RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12524
(151 letters)
>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 = 259 bits (664), Expect = 1e-87
Identities = 94/145 (64%), Positives = 120/145 (82%), Gaps = 1/145 (0%)
Query: 1 KPPKTFAFDHCFYSLDPNLPNFASQEKVFDALGRDILDNAFQGYNACIFAYGQTGSGKSY 60
K PK+F+FDH ++S D P++ASQE VF+ LGR++LD+AF+GYN C+FAYGQTGSGKSY
Sbjct: 45 KKPKSFSFDHSYWSHDSEDPHYASQEDVFEDLGRELLDHAFEGYNVCLFAYGQTGSGKSY 104
Query: 61 TMMGSQDNKGIIPRLCDSLFDLIAKQESSELTYKVEVSYMEIYNEKVHDLLDPK-ANKQS 119
TMMG ++ KGIIPRLC+ LF I ++ L+Y+VEVSYMEIYNEKV DLL+PK NK +
Sbjct: 105 TMMGYKEEKGIIPRLCEELFQRIESKKEQNLSYEVEVSYMEIYNEKVRDLLNPKKKNKGN 164
Query: 120 LKVREHNVLGPYVDGLSQLAVTSFQ 144
LKVREH VLGPYV+ LS++AVTS++
Sbjct: 165 LKVREHPVLGPYVEDLSKVAVTSYE 189
>gnl|CDD|215803 pfam00225, Kinesin, Kinesin motor domain.
Length = 326
Score = 197 bits (504), Expect = 6e-64
Identities = 64/146 (43%), Positives = 95/146 (65%), Gaps = 9/146 (6%)
Query: 1 KPPKTFAFDHCFYSLDPNLPNFASQEKVFDALGRDILDNAFQGYNACIFAYGQTGSGKSY 60
KTF FD F DP A+QE V++ + ++++ +GYN IFAYGQTGSGK+Y
Sbjct: 37 GREKTFTFDRVF---DPE----ATQEFVYEETAKPLVESVLEGYNVTIFAYGQTGSGKTY 89
Query: 61 TMMGS--QDNKGIIPRLCDSLFDLIAKQESSELTYKVEVSYMEIYNEKVHDLLDPKANKQ 118
TM G ++ GIIPR + LF+ I +++ + ++ V VSY+EIYNEK++DLL P + K+
Sbjct: 90 TMEGDPPEEEPGIIPRALEDLFERIEERKERKWSFSVRVSYLEIYNEKIYDLLSPSSKKK 149
Query: 119 SLKVREHNVLGPYVDGLSQLAVTSFQ 144
L++RE G YV GL+++ VTS +
Sbjct: 150 KLRIREDPKKGVYVKGLTEVEVTSAE 175
>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 = 191 bits (488), Expect = 2e-61
Identities = 66/144 (45%), Positives = 95/144 (65%), Gaps = 7/144 (4%)
Query: 1 KPPKTFAFDHCFYSLDPNLPNFASQEKVFDALGRDILDNAFQGYNACIFAYGQTGSGKSY 60
PK+F FDH F DPN ++QE V++ + ++++ +GYN IFAYGQTGSGK+Y
Sbjct: 42 AGPKSFTFDHVF---DPN----STQEDVYETTAKPLVESVLEGYNGTIFAYGQTGSGKTY 94
Query: 61 TMMGSQDNKGIIPRLCDSLFDLIAKQESSELTYKVEVSYMEIYNEKVHDLLDPKANKQSL 120
TM GS + GIIPR + LF+LI +++ ++ V VSY+EIYNEKV+DLL P+ + L
Sbjct: 95 TMFGSPKDPGIIPRALEDLFNLIDERKEKNKSFSVSVSYLEIYNEKVYDLLSPEPPSKPL 154
Query: 121 KVREHNVLGPYVDGLSQLAVTSFQ 144
+RE G YV GL+++ V S +
Sbjct: 155 SLREDPKGGVYVKGLTEVEVGSAE 178
>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 = 189 bits (483), Expect = 1e-60
Identities = 68/141 (48%), Positives = 94/141 (66%), Gaps = 10/141 (7%)
Query: 4 KTFAFDHCFYSLDPNLPNFASQEKVFDALGRDILDNAFQGYNACIFAYGQTGSGKSYTMM 63
K F FD F D ASQE VF+ ++D+ +GYNA IFAYGQTGSGK+YTM+
Sbjct: 46 KKFTFDKVF---DAT----ASQEDVFEETAAPLVDSVLEGYNATIFAYGQTGSGKTYTMI 98
Query: 64 GSQDNKGIIPRLCDSLFDLIAKQESSELTYKVEVSYMEIYNEKVHDLLDPKANKQSLKVR 123
G+ D+ GIIPR LF+ I K+E + V+VSY+EIYNEK+ DLL+P + + L++R
Sbjct: 99 GTPDSPGIIPRALKDLFEKIDKRE-EGWQFSVKVSYLEIYNEKIRDLLNP--SSKKLEIR 155
Query: 124 EHNVLGPYVDGLSQLAVTSFQ 144
E G YV GL++++V+SF+
Sbjct: 156 EDEKGGVYVKGLTEISVSSFE 176
>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 = 161 bits (410), Expect = 9e-50
