RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2777
(108 letters)
>gnl|CDD|238667 cd01371, KISc_KIF3, Kinesin motor domain, kinesins II or
KIF3_like proteins. Subgroup of kinesins, which form
heterotrimers composed of 2 kinesins and one non-motor
accessory subunit. Kinesins II play important roles in
ciliary transport, and have been implicated in neuronal
transport, melanosome transport, the secretory pathway,
and mitosis. This catalytic (head) domain has ATPase
activity and belongs to the larger group of P-loop
NTPases. Kinesins are microtubule-dependent molecular
motors that play important roles in intracellular
transport and in cell division. In this group the motor
domain is found at the N-terminus (N-type). N-type
kinesins are (+) end-directed motors, i.e. they
transport cargo towards the (+) end of the microtubule.
Kinesin motor domains hydrolyze ATP at a rate of about
80 per second, and move along the microtubule at a
speed of about 6400 Angstroms per second. To achieve
that, kinesin head groups work in pairs. Upon replacing
ADP with ATP, a kinesin motor domain increases its
affinity for microtubule binding and locks in place.
Also, the neck linker binds to the motor domain, which
repositions the other head domain through the
coiled-coil domain close to a second tubulin dimer,
about 80 Angstroms along the microtubule. Meanwhile,
ATP hydrolysis takes place, and when the second head
domain binds to the microtubule, the first domain again
replaces ADP with ATP, triggering a conformational
change that pulls the first domain forward.
Length = 333
Score = 54.3 bits (131), Expect = 6e-10
Identities = 21/49 (42%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 1 MDSEKCTCSIVNASDPSA-PPKGFTFDGVYDAKSTTEQIYNEIAYPLIE 48
+D + ++ N + PPK FTFD VYD ST E +YNE A PL++
Sbjct: 27 VDENRGQVTVHNPKADAKEPPKVFTFDAVYDPNSTQEDVYNETARPLVD 75
Score = 51.6 bits (124), Expect = 4e-09
Identities = 21/49 (42%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 61 VYSEKCTCSIVNASDPSA-PPKGFTFDGVYDAKSTTEQIYNEIAYPLIE 108
V + ++ N + PPK FTFD VYD ST E +YNE A PL++
Sbjct: 27 VDENRGQVTVHNPKADAKEPPKVFTFDAVYDPNSTQEDVYNETARPLVD 75
>gnl|CDD|214526 smart00129, KISc, Kinesin motor, catalytic domain. ATPase.
Microtubule-dependent molecular motors that play
important roles in intracellular transport of
organelles and in cell division.
Length = 335
Score = 46.0 bits (110), Expect = 4e-07
Identities = 16/51 (31%), Positives = 25/51 (49%), Gaps = 1/51 (1%)
Query: 1 MDSEKCTCSIVNASDPSAPPKGFTFDGVYDAKSTTEQIYNEIAYPLIETSF 51
D T V + K FTFD V+DA ++ E ++ E A PL+++
Sbjct: 27 PDKVGKTL-TVRSPKNRQGEKKFTFDKVFDATASQEDVFEETAAPLVDSVL 76
Score = 44.9 bits (107), Expect = 1e-06
Identities = 14/39 (35%), Positives = 22/39 (56%)
Query: 70 IVNASDPSAPPKGFTFDGVYDAKSTTEQIYNEIAYPLIE 108
V + K FTFD V+DA ++ E ++ E A PL++
Sbjct: 35 TVRSPKNRQGEKKFTFDKVFDATASQEDVFEETAAPLVD 73
>gnl|CDD|238054 cd00106, KISc, Kinesin motor domain. This catalytic (head) domain
has ATPase activity and belongs to the larger group of
P-loop NTPases. Kinesins are microtubule-dependent
molecular motors that play important roles in
intracellular transport and in cell division. In most
kinesins, the motor domain is found at the N-terminus
(N-type), in some its is found in the middle (M-type),
or C-terminal (C-type). N-type and M-type kinesins are
(+) end-directed motors, while C-type kinesins are (-)
end-directed motors, i.e. they transport cargo towards
the (-) end of the microtubule. Kinesin motor domains
hydrolyze ATP at a rate of about 80 per second, and
move along the microtubule at a speed of about 6400
Angstroms per second. To achieve that, kinesin head
groups work in pairs. Upon replacing ADP with ATP, a
kinesin motor domain increases its affinity for
microtubule binding and locks in place. Also, the neck
linker binds to the motor domain, which repositions the
other head domain through the coiled-coil domain close
to a second tubulin dimer, about 80 Angstroms along the
microtubule. Meanwhile, ATP hydrolysis takes place, and
when the second head domain binds to the microtubule,
the first domain again replaces ADP with ATP,
triggering a conformational change that pulls the first
domain forward.
