RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8840
(355 letters)
>gnl|CDD|238667 cd01371, KISc_KIF3, Kinesin motor domain, kinesins II or KIF3_like
proteins. Subgroup of kinesins, which form heterotrimers
composed of 2 kinesins and one non-motor accessory
subunit. Kinesins II play important roles in ciliary
transport, and have been implicated in neuronal
transport, melanosome transport, the secretory pathway,
and mitosis. This catalytic (head) domain has ATPase
activity and belongs to the larger group of P-loop
NTPases. Kinesins are microtubule-dependent molecular
motors that play important roles in intracellular
transport and in cell division. In this group the motor
domain is found at the N-terminus (N-type). N-type
kinesins are (+) end-directed motors, i.e. they
transport cargo towards the (+) end of the microtubule.
Kinesin motor domains hydrolyze ATP at a rate of about
80 per second, and move along the microtubule at a speed
of about 6400 Angstroms per second. To achieve that,
kinesin head groups work in pairs. Upon replacing ADP
with ATP, a kinesin motor domain increases its affinity
for microtubule binding and locks in place. Also, the
neck linker binds to the motor domain, which repositions
the other head domain through the coiled-coil domain
close to a second tubulin dimer, about 80 Angstroms
along the microtubule. Meanwhile, ATP hydrolysis takes
place, and when the second head domain binds to the
microtubule, the first domain again replaces ADP with
ATP, triggering a conformational change that pulls the
first domain forward.
Length = 333
Score = 417 bits (1075), Expect = e-147
Identities = 168/234 (71%), Positives = 197/234 (84%), Gaps = 1/234 (0%)
Query: 8 GSKESAESKGVIPNSFDQIFSHIARTENKQYLIRASYLEIYQEEIRDLLDKDQSKRYELR 67
G +E E +G+IPNSF IF HIA+ EN Q+L+R SYLEIY EE+RDLL KDQ K+ EL+
Sbjct: 101 GVREPPELRGIIPNSFAHIFGHIAKAENVQFLVRVSYLEIYNEEVRDLLGKDQKKKLELK 160
Query: 68 ENPDSGVYVKNLQSYICKNVKEIEQVMQNGNFNRTIGATNMNEHSSRSHAIFIITIEMSD 127
E PD GVYVK+L ++ KN +E++++M GN NR++GATNMNE SSRSH+IF ITIE S+
Sbjct: 161 ERPDRGVYVKDLSMFVVKNAEEMDKLMTLGNKNRSVGATNMNEDSSRSHSIFTITIECSE 220
Query: 128 VREDSSMSQVRVGKLNLVDLAGSERQSKTGATGKRLKEASKINLSLSALGNVISALVDGK 187
ED +RVGKLNLVDLAGSERQSKTGATG RLKEA+KINLSLSALGNVISALVDGK
Sbjct: 221 KGEDGENH-IRVGKLNLVDLAGSERQSKTGATGDRLKEATKINLSLSALGNVISALVDGK 279
Query: 188 NIHVPYRDSKLTRLLQDSLGGNSKTLMIANIGPASYNYEESLTTLRYANRAKNI 241
+ H+PYRDSKLTRLLQDSLGGNSKT+M ANIGPA YNY+E+L+TLRYANRAKNI
Sbjct: 280 STHIPYRDSKLTRLLQDSLGGNSKTVMCANIGPADYNYDETLSTLRYANRAKNI 333
>gnl|CDD|215803 pfam00225, Kinesin, Kinesin motor domain.
Length = 326
Score = 341 bits (878), Expect = e-117
Identities = 131/232 (56%), Positives = 168/232 (72%), Gaps = 7/232 (3%)
Query: 14 ESKGVIPNSFDQIFSHIARTENKQ--YLIRASYLEIYQEEIRDLLDKDQSKR-YELRENP 70
E G+IP + + +F I + ++ + +R SYLEIY E+I DLL K+ +RE+P
Sbjct: 98 EEPGIIPRALEDLFERIEERKERKWSFSVRVSYLEIYNEKIYDLLSPSSKKKKLRIREDP 157
Query: 71 DSGVYVKNLQSYICKNVKEIEQVMQNGNFNRTIGATNMNEHSSRSHAIFIITIEMSDVRE 130
GVYVK L + +E+ ++++ GN NRT+ +TNMNE SSRSHAIF IT+E +
Sbjct: 158 KKGVYVKGLTEVEVTSAEEVLELLELGNKNRTVASTNMNEESSRSHAIFTITVEQRNR-- 215
Query: 131 DSSMSQVRVGKLNLVDLAGSERQSKTGATGK-RLKEASKINLSLSALGNVISALVDGKNI 189
+ V+ GKLNLVDLAGSER SKTGA G RLKEA+ IN SLSALGNVI+AL + ++
Sbjct: 216 -DTDGSVKTGKLNLVDLAGSERASKTGAAGGRRLKEAANINKSLSALGNVINALAENQSS 274
Query: 190 HVPYRDSKLTRLLQDSLGGNSKTLMIANIGPASYNYEESLTTLRYANRAKNI 241
H+PYRDSKLTRLLQDSLGGNSKTLMIANI P+ NYEE+L+TLR+A+RAKNI
Sbjct: 275 HIPYRDSKLTRLLQDSLGGNSKTLMIANISPSDSNYEETLSTLRFASRAKNI 326
>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 = 341 bits (876), Expect = e-116
Identities = 140/247 (56%), Positives = 175/247 (70%), Gaps = 8/247 (3%)
Query: 4 YMIIGSKESAESKGVIPNSFDQIFSHIA-RTENKQYLIRASYLEIYQEEIRDLLDKDQSK 62
Y +IG+ +S G+IP + +F I R E Q+ ++ SYLEIY E+IRDLL+ SK
Sbjct: 95 YTMIGTPDS---PGIIPRALKDLFEKIDKREEGWQFSVKVSYLEIYNEKIRDLLNPS-SK 150
Query: 63 RYELRENPDSGVYVKNLQSYICKNVKEIEQVMQNGNFNRTIGATNMNEHSSRSHAIFIIT 122
+ E+RE+ GVYVK L + +E+ +++ GN NRT+ AT MNE SSRSHA+F IT
Sbjct: 151 KLEIREDEKGGVYVKGLTEISVSSFEEVYNLLEKGNKNRTVAATKMNEESSRSHAVFTIT 210
Query: 123 IEMSDVREDSSMSQVRVGKLNLVDLAGSERQSKTGATGKRLKEASKINLSLSALGNVISA 182
+E +SS + KLNLVDLAGSER KTGA G RLKEA IN SLSALGNVI+A
Sbjct: 211 VEQKIK--NSSSGSGKASKLNLVDLAGSERAKKTGAEGDRLKEAGNINKSLSALGNVINA 268
Query: 183 LVD-GKNIHVPYRDSKLTRLLQDSLGGNSKTLMIANIGPASYNYEESLTTLRYANRAKNI 241
L K+ H+PYRDSKLTRLLQDSLGGNSKTLMIAN+ P+S N EE+L+TLR+A+RAK I
Sbjct: 269 LAQHSKSRHIPYRDSKLTRLLQDSLGGNSKTLMIANVSPSSSNLEETLSTLRFASRAKEI 328
Query: 242 KNQPRVN 248
KN+P VN
Sbjct: 329 KNKPIVN 335
>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 = 314 bits (807), Expect = e-106
Identities = 129/240 (53%), Positives = 163/240 (67%), Gaps = 9/240 (3%)
Query: 4 YMIIGSKESAESKGVIPNSFDQIFSHIA--RTENKQYLIRASYLEIYQEEIRDLLDKD-Q 60
Y + GS + G+IP + + +F+ I + +NK + + SYLEIY E++ DLL +
