSPHLFAIGSAAYSALATSGNQVVVISGESGSGKTECTKLVMQYLAAVNKSP 72
+G++L LSP LF ++V+V++ +GK E T L + AAV+ SP
Sbjct: 50 QGELLDALSPSLFG------------EDRVIVLTNMEQAGK-EPTDLALS--AAVDPSP 93
>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 = 27.6 bits (62), Expect = 1.4
Identities = 10/25 (40%), Positives = 16/25 (64%), Gaps = 3/25 (12%)
Query: 41 NQVVVISGESGSGKTECTKLVMQYL 65
+VV+I+G G+GK T +Q+L
Sbjct: 19 GRVVLITGGPGTGK---TIFGLQFL 40
>gnl|CDD|238986 cd02028, UMPK_like, Uridine monophosphate kinase_like (UMPK_like)
is a family of proteins highly similar to the uridine
monophosphate kinase (UMPK, EC 2.7.1.48), also known as
uridine kinase or uridine-cytidine kinase (UCK).
Length = 179
Score = 27.3 bits (61), Expect = 1.4
Identities = 13/30 (43%), Positives = 15/30 (50%)
Query: 43 VVVISGESGSGKTECTKLVMQYLAAVNKSP 72
VV I+G SGSGKT K + L P
Sbjct: 1 VVGIAGPSGSGKTTFAKKLSNQLRVNGIGP 30
>gnl|CDD|216999 pfam02367, UPF0079, Uncharacterized P-loop hydrolase UPF0079.
This uncharacterized family contains a P-loop.
Length = 123
Score = 27.2 bits (61), Expect = 1.4
Identities = 8/20 (40%), Positives = 13/20 (65%)
Query: 40 GNQVVVISGESGSGKTECTK 59
VV++SG+ G+GKT +
Sbjct: 14 AGDVVLLSGDLGAGKTTFVR 33
>gnl|CDD|224710 COG1797, CobB, Cobyrinic acid a,c-diamide synthase [Coenzyme
metabolism].
Length = 451
Score = 27.6 bits (62), Expect = 1.4
Identities = 13/25 (52%), Positives = 16/25 (64%), Gaps = 1/25 (4%)
Query: 44 VVISGE-SGSGKTECTKLVMQYLAA 67
VVI+G SGSGKT T +M+ L
Sbjct: 3 VVIAGTSSGSGKTTVTLGLMRALRR 27
>gnl|CDD|222160 pfam13476, AAA_23, AAA domain.
Length = 204
Score = 27.5 bits (61), Expect = 1.4
Identities = 7/16 (43%), Positives = 10/16 (62%)
Query: 40 GNQVVVISGESGSGKT 55
+ +I G +GSGKT
Sbjct: 18 SKGLTLIYGPNGSGKT 33
>gnl|CDD|213222 cd03255, ABC_MJ0796_LolCDE_FtsE, ATP-binding cassette domain of
the transporters involved in export of lipoprotein and
macrolide, and cell division protein. This family is
comprised of MJ0796 ATP-binding cassette,
macrolide-specific ABC-type efflux carrier (MacAB), and
proteins involved in cell division (FtsE), and release
of lipoproteins from the cytoplasmic membrane (LolCDE).
They are clustered together phylogenetically. MacAB is
an exporter that confers resistance to macrolides,
while the LolCDE system is not a transporter at all. An
FtsE null mutants showed filamentous growth and
appeared viable on high salt medium only, indicating a
role for FtsE in cell division and/or salt transport.
The LolCDE complex catalyzes the release of
lipoproteins from the cytoplasmic membrane prior to
their targeting to the outer membrane.
Length = 218
Score = 27.5 bits (62), Expect = 1.4
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 42 QVVVISGESGSGKT 55
+ V I G SGSGK+
Sbjct: 31 EFVAIVGPSGSGKS 44
>gnl|CDD|238978 cd02020, CMPK, Cytidine monophosphate kinase (CMPK) catalyzes the
reversible phosphorylation of cytidine monophosphate
(CMP) to produce cytidine diphosphate (CDP), using ATP
as the preferred phosphoryl donor.
Length = 147
Score = 27.1 bits (61), Expect = 1.5
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 43 VVVISGESGSGKTECTKLVMQYL 65
++ I G +GSGK+ KL+ + L
Sbjct: 1 IIAIDGPAGSGKSTVAKLLAKKL 23
>gnl|CDD|238713 cd01428, ADK, Adenylate kinase (ADK) catalyzes the reversible
phosphoryl transfer from adenosine triphosphates (ATP)
to adenosine monophosphates (AMP) and to yield
adenosine diphosphates (ADP). This enzyme is required
for the biosynthesis of ADP and is essential for
homeostasis of adenosine phosphates.
Length = 194
Score = 27.2 bits (61), Expect = 1.5
Identities = 10/46 (21%), Positives = 22/46 (47%)
Query: 43 VVVISGESGSGKTECTKLVMQYLAAVNKSPSNLITEQILEASPLLE 88
+++ G GSGK + + + + S +L+ E+I + L +
Sbjct: 1 RILLLGPPGSGKGTQAERLAKKYGLPHISTGDLLREEIASGTELGK 46
>gnl|CDD|224059 COG1136, SalX, ABC-type antimicrobial peptide transport system,
ATPase component [Defense mechanisms].
Length = 226
Score = 27.5 bits (62), Expect = 1.5
Identities = 8/13 (61%), Positives = 9/13 (69%)
Query: 43 VVVISGESGSGKT 55
V I G SGSGK+
Sbjct: 33 FVAIVGPSGSGKS 45
>gnl|CDD|234015 TIGR02788, VirB11, P-type DNA transfer ATPase VirB11. The VirB11
protein is found in the vir locus of Agrobacterium Ti
plasmids where it is involved in the type IV secretion
system for DNA transfer. VirB11 is believed to be an
ATPase. VirB11 is a homolog of the P-like conjugation
system TrbB protein and the Flp pilus sytem protein
TadA.
Length = 308
Score = 27.3 bits (61), Expect = 1.5
Identities = 15/42 (35%), Positives = 23/42 (54%), Gaps = 9/42 (21%)
Query: 44 VVISGESGSGKTECTKLVMQYLAAVNKSPSN--LIT-EQILE 82
++ISG +GSGKT K + V++ P + +IT E E
Sbjct: 147 IIISGGTGSGKTTFLK------SLVDEIPKDERIITIEDTRE 182
>gnl|CDD|239384 cd03110, Fer4_NifH_child, This protein family's function is
unkown. It contains nucleotide binding site. It uses
NTP as energy source to transfer electron or ion.
Length = 179
Score = 27.2 bits (61), Expect = 1.6
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 42 QVVVISGESGSGKT 55
Q+ VISG+ G+GKT
Sbjct: 1 QIAVISGKGGTGKT 14
>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 = 27.4 bits (61), Expect = 1.6
Identities = 11/25 (44%), Positives = 16/25 (64%), Gaps = 1/25 (4%)
Query: 44 VVISGESGSGKTECTK-LVMQYLAA 67
++I G SGSGK+ K L ++ LA
Sbjct: 4 MLIVGPSGSGKSTLLKLLALRLLAR 28
>gnl|CDD|214361 CHL00095, clpC, Clp protease ATP binding subunit.
Length = 821
Score = 27.3 bits (61), Expect = 1.7
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 47 SGESGSGKTECTKLVMQYL 65
SG +G GKTE TK + Y
Sbjct: 545 SGPTGVGKTELTKALASYF 563
>gnl|CDD|225597 COG3055, COG3055, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 381
Score = 27.3 bits (61), Expect = 1.7
Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 2/34 (5%)
Query: 32 AYSALATSGNQVVVISGESGSGK--TECTKLVMQ 63
AY + N+V++I GE+ GK T L
Sbjct: 341 AYGVSLSYNNKVLLIGGETSGGKATTRVYSLSWD 374
>gnl|CDD|220633 pfam10214, Rrn6, RNA polymerase I-specific
transcription-initiation factor. RNA polymerase
I-specific transcription-initiation factor Rrn6 and
Rrn7 represent components of a multisubunit
transcription factor essential for the initiation of
rDNA transcription by Pol I. These proteins are found
in fungi.
Length = 753
Score = 27.4 bits (61), Expect = 1.8
Identities = 9/32 (28%), Positives = 15/32 (46%), Gaps = 4/32 (12%)
Query: 25 LFAIGSAAYSALATSGNQ----VVVISGESGS 52
L +G + SG++ +SGE+GS
Sbjct: 8 LLDLGKIVDTEDLRSGSRTVPIAAYVSGETGS 39
>gnl|CDD|238941 cd01983, Fer4_NifH, The Fer4_NifH superfamily contains a variety
of proteins which share a common ATP-binding domain.
Functionally, proteins in this superfamily use the
energy from hydrolysis of NTP to transfer electron or
ion.