Length = 328
Score = 45.7 bits (109), Expect = 6e-07
Identities = 17/40 (42%), Positives = 21/40 (52%)
Query: 12 NASDPSAPPKGFTFDGVYDAKSTTEQIYNEIAYPLIETSF 51
A PK FTFD V+D ST E +Y A PL+E+
Sbjct: 36 PKDGRKAGPKSFTFDHVFDPNSTQEDVYETTAKPLVESVL 75
Score = 45.3 bits (108), Expect = 8e-07
Identities = 18/48 (37%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 62 YSEKCTCSIVN-ASDPSAPPKGFTFDGVYDAKSTTEQIYNEIAYPLIE 108
+ T ++ A PK FTFD V+D ST E +Y A PL+E
Sbjct: 25 VDDNKTVTLTPPKDGRKAGPKSFTFDHVFDPNSTQEDVYETTAKPLVE 72
>gnl|CDD|215803 pfam00225, Kinesin, Kinesin motor domain.
Length = 326
Score = 44.5 bits (106), Expect = 1e-06
Identities = 16/51 (31%), Positives = 23/51 (45%)
Query: 1 MDSEKCTCSIVNASDPSAPPKGFTFDGVYDAKSTTEQIYNEIAYPLIETSF 51
+D K FTFD V+D ++T E +Y E A PL+E+
Sbjct: 20 VDETDSEDKESVVITNKGREKTFTFDRVFDPEATQEFVYEETAKPLVESVL 70
Score = 42.6 bits (101), Expect = 6e-06
Identities = 15/30 (50%), Positives = 20/30 (66%)
Query: 79 PPKGFTFDGVYDAKSTTEQIYNEIAYPLIE 108
K FTFD V+D ++T E +Y E A PL+E
Sbjct: 38 REKTFTFDRVFDPEATQEFVYEETAKPLVE 67
>gnl|CDD|238663 cd01367, KISc_KIF2_like, Kinesin motor domain, KIF2-like group.
KIF2 is a protein expressed in neurons, which has been
associated with axonal transport and neuron
development; alternative splice forms have been
implicated in lysosomal translocation. This catalytic
(head) domain has ATPase activity and belongs to the
larger group of P-loop NTPases. Kinesins are
microtubule-dependent molecular motors that play
important roles in intracellular transport and in cell
division. In this subgroup the motor domain is found in
the middle (M-type) of the protein chain. M-type
kinesins are (+) end-directed motors, i.e. they
transport cargo towards the (+) end of the microtubule.
Kinesin motor domains hydrolyze ATP at a rate of about
80 per second, and move along the microtubule at a
speed of about 6400 Angstroms per second (KIF2 may be
slower). To achieve that, kinesin head groups work in
pairs. Upon replacing ADP with ATP, a kinesin motor
domain increases its affinity for microtubule binding
and locks in place. Also, the neck linker binds to the
motor domain, which repositions the other head domain
through the coiled-coil domain close to a second
tubulin dimer, about 80 Angstroms along the
microtubule. Meanwhile, ATP hydrolysis takes place, and
when the second head domain binds to the microtubule,
the first domain again replaces ADP with ATP,
triggering a conformational change that pulls the first
domain forward.
Length = 322
Score = 41.1 bits (97), Expect = 2e-05
Identities = 12/29 (41%), Positives = 15/29 (51%)
Query: 23 FTFDGVYDAKSTTEQIYNEIAYPLIETSF 51
F FD V+D T E++Y PLI F
Sbjct: 53 FRFDYVFDEAVTNEEVYRSTVKPLIPHVF 81
Score = 39.2 bits (92), Expect = 1e-04
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 83 FTFDGVYDAKSTTEQIYNEIAYPLIE 108
F FD V+D T E++Y PLI
Sbjct: 53 FRFDYVFDEAVTNEEVYRSTVKPLIP 78
>gnl|CDD|238670 cd01374, KISc_CENP_E, Kinesin motor domain, CENP-E/KIP2-like
subgroup, involved in chromosome movement and/or
spindle elongation during mitosis. This catalytic
(head) domain has ATPase activity and belongs to the
larger group of P-loop NTPases. Kinesins are
microtubule-dependent molecular motors that play
important roles in intracellular transport and in cell
division. In most kinesins, the motor domain is found
at the N-terminus (N-type). N-type kinesins are (+)
end-directed motors, i.e. they transport cargo towards
the (+) end of the microtubule. Kinesin motor domains
hydrolyze ATP at a rate of about 80 per second, and
move along the microtubule at a speed of about 6400
Angstroms per second. To achieve that, kinesin head
groups work in pairs. Upon replacing ADP with ATP, a
kinesin motor domain increases its affinity for
microtubule binding and locks in place. Also, the neck
linker binds to the motor domain, which repositions the
other head domain through the coiled-coil domain close
to a second tubulin dimer, about 80 Angstroms along the
microtubule. Meanwhile, ATP hydrolysis takes place, and
when the second head domain binds to the microtubule,
the first domain again replaces ADP with ATP,
triggering a conformational change that pulls the first
domain forward.