Identities = 64/142 (45%), Positives = 87/142 (61%), Gaps = 13/142 (9%)
Query: 4 KTFAFDHCFYSLDPNLPNFASQEKVFDALGRDILDNAFQGYNACIFAYGQTGSGKSYTMM 63
KTF+FD F PN +QE V++ + + I+D+ GYN IFAYGQTGSGK+YTM
Sbjct: 43 KTFSFDRVFP------PN-TTQEDVYNFVAKPIVDDVLNGYNGTIFAYGQTGSGKTYTME 95
Query: 64 GS---QDNKGIIPRLCDSLFDLIAKQESSELTYKVEVSYMEIYNEKVHDLLDPKANKQSL 120
G + KGIIPR+ +F+ I+ L + V+VSY+EIY EK+ DLLD K +L
Sbjct: 96 GPPGDPELKGIIPRIVHDIFEHISS-MDENLEFHVKVSYLEIYMEKIRDLLDVS--KDNL 152
Query: 121 KVREHNVLGPYVDGLSQLAVTS 142
+V E G YV GL++ V+S
Sbjct: 153 QVHEDKNRGVYVKGLTERFVSS 174
>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 = 147 bits (373), Expect = 3e-44
Identities = 55/141 (39%), Positives = 82/141 (58%), Gaps = 11/141 (7%)
Query: 2 PPKTFAFDHCFYSLDPNLPNFASQEKVFDALGRDILDNAFQGYNACIFAYGQTGSGKSYT 61
P ++F FD F N +V++ + + ++ +A +GYN IFAYGQT SGK++T
Sbjct: 38 PGQSFTFDRVF---GGESTN----REVYERIAKPVVRSALEGYNGTIFAYGQTSSGKTFT 90
Query: 62 MMGSQDNKGIIPRLCDSLFDLIAKQESSELTYKVEVSYMEIYNEKVHDLLDPKANKQSLK 121
M G + GIIP +F I Q++ + + + VSY+EIYNEK+ DLL P + Q L+
Sbjct: 91 MSGDEQEPGIIPLAVRDIFQRI--QDTPDREFLLRVSYLEIYNEKIKDLLSP--SPQELR 146
Query: 122 VREHNVLGPYVDGLSQLAVTS 142
+RE G V GL++ VTS
Sbjct: 147 IREDPNKGVVVAGLTEEIVTS 167
>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 = 144 bits (366), Expect = 3e-43
Identities = 62/145 (42%), Positives = 89/145 (61%), Gaps = 13/145 (8%)
Query: 1 KPPKTFAFDHCFYSLDPNLPNFASQEKVFDALGRDILDNAFQGYNACIFAYGQTGSGKSY 60
+PPK F FD + DPN ++QE V++ R ++D+ +GYN IFAYGQTG+GK++
Sbjct: 45 EPPKVFTFDAVY---DPN----STQEDVYNETARPLVDSVLEGYNGTIFAYGQTGTGKTF 97
Query: 61 TMMGSQDN---KGIIPRLCDSLFDLIAKQESSELTYKVEVSYMEIYNEKVHDLLDPKANK 117
TM G ++ +GIIP +F IAK E+ + + V VSY+EIYNE+V DLL K K
Sbjct: 98 TMEGVREPPELRGIIPNSFAHIFGHIAKAENVQ--FLVRVSYLEIYNEEVRDLLG-KDQK 154
Query: 118 QSLKVREHNVLGPYVDGLSQLAVTS 142
+ L+++E G YV LS V +
Sbjct: 155 KKLELKERPDRGVYVKDLSMFVVKN 179
>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 = 135 bits (342), Expect = 1e-39
Identities = 65/154 (42%), Positives = 95/154 (61%), Gaps = 20/154 (12%)
Query: 1 KPPKTFAFDHCFYSLDPNLPNFASQEKVFDALGRDILDNAFQGYNACIFAYGQTGSGKSY 60
PP+ F FDH D N +QE VF ++G+ ++++ GYN IFAYGQTGSGK+Y
Sbjct: 38 HPPRMFTFDHVA---DSNT----NQEDVFQSVGKPLVEDCLSGYNGSIFAYGQTGSGKTY 90
Query: 61 TMMG---SQDN-----KGIIPRLCDSLFDLIAKQES---SELTYKVEVSYMEIYNEKVHD 109
TMMG S D +G+IPR+ + LF LI ++E L + + S++EIYNE++ D
Sbjct: 91 TMMGPSSSDDESPHGLQGVIPRIFEYLFSLIQREEEKRGDGLKFLCKCSFLEIYNEQITD 150
Query: 110 LLDPKANKQSLKVREHNVLGPYVDGLSQLAVTSF 143
LLDP ++LK+RE G YV+ L++ V+S+
Sbjct: 151 LLDP--TSRNLKIREDIKKGVYVENLTEEYVSSY 182
>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 = 134 bits (340), Expect = 3e-39
Identities = 60/142 (42%), Positives = 87/142 (61%), Gaps = 9/142 (6%)
Query: 3 PKTFAFDHCFYSLDPNLPNFASQEKVFDALGRDILDNAFQGYNACIFAYGQTGSGKSYTM 62