Length = 99
Score = 26.6 bits (59), Expect = 1.9
Identities = 10/29 (34%), Positives = 15/29 (51%)
Query: 43 VVVISGESGSGKTECTKLVMQYLAAVNKS 71
V+V++G+ G GKT + LA K
Sbjct: 1 VIVVTGKGGVGKTTLAANLAAALAKRGKR 29
>gnl|CDD|224049 COG1124, DppF, ABC-type dipeptide/oligopeptide/nickel transport
system, ATPase component [Amino acid transport and
metabolism / Inorganic ion transport and metabolism].
Length = 252
Score = 27.2 bits (61), Expect = 1.9
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 42 QVVVISGESGSGKTECTKLVMQYL 65
+ + I GESGSGK+ +L+
Sbjct: 34 ETLGIVGESGSGKSTLARLLAGLE 57
>gnl|CDD|206655 cd01862, Rab7, Rab GTPase family 7 (Rab7). Rab7 subfamily. Rab7
is a small Rab GTPase that regulates vesicular traffic
from early to late endosomal stages of the endocytic
pathway. The yeast Ypt7 and mammalian Rab7 are both
involved in transport to the vacuole/lysosome, whereas
Ypt7 is also required for homotypic vacuole fusion.
Mammalian Rab7 is an essential participant in the
autophagic pathway for sequestration and targeting of
cytoplasmic components to the lytic compartment.
Mammalian Rab7 is also proposed to function as a tumor
suppressor. GTPase activating proteins (GAPs) interact
with GTP-bound Rab and accelerate the hydrolysis of GTP
to GDP. Guanine nucleotide exchange factors (GEFs)
interact with GDP-bound Rabs to promote the formation
of the GTP-bound state. Rabs are further regulated by
guanine nucleotide dissociation inhibitors (GDIs),
which facilitate Rab recycling by masking C-terminal
lipid binding and promoting cytosolic localization.
Most Rab GTPases contain a lipid modification site at
the C-terminus, with sequence motifs CC, CXC, or CCX.
Lipid binding is essential for membrane attachment, a
key feature of most Rab proteins. Due to the presence
of truncated sequences in this CD, the lipid
modification site is not available for annotation.
Length = 172
Score = 26.9 bits (60), Expect = 1.9
Identities = 16/31 (51%), Positives = 19/31 (61%), Gaps = 6/31 (19%)
Query: 44 VVISGESGSGKTECTKLVMQYLAAVNKSPSN 74
V+I G+SG GKT L+ QY VNK SN
Sbjct: 3 VIILGDSGVGKTS---LMNQY---VNKKFSN 27
>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 = 26.9 bits (60), Expect = 2.0
Identities = 9/27 (33%), Positives = 15/27 (55%)
Query: 41 NQVVVISGESGSGKTECTKLVMQYLAA 67
+V+ + GESGSGK+ ++ L
Sbjct: 12 GEVLALVGESGSGKSLTCLAILGLLPP 38
>gnl|CDD|235210 PRK04040, PRK04040, adenylate kinase; Provisional.
Length = 188
Score = 26.8 bits (60), Expect = 2.0
Identities = 9/25 (36%), Positives = 13/25 (52%)
Query: 43 VVVISGESGSGKTECTKLVMQYLAA 67
VVV++G G GKT ++ L
Sbjct: 4 VVVVTGVPGVGKTTVLNKALEKLKE 28
>gnl|CDD|215451 PLN02840, PLN02840, tRNA dimethylallyltransferase.
Length = 421
Score = 27.1 bits (60), Expect = 2.2
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 35 ALATSGNQVVVISGESGSGKT 55
A T +V+VISG +G+GK+
Sbjct: 15 ASKTKKEKVIVISGPTGAGKS 35
>gnl|CDD|233372 TIGR01355, cyt_deam_dimer, cytidine deaminase, homodimeric. This
homodimeric zinc metalloprotein is found in Arabidopis
and some Proteobacteria. A related, homotetrameric form
with a much smaller subunit is found most bacteria and
in animals. Both types may act on deoxycytidine as well
as cytidine [Purines, pyrimidines, nucleosides, and
nucleotides, Salvage of nucleosides and nucleotides].
Length = 283
Score = 27.1 bits (60), Expect = 2.2
Identities = 11/62 (17%), Positives = 21/62 (33%), Gaps = 4/62 (6%)
Query: 14 EGQILGTLSPHLFA---IGSAAYSALATSGNQVVVISGESGSGKTE-CTKLVMQYLAAVN 69
L + P F + + L + + + ++ C+ L Q L A N
Sbjct: 128 RDMSLQSYLPDRFGPDDLLIKSAPLLLEERHNCLALIDPDSIRNSDICSDLKQQALKAAN 187
Query: 70 KS 71
+S
Sbjct: 188 RS 189
>gnl|CDD|213265 cd03298, ABC_ThiQ_thiamine_transporter, ATP-binding cassette
domain of the thiamine transport system. Part of the
binding-protein-dependent transport system tbpA-thiPQ
for thiamine and TPP. Probably responsible for the
translocation of thiamine across the membrane. 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 = 211
Score = 27.1 bits (60), Expect = 2.2
Identities = 14/50 (28%), Positives = 23/50 (46%), Gaps = 2/50 (4%)
Query: 36 LATSGNQVVVISGESGSGKTECTKLVMQYLAAVNKSPSNLITEQILEASP 85
L + ++ I G SGSGK+ L+ + +S LI + A+P
Sbjct: 19 LTFAQGEITAIVGPSGSGKSTLLNLIAGFETP--QSGRVLINGVDVTAAP 66
>gnl|CDD|224574 COG1660, COG1660, Predicted P-loop-containing kinase [General
function prediction only].
Length = 286
Score = 26.8 bits (60), Expect = 2.3
Identities = 6/14 (42%), Positives = 13/14 (92%)
Query: 42 QVVVISGESGSGKT 55
++V+++G SG+GK+
Sbjct: 2 RLVIVTGLSGAGKS 15
>gnl|CDD|182906 PRK11022, dppD, dipeptide transporter ATP-binding subunit;
Provisional.
Length = 326
Score = 27.0 bits (60), Expect = 2.4
Identities = 11/21 (52%), Positives = 15/21 (71%)
Query: 42 QVVVISGESGSGKTECTKLVM 62
+VV I GESGSGK+ + +M
Sbjct: 34 EVVGIVGESGSGKSVSSLAIM 54
>gnl|CDD|235244 PRK04182, PRK04182, cytidylate kinase; Provisional.
Length = 180
Score = 26.7 bits (60), Expect = 2.4
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 43 VVVISGESGSGKTECTKLVMQYL 65
++ ISG GSGKT +L+ + L
Sbjct: 2 IITISGPPGSGKTTVARLLAEKL 24
>gnl|CDD|233822 TIGR02329, propionate_PrpR, propionate catabolism operon regulatory
protein PrpR. At least five distinct pathways exists
for the catabolism of propionate by way of
propionyl-CoA. Members of this family represent the
transcriptional regulatory protein PrpR, whose gene is
found in most cases divergently transcribed from an
operon for the methylcitric acid cycle of propionate
catabolism. 2-methylcitric acid, a catabolite by this
pathway, is a coactivator of PrpR.
Length = 526
Score = 27.1 bits (60), Expect = 2.5
Identities = 19/53 (35%), Positives = 24/53 (45%), Gaps = 10/53 (18%)
Query: 44 VVISGESGSGKTECTKLVMQYLAAVNKSP-----SNLITEQILEASPLLESFG 91
V+I GESG+GK E + L+ P I E +LEA E FG
Sbjct: 238 VLILGESGTGK-ELVAQAIHQLSGRRDFPFVAINCGAIAESLLEA----ELFG 285
>gnl|CDD|226592 COG4107, PhnK, ABC-type phosphonate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 258
Score = 26.6 bits (59), Expect = 2.7
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 42 QVVVISGESGSGKT 55
+V+ I GESGSGKT
Sbjct: 33 EVLGIVGESGSGKT 46
>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 = 26.3 bits (58), Expect = 2.7
Identities = 6/28 (21%), Positives = 12/28 (42%)
Query: 44 VVISGESGSGKTECTKLVMQYLAAVNKS 71
+++ G G+GKT + + L
Sbjct: 22 LLLYGPPGTGKTTLARAIANELFRPGAP 49
>gnl|CDD|223256 COG0178, UvrA, Excinuclease ATPase subunit [DNA replication,
recombination, and repair].
Length = 935
Score = 26.8 bits (60), Expect = 2.8
Identities = 10/14 (71%), Positives = 13/14 (92%)
Query: 41 NQVVVISGESGSGK 54
N++VVI+G SGSGK
Sbjct: 26 NKLVVITGLSGSGK 39
>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 = 26.5 bits (59), Expect = 2.8
Identities = 8/14 (57%), Positives = 12/14 (85%)
Query: 42 QVVVISGESGSGKT 55
+ V++ GE+GSGKT
Sbjct: 1 RTVILQGEAGSGKT 14
>gnl|CDD|238982 cd02024, NRK1, Nicotinamide riboside kinase (NRK) is an enzyme
involved in the metabolism of nicotinamide adenine
dinucleotide (NAD+). This enzyme catalyzes the
phosphorylation of nicotinamide riboside (NR) to form
nicotinamide mononucleotide (NMN). It defines the NR
salvage pathway of NAD+ biosynthesis in addition to the
pathways through nicotinic acid mononucleotide (NaMN).
