RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7270
(459 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 = 566 bits (1462), Expect = 0.0
Identities = 230/363 (63%), Positives = 280/363 (77%), Gaps = 28/363 (7%)
Query: 2 SSVKVAVRVRPFNNREISRDCKSIIEMTGNTTVIINPKLPPESKDTHKNFNFDYSYYSHD 61
++VKVAVRVRPFN+RE +R K I++M G T + NPK ++ K+F+FD+SY+SHD
Sbjct: 1 ANVKVAVRVRPFNSREKNRGSKCIVQMPGKVTTLKNPKAADATRKKPKSFSFDHSYWSHD 60
Query: 62 PSASNFATQAMVYSDIGEEMLEHAFEGYNVCIFAYGQTGAGKSYTMMGRQEVEGEEGIIP 121
++A+Q V+ D+G E+L+HAFEGYNVC+FAYGQTG+GKSYTMMG +E E+GIIP
Sbjct: 61 SEDPHYASQEDVFEDLGRELLDHAFEGYNVCLFAYGQTGSGKSYTMMGYKE---EKGIIP 117
Query: 122 MICQDLFKRIKDTTNDKL---------------------KSRWKNSNLRVREHPLLGPYV 160
+C++LF+RI+ L + NL+VREHP+LGPYV
Sbjct: 118 RLCEELFQRIESKKEQNLSYEVEVSYMEIYNEKVRDLLNPKKKNKGNLKVREHPVLGPYV 177
Query: 161 EDLSKLAVTCYRDIHDLIDEGNKARTVAATNMNETSSRSHAVFTIFFTQQAVDDMTDLTT 220
EDLSK+AVT Y DI +L++EGNK+RT A+TNMN+TSSRSHAVFTI TQ+ +D TDLTT
Sbjct: 178 EDLSKVAVTSYEDIQNLLEEGNKSRTTASTNMNDTSSRSHAVFTIVLTQKKLDKETDLTT 237
Query: 221 EKVSKISLVDLAGSERADSTGAKGTRLKEGANINKSLTTLGKVISALAEISAVQHVAKKK 280
EKVSKISLVDLAGSERA STGA+G RLKEG+NINKSLTTLGKVISALA+ S+ AK K
Sbjct: 238 EKVSKISLVDLAGSERASSTGAEGDRLKEGSNINKSLTTLGKVISALADNSS----AKSK 293
Query: 281 KKADFIPYRDSVLTWLLRENLGGNSKTAMIAAISPADINYDETLSTLRYADRAKQIVCKA 340
KK+ FIPYRDSVLTWLL+ENLGGNSKTAMIA ISPADINY+ETLSTLRYADRAK+IV A
Sbjct: 294 KKSSFIPYRDSVLTWLLKENLGGNSKTAMIATISPADINYEETLSTLRYADRAKKIVNVA 353
Query: 341 IVN 343
+VN
Sbjct: 354 VVN 356
>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 = 412 bits (1062), Expect = e-143
Identities = 156/362 (43%), Positives = 215/362 (59%), Gaps = 48/362 (13%)
Query: 3 SVKVAVRVRPFNNREISRDCKSIIEMTGNT--TVIINPKLPPESKDTHKNFNFDYSYYSH 60
+++V VRVRP N RE SR S++ T+ + P+++ K F FD +
Sbjct: 1 NIRVVVRVRPLNKREKSRKSPSVVPFPDKVGKTLTVRS---PKNRQGEKKFTFDKVF--- 54
Query: 61 DPSASNFATQAMVYSDIGEEMLEHAFEGYNVCIFAYGQTGAGKSYTMMGRQEVEGEEGII 120
D +A +Q V+ + +++ EGYN IFAYGQTG+GK+YTM+G GII
Sbjct: 55 DATA----SQEDVFEETAAPLVDSVLEGYNATIFAYGQTGSGKTYTMIG---TPDSPGII 107
Query: 121 PMICQDLFKRIKDTTNDK-------------------LKSRWKNSNLRVREHPLLGPYVE 161
P +DLF++I L + L +RE G YV+
Sbjct: 108 PRALKDLFEKIDKREEGWQFSVKVSYLEIYNEKIRDLLNPS--SKKLEIREDEKGGVYVK 165
Query: 162 DLSKLAVTCYRDIHDLIDEGNKARTVAATNMNETSSRSHAVFTIFFTQQAVDDMTDLTTE 221
L++++V+ + ++++L+++GNK RTVAAT MNE SSRSHAVFTI Q+ + + +
Sbjct: 166 GLTEISVSSFEEVYNLLEKGNKNRTVAATKMNEESSRSHAVFTITVEQKIKNSSSG--SG 223
Query: 222 KVSKISLVDLAGSERADSTGAKGTRLKEGANINKSLTTLGKVISALAEISAVQHVAKKKK 281
K SK++LVDLAGSERA TGA+G RLKE NINKSL+ LG VI+ALA+ S
Sbjct: 224 KASKLNLVDLAGSERAKKTGAEGDRLKEAGNINKSLSALGNVINALAQHS---------- 273
Query: 282 KADFIPYRDSVLTWLLRENLGGNSKTAMIAAISPADINYDETLSTLRYADRAKQIVCKAI 341
K+ IPYRDS LT LL+++LGGNSKT MIA +SP+ N +ETLSTLR+A RAK+I K I
Sbjct: 274 KSRHIPYRDSKLTRLLQDSLGGNSKTLMIANVSPSSSNLEETLSTLRFASRAKEIKNKPI 333
Query: 342 VN 343
VN
Sbjct: 334 VN 335
>gnl|CDD|215803 pfam00225, Kinesin, Kinesin motor domain.
Length = 326
Score = 392 bits (1009), Expect = e-135
Identities = 163/349 (46%), Positives = 204/349 (58%), Gaps = 44/349 (12%)
Query: 9 RVRPFNNREISRDCKSIIEMTGNTTVIINPKLPPESKDTHKNFNFDYSYYSHDPSASNFA 68
RVRP N RE SR I+ + T + +K K F FD + A
Sbjct: 1 RVRPLNEREKSRGSSDIVNVD-ETDSEDKESVVITNKGREKTFTFDRVFDPE-------A 52
Query: 69 TQAMVYSDIGEEMLEHAFEGYNVCIFAYGQTGAGKSYTMMGRQEVEGEEGIIPMICQDLF 128
TQ VY + + ++E EGYNV IFAYGQTG+GK+YTM G E E GIIP +DLF
Sbjct: 53 TQEFVYEETAKPLVESVLEGYNVTIFAYGQTGSGKTYTMEGD-PPEEEPGIIPRALEDLF 111
Query: 129 KRIKDTTNDK--------------------LKSRWKNSNLRVREHPLLGPYVEDLSKLAV 168
+RI++ K L K LR+RE P G YV+ L+++ V
Sbjct: 112 ERIEERKERKWSFSVRVSYLEIYNEKIYDLLSPSSKKKKLRIREDPKKGVYVKGLTEVEV 171
Query: 169 TCYRDIHDLIDEGNKARTVAATNMNETSSRSHAVFTIFFTQQAVDDMTDLTTEKVSKISL 228
T ++ +L++ GNK RTVA+TNMNE SSRSHA+FTI Q+ D + K K++L
Sbjct: 172 TSAEEVLELLELGNKNRTVASTNMNEESSRSHAIFTITVEQRNRDTDG---SVKTGKLNL 228
Query: 229 VDLAGSERADSTG-AKGTRLKEGANINKSLTTLGKVISALAEISAVQHVAKKKKKADFIP 287
VDLAGSERA TG A G RLKE ANINKSL+ LG VI+ALAE ++ IP
Sbjct: 229 VDLAGSERASKTGAAGGRRLKEAANINKSLSALGNVINALAE-----------NQSSHIP 277
Query: 288 YRDSVLTWLLRENLGGNSKTAMIAAISPADINYDETLSTLRYADRAKQI 336
YRDS LT LL+++LGGNSKT MIA ISP+D NY+ETLSTLR+A RAK I
Sbjct: 278 YRDSKLTRLLQDSLGGNSKTLMIANISPSDSNYEETLSTLRFASRAKNI 326
>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 = 382 bits (983), Expect = e-131
Identities = 156/352 (44%), Positives = 200/352 (56%), Gaps = 44/352 (12%)
Query: 3 SVKVAVRVRPFNNREISRDCKSIIEMTGNTTVIINPKLPPESKDTHKNFNFDYSYYSHDP 62
+++V VR+RP N RE S+ +S I + N TV + P K K+F FD+ + +
Sbjct: 1 NIRVVVRIRPLNGRE-SKSEESCITVDDNKTVTLTPP-KDGRKAGPKSFTFDHVFDPN-- 56
Query: 63 SASNFATQAMVYSDIGEEMLEHAFEGYNVCIFAYGQTGAGKSYTMMGRQEVEGEEGIIPM 122
+TQ VY + ++E EGYN IFAYGQTG+GK+YTM G + GIIP
Sbjct: 57 -----STQEDVYETTAKPLVESVLEGYNGTIFAYGQTGSGKTYTMFG---SPKDPGIIPR 108
Query: 123 ICQDLFKRIK--------------------DTTNDKLKSRWKNSNLRVREHPLLGPYVED 162
+DLF I + D L + L +RE P G YV+
Sbjct: 109 ALEDLFNLIDERKEKNKSFSVSVSYLEIYNEKVYDLLSPEPPSKPLSLREDPKGGVYVKG 168
Query: 163 LSKLAVTCYRDIHDLIDEGNKARTVAATNMNETSSRSHAVFTIFFTQQAVDDMTDLTTEK 222
L+++ V D L+ +G K RT A+T MNE SSRSHA+FTI Q + D + K
Sbjct: 169 LTEVEVGSAEDALSLLQKGLKNRTTASTAMNERSSRSHAIFTIHVEQ--RNTTNDGRSIK 226
Query: 223 VSKISLVDLAGSERADSTGAKGTRLKEGANINKSLTTLGKVISALAEISAVQHVAKKKKK 282
SK++LVDLAGSERA TGA+G RLKE NINKSL+ LG VISAL+ +K
Sbjct: 227 SSKLNLVDLAGSERAKKTGAEGDRLKEAKNINKSLSALGNVISALS----------SGQK 276
Query: 283 ADFIPYRDSVLTWLLRENLGGNSKTAMIAAISPADINYDETLSTLRYADRAK 334
IPYRDS LT LL+++LGGNSKT MIA ISP+ NYDETLSTLR+A RAK
Sbjct: 277 KKHIPYRDSKLTRLLQDSLGGNSKTLMIANISPSSENYDETLSTLRFASRAK 328
>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 = 324 bits (833), Expect = e-109
Identities = 155/355 (43%), Positives = 196/355 (55%), Gaps = 44/355 (12%)
Query: 3 SVKVAVRVRPFNNREISRDCKSIIEMTGNTTVII--NPKLPPESKDTHKNFNFDYSYYSH 60
+VKV VR RP N RE S I+ + N + NPK ++K+ K F FD Y
Sbjct: 2 NVKVVVRCRPLNKREKSEGAPEIVGVDENRGQVTVHNPK--ADAKEPPKVFTFDAVY--- 56
Query: 61 DPSASNFATQAMVYSDIGEEMLEHAFEGYNVCIFAYGQTGAGKSYTMMGRQEVEGEEGII 120
DP++ TQ VY++ +++ EGYN IFAYGQTG GK++TM G +E GII
Sbjct: 57 DPNS----TQEDVYNETARPLVDSVLEGYNGTIFAYGQTGTGKTFTMEGVREPPELRGII 112
Query: 121 PMICQDLFKRIKDTTNDKLKSR---------------WKNSN--LRVREHPLLGPYVEDL 163
P +F I N + R K+ L ++E P G YV+DL
Sbjct: 113 PNSFAHIFGHIAKAENVQFLVRVSYLEIYNEEVRDLLGKDQKKKLELKERPDRGVYVKDL 172
Query: 164 SKLAVTCYRDIHDLIDEGNKARTVAATNMNETSSRSHAVFTIFFTQQAVDDMTDLTTE-- 221
S V ++ L+ GNK R+V ATNMNE SSRSH++FTI + +
Sbjct: 173 SMFVVKNAEEMDKLMTLGNKNRSVGATNMNEDSSRSHSIFTITIECS---EKGEDGENHI 229
Query: 222 KVSKISLVDLAGSERADSTGAKGTRLKEGANINKSLTTLGKVISALAEISAVQHVAKKKK 281
+V K++LVDLAGSER TGA G RLKE IN SL+ LG VISAL +
Sbjct: 230 RVGKLNLVDLAGSERQSKTGATGDRLKEATKINLSLSALGNVISALVD-----------G 278
Query: 282 KADFIPYRDSVLTWLLRENLGGNSKTAMIAAISPADINYDETLSTLRYADRAKQI 336
K+ IPYRDS LT LL+++LGGNSKT M A I PAD NYDETLSTLRYA+RAK I
Sbjct: 279 KSTHIPYRDSKLTRLLQDSLGGNSKTVMCANIGPADYNYDETLSTLRYANRAKNI 333
>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 = 315 bits (809), Expect = e-105
Identities = 139/365 (38%), Positives = 194/365 (53%), Gaps = 55/365 (15%)
Query: 2 SSVKVAVRVRPFNNREISRDCKSIIEMTGNTT-VIINPKLPPESKDTHKNFNFDYSYYSH 60
SSV+VAVRVRP +E+ C+ + + V + T K+F FDY +
Sbjct: 1 SSVRVAVRVRPLLPKELLEGCQVCVSVVPGEPQVTVG---------TDKSFTFDYVF--- 48
Query: 61 DPSASNFATQAMVYSDIGEEMLEHAFEGYNVCIFAYGQTGAGKSYTMMG---RQEVEGEE 117
DPS +Q VY+ +++ FEGYN + AYGQTG+GK+YTM E E E
Sbjct: 49 DPST----SQEEVYNTCVAPLVDGLFEGYNATVLAYGQTGSGKTYTMGTAFTASEDEEEV 104
Query: 118 GIIPMICQDLFKRIKDTTNDK--------------------LKSRWKNSNLRVREHPLLG 157
GIIP Q +FK+I + ++ S + S +++RE
Sbjct: 105 GIIPRAIQHIFKKIDEKKDEPDFQLKVSFLELYNEEVRDLLSPSTSEKSPIQIREDSKGN 164
Query: 158 PYVEDLSKLAVTCYRDIHDLIDEGNKARTVAATNMNETSSRSHAVFTIFFTQQAVDDMTD 217
+ L+++ V +++ +++G+ +RT A+T MN SSRSHA+FTI Q +
Sbjct: 165 IIIVGLTEVTVNSAQEVMSCLEQGSLSRTTASTAMNSQSSRSHAIFTITLEQTRKNGPIA 224
Query: 218 LTTEK------VSKISLVDLAGSERADSTGAKGTRLKEGANINKSLTTLGKVISALAEIS 271
+ SK VDLAGSER TGA G RLKEG +IN L LG VISAL
Sbjct: 225 PMSGDDKNSTLTSKFHFVDLAGSERLKKTGATGDRLKEGISINSGLLALGNVISALG--- 281
Query: 272 AVQHVAKKKKKADFIPYRDSVLTWLLRENLGGNSKTAMIAAISPADINYDETLSTLRYAD 331
+ KK +PYRDS LT LL+++LGGNS T MIA +SPAD N++ETL+TL+YA+
Sbjct: 282 ------DESKKGSHVPYRDSKLTRLLQDSLGGNSHTLMIACVSPADSNFEETLNTLKYAN 335
Query: 332 RAKQI 336
RA+ I
Sbjct: 336 RARNI 340
>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 = 313 bits (805), Expect = e-104
Identities = 137/355 (38%), Positives = 191/355 (53%), Gaps = 49/355 (13%)
Query: 1 MSSVKVAVRVRPFNNREISRDCKSIIEMTGNTTVIINPKLPPESKDTHKNFNFDYSYYSH 60
++KV R RP N +E R KSI++ G TV I D K F+FD + +
Sbjct: 1 ECNIKVVCRFRPLNEKEELRGSKSIVKFPGEDTVSIA------GSDDGKTFSFDRVFPPN 54
Query: 61 DPSASNFATQAMVYSDIGEEMLEHAFEGYNVCIFAYGQTGAGKSYTMMGRQEVEGEEGII 120
TQ VY+ + + +++ GYN IFAYGQTG+GK+YTM G +GII
Sbjct: 55 -------TTQEDVYNFVAKPIVDDVLNGYNGTIFAYGQTGSGKTYTMEGPPGDPELKGII 107
Query: 121 PMICQDLFKRIKDTT---------------NDKLKSRW--KNSNLRVREHPLLGPYVEDL 163
P I D+F+ I +K++ NL+V E G YV+ L
Sbjct: 108 PRIVHDIFEHISSMDENLEFHVKVSYLEIYMEKIRDLLDVSKDNLQVHEDKNRGVYVKGL 167
Query: 164 SKLAVTCYRDIHDLIDEGNKARTVAATNMNETSSRSHAVFTIFFTQQAVDDMTDLTTE-- 221
++ V+ ++ ++I+EG R VA+TNMNE SSRSH++F I Q+ ++ T
Sbjct: 168 TERFVSSPEEVLEVINEGKSNRAVASTNMNEESSRSHSIFLITLKQE------NVETGSK 221
Query: 222 KVSKISLVDLAGSERADSTGAKGTRLKEGANINKSLTTLGKVISALAEISAVQHVAKKKK 281
K K+ LVDLAGSE+ TGA+G L+E INKSL+ LG VI+AL +