Sbjct: 94 YTMFGSPKDP---GIIPRALEDLFNLIDERKEKNKSFSVSVSYLEIYNEKVYDLLSPEPP 150
Query: 61 SKRYELRENPDSGVYVKNLQSYICKNVKEIEQVMQNGNFNRTIGATNMNEHSSRSHAIFI 120
SK LRE+P GVYVK L + ++ ++Q G NRT +T MNE SSRSHAIF
Sbjct: 151 SKPLSLREDPKGGVYVKGLTEVEVGSAEDALSLLQKGLKNRTTASTAMNERSSRSHAIFT 210
Query: 121 ITIEMSDVREDSSMSQVRVGKLNLVDLAGSERQSKTGATGKRLKEASKINLSLSALGNVI 180
I +E + + ++ KLNLVDLAGSER KTGA G RLKEA IN SLSALGNVI
Sbjct: 211 IHVEQRNT--TNDGRSIKSSKLNLVDLAGSERAKKTGAEGDRLKEAKNINKSLSALGNVI 268
Query: 181 SALVDGKNI-HVPYRDSKLTRLLQDSLGGNSKTLMIANIGPASYNYEESLTTLRYANRAK 239
SAL G+ H+PYRDSKLTRLLQDSLGGNSKTLMIANI P+S NY+E+L+TLR+A+RAK
Sbjct: 269 SALSSGQKKKHIPYRDSKLTRLLQDSLGGNSKTLMIANISPSSENYDETLSTLRFASRAK 328
>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 = 290 bits (745), Expect = 1e-96
Identities = 119/256 (46%), Positives = 167/256 (65%), Gaps = 14/256 (5%)
Query: 4 YMIIGSKESAESKGVIPNSFDQIFSHIARTENK--QYLIRASYLEIYQEEIRDLLDKDQS 61
Y ++G KE KG+IP +++F I + + Y + SY+EIY E++RDLL+ +
Sbjct: 104 YTMMGYKEE---KGIIPRLCEELFQRIESKKEQNLSYEVEVSYMEIYNEKVRDLLNPKKK 160
Query: 62 KRYEL--RENPDSGVYVKNLQSYICKNVKEIEQVMQNGNFNRTIGATNMNEHSSRSHAIF 119
+ L RE+P G YV++L + ++I+ +++ GN +RT +TNMN+ SSRSHA+F
Sbjct: 161 NKGNLKVREHPVLGPYVEDLSKVAVTSYEDIQNLLEEGNKSRTTASTNMNDTSSRSHAVF 220
Query: 120 IITIEMSDVREDSSMSQVRVGKLNLVDLAGSERQSKTGATGKRLKEASKINLSLSALGNV 179
I + + +++ ++ +V K++LVDLAGSER S TGA G RLKE S IN SL+ LG V
Sbjct: 221 TIVLTQKKLDKETDLTTEKVSKISLVDLAGSERASSTGAEGDRLKEGSNINKSLTTLGKV 280
Query: 180 ISALVD-------GKNIHVPYRDSKLTRLLQDSLGGNSKTLMIANIGPASYNYEESLTTL 232
ISAL D K+ +PYRDS LT LL+++LGGNSKT MIA I PA NYEE+L+TL
Sbjct: 281 ISALADNSSAKSKKKSSFIPYRDSVLTWLLKENLGGNSKTAMIATISPADINYEETLSTL 340
Query: 233 RYANRAKNIKNQPRVN 248
RYA+RAK I N VN
Sbjct: 341 RYADRAKKIVNVAVVN 356
>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 = 288 bits (739), Expect = 5e-96
Identities = 115/234 (49%), Positives = 152/234 (64%), Gaps = 9/234 (3%)
Query: 14 ESKGVIPNSFDQIFSHIARTENK--QYLIRASYLEIYQEEIRDLL--DKDQSKRYELREN 69
E+ G+IP + +Q+F+ + K Y I AS LEIY E IRDLL K+ E++ +
Sbjct: 100 ENPGIIPRALEQLFNTAEELKEKGWSYTITASMLEIYNETIRDLLATKPAPKKKLEIKHD 159
Query: 70 PDSGVYVKNLQSYICKNVKEIEQVMQNGNFNRTIGATNMNEHSSRSHAIFIITIEMSDVR 129
YV NL + +E+ +++ G+ NR++ +TNMNEHSSRSHA+F + I
Sbjct: 160 SKGETYVTNLTEVPVSSPEEVTRLLNLGSKNRSVASTNMNEHSSRSHAVFQLKIRG---- 215
Query: 130 EDSSMSQVRVGKLNLVDLAGSERQSKTGATGKRLKEASKINLSLSALGNVISALVDGKNI 189
+ + GKLNLVDLAGSER K+GATG RLKEA IN SLSALG+VISAL K+
Sbjct: 216 TNLQTGEQTRGKLNLVDLAGSERLKKSGATGDRLKEAQAINKSLSALGDVISALRS-KDS 274
Query: 190 HVPYRDSKLTRLLQDSLGGNSKTLMIANIGPASYNYEESLTTLRYANRAKNIKN 243
HVPYR+SKLT LLQDSLGGNSKTLM NI P N E+L +LR+A+R ++++
Sbjct: 275 HVPYRNSKLTYLLQDSLGGNSKTLMFVNISPLESNLSETLCSLRFASRVRSVEL 328
>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 = 288 bits (738), Expect = 5e-96
Identities = 124/239 (51%), Positives = 163/239 (68%), Gaps = 6/239 (2%)
Query: 4 YMIIGSKESAESKGVIPNSFDQIFSHI-ARTENKQYLIRASYLEIYQEEIRDLLDKDQSK 62
Y + G E KG+IP IF HI + EN ++ ++ SYLEIY E+IRDLLD
Sbjct: 92 YTMEGPPGDPELKGIIPRIVHDIFEHISSMDENLEFHVKVSYLEIYMEKIRDLLDV-SKD 150
Query: 63 RYELRENPDSGVYVKNLQSYICKNVKEIEQVMQNGNFNRTIGATNMNEHSSRSHAIFIIT 122
++ E+ + GVYVK L + +E+ +V+ G NR + +TNMNE SSRSH+IF+IT
Sbjct: 151 NLQVHEDKNRGVYVKGLTERFVSSPEEVLEVINEGKSNRAVASTNMNEESSRSHSIFLIT 210
Query: 123 IEMSDVREDSSMSQVRVGKLNLVDLAGSERQSKTGATGKRLKEASKINLSLSALGNVISA 182
++ +E+ + GKL LVDLAGSE+ SKTGA G+ L+EA KIN SLSALGNVI+A
Sbjct: 211 LK----QENVETGSKKRGKLFLVDLAGSEKVSKTGAEGQTLEEAKKINKSLSALGNVINA 266
Query: 183 LVDGKNIHVPYRDSKLTRLLQDSLGGNSKTLMIANIGPASYNYEESLTTLRYANRAKNI 241
L DGK+ H+PYRDSKLTR+LQDSLGGNS+T +I P+SYN E+L+TLR+ RAK I
Sbjct: 267 LTDGKSTHIPYRDSKLTRILQDSLGGNSRTTLIICCSPSSYNESETLSTLRFGARAKTI 325
>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 = 284 bits (729), Expect = 2e-94
Identities = 115/242 (47%), Positives = 150/242 (61%), Gaps = 15/242 (6%)
Query: 14 ESKGVIPNSFDQIFSHIA-RTENKQYLIRASYLEIYQEEIRDLLDKDQSKR--YELRENP 70
E G+IP + IF I + + + ++ S+LE+Y EE+RDLL S++ ++RE+
Sbjct: 102 EEVGIIPRAIQHIFKKIDEKKDEPDFQLKVSFLELYNEEVRDLLSPSTSEKSPIQIREDS 161
Query: 71 DSGVYVKNLQSYICKNVKEIEQVMQNGNFNRTIGATNMNEHSSRSHAIFIITIE------ 124
+ + L + +E+ ++ G+ +RT +T MN SSRSHAIF IT+E
Sbjct: 162 KGNIIIVGLTEVTVNSAQEVMSCLEQGSLSRTTASTAMNSQSSRSHAIFTITLEQTRKNG 221
Query: 125 --MSDVREDSSMSQVRVGKLNLVDLAGSERQSKTGATGKRLKEASKINLSLSALGNVISA 182
+D + + K + VDLAGSER KTGATG RLKE IN L ALGNVISA
Sbjct: 222 PIAPMSGDDKNSTLT--SKFHFVDLAGSERLKKTGATGDRLKEGISINSGLLALGNVISA 279
Query: 183 LVD--GKNIHVPYRDSKLTRLLQDSLGGNSKTLMIANIGPASYNYEESLTTLRYANRAKN 240
L D K HVPYRDSKLTRLLQDSLGGNS TLMIA + PA N+EE+L TL+YANRA+N
Sbjct: 280 LGDESKKGSHVPYRDSKLTRLLQDSLGGNSHTLMIACVSPADSNFEETLNTLKYANRARN 339
Query: 241 IK 242
IK
Sbjct: 340 IK 341
>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 = 273 bits (701), Expect = 3e-90
Identities = 124/241 (51%), Positives = 161/241 (66%), Gaps = 8/241 (3%)
Query: 4 YMIIGSKESAESKGVIPNSFDQIFSHIA-RTENKQYLIRASYLEIYQEEIRDLLDKDQSK 62
