RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6137
(93 letters)
>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 = 86.2 bits (214), Expect = 2e-21
Identities = 32/48 (66%), Positives = 36/48 (75%)
Query: 11 GIVLVAINPYTELPIYGSNTIWTYRGKNMGDLDPHIFAVAEEAYTKME 58
GIVLVAINPY LPIYG I Y G+ G+LDPHIFA+AEEAY +M
Sbjct: 34 GIVLVAINPYARLPIYGEEIIQAYSGQRKGELDPHIFAIAEEAYKQMT 81
>gnl|CDD|214580 smart00242, MYSc, Myosin. Large ATPases. ATPase; molecular
motor. Muscle contraction consists of a cyclical
interaction between myosin and actin. The core of the
myosin structure is similar in fold to that of kinesin.
Length = 677
Score = 79.9 bits (198), Expect = 3e-19
Identities = 28/52 (53%), Positives = 38/52 (73%)
Query: 10 IGIVLVAINPYTELPIYGSNTIWTYRGKNMGDLDPHIFAVAEEAYTKMESRQ 61
IG+VLVA+NPY +LPIY I YRGK+ G+L PH+FA+A+ AY M + +
Sbjct: 39 IGLVLVAVNPYKQLPIYTDEVIKKYRGKSRGELPPHVFAIADNAYRNMLNDK 90
>gnl|CDD|215687 pfam00063, Myosin_head, Myosin head (motor domain).
Length = 679
Score = 71.9 bits (177), Expect = 2e-16
Identities = 26/52 (50%), Positives = 34/52 (65%)
Query: 10 IGIVLVAINPYTELPIYGSNTIWTYRGKNMGDLDPHIFAVAEEAYTKMESRQ 61
G+VL+++NPY LPIY I YRGK G+L PHIFA+A+ AY M +
Sbjct: 32 SGLVLISVNPYKRLPIYTEEPIGEYRGKRRGELPPHIFALADRAYRHMLRDK 83
>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 = 69.6 bits (171), Expect = 2e-15
Identities = 25/48 (52%), Positives = 34/48 (70%)
Query: 10 IGIVLVAINPYTELPIYGSNTIWTYRGKNMGDLDPHIFAVAEEAYTKM 57
G +L+A+NPY +LP YG TI YRGK+ +L PH+FA+A+ AY M
Sbjct: 33 AGPILIAVNPYKDLPNYGPETIRKYRGKSRSELPPHVFAIADRAYRNM 80
>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 = 64.9 bits (159), Expect = 6e-14
Identities = 25/52 (48%), Positives = 37/52 (71%)
Query: 10 IGIVLVAINPYTELPIYGSNTIWTYRGKNMGDLDPHIFAVAEEAYTKMESRQ 61
IG VL+++NP+ +LPIY TI Y+GK+ +L PHI+A+A+ AY M+S
Sbjct: 33 IGPVLISVNPFKQLPIYTDETIELYKGKSRYELPPHIYALADNAYRSMKSEN 84
>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 = 63.4 bits (155), Expect = 3e-13
Identities = 23/47 (48%), Positives = 30/47 (63%)
Query: 11 GIVLVAINPYTELPIYGSNTIWTYRGKNMGDLDPHIFAVAEEAYTKM 57
G+ VA+NPY LPIY + YRGK ++ PHIFA+A+ AY M
Sbjct: 39 GLFCVAVNPYKRLPIYTEEVVEMYRGKKREEMPPHIFAIADNAYRSM 85
>gnl|CDD|227355 COG5022, COG5022, Myosin heavy chain [Cytoskeleton].
Length = 1463
Score = 63.2 bits (154), Expect = 3e-13
Identities = 26/51 (50%), Positives = 37/51 (72%)
Query: 10 IGIVLVAINPYTELPIYGSNTIWTYRGKNMGDLDPHIFAVAEEAYTKMESR 60
G+VL+A+NPY +L IY + I +Y GKN +L+PH+FA+AEEAY + S
Sbjct: 99 SGLVLIAVNPYRDLGIYTDDIIQSYSGKNRLELEPHVFAIAEEAYRNLLSE 149
>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 = 61.7 bits (150), Expect = 8e-13
Identities = 28/56 (50%), Positives = 40/56 (71%), Gaps = 4/56 (7%)
Query: 6 KEKEI----GIVLVAINPYTELPIYGSNTIWTYRGKNMGDLDPHIFAVAEEAYTKM 57
K+K I G +LVA+NPY LPIY ++ I Y+ K++G+L PHIFA+++ AYT M
Sbjct: 25 KKKLIYTYTGSILVAVNPYQILPIYTADEIKLYKNKSIGELPPHIFAISDNAYTNM 80
>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 = 59.7 bits (145), Expect = 5e-12
Identities = 23/58 (39%), Positives = 37/58 (63%), Gaps = 3/58 (5%)
Query: 10 IGIVLVAINPYTELP-IYGSNTIWTYRGKNMGDLDPHIFAVAEEAYTKM--ESRQPSI 64
G +L+A+NP+ LP +Y + + Y+G +G+L PH+FA+A+ AY M E + SI
Sbjct: 34 TGNILIAVNPFQRLPHLYDVHMMEQYKGAALGELSPHVFAIADAAYRAMINEGKSQSI 91
>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 = 59.4 bits (144), Expect = 6e-12
Identities = 23/46 (50%), Positives = 37/46 (80%), Gaps = 1/46 (2%)
Query: 13 VLVAINPYTELP-IYGSNTIWTYRGKNMGDLDPHIFAVAEEAYTKM 57
+L+A+NPY ++P +Y S+TI Y+GK++G L PH+FA+A++AY M
Sbjct: 40 ILIAVNPYFDIPKLYSSDTIKKYQGKSLGTLPPHVFAIADKAYRDM 85
>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 = 54.9 bits (132), Expect = 3e-10
Identities = 23/56 (41%), Positives = 36/56 (64%), Gaps = 1/56 (1%)
Query: 10 IGIVLVAINPYTELPIYGSNTIWTYRGKNMGDLDPHIFAVAEEAYTKM-ESRQPSI 64
IG +LV++NPY PIYG + Y G+ +G+ PH+FA+A A+ KM +++Q
Sbjct: 34 IGSILVSVNPYKMFPIYGPEQVQQYAGRALGENPPHLFAIANLAFAKMLDAKQNQC 89