Length = 321
Score = 39.2 bits (92), Expect = 1e-04
Identities = 13/32 (40%), Positives = 20/32 (62%)
Query: 16 PSAPPKGFTFDGVYDAKSTTEQIYNEIAYPLI 47
S P + FTFD V+ +ST ++Y IA P++
Sbjct: 35 ESTPGQSFTFDRVFGGESTNREVYERIAKPVV 66
Score = 39.2 bits (92), Expect = 1e-04
Identities = 13/32 (40%), Positives = 20/32 (62%)
Query: 76 PSAPPKGFTFDGVYDAKSTTEQIYNEIAYPLI 107
S P + FTFD V+ +ST ++Y IA P++
Sbjct: 35 ESTPGQSFTFDRVFGGESTNREVYERIAKPVV 66
>gnl|CDD|238669 cd01373, KISc_KLP2_like, Kinesin motor domain, KLP2-like
subgroup. Members of this subgroup seem to play a role
in mitosis and meiosis. This catalytic (head) domain
has ATPase activity and belongs to the larger group of
P-loop NTPases. Kinesins are microtubule-dependent
molecular motors that play important roles in
intracellular transport and in cell division. In most
kinesins, the motor domain is found at the N-terminus
(N-type). N-type kinesins are (+) end-directed motors,
i.e. they transport cargo towards the (+) end of the
microtubule. Kinesin motor domains hydrolyze ATP at a
rate of about 80 per second, and move along the
microtubule at a speed of about 6400 Angstroms per
second. To achieve that, kinesin head groups work in
pairs. Upon replacing ADP with ATP, a kinesin motor
domain increases its affinity for microtubule binding
and locks in place. Also, the neck linker binds to the
motor domain, which repositions the other head domain
through the coiled-coil domain close to a second
tubulin dimer, about 80 Angstroms along the
microtubule. Meanwhile, ATP hydrolysis takes place, and
when the second head domain binds to the microtubule,
the first domain again replaces ADP with ATP,
triggering a conformational change that pulls the first
domain forward.
Length = 337
Score = 36.7 bits (85), Expect = 8e-04
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 4/51 (7%)
Query: 2 DSEKCTCSIVNASDP----SAPPKGFTFDGVYDAKSTTEQIYNEIAYPLIE 48
D + C +SD S PP+ FTFD V D+ + E ++ + PL+E
Sbjct: 18 DGGQGQCLKKLSSDTLVWHSHPPRMFTFDHVADSNTNQEDVFQSVGKPLVE 68
Score = 35.5 bits (82), Expect = 0.002
Identities = 13/32 (40%), Positives = 20/32 (62%)
Query: 77 SAPPKGFTFDGVYDAKSTTEQIYNEIAYPLIE 108
S PP+ FTFD V D+ + E ++ + PL+E
Sbjct: 37 SHPPRMFTFDHVADSNTNQEDVFQSVGKPLVE 68
>gnl|CDD|238668 cd01372, KISc_KIF4, Kinesin motor domain, KIF4-like subfamily.
Members of this group seem to perform a variety of
functions, and have been implicated in neuronal
organelle transport and chromosome segregation during
mitosis. This catalytic (head) domain has ATPase
activity and belongs to the larger group of P-loop
NTPases. Kinesins are microtubule-dependent molecular
motors that play important roles in intracellular
transport and in cell division. In most kinesins, the
motor domain is found at the N-terminus (N-type).
N-type kinesins are (+) end-directed motors, i.e. they
transport cargo towards the (+) end of the microtubule.