K+F+FD F DP+ ASQE VF+ + ++ +A GYN CIFAYGQTGSGK+YTM
Sbjct: 44 KKSFSFDRVF---DPD----ASQEDVFEEVSP-LVQSALDGYNVCIFAYGQTGSGKTYTM 95
Query: 63 MGSQDNKGIIPRLCDSLFDLIAKQESSELTYKVEVSYMEIYNEKVHDLLDPK-ANKQSLK 121
G +N GIIPR + LF+ + + +Y + S +EIYNE + DLL K A K+ L+
Sbjct: 96 EGPPENPGIIPRALEQLFNTAEELKEKGWSYTITASMLEIYNETIRDLLATKPAPKKKLE 155
Query: 122 VREHNVLGPYVDGLSQLAVTSF 143
++ + YV L+++ V+S
Sbjct: 156 IKHDSKGETYVTNLTEVPVSSP 177
>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 = 131 bits (332), Expect = 5e-38
Identities = 56/148 (37%), Positives = 92/148 (62%), Gaps = 15/148 (10%)
Query: 4 KTFAFDHCFYSLDPNLPNFASQEKVFDALGRDILDNAFQGYNACIFAYGQTGSGKSYTMM 63
K+F FD+ F DP+ SQE+V++ ++D F+GYNA + AYGQTGSGK+YTM
Sbjct: 40 KSFTFDYVF---DPS----TSQEEVYNTCVAPLVDGLFEGYNATVLAYGQTGSGKTYTMG 92
Query: 64 GS------QDNKGIIPRLCDSLFDLIAKQESSELTYKVEVSYMEIYNEKVHDLLDPKANK 117
+ ++ GIIPR +F I ++ E ++++VS++E+YNE+V DLL P ++
Sbjct: 93 TAFTASEDEEEVGIIPRAIQHIFKKID-EKKDEPDFQLKVSFLELYNEEVRDLLSPSTSE 151
Query: 118 QS-LKVREHNVLGPYVDGLSQLAVTSFQ 144
+S +++RE + + GL+++ V S Q
Sbjct: 152 KSPIQIREDSKGNIIIVGLTEVTVNSAQ 179
>gnl|CDD|227392 COG5059, KIP1, Kinesin-like protein [Cytoskeleton].
Length = 568
Score = 132 bits (334), Expect = 6e-37
Identities = 60/140 (42%), Positives = 88/140 (62%), Gaps = 10/140 (7%)
Query: 3 PKTFAFDHCFYSLDPNLPNFASQEKVFDALGRDILDNAFQGYNACIFAYGQTGSGKSYTM 62
T+AFD F P+ A+QE V++ + ++D+ GYN +FAYGQTGSGK+YTM
Sbjct: 55 EGTYAFDKVF---GPS----ATQEDVYEETIKPLIDSLLLGYNCTVFAYGQTGSGKTYTM 107
Query: 63 MGSQDNKGIIPRLCDSLFDLIAKQESSELTYKVEVSYMEIYNEKVHDLLDPKANKQSLKV 122
G+++ GIIP LF + S + V +SY+EIYNEK++DLL P N++SL +
Sbjct: 108 SGTEEEPGIIPLSLKELFSKLEDL-SMTKDFAVSISYLEIYNEKIYDLLSP--NEESLNI 164
Query: 123 REHNVLGPYVDGLSQLAVTS 142
RE ++LG V GL++ V+S
Sbjct: 165 REDSLLGVKVAGLTEKHVSS 184
Score = 27.8 bits (62), Expect = 2.3
Identities = 13/64 (20%), Positives = 29/64 (45%), Gaps = 2/64 (3%)
Query: 48 IFAYGQTGSGKSYTMMGSQDNKGIIPRLCDSLFDLIAKQESSELTYKVEVSYMEIYNEKV 107
IFAY Q+ ++ T+ S+ + I+ + F+ + YK + ++ I +++
Sbjct: 385 IFAYMQSLKKETETLK-SRID-LIMKSIISGTFERKKLLKEEGWKYKSTLQFLRIEIDRL 442
Query: 108 HDLL 111
L
Sbjct: 443 LLLR 446
>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 = 126 bits (319), Expect = 4e-36
Identities = 48/140 (34%), Positives = 80/140 (57%), Gaps = 10/140 (7%)
Query: 3 PKTFAFDHCFYSLDPNLPNFASQEKVFDALGRDILDNAFQGYNACIFAYGQTGSGKSYTM 62
++FD F D ++QE+V++ + ++D GYNA +FAYG TG+GK++TM
Sbjct: 53 ELKYSFDRVF---DET----STQEEVYENTTKPLVDGVLNGYNATVFAYGATGAGKTHTM 105
Query: 63 MGSQDNKGIIPRLCDSLFDLIAKQESSELTYKVEVSYMEIYNEKVHDLLDPKANKQSLKV 122
+G+ + G++ LFD I ++ + ++V +SY+EIYNE + DLL P + L++
Sbjct: 106 LGTDSDPGLMVLTMKDLFDKIEER-KDDKEFEVSLSYLEIYNETIRDLLSP--SSGPLEL 162
Query: 123 REHNVLGPYVDGLSQLAVTS 142
RE G V GL++ S
Sbjct: 163 REDPNQGIVVAGLTEHQPKS 182
>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 = 116 bits (293), Expect = 2e-32