+ ++G+ G++ + +F I R ++K++ + SYLEIY E IRDLL S
Sbjct: 103 HTMLGT---DSDPGLMVLTMKDLFDKIEERKDDKEFEVSLSYLEIYNETIRDLLSP-SSG 158
Query: 63 RYELRENPDSGVYVKNLQSYICKNVKEIEQVMQNGNFNRTIGATNMNEHSSRSHAIFIIT 122
ELRE+P+ G+ V L + K+ +EI +++ GN NRT T N SSRSHA+ IT
Sbjct: 159 PLELREDPNQGIVVAGLTEHQPKSAEEILELLMKGNRNRTQEPTEANATSSRSHAVLQIT 218
Query: 123 IEMSDVREDSSMSQVRVGKLNLVDLAGSERQSKTGATGKRLKEASKINLSLSALGNVISA 182
+ D R S QVR+GKL+L+DLAGSER S T G+RLKE + IN SL ALGN I+A
Sbjct: 219 VRQKD-RTASINQQVRIGKLSLIDLAGSERASATNNRGQRLKEGANINRSLLALGNCINA 277
Query: 183 LVDGKNI--HVPYRDSKLTRLLQDSLGGNSKTLMIANIGPASYNYEESLTTLRYANRAKN 240
LVDGK H+PYRDSKLTRLL+DSLGGN KT+MIANI P+S +YEE+ TL+YANRAKN
Sbjct: 278 LVDGKKKNKHIPYRDSKLTRLLKDSLGGNCKTVMIANISPSSSHYEETHNTLKYANRAKN 337
Query: 241 I 241
I
Sbjct: 338 I 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 = 260 bits (667), Expect = 2e-85
Identities = 114/231 (49%), Positives = 152/231 (65%), Gaps = 4/231 (1%)
Query: 12 SAESKGVIPNSFDQIFSHIARTENKQYLIRASYLEIYQEEIRDLLDKDQSKRYELRENPD 71
+ G+IP + IF I T ++++L+R SYLEIY E+I+DLL + +RE+P+
Sbjct: 94 DEQEPGIIPLAVRDIFQRIQDTPDREFLLRVSYLEIYNEKIKDLLSPSP-QELRIREDPN 152
Query: 72 SGVYVKNLQSYICKNVKEIEQVMQNGNFNRTIGATNMNEHSSRSHAIFIITIEMSDVRED 131
GV V L I + + + Q++ G NR +G T+ NE SSRSH IF +TIE + R D
Sbjct: 153 KGVVVAGLTEEIVTSPEHLLQLIARGEKNRHVGETDFNERSSRSHTIFQLTIESRE-RGD 211
Query: 132 SSMSQVRVGKLNLVDLAGSERQSKTGATGKRLKEASKINLSLSALGNVISALVDGKNI-H 190
S VRV LNL+DLAGSER S+TG G+R KE S IN SL LG VIS L +GKN H
Sbjct: 212 SESGTVRVSTLNLIDLAGSERASQTG-AGERRKEGSFINKSLLTLGTVISKLSEGKNSGH 270
Query: 191 VPYRDSKLTRLLQDSLGGNSKTLMIANIGPASYNYEESLTTLRYANRAKNI 241
+PYRDSKLTR+LQ SL GN++T +I I PAS + EE+L TL++A+RAK +
Sbjct: 271 IPYRDSKLTRILQPSLSGNARTAIICTISPASSHVEETLNTLKFASRAKKV 321
>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 = 260 bits (666), Expect = 1e-84
Identities = 115/240 (47%), Positives = 159/240 (66%), Gaps = 11/240 (4%)
Query: 17 GVIPNSFDQIFSHIARTENKQYLIRASYLEIYQEEIRDLLDKDQSKRYELR--ENPD--S 72
G+IP + Q+F + N +Y ++ SYLE+Y EE+ DLL + LR ++ +
Sbjct: 118 GIIPRALYQLFEKLESQ-NTEYSVKVSYLELYNEELFDLLSSESDLNKPLRIFDDTNNKG 176
Query: 73 GVYVKNLQSYICKNVKEIEQVMQNGNFNRTIGATNMNEHSSRSHAIFIITIEMSDVREDS 132
GV ++ L+ N E ++++ G+ R AT MN+ SSRSH+IF ITI + +E +
Sbjct: 177 GVVIQGLEEITVNNANEGLKLLEKGSAKRKTAATLMNDQSSRSHSIFSITIHI---KETT 233
Query: 133 SMSQ--VRVGKLNLVDLAGSERQSKTGATGKRLKEASKINLSLSALGNVISALVDGKNIH 190
+ V++GKLNLVDLAGSE ++GA KR +EA IN SL LG VI+ALV+ K+ H
Sbjct: 234 ISGEELVKIGKLNLVDLAGSENIGRSGAENKRAREAGNINQSLLTLGRVINALVE-KSPH 292
Query: 191 VPYRDSKLTRLLQDSLGGNSKTLMIANIGPASYNYEESLTTLRYANRAKNIKNQPRVNED 250
+PYR+SKLTRLLQDSLGG +KT +IA I PAS N EE+L+TL YA+RAKNIKN+P VN+
Sbjct: 293 IPYRESKLTRLLQDSLGGRTKTSIIATISPASINLEETLSTLEYAHRAKNIKNKPEVNQK 352
>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 = 240 bits (615), Expect = 2e-77
Identities = 122/251 (48%), Positives = 161/251 (64%), Gaps = 16/251 (6%)
Query: 4 YMIIGSKESAES-----KGVIPNSFDQIFSHIAR-----TENKQYLIRASYLEIYQEEIR 53
Y ++G S + +GVIP F+ +FS I R + ++L + S+LEIY E+I
Sbjct: 90 YTMMGPSSSDDESPHGLQGVIPRIFEYLFSLIQREEEKRGDGLKFLCKCSFLEIYNEQIT 149
Query: 54 DLLDKDQSKRYELRENPDSGVYVKNLQSYICKNVKEIEQVMQNGNFNRTIGATNMNEHSS 113
DLLD +RE+ GVYV+NL + +++ QV+ G NR + AT+MN SS
Sbjct: 150 DLLDPTSRNLK-IREDIKKGVYVENLTEEYVSSYEDVYQVLLKGLSNRKVAATSMNSESS 208
Query: 114 RSHAIFIITIEMSDVREDSSMSQVRVGKLNLVDLAGSERQSKTGATGKRLKEASKINLSL 173
RSHA+F TIE + +S + +R +LNLVDLAGSERQ GA G RLKEA IN SL
Sbjct: 209 RSHAVFTCTIE--SWEKKASSTNIRTSRLNLVDLAGSERQKDDGAEGVRLKEAKNINKSL 266
Query: 174 SALGNVISALVD---GKNIHVPYRDSKLTRLLQDSLGGNSKTLMIANIGPASYNYEESLT 230
S LG+VI ALVD GK HVPYRDSKLT LL+DSLGGN+KT +IAN+ P+S + E+L+
Sbjct: 267 STLGHVIMALVDVAHGKQRHVPYRDSKLTFLLRDSLGGNAKTTIIANVSPSSKCFGETLS 326
Query: 231 TLRYANRAKNI 241
TL++A RAK I
Sbjct: 327 TLKFAQRAKLI 337
>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 = 219 bits (560), Expect = 3e-69
Identities = 108/241 (44%), Positives = 146/241 (60%), Gaps = 7/241 (2%)
Query: 4 YMIIGSKESAESKGVIPNSFDQIFSHIARTENKQYLIRASYLEIYQEEIRDLLDKD---- 59
+ + G ES + +G+IP + +Q+F +A K Y + SYLEIY E++ DLL
Sbjct: 96 FTMTGGTESYKDRGLIPRALEQVFREVAMRATKTYTVHVSYLEIYNEQLYDLLGDTPEAL 155
Query: 60 -QSKRYELRENPDSGVYVKNLQSYICKNVKEIEQVMQNGNFNRTIGATNMNEHSSRSHAI 118
+ E+ + ++VK L + +E ++ G NRTI T+MN+ SSRSH I
Sbjct: 156 ESLPAVTILEDSEQNIHVKGLSLHSATTEEEALNLLFLGETNRTIAETSMNQASSRSHCI 215
Query: 119 FIITIEMSDVREDSSMSQVRVGKLNLVDLAGSERQSKTGATGKRLKEASKINLSLSALGN 178
F I +E RE S VR+ KLNLVDLAGSER SKTG +G+ LKEA IN SLS L
Sbjct: 216 FTIHLESRS-REAGS-EVVRLSKLNLVDLAGSERVSKTGVSGQVLKEAKYINKSLSFLEQ 273
Query: 179 VISALVDGKNIHVPYRDSKLTRLLQDSLGGNSKTLMIANIGPASYNYEESLTTLRYANRA 238
VI+AL + HVPYR+SKLT +L+DSLGGN KT+M+A I N +E+L+TLR+A R
Sbjct: 274 VINALSEKARTHVPYRNSKLTHVLRDSLGGNCKTVMLATIWVEPSNLDETLSTLRFAQRV 333
Query: 239 K 239
Sbjct: 334 A 334
>gnl|CDD|215621 PLN03188, PLN03188, kinesin-12 family protein; Provisional.
