RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4957
(143 letters)
>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 = 100 bits (250), Expect = 2e-25
Identities = 37/53 (69%), Positives = 40/53 (75%)
Query: 86 LYQPQDREYPDLCQLPDLNETTLLENLRARFNAGHIYTYVGSILIAVNPFKLF 138
L Q Q REY DLC LP+L E TLL+NLR RF GHIYTY GSIL+AVNPFK
Sbjct: 1 LLQRQQREYDDLCNLPELTEGTLLKNLRHRFLQGHIYTYAGSILVAVNPFKFL 53
>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 = 78.1 bits (193), Expect = 8e-18
Identities = 26/43 (60%), Positives = 29/43 (67%)
Query: 94 YPDLCQLPDLNETTLLENLRARFNAGHIYTYVGSILIAVNPFK 136
DL LP LNE T+L NLR R+ IYTY G ILIAVNP+K
Sbjct: 2 VDDLASLPHLNEATVLNNLRQRYKKDLIYTYAGPILIAVNPYK 44
>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 = 73.3 bits (181), Expect = 5e-16
Identities = 23/50 (46%), Positives = 30/50 (60%), Gaps = 1/50 (2%)
Query: 88 QPQDREYP-DLCQLPDLNETTLLENLRARFNAGHIYTYVGSILIAVNPFK 136
P E DL L LNE +L NL+ R+ IYTY+G +L+AVNP+K
Sbjct: 1 NPPKFEGVEDLVLLTYLNEPAVLHNLKKRYLKDLIYTYIGLVLVAVNPYK 50
>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 = 66.5 bits (162), Expect = 9e-14
Identities = 26/43 (60%), Positives = 34/43 (79%)
Query: 96 DLCQLPDLNETTLLENLRARFNAGHIYTYVGSILIAVNPFKLF 138
D+ QL DL ETT+L NL+ RF IYTY+GSIL++VNP+K+F
Sbjct: 5 DMTQLEDLQETTVLWNLKLRFERNLIYTYIGSILVSVNPYKMF 47
>gnl|CDD|215687 pfam00063, Myosin_head, Myosin head (motor domain).
Length = 679
Score = 63.5 bits (155), Expect = 1e-12
Identities = 22/42 (52%), Positives = 29/42 (69%)
Query: 95 PDLCQLPDLNETTLLENLRARFNAGHIYTYVGSILIAVNPFK 136
DL L LNET++L NL+ R+ IYTY G +LI+VNP+K
Sbjct: 2 EDLAALTQLNETSVLHNLKKRYTGDLIYTYSGLVLISVNPYK 43
>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 = 61.7 bits (150), Expect = 4e-12
Identities = 24/45 (53%), Positives = 31/45 (68%)
Query: 92 REYPDLCQLPDLNETTLLENLRARFNAGHIYTYVGSILIAVNPFK 136
++ D C L LNE TLL N+R R++ IYTYV +ILIAVNP+
Sbjct: 4 KDVEDNCSLMYLNEATLLNNIRVRYSKDKIYTYVANILIAVNPYF 48
>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 = 60.5 bits (147), Expect = 1e-11
Identities = 21/42 (50%), Positives = 29/42 (69%)
Query: 96 DLCQLPDLNETTLLENLRARFNAGHIYTYVGSILIAVNPFKL 137
D+ L DL+E +L NL R+ IYTY GSIL+AVNP+++
Sbjct: 4 DMITLGDLHEAGILRNLLIRYKKKLIYTYTGSILVAVNPYQI 45
>gnl|CDD|227355 COG5022, COG5022, Myosin heavy chain [Cytoskeleton].