This enzyme can also phosphorylate the anticancer drug
tiazofurin, which is an analog of nicotinamide
riboside.
Length = 187
Score = 26.5 bits (59), Expect = 2.8
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 43 VVVISGESGSGKTECTKLVMQYL 65
+V ISG + SGKT KL+ + L
Sbjct: 1 IVGISGVTNSGKTTLAKLLQRIL 23
>gnl|CDD|224027 COG1102, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 179
Score = 26.5 bits (59), Expect = 2.9
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 43 VVVISGESGSGKTECTKLVMQYL 65
V+ ISG GSGKT + + ++L
Sbjct: 2 VITISGLPGSGKTTVARELAEHL 24
>gnl|CDD|216631 pfam01656, CbiA, CobQ/CobB/MinD/ParA nucleotide binding domain.
This family consists of various cobyrinic acid
a,c-diamide synthases. These include CbiA and CbiP from
S.typhimurium, and CobQ from R. capsulatus. These
amidases catalyze amidations to various side chains of
hydrogenobyrinic acid or cobyrinic acid a,c-diamide in
the biosynthesis of cobalamin (vitamin B12) from
uroporphyrinogen III. Vitamin B12 is an important
cofactor and an essential nutrient for many plants and
animals and is primarily produced by bacteria. The
family also contains dethiobiotin synthetases as well
as the plasmid partitioning proteins of the MinD/ParA
family.
Length = 217
Score = 26.6 bits (59), Expect = 3.0
Identities = 6/28 (21%), Positives = 11/28 (39%)
Query: 43 VVVISGESGSGKTECTKLVMQYLAAVNK 70
+ + + G GKT + + LA
Sbjct: 1 IAIAGTKGGVGKTTLAANLARALAKRGY 28
>gnl|CDD|238418 cd00820, PEPCK_HprK, Phosphoenolpyruvate carboxykinase (PEPCK), a
critical gluconeogenic enzyme, catalyzes the first
committed step in the diversion of tricarboxylic acid
cycle intermediates toward gluconeogenesis. It
catalyzes the reversible decarboxylation and
phosphorylation of oxaloacetate to yield
phosphoenolpyruvate and carbon dioxide, using a
nucleotide molecule (ATP or GTP) for the phosphoryl
transfer, and has a strict requirement for divalent
metal ions for activity. PEPCK's separate into two
phylogenetic groups based on their nucleotide substrate
specificity (the ATP-, and GTP-dependent
groups).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 HPr and its
dephosphorylation by phosphorolysis. PEPCK and the
C-terminal catalytic domain of HprK/P are structurally
similar with conserved active site residues suggesting
that these two phosphotransferases have related
functions.
Length = 107
Score = 26.1 bits (57), Expect = 3.0
Identities = 14/38 (36%), Positives = 18/38 (47%), Gaps = 8/38 (21%)
Query: 19 GTLSPHLFAIGSAAYSALATSGNQVVVISGESGSGKTE 56
GT S H + G V+I+G+SG GKTE
Sbjct: 1 GTTSLHG--------VLVDVYGKVGVLITGDSGIGKTE 30
>gnl|CDD|236783 PRK10875, recD, exonuclease V subunit alpha; Provisional.
Length = 615
Score = 26.8 bits (60), Expect = 3.0
Identities = 26/73 (35%), Positives = 34/73 (46%), Gaps = 20/73 (27%)
Query: 31 AAYSALATSGNQVVVISGESGSGKTECTKLVMQYLAAVNKSPSNLITEQ---ILEASP-- 85
AA AL T ++ VISG G+GKT V + LAA+ + L + I A+P
Sbjct: 160 AAAVAL-TR--RISVISGGPGTGKTTT---VAKLLAALIQ----LADGERCRIRLAAPTG 209
Query: 86 -----LLESFGNA 93
L ES G A
Sbjct: 210 KAAARLTESLGKA 222
>gnl|CDD|216584 pfam01580, FtsK_SpoIIIE, FtsK/SpoIIIE family. FtsK has extensive
sequence similarity to wide variety of proteins from
prokaryotes and plasmids, termed the FtsK/SpoIIIE
family. This domain contains a putative ATP binding
P-loop motif. It is found in the FtsK cell division
protein from E. coli and the stage III sporulation
protein E SpoIIIE, which has roles in regulation of
prespore specific gene expression in B. subtilis. A
mutation in FtsK causes a temperature sensitive block
in cell division and it is involved in peptidoglycan
synthesis or modification. The SpoIIIE protein is
implicated in intercellular chromosomal DNA transfer.
Length = 201
Score = 26.6 bits (59), Expect = 3.0
Identities = 9/29 (31%), Positives = 16/29 (55%)
Query: 39 SGNQVVVISGESGSGKTECTKLVMQYLAA 67
++I+G +GSGK+ ++ LAA
Sbjct: 36 VKMPHLLIAGATGSGKSTFLNTLILSLAA 64
>gnl|CDD|180120 PRK05506, PRK05506, bifunctional sulfate adenylyltransferase
subunit 1/adenylylsulfate kinase protein; Provisional.
Length = 632
Score = 26.8 bits (60), Expect = 3.0
Identities = 16/62 (25%), Positives = 23/62 (37%), Gaps = 6/62 (9%)
Query: 15 GQILGTLSP------HLFAIGSAAYSALATSGNQVVVISGESGSGKTECTKLVMQYLAAV 68
G I L + A +A V +G SGSGK+ LV + L A+
Sbjct: 428 GMIDFALRRATNVHWQASDVSREARAARKGQKPATVWFTGLSGSGKSTIANLVERRLHAL 487
Query: 69 NK 70
+
Sbjct: 488 GR 489
>gnl|CDD|235459 PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional.
Length = 308
Score = 26.7 bits (60), Expect = 3.1
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 44 VVISGESGSGKTEC 57
V+I+GESG GK+E
Sbjct: 149 VLITGESGIGKSET 162
>gnl|CDD|233570 TIGR01777, yfcH, TIGR01777 family protein. This model represents
a clade of proteins of unknown function including the
E. coli yfcH protein [Hypothetical proteins,
Conserved].
Length = 291
Score = 26.4 bits (59), Expect = 3.2
Identities = 8/45 (17%), Positives = 15/45 (33%)
Query: 28 IGSAAYSALATSGNQVVVISGESGSGKTECTKLVMQYLAAVNKSP 72
IG A L G++V +++ G + + S
Sbjct: 10 IGRALTQRLTKRGHEVTILTRSPPPGANTKWEGYKPWAGEDADSL 54
>gnl|CDD|183063 PRK11264, PRK11264, putative amino-acid ABC transporter
ATP-binding protein YecC; Provisional.
Length = 250
Score = 26.6 bits (59), Expect = 3.2
Identities = 11/20 (55%), Positives = 12/20 (60%)
Query: 36 LATSGNQVVVISGESGSGKT 55
L +VV I G SGSGKT
Sbjct: 24 LEVKPGEVVAIIGPSGSGKT 43
>gnl|CDD|213229 cd03262, ABC_HisP_GlnQ, ATP-binding cassette domain of the
histidine and glutamine transporters. HisP and GlnQ
are the ATP-binding components of the bacterial
periplasmic histidine and glutamine permeases,
respectively. Histidine permease is a multi-subunit
complex containing the HisQ and HisM integral membrane
subunits and two copies of HisP. HisP has properties
intermediate between those of integral and peripheral
membrane proteins and is accessible from both sides of
the membrane, presumably by its interaction with HisQ
and HisM. The two HisP subunits form a homodimer within
the complex. The domain structure of the amino acid
uptake systems is typical for prokaryotic extracellular
solute binding protein-dependent uptake systems. All of
the amino acid uptake systems also have at least one,
and in a few cases, two extracellular solute binding
proteins located in the periplasm of Gram-negative
bacteria, or attached to the cell membrane of
Gram-positive bacteria. The best-studied member of the
PAAT (polar amino acid transport) family is the HisJQMP
system of S. typhimurium, where HisJ is the
extracellular solute binding proteins and HisP is the
ABC protein.
Length = 213
Score = 26.3 bits (59), Expect = 3.2
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 42 QVVVISGESGSGKT 55
+VVVI G SGSGK+
Sbjct: 27 EVVVIIGPSGSGKS 40
>gnl|CDD|222165 pfam13481, AAA_25, AAA domain. This AAA domain is found in a
wide variety of presumed DNA repair proteins.