Sbjct: 222 KRGKLFLVDLAGSEKVSKTGAEGQTLEEAKKINKSLSALGNVINALTD-----------G 270
Query: 282 KADFIPYRDSVLTWLLRENLGGNSKTAMIAAISPADINYDETLSTLRYADRAKQI 336
K+ IPYRDS LT +L+++LGGNS+T +I SP+ N ETLSTLR+ RAK I
Sbjct: 271 KSTHIPYRDSKLTRILQDSLGGNSRTTLIICCSPSSYNESETLSTLRFGARAKTI 325
>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 = 299 bits (768), Expect = 6e-99
Identities = 130/356 (36%), Positives = 181/356 (50%), Gaps = 56/356 (15%)
Query: 6 VAVRVRPFNNREISRDCK--SIIEMTGNTTVIINPKLPPESKDTHKNFNFDYSYYSHDPS 63
V RVRP E + S + G T + K+F+FD + DP
Sbjct: 6 VFCRVRPLLPSESTEYSSVISFPDEDGGTIELSKGTGKK------KSFSFDRVF---DPD 56
Query: 64 ASNFATQAMVYSDIGEEMLEHAFEGYNVCIFAYGQTGAGKSYTMMGRQEVEGEEGIIPMI 123
AS Q V+ ++ +++ A +GYNVCIFAYGQTG+GK+YTM G E GIIP
Sbjct: 57 AS----QEDVFEEV-SPLVQSALDGYNVCIFAYGQTGSGKTYTMEGPPE---NPGIIPRA 108
Query: 124 CQDLFKRIKDTT----------------NDKL-----KSRWKNSNLRVREHPLLGPYVED 162
+ LF ++ N+ + L ++ YV +
Sbjct: 109 LEQLFNTAEELKEKGWSYTITASMLEIYNETIRDLLATKPAPKKKLEIKHDSKGETYVTN 168
Query: 163 LSKLAVTCYRDIHDLIDEGNKARTVAATNMNETSSRSHAVFTIFFTQQAVDDMTDLTTEK 222
L+++ V+ ++ L++ G+K R+VA+TNMNE SSRSHAVF + + T T
Sbjct: 169 LTEVPVSSPEEVTRLLNLGSKNRSVASTNMNEHSSRSHAVFQLKIR--GTNLQTGEQT-- 224
Query: 223 VSKISLVDLAGSERADSTGAKGTRLKEGANINKSLTTLGKVISALAEISAVQHVAKKKKK 282
K++LVDLAGSER +GA G RLKE INKSL+ LG VISAL K
Sbjct: 225 RGKLNLVDLAGSERLKKSGATGDRLKEAQAINKSLSALGDVISALR------------SK 272
Query: 283 ADFIPYRDSVLTWLLRENLGGNSKTAMIAAISPADINYDETLSTLRYADRAKQIVC 338
+PYR+S LT+LL+++LGGNSKT M ISP + N ETL +LR+A R + +
Sbjct: 273 DSHVPYRNSKLTYLLQDSLGGNSKTLMFVNISPLESNLSETLCSLRFASRVRSVEL 328
>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 = 296 bits (759), Expect = 1e-97
Identities = 134/355 (37%), Positives = 196/355 (55%), Gaps = 38/355 (10%)
Query: 3 SVKVAVRVRPFNNREISRDCKSIIEMTGNTTVIINPKL-PPESKDTHKNFNFDYSYYSHD 61
S+ VAVRVRPFN +E + ++++ + ++ +PK ++ N + Y S D
Sbjct: 1 SLTVAVRVRPFNEKEKQEGTRRVVKVVDDRMLVFDPKDEEDAFRNLRARRNKELKY-SFD 59
Query: 62 PSASNFATQAMVYSDIGEEMLEHAFEGYNVCIFAYGQTGAGKSYTMMGRQEVEGEEGIIP 121
+TQ VY + + +++ GYN +FAYG TGAGK++TM+G + G++
Sbjct: 60 RVFDETSTQEEVYENTTKPLVDGVLNGYNATVFAYGATGAGKTHTMLGTDS---DPGLMV 116
Query: 122 MICQDLFKRIKDTTNDK-------------------LKSRWKNSNLRVREHPLLGPYVED 162
+ +DLF +I++ +DK L + L +RE P G V
Sbjct: 117 LTMKDLFDKIEERKDDKEFEVSLSYLEIYNETIRDLLSP--SSGPLELREDPNQGIVVAG 174
Query: 163 LSKLAVTCYRDIHDLIDEGNKARTVAATNMNETSSRSHAVFTIFFTQQA-VDDMTDLTTE 221
L++ +I +L+ +GN+ RT T N TSSRSHAV I Q+ +
Sbjct: 175 LTEHQPKSAEEILELLMKGNRNRTQEPTEANATSSRSHAVLQITVRQKDRTASINQ--QV 232
Query: 222 KVSKISLVDLAGSERADSTGAKGTRLKEGANINKSLTTLGKVISALAEISAVQHVAKKKK 281
++ K+SL+DLAGSERA +T +G RLKEGANIN+SL LG I+AL + KK
Sbjct: 233 RIGKLSLIDLAGSERASATNNRGQRLKEGANINRSLLALGNCINALVD---------GKK 283
Query: 282 KADFIPYRDSVLTWLLRENLGGNSKTAMIAAISPADINYDETLSTLRYADRAKQI 336
K IPYRDS LT LL+++LGGN KT MIA ISP+ +Y+ET +TL+YA+RAK I
Sbjct: 284 KNKHIPYRDSKLTRLLKDSLGGNCKTVMIANISPSSSHYEETHNTLKYANRAKNI 338
>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 = 281 bits (722), Expect = 3e-92
Identities = 137/350 (39%), Positives = 191/350 (54%), Gaps = 45/350 (12%)
Query: 3 SVKVAVRVRPFNNREISRDCKSIIEMTGNTTVIINPKLPPESKDTHKNFNFDYSYYSHDP 62
+KV+VRVRP N RE + + + + T+ + P +S F FD +
Sbjct: 1 KIKVSVRVRPLNPRESDNE-QVAWSIDNDNTISLEESTPGQS------FTFDRVFGGE-- 51
Query: 63 SASNFATQAMVYSDIGEEMLEHAFEGYNVCIFAYGQTGAGKSYTMMGRQEVEGEEGIIPM 122
+T VY I + ++ A EGYN IFAYGQT +GK++TM G ++ E GIIP+
Sbjct: 52 -----STNREVYERIAKPVVRSALEGYNGTIFAYGQTSSGKTFTMSGDEQ---EPGIIPL 103
Query: 123 ICQDLFKRIKDTTNDKLKSRW----------------KNSNLRVREHPLLGPYVEDLSKL 166
+D+F+RI+DT + + R LR+RE P G V L++
Sbjct: 104 AVRDIFQRIQDTPDREFLLRVSYLEIYNEKIKDLLSPSPQELRIREDPNKGVVVAGLTEE 163
Query: 167 AVTCYRDIHDLIDEGNKARTVAATNMNETSSRSHAVFTIFFTQQAVDDMTDLTTEKVSKI 226
VT + LI G K R V T+ NE SSRSH +F + + D T +VS +
Sbjct: 164 IVTSPEHLLQLIARGEKNRHVGETDFNERSSRSHTIFQLTIESRERGDSES-GTVRVSTL 222
Query: 227 SLVDLAGSERADSTGAKGTRLKEGANINKSLTTLGKVISALAEISAVQHVAKKKKKADFI 286
+L+DLAGSERA TGA G R KEG+ INKSL TLG VIS L+E K + I
Sbjct: 223 NLIDLAGSERASQTGA-GERRKEGSFINKSLLTLGTVISKLSE----------GKNSGHI 271
Query: 287 PYRDSVLTWLLRENLGGNSKTAMIAAISPADINYDETLSTLRYADRAKQI 336
PYRDS LT +L+ +L GN++TA+I ISPA + +ETL+TL++A RAK++
Sbjct: 272 PYRDSKLTRILQPSLSGNARTAIICTISPASSHVEETLNTLKFASRAKKV 321
>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 = 262 bits (670), Expect = 3e-84
Identities = 143/359 (39%), Positives = 201/359 (55%), Gaps = 50/359 (13%)
Query: 4 VKVAVRVRPFNNREISRDCKSIIEMTGNTTVIINPKLPPESKDTHKNFNFDYSYYSHDPS 63
VKV VR+RP N E ++ + T++ + P + F FD+
Sbjct: 3 VKVVVRIRPPNEIEADGGQGQCLKKLSSDTLVWHSHPP-------RMFTFDHV------- 48
Query: 64 ASNFATQAMVYSDIGEEMLEHAFEGYNVCIFAYGQTGAGKSYTMMG-----RQEVEGEEG 118
A + Q V+ +G+ ++E GYN IFAYGQTG+GK+YTMMG + G +G
Sbjct: 49 ADSNTNQEDVFQSVGKPLVEDCLSGYNGSIFAYGQTGSGKTYTMMGPSSSDDESPHGLQG 108
Query: 119 IIPMICQDLFKRIK---DTTNDKLKSRWKNS------------------NLRVREHPLLG 157
+IP I + LF I+ + D LK K S NL++RE G
Sbjct: 109 VIPRIFEYLFSLIQREEEKRGDGLKFLCKCSFLEIYNEQITDLLDPTSRNLKIREDIKKG 168
Query: 158 PYVEDLSKLAVTCYRDIHDLIDEGNKARTVAATNMNETSSRSHAVFTIFFTQQAVDDMTD 217
YVE+L++ V+ Y D++ ++ +G R VAAT+MN SSRSHAVFT T ++ +
Sbjct: 169 VYVENLTEEYVSSYEDVYQVLLKGLSNRKVAATSMNSESSRSHAVFT--CTIESWEKKAS 226
Query: 218 LTTEKVSKISLVDLAGSERADSTGAKGTRLKEGANINKSLTTLGKVISALAEISAVQHVA 277
T + S+++LVDLAGSER GA+G RLKE NINKSL+TLG VI AL +++
Sbjct: 227 STNIRTSRLNLVDLAGSERQKDDGAEGVRLKEAKNINKSLSTLGHVIMALVDVA------ 280
Query: 278 KKKKKADFIPYRDSVLTWLLRENLGGNSKTAMIAAISPADINYDETLSTLRYADRAKQI 336
K +PYRDS LT+LLR++LGGN+KT +IA +SP+ + ETLSTL++A RAK I
Sbjct: 281 --HGKQRHVPYRDSKLTFLLRDSLGGNAKTTIIANVSPSSKCFGETLSTLKFAQRAKLI 337
>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 = 261 bits (670), Expect = 5e-84
Identities = 136/374 (36%), Positives = 198/374 (52%), Gaps = 51/374 (13%)
Query: 1 MSSVKVAVRVRPFNNREISRDCKSIIEMTGNTTVIINPKLPPESKDTHKNFNFDYSYYSH 60
S+++V VR RP N+RE ++E++G++ II + + T K + FD +
Sbjct: 1 ESNIQVVVRCRPRNSRERKEKSSVVVEVSGSSKEIIVSTGGADKQST-KTYTFDKVF--- 56
Query: 61 DPSASNFATQAMVYSDIGEEMLEHAFEGYNVCIFAYGQTGAGKSYTMMGRQ----EVEGE 116
P A Q VYS + +L+ GYN IFAYGQTG GK+YTM G + E
Sbjct: 57 GPEAD----QIEVYSQVVSPILDEVLMGYNCTIFAYGQTGTGKTYTMEGDRTDNKGSTWE 112
Query: 117 E----GIIPMICQDLFKRIKDTTND-------------KLK-----SRWKNSNLRVREHP 154
GIIP LF++++ + +L N LR+ +
Sbjct: 113 LSPHAGIIPRALYQLFEKLESQNTEYSVKVSYLELYNEELFDLLSSESDLNKPLRIFDDT 172
Query: 155 LL--GPYVEDLSKLAVTCYRDIHDLIDEGNKARTVAATNMNETSSRSHAVFTI-FFTQQA 211
G ++ L ++ V + L+++G+ R AAT MN+ SSRSH++F+I ++
Sbjct: 173 NNKGGVVIQGLEEITVNNANEGLKLLEKGSAKRKTAATLMNDQSSRSHSIFSITIHIKET 232
Query: 212 VDDMTDLTTEKVSKISLVDLAGSERADSTGAKGTRLKEGANINKSLTTLGKVISALAEIS 271
+L K+ K++LVDLAGSE +GA+ R +E NIN+SL TLG+VI+AL E
Sbjct: 233 TISGEELV--KIGKLNLVDLAGSENIGRSGAENKRAREAGNINQSLLTLGRVINALVE-- 288
Query: 272 AVQHVAKKKKKADFIPYRDSVLTWLLRENLGGNSKTAMIAAISPADINYDETLSTLRYAD 331
K+ IPYR+S LT LL+++LGG +KT++IA ISPA IN +ETLSTL YA
Sbjct: 289 ----------KSPHIPYRESKLTRLLQDSLGGRTKTSIIATISPASINLEETLSTLEYAH 338
Query: 332 RAKQIVCKAIVNED 345
RAK I K VN+
Sbjct: 339 RAKNIKNKPEVNQK 352
>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 = 229 bits (586), Expect = 7e-72
Identities = 123/355 (34%), Positives = 179/355 (50%), Gaps = 55/355 (15%)
Query: 2 SSVKVAVRVRPFNNREISRDCKSIIEMTGNTTVIIN-PKLP---PESKDTHKNFNFDYSY 57
+ VAVR RP N++E+S+ ++ N TV ++ PK + + H F FDY +
Sbjct: 1 MKITVAVRKRPLNDKELSKGETDVVSCESNPTVTVHEPKTKVDLTKYIEKH-TFRFDYVF 59
Query: 58 YSHDPSASNFATQAMVYSDIGEEMLEHAFEGYNVCIFAYGQTGAGKSYTMMGRQEVEGEE 117
D + +N VY + ++ H FEG FAYGQTG+GK+YTM+G + +E
Sbjct: 60 ---DEAVTN----EEVYRSTVKPLIPHVFEGGVATCFAYGQTGSGKTYTMLGDEN---QE 109
Query: 118 GIIPMICQDLFKRIKDTTNDK-----------------LKSRWKNSNLRVREHPLLGPYV 160
G+ + +D+F+ + +D L R + L V E +
Sbjct: 110 GLYALAARDIFRLLAQPNDDLGVTVSFFEIYGGKLFDLLNDRKR---LSVLEDGKGNVQI 166
Query: 161 EDLSKLAVTCYRDIHDLIDEGNKARTVAATNMNETSSRSHAVFTIFFTQQAVDDMTDLTT 220
L++ VT ++ +LI+ GN RT +T N+ SSRSHA+ I + +
Sbjct: 167 VGLTEKPVTSVDELLELIESGNSLRTTGSTGANDQSSRSHAILQIIL-KNKKLNKLL--- 222
Query: 221 EKVSKISLVDLAGSER-ADSTGAKGTRLKEGANINKSLTTLGKVISALAEISAVQHVAKK 279
K+S +DLAGSER AD++ KEGA INKSL L + I ALA A H
Sbjct: 223 ---GKLSFIDLAGSERGADTSEHDRQTRKEGAEINKSLLALKECIRALASNKA--H---- 273
Query: 280 KKKADFIPYRDSVLTWLLRENLGGNSKTAMIAAISPADINYDETLSTLRYADRAK 334
+P+R S LT +LR++ GNSKT MIA ISP+ + + TL+TLRYADR K
Sbjct: 274 ------VPFRGSKLTQVLRDSFIGNSKTVMIATISPSASSCEHTLNTLRYADRVK 322
>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 = 220 bits (562), Expect = 3e-70
Identities = 108/243 (44%), Positives = 135/243 (55%), Gaps = 64/243 (26%)
Query: 73 VYSDIGEEMLEHAFEGYNVCIFAYGQTGAGKSYTMMGRQEVEGEEGIIPMICQDLFKRIK 132
V+ D+G +L+ A +GYNVCIFAYGQTG+GK+YTM G++E GIIP D
Sbjct: 8 VFRDVGP-LLQSALDGYNVCIFAYGQTGSGKTYTMEGKRE---GAGIIPRTVTD------ 57
Query: 133 DTTNDKLKSRWKNSNLRVREHPLLGPYVEDLSKLAVTCYRDIHDLIDEGNKARTVAATNM 192
+ DL+D+GN RT AAT M
Sbjct: 58 -----------------------------------------VIDLMDKGNANRTTAATAM 76
Query: 193 NETSSRSHAVFTIFFTQQAVDDMTDLTTEKVSKISLVDLAGSERADSTGAKGTRLKEGAN 252
NE SSRSH+VF I F + KV KI+LVDLAGSER D +GA+G+RL E AN
Sbjct: 77 NEHSSRSHSVFRIHFGGKNALASAT-EQPKVGKINLVDLAGSERIDFSGAEGSRLTETAN 135
Query: 253 INKSLTTLGKVISALAEISAVQHVAKKKKKADFIPYRDSVLTWLLRENLGGNSKTAMIAA 312
INKSL+TLG VISALAE + +PYR+S LT LL+++LGGNS+T M+A
Sbjct: 136 INKSLSTLGNVISALAE------------RDSHVPYRESKLTRLLQDSLGGNSRTLMVAC 183
Query: 313 ISP 315
ISP
Sbjct: 184 ISP 186
>gnl|CDD|227392 COG5059, KIP1, Kinesin-like protein [Cytoskeleton].