Length = 1320
Score = 211 bits (539), Expect = 3e-61
Identities = 122/279 (43%), Positives = 173/279 (62%), Gaps = 17/279 (6%)
Query: 12 SAESKGVIPNSFDQIFSHIARTENK------QYLIRASYLEIYQEEIRDLLDKDQSKRYE 65
S + +G+ P F+++F+ I + K +Y R S+LEIY E+I DLLD Q K +
Sbjct: 196 SGDQQGLTPRVFERLFARINEEQIKHADRQLKYQCRCSFLEIYNEQITDLLDPSQ-KNLQ 254
Query: 66 LRENPDSGVYVKNLQSYICKNVKEIEQVMQNGNFNRTIGATNMNEHSSRSHAIFIITIEM 125
+RE+ SGVYV+NL K +K++ Q++ G NR GAT++N SSRSH++F +E
Sbjct: 255 IREDVKSGVYVENLTEEYVKTMKDVTQLLIKGLSNRRTGATSINAESSRSHSVFTCVVES 314
Query: 126 SDVREDSSMSQVRVGKLNLVDLAGSERQSKTGATGKRLKEASKINLSLSALGNVISALVD 185
+S + ++NLVDLAGSERQ TGA G RLKEA IN SLS LGN+I+ L +
Sbjct: 315 RCKSVADGLSSFKTSRINLVDLAGSERQKLTGAAGDRLKEAGNINRSLSQLGNLINILAE 374
Query: 186 ----GKNIHVPYRDSKLTRLLQDSLGGNSKTLMIANIGPASYNYEESLTTLRYANRAKNI 241
GK H+PYRDS+LT LLQ+SLGGN+K M+ I P+ E+ +TLR+A RAK I
Sbjct: 375 ISQTGKQRHIPYRDSRLTFLLQESLGGNAKLAMVCAISPSQSCKSETFSTLRFAQRAKAI 434
Query: 242 KNQPRVNEDPKE------ALLREYQEEIQRLKNLLNQRT 274
KN+ VNE ++ ++R+ ++E+QR+K N T
Sbjct: 435 KNKAVVNEVMQDDVNFLREVIRQLRDELQRVKANGNNPT 473
>gnl|CDD|227392 COG5059, KIP1, Kinesin-like protein [Cytoskeleton].
Length = 568
Score = 200 bits (510), Expect = 2e-59
Identities = 129/364 (35%), Positives = 195/364 (53%), Gaps = 26/364 (7%)
Query: 4 YMIIGSKESAESKGVIPNSFDQIFSHI-ARTENKQYLIRASYLEIYQEEIRDLLDKDQSK 62
Y + G++E G+IP S ++FS + + K + + SYLEIY E+I DLL + +
Sbjct: 105 YTMSGTEEEP---GIIPLSLKELFSKLEDLSMTKDFAVSISYLEIYNEKIYDLLSPN-EE 160
Query: 63 RYELRENPDSGVYVKNLQSYICKNVKEIEQVMQNGNFNRTIGATNMNEHSSRSHAIFIIT 122
+RE+ GV V L + +EI +++ G NRT +T +N+ SSRSH+IF I
Sbjct: 161 SLNIREDSLLGVKVAGLTEKHVSSKEEILDLLRKGEKNRTTASTEINDESSRSHSIFQIE 220
Query: 123 IEMSDVREDSSMSQVRVGKLNLVDLAGSERQSKTGATGKRLKEASKINLSLSALGNVISA 182
+ ++ KL+LVDLAGSER ++TG G RLKE + IN SL LGNVI+A
Sbjct: 221 LA----SKNKVSGTSETSKLSLVDLAGSERAARTGNRGTRLKEGASINKSLLTLGNVINA 276
Query: 183 LVDGKN-IHVPYRDSKLTRLLQDSLGGNSKTLMIANIGPASYNYEESLTTLRYANRAKNI 241
L D K H+PYR+SKLTRLLQDSLGGN T +I I P+S ++EE++ TL++A+RAK+I
Sbjct: 277 LGDKKKSGHIPYRESKLTRLLQDSLGGNCNTRVICTISPSSNSFEETINTLKFASRAKSI 336
Query: 242 KNQPRVNE----DPKEALLR----EYQEEIQRLKNLLNQRTVQPSSKLNDENQTREEYLN 293
KN+ +VN + ++ E + EI+ L + Q S + +
Sbjct: 337 KNKIQVNSSSDSSREIEEIKFDLSEDRSEIEILVFREQSQLSQSSL-----SGIFAYMQS 391
Query: 294 EEEDKLNNKRKR--IMNENHLSDAEKQKLLQEVESKQKA-IEAEKKYTEELAKRINSMES 350
+++ K + IM E++KLL+E K K+ ++ + + L S
Sbjct: 392 LKKETETLKSRIDLIMKSIISGTFERKKLLKEEGWKYKSTLQFLRIEIDRLLLLREEELS 451
Query: 351 KLLQ 354
K
Sbjct: 452 KKKT 455
Score = 36.6 bits (85), Expect = 0.016
Identities = 43/146 (29%), Positives = 66/146 (45%), Gaps = 17/146 (11%)
Query: 49 QEEIRDLLDKDQSKRYELRENPDSGVYVKN-----LQSYICKNVKEIEQV---MQNGNFN 100
+ +R +D+ R E + ++ N L S + +E +
Sbjct: 432 LQFLRIEIDRLLLLREEELSKKKTKIHKLNKLRHDLSSLLSSIPEETSDRVESEKASK-L 490
Query: 101 RTIGATNMNEHSSRSHAIFIITIEMSDVREDSSMSQVRVGKLNLVDLAGSERQSKTGATG 160
R+ +T +N SSRSH+ F D S+ S + LN VDLAGSER+ + G
Sbjct: 491 RSSASTKLNLRSSRSHSKFR------DHLNGSNSSTKEL-SLNQVDLAGSERKVSQ-SVG 542
Query: 161 KRLKEASKINLSLSALGNVISALVDG 186
+ L+E +N SLS+LG+VI AL
Sbjct: 543 ELLRETQSLNKSLSSLGDVIHALGSK 568
>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 = 187 bits (476), Expect = 8e-57
Identities = 94/226 (41%), Positives = 134/226 (59%), Gaps = 9/226 (3%)
Query: 14 ESKGVIPNSFDQIFSHIARTENKQYLIRASYLEIYQEEIRDLLDKDQSKRYELRENPDSG 73
G+IP + + R + SY EIY E++ DLL+ K +RE+ D
Sbjct: 103 NEPGLIPRTLSDLLRM-GRKQAWTGAFSMSYYEIYNEKVYDLLEP-AKKELPIREDKDGN 160
Query: 74 VYVKNLQSYICKNVKEIEQVMQNGNFNRTIGATNMNEHSSRSHAIFIITIEMSDVREDSS 133
+ + L S K++ E E+ + NRT+ AT +N++SSRSHA+ I V + +S
Sbjct: 161 ILIVGLTSKPIKSMAEFEEAYIPASKNRTVAATKLNDNSSRSHAVLRIK-----VTQPAS 215
Query: 134 MSQVRVGKLNLVDLAGSERQSKTGATGKRLKEASKINLSLSALGNVISALVDGKNIHVPY 193
Q+ GKLNL+DLAGSE +TG G RLKE++ IN SL L V+ AL G +PY
Sbjct: 216 NIQLE-GKLNLIDLAGSEDNRRTGNEGIRLKESAAINSSLFVLSKVVDALNKGLP-RIPY 273
Query: 194 RDSKLTRLLQDSLGGNSKTLMIANIGPASYNYEESLTTLRYANRAK 239
R+SKLTRLLQDSLGG S+ +M+ANI P Y+++L+TL +A+R+K
Sbjct: 274 RESKLTRLLQDSLGGGSRCIMVANIAPERSFYQDTLSTLNFASRSK 319
>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 = 186 bits (474), Expect = 2e-56