Length = 154
Score = 26.1 bits (58), Expect = 3.3
Identities = 8/27 (29%), Positives = 15/27 (55%), Gaps = 3/27 (11%)
Query: 42 QVVVISGESGSGKTECTKLVMQYLAAV 68
+ +++G G+GK+ L + AAV
Sbjct: 34 GLTLLAGAPGTGKST---LALDLAAAV 57
>gnl|CDD|213228 cd03261, ABC_Org_Solvent_Resistant, ATP-binding cassette
transport system involved in resistant to organic
solvents. 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 = 235
Score = 26.3 bits (59), Expect = 3.4
Identities = 7/14 (50%), Positives = 11/14 (78%)
Query: 42 QVVVISGESGSGKT 55
+++ I G SGSGK+
Sbjct: 27 EILAIIGPSGSGKS 40
>gnl|CDD|223645 COG0572, Udk, Uridine kinase [Nucleotide transport and
metabolism].
Length = 218
Score = 26.5 bits (59), Expect = 3.4
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 43 VVVISGESGSGKTECTKLVMQYL 65
++ I+G SGSGKT K + + L
Sbjct: 10 IIGIAGGSGSGKTTVAKELSEQL 32
>gnl|CDD|222290 pfam13654, AAA_32, AAA domain. This family includes a wide
variety of AAA domains including some that have lost
essential nucleotide binding residues in the P-loop.
Length = 509
Score = 26.7 bits (60), Expect = 3.4
Identities = 7/33 (21%), Positives = 16/33 (48%)
Query: 44 VVISGESGSGKTECTKLVMQYLAAVNKSPSNLI 76
+ + GE G+G+T + ++ A +P +
Sbjct: 33 IFVLGEPGTGRTTLVRRYLEERAKKEPTPDDWC 65
>gnl|CDD|119440 cd06578, HemD, Uroporphyrinogen-III synthase (HemD) catalyzes the
asymmetrical cyclization of tetrapyrrole (linear) to
uroporphyrinogen-III, the fourth step in the
biosynthesis of heme. This ubiquitous enzyme is present
in eukaryotes, bacteria and archaea. Mutations in the
human uroporphyrinogen-III synthase gene cause
congenital erythropoietic porphyria, a recessive inborn
error of metabolism also known as Gunther disease.
Length = 239
Score = 26.5 bits (59), Expect = 3.5
Identities = 9/48 (18%), Positives = 18/48 (37%), Gaps = 2/48 (4%)
Query: 5 YGLDMVKKYEGQILGTLSPHLFAIGSAAYSALATSGNQVVVISGESGS 52
+ +++ + L L + A+G AL +G + E S
Sbjct: 63 AFFEALEELGLRALAGL--KIAAVGPKTAEALREAGLTADFVPEEGDS 108
>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 = 26.1 bits (58), Expect = 3.5
Identities = 6/15 (40%), Positives = 11/15 (73%)
Query: 41 NQVVVISGESGSGKT 55
++V + G +GSGK+
Sbjct: 25 GEIVALVGPNGSGKS 39
>gnl|CDD|213788 TIGR03263, guanyl_kin, guanylate kinase. Members of this family
are the enzyme guanylate kinase, also called GMP
kinase. This enzyme transfers a phosphate from ATP to
GMP, yielding ADP and GDP [Purines, pyrimidines,
nucleosides, and nucleotides, Nucleotide and nucleoside
interconversions].
Length = 179
Score = 26.3 bits (59), Expect = 3.5
Identities = 9/21 (42%), Positives = 16/21 (76%)
Query: 43 VVVISGESGSGKTECTKLVMQ 63
++VISG SG+GK+ K +++
Sbjct: 2 LIVISGPSGAGKSTLVKALLE 22
>gnl|CDD|184430 PRK13975, PRK13975, thymidylate kinase; Provisional.
Length = 196
Score = 26.3 bits (58), Expect = 3.5
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 41 NQVVVISGESGSGKTECTKLVMQYLAA 67
N+ +V G GSGKT KL+ + L A
Sbjct: 2 NKFIVFEGIDGSGKTTQAKLLAEKLNA 28
>gnl|CDD|131948 TIGR02902, spore_lonB, ATP-dependent protease LonB. Members of
this protein are LonB, a paralog of the ATP-dependent
protease La (LonA, TIGR00763). LonB proteins are found
strictly, and almost universally, in endospore-forming
bacteria. This protease was shown, in Bacillus subtilis,
to be expressed specifically in the forespore, during
sporulation, under control of sigma(F). The lonB gene,
despite location immediately upstream of lonA, was shown
to be monocistronic. LonB appears able to act on
sigma(H) for post-translation control, but lonB mutation
did not produce an obvious sporulation defect under the
conditions tested. Note that additional paralogs of LonA
and LonB occur in the Clostridium lineage and this model
selects only one per species as the protein that
corresponds to LonB in B. subtilis [Protein fate,
Degradation of proteins, peptides, and glycopeptides,
Cellular processes, Sporulation and germination].
Length = 531
Score = 26.7 bits (59), Expect = 3.5
Identities = 14/39 (35%), Positives = 19/39 (48%)
Query: 34 SALATSGNQVVVISGESGSGKTECTKLVMQYLAAVNKSP 72
+AL Q V+I G G GKT +LV++ SP
Sbjct: 79 AALCGPNPQHVIIYGPPGVGKTAAARLVLEEAKKNPASP 117
>gnl|CDD|213205 cd03238, ABC_UvrA, ATP-binding cassette domain of the excision
repair protein UvrA. Nucleotide excision repair in
eubacteria is a process that repairs DNA damage by the
removal of a 12-13-mer oligonucleotide containing the
lesion. Recognition and cleavage of the damaged DNA is
a multistep ATP-dependent reaction that requires the
UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are
ATPases, with UvrA having two ATP binding sites, which
have the characteristic signature of the family of ABC
proteins, and UvrB having one ATP binding site that is
structurally related to that of helicases.
Length = 176
Score = 26.1 bits (58), Expect = 3.6
Identities = 9/15 (60%), Positives = 13/15 (86%)
Query: 41 NQVVVISGESGSGKT 55
N +VV++G SGSGK+
Sbjct: 21 NVLVVVTGVSGSGKS 35
>gnl|CDD|188208 TIGR02323, CP_lyasePhnK, phosphonate C-P lyase system protein
PhnK. Members of this family are the PhnK protein of
C-P lyase systems for utilization of phosphonates.
These systems resemble phosphonatase-based systems in
having a three component ABC transporter, where
TIGR01097 is the permease, TIGR01098 is the
phosphonates binding protein, and TIGR02315 is the
ATP-binding cassette (ABC) protein. They differ,
however, in having, typically, ten or more additional
genes, many of which are believed to form a
membrane-associated complex. This protein (PhnK) and
the adjacent-encoded PhnL resemble transporter
ATP-binding proteins but are suggested, based on
mutatgenesis studies, to be part of this complex rather
than part of a transporter per se [Central intermediary
metabolism, Phosphorus compounds].
Length = 253
Score = 26.3 bits (58), Expect = 3.6
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 42 QVVVISGESGSGKTECTKLVMQYLAA 67
+V+ I GESGSGK+ + LA
Sbjct: 30 EVLGIVGESGSGKSTLLGCLAGRLAP 55
>gnl|CDD|233761 TIGR02173, cyt_kin_arch, cytidylate kinase, putative. Proteins
in this family are believed to be cytidylate kinase.
Members of this family are found in the archaea and in
spirochaetes, and differ considerably from the common
bacterial form of cytidylate kinase described by
TIGR00017.
Length = 171
Score = 26.2 bits (58), Expect = 3.7
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 43 VVVISGESGSGKTECTKLVMQYL 65
++ ISG GSGKT K++ + L
Sbjct: 2 IITISGPPGSGKTTVAKILAEKL 24
>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 = 26.5 bits (59), Expect = 3.7
Identities = 13/44 (29%), Positives = 22/44 (50%), Gaps = 5/44 (11%)
Query: 34 SALATSGNQVVVISGESGSGKTECTKLVMQYLAAVNKSPSNLIT 77
A+ GN +++SG +GSGKT + L +N ++T
Sbjct: 124 QAVQARGN--ILVSGGTGSGKTTLLYAL---LNEINTDDERIVT 162
>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 = 26.3 bits (59), Expect = 3.8
Identities = 7/15 (46%), Positives = 11/15 (73%)
Query: 41 NQVVVISGESGSGKT 55
+ V+I G +GSGK+
Sbjct: 27 GEFVLIVGPNGSGKS 41
>gnl|CDD|227297 COG4962, CpaF, Flp pilus assembly protein, ATPase CpaF
[Intracellular trafficking and secretion].
Length = 355
Score = 26.2 bits (58), Expect = 3.9
Identities = 14/54 (25%), Positives = 21/54 (38%), Gaps = 12/54 (22%)
Query: 3 DMYGL-DMVKKYEGQILGTLSPHLFAIGSAAYSALATSGNQVVVISGESGSGKT 55
L D++ GT+ A + A ++ISG +GSGKT
Sbjct: 145 IKLTLLDLII------FGTMIRRA-----AKFLRRAVGIRCNILISGGTGSGKT 187
>gnl|CDD|181888 PRK09473, oppD, oligopeptide transporter ATP-binding component;
Provisional.
