RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5412
(116 letters)
>gnl|CDD|238673 cd01377, MYSc_type_II, Myosin motor domain, type II myosins. Myosin
II mediates cortical contraction in cell motility, and
is the motor in smooth and skeletal muscle. This
catalytic (head) domain has ATPase activity and belongs
to the larger group of P-loop NTPases. Myosins are
actin-dependent molecular motors that play important
roles in muscle contraction, cell motility, and
organelle transport. The head domain is a molecular
motor, which utilizes ATP hydrolysis to generate
directed movement toward the plus end along actin
filaments. A cyclical interaction between myosin and
actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 693
Score = 87.3 bits (217), Expect = 3e-21
Identities = 29/35 (82%), Positives = 33/35 (94%)
Query: 82 PPKFDKVEDMADLTCLNEASVLHNIKDRYYSGLIY 116
PPKFDKVEDMA+LT LNEASVLHN+++RYYS LIY
Sbjct: 1 PPKFDKVEDMAELTHLNEASVLHNLRERYYSDLIY 35
>gnl|CDD|227355 COG5022, COG5022, Myosin heavy chain [Cytoskeleton].
Length = 1463
Score = 79.4 bits (196), Expect = 1e-18
Identities = 32/85 (37%), Positives = 49/85 (57%), Gaps = 5/85 (5%)
Query: 37 VWVPHENQGFVAAGIKGEL---GDSVEVELVETGKRIVVPKDDIQ--KMNPPKFDKVEDM 91
W+P E +G++ A I E G E E G+ + V K + ++ PKFD V+D+
Sbjct: 12 CWIPDEEKGWIWAEIIKEAFNKGKVTEEGKKEDGESVSVKKKVLGNDRIKLPKFDGVDDL 71
Query: 92 ADLTCLNEASVLHNIKDRYYSGLIY 116
+L+ LNE +VLHN++ RY +G IY
Sbjct: 72 TELSYLNEPAVLHNLEKRYNNGQIY 96
>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 = 66.4 bits (163), Expect = 4e-14
Identities = 23/36 (63%), Positives = 27/36 (75%)
Query: 81 NPPKFDKVEDMADLTCLNEASVLHNIKDRYYSGLIY 116
NPPKF+ VED+ LT LNE +VLHN+K RY LIY
Sbjct: 1 NPPKFEGVEDLVLLTYLNEPAVLHNLKKRYLKDLIY 36
>gnl|CDD|111612 pfam02736, Myosin_N, Myosin N-terminal SH3-like domain. This
domain has an SH3-like fold. It is found at the
N-terminus of many but not all myosins. The function of
this domain is unknown.
Length = 42
Score = 49.4 bits (119), Expect = 1e-09
Identities = 21/43 (48%), Positives = 26/43 (60%), Gaps = 1/43 (2%)
Query: 34 KRLVWVPHENQGFVAAGIKGELGDSVEVELVETGKRIVVPKDD 76
K+LVWVP +GFV IK GD V V+ + GK + V KDD
Sbjct: 1 KKLVWVPDPKEGFVKGEIKSREGDKVTVKTED-GKTVTVKKDD 42
>gnl|CDD|215687 pfam00063, Myosin_head, Myosin head (motor domain).