Kinesin motor domains hydrolyze ATP at a rate of about
80 per second, and move along the microtubule at a
speed of about 6400 Angstroms per second. To achieve
that, kinesin head groups work in pairs. Upon replacing
ADP with ATP, a kinesin motor domain increases its
affinity for microtubule binding and locks in place.
Also, the neck linker binds to the motor domain, which
repositions the other head domain through the
coiled-coil domain close to a second tubulin dimer,
about 80 Angstroms along the microtubule. Meanwhile,
ATP hydrolysis takes place, and when the second head
domain binds to the microtubule, the first domain again
replaces ADP with ATP, triggering a conformational
change that pulls the first domain forward.
Length = 341
Score = 36.5 bits (85), Expect = 0.001
Identities = 13/31 (41%), Positives = 20/31 (64%)
Query: 21 KGFTFDGVYDAKSTTEQIYNEIAYPLIETSF 51
K FTFD V+D ++ E++YN PL++ F
Sbjct: 40 KSFTFDYVFDPSTSQEEVYNTCVAPLVDGLF 70
Score = 36.1 bits (84), Expect = 0.001
Identities = 12/28 (42%), Positives = 19/28 (67%)
Query: 81 KGFTFDGVYDAKSTTEQIYNEIAYPLIE 108
K FTFD V+D ++ E++YN PL++
Sbjct: 40 KSFTFDYVFDPSTSQEEVYNTCVAPLVD 67
>gnl|CDD|238672 cd01376, KISc_KID_like, Kinesin motor domain, KIF22/Kid-like
subgroup. Members of this group might play a role in
regulating chromosomal movement along microtubules in
mitosis. This catalytic (head) domain has ATPase
activity and belongs to the larger group of P-loop
NTPases. Kinesins are microtubule-dependent molecular
motors that play important roles in intracellular
transport and in cell division. In most kinesins, the
motor domain is found at the N-terminus (N-type).
N-type kinesins are (+) end-directed motors, i.e. they
transport cargo towards the (+) end of the microtubule.
Kinesin motor domains hydrolyze ATP at a rate of about
80 per second, and move along the microtubule at a
speed of about 6400 Angstroms per second. To achieve
that, kinesin head groups work in pairs. Upon replacing
ADP with ATP, a kinesin motor domain increases its
affinity for microtubule binding and locks in place.
Also, the neck linker binds to the motor domain, which
repositions the other head domain through the
coiled-coil domain close to a second tubulin dimer,
about 80 Angstroms along the microtubule. Meanwhile,
ATP hydrolysis takes place, and when the second head
domain binds to the microtubule, the first domain again
replaces ADP with ATP, triggering a conformational
change that pulls the first domain forward.
Length = 319
Score = 35.1 bits (81), Expect = 0.003
Identities = 12/49 (24%), Positives = 22/49 (44%), Gaps = 2/49 (4%)
Query: 1 MDSEKCTCSIVNASDP--SAPPKGFTFDGVYDAKSTTEQIYNEIAYPLI 47
+DS++ V +P K + FD Y + T E I++ P++
Sbjct: 25 IDSDQGQAKSVEIENPRNRGETKKYQFDAFYGTECTQEDIFSREVKPIV 73
Score = 33.2 bits (76), Expect = 0.014
Identities = 12/51 (23%), Positives = 22/51 (43%), Gaps = 2/51 (3%)
Query: 59 RAVYSEKCTCSIVNASDP--SAPPKGFTFDGVYDAKSTTEQIYNEIAYPLI 107
R + S++ V +P K + FD Y + T E I++ P++
Sbjct: 23 RGIDSDQGQAKSVEIENPRNRGETKKYQFDAFYGTECTQEDIFSREVKPIV 73
>gnl|CDD|212509 cd11723, YabN_N, N-terminal S-AdoMet dependent methylase domain
of Bacillus subtilis YabN and related proteins. This
family contains proteins similar to Bacillus subtilis
YabN, which is a fusion of an N-terminal TP-methylase
and a C-terminal MazG-type nucleotide
pyrophosphohydrolase domain. MazG-like NTP-PPases have
been implicated in house-cleaning functions such as
degrading abnormal (d)NTPs. TP-methylases use S-AdoMet
(S-adenosyl-L-methionine or SAM) in the methylation of
diverse substrates. Most members catalyze various
methylation steps in cobalamin (vitamin B12)
biosynthesis, other members like Diphthine synthase and
Ribosomal RNA small subunit methyltransferase I (RsmI)
act on other substrates. The specific function of
YabN's TP-methylase domain is not known.