Length = 568
Score = 230 bits (589), Expect = 2e-69
Identities = 158/480 (32%), Positives = 242/480 (50%), Gaps = 57/480 (11%)
Query: 2 SSVKVAVRVRPFNNREISRDCKSIIEMTGNTT----VIINPKLPPESKDTHKNFNFDYSY 57
++ + R+ N + +S +I + G K + FD
Sbjct: 5 NNSPLKSRLSSRNEKSVSDIKSTIRIIPGELGERLINTSKKSHVSLEKSKEGTYAFDKV- 63
Query: 58 YSHDPSASNFATQAMVYSDIGEEMLEHAFEGYNVCIFAYGQTGAGKSYTMMGRQEVEGEE 117
PSA TQ VY + + +++ GYN +FAYGQTG+GK+YTM G E E
Sbjct: 64 --FGPSA----TQEDVYEETIKPLIDSLLLGYNCTVFAYGQTGSGKTYTMSGT---EEEP 114
Query: 118 GIIPMICQDLFKRIKDTT---------------NDKLKSRWKNSN--LRVREHPLLGPYV 160
GIIP+ ++LF +++D + N+K+ + L +RE LLG V
Sbjct: 115 GIIPLSLKELFSKLEDLSMTKDFAVSISYLEIYNEKIYDLLSPNEESLNIREDSLLGVKV 174
Query: 161 EDLSKLAVTCYRDIHDLIDEGNKARTVAATNMNETSSRSHAVFTIFFTQQAVDDMTDLTT 220
L++ V+ +I DL+ +G K RT A+T +N+ SSRSH++F I + T T
Sbjct: 175 AGLTEKHVSSKEEILDLLRKGEKNRTTASTEINDESSRSHSIFQIELASKNKVSGTSET- 233
Query: 221 EKVSKISLVDLAGSERADSTGAKGTRLKEGANINKSLTTLGKVISALAEISAVQHVAKKK 280
SK+SLVDLAGSERA TG +GTRLKEGA+INKSL TLG VI+AL K
Sbjct: 234 ---SKLSLVDLAGSERAARTGNRGTRLKEGASINKSLLTLGNVINAL----------GDK 280
Query: 281 KKADFIPYRDSVLTWLLRENLGGNSKTAMIAAISPADINYDETLSTLRYADRAKQIVCKA 340
KK+ IPYR+S LT LL+++LGGN T +I ISP+ +++ET++TL++A RAK I K
Sbjct: 281 KKSGHIPYRESKLTRLLQDSLGGNCNTRVICTISPSSNSFEETINTLKFASRAKSIKNKI 340
Query: 341 IVNEDANAKLIRELKEEI--QRLRDLLKQEGIEVQEASELIMSKMAETPNAGENVDWDFA 398
VN +++ RE+ EEI D + E + +E S+L S ++ +++
Sbjct: 341 QVN--SSSDSSREI-EEIKFDLSEDRSEIEILVFREQSQLSQSSLSGIFAYMQSLK---K 394
Query: 399 QVELLEKQG----VDLKQEMQQRLRDLEEQYKREKNEADQAFEQQRKSSLRRISKQMKLS 454
+ E L+ + + +R + L+E+ + K+ + + L R + K
Sbjct: 395 ETETLKSRIDLIMKSIISGTFERKKLLKEEGWKYKSTLQFLRIEIDRLLLLREEELSKKK 454
Score = 34.3 bits (79), Expect = 0.13
Identities = 55/195 (28%), Positives = 86/195 (44%), Gaps = 34/195 (17%)
Query: 93 IFAYGQTGAGKSYTMMGRQEVEGEEGIIPMICQDLFKRIKD---------TTNDKLKSRW 143
IFAY Q+ ++ T+ R + I+ I F+R K +T L+
Sbjct: 385 IFAYMQSLKKETETLKSR-----IDLIMKSIISGTFERKKLLKEEGWKYKSTLQFLRIEI 439
Query: 144 KNSN-LRVREHPLLGPYVEDLSKL---AVTCYRDIHDLI------DEGNKARTVAATNMN 193
LR E + L+KL + I + ++ +K R+ A+T +N
Sbjct: 440 DRLLLLREEELSKKKTKIHKLNKLRHDLSSLLSSIPEETSDRVESEKASKLRSSASTKLN 499
Query: 194 ETSSRSHAVFTIFFTQQAVDDMTDLT-TEKVSKISLVDLAGSERADSTGAKGTRLKEGAN 252
SSRSH+ F D + + K ++ VDLAGSER + + G L+E +
Sbjct: 500 LRSSRSHSKFR--------DHLNGSNSSTKELSLNQVDLAGSER-KVSQSVGELLRETQS 550
Query: 253 INKSLTTLGKVISAL 267
+NKSL++LG VI AL
Sbjct: 551 LNKSLSSLGDVIHAL 565
>gnl|CDD|215621 PLN03188, PLN03188, kinesin-12 family protein; Provisional.
Length = 1320
Score = 235 bits (602), Expect = 4e-68
Identities = 153/397 (38%), Positives = 219/397 (55%), Gaps = 62/397 (15%)
Query: 2 SSVKVAVRVRPFNNREISRDCKSIIEMTGNTTVIINPKLPPESKDTHKNFNFDYSYYSHD 61
S VKV VR++P N E + + I++ N ++ IN + F FD
Sbjct: 98 SGVKVIVRMKPLNKGE---EGEMIVQKMSNDSLTIN----------GQTFTFD------- 137
Query: 62 PSASNFATQAMVYSDIGEEMLEHAFEGYNVCIFAYGQTGAGKSYTMMGRQEVEGEE---- 117
A +TQ ++ +G ++E+ G+N +FAYGQTG+GK+YTM G EE
Sbjct: 138 SIADPESTQEDIFQLVGAPLVENCLAGFNSSVFAYGQTGSGKTYTMWGPANGLLEEHLSG 197
Query: 118 ---GIIPMICQDLFKRIKDT----TNDKLKSRWKNS------------------NLRVRE 152
G+ P + + LF RI + + +LK + + S NL++RE
Sbjct: 198 DQQGLTPRVFERLFARINEEQIKHADRQLKYQCRCSFLEIYNEQITDLLDPSQKNLQIRE 257
Query: 153 HPLLGPYVEDLSKLAVTCYRDIHDLIDEGNKARTVAATNMNETSSRSHAVFTIFFTQQAV 212
G YVE+L++ V +D+ L+ +G R AT++N SSRSH+VFT +
Sbjct: 258 DVKSGVYVENLTEEYVKTMKDVTQLLIKGLSNRRTGATSINAESSRSHSVFTCVVESRCK 317
Query: 213 DDMTDLTTEKVSKISLVDLAGSERADSTGAKGTRLKEGANINKSLTTLGKVISALAEISA 272
L++ K S+I+LVDLAGSER TGA G RLKE NIN+SL+ LG +I+ LAEIS
Sbjct: 318 SVADGLSSFKTSRINLVDLAGSERQKLTGAAGDRLKEAGNINRSLSQLGNLINILAEIS- 376
Query: 273 VQHVAKKKKKADFIPYRDSVLTWLLRENLGGNSKTAMIAAISPADINYDETLSTLRYADR 332
+ K IPYRDS LT+LL+E+LGGN+K AM+ AISP+ ET STLR+A R
Sbjct: 377 ------QTGKQRHIPYRDSRLTFLLQESLGGNAKLAMVCAISPSQSCKSETFSTLRFAQR 430
Query: 333 AKQIVCKAIVNE----DAN--AKLIRELKEEIQRLRD 363
AK I KA+VNE D N ++IR+L++E+QR++
Sbjct: 431 AKAIKNKAVVNEVMQDDVNFLREVIRQLRDELQRVKA 467
>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 = 207 bits (530), Expect = 3e-63
Identities = 116/353 (32%), Positives = 173/353 (49%), Gaps = 30/353 (8%)
Query: 3 SVKVAVRVRPFNNREISRDCKSIIEMTGNTTVIINPKLPPESKDTHKNFNFDYSYYSHDP 62
VKV +RVRP + E+ + + IE+ +TT+ ++P ++ + +N + +S
Sbjct: 2 PVKVYLRVRPLSKDELESEDEGCIEVINSTTIQLHPPKGSAARKSERNGGQKETKFSFSK 61
Query: 63 SASNFATQAMVYSDIGEEMLEHAFEGYNVCIFAYGQTGAGKSYTMMGRQEVEGEEGIIPM 122
TQ + +++ +G N +F YG T +GK+YTM G G+ GI+P
Sbjct: 62 VFGPNTTQKEFFEGTALPLVQDLLKGKNSLLFTYGVTNSGKTYTMQGS---PGDGGILPR 118
Query: 123 ICQDLFKRIKDTT---------NDKL--------KSRWKNSNLRVREHPLLGPYVEDLSK 165
+F I + N+ + S K +LR+RE YV L++
Sbjct: 119 SLDVIFNSIGGYSVFVSYVEIYNNYIYDLLEDSPSSTKKRQSLRLREDHNGNMYVAGLTE 178
Query: 166 LAVTCYRDIHDLIDEGNKARTVAATNMNETSSRSHAVFTIFFTQQAVDDMTDLTTEK--- 222
+ V+ + ++ G K R VA T +N SSRSH+VFTI Q D D+ +K
Sbjct: 179 VEVSSTEEAREVFKRGQKNRRVAGTKLNRESSRSHSVFTIKLVQAPGDSDGDVDQDKDQI 238
Query: 223 -VSKISLVDLAGSERADSTGAKGTRLKEGANINKSLTTLGKVISALAEISAVQHVAKKKK 281
VS++SLVDLAGSER T G RLKE NIN SL TLGK I L E ++
Sbjct: 239 TVSQLSLVDLAGSERTSRTQNTGERLKEAGNINTSLMTLGKCIEVLRE----NQLSGSTN 294
Query: 282 KADFIPYRDSVLTWLLRENLGGNSKTAMIAAISPADINYDETLSTLRYADRAK 334
K +PYRDS LT L + G K MI ++P +YDETL ++++ A+
Sbjct: 295 K--MVPYRDSKLTHLFQNYFDGEGKARMIVNVNPCASDYDETLHVMKFSAIAQ 345
>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 = 206 bits (525), Expect = 1e-62
Identities = 122/359 (33%), Positives = 186/359 (51%), Gaps = 52/359 (14%)
Query: 3 SVKVAVRVRPFNNREISRDCKSIIEMTGNTTVIINPKL-----PPESKDTHKNFNFDYSY 57
+++V VRVRP ++ S SI +V N ++ +F FD +
Sbjct: 1 TIQVFVRVRPTPTKQGS----SIKLGPDGKSVSSNLPKDLVRGVVNNQQEDFSFKFDGVF 56
Query: 58 YSHDPSASNFATQAMVYSDIGEEMLEHAFEGYNVCIFAYGQTGAGKSYTMMGRQEVEGEE 117
++ A+Q VY + + +++ A +GYN IFAYGQTGAGK++TM G E +
Sbjct: 57 HN--------ASQEEVYETVAKPVVDSALDGYNGTIFAYGQTGAGKTFTMTGGTESYKDR 108
Query: 118 GIIPMICQDLFKRI-KDTT-------------NDKLKSRWKNSN--------LRVREHPL 155
G+IP + +F+ + T N++L ++ + + E
Sbjct: 109 GLIPRALEQVFREVAMRATKTYTVHVSYLEIYNEQLYDLLGDTPEALESLPAVTILEDSE 168
Query: 156 LGPYVEDLSKLAVTCYRDIHDLIDEGNKARTVAATNMNETSSRSHAVFTIFFTQQAVDDM 215
+V+ LS + T + +L+ G RT+A T+MN+ SSRSH +FTI ++ +
Sbjct: 169 QNIHVKGLSLHSATTEEEALNLLFLGETNRTIAETSMNQASSRSHCIFTIHLESRSREAG 228
Query: 216 TDLTTEKVSKISLVDLAGSERADSTGAKGTRLKEGANINKSLTTLGKVISALAEISAVQH 275
+++ ++SK++LVDLAGSER TG G LKE INKSL+ L +VI+AL+E
Sbjct: 229 SEVV--RLSKLNLVDLAGSERVSKTGVSGQVLKEAKYINKSLSFLEQVINALSE------ 280
Query: 276 VAKKKKKADFIPYRDSVLTWLLRENLGGNSKTAMIAAISPADINYDETLSTLRYADRAK 334
K +PYR+S LT +LR++LGGN KT M+A I N DETLSTLR+A R
Sbjct: 281 -----KARTHVPYRNSKLTHVLRDSLGGNCKTVMLATIWVEPSNLDETLSTLRFAQRVA 334
>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 = 188 bits (479), Expect = 5e-56
Identities = 118/348 (33%), Positives = 166/348 (47%), Gaps = 45/348 (12%)
Query: 3 SVKVAVRVRPFNNREISRD-CKSIIEMTGNTTVIINPKLPPESKDTHKNFNFDYSYYSHD 61
+V+V VRVRPF + E C I+ + + P +T K + FD Y
Sbjct: 1 NVRVVVRVRPFLDCEEDSSSCVRGIDSDQGQAKSVEIENPRNRGETKK-YQFDAFY---G 56
Query: 62 PSASNFATQAMVYSDIGEEMLEHAFEGYNVCIFAYGQTGAGKSYTMMGRQEVEGEEGIIP 121
TQ ++S + ++ H G N +FAYG TGAGK++TM+G E G+IP
Sbjct: 57 TEC----TQEDIFSREVKPIVPHLLSGQNATVFAYGSTGAGKTHTMLG---DPNEPGLIP 109
Query: 122 MICQDLFKRIKDTT-------------NDKLKS--RWKNSNLRVREHPLLGPYVEDLSKL 166
DL + + N+K+ L +RE + L+
Sbjct: 110 RTLSDLLRMGRKQAWTGAFSMSYYEIYNEKVYDLLEPAKKELPIREDKDGNILIVGLTSK 169
Query: 167 AVTCYRDIHDLIDEGNKARTVAATNMNETSSRSHAVFTIFFTQQAVDDMTDLTTEKVSKI 226
+ + + +K RTVAAT +N+ SSRSHAV I TQ A + + K+
Sbjct: 170 PIKSMAEFEEAYIPASKNRTVAATKLNDNSSRSHAVLRIKVTQPASN------IQLEGKL 223
Query: 227 SLVDLAGSERADSTGAKGTRLKEGANINKSLTTLGKVISALAEISAVQHVAKKKKKADFI 286
+L+DLAGSE TG +G RLKE A IN SL L KV+ AL K I
Sbjct: 224 NLIDLAGSEDNRRTGNEGIRLKESAAINSSLFVLSKVVDAL------------NKGLPRI 271
Query: 287 PYRDSVLTWLLRENLGGNSKTAMIAAISPADINYDETLSTLRYADRAK 334
PYR+S LT LL+++LGG S+ M+A I+P Y +TLSTL +A R+K
Sbjct: 272 PYRESKLTRLLQDSLGGGSRCIMVANIAPERSFYQDTLSTLNFASRSK 319
>gnl|CDD|236912 PRK11448, hsdR, type I restriction enzyme EcoKI subunit R;
Provisional.