Length = 679
Score = 53.5 bits (129), Expect = 1e-09
Identities = 20/29 (68%), Positives = 22/29 (75%)
Query: 88 VEDMADLTCLNEASVLHNIKDRYYSGLIY 116
VED+A LT LNE SVLHN+K RY LIY
Sbjct: 1 VEDLAALTQLNETSVLHNLKKRYTGDLIY 29
>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 = 48.0 bits (115), Expect = 1e-07
Identities = 16/29 (55%), Positives = 22/29 (75%)
Query: 88 VEDMADLTCLNEASVLHNIKDRYYSGLIY 116
V+D+A L LNEA+VL+N++ RY LIY
Sbjct: 2 VDDLASLPHLNEATVLNNLRQRYKKDLIY 30
>gnl|CDD|238679 cd01383, MYSc_type_VIII, Myosin motor domain, plant-specific type
VIII myosins, a subgroup which has been associated with
endocytosis, cytokinesis, cell-to-cell coupling and
gating at plasmodesmata. This catalytic (head) domain
has ATPase activity and belongs to the larger group of
P-loop NTPases. Myosins are actin-dependent molecular
motors that play important roles in muscle contraction,
cell motility, and organelle transport. The head domain
is a molecular motor, which utilizes ATP hydrolysis to
generate directed movement toward the plus end along
actin filaments. A cyclical interaction between myosin
and actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 677
Score = 42.1 bits (99), Expect = 2e-05
Identities = 18/36 (50%), Positives = 24/36 (66%)
Query: 81 NPPKFDKVEDMADLTCLNEASVLHNIKDRYYSGLIY 116
NP D V+D+ L+ LNE SVL+N++ RY LIY
Sbjct: 3 NPDILDGVDDLMQLSYLNEPSVLYNLQYRYSQDLIY 38
>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 = 41.0 bits (96), Expect = 3e-05
Identities = 16/29 (55%), Positives = 22/29 (75%)
Query: 88 VEDMADLTCLNEASVLHNIKDRYYSGLIY 116
VED+A L LNE+SVLH ++ RY + LI+
Sbjct: 2 VEDLASLVYLNESSVLHTLRQRYAANLIH 30
>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 = 39.4 bits (92), Expect = 1e-04
Identities = 15/29 (51%), Positives = 19/29 (65%)
Query: 88 VEDMADLTCLNEASVLHNIKDRYYSGLIY 116
VED L LNEA++L+NI+ RY IY
Sbjct: 6 VEDNCSLMYLNEATLLNNIRVRYSKDKIY 34
>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 = 39.2 bits (92), Expect = 2e-04
Identities = 11/29 (37%), Positives = 20/29 (68%)
Query: 88 VEDMADLTCLNEASVLHNIKDRYYSGLIY 116
+D+ +L+ L+E +VLHN++ R+ IY
Sbjct: 2 KDDLTNLSYLHEPAVLHNLRVRFIQKQIY 30
>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 = 38.4 bits (89), Expect = 3e-04
Identities = 16/31 (51%), Positives = 19/31 (61%)
Query: 86 DKVEDMADLTCLNEASVLHNIKDRYYSGLIY 116
D VEDM L L E +VL N+K R+ LIY
Sbjct: 1 DGVEDMTQLEDLQETTVLWNLKLRFERNLIY 31
>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 = 38.1 bits (89), Expect = 4e-04
Identities = 14/29 (48%), Positives = 18/29 (62%)
Query: 88 VEDMADLTCLNEASVLHNIKDRYYSGLIY 116
V+DM L+ L+E VL N+K RY IY
Sbjct: 3 VDDMTKLSYLHEPGVLQNLKTRYELNEIY 31
>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 = 37.0 bits (86), Expect = 0.001
Identities = 15/29 (51%), Positives = 18/29 (62%)
Query: 88 VEDMADLTCLNEASVLHNIKDRYYSGLIY 116
VEDM L L+EA +L N+ RY LIY
Sbjct: 2 VEDMITLGDLHEAGILRNLLIRYKKKLIY 30
>gnl|CDD|227837 COG5550, COG5550, Predicted aspartyl protease [Posttranslational
modification, protein turnover, chaperones].
Length = 125
Score = 32.8 bits (75), Expect = 0.013
Identities = 12/39 (30%), Positives = 20/39 (51%), Gaps = 2/39 (5%)
Query: 56 GDSVEVELVETG--KRIVVPKDDIQKMNPPKFDKVEDMA 92
GD V EL++TG +V+P +K+ P F + +
Sbjct: 23 GDFVYDELIDTGFTGYLVLPPQVAEKLGLPLFSTIRIVL 61
>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 = 30.2 bits (69), Expect = 0.17
Identities = 10/29 (34%), Positives = 21/29 (72%)
Query: 88 VEDMADLTCLNEASVLHNIKDRYYSGLIY 116
V+D+ L+ ++E +++ N+K R+ + LIY
Sbjct: 2 VDDLVLLSKISEEAIVENLKKRFQNDLIY 30
>gnl|CDD|240229 PTZ00014, PTZ00014, myosin-A; Provisional.