Identities = 84/218 (38%), Positives = 122/218 (55%), Gaps = 16/218 (7%)
Query: 23 FDQIFSHIARTENKQYLIRASYLEIYQEEIRDLLDKDQSKRYELRENPDSGVYVKNLQSY 82
F + N + S+ EIY ++ DLL+ KR + E+ V + L
Sbjct: 120 FRLLAQP-----NDDLGVTVSFFEIYGGKLFDLLND--RKRLSVLEDGKGNVQIVGLTEK 172
Query: 83 ICKNVKEIEQVMQNGNFNRTIGATNMNEHSSRSHAIFIITIEMSDVREDSSMSQVRVGKL 142
+V E+ +++++GN RT G+T N+ SSRSHAI I ++ + +GKL
Sbjct: 173 PVTSVDELLELIESGNSLRTTGSTGANDQSSRSHAILQIILK-------NKKLNKLLGKL 225
Query: 143 NLVDLAGSERQSKTGATGK-RLKEASKINLSLSALGNVISALVDGKNIHVPYRDSKLTRL 201
+ +DLAGSER + T + KE ++IN SL AL I AL K HVP+R SKLT++
Sbjct: 226 SFIDLAGSERGADTSEHDRQTRKEGAEINKSLLALKECIRALASNKA-HVPFRGSKLTQV 284
Query: 202 LQDSLGGNSKTLMIANIGPASYNYEESLTTLRYANRAK 239
L+DS GNSKT+MIA I P++ + E +L TLRYA+R K
Sbjct: 285 LRDSFIGNSKTVMIATISPSASSCEHTLNTLRYADRVK 322
>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 = 180 bits (459), Expect = 6e-54
Identities = 98/252 (38%), Positives = 134/252 (53%), Gaps = 26/252 (10%)
Query: 4 YMIIGSKESAESKGVIPNSFDQIFSHIARTENKQYLIRASYLEIYQEEIRDLLD------ 57
Y + GS G++P S D IF+ I Y + SY+EIY I DLL+
Sbjct: 104 YTMQGSPGDG---GILPRSLDVIFNSI-----GGYSVFVSYVEIYNNYIYDLLEDSPSST 155
Query: 58 -KDQSKRYELRENPDSGVYVKNLQSYICKNVKEIEQVMQNGNFNRTIGATNMNEHSSRSH 116
K QS R LRE+ + +YV L + +E +V + G NR + T +N SSRSH
Sbjct: 156 KKRQSLR--LREDHNGNMYVAGLTEVEVSSTEEAREVFKRGQKNRRVAGTKLNRESSRSH 213
Query: 117 AIFIITIEM----SDVREDSSMSQVRVGKLNLVDLAGSERQSKTGATGKRLKEASKINLS 172
++F I + SD D Q+ V +L+LVDLAGSER S+T TG+RLKEA IN S
Sbjct: 214 SVFTIKLVQAPGDSDGDVDQDKDQITVSQLSLVDLAGSERTSRTQNTGERLKEAGNINTS 273
Query: 173 LSALGNVISALVD-----GKNIHVPYRDSKLTRLLQDSLGGNSKTLMIANIGPASYNYEE 227
L LG I L + N VPYRDSKLT L Q+ G K MI N+ P + +Y+E
Sbjct: 274 LMTLGKCIEVLRENQLSGSTNKMVPYRDSKLTHLFQNYFDGEGKARMIVNVNPCASDYDE 333
Query: 228 SLTTLRYANRAK 239
+L ++++ A+
Sbjct: 334 TLHVMKFSAIAQ 345
>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 = 160 bits (407), Expect = 3e-48
Identities = 81/138 (58%), Positives = 98/138 (71%), Gaps = 2/138 (1%)
Query: 83 ICKNVKEIEQVMQNGNFNRTIGATNMNEHSSRSHAIFIITIEMSDVREDSSMSQVRVGKL 142
I + V ++ +M GN NRT AT MNEHSSRSH++F I + S+ Q +VGK+
Sbjct: 51 IPRTVTDVIDLMDKGNANRTTAATAMNEHSSRSHSVFRIHFGGKN-ALASATEQPKVGKI 109
Query: 143 NLVDLAGSERQSKTGATGKRLKEASKINLSLSALGNVISALVDGKNIHVPYRDSKLTRLL 202
NLVDLAGSER +GA G RL E + IN SLS LGNVISAL + + HVPYR+SKLTRLL
Sbjct: 110 NLVDLAGSERIDFSGAEGSRLTETANINKSLSTLGNVISALAERDS-HVPYRESKLTRLL 168
Query: 203 QDSLGGNSKTLMIANIGP 220
QDSLGGNS+TLM+A I P
Sbjct: 169 QDSLGGNSRTLMVACISP 186
>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 = 44.9 bits (107), Expect = 4e-05
Identities = 29/109 (26%), Positives = 53/109 (48%), Gaps = 11/109 (10%)
Query: 253 EALLREYQEEIQRLKNLLNQRTVQPSSKLNDENQTREEYLNEEEDKLNNKRKRIMNENHL 312
E L+E + E+QRL+ L QR K+ ++ +EE L ++E +L+NK K + +
Sbjct: 68 ERELKERRNELQRLERRLLQREETLDRKMESLDK-KEENLEKKEKELSNKEKNLDEKEEE 126
Query: 313 SDAEKQKLLQEVES---------KQKAI-EAEKKYTEELAKRINSMESK 351
+ + +E+E K+ + E E++ E AK I +E +
Sbjct: 127 LEELIAEQREELERISGLTQEEAKEILLEEVEEEARHEAAKLIKEIEEE 175
>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown].
Length = 434
Score = 43.6 bits (103), Expect = 9e-05
Identities = 20/91 (21%), Positives = 44/91 (48%)
Query: 229 LTTLRYANRAKNIKNQPRVNEDPKEALLREYQEEIQRLKNLLNQRTVQPSSKLNDENQTR 288
LT L + +K+ ++ D ++ LL+EY +++Q L + + + E + +
Sbjct: 344 LTLLALTKLYEEVKSNTDLSGDKRQELLKEYNKKLQDYTKKLGEVKDETDASEEAEAKAK 403
Query: 289 EEYLNEEEDKLNNKRKRIMNENHLSDAEKQK 319
EE L +EE++ K + ++ E++K
Sbjct: 404 EEKLKQEENEKKQKEQADEDKEKRQKDERKK 434
Score = 29.8 bits (67), Expect = 2.8
Identities = 10/46 (21%), Positives = 20/46 (43%), Gaps = 1/46 (2%)
Query: 299 LNNKRKRIMNENHLSDAEKQKLLQEVESK-QKAIEAEKKYTEELAK 343
L + + + LS ++Q+LL+E K Q + + +E
Sbjct: 349 LTKLYEEVKSNTDLSGDKRQELLKEYNKKLQDYTKKLGEVKDETDA 394
Score = 28.6 bits (64), Expect = 4.9
Identities = 15/69 (21%), Positives = 26/69 (37%), Gaps = 6/69 (8%)
Query: 282 NDENQTREEYLNEEEDKLNNKRKRIMNENHLSDAEKQKL------LQEVESKQKAIEAEK 335
D+ Q + N++ K + +E S+ + K +E E KQK E
Sbjct: 364 GDKRQELLKEYNKKLQDYTKKLGEVKDETDASEEAEAKAKEEKLKQEENEKKQKEQADED 423
Query: 336 KYTEELAKR 344
K + +R
Sbjct: 424 KEKRQKDER 432
>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional.