Length = 220
Score = 33.7 bits (78), Expect = 0.008
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 24 TFDGVYDAKSTTEQIYNEIAYPLIE 48
+FD VY+ T E++Y EIA L+E
Sbjct: 51 SFDSVYEEHETFEEVYREIAEELLE 75
Score = 33.7 bits (78), Expect = 0.008
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 84 TFDGVYDAKSTTEQIYNEIAYPLIE 108
+FD VY+ T E++Y EIA L+E
Sbjct: 51 SFDSVYEEHETFEEVYREIAEELLE 75
>gnl|CDD|238660 cd01364, KISc_BimC_Eg5, Kinesin motor domain, BimC/Eg5 spindle
pole proteins, participate in spindle assembly and
chromosome segregation during cell division. This
catalytic (head) domain has ATPase activity and belongs
to the larger group of P-loop NTPases. Kinesins are
microtubule-dependent molecular motors that play
important roles in intracellular transport and in cell
division. In most kinesins, the motor domain is found
at the N-terminus (N-type), N-type kinesins are (+)
end-directed motors, i.e. they transport cargo towards
the (+) end of the microtubule. Kinesin motor domains
hydrolyze ATP at a rate of about 80 per second, and
move along the microtubule at a speed of about 6400
Angstroms per second. To achieve that, kinesin head
groups work in pairs. Upon replacing ADP with ATP, a
kinesin motor domain increases its affinity for
microtubule binding and locks in place. Also, the neck
linker binds to the motor domain, which repositions the
other head domain through the coiled-coil domain close
to a second tubulin dimer, about 80 Angstroms along the
microtubule. Meanwhile, ATP hydrolysis takes place, and
when the second head domain binds to the microtubule,
the first domain again replaces ADP with ATP,
triggering a conformational change that pulls the first
domain forward.
Length = 352
Score = 33.4 bits (77), Expect = 0.011
Identities = 7/28 (25%), Positives = 19/28 (67%)
Query: 21 KGFTFDGVYDAKSTTEQIYNEIAYPLIE 48
K +TFD V+ ++ ++Y+++ P+++
Sbjct: 48 KTYTFDKVFGPEADQIEVYSQVVSPILD 75
Score = 33.4 bits (77), Expect = 0.011
Identities = 7/28 (25%), Positives = 19/28 (67%)
Query: 81 KGFTFDGVYDAKSTTEQIYNEIAYPLIE 108
K +TFD V+ ++ ++Y+++ P+++
Sbjct: 48 KTYTFDKVFGPEADQIEVYSQVVSPILD 75
>gnl|CDD|238665 cd01369, KISc_KHC_KIF5, Kinesin motor domain, kinesin heavy chain
(KHC) or KIF5-like subgroup. Members of this group have
been associated with organelle transport. This
catalytic (head) domain has ATPase activity and belongs
to the larger group of P-loop NTPases. Kinesins are
microtubule-dependent molecular motors that play
important roles in intracellular transport and in cell
division. In most kinesins, the motor domain is found
at the N-terminus (N-type). N-type kinesins are (+)
end-directed motors, i.e. they transport cargo towards
the (+) end of the microtubule. Kinesin motor domains
hydrolyze ATP at a rate of about 80 per second, and
move along the microtubule at a speed of about 6400
Angstroms per second. To achieve that, kinesin head
groups work in pairs. Upon replacing ADP with ATP, a
kinesin motor domain increases its affinity for
microtubule binding and locks in place. Also, the neck
linker binds to the motor domain, which repositions the
other head domain through the coiled-coil domain close
to a second tubulin dimer, about 80 Angstroms along the
microtubule. Meanwhile, ATP hydrolysis takes place, and
when the second head domain binds to the microtubule,
the first domain again replaces ADP with ATP,
triggering a conformational change that pulls the first
domain forward.