Length = 821
Score = 30.0 bits (68), Expect = 0.27
Identities = 17/71 (23%), Positives = 23/71 (32%), Gaps = 2/71 (2%)
Query: 47 VAAGIKGELGDSVEVELVETGKRIVVPKDDIQKMNPP-KFDKVEDMADLTCLNEASVLHN 105
V G GE +++ T V + N D+ L N VL
Sbjct: 57 VLPGSTGEKLTLKQID-PPTNSTFEVKPEHAFNANSQIDPMTYGDIGLLPHTNIPCVLDF 115
Query: 106 IKDRYYSGLIY 116
+K RY IY
Sbjct: 116 LKHRYLKNQIY 126
>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 = 29.9 bits (67), Expect = 0.29
Identities = 10/35 (28%), Positives = 20/35 (57%)
Query: 82 PPKFDKVEDMADLTCLNEASVLHNIKDRYYSGLIY 116
+ + +D+ +L L E ++L N++ R+ G IY
Sbjct: 3 QRQQREYDDLCNLPELTEGTLLKNLRHRFLQGHIY 37
>gnl|CDD|152429 pfam11994, DUF3489, Protein of unknown function (DUF3489). This
family of proteins is functionally uncharacterized.
This protein is found in bacteria. Proteins in this
family are typically between 84 to 211 amino acids in
length. This protein has a single completely conserved
residue W that may be functionally important.
Length = 72
Score = 28.1 bits (63), Expect = 0.41
Identities = 14/45 (31%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 26 ATQAEWTQKRLVWVPHENQGFVAAGIKGELGDSVEVELVETGKRI 70
AT A + + W PH +G +A +K +LG ++ E + G R
Sbjct: 25 ATIAAIS-EATGWQPHTVRGALAGLLKKKLGLTITSEKPDGGGRR 68
>gnl|CDD|221669 pfam12621, DUF3779, Phosphate metabolism protein. This domain
family is found in eukaryotes, and is approximately 100
amino acids in length. The family is found in
association with pfam02714. There are two completely
conserved residues (W and D) that may be functionally
important. This family is likely to be involved in
phosphate metabolism however there is little
accompanying literature to confirm this.
Length = 95
Score = 28.4 bits (64), Expect = 0.44
Identities = 10/41 (24%), Positives = 17/41 (41%), Gaps = 3/41 (7%)
Query: 6 DPNDPDMKYLSVDRNAFNDPATQAEWTQKRLVWVPHENQGF 46
N P V+++A+ PA L+W+P + G
Sbjct: 20 GYNLPIEYPEEVEKHAYFHPAV---TAPPPLLWIPRDPMGL 57
>gnl|CDD|237303 PRK13203, ureB, urease subunit beta; Reviewed.
Length = 102
Score = 27.9 bits (63), Expect = 0.63
Identities = 12/28 (42%), Positives = 16/28 (57%), Gaps = 3/28 (10%)
Query: 47 VAAG--IKGELGDSVEVELVE-TGKRIV 71
+ AG ++ E G + EVELV G R V
Sbjct: 63 IPAGTAVRFEPGQTREVELVPLAGARRV 90
>gnl|CDD|224188 COG1269, NtpI, Archaeal/vacuolar-type H+-ATPase subunit I [Energy
production and conversion].
Length = 660
Score = 28.5 bits (64), Expect = 0.79
Identities = 8/31 (25%), Positives = 13/31 (41%)
Query: 38 WVPHENQGFVAAGIKGELGDSVEVELVETGK 68
WVP + + I G + E+ ET +
Sbjct: 295 WVPADEVEKLKKIINRATGGAAYFEVSETDE 325
>gnl|CDD|201881 pfam01597, GCV_H, Glycine cleavage H-protein. This is a family
of glycine cleavage H-proteins, part of the glycine
cleavage multienzyme complex (GCV) found in bacteria
and the mitochondria of eukaryotes. GCV catalyzes the
catabolism of glycine in eukaryotes. A lipoyl group is
attached to a completely conserved lysine residue. The
H protein shuttles the methylamine group of glycine
from the P protein to the T protein.