Identities = 58/151 (38%), Positives = 90/151 (59%), Gaps = 17/151 (11%)
Query: 5 TFAFDHCFYSLDPNLPNFASQEKVFDALGRDILDNAFQGYNACIFAYGQTGSGKSYTMMG 64
+F FD F++ ASQE+V++ + + ++D+A GYN IFAYGQTG+GK++TM G
Sbjct: 49 SFKFDGVFHN--------ASQEEVYETVAKPVVDSALDGYNGTIFAYGQTGAGKTFTMTG 100
Query: 65 ---SQDNKGIIPRLCDSLFDLIAKQESSELTYKVEVSYMEIYNEKVHDLL-DPKANKQSL 120
S ++G+IPR + +F +A + TY V VSY+EIYNE+++DLL D +SL
Sbjct: 101 GTESYKDRGLIPRALEQVFREVAM--RATKTYTVHVSYLEIYNEQLYDLLGDTPEALESL 158
Query: 121 K---VREHNVLGPYVDGLSQLAVTSFQARAN 148
+ E + +V GLS + T+ + N
Sbjct: 159 PAVTILEDSEQNIHVKGLSLHSATTEEEALN 189
>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 = 113 bits (285), Expect = 5e-31
Identities = 57/153 (37%), Positives = 83/153 (54%), Gaps = 24/153 (15%)
Query: 4 KTFAFDHCFYSLDPNLPNFASQEKVFDALGRDILDNAFQGYNACIFAYGQTGSGKSYTMM 63
KT+ FD F P A Q +V+ + ILD GYN IFAYGQTG+GK+YTM
Sbjct: 48 KTYTFDKVF---GP----EADQIEVYSQVVSPILDEVLMGYNCTIFAYGQTGTGKTYTME 100
Query: 64 GSQ-----------DNKGIIPRLCDSLFDLIAKQESSELTYKVEVSYMEIYNEKVHDLLD 112
G + + GIIPR LF+ K ES Y V+VSY+E+YNE++ DLL
Sbjct: 101 GDRTDNKGSTWELSPHAGIIPRALYQLFE---KLESQNTEYSVKVSYLELYNEELFDLLS 157
Query: 113 PKAN-KQSLKVRE--HNVLGPYVDGLSQLAVTS 142
+++ + L++ + +N G + GL ++ V +
Sbjct: 158 SESDLNKPLRIFDDTNNKGGVVIQGLEEITVNN 190
>gnl|CDD|238664 cd01368, KISc_KIF23_like, Kinesin motor domain, KIF23-like
subgroup. Members of this group may play a role 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 = 345
Score = 110 bits (277), Expect = 7e-30
Identities = 51/145 (35%), Positives = 79/145 (54%), Gaps = 18/145 (12%)
Query: 2 PPKTFAFDHCFYSLDPNLPNFASQEKVFDALGRDILDNAFQGYNACIFAYGQTGSGKSYT 61
F+F F PN +Q++ F+ ++ + +G N+ +F YG T SGK+YT
Sbjct: 53 KETKFSFSKVF---GPN----TTQKEFFEGTALPLVQDLLKGKNSLLFTYGVTNSGKTYT 105
Query: 62 MMGSQDNKGIIPRLCDSLFDLIAKQESSELTYKVEVSYMEIYNEKVHDLLDP----KANK 117
M GS + GI+PR D +F+ I Y V VSY+EIYN ++DLL+ +
Sbjct: 106 MQGSPGDGGILPRSLDVIFNSIGG-------YSVFVSYVEIYNNYIYDLLEDSPSSTKKR 158
Query: 118 QSLKVREHNVLGPYVDGLSQLAVTS 142
QSL++RE + YV GL+++ V+S
Sbjct: 159 QSLRLREDHNGNMYVAGLTEVEVSS 183
>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 = 108 bits (273), Expect = 2e-29
Identities = 48/144 (33%), Positives = 74/144 (51%), Gaps = 19/144 (13%)
Query: 5 TFAFDHCFYSLDPNLPNFASQEKVFDALGRDILDNAFQGYNACIFAYGQTGSGKSYTMMG 64
TF FD+ F N E+V+ + + ++ + F+G A FAYGQTGSGK+YTM+G
Sbjct: 52 TFRFDYVFDEAVTN-------EEVYRSTVKPLIPHVFEGGVATCFAYGQTGSGKTYTMLG 104
Query: 65 SQDNKGIIPRLCDSLFDLIAKQESSELTYKVEVSYMEIYNEKVHDLLDPKANKQSLKVRE 124
++ +G+ +F L+ V VS+ EIY K+ DLL+ +++ L V E
Sbjct: 105 DENQEGLYALAARDIFRLL---AQPNDDLGVTVSFFEIYGGKLFDLLN---DRKRLSVLE 158
Query: 125 ---HNVLGPYVDGLSQLAVTSFQA 145
NV + GL++ VTS
Sbjct: 159 DGKGNV---QIVGLTEKPVTSVDE 179
>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 = 106 bits (265), Expect = 2e-28
Identities = 48/124 (38%), Positives = 70/124 (56%), Gaps = 11/124 (8%)