Length = 1123
Score = 41.5 bits (98), Expect = 0.001
Identities = 20/104 (19%), Positives = 46/104 (44%), Gaps = 19/104 (18%)
Query: 347 NAKLIRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGENVDWDFAQVELLEKQ 406
L+ L++E+ L+ L+ + E ++ L ++ E V +
Sbjct: 140 PENLLHALQQEVLTLKQQLELQAREKAQSQALAEAQ------QQELVALE---------- 183
Query: 407 GVDLKQEMQQRLRDLEEQYKREKNEADQAFEQQRKSSLRRISKQ 450
L E++++ ++LE Q ++ + +A + Q+RK + I+ Q
Sbjct: 184 --GLAAELEEKQQELEAQLEQLQEKAAET-SQERKQKRKEITDQ 224
>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and
chromosome partitioning].
Length = 1163
Score = 36.2 bits (84), Expect = 0.043
Identities = 23/104 (22%), Positives = 48/104 (46%), Gaps = 6/104 (5%)
Query: 344 EDANAKLIRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGENVDWDFAQVELL 403
+ +L ELK EI+ L + L++ E E + ++ E E + + ++
Sbjct: 393 AEIRNEL-EELKREIESLEERLERL----SERLEDLKEELKELEAELEELQTELEELNEE 447
Query: 404 EKQGVDLKQEMQQRLRDLEEQYKREKNEADQAFEQQRKSSLRRI 447
++ + +E++ RL++LE + E E Q E++ S R+
Sbjct: 448 LEELEEQLEELRDRLKELEREL-AELQEELQRLEKELSSLEARL 490
Score = 33.1 bits (76), Expect = 0.35
Identities = 23/106 (21%), Positives = 49/106 (46%), Gaps = 4/106 (3%)
Query: 349 KLIRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGENVDWDFAQVELLEKQGV 408
+ I EL+ EI LR+ L++ E++E E + + E ++ +E LE+
Sbjct: 295 EEIEELEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQLLA 354
Query: 409 DLKQEMQQRLRDLEEQYKREKNEADQAFEQQRKSSLRRISKQMKLS 454
+L++ ++ LEE+ E ++ FE R+ ++ ++
Sbjct: 355 ELEEAKEE----LEEKLSALLEELEELFEALREELAELEAELAEIR 396
Score = 29.3 bits (66), Expect = 6.1
Identities = 27/123 (21%), Positives = 60/123 (48%), Gaps = 5/123 (4%)
Query: 332 RAKQIVCKAIVNEDANAKLIRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGE 391
R ++ ++ +L EL+EE+ RL + L++ E++EA + I +E E
Sbjct: 223 RELELALLLAKLKELRKEL-EELEEELSRLEEELEELQEELEEAEKEIEELKSELEELRE 281
Query: 392 NVDWDFAQVELLEKQGVDLKQEMQQRLRDLEEQYKREKNEADQAFEQQRKSSLRRISKQM 451
++ Q ELLE + + +E++ + L E+ + +NE ++ E+ + + + +
Sbjct: 282 ELEE--LQEELLELK--EEIEELEGEISLLRERLEELENELEELEERLEELKEKIEALKE 337
Query: 452 KLS 454
+L
Sbjct: 338 ELE 340
Score = 28.9 bits (65), Expect = 7.0
Identities = 19/110 (17%), Positives = 50/110 (45%)
Query: 343 NEDANAKLIRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGENVDWDFAQVEL 402
+ K + ELKEE++ L ++ E++E E E + ++E
Sbjct: 850 ELEELEKELEELKEELEELEAEKEELEDELKELEEEKEELEEELRELESELAELKEEIEK 909
Query: 403 LEKQGVDLKQEMQQRLRDLEEQYKREKNEADQAFEQQRKSSLRRISKQMK 452
L ++ +L+ ++++ +L E + + E + E + + + R+ ++++
Sbjct: 910 LRERLEELEAKLERLEVELPELEEELEEEYEDTLETELEREIERLEEEIE 959
>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional.
Length = 520
Score = 35.1 bits (82), Expect = 0.065
Identities = 33/124 (26%), Positives = 67/124 (54%), Gaps = 21/124 (16%)
Query: 332 RAKQIVCKAIVNEDANA---KLIRELKEEIQRLRDLLKQE----GIEVQEASELIMSKMA 384
AK+I+ +A ++A A + + E KEEI +LR+ ++E E+Q+ + ++ K
Sbjct: 39 EAKRILEEA--KKEAEAIKKEALLEAKEEIHKLRNEFEKELRERRNELQKLEKRLLQK-- 94
Query: 385 ETPNAGENVDWDFAQVELLEKQGVDLKQEMQQRLRDLEEQYKREKNEADQAFEQQRKSSL 444
EN+D +E E++ ++E++Q+ ++LE++ + E ++ E+Q + L
Sbjct: 95 -----EENLDRKLELLEKREEELEKKEKELEQKQQELEKK----EEELEELIEEQLQ-EL 144
Query: 445 RRIS 448
RIS
Sbjct: 145 ERIS 148
>gnl|CDD|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor
protein; Reviewed.
Length = 782
Score = 35.6 bits (83), Expect = 0.067
Identities = 11/41 (26%), Positives = 24/41 (58%)
Query: 398 AQVELLEKQGVDLKQEMQQRLRDLEEQYKREKNEADQAFEQ 438
+ E L K+ LK+E++++ L+E+ + EA++ +Q
Sbjct: 537 EEAEALLKEAEKLKEELEEKKEKLQEEEDKLLEEAEKEAQQ 577
>gnl|CDD|232831 TIGR00115, tig, trigger factor. Trigger factor is a
ribosome-associated molecular chaperone and is the first
chaperone to interact with nascent polypeptide. Trigger
factor can bind at the same time as the signal
recognition particle (SRP), but is excluded by the SRP
receptor (FtsY). The central domain of trigger factor
has peptidyl-prolyl cis/trans isomerase activity. This
protein is found in a single copy in virtually every
bacterial genome [Protein fate, Protein folding and
stabilization].
Length = 408
Score = 34.8 bits (81), Expect = 0.086
Identities = 31/148 (20%), Positives = 64/148 (43%), Gaps = 24/148 (16%)
Query: 321 DETLSTLRYADRAKQIV--CKAIVNEDANAKLIREL-------------KEEIQRLRDL- 364
ETL L+ AD K + K +L+ +L ++EI RL +
Sbjct: 249 FETLEELK-ADIRKNLEREKKERAKNKLKEQLLDKLVENNEFELPESLVEQEIDRLLEQA 307
Query: 365 ---LKQEGIEVQEASELIMSKMAE--TPNAGENVDWDFAQVELLEKQGVDLKQ-EMQQRL 418
L+Q+GI+++E + ++ E A V E+ +K+ +++ + E++ +
Sbjct: 308 LQQLQQQGIDLEEYLKDTEEELREEFREEAERRVKLGLILEEIAKKEKIEVSEEEVEAEI 367
Query: 419 RDLEEQYKREKNEADQAFEQ-QRKSSLR 445
+L +QY + E + +++ LR
Sbjct: 368 EELAQQYGEDPEEVKKYYKKNGLLEQLR 395
>gnl|CDD|239954 cd04518, TBP_archaea, archaeal TATA box binding protein (TBP): TBPs
are transcription factors present in archaea and
eukaryotes, that recognize promoters and initiate
transcription. TBP has been shown to be an essential
component of three different transcription initiation
complexes: SL1, TFIID and TFIIIB, directing
transcription by RNA polymerases I, II and III,
respectively. TBP binds directly to the TATA box
promoter element, where it nucleates polymerase
assembly, thus defining the transcription start site.
TBP's binding in the minor groove induces a dramatic DNA
bending while its own structure barely changes. The
conserved core domain of TBP, which binds to the TATA
box, has a bipartite structure, with intramolecular
symmetry generating a saddle-shaped structure that sits
astride the DNA.
Length = 174
Score = 33.8 bits (78), Expect = 0.094
Identities = 14/55 (25%), Positives = 27/55 (49%)
Query: 348 AKLIRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGENVDWDFAQVEL 402
AK + +L ++ + LK GI+V E E+ + + + + G V+ D + L
Sbjct: 63 AKSVEDLHRAVKEIIKKLKDYGIKVIEKPEIKVQNIVASADLGREVNLDAIAIGL 117
>gnl|CDD|221432 pfam12128, DUF3584, Protein of unknown function (DUF3584). This
protein is found in bacteria and eukaryotes. Proteins in
this family are typically between 943 to 1234 amino
acids in length. This family contains a P-loop motif
suggesting it is a nucleotide binding protein. It may be
involved in replication.
Length = 1198
Score = 34.7 bits (80), Expect = 0.11
Identities = 21/102 (20%), Positives = 47/102 (46%), Gaps = 10/102 (9%)
Query: 353 ELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGENVDWDFAQVELLE-KQGVDLK 411
EL+E +Q+ + L Q + Q+ +E + + N + + + E + +
Sbjct: 604 ELRERLQQAEEAL-QSAVAKQKQAEEQLVQA--------NAELEEQKRAEAEARTALKQA 654
Query: 412 QEMQQRLRDLEEQYKREKNEADQAFEQQRKSSLRRISKQMKL 453
+ QRL++ ++ K + A +QQ ++ LR++ Q+K
Sbjct: 655 RLDLQRLQNEQQSLKDKLELAIAERKQQAETQLRQLDAQLKQ 696
Score = 28.5 bits (64), Expect = 9.7
Identities = 23/141 (16%), Positives = 55/141 (39%), Gaps = 14/141 (9%)
Query: 319 NYDETLSTLRYADRAKQIVCKAIVNEDANAKL--IRELKEEIQRLRDLLKQEGIEVQ--E 374
L L+ ++ + + + E +R+L ++++L +Q +E +
Sbjct: 653 QARLDLQRLQNEQQSLKDKLELAIAERKQQAETQLRQLDAQLKQL-LEQQQAFLEALKDD 711
Query: 375 ASELIMSKMAETPNAGENVDWDFAQVELLEKQGVDLKQEMQQRLRDLEEQYKRE------ 428
EL ++A+ +D Q+ L + + + RL++L++QY RE
Sbjct: 712 FRELRTERLAKWQVVEGELD---NQLAQLSAAIEAARTQAKARLKELKKQYDRELASLDV 768
Query: 429 KNEADQAFEQQRKSSLRRISK 449
+ ++Q + I +
Sbjct: 769 DPNTVKELKRQIEELETTIER 789
>gnl|CDD|214943 smart00967, SpoU_sub_bind, RNA 2'-O ribose methyltransferase
substrate binding. This domain is a RNA 2'-O ribose
methyltransferase substrate binding domain.
Length = 70
Score = 31.4 bits (72), Expect = 0.12
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 352 RELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPN 388
E ++ L L K+ GI+V E S+ + K++ T N
Sbjct: 24 EGRAERLKELLKLAKERGIKVIEVSKKELDKLSGTAN 60
>gnl|CDD|129357 TIGR00255, TIGR00255, TIGR00255 family protein. The apparent
ortholog from Aquifex aeolicus as reported is split into
two consecutive reading frames [Hypothetical proteins,
Conserved].
Length = 291
Score = 33.3 bits (76), Expect = 0.20
Identities = 28/116 (24%), Positives = 43/116 (37%), Gaps = 18/116 (15%)
Query: 354 LKEEIQRLRDLLKQEGIE----------------VQEASELIMSKMAETPNAGENVDWDF 397
E I LRD Q IE QE + A A E DF
Sbjct: 85 AIEAISALRDSKAQTNIEGEINLGDFLRLPGVVIAQEQDLHQDAIYALILGALEEALLDF 144
Query: 398 AQVELLEKQGVDLKQEMQQRLRDLEEQYKREKNEADQAFEQQRKSSLRRISKQMKL 453
+ + E +G +LK ++ QRL +E + K+ ++ + QR+ RI +
Sbjct: 145 --INMREFEGENLKSDIVQRLDLIEREVKKVRSAMPDILQWQRERLKARIEDLAQE 198
>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 = 33.6 bits (78), Expect = 0.20
Identities = 12/54 (22%), Positives = 32/54 (59%), Gaps = 9/54 (16%)
Query: 406 QGVDLKQEMQQRLRDLE---------EQYKREKNEADQAFEQQRKSSLRRISKQ 450
QG +LK++M++ + +L+ E+Y+ K E ++ F+++R+ + + ++
Sbjct: 85 QGRELKKDMEELVEELKKEIPAAFESEEYEARKEEIEEEFQEKREEAFEELEEE 138
>gnl|CDD|214922 smart00935, OmpH, Outer membrane protein (OmpH-like). This family
includes outer membrane proteins such as OmpH among
others. Skp (OmpH) has been characterized as a molecular
chaperone that interacts with unfolded proteins as they
emerge in the periplasm from the Sec translocation
machinery.