>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 = 52.5 bits (126), Expect = 2e-09
Identities = 26/58 (44%), Positives = 38/58 (65%), Gaps = 7/58 (12%)
Query: 11 GIVLVAINPYTELPIYGSNTIWTYRGKNMGDLDPHIFAVAEEAYTKMESRQPSIDEVN 68
G VLVA+NP+ E+P+YG++ I YR K+ PH++A+A+ AY +M DEVN
Sbjct: 42 GPVLVAVNPFKEVPLYGNDYIEAYRKKSND--SPHVYAIADTAYNEMMR-----DEVN 92
>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 = 46.0 bits (109), Expect = 3e-07
Identities = 22/49 (44%), Positives = 30/49 (61%), Gaps = 1/49 (2%)
Query: 10 IGIVLVAINPYTELPIYGSNTIWTYRG-KNMGDLDPHIFAVAEEAYTKM 57
G +LVA+NP+ LPIY + Y + +G L PHIFA+A+ AY M
Sbjct: 40 AGSILVAVNPFKFLPIYNPKYVRLYENQQRLGKLPPHIFAIADVAYYNM 88
>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 = 41.4 bits (97), Expect = 1e-05
Identities = 17/48 (35%), Positives = 29/48 (60%)
Query: 10 IGIVLVAINPYTELPIYGSNTIWTYRGKNMGDLDPHIFAVAEEAYTKM 57
+G +L+A+NP+ +L +Y + Y G+ PHIFA+A+ AY +
Sbjct: 33 VGDILIAVNPFQQLGLYTTQHSRLYTGQKRSSNPPHIFAIADAAYQSL 80
>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 = 2e-05
Identities = 17/52 (32%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 11 GIVLVAINPYTELPIYGSNTIWTYRGKNMGDLDPHIFAVAEEAYTKM-ESRQ 61
G L+ +NP L +Y +RG D+ PHI+++A+ AY + E+R+
Sbjct: 34 GPDLLVLNPMAPLALYSEKVPSMFRGCKAEDMPPHIYSLAQTAYRALLETRR 85
>gnl|CDD|240229 PTZ00014, PTZ00014, myosin-A; Provisional.
Length = 821
Score = 35.8 bits (83), Expect = 0.001
Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 14 LVAINPYTELPIYGSNTIWTYR-GKNMGDLDPHIFAVAEEAYTKMES 59
LVAINP+ +L ++ I YR K+ L PH+F A A +
Sbjct: 133 LVAINPFKDLGNTTNDWIRRYRDAKDSDKLPPHVFTTARRALENLHG 179
>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger. [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 1096
Score = 30.0 bits (67), Expect = 0.13
Identities = 13/23 (56%), Positives = 22/23 (95%)
Query: 71 EKEEEEKEKKEEEKEEKRKKKEE 93
E+EEEE+E++EEE+EE+ +++EE
Sbjct: 865 EEEEEEEEEEEEEEEEEEEEEEE 887
Score = 30.0 bits (67), Expect = 0.15
Identities = 13/23 (56%), Positives = 22/23 (95%)
Query: 71 EKEEEEKEKKEEEKEEKRKKKEE 93
E+EEEE+E++EEE+EE+ +++EE
Sbjct: 864 EEEEEEEEEEEEEEEEEEEEEEE 886
Score = 30.0 bits (67), Expect = 0.16
Identities = 13/23 (56%), Positives = 22/23 (95%)
Query: 71 EKEEEEKEKKEEEKEEKRKKKEE 93
E+EEEE+E++EEE+EE+ +++EE
Sbjct: 867 EEEEEEEEEEEEEEEEEEEEEEE 889
Score = 29.6 bits (66), Expect = 0.21
Identities = 13/23 (56%), Positives = 22/23 (95%)
Query: 71 EKEEEEKEKKEEEKEEKRKKKEE 93
E+EEEE+E++EEE+EE+ +++EE
Sbjct: 866 EEEEEEEEEEEEEEEEEEEEEEE 888
Score = 29.2 bits (65), Expect = 0.25
Identities = 13/23 (56%), Positives = 21/23 (91%)
Query: 71 EKEEEEKEKKEEEKEEKRKKKEE 93
E+EEEE+E++EEE+EE+ ++ EE
Sbjct: 870 EEEEEEEEEEEEEEEEEEEENEE 892
Score = 28.8 bits (64), Expect = 0.35
Identities = 12/23 (52%), Positives = 21/23 (91%)
Query: 71 EKEEEEKEKKEEEKEEKRKKKEE 93
E+EEEE+E++EEE+EE+ +++ E
Sbjct: 869 EEEEEEEEEEEEEEEEEEEEENE 891
Score = 28.8 bits (64), Expect = 0.36
Identities = 12/23 (52%), Positives = 21/23 (91%)
Query: 71 EKEEEEKEKKEEEKEEKRKKKEE 93
+ EEEE+E++EEE+EE+ +++EE
Sbjct: 862 DSEEEEEEEEEEEEEEEEEEEEE 884
Score = 28.8 bits (64), Expect = 0.38
Identities = 12/23 (52%), Positives = 21/23 (91%)
Query: 71 EKEEEEKEKKEEEKEEKRKKKEE 93
E+EEEE+E++EEE+EE+ +++E
Sbjct: 868 EEEEEEEEEEEEEEEEEEEEEEN 890
Score = 28.4 bits (63), Expect = 0.56
Identities = 14/30 (46%), Positives = 23/30 (76%)
Query: 63 SIDEVNLYEKEEEEKEKKEEEKEEKRKKKE 92
S +E E+EEEE+E++EEE+EE+ + +E
Sbjct: 863 SEEEEEEEEEEEEEEEEEEEEEEEEEENEE 892
Score = 26.1 bits (57), Expect = 3.0
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 58 ESRQPSIDEVNLYEKEEEEKEKKEEEKEE 86
E + +E E+EEEE+E++EEE EE
Sbjct: 864 EEEEEEEEEEEEEEEEEEEEEEEEEENEE 892
Score = 25.3 bits (55), Expect = 6.6
Identities = 12/30 (40%), Positives = 21/30 (70%)
Query: 58 ESRQPSIDEVNLYEKEEEEKEKKEEEKEEK 87
+S + +E E+EEEE+E++EEE+E +
Sbjct: 862 DSEEEEEEEEEEEEEEEEEEEEEEEEEENE 891
>gnl|CDD|240402 PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Provisional.