Length = 520
Score = 42.5 bits (101), Expect = 2e-04
Identities = 29/113 (25%), Positives = 55/113 (48%), Gaps = 12/113 (10%)
Query: 236 NRAKNIKNQPR--VNEDPKEALLREYQEEIQRLKNLLNQRTVQPSSKLND-ENQT--REE 290
AK I + + KEALL E +EEI +L+N + + ++L E + +EE
Sbjct: 38 EEAKRILEEAKKEAEAIKKEALL-EAKEEIHKLRNEFEKELRERRNELQKLEKRLLQKEE 96
Query: 291 YLNEEEDKLNNKRKRIMNENHLSDAEKQKLLQEVESKQKAIEAEKKYTEELAK 343
L+ + + L + + + + E ++ QE+E K++ E E+ E+L +
Sbjct: 97 NLDRKLELLEKREEELEKKEK----ELEQKQQELEKKEE--ELEELIEEQLQE 143
>gnl|CDD|237178 PRK12705, PRK12705, hypothetical protein; Provisional.
Length = 508
Score = 38.2 bits (89), Expect = 0.006
Identities = 26/116 (22%), Positives = 49/116 (42%), Gaps = 10/116 (8%)
Query: 242 KNQPRVNEDPKEALLREYQEEIQRLKNLLNQRTVQPSSK------LNDENQTREEYLNEE 295
K + + R +EE+QR + L Q+ Q ++ L ++ + RE+ L+
Sbjct: 58 KELLLRERNQQRQEARREREELQREEERLVQKEEQLDARAEKLDNLENQLEEREKALSAR 117
Query: 296 EDKLNNKRKRIMNENHLSDAEKQKLLQEVESKQKAIEAEKKYTEELAKRINSMESK 351
E +L K++ NE + L E K + + EE A+R+ +E +
Sbjct: 118 ELELEELEKQLDNELY----RVAGLTPEQARKLLLKLLDAELEEEKAQRVKKIEEE 169
>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 = 34.1 bits (79), Expect = 0.040
Identities = 18/79 (22%), Positives = 41/79 (51%), Gaps = 2/79 (2%)
Query: 278 SSKLNDENQTREEYLNEEEDKLNNKRKRIMNE-NHLSDAEKQKLLQEVESKQKAIEAE-K 335
+L E + R+ L + E +L ++++ + LS+A ++K +E++ K + + + +
Sbjct: 20 QKQLEKEFKKRQAELEKLEKELQKLKEKLQKDAATLSEAAREKKEKELQKKVQEFQRKQQ 79
Query: 336 KYTEELAKRINSMESKLLQ 354
K ++L KR K+L
Sbjct: 80 KLQQDLQKRQQEELQKILD 98
Score = 29.5 bits (67), Expect = 1.2
Identities = 20/105 (19%), Positives = 47/105 (44%), Gaps = 4/105 (3%)
Query: 235 ANRAKNIKNQPRVNEDPKEALLREYQEEIQRLKNLLNQRTVQPSSKLNDENQTREEYLNE 294
+ K + Q ++A L + ++E+Q+LK L + S + +E+ L +
Sbjct: 13 SPAGKAAQKQLEKEFKKRQAELEKLEKELQKLKEKLQKDAATLSE---AAREKKEKELQK 69
Query: 295 EEDKLNNKRKRIMNENHLSDAEK-QKLLQEVESKQKAIEAEKKYT 338
+ + K++++ + E+ QK+L ++ K + +K Y
Sbjct: 70 KVQEFQRKQQKLQQDLQKRQQEELQKILDKINKAIKEVAKKKGYD 114
>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 = 35.0 bits (81), Expect = 0.056
Identities = 22/107 (20%), Positives = 49/107 (45%), Gaps = 10/107 (9%)
Query: 252 KEALLREYQEEIQRLKNLLN------QRTVQPSSKLNDENQTREEYLNEEEDKLNNKRKR 305
+A L + +EE+ R++ L R L E Q +E + ++++ + K
Sbjct: 796 IQAELSKLEEEVSRIEARLREIEQKLNRLTLEKEYLEKEIQELQEQRIDLKEQIKSIEKE 855
Query: 306 IMNENHLSDAEKQKLLQEVESKQKAIEAEKKYTEELAKRINSMESKL 352
I + +K++L +E+E + A+ + +L K + +E++L
Sbjct: 856 I----ENLNGKKEELEEELEELEAALRDLESRLGDLKKERDELEAQL 898
Score = 33.5 bits (77), Expect = 0.17
Identities = 27/107 (25%), Positives = 48/107 (44%), Gaps = 8/107 (7%)
Query: 250 DPKEALLREYQEEIQRLKNLLNQRTVQ----PSSKLNDENQTREEYLNEEEDKLNNKRKR 305
+ E L + +E + L+ L+ + SKL +E E L E E KLN R
Sbjct: 768 EELEEDLHKLEEALNDLEARLSHSRIPEIQAELSKLEEEVSRIEARLREIEQKLN----R 823
Query: 306 IMNENHLSDAEKQKLLQEVESKQKAIEAEKKYTEELAKRINSMESKL 352
+ E + E Q+L ++ ++ I++ +K E L + +E +L
Sbjct: 824 LTLEKEYLEKEIQELQEQRIDLKEQIKSIEKEIENLNGKKEELEEEL 870
Score = 30.4 bits (69), Expect = 1.6
Identities = 15/73 (20%), Positives = 35/73 (47%)
Query: 280 KLNDENQTREEYLNEEEDKLNNKRKRIMNENHLSDAEKQKLLQEVESKQKAIEAEKKYTE 339
+L E + E Y ++K + ++ E + +K+ + +++ S ++ +E +
Sbjct: 202 RLRREREKAERYQALLKEKREYEGYELLKEKEALERQKEAIERQLASLEEELEKLTEEIS 261
Query: 340 ELAKRINSMESKL 352
EL KR+ +E L
Sbjct: 262 ELEKRLEEIEQLL 274
Score = 29.7 bits (67), Expect = 2.8
Identities = 26/112 (23%), Positives = 52/112 (46%), Gaps = 18/112 (16%)
Query: 245 PRVNEDPK--EALLREYQEEIQRLKNLLNQ--RTVQPSSKLNDENQTREEYLNEEEDKLN 300
R+ E + + L Q E++R++N L++ + + +S+ E + E L +EE+KL
Sbjct: 677 QRLRERLEGLKRELSSLQSELRRIENRLDELSQELSDASRKIGEIEKEIEQLEQEEEKLK 736
Query: 301 NKRKRIMNENHLSDAEKQKLLQEVESKQKAIEAEKKYTEELAKRINSMESKL 352
+ + + +++ S ++ IE K +EL RI +E L
Sbjct: 737 ERLEELE--------------EDLSSLEQEIENVKSELKELEARIEELEEDL 774
>gnl|CDD|178867 PRK00106, PRK00106, hypothetical protein; Provisional.
Length = 535
Score = 33.7 bits (77), Expect = 0.13
Identities = 34/113 (30%), Positives = 57/113 (50%), Gaps = 12/113 (10%)
Query: 252 KEALLREYQEEIQRLKNLLNQRTVQPSS-KLNDENQT-REEYLNEEEDKLNNKRKRI-MN 308
+E + +E++ E Q LK + ++ T + +S DEN + +E+ L +E L +K K I
Sbjct: 85 REEIEQEFKSERQELKQIESRLTERATSLDRKDENLSSKEKTLESKEQSLTDKSKHIDER 144
Query: 309 ENHLSDAEKQKL--LQEVESKQKA-------IEAEKKYTEELAKRINSMESKL 352
E + E+QK L+ V + +A E E K T E+A RI E ++
Sbjct: 145 EEQVEKLEEQKKAELERVAALSQAEAREIILAETENKLTHEIATRIREAEREV 197
>gnl|CDD|221408 pfam12072, DUF3552, Domain of unknown function (DUF3552). This
presumed domain is functionally uncharacterized. This
domain is found in bacteria, archaea and eukaryotes.