Length = 122
Score = 27.3 bits (61), Expect = 1.1
Identities = 16/37 (43%), Positives = 18/37 (48%), Gaps = 4/37 (10%)
Query: 38 WVPHENQGFVAAGI----KGELGDSVEVELVETGKRI 70
WV E G GI + ELGD V VEL E G +
Sbjct: 9 WVKVEGDGTATVGITDFAQAELGDLVFVELPEVGTEV 45
>gnl|CDD|236657 PRK10150, PRK10150, beta-D-glucuronidase; Provisional.
Length = 604
Score = 27.7 bits (62), Expect = 1.4
Identities = 11/33 (33%), Positives = 13/33 (39%), Gaps = 10/33 (30%)
Query: 80 MNPPKFDKVEDMADLTCLNEASVLHNIKDRYYS 112
P D V D+ D+ CLN RYY
Sbjct: 452 FATPDTDTVSDLVDVLCLN----------RYYG 474
>gnl|CDD|201402 pfam00699, Urease_beta, Urease beta subunit. This subunit is
known as alpha in Heliobacter.
Length = 100
Score = 26.6 bits (60), Expect = 1.8
Identities = 13/28 (46%), Positives = 17/28 (60%), Gaps = 3/28 (10%)
Query: 47 VAAG--IKGELGDSVEVELVE-TGKRIV 71
+ AG ++ E G EVELV GKR+V
Sbjct: 62 IPAGTAVRFEPGQEREVELVPIGGKRVV 89
>gnl|CDD|235302 PRK04456, PRK04456, acetyl-CoA decarbonylase/synthase complex
subunit beta; Reviewed.
Length = 463
Score = 27.3 bits (61), Expect = 2.0
Identities = 13/35 (37%), Positives = 19/35 (54%)
Query: 28 QAEWTQKRLVWVPHENQGFVAAGIKGELGDSVEVE 62
QA+ +R+VW+P E + V I EL D + E
Sbjct: 344 QADGGWERVVWMPKELKERVKEFIPEELRDKIATE 378
>gnl|CDD|176242 cd08282, PFDH_like, Pseudomonas putida aldehyde-dismutating
formaldehyde dehydrogenase (PFDH). Formaldehyde
dehydrogenase (FDH) is a member of the
zinc-dependent/medium chain alcohol dehydrogenase
family. Unlike typical FDH, Pseudomonas putida
aldehyde-dismutating FDH (PFDH) is
glutathione-independent. PFDH converts 2 molecules of
aldehydes to corresponding carboxylic acid and alcohol.
MDH family uses NAD(H) as a cofactor in the
interconversion of alcohols and aldehydes, or ketones.
Like the zinc-dependent alcohol dehydrogenases (ADH) of
the medium chain alcohol dehydrogenase/reductase family
(MDR), these tetrameric FDHs have a catalytic zinc that
resides between the catalytic and NAD(H)binding domains
and a structural zinc in a lobe of the catalytic
domain. Unlike ADH, where NAD(P)(H) acts as a cofactor,
NADH in FDH is a tightly bound redox cofactor (similar
to nicotinamide proteins). The medium chain alcohol
dehydrogenase family (MDR) has a NAD(P)(H)-binding
domain in a Rossmann fold of an beta-alpha form. The
N-terminal region typically has an all-beta catalytic
domain. These proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and have 2 tightly bound zinc atoms per subunit.
Length = 375
Score = 27.2 bits (61), Expect = 2.1
Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 7/33 (21%)
Query: 41 HENQGFVAAGIKGELGDSVEVELVETGKRIVVP 73
HE G V E+G +VE ++ G R+VVP
Sbjct: 59 HEAMGEVE-----EVGSAVE--SLKVGDRVVVP 84
>gnl|CDD|197660 smart00333, TUDOR, Tudor domain. Domain of unknown function
present in several RNA-binding proteins. 10 copies in
the Drosophila Tudor protein. Initial proposal that the
survival motor neuron gene product contain a Tudor
domain are corroborated by more recent database search
techniques such as PSI-BLAST (unpublished).