Length = 651
Score = 29.2 bits (66), Expect = 0.24
Identities = 11/30 (36%), Positives = 21/30 (70%)
Query: 64 IDEVNLYEKEEEEKEKKEEEKEEKRKKKEE 93
+D+ ++E+EEKE +E+K ++ KK+E
Sbjct: 547 LDDKEELQREKEEKEALKEQKRLRKLKKQE 576
Score = 25.4 bits (56), Expect = 5.5
Identities = 12/19 (63%), Positives = 15/19 (78%)
Query: 71 EKEEEEKEKKEEEKEEKRK 89
K++EEK+KKE EK EK K
Sbjct: 572 LKKQEEKKKKELEKLEKAK 590
Score = 25.0 bits (55), Expect = 8.2
Identities = 9/23 (39%), Positives = 17/23 (73%)
Query: 71 EKEEEEKEKKEEEKEEKRKKKEE 93
E +E+K ++ +K+E++KKKE
Sbjct: 561 EALKEQKRLRKLKKQEEKKKKEL 583
>gnl|CDD|204446 pfam10322, 7TM_GPCR_Sru, Serpentine type 7TM GPCR chemoreceptor
Sru. Chemoreception is mediated in Caenorhabditis
elegans by members of the seven-transmembrane
G-protein-coupled receptor class (7TM GPCRs) of
proteins which are of the serpentine type. Sru is a
member of the Srg superfamily of chemoreceptors.
Chemoperception is one of the central senses of soil
nematodes like C. elegans which are otherwise 'blind'
and 'deaf'.
Length = 307
Score = 28.7 bits (65), Expect = 0.31
Identities = 13/48 (27%), Positives = 17/48 (35%), Gaps = 15/48 (31%)
Query: 13 VLVAINPYTELPIYGSNTIW-----------TYRGKNMGDLDPHIFAV 49
L+AI P IY T KN ++PH+F V
Sbjct: 20 TLLAIVP----FIYIIPTFVVILKILIKYLKAKLTKNEPGINPHVFLV 63
>gnl|CDD|215214 PLN02381, PLN02381, valyl-tRNA synthetase.
Length = 1066
Score = 28.7 bits (64), Expect = 0.43
Identities = 13/35 (37%), Positives = 20/35 (57%)
Query: 57 MESRQPSIDEVNLYEKEEEEKEKKEEEKEEKRKKK 91
+ ++ L E+E E K+KKEE+ +EK KK
Sbjct: 1 GSRTESEAEKKILTEEELERKKKKEEKAKEKELKK 35
>gnl|CDD|182528 PRK10535, PRK10535, macrolide transporter ATP-binding /permease
protein; Provisional.
Length = 648
Score = 28.5 bits (64), Expect = 0.46
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 27 GSNTIWTYRGKNMGDLDP 44
G+NTI Y GK+ GD DP
Sbjct: 308 GTNTIDIYPGKDFGDDDP 325
>gnl|CDD|235334 PRK05035, PRK05035, electron transport complex protein RnfC;
Provisional.
Length = 695
Score = 28.0 bits (63), Expect = 0.61
Identities = 13/42 (30%), Positives = 22/42 (52%), Gaps = 6/42 (14%)
Query: 50 AEEAYTKMESRQPSIDEVNLYEKEEEEKEKKEEEKEEKRKKK 91
AEEA + E+RQ + E+E+ +E + ++ E R K
Sbjct: 448 AEEAKARFEARQARL------EREKAAREARHKKAAEARAAK 483
>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682). The
members of this family are all hypothetical eukaryotic
proteins of unknown function. One member is described as
being an adipocyte-specific protein, but no evidence of
this was found.
Length = 322
Score = 27.6 bits (62), Expect = 0.76
Identities = 12/23 (52%), Positives = 19/23 (82%)
Query: 71 EKEEEEKEKKEEEKEEKRKKKEE 93
E++EE +EKKEE+K+E+R+ K
Sbjct: 279 ERQEEAQEKKEEKKKEEREAKLA 301
Score = 25.3 bits (56), Expect = 4.9
Identities = 11/23 (47%), Positives = 18/23 (78%)
Query: 71 EKEEEEKEKKEEEKEEKRKKKEE 93
EEE +E+ +E+KEEK+K++ E
Sbjct: 275 AAEEERQEEAQEKKEEKKKEERE 297
>gnl|CDD|219956 pfam08658, Rad54_N, Rad54 N terminal. This is the N terminal of
the DNA repair protein Rad54.
Length = 191
Score = 27.3 bits (61), Expect = 0.84
Identities = 10/26 (38%), Positives = 18/26 (69%)
Query: 62 PSIDEVNLYEKEEEEKEKKEEEKEEK 87
P++D+ E+E+ EK+++ EE E K
Sbjct: 139 PTVDDKPKIEEEKAEKDQEPEESETK 164
>gnl|CDD|237147 PRK12586, PRK12586, putative monovalent cation/H+ antiporter
subunit G; Reviewed.