Length = 140
Score = 32.2 bits (74), Expect = 0.22
Identities = 20/117 (17%), Positives = 50/117 (42%), Gaps = 9/117 (7%)
Query: 339 KAIVNEDANAKLIRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGENVDWDFA 398
K + A ++L++E ++ + L++ E+Q+ E + A A
Sbjct: 8 KILQESPAGKAAQKQLEKEFKKRQAELEKLEKELQKLKEKLQKDAA---------TLSEA 58
Query: 399 QVELLEKQGVDLKQEMQQRLRDLEEQYKREKNEADQAFEQQRKSSLRRISKQMKLSI 455
E EK+ QE Q++ + L++ ++ + E Q + +++ ++K+ +
Sbjct: 59 AREKKEKELQKKVQEFQRKQQKLQQDLQKRQQEELQKILDKINKAIKEVAKKKGYDL 115
>gnl|CDD|188306 TIGR03319, RNase_Y, ribonuclease Y. Members of this family are
RNase Y, an endoribonuclease. The member from Bacillus
subtilis, YmdA, has been shown to be involved in
turnover of yitJ riboswitch [Transcription, Degradation
of RNA].
Length = 514
Score = 33.4 bits (77), Expect = 0.26
Identities = 30/122 (24%), Positives = 61/122 (50%), Gaps = 17/122 (13%)
Query: 332 RAKQIVCKAIVNEDANAK-LIRELKEEIQRLRD----LLKQEGIEVQEASELIMSKMAET 386
AK+I+ +A + K + E KEE+ +LR LK+ E+Q ++ +
Sbjct: 33 LAKRIIEEAKKEAETLKKEALLEAKEEVHKLRAELERELKERRNELQRLERRLLQR---- 88
Query: 387 PNAGENVDWDFAQVELLEKQGVDLKQEMQQRLRDLEEQYKREKNEADQAFEQQRKSSLRR 446
E +D ++E L+K+ +L+++ ++ L + E+ ++ E ++ +QR+ L R
Sbjct: 89 ---EETLD---RKMESLDKKEENLEKK-EKELSNKEKNLDEKEEELEELIAEQRE-ELER 140
Query: 447 IS 448
IS
Sbjct: 141 IS 142
Score = 28.7 bits (65), Expect = 8.0
Identities = 15/83 (18%), Positives = 36/83 (43%), Gaps = 28/83 (33%)
Query: 351 IRELKEEIQRLRDLLKQE-----GIEVQEASELIMSKMAETPNAGENVDWDFAQVELLEK 405
+ E +EE++ L ++E G+ +EA E+++ ++ E
Sbjct: 120 LDEKEEELEELIAEQREELERISGLTQEEAKEILLEEVEE-------------------- 159
Query: 406 QGVDLKQEMQQRLRDLEEQYKRE 428
+ + E + ++++EE+ K E
Sbjct: 160 ---EARHEAAKLIKEIEEEAKEE 179
>gnl|CDD|235871 PRK06835, PRK06835, DNA replication protein DnaC; Validated.
Length = 329
Score = 32.9 bits (76), Expect = 0.29
Identities = 17/59 (28%), Positives = 26/59 (44%), Gaps = 3/59 (5%)
Query: 50 NF-NFDYSYYSHDPSASNFATQAMVYSDIGEEMLE--HAFEGYNVCIFAYGQTGAGKSY 105
NF NF+ +YYS + + I E+ F+ N + YG TG GK++
Sbjct: 140 NFSNFNLNYYSDEKDDDEPLSPRKNMEKILEKCKNFIENFDKNNENLLFYGNTGTGKTF 198
>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common
bacterial type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. This family
represents the SMC protein of most bacteria. The smc
gene is often associated with scpB (TIGR00281) and scpA
genes, where scp stands for segregation and condensation
protein. SMC was shown (in Caulobacter crescentus) to be
induced early in S phase but present and bound to DNA
throughout the cell cycle [Cellular processes, Cell
division, DNA metabolism, Chromosome-associated
proteins].
Length = 1179
Score = 33.1 bits (76), Expect = 0.34
Identities = 25/124 (20%), Positives = 56/124 (45%), Gaps = 12/124 (9%)
Query: 348 AKLIRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGENVDWDFAQVELLEKQG 407
A I L+++ Q LR+ L +++E + ++ E + ++E L+++
Sbjct: 294 ANEISRLEQQKQILRERLANLERQLEELEAQLEELESKLDELAEELAELEEKLEELKEEL 353
Query: 408 VDLK----------QEMQQRLRDLEEQYKREKNEADQAFEQQRK--SSLRRISKQMKLSI 455
L+ +E++ RL +LEEQ + +++ Q Q + + R+ +++
Sbjct: 354 ESLEAELEELEAELEELESRLEELEEQLETLRSKVAQLELQIASLNNEIERLEARLERLE 413
Query: 456 GRRE 459
RRE
Sbjct: 414 DRRE 417
>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC,
primarily archaeal type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. It is found
in a single copy and is homodimeric in prokaryotes, but
six paralogs (excluded from this family) are found in
eukarotes, where SMC proteins are heterodimeric. This
family represents the SMC protein of archaea and a few
bacteria (Aquifex, Synechocystis, etc); the SMC of other
bacteria is described by TIGR02168. The N- and
C-terminal domains of this protein are well conserved,
but the central hinge region is skewed in composition
and highly divergent [Cellular processes, Cell division,
DNA metabolism, Chromosome-associated proteins].
Length = 1164
Score = 33.1 bits (76), Expect = 0.34
Identities = 19/107 (17%), Positives = 47/107 (43%), Gaps = 17/107 (15%)
Query: 349 KLIRELKEEIQRLRDLLKQEGIEVQEASE----LIMSKMAETPNAGENVDWDFAQVELLE 404
+ I EL++ ++ + LL++ ++++ E + K+ E A++ LE
Sbjct: 258 EEISELEKRLEEIEQLLEELNKKIKDLGEEEQLRVKEKIGELE----------AEIASLE 307
Query: 405 KQGVDLKQEMQQ---RLRDLEEQYKREKNEADQAFEQQRKSSLRRIS 448
+ + ++E++ RL LE + + E ++ + + RR
Sbjct: 308 RSIAEKERELEDAEERLAKLEAEIDKLLAEIEELEREIEEERKRRDK 354
Score = 32.0 bits (73), Expect = 0.91
Identities = 23/92 (25%), Positives = 44/92 (47%), Gaps = 4/92 (4%)
Query: 350 LIRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGENVDWDFAQVELLEKQGVD 409
+ + +E+Q R LK++ +++ E + K E E ++ A + LE + D
Sbjct: 830 YLEKEIQELQEQRIDLKEQIKSIEKEIENLNGKKEELEEELEELE---AALRDLESRLGD 886
Query: 410 LKQEMQQRLRDLEEQYKREKNEADQAFEQQRK 441
LK+E + L E +R+ E + E++RK
Sbjct: 887 LKKERDELEAQLREL-ERKIEELEAQIEKKRK 917
Score = 30.8 bits (70), Expect = 2.0
Identities = 19/112 (16%), Positives = 47/112 (41%), Gaps = 3/112 (2%)
Query: 351 IRELKEEIQRLRDLLKQEGI-EVQEASELIMSKMAETPNAGENVDWDFAQVELLEKQGVD 409
+ +L+E + L L I E+Q + +++ ++ ++ L ++
Sbjct: 774 LHKLEEALNDLEARLSHSRIPEIQAELSKLEEEVSRIEARLREIEQKLNRLTLEKEYLEK 833
Query: 410 LKQEMQQRLRDLEEQYK--REKNEADQAFEQQRKSSLRRISKQMKLSIGRRE 459
QE+Q++ DL+EQ K ++ E +++ + L + ++ R
Sbjct: 834 EIQELQEQRIDLKEQIKSIEKEIENLNGKKEELEEELEELEAALRDLESRLG 885
Score = 29.7 bits (67), Expect = 4.7
Identities = 22/109 (20%), Positives = 48/109 (44%), Gaps = 9/109 (8%)
Query: 351 IRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGENVDWDFAQVELLEKQGVDL 410
I EL+ +I++ R L + +++ E + S++ + E + + +E ++ +
Sbjct: 905 IEELEAQIEKKRKRLSELKAKLEALEEEL-SEIEDPKGEDEEIPEEELSLEDVQAE---- 959
Query: 411 KQEMQQRLRDLEEQYKREKNEADQAFEQQRKSSLRRISKQMKLSIGRRE 459
Q +++ +R LE A Q +E+ K K+ KL R+
Sbjct: 960 LQRVEEEIRALEPV----NMLAIQEYEEVLKRLDELKEKRAKLEEERKA 1004
Score = 28.9 bits (65), Expect = 6.7
Identities = 24/103 (23%), Positives = 48/103 (46%), Gaps = 10/103 (9%)
Query: 349 KLIRELKEEIQR----LRDL---LKQEGIEVQEASELIMSKMAETPNAGENVDWDFAQVE 401
+ +L+EE+ R LR++ L + +E + + I + + E + ++E
Sbjct: 798 AELSKLEEEVSRIEARLREIEQKLNRLTLEKEYLEKEIQELQEQRIDLKEQIKSIEKEIE 857
Query: 402 LLEKQGVDLKQEM---QQRLRDLEEQYKREKNEADQAFEQQRK 441
L + +L++E+ + LRDLE + K E D+ Q R+
Sbjct: 858 NLNGKKEELEEELEELEAALRDLESRLGDLKKERDELEAQLRE 900
>gnl|CDD|183017 PRK11177, PRK11177, phosphoenolpyruvate-protein phosphotransferase;
Provisional.
Length = 575
Score = 33.1 bits (76), Expect = 0.38
Identities = 17/39 (43%), Positives = 23/39 (58%), Gaps = 2/39 (5%)
Query: 351 IRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNA 389
+RELK EI+ L+ L+ EG E+ E+ M ETP A
Sbjct: 399 VRELKAEIEILKQELRDEGKAFDESIEI--GVMVETPAA 435
>gnl|CDD|225144 COG2235, ArcA, Arginine deiminase [Amino acid transport and
metabolism].
Length = 409
Score = 32.7 bits (75), Expect = 0.39
Identities = 13/70 (18%), Positives = 30/70 (42%), Gaps = 4/70 (5%)
Query: 355 KEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGENVDW-DFAQVELLEKQGVDLKQE 413
++E +L+++GIEV +L+ + A + ++ E +G E
Sbjct: 49 QKEHDTFAQILREQGIEVLYLEDLLAETLD---KANAARNQFIETYLDEAEIKGTGTADE 105
Query: 414 MQQRLRDLEE 423
++ L L++
Sbjct: 106 VRAYLLSLDK 115
>gnl|CDD|237178 PRK12705, PRK12705, hypothetical protein; Provisional.
Length = 508
Score = 32.4 bits (74), Expect = 0.48
Identities = 32/130 (24%), Positives = 60/130 (46%), Gaps = 8/130 (6%)
Query: 328 RYADRAKQIVCKAIVN-EDANAKLIRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAET 386
R A A++I+ +A E+ + E KE + R R+ +QE +E + ++
Sbjct: 30 RLAKEAERILQEAQKEAEEKLEAALLEAKELLLRERNQQRQEARREREELQREEERLV-- 87
Query: 387 PNAGENVDWDFAQVELLEKQGVDLKQEMQQRLRDLEEQYKREKNE----ADQAFEQQRKS 442
E +D +++ LE Q + ++ + R +LEE K+ NE A EQ RK
Sbjct: 88 -QKEEQLDARAEKLDNLENQLEEREKALSARELELEELEKQLDNELYRVAGLTPEQARKL 146
Query: 443 SLRRISKQMK 452
L+ + +++
Sbjct: 147 LLKLLDAELE 156
>gnl|CDD|216828 pfam01984, dsDNA_bind, Double-stranded DNA-binding domain. This
domain is believed to bind double-stranded DNA of 20
bases length.
Length = 105
Score = 30.2 bits (69), Expect = 0.60
Identities = 15/36 (41%), Positives = 23/36 (63%), Gaps = 2/36 (5%)
Query: 412 QEMQQRLRDLEEQYKREKNEADQAFEQQRKSSLRRI 447
E+QQ+ LEEQ ++E E Q E Q+++ LR+I
Sbjct: 7 AELQQQQGGLEEQQQQE--EQQQQEEAQKQAILRQI 40
>gnl|CDD|234415 TIGR03955, rSAM_HydG, [FeFe] hydrogenase H-cluster radical SAM
maturase HydG. This model describes the radical SAM
protein HydG. It is part of an enzyme metallocenter
maturation system, working together with GTP-binding
protein HydF and another radical SAM enzyme, HydE, in
H-cluster maturation in [FeFe] hydrogenases [Protein
fate, Protein modification and repair].
Length = 471
Score = 32.0 bits (73), Expect = 0.64
Identities = 18/62 (29%), Positives = 29/62 (46%), Gaps = 12/62 (19%)
Query: 318 INYDETLSTLRYADRAKQIV------------CKAIVNEDANAKLIRELKEEIQRLRDLL 365
IN++E L TL YA+ K CK + + +A+ L E E+I+ + L
Sbjct: 12 INHEEILETLAYAEENKDNKELIDSILEKAAKCKGLTHREASVLLACEDPEKIEEIYKLA 71
Query: 366 KQ 367
+Q
Sbjct: 72 EQ 73
>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional.
Length = 880
Score = 32.0 bits (73), Expect = 0.86
Identities = 27/113 (23%), Positives = 62/113 (54%), Gaps = 14/113 (12%)
Query: 351 IRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGENVDWDFAQVELLEKQGVDL 410
I+ LK+E+++L +L K++ E+++ + + ++AE E + F VE LE++ +L
Sbjct: 541 IKSLKKELEKLEEL-KKKLAELEKKLDELEEELAELLKELEELG--FESVEELEERLKEL 597
Query: 411 K---------QEMQQRLRDLEEQYKREKNEADQAFE--QQRKSSLRRISKQMK 452
+ ++ ++ L E++ K+ + E D+AFE + + L + K+++
Sbjct: 598 EPFYNEYLELKDAEKELEREEKELKKLEEELDKAFEELAETEKRLEELRKELE 650
>gnl|CDD|219318 pfam07167, PhaC_N, Poly-beta-hydroxybutyrate polymerase (PhaC)
N-terminus. This family represents the N-terminal
region of the bacterial poly-beta-hydroxybutyrate
polymerase (PhaC). Polyhydroxyalkanoic acids (PHAs) are
carbon and energy reserve polymers produced in some
bacteria when carbon sources are plentiful and another
nutrient, such as nitrogen, phosphate, oxygen, or
sulfur, becomes limiting. PHAs composed of monomeric
units ranging from 3 to 14 carbons exist in nature. When
the carbon source is exhausted, PHA is utilised by the
bacterium. PhaC links D-(-)-3-hydroxybutyrl-CoA to an
existing PHA molecule by the formation of an ester bond.
This family appears to be a partial segment of an
alpha/beta hydrolase domain.