Length = 57
Score = 25.3 bits (56), Expect = 2.6
Identities = 10/37 (27%), Positives = 17/37 (45%), Gaps = 1/37 (2%)
Query: 49 AGIKGELGD-SVEVELVETGKRIVVPKDDIQKMNPPK 84
A I G+ EV ++ G VVP D++++
Sbjct: 21 ARIVKVDGEQLYEVFFIDYGNEEVVPPSDLRQLPEEL 57
>gnl|CDD|107241 cd06492, p23_mNUDC_like, p23-like NUD (nuclear distribution)
C-like domain of mammalian(m) NUDC and similar
proteins. Mammalian(m) NUDC associates both with the
dynein complex and also with an anti-inflammatory
enzyme, platelet activating factor acetylhydrolase I,
PAF-AH(I) complex, through binding mNUDF, the
regulatory beta subunit of PAF-AH(I). mNUDC is
important for cell proliferation both in normal and
tumor tissues. Its expression is elevated in various
cell types undergoing mitosis or stimulated to
proliferate, with high expression levels observed in
leukemic cells and tumors. For a leukemic cell line,
human NUDC was shown to activate the thrombopoietin
(TPO) receptor (Mpl) by binding to its extracellular
domain, and promoting cell proliferation and
differentiation.
Length = 87
Score = 25.8 bits (57), Expect = 3.0
Identities = 15/35 (42%), Positives = 20/35 (57%), Gaps = 4/35 (11%)
Query: 51 IKGELGDSVEVE----LVETGKRIVVPKDDIQKMN 81
I GEL + V+VE L+E GK + V + I KM
Sbjct: 47 IDGELYNEVKVEESSWLIEDGKVVTVNLEKINKME 81
>gnl|CDD|212009 cd11619, HR1_CIP4-like, Protein kinase C-related kinase homology
region 1 (HR1) Rho-binding domain of Cdc42-Interacting
Protein 4 and similar proteins. This subfamily is
composed of Cdc42-Interacting Protein 4 (CIP4), Formin
Binding Protein 17 (FBP17), FormiN Binding Protein
1-Like (FNBP1L), and similar proteins. CIP4 and FNBP1L
are Cdc42 effectors that bind Wiskott-Aldrich syndrome
protein (WASP) and function in endocytosis. CIP4 and
FBP17 bind to the Fas ligand and may be implicated in
the inflammatory response. CIP4 may also play a role in
phagocytosis. It functions downstream of Cdc42 in
PDGF-dependent actin reorganization and cell migration,
and also regulates the activity of PDGFRbeta. It uses
Src as a substrate in regulating the invasiveness of
breast tumor cells. CIP4 may also play a role in the
pathogenesis of Huntington's disease. Members of this
subfamily typically contain an N-terminal F-BAR
(FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain,
central HR1 domain, and a C-terminal SH3 domain. HR1
domains are anti-parallel coiled-coil (ACC) domains
that bind small GTPases from the Rho family; the HR1
domain of CIP4 binds Cdc42 and TC10. Translocation of
CIP4 is facilitated by its binding to TC10 at the
plasma membrane.
Length = 77
Score = 25.7 bits (57), Expect = 3.2
Identities = 11/27 (40%), Positives = 18/27 (66%), Gaps = 2/27 (7%)
Query: 55 LGD--SVEVELVETGKRIVVPKDDIQK 79
LGD SVE +L E K++ ++++QK
Sbjct: 42 LGDPASVEGQLAEYAKKLDKLREELQK 68
>gnl|CDD|238238 cd00407, Urease_beta, Urease beta-subunit; Urease is a
nickel-dependent metalloenzyme that catalyzes the
hydrolysis of urea to form ammonia and carbon dioxide.