This domain is about 200 amino acids in length. This
domain is found associated with pfam00013, pfam01966.
This domain has a single completely conserved residue A
that may be functionally important.
Length = 201
Score = 32.9 bits (76), Expect = 0.15
Identities = 25/102 (24%), Positives = 47/102 (46%), Gaps = 10/102 (9%)
Query: 253 EALLREYQEEIQRLKNLLNQRTVQPSSKLNDENQTREEYLNEEEDKLNNKRKRIMNENHL 312
E L+E + E+QR + L Q+ K L ++E+ L K K +
Sbjct: 70 ERELKERRNELQRQEKRLLQKEETLDRKDES--------LEKKEESLEEKEKELAARQQQ 121
Query: 313 SDAEKQKLLQEVESKQKAIEAEKKYTEELAKRI--NSMESKL 352
+ ++++L + +E +Q+ +E T E AK I +E++L
Sbjct: 122 LEEKEEELEELIEEQQQELERISGLTAEEAKEILLEEVEAEL 163
>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and
chromosome partitioning].
Length = 1163
Score = 33.5 bits (77), Expect = 0.17
Identities = 27/138 (19%), Positives = 48/138 (34%), Gaps = 6/138 (4%)
Query: 221 ASYNYEESLTTLRYANRAKNIKNQPRVNEDPKEALLREYQEEIQRLKNLLNQRTVQPSSK 280
EE L + + L E EE+Q L +
Sbjct: 714 LERQLEELKRELAALEEELEQLQSRLEELEEELEELEEELEELQERLEELEEELESLEEA 773
Query: 281 LNDENQTREEY------LNEEEDKLNNKRKRIMNENHLSDAEKQKLLQEVESKQKAIEAE 334
L + EE L EE ++L + + + E + L Q E ++ IE
Sbjct: 774 LAKLKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQEIEEL 833
Query: 335 KKYTEELAKRINSMESKL 352
++ EEL ++++ +E +L
Sbjct: 834 EEEIEELEEKLDELEEEL 851
Score = 29.3 bits (66), Expect = 4.2
Identities = 25/125 (20%), Positives = 53/125 (42%), Gaps = 6/125 (4%)
Query: 232 LRYANRAKNIKNQPRVNEDPKEALLREYQEEIQRLKNLLNQRTVQPSSKLNDENQTREEY 291
L + ++ + + + E L E +E +RL+ L + + +E +T E
Sbjct: 291 LELKEEIEELEGEISLLRERLEELENELEELEERLEELKEKIEAL--KEELEERETLLEE 348
Query: 292 LNEEEDKLNNKRKRIMNENHLSDAEKQKLLQEVESKQKAIEAEKKY----TEELAKRINS 347
L + +L ++ + + E ++L + + + +EAE EEL + I S
Sbjct: 349 LEQLLAELEEAKEELEEKLSALLEELEELFEALREELAELEAELAEIRNELEELKREIES 408
Query: 348 MESKL 352
+E +L
Sbjct: 409 LEERL 413
>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 = 33.4 bits (77), Expect = 0.19
Identities = 21/86 (24%), Positives = 38/86 (44%), Gaps = 9/86 (10%)
Query: 253 EALLREYQEEIQRLKNLLNQRTVQPSSKLNDENQTREEYLNEEEDKLNNKRKRIMNENHL 312
E L+E +EE++++K LL + P + E L KL ++++ E
Sbjct: 340 EEELKELEEELEKIKKLLKKL---PKKARGQLPPEKREQLE----KLLETKEKLSEELEE 392
Query: 313 SDAEKQKLLQEVESKQKA--IEAEKK 336
+ E ++L +E+ES I K
Sbjct: 393 LEEELKELKEELESLYSEGKISVNKT 418
>gnl|CDD|225288 COG2433, COG2433, Uncharacterized conserved protein [Function
unknown].
Length = 652
Score = 33.1 bits (76), Expect = 0.20
Identities = 26/111 (23%), Positives = 49/111 (44%), Gaps = 13/111 (11%)
Query: 249 EDPKE---ALLREYQEEIQRLKNLLNQR-TVQPSSKLNDENQTREEYLNEEED---KLNN 301
E P+E E +E K + TV+ +L +EN + L E + KL +
Sbjct: 401 ERPREKEGTEEEERREITVYEKRIKKLEETVE---RLEEENSELKRELEELKREIEKLES 457
Query: 302 KRKRI---MNENHLSDAEKQKLLQEVESKQKAIEAEKKYTEELAKRINSME 349
+ +R + + D E + + +E +K +E +KK EEL +++ +
Sbjct: 458 ELERFRREVRDKVRKDREIRARDRRIERLEKELEEKKKRVEELERKLAELR 508
>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 = 31.8 bits (73), Expect = 0.24
Identities = 13/77 (16%), Positives = 38/77 (49%), Gaps = 2/77 (2%)
Query: 280 KLNDENQTREEYLNEEEDKLNNKRKRI-MNENHLSDAEKQKLLQEVESKQKAIE-AEKKY 337
+L E + + L ++E +L + +++ LS+ ++ QE++ KQ+ ++ ++
Sbjct: 39 QLEKEFKKLQAELQKKEKELQKEEQKLQKQAATLSEEARKAKQQELQQKQQELQQKQQAA 98
Query: 338 TEELAKRINSMESKLLQ 354
+EL ++ + +
Sbjct: 99 QQELQQKQQELLQPIYD 115
>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 = 32.3 bits (74), Expect = 0.43
Identities = 31/134 (23%), Positives = 55/134 (41%), Gaps = 17/134 (12%)
Query: 224 NYEESLTTLRYANRAKNIKNQPRVNEDPKEALLREYQEEIQRLKNL---LNQRTVQPSSK 280
EE L LR E + E Q+E+ L N L Q+ +
Sbjct: 264 ELEEKLEELRLEVS-------------ELEEEIEELQKELYALANEISRLEQQKQILRER 310
Query: 281 LNDENQTREEYLNEEEDKLNNKRKRIMNENHLSDAEKQKLLQEVESKQKAIEAEKKYTEE 340
L + + EE L + ++L +K + E + + ++L +E+ES + +E + EE
Sbjct: 311 LANLERQLEE-LEAQLEELESKLDELAEELAELEEKLEELKEELESLEAELEELEAELEE 369
Query: 341 LAKRINSMESKLLQ 354
L R+ +E +L
Sbjct: 370 LESRLEELEEQLET 383
Score = 32.0 bits (73), Expect = 0.57
Identities = 27/123 (21%), Positives = 48/123 (39%), Gaps = 4/123 (3%)
Query: 227 ESLTTLRYANRAKNIKNQPRVNEDPKEALLREYQEEIQRLKNLLNQRTVQPSSKLNDENQ 286
L + + + + E EA + E + +I++LK L +
Sbjct: 757 TELEAEIEELEERLEEAEEELAEA--EAEIEELEAQIEQLKEELKALREALDELRAELTL 814
Query: 287 TREEYLNEEEDKLNNKRKRIMNENHLSDAEKQK--LLQEVESKQKAIEAEKKYTEELAKR 344
EE N E + +R+ E L D E+Q L +++ES IE ++ EEL
Sbjct: 815 LNEEAANLRERLESLERRIAATERRLEDLEEQIEELSEDIESLAAEIEELEELIEELESE 874
Query: 345 INS 347
+ +
Sbjct: 875 LEA 877
Score = 28.1 bits (63), Expect = 9.0
Identities = 23/121 (19%), Positives = 50/121 (41%), Gaps = 6/121 (4%)
Query: 235 ANRAKNIKNQPRVNEDPKEALLREYQEEIQRLKNLLNQRTVQPSSKLNDENQTREEYLNE 294
+ + + + EA L E + E++ L++ L + Q + + Q +
Sbjct: 339 LAELEEKLEELKEELESLEAELEELEAELEELESRLEELEEQLETLRSKVAQLELQ---- 394
Query: 295 EEDKLNNKRKRIMNENHLSDAEKQKLLQEVES-KQKAIEAEKKYTEELAKRINSMESKLL 353
LNN+ +R+ + +++L QE+E +K EAE K + + + +L
Sbjct: 395 -IASLNNEIERLEARLERLEDRRERLQQEIEELLKKLEEAELKELQAELEELEEELEELQ 453
Query: 354 Q 354
+
Sbjct: 454 E 454
>gnl|CDD|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor
protein; Reviewed.