Length = 145
Score = 27.0 bits (60), Expect = 1.0
Identities = 10/44 (22%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 53 AYTKMESRQPSIDEVNLYEKEE---EEKEKKEEEKEEKRKKKEE 93
AY ++ + + L E+ E + + +++EE RKK +
Sbjct: 100 AYMYRKNDAHTHASILLSSNEQNSTEALQLRAKKREEHRKKWYQ 143
>gnl|CDD|176453 cd00424, PolY, Y-family of DNA polymerases. Y-family DNA
polymerases are a specialized subset of polymerases that
facilitate translesion synthesis (TLS), a process that
allows the bypass of a variety of DNA lesions. Unlike
replicative polymerases, TLS polymerases lack
proofreading activity and have low fidelity and low
processivity. They use damaged DNA as templates and
insert nucleotides opposite the lesions. The active
sites of TLS polymerases are large and flexible to allow
the accomodation of distorted bases. Most TLS
polymerases are members of the Y-family, including Pol
eta, Pol kappa/IV, Pol iota, Rev1, and Pol V, which is
found exclusively in bacteria. In eukaryotes, the
B-family polymerase Pol zeta also functions as a TLS
polymerase. Expression of Y-family polymerases is often
induced by DNA damage and is believed to be highly
regulated. TLS is likely induced by the
monoubiquitination of the replication clamp PCNA, which
provides a scaffold for TLS polymerases to bind in order
to access the lesion. Because of their high error
rates, TLS polymerases are potential targets for cancer
treatment and prevention.
Length = 343
Score = 27.3 bits (61), Expect = 1.1
Identities = 7/50 (14%), Positives = 17/50 (34%)
Query: 11 GIVLVAINPYTELPIYGSNTIWTYRGKNMGDLDPHIFAVAEEAYTKMESR 60
GI ++P + + +N D P + + E+ ++
Sbjct: 226 GIDDEPLSPPRPRKSFSHERVLPRDSRNAEDARPLLRLLLEKLARRLRRD 275
>gnl|CDD|129661 TIGR00570, cdk7, CDK-activating kinase assembly factor MAT1. All
proteins in this family for which functions are known
are cyclin dependent protein kinases that are components
of TFIIH, a complex that is involved in nucleotide
excision repair and transcription initiation. Also known
as MAT1 (menage a trois 1). 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 = 309
Score = 27.1 bits (60), Expect = 1.4
Identities = 12/37 (32%), Positives = 21/37 (56%)
Query: 55 TKMESRQPSIDEVNLYEKEEEEKEKKEEEKEEKRKKK 91
K Q ++E +EKEEEE+ + +KEE+ ++
Sbjct: 138 EKSTREQEELEEALEFEKEEEEQRRLLLQKEEEEQQM 174
>gnl|CDD|214395 CHL00204, ycf1, Ycf1; Provisional.
Length = 1832
Score = 27.0 bits (60), Expect = 1.7
Identities = 10/23 (43%), Positives = 21/23 (91%)
Query: 71 EKEEEEKEKKEEEKEEKRKKKEE 93
E++ ++K+KKE++KEE+ K++E+
Sbjct: 742 EEKTKKKKKKEKKKEEEYKREEK 764
Score = 25.1 bits (55), Expect = 7.8
Identities = 8/29 (27%), Positives = 21/29 (72%)
Query: 64 IDEVNLYEKEEEEKEKKEEEKEEKRKKKE 92
I + + ++++K++K++E+E KR++K
Sbjct: 737 ISDSVEEKTKKKKKKEKKKEEEYKREEKA 765
>gnl|CDD|187603 cd05345, BKR_3_SDR_c, putative beta-ketoacyl acyl carrier protein
[ACP] reductase (BKR), subgroup 3, classical (c) SDR.
This subgroup includes the putative Brucella melitensis
biovar Abortus 2308 BKR, FabG, Mesorhizobium loti
MAFF303099 FabG, and other classical SDRs. BKR, a member
of the SDR family, catalyzes the NADPH-dependent
reduction of acyl carrier protein in the first reductive
step of de novo fatty acid synthesis (FAS). FAS
consists of 4 elongation steps, which are repeated to
extend the fatty acid chain thru the addition of
two-carbo units from malonyl acyl-carrier protein (ACP):
condensation, reduction, dehydration, and final
reduction. Type II FAS, typical of plants and many
bacteria, maintains these activities on discrete
polypeptides, while type I Fas utilizes one or 2
multifunctional polypeptides. BKR resembles enoyl
reductase, which catalyzes the second reduction step in
FAS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 248
Score = 26.6 bits (59), Expect = 1.7
Identities = 12/38 (31%), Positives = 20/38 (52%), Gaps = 4/38 (10%)
Query: 16 AINPYTELPIYGSNTIWTYRGKNMGDLDPH----IFAV 49
A++ + L I +N T+R K M ++D +FAV
Sbjct: 73 ALSKFGRLDILVNNAGITHRNKPMLEVDEEEFDRVFAV 110
>gnl|CDD|206063 pfam13892, DBINO, DNA-binding domain. DBINO is a DNA-binding
domain found on global transcription activator SNF2L1
proteins and chromatin re-modelling proteins.
Length = 140
Score = 26.5 bits (59), Expect = 1.9
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 70 YEKEEEEKEKKEEEKEEKRKKKEE 93
EKEE E K+ E++ ++ KKEE
Sbjct: 81 NEKEERELRKRAEKEALEQAKKEE 104
Score = 24.1 bits (53), Expect = 9.7
Identities = 12/22 (54%), Positives = 17/22 (77%), Gaps = 1/22 (4%)
Query: 71 EKEEEEKEKKEEE-KEEKRKKK 91
EKE E+ KKEEE +E KR+++
Sbjct: 93 EKEALEQAKKEEELREAKRQQR 114
>gnl|CDD|234961 PRK01581, speE, spermidine synthase; Validated.