Query: 23 ASQEKVFDALGRDILDNAFQGYNACIFAYGQTGSGKSYTMMGSQDNKGIIPRLCDSLFDL 82
+QE +F + I+ + G NA +FAYG TG+GK++TM+G + G+IPR L +
Sbjct: 59 CTQEDIFSREVKPIVPHLLSGQNATVFAYGSTGAGKTHTMLGDPNEPGLIPRTLSDLLRM 118
Query: 83 IAKQESSELTYKVEVSYMEIYNEKVHDLLDPKANKQSLKVRE---HNVLGPYVDGLSQLA 139
KQ T +SY EIYNEKV+DLL+P K+ L +RE N+L + GL+
Sbjct: 119 GRKQAW---TGAFSMSYYEIYNEKVYDLLEPA--KKELPIREDKDGNIL---IVGLTSKP 170
Query: 140 VTSF 143
+ S
Sbjct: 171 IKSM 174
>gnl|CDD|215621 PLN03188, PLN03188, kinesin-12 family protein; Provisional.
Length = 1320
Score = 101 bits (254), Expect = 7e-26
Identities = 56/148 (37%), Positives = 87/148 (58%), Gaps = 23/148 (15%)
Query: 4 KTFAFDHCFYSLDPNLPNFASQEKVFDALGRDILDNAFQGYNACIFAYGQTGSGKSYTMM 63
+TF FD DP ++QE +F +G +++N G+N+ +FAYGQTGSGK+YTM
Sbjct: 132 QTFTFDSI---ADPE----STQEDIFQLVGAPLVENCLAGFNSSVFAYGQTGSGKTYTMW 184
Query: 64 G----------SQDNKGIIPRLCDSLFDLI----AKQESSELTYKVEVSYMEIYNEKVHD 109
G S D +G+ PR+ + LF I K +L Y+ S++EIYNE++ D
Sbjct: 185 GPANGLLEEHLSGDQQGLTPRVFERLFARINEEQIKHADRQLKYQCRCSFLEIYNEQITD 244
Query: 110 LLDPKANKQSLKVREHNVLGPYVDGLSQ 137
LLDP ++++L++RE G YV+ L++
Sbjct: 245 LLDP--SQKNLQIREDVKSGVYVENLTE 270
>gnl|CDD|238659 cd01363, Motor_domain, Myosin and Kinesin motor domain. These
ATPases belong to the P-loop NTPase family and provide
the driving force in myosin and kinesin mediated
processes.
Length = 186
Score = 78.3 bits (193), Expect = 6e-19
Identities = 29/53 (54%), Positives = 37/53 (69%)
Query: 36 ILDNAFQGYNACIFAYGQTGSGKSYTMMGSQDNKGIIPRLCDSLFDLIAKQES 88
+L +A GYN CIFAYGQTGSGK+YTM G ++ GIIPR + DL+ K +
Sbjct: 15 LLQSALDGYNVCIFAYGQTGSGKTYTMEGKREGAGIIPRTVTDVIDLMDKGNA 67
>gnl|CDD|222290 pfam13654, AAA_32, AAA domain. This family includes a wide
variety of AAA domains including some that have lost
essential nucleotide binding residues in the P-loop.
Length = 509
Score = 32.8 bits (76), Expect = 0.046
Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 8/51 (15%)
Query: 15 LDPNLPNFASQEKVFDAL--GRDILDNAFQGYNACIFAYGQTGSGKSYTMM 63
L+P L QE+ +AL G I GYN IF G+ G+G++ +
Sbjct: 4 LEP-LDGIIGQERAVEALEFGLGIRH---PGYN--IFVLGEPGTGRTTLVR 48
>gnl|CDD|221970 pfam13191, AAA_16, AAA ATPase domain. This family of domains
contain a P-loop motif that is characteristic of the
AAA superfamily.
Length = 154
Score = 31.8 bits (72), Expect = 0.077
Identities = 10/39 (25%), Positives = 17/39 (43%), Gaps = 1/39 (2%)
Query: 21 NFASQEKVFDALGRDILDNAFQGYNACIFAYGQTGSGKS 59
+E+ + L D L A G + G +G+GK+
Sbjct: 1 RLVGREEELERL-LDALRRARSGGPPSVLLTGPSGTGKT 38
>gnl|CDD|191413 pfam05970, PIF1, PIF1-like helicase. This family includes
homologues of the PIF1 helicase, which inhibits
telomerase activity and is cell cycle regulated. This
family includes a large number of largely
uncharacterized plant proteins. This family includes a
P-loop motif that is involved in nucleotide binding.