Nickel-dependent ureases are found in bacteria,
archaea, fungi and plants. Their primary role is to
allow the use of external and internally-generated urea
as a nitrogen source. The enzyme consists of three
subunits, alpha, beta and gamma, which can exist as
separate proteins or can be fused on a single protein
chain. The alpha-beta-gamma heterotrimer forms
multimers, mainly trimers. The large alpha subunit is
the catalytic domain containing an active site with a
bi-nickel center complexed by a carbamylated lysine.
The beta and gamma subunits play a role in subunit
association to form the higher order trimers.
Length = 101
Score = 25.6 bits (57), Expect = 3.7
Identities = 11/19 (57%), Positives = 12/19 (63%), Gaps = 1/19 (5%)
Query: 54 ELGDSVEVELVE-TGKRIV 71
E G+ EVELV GKR V
Sbjct: 72 EPGEEKEVELVPIGGKRRV 90
>gnl|CDD|216263 pfam01044, Vinculin, Vinculin family.
Length = 850
Score = 26.6 bits (59), Expect = 3.9
Identities = 12/39 (30%), Positives = 20/39 (51%), Gaps = 2/39 (5%)
Query: 63 LVETGKRIVVPKDDIQKMNPPKFDKVEDMADLTCLNEAS 101
L+E G I D+++ PP ++VE L + +AS
Sbjct: 52 LIEVGYDIANSSPDLKQDMPPALERVEKTGQL--MEQAS 88
>gnl|CDD|213244 cd03277, ABC_SMC5_euk, ATP-binding cassette domain of eukaryotic
SMC5 proteins. The structural maintenance of
chromosomes (SMC) proteins are large (approximately 110
to 170 kDa), and each is arranged into five recognizable
domains. Amino-acid sequence homology of SMC proteins
between species is largely confined to the amino- and
carboxy-terminal globular domains. The amino-terminal
domain contains a 'Walker A' nucleotide-binding domain
(GxxGxGKS/T, in the single-letter amino-acid code),
which by mutational studies has been shown to be
essential in several proteins. The carboxy-terminal
domain contains a sequence (the DA-box) that resembles a
'Walker B' motif, and a motif with homology to the
signature sequence of the ATP-binding cassette (ABC)
family of ATPases. The sequence homology within the
carboxy-terminal domain is relatively high within the
SMC1-SMC4 group, whereas SMC5 and SMC6 show some
divergence in both of these sequences. In eukaryotic
cells, the proteins are found as heterodimers of SMC1
paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6
(formerly known as Rad18).
Length = 213
Score = 26.0 bits (58), Expect = 4.0
Identities = 12/48 (25%), Positives = 20/48 (41%), Gaps = 10/48 (20%)
Query: 51 IKGELGDSVEVELVETGKRIVVPKDDIQKMNPPKF---DKVEDMADLT 95
+G ++E+EL I V N +F D+V + A L+
Sbjct: 65 KRGCDEGTIEIELYGNPGNIQVD-------NLCQFLPQDRVGEFAKLS 105
>gnl|CDD|187681 cd09623, DOMON_EBDH, Heme-binding domain of bacterial ethylbenzene
dehydrogenase. Ethylbenzene dehydrogenase (EBDH) is a
bacterial molybdopterin enzyme. It catalyzes anaerobic
hydroxylation of alkylaromatic compounds to secondary
alcohols. The DOMON domain in EBDH and related proteins,
typically called the gamma subunit, binds a heme; its
function in the catalytic mechanism is unclear. It
co-occurs with a molybdopterin-binding subunit and an
iron-sulfur protein. This family also contains
heme-binding domains of dimethylsulfide dehydrogenase,
selenate reductases, and chlorate reductase.