Length = 330
Score = 26.2 bits (58), Expect = 3.9
Identities = 12/22 (54%), Positives = 15/22 (68%)
Query: 46 ISGESGSGKTECTKLVMQYLAA 67
I GESGSGK++ +M LAA
Sbjct: 47 IVGESGSGKSQTAFALMGLLAA 68
>gnl|CDD|232890 TIGR00235, udk, uridine kinase. Model contains a number of
longer eukaryotic proteins and starts bringing in
phosphoribulokinase hits at scores of 160 and below
[Purines, pyrimidines, nucleosides, and nucleotides,
Salvage of nucleosides and nucleotides].
Length = 207
Score = 26.2 bits (58), Expect = 4.0
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 43 VVVISGESGSGKTECTKLVMQYL 65
++ I G SGSGKT + + + L
Sbjct: 8 IIGIGGGSGSGKTTVARKIYEQL 30
>gnl|CDD|237963 PRK15424, PRK15424, propionate catabolism operon regulatory protein
PrpR; Provisional.
Length = 538
Score = 26.2 bits (58), Expect = 4.1
Identities = 20/67 (29%), Positives = 26/67 (38%), Gaps = 30/67 (44%)
Query: 44 VVISGESGSGKTECTKLVMQYL-------------------AAVNKSPSNLITEQILEAS 84
V+I GE+G+GK +L Q + AVN I E +LEA
Sbjct: 245 VLIQGETGTGK----ELAAQAIHREYFARHDARQGKKSHPFVAVN---CGAIAESLLEA- 296
Query: 85 PLLESFG 91
E FG
Sbjct: 297 ---ELFG 300
>gnl|CDD|219519 pfam07693, KAP_NTPase, KAP family P-loop domain. The KAP (after
Kidins220/ARMS and PifA) family of predicted NTPases
are sporadically distributed across a wide phylogenetic
range in bacteria and in animals. Many of the
prokaryotic KAP NTPases are encoded in plasmids and
tend to undergo disruption to form pseudogenes. A
unique feature of all eukaryotic and certain bacterial
KAP NTPases is the presence of two or four
transmembrane helices inserted into the P-loop NTPase
domain. These transmembrane helices anchor KAP NTPases
in the membrane such that the P-loop domain is located
on the intracellular side.
Length = 301
Score = 26.2 bits (58), Expect = 4.1
Identities = 9/29 (31%), Positives = 13/29 (44%)
Query: 43 VVVISGESGSGKTECTKLVMQYLAAVNKS 71
V+ + G GSGKT L+ L +
Sbjct: 22 VIGLYGAWGSGKTSFLNLLEDELKEFPEE 50
>gnl|CDD|130261 TIGR01193, bacteriocin_ABC, ABC-type bacteriocin transporter. This
model describes ABC-type bacteriocin transporter. The
amino terminal domain (pfam03412) processes the
N-terminal leader peptide from the bacteriocin while
C-terminal domains resemble ABC transporter membrane
protein and ATP-binding cassette domain. In general,
bacteriocins are agents which are responsible for
killing or inhibiting the closely related species or
even different strains of the same species. Bacteriocins
are usually encoded by bacterial plasmids. Bacteriocins
are named after the species and hence in literature one
encounters various names e.g., leucocin from Leuconostic
geldium; pedicocin from Pedicoccus acidilactici; sakacin
from Lactobacillus sake etc [Protein fate, Protein and
peptide secretion and trafficking, Protein fate, Protein
modification and repair, Transport and binding proteins,
Other].
Length = 708
Score = 26.2 bits (58), Expect = 4.2
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 41 NQVVVISGESGSGKTECTKLVMQYLAA 67
N I G SGSGK+ KL++ + A
Sbjct: 500 NSKTTIVGMSGSGKSTLAKLLVGFFQA 526
>gnl|CDD|236982 PRK11784, PRK11784, tRNA 2-selenouridine synthase; Provisional.
Length = 345
Score = 26.3 bits (59), Expect = 4.4
Identities = 9/15 (60%), Positives = 12/15 (80%)
Query: 42 QVVVISGESGSGKTE 56
+VV+ G +GSGKTE
Sbjct: 142 PLVVLGGNTGSGKTE 156
>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 = 25.9 bits (58), Expect = 4.4
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 44 VVISGESGSGKTEC 57
V+I+GESG GK+E
Sbjct: 21 VLITGESGIGKSET 34
>gnl|CDD|221937 pfam13148, DUF3987, Protein of unknown function (DUF3987). A
family of uncharacterized proteins found by clustering
human gut metagenomic sequences.
Length = 379
Score = 26.1 bits (58), Expect = 4.7
Identities = 7/19 (36%), Positives = 11/19 (57%)
Query: 44 VVISGESGSGKTECTKLVM 62
+++ ESG K+ KL M
Sbjct: 42 LLVVAESGERKSAVDKLAM 60
>gnl|CDD|131197 TIGR02142, modC_ABC, molybdenum ABC transporter, ATP-binding
protein. This model represents the ATP-binding
cassette (ABC) protein of the three subunit molybdate
ABC transporter. The three proteins of this complex are
homologous to proteins of the sulfate ABC transporter.
Molybdenum may be used in nitrogenases of
nitrogen-fixing bacteria and in molybdopterin
cofactors. In some cases, molybdate may be transported
by a sulfate transporter rather than by a specific
molybdate transporter [Transport and binding proteins,
Anions].
Length = 354
Score = 26.2 bits (58), Expect = 4.7
Identities = 11/27 (40%), Positives = 13/27 (48%)
Query: 35 ALATSGNQVVVISGESGSGKTECTKLV 61
G V I G SGSGKT +L+
Sbjct: 17 DFTLPGQGVTAIFGRSGSGKTTLIRLI 43
>gnl|CDD|213216 cd03249, ABC_MTABC3_MDL1_MDL2, ATP-binding cassette domain of a
mitochondrial protein MTABC3 and related proteins.
MTABC3 (also known as ABCB6) is a mitochondrial
ATP-binding cassette protein involved in iron
homeostasis and one of four ABC transporters expressed
in the mitochondrial inner membrane, the other three
being MDL1(ABC7), MDL2, and ATM1. In fact, the yeast
MDL1 (multidrug resistance-like protein 1) and MDL2
(multidrug resistance-like protein 2) transporters are
also included in this CD. MDL1 is an ATP-dependent
permease that acts as a high-copy suppressor of ATM1
and is thought to have a role in resistance to
oxidative stress. Interestingly, subfamily B is more
closely related to the carboxyl-terminal component of
subfamily C than the two halves of ABCC molecules are
with one another.
Length = 238
Score = 26.0 bits (58), Expect = 4.7
Identities = 7/23 (30%), Positives = 13/23 (56%)
Query: 42 QVVVISGESGSGKTECTKLVMQY 64
+ V + G SG GK+ L+ ++
Sbjct: 30 KTVALVGSSGCGKSTVVSLLERF 52
>gnl|CDD|238981 cd02023, UMPK, Uridine monophosphate kinase (UMPK, EC 2.7.1.48),
also known as uridine kinase or uridine-cytidine kinase
(UCK), catalyzes the reversible phosphoryl transfer
from ATP to uridine or cytidine to yield UMP or CMP. In
the primidine nucleotide-salvage pathway, this enzyme
combined with nucleoside diphosphate kinases further
phosphorylates UMP and CMP to form UTP and CTP. This
kinase also catalyzes the phosphorylation of several
cytotoxic ribonucleoside analogs such as
5-flurrouridine and cyclopentenyl-cytidine.
Length = 198
Score = 26.0 bits (58), Expect = 4.8
Identities = 9/23 (39%), Positives = 16/23 (69%)
Query: 43 VVVISGESGSGKTECTKLVMQYL 65
++ I+G SGSGKT + +++ L
Sbjct: 1 IIGIAGGSGSGKTTVAEEIIEQL 23
>gnl|CDD|226628 COG4148, ModC, ABC-type molybdate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 352
Score = 26.1 bits (58), Expect = 4.8
Identities = 7/27 (25%), Positives = 11/27 (40%)
Query: 35 ALATSGNQVVVISGESGSGKTECTKLV 61
+ + G SGSGKT ++
Sbjct: 18 NFTLPARGITALFGPSGSGKTSLINMI 44
>gnl|CDD|224119 COG1198, PriA, Primosomal protein N' (replication factor Y) -
superfamily II helicase [DNA replication, recombination,
and repair].
Length = 730
Score = 26.1 bits (58), Expect = 4.9
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 2/29 (6%)
Query: 30 SAAYSALATS--GNQVVVISGESGSGKTE 56
AA A+ +S G ++ G +GSGKTE
Sbjct: 204 QAAVEAILSSLGGFAPFLLDGVTGSGKTE 232
>gnl|CDD|236263 PRK08425, flgE, flagellar hook protein FlgE; Validated.