Length = 1463
Score = 58.6 bits (142), Expect = 7e-11
Identities = 23/41 (56%), Positives = 29/41 (70%)
Query: 96 DLCQLPDLNETTLLENLRARFNAGHIYTYVGSILIAVNPFK 136
DL +L LNE +L NL R+N G IYTY G +LIAVNP++
Sbjct: 70 DLTELSYLNEPAVLHNLEKRYNNGQIYTYSGLVLIAVNPYR 110
>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 = 56.8 bits (138), Expect = 3e-10
Identities = 21/41 (51%), Positives = 29/41 (70%)
Query: 96 DLCQLPDLNETTLLENLRARFNAGHIYTYVGSILIAVNPFK 136
DL L ++E ++ENL+ RF IYTY+G +LI+VNPFK
Sbjct: 4 DLVLLSKISEEAIVENLKKRFQNDLIYTYIGPVLISVNPFK 44
>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 = 55.8 bits (135), Expect = 5e-10
Identities = 21/41 (51%), Positives = 30/41 (73%)
Query: 96 DLCQLPDLNETTLLENLRARFNAGHIYTYVGSILIAVNPFK 136
D+ +L L+E +L+NL+ R+ IYTY G+ILIAVNPF+
Sbjct: 5 DMTKLSYLHEPGVLQNLKTRYELNEIYTYTGNILIAVNPFQ 45
>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 = 54.9 bits (133), Expect = 1e-09
Identities = 20/41 (48%), Positives = 28/41 (68%)
Query: 96 DLCQLPDLNETTLLENLRARFNAGHIYTYVGSILIAVNPFK 136
D+ +L LNE ++L NLR R+ + IYTY G +AVNP+K
Sbjct: 9 DMAELTHLNEASVLHNLRERYYSDLIYTYSGLFCVAVNPYK 49
>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 = 54.3 bits (131), Expect = 2e-09
Identities = 20/40 (50%), Positives = 26/40 (65%)
Query: 96 DLCQLPDLNETTLLENLRARFNAGHIYTYVGSILIAVNPF 135
DL L L+E +L NLR RF IYTY G +L+A+NP+
Sbjct: 4 DLTNLSYLHEPAVLHNLRVRFIQKQIYTYSGIVLVAINPY 43
>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 = 50.6 bits (121), Expect = 4e-08
Identities = 22/41 (53%), Positives = 29/41 (70%)
Query: 96 DLCQLPDLNETTLLENLRARFNAGHIYTYVGSILIAVNPFK 136
DL QL LNE ++L NL+ R++ IYT G +L+AVNPFK
Sbjct: 12 DLMQLSYLNEPSVLYNLQYRYSQDLIYTKAGPVLVAVNPFK 52
>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 = 49.8 bits (119), Expect = 6e-08
Identities = 23/41 (56%), Positives = 29/41 (70%)
Query: 96 DLCQLPDLNETTLLENLRARFNAGHIYTYVGSILIAVNPFK 136
DL L L+E T++E L+ R+ IYTYVG ILIAVNPF+
Sbjct: 4 DLATLEVLDEDTIVEQLQKRYETNQIYTYVGDILIAVNPFQ 44
>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 = 49.5 bits (118), Expect = 1e-07
Identities = 17/39 (43%), Positives = 24/39 (61%)
Query: 96 DLCQLPDLNETTLLENLRARFNAGHIYTYVGSILIAVNP 134
DL L LNE+++L LR R+ A I+T G L+ +NP
Sbjct: 4 DLASLVYLNESSVLHTLRQRYAANLIHTCAGPDLLVLNP 42
>gnl|CDD|227925 COG5638, COG5638, Uncharacterized conserved protein [Function
unknown].
Length = 622
Score = 40.2 bits (93), Expect = 1e-04
Identities = 20/79 (25%), Positives = 32/79 (40%), Gaps = 2/79 (2%)
Query: 4 ALQQVKVNLTWDETDPDRVEAVSK-LMSGDVDEANLKTYLATSSEEEGKRDFLFYLREKL 62
ALQ KV L+WD DP R + + + + + Y A+ +E + +KL
Sbjct: 325 ALQHSKVKLSWDAEDPHRKDLCKEAFTDDGIRDKDFSAYTASKLSDEDDDSVMESKMQKL 384
Query: 63 NDNIWAD-GFNIDPELIRD 80
D G N + + D
Sbjct: 385 FSEKEIDFGLNSELVDMSD 403
>gnl|CDD|240229 PTZ00014, PTZ00014, myosin-A; Provisional.