Length = 172
Score = 30.6 bits (70), Expect = 0.91
Identities = 17/92 (18%), Positives = 35/92 (38%), Gaps = 6/92 (6%)
Query: 346 ANAKLIRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGENVDWDFAQVELLEK 405
++ + EL +E++ L + + ++ +A + N + A E E
Sbjct: 26 LTSRWLMELVDEVEGLDPKTRAR---ARFFVRQLIDALAPSNFLATNPE---ALKETFES 79
Query: 406 QGVDLKQEMQQRLRDLEEQYKREKNEADQAFE 437
G L + ++ DLE + + AFE
Sbjct: 80 GGESLVRGLENLAEDLERGGGKISQTDESAFE 111
>gnl|CDD|216034 pfam00631, G-gamma, GGL domain. G-protein gamma like domains (GGL)
are found in the gamma subunit of the heterotrimeric G
protein complex and in regulators of G protein signaling
(RGS) proteins. It is also found fused to an inactive
Galpha in the Dictyostelium protein gbqA. G-gamma likely
shares a common origin with the helical N-terminal unit
of G-beta. All organisms that posses a G-beta possess a
G-gamma.
Length = 69
Score = 28.8 bits (65), Expect = 1.0
Identities = 11/35 (31%), Positives = 24/35 (68%)
Query: 347 NAKLIRELKEEIQRLRDLLKQEGIEVQEASELIMS 381
++L LK EI++L++ L++E I+V +A + ++
Sbjct: 1 MSQLKLRLKREIEQLKEELERERIKVSKACKELID 35
>gnl|CDD|172540 PRK14048, PRK14048, ferrichrome/ferrioxamine B periplasmic
transporter; Provisional.
Length = 374
Score = 31.4 bits (71), Expect = 1.0
Identities = 15/48 (31%), Positives = 26/48 (54%), Gaps = 2/48 (4%)
Query: 74 YSDIGEEMLEHAFEGYNVCIFAYGQTGAGKSYTMMGRQEVEGEEGIIP 121
+S+ G +L AF + C +AYG+ G G+ + G + + EG +P
Sbjct: 202 HSEPGPTVLMEAFPAADRCCWAYGRGGLGEFIALTGSRNI--AEGALP 247
>gnl|CDD|222374 pfam13779, DUF4175, Domain of unknown function (DUF4175).
Length = 820
Score = 31.4 bits (72), Expect = 1.0
Identities = 10/38 (26%), Positives = 19/38 (50%)
Query: 409 DLKQEMQQRLRDLEEQYKREKNEADQAFEQQRKSSLRR 446
+L++ + +R L EQ +R + DQ +Q L +
Sbjct: 500 ELREALDDYMRQLAEQAQRNPQQGDQPPDQGNSMELTQ 537
>gnl|CDD|217902 pfam04111, APG6, Autophagy protein Apg6. In yeast, 15 Apg proteins
coordinate the formation of autophagosomes. Autophagy is
a bulk degradation process induced by starvation in
eukaryotic cells. Apg6/Vps30p has two distinct functions
in the autophagic process, either associated with the
membrane or in a retrieval step of the carboxypeptidase
Y sorting pathway.
Length = 356
Score = 31.4 bits (71), Expect = 1.1
Identities = 29/140 (20%), Positives = 51/140 (36%), Gaps = 35/140 (25%)
Query: 319 NYDETLSTLRYADRAKQIVCKAIVNEDANAKLIRELKEEIQRLRDLLKQEGIEVQEASEL 378
Y L + I N +A + ELK+E +RL D L++ E +
Sbjct: 50 QYLSKLESQN----------VEISNYEALDSELDELKKEEERLLDELEELEKEDDDLDGE 99
Query: 379 IMSKMAETPNAGENVDWDFAQVELLEKQGVDLKQEMQQRLRDLEEQYKREKNEAD---QA 435
+ L+++ L+ E Q LR+ + R + + Q+
Sbjct: 100 L---------------------VELQEEKEQLENEELQYLREY-NLFDRNNLQLEDNLQS 137
Query: 436 FEQQRKSSLRRISKQMKLSI 455
E Q + SL ++ K K +I
Sbjct: 138 LELQYEYSLNQLDKLRKTNI 157
>gnl|CDD|238839 cd01681, aeEF2_snRNP_like_IV, This family represents domain IV of
archaeal and eukaryotic elongation factor 2 (aeEF-2) and
of an evolutionarily conserved U5 snRNP-specific
protein. U5 snRNP is a GTP-binding factor closely
related to the ribosomal translocase EF-2. In complex
with GTP, EF-2 promotes the translocation step of
translation. During translocation the peptidyl-tRNA is
moved from the A site to the P site of the small subunit
of ribosome and the mRNA is shifted one codon relative
to the ribosome. It has been shown that EF-2_IV domain
mimics the shape of anticodon arm of the tRNA in the
structurally homologous ternary complex of Phe-tRNA,
EF-1 (another transcriptional elongation factor) and GTP
analog. The tip portion of this domain is found in a
position that overlaps the anticodon arm of the A-site
tRNA, implying that EF-2 displaces the A-site tRNA to
the P-site by physical interaction with the anticodon
arm.
Length = 177
Score = 30.2 bits (69), Expect = 1.2
Identities = 11/35 (31%), Positives = 21/35 (60%)
Query: 400 VELLEKQGVDLKQEMQQRLRDLEEQYKREKNEADQ 434
+E +EK + LK + ++R R L ++Y +K A +
Sbjct: 41 IEDIEKGKITLKDDKKKRARILLDKYGWDKLAARK 75
>gnl|CDD|219186 pfam06810, Phage_GP20, Phage minor structural protein GP20. This
family consists of several phage minor structural
protein GP20 sequences of around 180 residues in length.
The function of this family is unknown.
Length = 156
Score = 30.0 bits (68), Expect = 1.2
Identities = 13/51 (25%), Positives = 27/51 (52%), Gaps = 6/51 (11%)
Query: 399 QVELLEKQGVDLK------QEMQQRLRDLEEQYKREKNEADQAFEQQRKSS 443
Q++ +KQ DLK +E+Q+++ L++Q K K E + + ++
Sbjct: 35 QLKNRDKQIEDLKKKVKDNEELQKKIEKLKQQNKTAKEEYEAKLADTKLNN 85
>gnl|CDD|234956 PRK01490, tig, trigger factor; Provisional.
Length = 435
Score = 30.9 bits (71), Expect = 1.3
Identities = 14/94 (14%), Positives = 37/94 (39%), Gaps = 7/94 (7%)
Query: 354 LKEEIQRLRDLLKQEGIEVQEASELIMSKMAETP------NAGENVDWDFAQVELLEKQG 407
+++EI RL Q+G++++ E P A V E+ + +
Sbjct: 306 VEQEIDRLLRQALQQGLDLEGQFLEDTGTTEEEPREEFREQAERRVKLGLLLDEIAKAEE 365
Query: 408 VDLKQ-EMQQRLRDLEEQYKREKNEADQAFEQQR 440
+++ E++ + ++ QY + + + +
Sbjct: 366 IEVSDEEVKAEIEEMASQYGQPPEVIEFYLKNPQ 399
>gnl|CDD|225029 COG2118, COG2118, DNA-binding protein [General function prediction
only].
Length = 116
Score = 29.6 bits (67), Expect = 1.4
Identities = 13/32 (40%), Positives = 21/32 (65%)
Query: 416 QRLRDLEEQYKREKNEADQAFEQQRKSSLRRI 447
QR LEEQ + ++ +A Q E Q+++ LR+I
Sbjct: 18 QRQAKLEEQREAQEEQARQEEEAQKQAILRQI 49
>gnl|CDD|111000 pfam02057, Glyco_hydro_59, Glycosyl hydrolase family 59.
Length = 669
Score = 31.1 bits (70), Expect = 1.4
Identities = 22/54 (40%), Positives = 31/54 (57%), Gaps = 11/54 (20%)
Query: 40 LPPESK---DTHKN-FNFDYSYYSHDPSASNFATQAMV---YSDIGEEMLEHAF 86
LPP+SK +K+ FN DY ++S P NFA Q V +++I E+ EH F
Sbjct: 463 LPPKSKPFPTNYKDDFNVDYPFFSEAP---NFADQTGVFEYFTNI-EDPGEHRF 512
>gnl|CDD|224589 COG1675, TFA1, Transcription initiation factor IIE, alpha subunit
[Transcription].
Length = 176
Score = 30.0 bits (68), Expect = 1.6
Identities = 8/32 (25%), Positives = 17/32 (53%)
Query: 337 VCKAIVNEDANAKLIRELKEEIQRLRDLLKQE 368
C + E +++ I EL+ E+ L + L++
Sbjct: 137 KCGEDLEEYDSSEEIEELESELDELEEELERN 168
>gnl|CDD|219791 pfam08317, Spc7, Spc7 kinetochore protein. This domain is found in
cell division proteins which are required for
kinetochore-spindle association.
Length = 321
Score = 30.4 bits (69), Expect = 1.7
Identities = 28/111 (25%), Positives = 49/111 (44%), Gaps = 24/111 (21%)
Query: 349 KLIRELKEEIQRLRDLLKQEGI----EVQEASELIMSKMAETPNAGENVDWDFAQVELLE 404
K ++ LKEEI LR L + + E+++A + + S + +
Sbjct: 182 KKLQALKEEIASLRQLADELNLCDPLELEKARQELRSLSVK--------------ISEKR 227
Query: 405 KQGVDLKQEMQQRLRDLEE------QYKREKNEADQAFEQQRKSSLRRISK 449
KQ +L+QE+Q+ +E + E EA++ E+ R S + ISK
Sbjct: 228 KQLEELQQELQELTIAIEALTNKKSELLEEIAEAEKIREECRGWSAKEISK 278
>gnl|CDD|217803 pfam03938, OmpH, Outer membrane protein (OmpH-like). This family
includes outer membrane proteins such as OmpH among
others. Skp (OmpH) has been characterized as a molecular
chaperone that interacts with unfolded proteins as they
emerge in the periplasm from the Sec translocation
machinery.
Length = 157
Score = 29.1 bits (66), Expect = 2.4
Identities = 16/117 (13%), Positives = 55/117 (47%), Gaps = 9/117 (7%)
Query: 339 KAIVNEDANAKLIRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGENVDWDFA 398
K + A ++L++E ++L+ L+++ E+Q+ + + + A
Sbjct: 25 KVLSESPAGKAAQKQLEKEFKKLQAELQKKEKELQKEEQKLQKQAA---------TLSEE 75
Query: 399 QVELLEKQGVDLKQEMQQRLRDLEEQYKREKNEADQAFEQQRKSSLRRISKQMKLSI 455
+ +++ +QE+QQ+ + +++ ++++ E Q + +++ ++K+ +
Sbjct: 76 ARKAKQQELQQKQQELQQKQQAAQQELQQKQQELLQPIYDKIDKAIKEVAKEKGYDL 132
>gnl|CDD|129374 TIGR00273, TIGR00273, iron-sulfur cluster-binding protein. Members
of this family have a perfect 4Fe-4S binding motif
C-x(2)-C-x(2)-C-x(3)-CP followed by either a perfect or
imperfect (the first Cys replaced by Ser) second copy.
Members probably bind two 4fe-4S iron-sulfur clusters
[Energy metabolism, Electron transport].
Length = 432
Score = 30.2 bits (68), Expect = 2.4
Identities = 22/66 (33%), Positives = 37/66 (56%), Gaps = 9/66 (13%)
Query: 328 RYADRAKQIVCKAIVNEDANAKLIRELK----EEIQRLRDLLKQEGIEVQEAS--ELIMS 381
+ A+ A++I+ K V ++ N K + + K EEI L ++L++ GIEV E ELI+
Sbjct: 71 KTAEEARKIIGK--VAQEKNGKKVVKSKSMVSEEIG-LNEVLEKIGIEVWETDLGELILQ 127
Query: 382 KMAETP 387
+ P
Sbjct: 128 LDGDPP 133
>gnl|CDD|224477 COG1561, COG1561, Uncharacterized stress-induced protein [Function
unknown].
Length = 290
Score = 29.9 bits (68), Expect = 2.5
Identities = 35/142 (24%), Positives = 65/142 (45%), Gaps = 26/142 (18%)
Query: 326 TLRYADRAKQIVCKAIVNED---ANAKLIRELKEEIQ-----RLRDLLK-------QEGI 370
TLR +R + + +NED L++EL + L DLL+ +E
Sbjct: 65 TLRI-EREESAQKELEINEDLLKQLVTLLKELAAQFDLAAELSLDDLLRLPGVLAIEEEE 123
Query: 371 EVQEA-SELIMSKMAETPNAGENVDWDFAQVELLEKQGVDLKQEMQQRLRDLEEQYKREK 429
E EA LI++ + E + D +E+ E++G LK ++ QRL +EE ++ +
Sbjct: 124 EDLEALEALILAALEEALD-------DL--IEMREREGAALKADLLQRLDAIEELVEKVE 174
Query: 430 NEADQAFEQQRKSSLRRISKQM 451
+ + E R+ + R+++
Sbjct: 175 SLMPEILEWYRERLVARLNEAQ 196
>gnl|CDD|223649 COG0576, GrpE, Molecular chaperone GrpE (heat shock protein)
[Posttranslational modification, protein turnover,
chaperones].
Length = 193
Score = 29.6 bits (67), Expect = 2.6
Identities = 19/77 (24%), Positives = 33/77 (42%), Gaps = 8/77 (10%)
Query: 382 KMAETPNAGENVDWDFAQVELLEKQGVDLKQEMQQRLRDLEEQYKREKNEADQA---FEQ 438
+ E E + E E + + +E QQ + +LE Q + K++ +A FE
Sbjct: 14 EETEEAEKSEEE-----EAEEEEPEEENELEEEQQEIAELEAQLEELKDKYLRAQAEFEN 68
Query: 439 QRKSSLRRISKQMKLSI 455
RK + R + K +I
Sbjct: 69 LRKRTEREREEAKKYAI 85
>gnl|CDD|224755 COG1842, PspA, Phage shock protein A (IM30), suppresses
sigma54-dependent transcription [Transcription / Signal
transduction mechanisms].
Length = 225
Score = 29.6 bits (67), Expect = 2.7
Identities = 32/98 (32%), Positives = 43/98 (43%), Gaps = 23/98 (23%)
Query: 346 ANAKLIRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGENVDWDFAQVELLEK 405
N L RE EE Q L DL K E+Q+A E QVE L+K
Sbjct: 82 GNEDLAREALEEKQSLEDLAKALEAELQQAEE---------------------QVEKLKK 120
Query: 406 QGVDLKQEMQQRLRDLEEQYKREKNEADQAFEQQRKSS 443
Q L+Q++ + LR +E K K A +A E+ +S
Sbjct: 121 QLAALEQKIAE-LRAKKEALKARKAAA-KAQEKVNRSL 156
>gnl|CDD|206728 cd04165, GTPBP1_like, GTP binding protein 1 (GTPBP1)-like family
includes GTPBP2. Mammalian GTP binding protein 1
(GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1
are GTPases whose specific functions remain unknown. In
mouse, GTPBP1 is expressed in macrophages, in smooth
muscle cells of various tissues and in some neurons of
the cerebral cortex; GTPBP2 tissue distribution appears
to overlap that of GTPBP1. In human leukemia and
macrophage cell lines, expression of both GTPBP1 and
GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The
chromosomal location of both genes has been identified
in humans, with GTPBP1 located in chromosome 22q12-13.1
and GTPBP2 located in chromosome 6p21-12. Human
glioblastoma multiforme (GBM), a highly-malignant
astrocytic glioma and the most common cancer in the
central nervous system, has been linked to chromosomal
deletions and a translocation on chromosome 6. The GBM
translocation results in a fusion of GTPBP2 and PTPRZ1,
a protein involved in oligodendrocyte differentiation,
recovery, and survival. This fusion product may
contribute to the onset of GBM.