Length = 731
Score = 26.2 bits (58), Expect = 4.9
Identities = 14/38 (36%), Positives = 18/38 (47%)
Query: 25 LFAIGSAAYSALATSGNQVVVISGESGSGKTECTKLVM 62
L A G +S A SG V+ +G G G +KL M
Sbjct: 653 LQAEGGNVFSQTANSGQAVIGAAGTGGRGSISGSKLEM 690
>gnl|CDD|236546 PRK09518, PRK09518, bifunctional cytidylate kinase/GTPase Der;
Reviewed.
Length = 712
Score = 26.3 bits (58), Expect = 4.9
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 43 VVVISGESGSGKTECTKLVMQYLAA 67
+V I G +G GK+ ++ + QYL
Sbjct: 3 IVAIDGPAGVGKSSVSRALAQYLGY 27
>gnl|CDD|223666 COG0593, DnaA, ATPase involved in DNA replication initiation [DNA
replication, recombination, and repair].
Length = 408
Score = 26.1 bits (58), Expect = 5.0
Identities = 13/69 (18%), Positives = 30/69 (43%), Gaps = 6/69 (8%)
Query: 42 QVVVISGESGSGKTECTKLVMQYLAAVNKSPSNLITEQILEASPLLESFGNAKTVRNDNS 101
+ I G G GKT ++Q A N++ +N +++ + + K +R++
Sbjct: 114 NPLFIYGGVGLGKTH----LLQ--AIGNEALANGPNARVVYLTSEDFTNDFVKALRDNEM 167
Query: 102 SRFGKFLQV 110
+F + +
Sbjct: 168 EKFKEKYSL 176
>gnl|CDD|223603 COG0529, CysC, Adenylylsulfate kinase and related kinases
[Inorganic ion transport and metabolism].
Length = 197
Score = 25.7 bits (57), Expect = 5.1
Identities = 10/34 (29%), Positives = 15/34 (44%)
Query: 22 SPHLFAIGSAAYSALATSGNQVVVISGESGSGKT 55
H ++ AL V+ +G SGSGK+
Sbjct: 4 VWHPHSVTKQEREALKGQKGAVIWFTGLSGSGKS 37
>gnl|CDD|236870 PRK11174, PRK11174, cysteine/glutathione ABC transporter
membrane/ATP-binding component; Reviewed.
Length = 588
Score = 26.0 bits (58), Expect = 5.1
Identities = 12/47 (25%), Positives = 19/47 (40%), Gaps = 14/47 (29%)
Query: 10 VKKYEGQIL-GTLSPHLFAIGSAAYSALATSGNQVVVISGESGSGKT 55
+ +G+ L G L+ L Q + + G SG+GKT
Sbjct: 357 ILSPDGKTLAGPLNFTL-------------PAGQRIALVGPSGAGKT 390
>gnl|CDD|181906 PRK09493, glnQ, glutamine ABC transporter ATP-binding protein;
Reviewed.
Length = 240
Score = 25.8 bits (57), Expect = 5.2
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 42 QVVVISGESGSGKT 55
+VVVI G SGSGK+
Sbjct: 28 EVVVIIGPSGSGKS 41
>gnl|CDD|132027 TIGR02982, heterocyst_DevA, ABC exporter ATP-binding subunit,
DevA family. Members of this protein family are found
mostly in the Cyanobacteria, but also in the
Planctomycetes. Cyanobacterial examples are involved in
heterocyst formation, by which some fraction of members
of the colony undergo a developmental change and become
capable of nitrogen fixation. The DevBCA proteins are
thought export of either heterocyst-specific
glycolipids or an enzyme essential for formation of the
laminated layer found in heterocysts.
Length = 220
Score = 25.7 bits (57), Expect = 5.4
Identities = 8/14 (57%), Positives = 13/14 (92%)
Query: 42 QVVVISGESGSGKT 55
++V+++G SGSGKT
Sbjct: 32 EIVILTGPSGSGKT 45
>gnl|CDD|172360 PRK13833, PRK13833, conjugal transfer protein TrbB; Provisional.
Length = 323
Score = 25.9 bits (57), Expect = 5.6
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 34 SALATSGNQVVVISGESGSGKTECTKLVMQYLAAVNKSPSNLITEQILE 82
SA+ + N +VISG +GSGKT V+ + A +I E E
Sbjct: 139 SAIDSRLN--IVISGGTGSGKTTLANAVIAEIVASAPEDRLVILEDTAE 185
>gnl|CDD|233585 TIGR01818, ntrC, nitrogen regulation protein NR(I). This model
represents NtrC, a DNA-binding response regulator that
is phosphorylated by NtrB and interacts with sigma-54.
NtrC usually controls the expression of glutamine
synthase, GlnA, and may be called GlnL, GlnG, etc
[Central intermediary metabolism, Nitrogen metabolism,
Regulatory functions, DNA interactions, Signal
transduction, Two-component systems].
Length = 463
Score = 25.9 bits (57), Expect = 5.6
Identities = 12/28 (42%), Positives = 17/28 (60%), Gaps = 6/28 (21%)
Query: 27 AIGSAAYSALATSGNQVVVISGESGSGK 54
AIG + S + V+I+GESG+GK
Sbjct: 149 AIGRLSRSDIT------VLINGESGTGK 170
>gnl|CDD|222000 pfam13238, AAA_18, AAA domain.
Length = 128
Score = 25.5 bits (56), Expect = 5.6
Identities = 8/18 (44%), Positives = 12/18 (66%), Gaps = 1/18 (5%)
Query: 44 VVISGESGSGKTE-CTKL 60
++I+G GSGKT +L
Sbjct: 1 ILITGTPGSGKTTLAKEL 18
>gnl|CDD|233764 TIGR02177, PorB_KorB, 2-oxoacid:acceptor oxidoreductase, beta
subunit, pyruvate/2-ketoisovalerate family. A number
of anaerobic and microaerophilic species lack pyruvate
dehydrogenase and have instead a four subunit,
oxygen-sensitive pyruvate oxidoreductase, with either
ferredoxins or flavodoxins used as the acceptor.
Several related four-subunit enzymes may exist in the
same species. This model describes a subfamily of beta
subunits, representing mostly pyruvate and
2-ketoisovalerate specific enzymes.
Length = 287
Score = 25.9 bits (57), Expect = 5.8
Identities = 16/33 (48%), Positives = 17/33 (51%), Gaps = 3/33 (9%)
Query: 26 FAIGSAAYSALATSG---NQVVVISGESGSGKT 55
F I SA ALA QVVV+SG S KT
Sbjct: 10 FGILSALQRALAELNLDPEQVVVVSGIGCSAKT 42
>gnl|CDD|169652 PRK09087, PRK09087, hypothetical protein; Validated.
Length = 226
Score = 25.8 bits (57), Expect = 5.8
Identities = 14/47 (29%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 43 VVVISGESGSGKTECTKLVMQYLAAVNKSPSNLITEQILEAS--PLL 87
VVV++G GSGKT + + A+ P+ + ++ A+ P+L
Sbjct: 46 VVVLAGPVGSGKTHLASIWREKSDALLIHPNEIGSDAANAAAEGPVL 92
>gnl|CDD|238836 cd01673, dNK, Deoxyribonucleoside kinase (dNK) catalyzes the
phosphorylation of deoxyribonucleosides to yield
corresponding monophosphates (dNMPs). This family
consists of various deoxynucleoside kinases including
deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC
2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC
2.7.1.21) kinases. They are key enzymes in the salvage
of deoxyribonucleosides originating from extra- or
intracellular breakdown of DNA.
Length = 193
Score = 25.7 bits (57), Expect = 5.9
Identities = 18/73 (24%), Positives = 31/73 (42%), Gaps = 16/73 (21%)
Query: 43 VVVISGESGSGKTECTKLVMQYLAAVNKSPSNLITEQIL---EASPLLESFGNAKTVRND 99
V+V+ G G+GK+ K LA ++ E + E +P LE F +
Sbjct: 1 VIVVEGNIGAGKSTLAKE----LA--EHLGYEVVPEPVEPDVEGNPFLEKF-------YE 47
Query: 100 NSSRFGKFLQVHF 112
+ R+ Q++F
Sbjct: 48 DPKRWAFPFQLYF 60
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 26.1 bits (57), Expect = 5.9
Identities = 19/70 (27%), Positives = 28/70 (40%), Gaps = 13/70 (18%)
Query: 41 NQVVVISGESGSGKT----ECTKLVMQYLAAVNKSPSNLITEQILEASPLLESFG--NAK 94
N+ ++ GE+G+GKT + L +NKS Q E S L + N
Sbjct: 464 NEPTLLVGETGTGKTTMIQYLALKLHFKLTVINKS-------QQTEMSDDLGGYKPINGS 516
Query: 95 TVRNDNSSRF 104
T+ RF
Sbjct: 517 TLGLPLHERF 526
>gnl|CDD|215463 PLN02858, PLN02858, fructose-bisphosphate aldolase.