Length = 821
Score = 38.9 bits (91), Expect = 4e-04
Identities = 17/43 (39%), Positives = 25/43 (58%)
Query: 94 YPDLCQLPDLNETTLLENLRARFNAGHIYTYVGSILIAVNPFK 136
Y D+ LP N +L+ L+ R+ IYT +L+A+NPFK
Sbjct: 98 YGDIGLLPHTNIPCVLDFLKHRYLKNQIYTTADPLLVAINPFK 140
>gnl|CDD|180666 PRK06710, PRK06710, long-chain-fatty-acid--CoA ligase; Validated.
Length = 563
Score = 28.5 bits (63), Expect = 1.5
Identities = 12/37 (32%), Positives = 21/37 (56%), Gaps = 4/37 (10%)
Query: 47 EEEGKRDFLFYLREKLNDNIWADGFNIDPELIRDYFY 83
+E+G FY++++ D I A GFN+ P + + Y
Sbjct: 442 DEDG----FFYVKDRKKDMIVASGFNVYPREVEEVLY 474
>gnl|CDD|132249 TIGR03205, pimA, dicarboxylate--CoA ligase PimA. PimA, a member of
a large family of acyl-CoA ligases, is found in a
characteristic operon pimFABCDE for the metabolism of
pimelate and related compounds. It is found, so far, in
Bradyrhizobium japonicum and several strains of
Rhodopseudomonas palustris. PimA from R. palustris was
shown to be active as a CoA ligase for C(7) to C(14)
dicarboxylates and fatty acids.
Length = 541
Score = 28.0 bits (62), Expect = 1.7
Identities = 11/32 (34%), Positives = 18/32 (56%)
Query: 52 RDFLFYLREKLNDNIWADGFNIDPELIRDYFY 83
D F+L ++ D I + GFN+ P++I Y
Sbjct: 433 TDGYFFLVDRKKDMIISGGFNVYPQMIEQAIY 464
>gnl|CDD|183018 PRK11178, PRK11178, uridine phosphorylase; Provisional.
Length = 251
Score = 27.7 bits (62), Expect = 2.2
Identities = 12/34 (35%), Positives = 21/34 (61%)
Query: 18 DPDRVEAVSKLMSGDVDEANLKTYLATSSEEEGK 51
DP+RVE ++ LM V A+ + + + +E +GK
Sbjct: 25 DPERVEKIAALMDNPVFLASHREFTSWRAELDGK 58
>gnl|CDD|213309 cd05944, FACL_like_4, Uncharacterized subfamily of fatty acid CoA
ligase (FACL). Fatty acyl-CoA ligases catalyze the
ATP-dependent activation of fatty acids in a two-step
reaction. The carboxylate substrate first reacts with
ATP to form an acyl-adenylate intermediate, which then
reacts with CoA to produce an acyl-CoA ester. This is a
required step before free fatty acids can participate in
most catabolic and anabolic reactions.
Length = 359
Score = 27.3 bits (61), Expect = 2.9
Identities = 11/32 (34%), Positives = 16/32 (50%)
Query: 53 DFLFYLREKLNDNIWADGFNIDPELIRDYFYR 84
D +L + D I G NIDP++I + R
Sbjct: 247 DGYLWLTGRAKDLIIRGGHNIDPQMIEEALLR 278
>gnl|CDD|234805 PRK00630, PRK00630, nickel responsive regulator; Provisional.
Length = 148
Score = 26.7 bits (59), Expect = 4.1
Identities = 13/34 (38%), Positives = 17/34 (50%), Gaps = 3/34 (8%)
Query: 45 SSEEEGKRDFLFYLREKLNDNIWADGFNIDPELI 78
SS E RD + REKL ++ WA+ D I
Sbjct: 35 SSRSELVRDLI---REKLVEDNWAEDNPNDESKI 65
>gnl|CDD|218758 pfam05806, Noggin, Noggin. This family consists of the eukaryotic
Noggin proteins. Noggin is a glycoprotein that binds
bone morphogenetic proteins (BMPs) selectively and, when
added to osteoblasts, it opposes the effects of BMPs. It
has been found that noggin arrests the differentiation
of stromal cells, preventing cellular maturation.