Length = 224
Score = 29.6 bits (67), Expect = 2.9
Identities = 22/78 (28%), Positives = 34/78 (43%), Gaps = 18/78 (23%)
Query: 175 HDLIDEGN-KARTVAATNMNE-----TSSRSHAVFTIFFTQQ------AVDDMTDL---T 219
+D G KAR + +E TSS S+ + + F + + +L
Sbjct: 21 QGELDNGRGKARLNLFRHKHEVESGRTSSVSNDI--LGFDSDGEVVNYPDNHLGELDVEI 78
Query: 220 TEKVSK-ISLVDLAGSER 236
EK SK ++ +DLAG ER
Sbjct: 79 CEKSSKVVTFIDLAGHER 96
>gnl|CDD|220369 pfam09731, Mitofilin, Mitochondrial inner membrane protein.
Mitofilin controls mitochondrial cristae morphology.
Mitofilin is enriched in the narrow space between the
inner boundary and the outer membranes, where it forms a
homotypic interaction and assembles into a large
multimeric protein complex. The first 78 amino acids
contain a typical amino-terminal-cleavable mitochondrial
presequence rich in positive-charged and hydroxylated
residues and a membrane anchor domain. In addition, it
has three centrally located coiled coil domains.
Length = 493
Score = 30.0 bits (68), Expect = 3.1
Identities = 26/108 (24%), Positives = 45/108 (41%), Gaps = 20/108 (18%)
Query: 343 NEDANAKLIRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGENVDWDFAQVEL 402
+D LI KEE+ +L L + E +E E + + + EL
Sbjct: 158 KDDLE-SLIASAKEELDQLSKKLAELKAEEEEELERALKE---------------KREEL 201
Query: 403 LEKQGVDLKQEMQQRLRDLEEQYK----REKNEADQAFEQQRKSSLRR 446
L K +L ++ + LE+Q + REK E + +E++ + L R
Sbjct: 202 LSKLEEELLARLESKEAALEKQLRLEFEREKEELRKKYEEKLRQELER 249
>gnl|CDD|182904 PRK11020, PRK11020, hypothetical protein; Provisional.
Length = 118
Score = 28.4 bits (64), Expect = 3.6
Identities = 25/97 (25%), Positives = 43/97 (44%), Gaps = 14/97 (14%)
Query: 354 LKEEIQRLRDLL-----KQEGIEVQEASELIMSKMAETPNAGENVDWDFAQVELLEKQGV 408
K EI+RL D L K ++ +E K A+ ++ + A+++ E Q
Sbjct: 3 EKNEIKRLSDRLDAIRHKLAAASLRGDAE----KYAQFEKEKATLEAEIARLK--EVQSQ 56
Query: 409 DLKQEMQQRLRDLEEQYKREKNEADQAFEQQRKSSLR 445
L +E Q+ L L + R + +QA + K S+R
Sbjct: 57 KLSKEAQK-LMKLP--FSRAITKKEQADMGKLKKSVR 90
>gnl|CDD|224212 COG1293, COG1293, Predicted RNA-binding protein homologous to
eukaryotic snRNP [Transcription].
Length = 564
Score = 29.7 bits (67), Expect = 3.8
Identities = 20/136 (14%), Positives = 55/136 (40%), Gaps = 22/136 (16%)
Query: 346 ANAKLIRELKEEIQRLRDLLKQ----------EGIEVQEASELIMSKMAETPNAGENVD- 394
++L ++L++E+++L + L++ E+++ EL+ + + ++V
Sbjct: 283 LASELEKKLEKELKKLENKLEKQEDELEELEKAAEELRQKGELLYANLQLIEEGLKSVRL 342
Query: 395 WDFAQVE---------LLEKQGVDLKQEMQQRLRDLEEQYKREKNEADQAFE--QQRKSS 443
DF E + + ++L+ + R+ +E +A + K++
Sbjct: 343 ADFYGNEEIKIELDKSKTPSENAQRYFKKYKKLKGAKVNLDRQLSELKEAIAYYESAKTA 402
Query: 444 LRRISKQMKLSIGRRE 459
L + + + R E
Sbjct: 403 LEKAEGKKAIEEIREE 418
>gnl|CDD|234173 TIGR03346, chaperone_ClpB, ATP-dependent chaperone ClpB. Members
of this protein family are the bacterial ATP-dependent
chaperone ClpB. This protein belongs to the AAA family,
ATPases associated with various cellular activities
(pfam00004). This molecular chaperone does not act as a
protease, but rather serves to disaggregate misfolded
and aggregated proteins [Protein fate, Protein folding
and stabilization].
Length = 852
Score = 29.5 bits (67), Expect = 3.9
Identities = 41/135 (30%), Positives = 63/135 (46%), Gaps = 29/135 (21%)
Query: 323 TLSTLRY-ADRAKQIVCKAI--VNEDANAKL---IRELKEEIQRLRDLLKQEGIEVQEAS 376
TLS RY DR + KAI ++E A A++ I EE+ L + Q IE +EA
Sbjct: 370 TLSH-RYITDR--FLPDKAIDLIDE-AAARIRMEIDSKPEELDELDRRIIQLEIE-REAL 424
Query: 377 ELIMSKMAETPNAGENVDWDFAQVELLEKQGVDLKQEMQQRLRDLEEQYKREKNEADQAF 436
+ E A + ++E LEK+ +L++E DLEEQ+K EK
Sbjct: 425 K------KEKDEASK------ERLEDLEKELAELEEEYA----DLEEQWKAEKAAIQGI- 467
Query: 437 EQQRKSSLRRISKQM 451
QQ K + ++ ++
Sbjct: 468 -QQIKEEIEQVRLEL 481
>gnl|CDD|184038 PRK13410, PRK13410, molecular chaperone DnaK; Provisional.
Length = 668
Score = 29.6 bits (67), Expect = 4.0
Identities = 17/38 (44%), Positives = 26/38 (68%), Gaps = 4/38 (10%)
Query: 393 VDWDFAQVELLEKQGVDLKQEMQ--QRLRDLEEQYKRE 428
VDW A+ + LEK+G+DL+++ Q QRL + E+ K E
Sbjct: 232 VDW-LAE-QFLEKEGIDLRRDRQALQRLTEAAEKAKIE 267
>gnl|CDD|239517 cd03425, MutT_pyrophosphohydrolase, The MutT pyrophosphohydrolase
is a prototypical Nudix hydrolase that catalyzes the
hydrolysis of nucleoside and deoxynucleoside
triphosphates (NTPs and dNTPs) by substitution at a
beta-phosphorus to yield a nucleotide monophosphate
(NMP) and inorganic pyrophosphate (PPi). This enzyme
requires two divalent cations for activity; one
coordinates the phosphoryl groups of the NTP/dNTP
substrate, and the other coordinates to the enzyme. It
also contains the Nudix motif, a highly conserved
23-residue block (GX5EX7REUXEEXGU, where U = I, L or V),
that functions as metal binding and catalytic site. MutT
pyrophosphohydrolase is important in preventing errors
in DNA replication by hydrolyzing mutagenic nucleotides
such as 8-oxo-dGTP (a product of oxidative damage),
which can mispair with template adenine during DNA
replication, to guanine nucleotides.
Length = 124
Score = 28.2 bits (64), Expect = 4.1
Identities = 13/36 (36%), Positives = 17/36 (47%), Gaps = 13/36 (36%)
Query: 344 EDANAKLIRELKEEIQRLRDLLKQEGIEVQEASELI 379
E A L+REL+EE+ GIEV+ L
Sbjct: 44 EQA---LVRELREEL----------GIEVEVGELLA 66
>gnl|CDD|203842 pfam08032, SpoU_sub_bind, RNA 2'-O ribose methyltransferase
substrate binding. This domain is a RNA 2'-O ribose
methyltransferase substrate binding domain.
Length = 74
Score = 27.2 bits (61), Expect = 4.2
Identities = 12/33 (36%), Positives = 20/33 (60%)
Query: 356 EEIQRLRDLLKQEGIEVQEASELIMSKMAETPN 388
++ L L K+ GI+V E SE ++ K++ T N
Sbjct: 30 PRLKELLKLAKKRGIKVIEVSEKVLDKLSGTVN 62
>gnl|CDD|173953 cd08194, Fe-ADH6, Iron-containing alcohol dehydrogenases-like.
Iron-containing alcohol dehydrogenase-like. Proteins of
this family have not been characterized. Their specific
function is unknown. The protein structure represents a
dehydroquinate synthase-like fold and belongs to the
alcohol dehydrogenase-like superfamily. They are
distinct from other alcohol dehydrogenases which contain
different protein domains. Alcohol dehydrogenase
catalyzes the reduction of acetaldehyde to alcohol with
NADP as cofactor. Its activity requires iron ions.
Length = 375
Score = 29.2 bits (66), Expect = 4.4
Identities = 22/61 (36%), Positives = 33/61 (54%), Gaps = 4/61 (6%)
Query: 328 RYAD--RAKQIVCKAIVNEDANAKLIRELKEEIQRLR-DLLKQEGIEVQEASELIMSKMA 384
RYAD RA + + +A KLI LKE + L L++ GI+ ++A ++ KMA
Sbjct: 291 RYADIARAMGEANEGDSDREAAEKLIEALKELNRELEVPTLREYGID-KDAFMALIPKMA 349
Query: 385 E 385
E
Sbjct: 350 E 350
>gnl|CDD|217817 pfam03961, DUF342, Protein of unknown function (DUF342). This
family of bacterial proteins has no known function. The
proteins are in the region of 500-600 amino acid
residues in length.
Length = 450
Score = 29.5 bits (67), Expect = 4.4
Identities = 23/79 (29%), Positives = 41/79 (51%), Gaps = 6/79 (7%)
Query: 353 ELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGENVDWDFAQVELLEKQGVDLKQ 412
ELKEE++ L + LK+ E+++ +L+ K G+ Q+E L + K+
Sbjct: 331 ELKEELKELEEELKELEEELEKIKKLL--KKLPKKARGQLPPEKREQLEKLLET----KE 384
Query: 413 EMQQRLRDLEEQYKREKNE 431
++ + L +LEE+ K K E
Sbjct: 385 KLSEELEELEEELKELKEE 403
>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 908
Score = 29.7 bits (67), Expect = 4.4
Identities = 27/122 (22%), Positives = 51/122 (41%), Gaps = 17/122 (13%)
Query: 346 ANAKLIRELKEEIQRLRDLL---KQEGIEVQEASELIMSKMAETPNAGENVDWDFAQVEL 402
+ K EL+EEI+ L L ++E IE+ E E + ++ E EN+ + EL
Sbjct: 491 SREKEEAELREEIEELEKELRELEEELIELLELEEALKEELEEKLEKLENLLEELE--EL 548
Query: 403 LEKQGVDLKQEMQQRLRDLEEQYKREKNEADQAF------------EQQRKSSLRRISKQ 450
EK + +E ++L D ++ K E ++ K L+ + ++
Sbjct: 549 KEKLQLQQLKEELRQLEDRLQELKELLEELRLLRTRKEELEELRERLKELKKKLKELEER 608
Query: 451 MK 452
+
Sbjct: 609 LS 610
Score = 29.0 bits (65), Expect = 6.1
Identities = 12/92 (13%), Positives = 38/92 (41%), Gaps = 4/92 (4%)
Query: 348 AKLIRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGENVDWDFAQVELLEKQG 407
+ I L+E + L + ++ E+ ++ A + + + ++E L ++
Sbjct: 231 EQEIEALEERLAELEEEKERLEELKARLLEIESLEL----EALKIREEELRELERLLEEL 286
Query: 408 VDLKQEMQQRLRDLEEQYKREKNEADQAFEQQ 439
+ + +++ R++EE + + E +
Sbjct: 287 EEKIERLEELEREIEELEEELEGLRALLEELE 318
Score = 28.6 bits (64), Expect = 8.9
Identities = 24/99 (24%), Positives = 56/99 (56%), Gaps = 4/99 (4%)
Query: 343 NEDANAKLIRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGENVDWDFAQVEL 402
+ + I EL+EE++ LR LL++ ++E E + S E ++ +++E
Sbjct: 292 RLEELEREIEELEEELEGLRALLEE----LEELLEKLKSLEERLEKLEEKLEKLESELEE 347
Query: 403 LEKQGVDLKQEMQQRLRDLEEQYKREKNEADQAFEQQRK 441
L ++ +L + +++RL++LEE+ + + E ++A E+ ++
Sbjct: 348 LAEEKNELAKLLEERLKELEERLEELEKELEKALERLKQ 386
>gnl|CDD|203149 pfam05008, V-SNARE, Vesicle transport v-SNARE protein N-terminus.
V-SNARE proteins are required for protein traffic
between eukaryotic organelles. The v-SNAREs on transport
vesicles interact with t-SNAREs on target membranes in
order to facilitate this. This domain is the N-terminal
half of the V-Snare proteins.
Length = 79
Score = 27.2 bits (61), Expect = 4.5
Identities = 7/28 (25%), Positives = 15/28 (53%)
Query: 349 KLIRELKEEIQRLRDLLKQEGIEVQEAS 376
+RE++ ++ +LL Q +EV+
Sbjct: 25 AALREIERKLDEAEELLDQMELEVRNLP 52
>gnl|CDD|222417 pfam13851, GAS, Growth-arrest specific micro-tubule binding. This
family is the highly conserved central region of a
number of metazoan proteins referred to as growth-arrest
proteins. In mouse, Gas8 is predominantly a testicular
protein, whose expression is developmentally regulated
during puberty and spermatogenesis. In humans, it is
absent in infertile males who lack the ability to
generate gametes. The localisation of Gas8 in the
motility apparatus of post-meiotic gametocytes and
mature spermatozoa, together with the detection of Gas8
also in cilia at the apical surfaces of epithelial cells
lining the pulmonary bronchi and Fallopian tubes
suggests that the Gas8 protein may have a role in the
functioning of motile cellular appendages. Gas8 is a
microtubule-binding protein localised to regions of
dynein regulation in mammalian cells.
Length = 201
Score = 28.7 bits (65), Expect = 4.6
Identities = 30/115 (26%), Positives = 58/115 (50%), Gaps = 8/115 (6%)
Query: 343 NEDANAKLIRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGENVDWDFAQVEL 402
NE+ N KL+ E+ +E +RL + LK+ EV+E + + + +N+ A+++
Sbjct: 42 NEEHNEKLMAEIAQENKRLVEPLKKAEEEVEEL-RKKLKDYEKDKQSLKNLK---ARLKE 97
Query: 403 LEKQGVDLKQE---MQQRLRDLEEQYKR-EKNEADQAFEQQRKSSLRRISKQMKL 453
LEK+ +LK E ++QR +E + + Q+K+ L+ + + KL
Sbjct: 98 LEKELKNLKWESEVLEQRFEKVERERDELYDKFEAAIQDVQQKTGLKNLLLEQKL 152
>gnl|CDD|235809 PRK06464, PRK06464, phosphoenolpyruvate synthase; Validated.
Length = 795
Score = 29.3 bits (67), Expect = 4.9
Identities = 11/35 (31%), Positives = 21/35 (60%), Gaps = 3/35 (8%)
Query: 356 EEIQRLRDLLKQEGIEVQEAS-ELIMSKMAETPNA 389
EE +++ +LL + G++ E ++IM M E P+
Sbjct: 649 EEAEKVIELLAENGLKRGENGLKVIM--MCEIPSN 681
>gnl|CDD|179798 PRK04239, PRK04239, hypothetical protein; Provisional.