Length = 1378
Score = 26.0 bits (57), Expect = 6.0
Identities = 14/38 (36%), Positives = 20/38 (52%), Gaps = 2/38 (5%)
Query: 32 AYSALATSGNQVVVISGESGSGKTECTKLVMQYLAAVN 69
A S L+ ++ VI G G+G K+V Q LA V+
Sbjct: 472 AGSVLSALSEKLYVIKGGCGAGSG--VKMVNQLLAGVH 507
>gnl|CDD|213196 cd03229, ABC_Class3, ATP-binding cassette domain of the binding
protein-dependent transport systems. This class is
comprised of all BPD (Binding Protein Dependent)
systems that are largely represented in archaea and
eubacteria and are primarily involved in scavenging
solutes from the environment. ABC transporters are a
large family of proteins involved in the transport of a
wide variety of different compounds, like sugars, ions,
peptides, and more complex organic molecules. The
nucleotide binding domain shows the highest similarity
between all members of the family. ABC transporters are
a subset of nucleotide hydrolases that contain a
signature motif, Q-loop, and H-loop/switch region, in
addition to, the Walker A motif/P-loop and Walker B
motif commonly found in a number of ATP- and
GTP-binding and hydrolyzing proteins.
Length = 178
Score = 25.6 bits (57), Expect = 6.2
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 36 LATSGNQVVVISGESGSGKT 55
L ++V + G SGSGK+
Sbjct: 21 LNIEAGEIVALLGPSGSGKS 40
>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 = 25.8 bits (57), Expect = 6.3
Identities = 26/87 (29%), Positives = 38/87 (43%), Gaps = 17/87 (19%)
Query: 34 SALATSGNQVVVISGESGSGKTECTKLVMQYLAAVNKSPS----N--LITEQILEASPLL 87
A A SG V++I GE+G+GK E ++ L+A N +E + EA
Sbjct: 95 KAYAPSGLPVLII-GETGTGK-ELFARLIHALSARRAEAPFIAFNCAAYSENLQEA---- 148
Query: 88 ESFGNAK---TVRNDNSSRFGKFLQVH 111
E FG+ K T + G F Q +
Sbjct: 149 ELFGHEKGAFTGA--QGGKAGLFEQAN 173
>gnl|CDD|217429 pfam03215, Rad17, Rad17 cell cycle checkpoint protein.
Length = 490
Score = 25.8 bits (56), Expect = 6.4
Identities = 13/70 (18%), Positives = 30/70 (42%), Gaps = 15/70 (21%)
Query: 36 LATSGNQVVVISGESGSGKTE-----CTKLVMQYLAAVN----KSPSNLITEQ------I 80
L ++ +++++G SG GK+ +L ++ + N +P N + I
Sbjct: 40 LESNKQLILLLTGPSGCGKSTTVKVLSKELGIEIIEWSNPEYLHNPDNECQKPDFRGDCI 99
Query: 81 LEASPLLESF 90
+ + +E F
Sbjct: 100 VNSLSQMEQF 109
>gnl|CDD|236808 PRK10963, PRK10963, hypothetical protein; Provisional.
Length = 223
Score = 25.7 bits (57), Expect = 6.5
Identities = 12/37 (32%), Positives = 18/37 (48%), Gaps = 8/37 (21%)
Query: 18 LGTLS--------PHLFAIGSAAYSALATSGNQVVVI 46
LG L+ P A+GS A S L + G+ V++
Sbjct: 151 LGPLNGPELLLLLPEAKAVGSVAMSLLGSDGDLGVLL 187
>gnl|CDD|234608 PRK00064, recF, recombination protein F; Reviewed.
Length = 361
Score = 25.5 bits (57), Expect = 6.6
Identities = 10/24 (41%), Positives = 12/24 (50%), Gaps = 1/24 (4%)
Query: 33 YSALA-TSGNQVVVISGESGSGKT 55
Y L V V+ GE+G GKT
Sbjct: 14 YEELDLELSPGVNVLVGENGQGKT 37
>gnl|CDD|224345 COG1428, COG1428, Deoxynucleoside kinases [Nucleotide transport
and metabolism].
Length = 216
Score = 25.3 bits (56), Expect = 7.1
Identities = 14/50 (28%), Positives = 23/50 (46%), Gaps = 7/50 (14%)
Query: 41 NQVVVISGESGSGKTECTKLVMQYLAAVNKSPSNLITEQILEASPLLESF 90
V+VI G G+GK+ + LA + E ++E +P L+ F
Sbjct: 4 AMVIVIEGMIGAGKSTLAQA----LA--EHLGFKVFYE-LVEDNPFLDLF 46
>gnl|CDD|161787 TIGR00243, Dxr, 1-deoxy-D-xylulose 5-phosphate reductoisomerase.
1-deoxy-D-xylulose 5-phosphate is converted to
2-C-methyl-D-erythritol 4-phosphate in the presence of
NADPH. It is involved in the synthesis of isopentenyl
diphosphate (IPP), a basic building block in isoprenoid,
thiamin, and pyridoxal biosynthesis [Biosynthesis of
cofactors, prosthetic groups, and carriers, Other].
Length = 389
Score = 25.6 bits (56), Expect = 7.1
Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 7 LDMVKKYEGQILGTLSPHLFAIGSAAYSALATSGNQVVVISGESGS 52
LD VKKY Q+L S H AI + L G ++++ G+
Sbjct: 136 LDAVKKYGVQLLPVDSEH-NAIFQSLQHGLEELGVVSIILTASGGA 180
>gnl|CDD|188353 TIGR03608, L_ocin_972_ABC, putative bacteriocin export ABC
transporter, lactococcin 972 group. A gene pair with a
fairly wide distribution consists of a polypeptide
related to the lactococcin 972 (see TIGR01653) and
multiple-membrane-spanning putative immunity protein
(see TIGR01654). This model represents a small clade
within the ABC transporters that regularly are found
adjacent to these bacteriocin system gene pairs and are
likely serve as export proteins [Cellular processes,
Toxin production and resistance, Transport and binding
proteins, Unknown substrate].
Length = 206
Score = 25.3 bits (56), Expect = 7.2
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 43 VVVISGESGSGKT 55
+ I GESGSGK+
Sbjct: 26 MYAIIGESGSGKS 38
>gnl|CDD|112483 pfam03668, ATP_bind_2, P-loop ATPase protein family. This family
contains an ATP-binding site and could be an ATPase
(personal obs:C Yeats).
Length = 284
Score = 25.5 bits (56), Expect = 7.4
Identities = 7/14 (50%), Positives = 12/14 (85%)
Query: 42 QVVVISGESGSGKT 55
+V+I+G SG+GK+
Sbjct: 2 DLVIITGRSGAGKS 15
>gnl|CDD|226646 COG4178, COG4178, ABC-type uncharacterized transport system,
permease and ATPase components [General function
prediction only].
Length = 604
Score = 25.7 bits (57), Expect = 7.6
Identities = 8/12 (66%), Positives = 12/12 (100%)
Query: 44 VVISGESGSGKT 55
++I+GESG+GKT
Sbjct: 422 LLITGESGAGKT 433
>gnl|CDD|215758 pfam00158, Sigma54_activat, Sigma-54 interaction domain.
Length = 168
Score = 25.0 bits (56), Expect = 7.8
Identities = 8/12 (66%), Positives = 11/12 (91%)
Query: 44 VVISGESGSGKT 55
V+I+GESG+GK
Sbjct: 25 VLITGESGTGKE 36
>gnl|CDD|238979 cd02021, GntK, Gluconate kinase (GntK) catalyzes the phosphoryl
transfer from ATP to gluconate. The resulting product
gluconate-6-phoshate is an important precursor of
gluconate metabolism. GntK acts as a dimmer composed of
two identical subunits.
Length = 150
Score = 25.3 bits (56), Expect = 7.9
Identities = 10/25 (40%), Positives = 15/25 (60%), Gaps = 4/25 (16%)
Query: 43 VVVISGESGSGKTECTKLVMQYLAA 67
++V+ G SGSGK+ V + LA
Sbjct: 1 IIVVMGVSGSGKS----TVGKALAE 21
>gnl|CDD|129690 TIGR00602, rad24, checkpoint protein rad24. All proteins in this
family for which functions are known are involved in DNA
damage tolerance (likely cell cycle checkpoints).This
family is based on the phylogenomic analysis of JA Eisen
(1999, Ph.D. Thesis, Stanford University) [DNA
metabolism, DNA replication, recombination, and repair].
Length = 637
Score = 25.7 bits (56), Expect = 8.0
Identities = 14/70 (20%), Positives = 24/70 (34%), Gaps = 15/70 (21%)
Query: 36 LATSGNQVVVISGESGSGKTECTK-----LVMQYLAAVN----KSPSN------LITEQI 80
L + ++++I+G SG GK+ K L +Q N N +
Sbjct: 105 LENAPKRILLITGPSGCGKSTTIKILSKELGIQVQEWSNPTLPDFQKNDHKVTLSLESCF 164
Query: 81 LEASPLLESF 90
+E F
Sbjct: 165 SNFQSQIEVF 174
>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 = 25.3 bits (56), Expect = 8.1
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 42 QVVVISGESGSGKTECTKLV 61
+ V I G SGSGK+ +L+
Sbjct: 28 KKVAIVGPSGSGKSTILRLL 47
>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 = 25.2 bits (56), Expect = 8.1
Identities = 8/15 (53%), Positives = 12/15 (80%)
Query: 42 QVVVISGESGSGKTE 56
++V+ G +GSGKTE
Sbjct: 128 PLIVLGGMTGSGKTE 142
>gnl|CDD|205733 pfam13555, AAA_29, P-loop containing region of AAA domain.