Length = 364
Score = 31.6 bits (72), Expect = 0.13
Identities = 12/38 (31%), Positives = 18/38 (47%), Gaps = 4/38 (10%)
Query: 23 ASQEKVFDALGRDILDNAFQGYNACIFAYGQTGSGKSY 60
Q+ VFD I+++ F YG G+GK+Y
Sbjct: 4 DEQKSVFDQ----IIESVDNNLGGVFFVYGYGGTGKTY 37
>gnl|CDD|221803 pfam12846, AAA_10, AAA-like domain. This family of domains contain
a P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins.
Length = 316
Score = 31.2 bits (71), Expect = 0.14
Identities = 23/112 (20%), Positives = 39/112 (34%), Gaps = 11/112 (9%)
Query: 45 NACIFAYGQTGSGKSYTMMGSQDNKGIIPRLCDSLFDLIA---KQESSELTYKVEVSYME 101
N + G +GSGKS + K + RL +I K E S L + ++
Sbjct: 1 NPNMLIVGPSGSGKSTLL------KLLALRLLARGGRVIVIDPKGEYSGLARALGGEVID 54
Query: 102 IYNEKVH--DLLDPKANKQSLKVREHNVLGPYVDGLSQLAVTSFQARANPTP 151
+ + LD + + E + +D L L + + TP
Sbjct: 55 LGPGSGISLNPLDIFPTGEDAEELEADAHARKLDLLLALLELAALLGRDLTP 106
>gnl|CDD|172540 PRK14048, PRK14048, ferrichrome/ferrioxamine B periplasmic
transporter; Provisional.
Length = 374
Score = 31.0 bits (70), Expect = 0.19
Identities = 15/43 (34%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 33 GRDILDNAFQGYNACIFAYGQTGSGKSYTMMGSQD-NKGIIPR 74
G +L AF + C +AYG+ G G+ + GS++ +G +PR
Sbjct: 206 GPTVLMEAFPAADRCCWAYGRGGLGEFIALTGSRNIAEGALPR 248
>gnl|CDD|227204 COG4867, COG4867, Uncharacterized protein with a von Willebrand
factor type A (vWA) domain [General function prediction
only].
Length = 652
Score = 29.9 bits (67), Expect = 0.45
Identities = 28/111 (25%), Positives = 46/111 (41%), Gaps = 22/111 (19%)
Query: 26 EKVFDALGRDILDNAFQGYNACIFAYGQTGSGKSYTMMG-SQDNKGIIPRLCDSLFDLIA 84
E++ D LGR++LD F +G + G + D++ + + D L DL+
Sbjct: 150 EQIKDLLGRELLDQRF--------------AGMKQALAGATDDDRRRVTEMLDDLNDLLD 195
Query: 85 KQESSELTYKVEVSYMEIYNE-------KVHDLLDPKANKQSLKVREHNVL 128
K E T + +M + E V +LLD A + + R N L
Sbjct: 196 KHARGEDTQRDFDEFMTKHGEFFPENPRNVEELLDSLAARAAAASRFRNSL 246
>gnl|CDD|216796 pfam01935, DUF87, Domain of unknown function DUF87. The function
of this prokaryotic domain is unknown. It contains
several conserved aspartates and histidines that could
be metal ligands.
Length = 218
Score = 29.2 bits (66), Expect = 0.75
Identities = 8/12 (66%), Positives = 9/12 (75%)
Query: 51 YGQTGSGKSYTM 62
G TGSGKS T+
Sbjct: 29 LGSTGSGKSNTV 40
>gnl|CDD|233994 TIGR02746, TraC-F-type, type-IV secretion system protein TraC. The
protein family described here is common among the F, P
and I-like type IV secretion systems. Gene symbols
include TraC (F-type), TrbE/VirB4 (P-type) and TraU
(I-type). The protein conyains the Walker A and B motifs
and so is a putative nucleotide triphosphatase.
Length = 797
Score = 27.7 bits (62), Expect = 3.3
Identities = 10/28 (35%), Positives = 15/28 (53%), Gaps = 2/28 (7%)
Query: 35 DILDNAFQGYNACIFAYGQTGSGKSYTM 62
D D+ YN + G +G+GKS+ M
Sbjct: 422 DPFDSDSTNYNIAVV--GGSGAGKSFFM 447
>gnl|CDD|234063 TIGR02928, TIGR02928, orc1/cdc6 family replication initiation
protein. Members of this protein family are found
exclusively in the archaea. This set of DNA binding
proteins shows homology to the origin recognition
complex subunit 1/cell division control protein 6
family in eukaryotes. Several members may be found in
genome and interact with each other [DNA metabolism,
DNA replication, recombination, and repair].