Length = 374
Score = 26.5 bits (58), Expect = 2.2
Identities = 9/58 (15%), Positives = 24/58 (41%)
Query: 31 IWTYRGKNMGDLDPHIFAVAEEAYTKMESRQPSIDEVNLYEKEEEEKEKKEEEKEEKR 88
I +Y+ +LD + F + ++ + +Q + + + E K+ + + E
Sbjct: 15 ITSYKKDKRSELDSNKFELEQQLVENKQDKQGKQYKQDRGIQYAETKQDNQVQSENVV 72
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 26.4 bits (59), Expect = 2.4
Identities = 10/34 (29%), Positives = 18/34 (52%)
Query: 60 RQPSIDEVNLYEKEEEEKEKKEEEKEEKRKKKEE 93
+ + E+ ++K+EEEK+EK+KK
Sbjct: 403 TGSKKATKKIKKIVEKAEKKREEEKKEKKKKAFA 436
Score = 25.7 bits (57), Expect = 4.4
Identities = 11/23 (47%), Positives = 18/23 (78%)
Query: 71 EKEEEEKEKKEEEKEEKRKKKEE 93
EK+ EE++K++++K KKKEE
Sbjct: 420 EKKREEEKKEKKKKAFAGKKKEE 442
Score = 25.3 bits (56), Expect = 5.7
Identities = 13/43 (30%), Positives = 27/43 (62%)
Query: 51 EEAYTKMESRQPSIDEVNLYEKEEEEKEKKEEEKEEKRKKKEE 93
E K + ++ + E+EEE+++K+EE++EE+ + +EE
Sbjct: 423 REEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEE 465
Score = 25.3 bits (56), Expect = 5.8
Identities = 8/35 (22%), Positives = 23/35 (65%)
Query: 59 SRQPSIDEVNLYEKEEEEKEKKEEEKEEKRKKKEE 93
S++ + + EK E+++E++++EK++K ++
Sbjct: 405 SKKATKKIKKIVEKAEKKREEEKKEKKKKAFAGKK 439
Score = 24.5 bits (54), Expect = 9.6
Identities = 10/23 (43%), Positives = 18/23 (78%)
Query: 71 EKEEEEKEKKEEEKEEKRKKKEE 93
+K EEEK++K+++ +KK+EE
Sbjct: 421 KKREEEKKEKKKKAFAGKKKEEE 443
>gnl|CDD|218517 pfam05236, TAF4, Transcription initiation factor TFIID component
TAF4 family. This region of similarity is found in
Transcription initiation factor TFIID component TAF4.
Length = 255
Score = 26.2 bits (58), Expect = 2.5
Identities = 8/26 (30%), Positives = 16/26 (61%)
Query: 68 NLYEKEEEEKEKKEEEKEEKRKKKEE 93
L +K++EE+E++ E + E + E
Sbjct: 117 FLAQKQKEEEERRVERRRELGLEDPE 142
>gnl|CDD|219868 pfam08496, Peptidase_S49_N, Peptidase family S49 N-terminal.
This domain is found to the N-terminus of bacterial
signal peptidases of the S49 family (pfam01343).
Length = 154
Score = 26.0 bits (58), Expect = 2.9
Identities = 12/29 (41%), Positives = 19/29 (65%), Gaps = 1/29 (3%)
Query: 65 DEVNLYEKEEEEKEKKEEEKEEKRKKKEE 93
E+ +EK E+ K +K + K EK+K K+E
Sbjct: 66 KELKAWEKAEK-KAEKAKAKAEKKKAKKE 93
Score = 24.8 bits (55), Expect = 6.4
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 72 KEEEEKEKKEEEKEEKRKKKEE 93
K+E + +K E+K EK K K E
Sbjct: 65 KKELKAWEKAEKKAEKAKAKAE 86
>gnl|CDD|178945 PRK00247, PRK00247, putative inner membrane protein translocase
component YidC; Validated.
Length = 429
Score = 26.0 bits (57), Expect = 3.2
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 71 EKEEEEKEKKEEEKEEKRKKKEE 93
E E +K + E+ E K +KKE
Sbjct: 328 ENAEIKKTRTAEKNEAKARKKEI 350
>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1. This domain
family is found in eukaryotes, and is approximately 40
amino acids in length. The family is found in
association with pfam07719, pfam00515. There is a single
completely conserved residue L that may be functionally
important. NARP1 is the mammalian homologue of a yeast
N-terminal acetyltransferase that regulates entry into
the G(0) phase of the cell cycle.
Length = 516
Score = 25.7 bits (57), Expect = 3.6
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 71 EKEEEEKEKKEEEKEEKRKKKEE 93
EKEE EK +++ E KK +
Sbjct: 426 EKEEAEKAAAKKKAEAAAKKAKG 448
>gnl|CDD|218660 pfam05620, DUF788, Protein of unknown function (DUF788). This
family consists of several eukaryotic proteins of
unknown function.
Length = 166
Score = 25.8 bits (57), Expect = 3.6
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 71 EKEEEEKEKKEEEKEEKRKKK 91
E E + K +EK EKR +K
Sbjct: 146 GAETNETKSKRQEKLEKRGEK 166
>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated.
Length = 330
Score = 25.6 bits (57), Expect = 3.9
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 71 EKEEEEKEKKEEEKEEKRKKKEE 93
EE+E++EEE+EE+ +EE
Sbjct: 298 AAAAEEEEEEEEEEEEEEPSEEE 320
Score = 24.4 bits (54), Expect = 9.4
Identities = 11/38 (28%), Positives = 21/38 (55%)
Query: 48 AVAEEAYTKMESRQPSIDEVNLYEKEEEEKEKKEEEKE 85
A+ EE + ++ + E+EEEE+E++ E+E
Sbjct: 283 ALDEELKEVLSAQAQAAAAEEEEEEEEEEEEEEPSEEE 320
>gnl|CDD|204614 pfam11221, Med21, Subunit 21 of Mediator complex. Med21 has been
known as Srb7 in yeasts, hSrb7 in humans and Trap 19 in
Drosophila. The heterodimer of the two subunits Med7 and
Med21 appears to act as a hinge between the middle and
the tail regions of Mediator.