Length = 60
Score = 24.1 bits (53), Expect = 8.3
Identities = 10/37 (27%), Positives = 14/37 (37%), Gaps = 11/37 (29%)
Query: 19 GTLSPHLFAIGSAAYSALATSGNQVVVISGESGSGKT 55
GT H I +++G SGSGK+
Sbjct: 10 GTFDGHTIPIDPKG-----------TLLTGPSGSGKS 35
>gnl|CDD|172992 PRK14526, PRK14526, adenylate kinase; Provisional.
Length = 211
Score = 25.2 bits (55), Expect = 8.3
Identities = 15/43 (34%), Positives = 22/43 (51%)
Query: 44 VVISGESGSGKTECTKLVMQYLAAVNKSPSNLITEQILEASPL 86
+V G GSGK K++ L + S +L E IL ++PL
Sbjct: 3 LVFLGPPGSGKGTIAKILSNELNYYHISTGDLFRENILNSTPL 45
>gnl|CDD|225398 COG2842, COG2842, Uncharacterized ATPase, putative transposase
[General function prediction only].
Length = 297
Score = 25.5 bits (56), Expect = 8.4
Identities = 14/43 (32%), Positives = 21/43 (48%), Gaps = 9/43 (20%)
Query: 32 AYSALATSGNQVVVISGESGSGKTECTKLVMQYLAAVNKSPSN 74
+ A+ +VV+ G +G GKT+ AA N +PSN
Sbjct: 85 FRTRPASKTGSLVVVYGYAGLGKTQ---------AAKNYAPSN 118
>gnl|CDD|235858 PRK06762, PRK06762, hypothetical protein; Provisional.
Length = 166
Score = 24.9 bits (55), Expect = 8.5
Identities = 8/12 (66%), Positives = 10/12 (83%)
Query: 44 VVISGESGSGKT 55
++I G SGSGKT
Sbjct: 5 IIIRGNSGSGKT 16
>gnl|CDD|217223 pfam02775, TPP_enzyme_C, Thiamine pyrophosphate enzyme,
C-terminal TPP binding domain.
Length = 151
Score = 24.9 bits (55), Expect = 8.7
Identities = 10/33 (30%), Positives = 16/33 (48%)
Query: 19 GTLSPHLFAIGSAAYSALATSGNQVVVISGESG 51
G L + + +A + LA VV I+G+ G
Sbjct: 25 GGLGTMGYGLPAAIGAKLARPDRPVVAIAGDGG 57
>gnl|CDD|224116 COG1195, RecF, Recombinational DNA repair ATPase (RecF pathway)
[DNA replication, recombination, and repair].
Length = 363
Score = 25.3 bits (56), Expect = 8.9
Identities = 8/16 (50%), Positives = 10/16 (62%)
Query: 40 GNQVVVISGESGSGKT 55
V V+ GE+G GKT
Sbjct: 22 SPGVNVLVGENGQGKT 37
>gnl|CDD|225096 COG2185, Sbm, Methylmalonyl-CoA mutase, C-terminal domain/subunit
(cobalamin-binding) [Lipid metabolism].
Length = 143
Score = 24.9 bits (55), Expect = 9.0
Identities = 8/31 (25%), Positives = 12/31 (38%), Gaps = 1/31 (3%)
Query: 31 AAYSALATSGNQVVVISGESGSGKTECTKLV 61
A +A+ V+ +S G T LV
Sbjct: 55 AVRAAVEEDV-DVIGVSSLDGGHLTLVPGLV 84
>gnl|CDD|224050 COG1125, OpuBA, ABC-type proline/glycine betaine transport
systems, ATPase components [Amino acid transport and
metabolism].
Length = 309
Score = 25.3 bits (56), Expect = 9.1
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 43 VVVISGESGSGKTECTKLV 61
+V+ G SGSGKT K++
Sbjct: 29 FLVLIGPSGSGKTTTLKMI 47
>gnl|CDD|226166 COG3640, CooC, CO dehydrogenase maturation factor [Cell division
and chromosome partitioning].
Length = 255
Score = 25.3 bits (56), Expect = 9.1
Identities = 8/27 (29%), Positives = 15/27 (55%)
Query: 43 VVVISGESGSGKTECTKLVMQYLAAVN 69
+ I+G+ G GKT L+++ L +
Sbjct: 2 KIAITGKGGVGKTTIAALLLKRLLSKG 28
>gnl|CDD|213223 cd03256, ABC_PhnC_transporter, ATP-binding cassette domain of the
binding protein-dependent phosphonate transport system.
Phosphonates are a class of organophosphorus compounds
characterized by a chemically stable
carbon-to-phosphorus (C-P) bond. Phosphonates are
widespread among naturally occurring compounds in all
kingdoms of wildlife, but only prokaryotic
microorganisms are able to cleave this bond. Certain
bacteria such as E. coli can use alkylphosphonates as a
phosphorus source. 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 = 241
Score = 25.2 bits (56), Expect = 9.1
Identities = 6/14 (42%), Positives = 10/14 (71%)
Query: 42 QVVVISGESGSGKT 55
+ V + G SG+GK+
Sbjct: 28 EFVALIGPSGAGKS 41
>gnl|CDD|131721 TIGR02673, FtsE, cell division ATP-binding protein FtsE. This
model describes FtsE, a member of the ABC transporter
ATP-binding protein family. This protein, and its
permease partner FtsX, localize to the division site.
In a number of species, the ftsEX gene pair is located
next to FtsY, the signal recognition particle-docking
protein [Cellular processes, Cell division].
Length = 214
Score = 25.3 bits (56), Expect = 9.2
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 42 QVVVISGESGSGKTECTKLVMQYL 65
+ + ++G SG+GKT KL+ L
Sbjct: 29 EFLFLTGPSGAGKTTLLKLLYGAL 52
>gnl|CDD|238544 cd01124, KaiC, KaiC is a circadian clock protein primarily found
in cyanobacteria KaiC is a RecA-like ATPase, having
both Walker A and Walker B motifs. A related protein is
found in archaea.
Length = 187
Score = 25.0 bits (55), Expect = 9.3
Identities = 14/45 (31%), Positives = 20/45 (44%), Gaps = 8/45 (17%)
Query: 43 VVVISGESGSGKTECTKLVMQYL--AAVNKSPSNLITEQILEASP 85
++SG G+GK T +Q+L P +T LE SP
Sbjct: 1 STLLSGGPGTGK---TTFALQFLYAGLARGEPGLYVT---LEESP 39
>gnl|CDD|224533 COG1618, COG1618, Predicted nucleotide kinase [Nucleotide
transport and metabolism].
Length = 179
Score = 25.0 bits (55), Expect = 9.4
Identities = 10/39 (25%), Positives = 16/39 (41%)
Query: 44 VVISGESGSGKTECTKLVMQYLAAVNKSPSNLITEQILE 82
+ I+G G GKT + + L IT ++ E
Sbjct: 8 IFITGRPGVGKTTLVLKIAEKLREKGYKVGGFITPEVRE 46
>gnl|CDD|224071 COG1149, COG1149, MinD superfamily P-loop ATPase containing an
inserted ferredoxin domain [Energy production and
conversion].
Length = 284
Score = 25.0 bits (55), Expect = 9.5
Identities = 9/14 (64%), Positives = 11/14 (78%)
Query: 42 QVVVISGESGSGKT 55
QV V SG+ G+GKT
Sbjct: 3 QVAVASGKGGTGKT 16
>gnl|CDD|226360 COG3840, ThiQ, ABC-type thiamine transport system, ATPase
component [Coenzyme metabolism].
Length = 231
Score = 25.0 bits (55), Expect = 9.5
Identities = 9/31 (29%), Positives = 15/31 (48%)
Query: 36 LATSGNQVVVISGESGSGKTECTKLVMQYLA 66
L ++V I G SG+GK+ L+ +
Sbjct: 20 LTVPAGEIVAILGPSGAGKSTLLNLIAGFET 50
>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 = 24.8 bits (55), Expect = 9.8
Identities = 6/12 (50%), Positives = 11/12 (91%)
Query: 44 VVISGESGSGKT 55
++I+G SG+GK+
Sbjct: 30 LLITGPSGTGKS 41
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
0.314 0.130 0.356
Gapped
Lambda K H
0.267 0.0643 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,467,305
Number of extensions: 444689
Number of successful extensions: 984
Number of sequences better than 10.0: 1
Number of HSP's gapped: 955
Number of HSP's successfully gapped: 237
Length of query: 114
Length of database: 10,937,602
Length adjustment: 78
Effective length of query: 36
Effective length of database: 7,477,990
Effective search space: 269207640
Effective search space used: 269207640
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 53 (24.4 bits)