Length = 365
Score = 27.2 bits (61), Expect = 3.5
Identities = 7/12 (58%), Positives = 11/12 (91%)
Query: 48 IFAYGQTGSGKS 59
+F YG+TG+GK+
Sbjct: 43 VFIYGKTGTGKT 54
>gnl|CDD|233177 TIGR00901, 2A0125, AmpG-like permease. [Cellular processes,
Adaptations to atypical conditions].
Length = 356
Score = 27.4 bits (61), Expect = 3.7
Identities = 10/32 (31%), Positives = 16/32 (50%)
Query: 23 ASQEKVFDALGRDILDNAFQGYNACIFAYGQT 54
A+Q+ DA +IL + GY + I+ G
Sbjct: 98 ATQDIALDAWRLEILSDEELGYGSTIYIVGYR 129
>gnl|CDD|235395 PRK05298, PRK05298, excinuclease ABC subunit B; Provisional.
Length = 652
Score = 27.3 bits (62), Expect = 3.9
Identities = 8/11 (72%), Positives = 10/11 (90%)
Query: 52 GQTGSGKSYTM 62
G TGSGK++TM
Sbjct: 39 GVTGSGKTFTM 49
>gnl|CDD|215832 pfam00270, DEAD, DEAD/DEAH box helicase. Members of this family
include the DEAD and DEAH box helicases. Helicases are
involved in unwinding nucleic acids. The DEAD box
helicases are involved in various aspects of RNA
metabolism, including nuclear transcription, pre mRNA
splicing, ribosome biogenesis, nucleocytoplasmic
transport, translation, RNA decay and organellar gene
expression.
Length = 169
Score = 26.8 bits (60), Expect = 4.1
Identities = 10/37 (27%), Positives = 15/37 (40%), Gaps = 14/37 (37%)
Query: 25 QEKVFDAL--GRDILDNAFQGYNACIFAYGQTGSGKS 59
Q + A+ G+D+L TGSGK+
Sbjct: 4 QAQAIPAILSGKDVL------------VQAPTGSGKT 28
>gnl|CDD|218717 pfam05724, TPMT, Thiopurine S-methyltransferase (TPMT). This
family consists of thiopurine S-methyltransferase
proteins from both eukaryotes and prokaryotes.
Thiopurine S-methyltransferase (TPMT) is a cytosolic
enzyme that catalyzes S-methylation of aromatic and
heterocyclic sulfhydryl compounds, including anticancer
and immunosuppressive thiopurines.
Length = 203
Score = 26.6 bits (59), Expect = 4.3
Identities = 12/29 (41%), Positives = 18/29 (62%), Gaps = 3/29 (10%)
Query: 123 REHNVLGPYVDGLSQLAVTSFQARANPTP 151
+ H V+G V+ +S+LAV F A A +P
Sbjct: 43 QGHFVVG--VE-ISELAVEKFFAEAGLSP 68
>gnl|CDD|183521 PRK12422, PRK12422, chromosomal replication initiation protein;
Provisional.
Length = 445
Score = 27.1 bits (60), Expect = 4.3
Identities = 17/69 (24%), Positives = 27/69 (39%), Gaps = 11/69 (15%)
Query: 4 KTFAFDHCFYSLDPNL--PNFASQEK-------VFDALGRDILDNAFQGYNACIFAYGQT 54
KT F + LDP + NF + + + F +N I+ +G
Sbjct: 93 KTAYFTMKYGELDPLMTFANFLVTPENDLPHRILQEFTKVSEQGKGFP-FNP-IYLFGPE 150
Query: 55 GSGKSYTMM 63
GSGK++ M
Sbjct: 151 GSGKTHLMQ 159
>gnl|CDD|234340 TIGR03744, traC_PFL_4706, conjugative transfer ATPase, PFL_4706
family. Members of this protein family are predicted
ATP-binding proteins apparently associated with DNA
conjugal transfer. Members are found both in plasmids
and in bacterial chromosomal regions that appear to
derive from integrative elements such as conjugative
transposons. More distant homologs, outside the scope of
this family, include type IV secretion/conjugal transfer
proteins such as TraC, VirB4 and TrsE. The granularity
of this protein family definition is chosen so as to
represent one distinctive clade and act as a marker
through which to define and recognize the class of
mobile element it serves [Mobile and extrachromosomal
element functions, Plasmid functions].
Length = 893
Score = 26.9 bits (60), Expect = 4.9
Identities = 14/35 (40%), Positives = 18/35 (51%), Gaps = 5/35 (14%)
Query: 28 VFDALGRDILDNAFQGYNACIFAYGQTGSGKSYTM 62
FD L + LD NA + G TG+GKS T+
Sbjct: 463 TFDPLNK--LDRK---KNAHLLILGPTGAGKSATL 492
>gnl|CDD|233932 TIGR02566, cas_Csy3, CRISPR type I-F/YPEST-associated protein Csy3.
CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) is a widespread family of
prokaryotic direct repeats with spacers of unique
sequence between consecutive repeats. This protein
family, typified by YPO2463 of Yersinia pestis, is a
CRISPR-associated (Cas) family strictly associated with
the Ypest subtype of CRISPR/Cas locus. This family is
designated Csy3, for CRISPR/Cas Subtype Ypest protein 3
[Mobile and extrachromosomal element functions, Other].