Length = 325
Score = 32.3 bits (74), Expect = 0.027
Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 4/42 (9%)
Query: 7 TCSIVNASDPSAPPKGFTFDGVYDAKSTTEQIYNEIAYPLIE 48
T SI A F+FD V+ +T E +YN +A P+++
Sbjct: 33 TVSI--AGSDDGKT--FSFDRVFPPNTTQEDVYNFVAKPIVD 70
Score = 32.3 bits (74), Expect = 0.027
Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 4/42 (9%)
Query: 67 TCSIVNASDPSAPPKGFTFDGVYDAKSTTEQIYNEIAYPLIE 108
T SI A F+FD V+ +T E +YN +A P+++
Sbjct: 33 TVSI--AGSDDGKT--FSFDRVFPPNTTQEDVYNFVAKPIVD 70
>gnl|CDD|238666 cd01370, KISc_KIP3_like, Kinesin motor domain, KIP3-like
subgroup. The yeast kinesin KIP3 plays a role in
positioning the mitotic spindle. This catalytic (head)
domain has ATPase activity and belongs to the larger
group of P-loop NTPases. Kinesins are
microtubule-dependent molecular motors that play
important roles in intracellular transport and in cell
division. In most kinesins, the motor domain is found
at the N-terminus (N-type). N-type kinesins are (+)
end-directed motors, i.e. they transport cargo towards
the (+) end of the microtubule. Kinesin motor domains
hydrolyze ATP at a rate of about 80 per second, and
move along the microtubule at a speed of about 6400
Angstroms per second. To achieve that, kinesin head
groups work in pairs. Upon replacing ADP with ATP, a
kinesin motor domain increases its affinity for
microtubule binding and locks in place. Also, the neck
linker binds to the motor domain, which repositions the
other head domain through the coiled-coil domain close
to a second tubulin dimer, about 80 Angstroms along the
microtubule. Meanwhile, ATP hydrolysis takes place, and
when the second head domain binds to the microtubule,
the first domain again replaces ADP with ATP,
triggering a conformational change that pulls the first
domain forward.
Length = 338
Score = 31.9 bits (73), Expect = 0.037
Identities = 10/29 (34%), Positives = 17/29 (58%)
Query: 20 PKGFTFDGVYDAKSTTEQIYNEIAYPLIE 48
++FD V+D ST E++Y PL++
Sbjct: 53 ELKYSFDRVFDETSTQEEVYENTTKPLVD 81
Score = 31.9 bits (73), Expect = 0.037
Identities = 10/29 (34%), Positives = 17/29 (58%)
Query: 80 PKGFTFDGVYDAKSTTEQIYNEIAYPLIE 108
++FD V+D ST E++Y PL++
Sbjct: 53 ELKYSFDRVFDETSTQEEVYENTTKPLVD 81
>gnl|CDD|238662 cd01366, KISc_C_terminal, Kinesin motor domain,
KIFC2/KIFC3/ncd-like carboxy-terminal kinesins. Ncd is
a spindle motor protein necessary for chromosome
segregation in meiosis. KIFC2/KIFC3-like kinesins have
been implicated in motility of the Golgi apparatus as
well as dentritic and axonal transport in neurons. This
catalytic (head) domain has ATPase activity and belongs
to the larger group of P-loop NTPases. Kinesins are
microtubule-dependent molecular motors that play
important roles in intracellular transport and in cell
division. In this subgroup the motor domain is found at
the C-terminus (C-type). C-type kinesins are (-)
end-directed motors, i.e. they transport cargo towards
the (-) end of the microtubule. Kinesin motor domains
hydrolyze ATP at a rate of about 80 per second, and
move along the microtubule at a speed of about 6400
Angstroms per second. To achieve that, kinesin head
groups work in pairs. Upon replacing ADP with ATP, a
kinesin motor domain increases its affinity for
microtubule binding and locks in place. Also, the neck
linker binds to the motor domain, which repositions the
other head domain through the coiled-coil domain close
to a second tubulin dimer, about 80 Angstroms along the
microtubule. Meanwhile, ATP hydrolysis takes place, and
when the second head domain binds to the microtubule,
the first domain again replaces ADP with ATP,
triggering a conformational change that pulls the first
domain forward.
Length = 329
Score = 31.0 bits (71), Expect = 0.071
Identities = 10/32 (31%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 16 PSAPPKGFTFDGVYDAKSTTEQIYNEIAYPLI 47
+ K F+FD V+D ++ E ++ E++ PL+
Sbjct: 40 GTGKKKSFSFDRVFDPDASQEDVFEEVS-PLV 70
Score = 31.0 bits (71), Expect = 0.071
Identities = 10/32 (31%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 76 PSAPPKGFTFDGVYDAKSTTEQIYNEIAYPLI 107
+ K F+FD V+D ++ E ++ E++ PL+
Sbjct: 40 GTGKKKSFSFDRVFDPDASQEDVFEEVS-PLV 70
>gnl|CDD|215621 PLN03188, PLN03188, kinesin-12 family protein; Provisional.