Length = 110
Score = 27.5 bits (62), Expect = 5.5
Identities = 11/36 (30%), Positives = 23/36 (63%), Gaps = 1/36 (2%)
Query: 412 QEMQQRLRDLEEQYKREKNEADQAFEQQRKSSLRRI 447
+E+Q++ ++Q + E+ EA E Q+++ LR+I
Sbjct: 12 EELQKQ-AQEQQQAQEEQEEAQAQAEAQKQAILRQI 46
>gnl|CDD|130492 TIGR01425, SRP54_euk, signal recognition particle protein SRP54.
This model represents examples from the eukaryotic
cytosol of the signal recognition particle protein
component, SRP54. This GTP-binding protein is a
component of the eukaryotic signal recognition particle,
along with several other protein subunits and a 7S RNA.
Some species, including Arabidopsis, have several
closely related forms. The extreme C-terminal region is
glycine-rich and lower in complexity, poorly conserved
between species, and excluded from this model.
Length = 429
Score = 29.0 bits (65), Expect = 5.7
Identities = 20/62 (32%), Positives = 38/62 (61%), Gaps = 6/62 (9%)
Query: 303 GNSKTAMIAAISPADINYDETLSTLRYADRAKQIVCKAIVNEDANAKLIRELKEEIQRLR 362
G+S T+ + ++S A + +E L+ + K+I C A++ D N KL+R+L+E I++
Sbjct: 6 GSSITSALRSMSNATVIDEEVLNAM-----LKEI-CTALLESDVNIKLVRQLRENIKKAI 59
Query: 363 DL 364
+L
Sbjct: 60 NL 61
>gnl|CDD|224006 COG1080, PtsA, Phosphoenolpyruvate-protein kinase (PTS system EI
component in bacteria) [Carbohydrate transport and
metabolism].
Length = 574
Score = 29.1 bits (66), Expect = 5.7
Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 2/39 (5%)
Query: 351 IRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNA 389
IR K ++ + L+ EG+ E EL + M E P+A
Sbjct: 400 IRWAKALLEEAKQELRAEGLAFDEKIELGI--MIEVPSA 436
>gnl|CDD|203007 pfam04423, Rad50_zn_hook, Rad50 zinc hook motif. The Mre11 complex
(Mre11 Rad50 Nbs1) is central to chromosomal maintenance
and functions in homologous recombination, telomere
maintenance and sister chromatid association. The Rad50
coiled-coil region contains a dimer interface at the
apex of the coiled coils in which pairs of conserved
Cys-X-X-Cys motifs form interlocking hooks that bind one
Zn ion. This alignment includes the zinc hook motif and
a short stretch of coiled-coil on either side.
Length = 54
Score = 26.1 bits (58), Expect = 6.1
Identities = 13/30 (43%), Positives = 21/30 (70%)
Query: 337 VCKAIVNEDANAKLIRELKEEIQRLRDLLK 366
VC ++E+ +LI+ELK E++RL + LK
Sbjct: 25 VCGRPLDEEHKQELIKELKSELRRLPEELK 54
>gnl|CDD|234141 TIGR03185, DNA_S_dndD, DNA sulfur modification protein DndD. This
model describes the DndB protein encoded by an operon
associated with a sulfur-containing modification to DNA.
The operon is sporadically distributed in bacteria, much
like some restriction enzyme operons. DndD is described
as a putative ATPase. The small number of examples known
so far include species from among the Firmicutes,
Actinomycetes, Proteobacteria, and Cyanobacteria [DNA
metabolism, Restriction/modification].
Length = 650
Score = 28.9 bits (65), Expect = 6.4
Identities = 29/172 (16%), Positives = 63/172 (36%), Gaps = 20/172 (11%)
Query: 292 VLTWLLRENLGGNSKTAM---IAAISPA---DINYDETLSTLRYA--DRAKQIVCKAIVN 343
+L L + L + +A I D LS + Q V + + +
Sbjct: 332 LLESLPKLALPAEHVKEIAAELAEIDKPATTDSEIPHRLSGSELTQLEVLIQQVKRELQD 391
Query: 344 EDAN-AKLIRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGENVDWDFAQVEL 402
+ K +REL+EE+ + K I +E ++ ++ E N + + E
Sbjct: 392 AKSQLLKELRELEEELAEVD--KKISTIPSEEQIAQLLEELGEAQN-------ELFRSEA 442
Query: 403 LEKQGVDLKQEMQQRLRDLEEQYKREKNEADQAFEQQRKSSLRRISKQMKLS 454
++ + + +++ + L + + + AFE +R ++ K K
Sbjct: 443 EIEELLRQLETLKEAIEALRKTLDEKTKQKINAFELER--AITIADKAKKTL 492
>gnl|CDD|204237 pfam09413, DUF2007, Domain of unknown function (DUF2007). This is
a family of proteins with unknown function.
Length = 67
Score = 26.4 bits (59), Expect = 7.6
Identities = 9/34 (26%), Positives = 13/34 (38%)
Query: 357 EIQRLRDLLKQEGIEVQEASELIMSKMAETPNAG 390
E L+ LL++ GI E + E G
Sbjct: 11 EASMLKGLLEEAGIPCFIKDEFMSGAAGELGAGG 44
>gnl|CDD|233302 TIGR01176, fum_red_Fp, fumarate reductase, flavoprotein subunit.
The terms succinate dehydrogenase and fumarate reductase
may be used interchangeably in certain systems. However,
a number of species have distinct complexes, with the
fumarate reductase active under anaerobic conditions.
This model represents the fumarate reductase
flavoprotein subunit from several such species in which
a distinct succinate dehydrogenase is also found. Not
all bona fide fumarate reductases will be found by this
model.
Length = 580
Score = 28.7 bits (64), Expect = 8.0
Identities = 23/95 (24%), Positives = 41/95 (43%), Gaps = 15/95 (15%)
Query: 334 KQIVCKAIVNEDANAKLIR-ELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGEN 392
+ +A ++ +N IR + + RL LL Q G E I ++M T +G
Sbjct: 407 EAAAERAARHQKSNESAIRAQARTVELRLERLLSQHG---GENWADIRAEMGATMESGCG 463
Query: 393 VDWDFAQVELLEKQGVDLKQEMQQRLRDLEEQYKR 427
+ + G L Q+ +L +L+E++KR
Sbjct: 464 I----------YRDG-PLMQKTIDKLAELQERFKR 487
>gnl|CDD|221919 pfam13094, CENP-Q, CENP-A-nucleosome distal (CAD) centromere
subunit. CENP-Q is one of the components that assembles
onto the CENP-A-nucleosome distal (CAD) centromere. The
centromere, which is the basic element of chromosome
inheritance, is epigenetically determined in mammals.
CENP-A, the centromere-specific histone H3 variant,
assembles an array of nucleosomes and it is this that
seems to be the prime candidate for specifying
centromere identity. CENP-A nucleosomes directly recruit
a proximal CENP-A nucleosome associated complex (NAC)
comprised of CENP-M, CENP-N and CENP-T, CENP-U(50),
CENP-C and CENP-H. Assembly of the CENP-A NAC at
centromeres is dependent on CENP-M, CENP-N and CENP-T.
Additionally, there are seven other subunits which make
up the CENP-A-nucleosome distal (CAD) centromere,
CENP-K, CENP-L, CENP-O, CENP-P, CENP-Q, CENP-R and
CENP-S, also assembling on the CENP-A NAC. Fta7 is the
equivalent component of the fission yeast Sim4 complex.
Length = 159
Score = 27.7 bits (62), Expect = 8.7
Identities = 15/76 (19%), Positives = 31/76 (40%), Gaps = 8/76 (10%)
Query: 349 KLIRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGENVDWDFAQVELLEKQGV 408
+ ++EL++ + L ++E + L+ S++ E + Q LLE
Sbjct: 62 EYLQELEKNAKALEREREEESKNLHPVLRLLESEVLEEN--------ELLQDSLLELSER 113
Query: 409 DLKQEMQQRLRDLEEQ 424
+ + L DL +Q
Sbjct: 114 NFSPNLDPELLDLLKQ 129
>gnl|CDD|163189 TIGR03233, DNA_S_dndB, DNA sulfur modification protein DndB. This
model describes the DndB protein encoded by an operon
associated with a sulfur-containing modification to DNA.
The operon is sporadically distributed in bacteria, much
like some restriction enzyme operons. DndB is described
as a putative ATPase [DNA metabolism,
Restriction/modification].
Length = 355
Score = 28.2 bits (63), Expect = 9.1
Identities = 17/76 (22%), Positives = 29/76 (38%), Gaps = 10/76 (13%)
Query: 345 DANAKLIRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGENVDWDFAQVELLE 404
D A L +E+ E + + L++ E + + S + + A A LL
Sbjct: 172 DDLALLTKEIIERSEIFKKLVEMEKSNLSKRSRKLFTLSA----------LYKANKYLLG 221
Query: 405 KQGVDLKQEMQQRLRD 420
K+G D E Q +
Sbjct: 222 KRGKDNITEAIQFAFE 237
>gnl|CDD|240044 cd04688, Nudix_Hydrolase_29, Members of the Nudix hydrolase
superfamily catalyze the hydrolysis of NUcleoside
DIphosphates linked to other moieties, X. Enzymes
belonging to this superfamily require a divalent cation,
such as Mg2+ or Mn2+, for their activity and contain a
highly conserved 23-residue nudix motif
(GX5EX7REUXEEXGU, where U = I, L or V), which functions
as a metal binding and catalytic site. Substrates of
nudix hydrolases include intact and oxidatively damaged
nucleoside triphosphates, dinucleoside polyphosphates,
nucleotide-sugars and dinucleotide enzymes. These
substrates are metabolites or cell signaling molecules
that require regulation during different stages of the
cell cycle or during periods of stress. In general, the
role of the nudix hydrolase is to sanitize the
nucleotide pools and to maintain cell viability, thereby
serving as surveillance & "house-cleaning" enzymes.
Substrate specificity is used to define families within
the superfamily. Differences in substrate specificity
are determined by the N-terminal extension or by
residues in variable loop regions. Mechanistically,
substrate hydrolysis occurs by a nucleophilic
substitution reaction, with variation in the numbers and
roles of divalent cations required.
Length = 126
Score = 27.3 bits (61), Expect = 9.1
Identities = 8/17 (47%), Positives = 10/17 (58%)
Query: 342 VNEDANAKLIRELKEEI 358
E + LIRE KEE+
Sbjct: 34 FGESSEEALIREFKEEL 50
>gnl|CDD|233186 TIGR00920, 2A060605, 3-hydroxy-3-methylglutaryl-coenzyme A
reductase. [Transport and binding proteins,
Carbohydrates, organic alcohols, and acids].
Length = 889
Score = 28.7 bits (64), Expect = 9.4
Identities = 25/71 (35%), Positives = 33/71 (46%), Gaps = 21/71 (29%)
Query: 315 PADINYDETLSTLRYADRAKQIVCKAIVNEDANAKLIRE-LKEEIQRLRDLLKQEGIEVQ 373
PA IN+ E R K +VC+AIV AK++RE LK + L ++V
Sbjct: 693 PAAINWIE--------GRGKSVVCEAIV----PAKIVREVLKTSTEAL--------VDVN 732
Query: 374 EASELIMSKMA 384
LI S MA
Sbjct: 733 INKNLIGSAMA 743
>gnl|CDD|235505 PRK05563, PRK05563, DNA polymerase III subunits gamma and tau;
Validated.
Length = 559
Score = 28.3 bits (64), Expect = 9.6
Identities = 9/28 (32%), Positives = 21/28 (75%)
Query: 358 IQRLRDLLKQEGIEVQEASELIMSKMAE 385
++RL+ +L +EGIE ++ + ++++ AE
Sbjct: 184 VERLKYILDKEGIEYEDEALRLIARAAE 211
>gnl|CDD|236421 PRK09231, PRK09231, fumarate reductase flavoprotein subunit;
Validated.
Length = 582
Score = 28.4 bits (64), Expect = 9.6
Identities = 27/98 (27%), Positives = 44/98 (44%), Gaps = 20/98 (20%)
Query: 330 ADRAKQIVCKAIVNEDANAKLIRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNA 389
A+RA NE A L + + QRL+ L+ QEG E I +M +
Sbjct: 411 AERAATA---GPGNEAA---LDAQAADVEQRLKALVNQEGGENWAK---IRDEMGLSMEE 461
Query: 390 GENVDWDFAQVELLEKQGVDLKQEMQQRLRDLEEQYKR 427
G + + EL++K +D +L +L+E++KR
Sbjct: 462 GCGI---YRTPELMQKT-ID-------KLAELKERFKR 488
>gnl|CDD|220614 pfam10174, Cast, RIM-binding protein of the cytomatrix active zone.
This is a family of proteins that form part of the CAZ
(cytomatrix at the active zone) complex which is
involved in determining the site of synaptic vesicle
fusion. The C-terminus is a PDZ-binding motif that binds
directly to RIM (a small G protein Rab-3A effector). The
family also contains four coiled-coil domains.
Length = 774
Score = 28.4 bits (63), Expect = 9.8
Identities = 34/147 (23%), Positives = 55/147 (37%), Gaps = 16/147 (10%)
Query: 321 DETLSTLRYADRAKQIVCKAIVNEDANAKLIRELKEEIQRLRDLLKQEGIEVQEASELIM 380
DE + L ++K + KA + IRE +++ L LL+Q+ E E I
Sbjct: 155 DEEIKKLLEMLQSKGLSAKAEEEDSERLGRIREAEDQQSHLEVLLEQKEKEHMMLREEIH 214
Query: 381 SKMAETPNAGENVDWDFAQVELLEK--QGVDLKQ-EMQQRLRDLEEQYKREK-----NEA 432
K+ D A+ E +K D K E ++ L E + R + +EA
Sbjct: 215 QKLQMER--------DDAKTEASQKLIDEKDTKIKEFEKMLEKAENEIYRLQSRCDTSEA 266
Query: 433 DQAFEQQRKSSLRRISKQMKLSIGRRE 459
D+ + + R MK R
Sbjct: 267 DRNRLDKEVEAERSALAAMKAKCDRAA 293
>gnl|CDD|223716 COG0643, CheA, Chemotaxis protein histidine kinase and related
kinases [Cell motility and secretion / Signal
transduction mechanisms].
Length = 716
Score = 28.5 bits (64), Expect = 10.0
Identities = 22/111 (19%), Positives = 40/111 (36%), Gaps = 10/111 (9%)
Query: 342 VNEDANAKLIRELKEEIQRLRDLLKQEGIEVQEASELIMSKMAETPNAGENVDWDFAQ-- 399
V DA + E ++ + + E A +S + P A A
Sbjct: 268 VELDAELLELAESEQAADDVLAAQAEPLAEKSAAEAAKLSALEAAPAAKAAAAAAGASSS 327
Query: 400 ----VELLEKQGVDLKQEM---QQRLRDLEEQYKREKNEADQAFEQQRKSS 443
VE L++ ++L E+ + RL L + + E D+A Q + +
Sbjct: 328 IRVDVEKLDRL-MNLVGELVITRSRLSQLASELDEVREELDEALRQLSRLT 377
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 0.129 0.356
Gapped
Lambda K H
0.267 0.0677 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 22,904,849
Number of extensions: 2241365
Number of successful extensions: 3793
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3568
Number of HSP's successfully gapped: 293
Length of query: 459
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 359
Effective length of database: 6,502,202
Effective search space: 2334290518
Effective search space used: 2334290518
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 (22.0 bits)
S2: 61 (27.4 bits)