Length = 341
Score = 26.7 bits (59), Expect = 5.2
Identities = 16/58 (27%), Positives = 22/58 (37%), Gaps = 7/58 (12%)
Query: 3 PKTFAFDHCFYSLDPNLPNFASQEKVFDALGRDILDNAFQGYNACIF---AYGQTGSG 57
+ FD ++ NL FA K DAL + I I AY + G+G
Sbjct: 166 KAIWPFD----AIRFNLRGFAQPSKDLDALAKLIAQGLSGENGFAILEVTAYVRLGTG 219
>gnl|CDD|187808 cd09677, Csy3_I-F, CRISPR/Cas system-associated RAMP superfamily
protein Csy3. CRISPR (Clustered Regularly Interspaced
Short Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
RAMP superfamily protein; predicted Cas7 ortholog.
Length = 339
Score = 26.7 bits (59), Expect = 5.6
Identities = 16/58 (27%), Positives = 22/58 (37%), Gaps = 7/58 (12%)
Query: 3 PKTFAFDHCFYSLDPNLPNFASQEKVFDALGRDILDNAFQGYNACIF---AYGQTGSG 57
+ FD ++ NL FA K DAL + I I AY + G+G
Sbjct: 166 KAIWPFD----AIRFNLRGFAQPSKDLDALAKLIAQGLSGENGFAILEVTAYVRLGTG 219
>gnl|CDD|221366 pfam11996, DUF3491, Protein of unknown function (DUF3491). This
family of proteins is functionally uncharacterized. This
protein is found in bacteria. Proteins in this family
are typically between 286 to 3225 amino acids in length.
This protein is found associated with pfam04488. This
protein is found associated with pfam04488.
Length = 934
Score = 26.6 bits (59), Expect = 6.2
Identities = 24/94 (25%), Positives = 34/94 (36%), Gaps = 25/94 (26%)
Query: 31 ALGRDIL----DNAFQGYNACIFAYGQTGSGKSYTMMGSQDNKGIIPRLCDSLFDLIAKQ 86
+ G D L D F Y +G G Y+ G N IP+L +L +++K
Sbjct: 137 SEGYDTLTGNKDTKF---------YLSSGGGTIYS--GGGKNWYHIPKLKGNLTIILSKN 185
Query: 87 ESSELTYKVEVSYMEIYNEKVHDLLDPKANKQSL 120
+ E+ E L P AN SL
Sbjct: 186 STEH----------ELLLEDNSAELKPVANNLSL 209
>gnl|CDD|225364 COG2805, PilT, Tfp pilus assembly protein, pilus retraction ATPase
PilT [Cell motility and secretion / Intracellular
trafficking and secretion].
Length = 353
Score = 26.5 bits (59), Expect = 6.3
Identities = 12/35 (34%), Positives = 16/35 (45%), Gaps = 1/35 (2%)
Query: 29 FDALG-RDILDNAFQGYNACIFAYGQTGSGKSYTM 62
+ LG I+ + I G TGSGKS T+
Sbjct: 108 LEELGLPPIVRELAESPRGLILVTGPTGSGKSTTL 142
>gnl|CDD|223630 COG0556, UvrB, Helicase subunit of the DNA excision repair
complex [DNA replication, recombination, and repair].
Length = 663
Score = 26.4 bits (59), Expect = 7.2
Identities = 8/11 (72%), Positives = 10/11 (90%)
Query: 52 GQTGSGKSYTM 62
G TGSGK++TM
Sbjct: 39 GVTGSGKTFTM 49
>gnl|CDD|188111 TIGR01132, pgm, phosphoglucomutase, alpha-D-glucose
phosphate-specific. This enzyme interconverts
alpha-D-glucose-1-P and alpha-D-glucose-6-P [Energy
metabolism, Sugars].
Length = 544
Score = 26.0 bits (57), Expect = 9.9
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 111 LDPKANKQSLKVREHNVLGPYVDGL 135
L S V+ H+++ PYVDGL
Sbjct: 191 LPLAQALASGTVKAHDLVQPYVDGL 215
>gnl|CDD|223666 COG0593, DnaA, ATPase involved in DNA replication initiation [DNA
replication, recombination, and repair].
Length = 408
Score = 26.1 bits (58), Expect = 9.9
Identities = 10/32 (31%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 31 ALGRDILDNAFQGYNACIFAYGQTGSGKSYTM 62
A + + +N YN +F YG G GK++ +
Sbjct: 100 AAAKAVAENPGGAYNP-LFIYGGVGLGKTHLL 130
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
0.317 0.135 0.398
Gapped
Lambda K H
0.267 0.0643 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,478,699
Number of extensions: 641551
Number of successful extensions: 705
Number of sequences better than 10.0: 1
Number of HSP's gapped: 667
Number of HSP's successfully gapped: 51
Length of query: 151
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 63
Effective length of database: 7,034,450
Effective search space: 443170350
Effective search space used: 443170350
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: 41 (21.7 bits)
S2: 54 (24.8 bits)