Length = 1320
Score = 31.1 bits (70), Expect = 0.083
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 23 FTFDGVYDAKSTTEQIYNEIAYPLIE 48
FTFD + D +ST E I+ + PL+E
Sbjct: 134 FTFDSIADPESTQEDIFQLVGAPLVE 159
Score = 31.1 bits (70), Expect = 0.083
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 83 FTFDGVYDAKSTTEQIYNEIAYPLIE 108
FTFD + D +ST E I+ + PL+E
Sbjct: 134 FTFDSIADPESTQEDIFQLVGAPLVE 159
>gnl|CDD|227392 COG5059, KIP1, Kinesin-like protein [Cytoskeleton].
Length = 568
Score = 30.5 bits (69), Expect = 0.13
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 23 FTFDGVYDAKSTTEQIYNEIAYPLIE 48
+ FD V+ +T E +Y E PLI+
Sbjct: 58 YAFDKVFGPSATQEDVYEETIKPLID 83
Score = 30.5 bits (69), Expect = 0.13
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 83 FTFDGVYDAKSTTEQIYNEIAYPLIE 108
+ FD V+ +T E +Y E PLI+
Sbjct: 58 YAFDKVFGPSATQEDVYEETIKPLID 83
>gnl|CDD|238671 cd01375, KISc_KIF9_like, Kinesin motor domain, KIF9-like
subgroup; might play a role in cell shape remodeling.
This catalytic (head) domain has ATPase activity and
belongs to the larger group of P-loop NTPases. Kinesins
are microtubule-dependent molecular motors that play
important roles in intracellular transport and in cell
division. In most kinesins, the motor domain is found
at the N-terminus (N-type). N-type kinesins are (+)
end-directed motors, i.e. they transport cargo towards
the (+) end of the microtubule. Kinesin motor domains
hydrolyze ATP at a rate of about 80 per second, and
move along the microtubule at a speed of about 6400
Angstroms per second. To achieve that, kinesin head
groups work in pairs. Upon replacing ADP with ATP, a
kinesin motor domain increases its affinity for
microtubule binding and locks in place. Also, the neck
linker binds to the motor domain, which repositions the
other head domain through the coiled-coil domain close
to a second tubulin dimer, about 80 Angstroms along the
microtubule. Meanwhile, ATP hydrolysis takes place, and
when the second head domain binds to the microtubule,
the first domain again replaces ADP with ATP,
triggering a conformational change that pulls the first
domain forward.
Length = 334
Score = 29.0 bits (65), Expect = 0.35
Identities = 9/26 (34%), Positives = 18/26 (69%), Gaps = 1/26 (3%)
Query: 23 FTFDGVYDAKSTTEQIYNEIAYPLIE 48
F FDGV+ ++ E++Y +A P+++
Sbjct: 50 FKFDGVFH-NASQEEVYETVAKPVVD 74
Score = 29.0 bits (65), Expect = 0.35
Identities = 9/26 (34%), Positives = 18/26 (69%), Gaps = 1/26 (3%)
Query: 83 FTFDGVYDAKSTTEQIYNEIAYPLIE 108
F FDGV+ ++ E++Y +A P+++
Sbjct: 50 FKFDGVFH-NASQEEVYETVAKPVVD 74
>gnl|CDD|226465 COG3956, COG3956, Protein containing tetrapyrrole
methyltransferase domain and MazG-like (predicted
pyrophosphatase) domain [General function prediction
only].
Length = 488
Score = 28.7 bits (64), Expect = 0.53
Identities = 10/31 (32%), Positives = 17/31 (54%)
Query: 24 TFDGVYDAKSTTEQIYNEIAYPLIETSFYRD 54
FD +Y+ E +Y+ IA L+E + +D
Sbjct: 54 FFDDIYETHEQFEAVYDFIAADLVEAAKEKD 84
Score = 28.3 bits (63), Expect = 0.68
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 84 TFDGVYDAKSTTEQIYNEIAYPLIE 108
FD +Y+ E +Y+ IA L+E
Sbjct: 54 FFDDIYETHEQFEAVYDFIAADLVE 78
>gnl|CDD|238661 cd01365, KISc_KIF1A_KIF1B, Kinesin motor domain, KIF1_like
proteins. KIF1A (Unc104) transports synaptic vesicles
to the nerve terminal, KIF1B has been implicated in
transport of mitochondria. Both proteins are expressed
in neurons. This catalytic (head) domain has ATPase
activity and belongs to the larger group of P-loop
NTPases. Kinesins are microtubule-dependent molecular
motors that play important roles in intracellular
transport and in cell division. In most kinesins, the
motor domain is found at the N-terminus (N-type).