Length = 132
Score = 25.3 bits (56), Expect = 4.0
Identities = 10/29 (34%), Positives = 19/29 (65%)
Query: 65 DEVNLYEKEEEEKEKKEEEKEEKRKKKEE 93
+++ ++ EEE + E E+EE K+KE+
Sbjct: 89 EQLRRIKELEEELREVEAEREEAVKEKEK 117
>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P. This model
represents the L12P protein of the large (50S) subunit
of the archaeal ribosome.
Length = 105
Score = 25.0 bits (55), Expect = 4.2
Identities = 10/23 (43%), Positives = 17/23 (73%)
Query: 71 EKEEEEKEKKEEEKEEKRKKKEE 93
EE+E++EEE+EE+ ++ EE
Sbjct: 72 AAAAEEEEEEEEEEEEEEEESEE 94
>gnl|CDD|217756 pfam03839, Sec62, Translocation protein Sec62.
Length = 217
Score = 25.5 bits (56), Expect = 4.2
Identities = 9/38 (23%), Positives = 20/38 (52%)
Query: 55 TKMESRQPSIDEVNLYEKEEEEKEKKEEEKEEKRKKKE 92
++ ++ + + E +K +E+KEEK+K K+
Sbjct: 38 SQDKAIEKFKLLIKAQMAERVKKLHSQEKKEEKKKPKK 75
>gnl|CDD|100109 cd05831, Ribosomal_P1, Ribosomal protein P1. This subfamily
represents the eukaryotic large ribosomal protein P1.
Eukaryotic P1 and P2 are functionally equivalent to the
bacterial protein L7/L12, but are not homologous to
L7/L12. P1 is located in the L12 stalk, with proteins
P2, P0, L11, and 28S rRNA. P1 and P2 are the only
proteins in the ribosome to occur as multimers, always
appearing as sets of heterodimers. Recent data indicate
that eukaryotes have four copies (two heterodimers),
while most archaeal species contain six copies of L12p
(three homodimers) and bacteria may have four or six
copies (two or three homodimers), depending on the
species. Experiments using S. cerevisiae P1 and P2
indicate that P1 proteins are positioned more
internally with limited reactivity in the C-terminal
domains, while P2 proteins seem to be more externally
located and are more likely to interact with other
cellular components. In lower eukaryotes, P1 and P2 are
further subdivided into P1A, P1B, P2A, and P2B, which
form P1A/P2B and P1B/P2A heterodimers. Some plant
species have a third P-protein, called P3, which is not
homologous to P1 and P2. In humans, P1 and P2 are
strongly autoimmunogenic. They play a significant role
in the etiology and pathogenesis of systemic lupus
erythema (SLE). In addition, the ribosome-inactivating
protein trichosanthin (TCS) interacts with human P0,
P1, and P2, with its primary binding site located in
the C-terminal region of P2. TCS inactivates the
ribosome by depurinating a specific adenine in the
sarcin-ricin loop of 28S rRNA.
Length = 103
Score = 25.0 bits (55), Expect = 4.2
Identities = 9/16 (56%), Positives = 13/16 (81%)
Query: 71 EKEEEEKEKKEEEKEE 86
E +++EKKEEE+EE
Sbjct: 78 AAEAKKEEKKEEEEEE 93
>gnl|CDD|149343 pfam08229, SHR3_chaperone, ER membrane protein SH3. This family of
proteins are membrane localised chaperones that are
required for correct plasma membrane localisation of
amino acid permeases (AAPs). SH3 prevents AAPs proteins
from aggregating and assists in their correct folding.
In the absence of SH3, AAPs are retained in the ER.
Length = 196
Score = 25.4 bits (56), Expect = 4.5
Identities = 7/24 (29%), Positives = 10/24 (41%)
Query: 70 YEKEEEEKEKKEEEKEEKRKKKEE 93
K EE +E E K++E
Sbjct: 161 DAKLLEEFAAEEAEAAAAAKEEES 184
Score = 25.0 bits (55), Expect = 6.0
Identities = 7/29 (24%), Positives = 13/29 (44%)
Query: 65 DEVNLYEKEEEEKEKKEEEKEEKRKKKEE 93
+ + EE E +E+E +K+E
Sbjct: 163 KLLEEFAAEEAEAAAAAKEEESAEGEKKE 191
Score = 24.6 bits (54), Expect = 9.5
Identities = 7/31 (22%), Positives = 13/31 (41%)
Query: 63 SIDEVNLYEKEEEEKEKKEEEKEEKRKKKEE 93
+ +E E +EE+ + +KKE
Sbjct: 162 AKLLEEFAAEEAEAAAAAKEEESAEGEKKES 192
>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed.
Length = 106
Score = 24.9 bits (55), Expect = 4.6
Identities = 9/23 (39%), Positives = 17/23 (73%)
Query: 71 EKEEEEKEKKEEEKEEKRKKKEE 93
E++K+EEE+EE++++ EE
Sbjct: 73 AAAAAEEKKEEEEEEEEKEESEE 95
>gnl|CDD|215774 pfam00183, HSP90, Hsp90 protein.
Length = 529
Score = 25.5 bits (56), Expect = 4.7
Identities = 14/44 (31%), Positives = 27/44 (61%)
Query: 50 AEEAYTKMESRQPSIDEVNLYEKEEEEKEKKEEEKEEKRKKKEE 93
EE + E ++ ++ E+E +E+E+KEE+K++ +K KE
Sbjct: 37 DEEEEEEKEEKKEEEEKTTDKEEEVDEEEEKEEKKKKTKKVKET 80
>gnl|CDD|185603 PTZ00415, PTZ00415, transmission-blocking target antigen s230;
Provisional.