Length = 224
Score = 26.2 bits (58), Expect = 4.5
Identities = 15/72 (20%), Positives = 22/72 (30%), Gaps = 5/72 (6%)
Query: 24 DPATQAEWTQKRLVWVPHENQGFVAAGIKGELGDSVEVELVETGKRIVVP---KDDIQKM 80
DP W ++ P + K S+EV G+RI V D + +
Sbjct: 38 DPPLDEIW--SKVPLYPLTSVRLGDPLNKDTAVKSLEVAAAHNGERIAVRLRWADGTKNV 95
Query: 81 NPPKFDKVEDMA 92
D D
Sbjct: 96 QTDGTDVFRDGV 107
>gnl|CDD|212481 cd01734, YlxS_C, Bacillus subtilis YxlS-like, C-terminal domain.
YxlS is a Bacillus subtilis gene of unknown function
with two domains that each have an alpha/beta fold. The
N-terminal domain is composed of two alpha-helices and
a three-stranded beta-sheet, while the C-terminal
domain is composed of one alpha-helix and a
five-stranded beta-sheet. This CD represents the
C-terminal domain which has a fold similar to the Sm
fold of proteins like Sm-D3.
Length = 72
Score = 25.1 bits (56), Expect = 4.7
Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 5/33 (15%)
Query: 51 IKGEL----GDSVEVELVETGKRIVVPKDDIQK 79
GEL D+V +E V+ GK + +P D+I K
Sbjct: 34 FTGELLGVDDDTVTLE-VDDGKEVEIPFDNIAK 65
>gnl|CDD|202852 pfam04014, Antitoxin-MazE, Antidote-toxin recognition MazE. MazE
is the antidote to the toxin MazF of E. coli. MazE-MazF
in E. coli is a regulated prokaryotic chromosomal
addiction module. MazE antidote is degraded by the
ClpPA protease of the bacterial proteasome. MazE-MazF
is thought to play a role in programmed cell death when
cells suffer nutrient deprivation, and MazE-MazF
modules have also been implicated in the bacteriostatic
effects of other addiction modules. MazF toxin
functions as an mRNA interferase, cleaving mRNAs at ACA
sequences to inhibit protein synthesis leading to cell
growth arrest.
Length = 47
Score = 24.1 bits (53), Expect = 5.9
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 56 GDSVEVELVETGKRIVVPKDDIQK 79
GD VE+E+ G+ I+ PK + K
Sbjct: 24 GDEVELEVDGDGEIILRPKKKLPK 47
>gnl|CDD|224458 COG1541, PaaK, Coenzyme F390 synthetase [Coenzyme metabolism].
Length = 438
Score = 25.7 bits (57), Expect = 7.1
Identities = 16/30 (53%), Positives = 17/30 (56%), Gaps = 9/30 (30%)
Query: 51 IKGELGDSVEVELVETG---------KRIV 71
IK ELG VEVELVE G KR+V
Sbjct: 403 IKSELGVRVEVELVEPGELPRTEGKAKRVV 432
>gnl|CDD|177817 PLN02157, PLN02157, 3-hydroxyisobutyryl-CoA hydrolase-like protein.
Length = 401
Score = 25.4 bits (55), Expect = 7.8
Identities = 11/24 (45%), Positives = 16/24 (66%), Gaps = 1/24 (4%)
Query: 71 VVPKDDIQKMNPPKFDKV-EDMAD 93
++ KD+ K +PP +KV EDM D
Sbjct: 355 LIDKDEAPKWDPPSLEKVSEDMVD 378
>gnl|CDD|178462 PLN02874, PLN02874, 3-hydroxyisobutyryl-CoA hydrolase-like protein.
Length = 379
Score = 25.1 bits (55), Expect = 9.5
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 70 IVVPKDDIQKMNPPKFDKVED 90
+V+ KD+ K NP D+V D
Sbjct: 326 LVIDKDNAPKWNPSTLDEVTD 346
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
0.315 0.135 0.402
Gapped
Lambda K H
0.267 0.0748 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,062,223
Number of extensions: 515153
Number of successful extensions: 357
Number of sequences better than 10.0: 1
Number of HSP's gapped: 355
Number of HSP's successfully gapped: 55
Length of query: 116
Length of database: 10,937,602
Length adjustment: 79
Effective length of query: 37
Effective length of database: 7,433,636
Effective search space: 275044532
Effective search space used: 275044532
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 (24.2 bits)