Length = 220
Score = 26.7 bits (59), Expect = 4.4
Identities = 12/33 (36%), Positives = 18/33 (54%), Gaps = 3/33 (9%)
Query: 89 PQDREYPDLCQLP---DLNETTLLENLRARFNA 118
+ +E PD P DLNET L + L + F++
Sbjct: 38 VELKEDPDPIHDPKEKDLNETLLRKILGSNFDS 70
>gnl|CDD|241087 cd12643, RRM_CFIm68, RNA recognition motif of pre-mRNA cleavage
factor Im 68 kDa subunit (CFIm68 or CPSF6) and similar
proteins. This subgroup corresponds to the RRM of
CFIm68. Cleavage factor Im (CFIm) is a highly conserved
component of the eukaryotic mRNA 3' processing
machinery that functions in UGUA-mediated poly(A) site
recognition, the regulation of alternative poly(A) site
selection, mRNA export, and mRNA splicing. It is a
complex composed of a small 25 kDa (CFIm25) subunit and
a larger 59/68/72 kDa subunit. Two separate genes,
CPSF6 and CPSF7, code for two isoforms of the large
subunit, CFIm68 and CFIm59. The family includes CFIm68,
also termed cleavage and polyadenylation specificity
factor subunit 6 (CPSF6), or cleavage and
polyadenylation specificity factor 68 kDa subunit
(CPSF68), or protein HPBRII-4/7. CFIm68 contains an
N-terminal RNA recognition motif (RRM), also termed RBD
(RNA binding domain) or RNP (ribonucleoprotein domain),
a central proline-rich region, and a C-terminal RS-like
domain. The N-terminal RRM of CFIm68 mediates the
interaction with CFIm25. It also serves to enhance RNA
binding and facilitate RNA looping. .
Length = 77
Score = 25.1 bits (55), Expect = 7.0
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 11 NLTWDETDPDRVEAVSKLMSGDVDE 35
NLTW TD D EA+ + D+ E
Sbjct: 6 NLTWWTTDQDLTEAIQSIGVNDLLE 30
>gnl|CDD|99841 cd06138, ExoI_N, N-terminal DEDDh 3'-5' exonuclease domain of
Escherichia coli exonuclease I and similar proteins.
This subfamily is composed of the N-terminal domain of
Escherichia coli exonuclease I (ExoI) and similar
proteins. ExoI is a monomeric enzyme that hydrolyzes
single stranded DNA in the 3' to 5' direction. It plays
a role in DNA recombination and repair. It primarily
functions in repairing frameshift mutations. The
N-terminal domain of ExoI is a DEDDh-type DnaQ-like 3'-5
exonuclease containing three conserved sequence motifs
termed ExoI, ExoII and ExoIII, with a specific Hx(4)D
conserved pattern at ExoIII. These motifs are clustered
around the active site and contain four conserved acidic
residues that serve as ligands for the two metal ions
required for catalysis. The ExoI structure is unique
among DnaQ family enzymes in that there is a large
distance between the two metal ions required for
catalysis and the catalytic histidine is oriented away
from the active site.
Length = 183
Score = 25.7 bits (57), Expect = 9.2
Identities = 14/37 (37%), Positives = 18/37 (48%), Gaps = 3/37 (8%)
Query: 70 GFN---IDPELIRDYFYRFLYQPQDREYPDLCQLPDL 103
G+N D E +R FYR LY P E+ + DL
Sbjct: 89 GYNNIRFDDEFLRFAFYRNLYDPYTWEWKNGNSRWDL 125
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
0.320 0.139 0.418
Gapped
Lambda K H
0.267 0.0809 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,609,235
Number of extensions: 701089
Number of successful extensions: 791
Number of sequences better than 10.0: 1
Number of HSP's gapped: 791
Number of HSP's successfully gapped: 44
Length of query: 143
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 56
Effective length of database: 7,078,804
Effective search space: 396413024
Effective search space used: 396413024
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (24.4 bits)