Length = 2849
Score = 25.8 bits (56), Expect = 4.8
Identities = 15/57 (26%), Positives = 29/57 (50%)
Query: 37 KNMGDLDPHIFAVAEEAYTKMESRQPSIDEVNLYEKEEEEKEKKEEEKEEKRKKKEE 93
+GDLD I + E P + V + E+E+++ +EE +E+ +++EE
Sbjct: 122 AEIGDLDMIIIKRRRARHLAEEDMSPRDNFVIDDDDEDEDEDDDDEEDDEEEEEEEE 178
>gnl|CDD|217393 pfam03154, Atrophin-1, Atrophin-1 family. Atrophin-1 is the
protein product of the dentatorubral-pallidoluysian
atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive
neurodegenerative disorder. It is caused by the
expansion of a CAG repeat in the DRPLA gene on
chromosome 12p. This results in an extended
polyglutamine region in atrophin-1, that is thought to
confer toxicity to the protein, possibly through
altering its interactions with other proteins. The
expansion of a CAG repeat is also the underlying defect
in six other neurodegenerative disorders, including
Huntington's disease. One interaction of expanded
polyglutamine repeats that is thought to be pathogenic
is that with the short glutamine repeat in the
transcriptional coactivator CREB binding protein, CBP.
This interaction draws CBP away from its usual nuclear
location to the expanded polyglutamine repeat protein
aggregates that are characteristic of the polyglutamine
neurodegenerative disorders. This interferes with
CBP-mediated transcription and causes cytotoxicity.
Length = 979
Score = 25.4 bits (55), Expect = 5.0
Identities = 14/42 (33%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 53 AYTKMESRQPSIDEVNLYEKEEEEKEK-KEEEKEEKRKKKEE 93
A + E+ + + E +EE E+EK KE+E+E +R+++ E
Sbjct: 578 AKKREEAVEKAKREAEQKAREEREREKEKEKEREREREREAE 619
>gnl|CDD|227136 COG4799, COG4799, Acetyl-CoA carboxylase, carboxyltransferase
component (subunits alpha and beta) [Lipid metabolism].
Length = 526
Score = 25.3 bits (56), Expect = 5.2
Identities = 9/25 (36%), Positives = 12/25 (48%)
Query: 69 LYEKEEEEKEKKEEEKEEKRKKKEE 93
LY KE E+ EE + RK+
Sbjct: 446 LYRKELAAAERPEEREALLRKQLIA 470
>gnl|CDD|222613 pfam14235, DUF4337, Domain of unknown function (DUF4337). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria. Proteins in
this family are typically between 187 and 201 amino
acids in length. There is a single completely conserved
residue Q that may be functionally important.
Length = 158
Score = 25.2 bits (56), Expect = 5.4
Identities = 8/24 (33%), Positives = 13/24 (54%)
Query: 70 YEKEEEEKEKKEEEKEEKRKKKEE 93
Y+KE+ + +E E K K+ E
Sbjct: 79 YKKEKARYRSEAKELEAKAKEAEA 102
>gnl|CDD|221028 pfam11208, DUF2992, Protein of unknown function (DUF2992). This
bacterial family of proteins has no known function.
However, the cis-regulatory yjdF motif, just upstream
from the gene encoding the proteins for this family, is
a small non-coding RNA, Rfam:RF01764. The yjdF motif is
found in many Firmicutes, including Bacillus subtilis.
In most cases, it resides in potential 5' UTRs of
homologues of the yjdF gene whose function is unknown.
However, in Streptococcus thermophilus, a yjdF RNA motif
is associated with an operon whose protein products
synthesise nicotinamide adenine dinucleotide (NAD+).
Also, the S. thermophilus yjdF RNA lacks typical yjdF
motif consensus features downstream of and including the
P4 stem. Thus, if yjdF RNAs are riboswitch aptamers, the
S. thermophilus RNAs might sense a distinct compound
that structurally resembles the ligand bound by other
yjdF RNAs. On the ohter hand, perhaps these RNAs have an
alternative solution forming a similar binding site, as
is observed with some SAM riboswitches.
Length = 132
Score = 24.9 bits (55), Expect = 5.5
Identities = 16/28 (57%), Positives = 21/28 (75%)
Query: 66 EVNLYEKEEEEKEKKEEEKEEKRKKKEE 93
E N EK++ KEKKEEEKE KR+ K++
Sbjct: 96 ERNKQEKKKRSKEKKEEEKERKRQLKQQ 123
>gnl|CDD|240664 cd12188, SDH, Saccharopine Dehydrogenase NAD-binding and catalytic
domains. Saccharopine Dehydrogenase (SDH) catalyzes the
final step in the reversible NAD-dependent oxidative
deamination of saccharopine to alpha-ketoglutarate and
lysine, in the alpha-aminoadipate pathway of L-lysine
biosynthesis. SHD is structurally related to formate
dehydrogenase and similar enzymes, having a 2-domain
structure in which a Rossmann-fold NAD(P)-binding domain
is inserted within the linear sequence of a catalytic
domain of related structure.
Length = 351
Score = 25.3 bits (56), Expect = 5.9
Identities = 7/16 (43%), Positives = 9/16 (56%)
Query: 18 NPYTELPIYGSNTIWT 33
NPY +PIY T +
Sbjct: 271 NPYNPIPIYDVATTFD 286
>gnl|CDD|236978 PRK11778, PRK11778, putative inner membrane peptidase;
Provisional.
Length = 330
Score = 25.2 bits (56), Expect = 6.5
Identities = 8/18 (44%), Positives = 13/18 (72%)
Query: 76 EKEKKEEEKEEKRKKKEE 93
+KE K K +K+K+K+E
Sbjct: 63 KKELKAWHKAQKKKEKQE 80
Score = 24.8 bits (55), Expect = 8.5
Identities = 7/27 (25%), Positives = 16/27 (59%)
Query: 65 DEVNLYEKEEEEKEKKEEEKEEKRKKK 91
E+ + K +++KEK+E + + + K
Sbjct: 64 KELKAWHKAQKKKEKQEAKAAKAKSKP 90
Score = 24.4 bits (54), Expect = 9.4
Identities = 7/22 (31%), Positives = 13/22 (59%)
Query: 72 KEEEEKEKKEEEKEEKRKKKEE 93
K + +KK+E++E K K +
Sbjct: 67 KAWHKAQKKKEKQEAKAAKAKS 88
>gnl|CDD|222421 pfam13859, BNR_3, BNR repeat-like domain. This family of
proteins contains BNR-like repeats suggesting these
proteins may act as sialidases.