N-type kinesins are (+) end-directed motors, i.e. they
transport cargo towards the (+) end of the microtubule.
In contrast to the majority of dimeric kinesins, most
KIF1A/Unc104 kinesins are monomeric motors. A
lysine-rich loop in KIF1A binds to the negatively
charged C-terminus of tubulin and compensates for the
lack of a second motor domain, allowing KIF1A to move
processively.
Length = 356
Score = 28.4 bits (64), Expect = 0.69
Identities = 13/59 (22%), Positives = 27/59 (45%), Gaps = 8/59 (13%)
Query: 1 MDSEKCTCSIVNASDPSAP-PKGFTFDGVYDA-------KSTTEQIYNEIAYPLIETSF 51
M + T A+D + PK F+FD Y + ++ E ++ ++ L++ +F
Sbjct: 27 MPGKVTTLKNPKAADATRKKPKSFSFDHSYWSHDSEDPHYASQEDVFEDLGRELLDHAF 85
>gnl|CDD|187556 cd05245, SDR_a2, atypical (a) SDRs, subgroup 2. This subgroup
contains atypical SDRs, one member is identified as
Escherichia coli protein ybjT, function unknown.
Atypical SDRs are distinct from classical SDRs. Members
of this subgroup have a glycine-rich NAD(P)-binding
motif consensus that generally matches the extended
SDRs, TGXXGXXG, but lacks the characteristic active site
residues of the SDRs. This subgroup has basic residues
(HXXXR) in place of the active site motif YXXXK, these
may have a catalytic role. Atypical SDRs generally lack
the catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Atypical SDRs include biliverdin IX beta
reductase (BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 293
Score = 26.5 bits (59), Expect = 2.8
Identities = 10/28 (35%), Positives = 12/28 (42%), Gaps = 6/28 (21%)
Query: 38 IYNEIAYPLIETSFYRDGLIDRAVYSEK 65
+ N IA PLIE GL V +
Sbjct: 250 VPNSIARPLIE------GLKHDVVVDDD 271
>gnl|CDD|167150 PRK01066, PRK01066, porphobilinogen deaminase; Provisional.
Length = 231
Score = 26.3 bits (58), Expect = 3.8
Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 49 TSFYRDGLIDRAVYSEKCTCSIVNASDPSAPPK 81
T F+ D +D V S +C +I +A D PPK
Sbjct: 71 TGFFTDD-VDFLVLSGQCDLAIHSAKDLPEPPK 102
>gnl|CDD|220812 pfam10566, Glyco_hydro_97, Glycoside hydrolase 97. This is the
97th family of glycosidases, in this case bacterial. The
central part of the GH97 family protein sequences
represents a typical and complete (beta/alpha)8-barrel
or catalytic TIM-barrel type domain. The N- and
C-terminal parts of the sequences, mainly consisting of
beta-strands, most probably form two additional
non-catalytic domains with as yet unknown functions. The
non-catalytic domains of glycosidases from the
alpha-galactosidase and alpha-glucosidase superfamilies
are also predominantly composed of beta-strands, and at
least some of these domains are involved in
oligomerisation and carbohydrate binding. In all known
glycosidases with the (beta-alpha)8-barrel fold, the
amino acid residues at the active site are located on
the C-termini of the beta-strands.
Length = 621
Score = 25.9 bits (57), Expect = 5.9
Identities = 16/38 (42%), Positives = 23/38 (60%), Gaps = 2/38 (5%)
Query: 28 VYDAKSTTEQIYNEIAYPLIET-SFYRDGLIDRAVYSE 64
Y KST + +YNE+ PL T +F + L+ RA Y+E
Sbjct: 73 FYGKKSTVKDLYNEVVIPLEGTAAFRKLNLVVRA-YNE 109
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.314 0.132 0.392
Gapped
Lambda K H
0.267 0.0794 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,340,905
Number of extensions: 427845
Number of successful extensions: 290
Number of sequences better than 10.0: 1
Number of HSP's gapped: 290
Number of HSP's successfully gapped: 48
Length of query: 108
Length of database: 10,937,602
Length adjustment: 73
Effective length of query: 35
Effective length of database: 7,699,760
Effective search space: 269491600
Effective search space used: 269491600
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.1 bits)