Length = 302
Score = 24.8 bits (55), Expect = 7.0
Identities = 11/46 (23%), Positives = 17/46 (36%), Gaps = 1/46 (2%)
Query: 46 IFAVAEEAYTKMESRQPSIDEVNLYEKEEEEKEKKEEEKEEKRKKK 91
+FAVAE TK S ++ + + E + KK
Sbjct: 10 VFAVAEAQCTKKSDEG-STFIAIKSSTDDGKTWETPEAVLDDAGKK 54
>gnl|CDD|218312 pfam04889, Cwf_Cwc_15, Cwf15/Cwc15 cell cycle control protein.
This family represents Cwf15/Cwc15 (from
Schizosaccharomyces pombe and Saccharomyces cerevisiae
respectively) and their homologues. The function of
these proteins is unknown, but they form part of the
spliceosome and are thus thought to be involved in mRNA
splicing.
Length = 241
Score = 25.1 bits (55), Expect = 7.1
Identities = 9/23 (39%), Positives = 17/23 (73%)
Query: 71 EKEEEEKEKKEEEKEEKRKKKEE 93
E+ EE++ ++EE+ E+ K +EE
Sbjct: 157 ERAEEKEREEEEKAAEEEKAREE 179
>gnl|CDD|218734 pfam05758, Ycf1, Ycf1. The chloroplast genomes of most higher
plants contain two giant open reading frames designated
ycf1 and ycf2. Although the function of Ycf1 is unknown,
it is known to be an essential gene.
Length = 832
Score = 25.0 bits (55), Expect = 7.2
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 71 EKEEEEKEKKEEEKEEKRKKKEE 93
E+EEE + E E K K+E+
Sbjct: 234 EREEETDVEIETTSETKGTKQEQ 256
Score = 25.0 bits (55), Expect = 7.8
Identities = 9/25 (36%), Positives = 16/25 (64%)
Query: 68 NLYEKEEEEKEKKEEEKEEKRKKKE 92
+ E++ K+EEK+EK K++E
Sbjct: 652 EFKILDYTEEKTKKEEKKEKNKREE 676
>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional.
Length = 258
Score = 24.7 bits (55), Expect = 7.3
Identities = 15/36 (41%), Positives = 23/36 (63%)
Query: 58 ESRQPSIDEVNLYEKEEEEKEKKEEEKEEKRKKKEE 93
E RQ + E E+EE E+E++EEE+EE + + E
Sbjct: 223 EGRQGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258
>gnl|CDD|150884 pfam10278, Med19, Mediator of RNA pol II transcription subunit 19.
Med19 represents a family of conserved proteins which
are members of the multi-protein co-activator Mediator
complex. Mediator is required for activation of RNA
polymerase II transcription by DNA binding
transactivators.
Length = 178
Score = 24.8 bits (54), Expect = 8.1
Identities = 11/21 (52%), Positives = 20/21 (95%)
Query: 71 EKEEEEKEKKEEEKEEKRKKK 91
+K E++KE+K+++KE+K+KKK
Sbjct: 147 KKHEDDKERKKKKKEKKKKKK 167
>gnl|CDD|240388 PTZ00372, PTZ00372, endonuclease 4-like protein; Provisional.
Length = 413
Score = 24.7 bits (54), Expect = 8.3
Identities = 12/44 (27%), Positives = 24/44 (54%)
Query: 50 AEEAYTKMESRQPSIDEVNLYEKEEEEKEKKEEEKEEKRKKKEE 93
+ T + D+ N +K+ E+K+KK++EK+E + + E
Sbjct: 46 ENKVATTSTKKDKKEDKNNESKKKSEKKKKKKKEKKEPKSEGET 89
>gnl|CDD|148679 pfam07218, RAP1, Rhoptry-associated protein 1 (RAP-1). This family
consists of several rhoptry-associated protein 1 (RAP-1)
sequences which appear to be specific to Plasmodium
falciparum.
Length = 790
Score = 25.0 bits (54), Expect = 8.6
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 72 KEEEEKEKKEEEKEEKRKKKEE 93
EEEE E EE +E + KKE
Sbjct: 241 AEEEEFELDEEHEEAEEDKKEA 262
>gnl|CDD|185429 PTZ00074, PTZ00074, 60S ribosomal protein L34; Provisional.
Length = 135
Score = 24.3 bits (53), Expect = 9.4
Identities = 8/22 (36%), Positives = 19/22 (86%)
Query: 72 KEEEEKEKKEEEKEEKRKKKEE 93
KE+ +++K++++K++K+KKK
Sbjct: 106 KEKAKQKKQKKKKKKKKKKKTS 127
>gnl|CDD|115057 pfam06375, BLVR, Bovine leukaemia virus receptor (BLVR). This
family consists of several bovine specific leukaemia
virus receptors which are thought to function as
transmembrane proteins, although their exact function is
unknown.
Length = 561
Score = 24.6 bits (53), Expect = 9.4
Identities = 11/35 (31%), Positives = 24/35 (68%)
Query: 59 SRQPSIDEVNLYEKEEEEKEKKEEEKEEKRKKKEE 93
S+ P +V EK+ ++ +KKE++++EK + K++
Sbjct: 184 SKSPEKGDVPAVEKKSKKPKKKEKKEKEKERDKDK 218
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
0.303 0.127 0.341
Gapped
Lambda K H
0.267 0.0812 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,882,761
Number of extensions: 425965
Number of successful extensions: 4380
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3245
Number of HSP's successfully gapped: 877
Length of query: 93
Length of database: 10,937,602
Length adjustment: 60
Effective length of query: 33
Effective length of database: 8,276,362
Effective search space: 273119946
Effective search space used: 273119946
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (21.8 bits)
S2: 53 (24.0 bits)