Length = 782
Score = 31.7 bits (73), Expect = 0.67
Identities = 25/97 (25%), Positives = 45/97 (46%), Gaps = 25/97 (25%)
Query: 253 EALLREYQEEIQRLKNLLNQRTVQPSSKLNDENQTREEYLNEEEDKLNNKRKRIMNENHL 312
E L RE +++ + + LL + KL +E + ++E L EEEDKL
Sbjct: 526 EELERELEQKAEEAEALLKEAE-----KLKEELEEKKEKLQEEEDKL------------- 567
Query: 313 SDAEKQKLLQEVESKQKAIEAEKKYTEELAKRINSME 349
++ +E Q+AI+ KK +E+ K + ++
Sbjct: 568 ----LEEAEKEA---QQAIKEAKKEADEIIKELRQLQ 597
>gnl|CDD|225381 COG2825, HlpA, Outer membrane protein [Cell envelope biogenesis,
outer membrane].
Length = 170
Score = 30.4 bits (69), Expect = 0.72
Identities = 18/81 (22%), Positives = 42/81 (51%), Gaps = 4/81 (4%)
Query: 278 SSKLNDENQTREEYLNEEEDKLNNKRKRIMNENHL-SDAEKQKLLQEVESKQKAIEAEKK 336
S+ L E + R++ L + + +L K ++ ++ + + +++ K E++ ++ KK
Sbjct: 46 SADLESEFKKRQKELQKMQKELKAKEAKLQDDGKMEALSDRAKAEAEIKKEKLVNAFNKK 105
Query: 337 ---YTEELAKRINSMESKLLQ 354
Y ++L +R E KLL+
Sbjct: 106 QQEYEKDLNRREAEEEQKLLE 126
>gnl|CDD|236892 PRK11281, PRK11281, hypothetical protein; Provisional.
Length = 1113
Score = 31.4 bits (72), Expect = 0.75
Identities = 24/126 (19%), Positives = 56/126 (44%), Gaps = 14/126 (11%)
Query: 226 EESLTTL--RYANRAKNIKNQPRVNEDPKEALLREYQEEIQRLKNLLNQRTVQPSSKLND 283
E++L L + + + + ++ + P + LR+ Q E++ LK+ ++ T + S L+
Sbjct: 66 EQTLALLDKIDRQKEETEQLKQQLAQAPAK--LRQAQAELEALKDDNDEETRETLSTLS- 122
Query: 284 ENQTREEYLNEEEDKLNNKRKRIMNENHLSDAEKQKLLQEV--ESKQKAIEAEKKYTEEL 341
+ E L + D+L N + L++ Q + + E Q A+ A + +++
Sbjct: 123 -LRQLESRLAQTLDQLQNAQND------LAEYNSQLVSLQTQPERAQAALYANSQRLQQI 175
Query: 342 AKRINS 347
+
Sbjct: 176 RNLLKG 181
Score = 29.9 bits (68), Expect = 2.4
Identities = 25/108 (23%), Positives = 55/108 (50%), Gaps = 13/108 (12%)
Query: 234 YAN--RAKNIKNQPRVNEDPKEALLREYQEEIQ------RLKNLLNQRTVQPSSKLNDEN 285
YAN R + I+N + + +AL + +Q +N L +++++ +++L D
Sbjct: 166 YANSQRLQQIRNLLKGGKVGGKALRPSQRVLLQAEQALLNAQNDLQRKSLEGNTQLQDLL 225
Query: 286 QTREEYLNEEEDKLNNKRKRI---MNENHLSDAEKQKLLQEVESKQKA 330
Q + +YL +L ++ + + +N L+ +EK +QE +S+ +A
Sbjct: 226 QKQRDYLTARIQRLEHQLQLLQEAINSKRLTLSEKT--VQEAQSQDEA 271
>gnl|CDD|150144 pfam09371, Tex_N, Tex-like protein N-terminal domain. This
presumed domain is found at the N-terminus of Bordetella
pertussis tex. This protein defines a novel family of
prokaryotic transcriptional accessory factors.
Length = 193
Score = 30.5 bits (70), Expect = 0.97
Identities = 16/50 (32%), Positives = 29/50 (58%), Gaps = 5/50 (10%)
Query: 307 MNENHLSDAEKQ-KLLQEVESKQ----KAIEAEKKYTEELAKRINSMESK 351
++E L + E++ L+E+E ++ K+IE + K T EL K I + E+
Sbjct: 39 LDEVQLREIEERLTYLRELEKRKETILKSIEEQGKLTPELKKAIEAAETL 88
>gnl|CDD|184793 PRK14696, tynA, tyramine oxidase; Provisional.
Length = 721
Score = 30.9 bits (70), Expect = 1.0
Identities = 11/49 (22%), Positives = 23/49 (46%)
Query: 296 EDKLNNKRKRIMNENHLSDAEKQKLLQEVESKQKAIEAEKKYTEELAKR 344
E ++ + ++++ + DA LL + S Q I +++ L KR
Sbjct: 158 EAVVDLQNNKVLSWQPIKDAHGMVLLDDFASVQNIINNSEEFAAALKKR 206
>gnl|CDD|234820 PRK00714, PRK00714, RNA pyrophosphohydrolase; Reviewed.
Length = 156
Score = 30.1 bits (69), Expect = 1.0
Identities = 7/16 (43%), Positives = 11/16 (68%)
Query: 248 NEDPKEALLREYQEEI 263
E P++A+ RE EE+
Sbjct: 44 GETPEQAMYRELYEEV 59
>gnl|CDD|234937 PRK01294, PRK01294, lipase chaperone; Provisional.
Length = 336
Score = 30.8 bits (70), Expect = 1.1
Identities = 14/65 (21%), Positives = 34/65 (52%), Gaps = 9/65 (13%)
Query: 295 EEDKLNN---KRKRIMNENHLSDAEKQKLLQEVESK-----QKAIEAEKKYTEELAKRIN 346
EE++ +R RI + LSDA+K L +E++ + A++ ++ + L +++
Sbjct: 183 EENQYQRYALERLRIAQDPSLSDAQKAARLAALEAQLPEDLRAALQESQR-QQALLQQLA 241
Query: 347 SMESK 351
+++
Sbjct: 242 QLQAS 246
>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein. TolA couples the inner
membrane complex of itself with TolQ and TolR to the
outer membrane complex of TolB and OprL (also called
Pal). Most of the length of the protein consists of
low-complexity sequence that may differ in both length
and composition from one species to another,
complicating efforts to discriminate TolA (the most
divergent gene in the tol-pal system) from paralogs such
as TonB. Selection of members of the seed alignment and
criteria for setting scoring cutoffs are based largely
conserved operon struction. //The Tol-Pal complex is
required for maintaining outer membrane integrity. Also
involved in transport (uptake) of colicins and
filamentous DNA, and implicated in pathogenesis.
Transport is energized by the proton motive force. TolA
is an inner membrane protein that interacts with
periplasmic TolB and with outer membrane porins ompC,
phoE and lamB [Transport and binding proteins, Other,
Cellular processes, Pathogenesis].
Length = 346
Score = 30.6 bits (69), Expect = 1.1
Identities = 24/120 (20%), Positives = 48/120 (40%), Gaps = 6/120 (5%)
Query: 225 YEESLTTLRYANRAKNIKNQPRVNEDPKEALLREYQE-EIQRLKNLLNQRTVQPSSKLND 283
+ + + K + ++ ++ L ++ +E E QR R + +
Sbjct: 43 VDPGAVAQQANRIQQQKKPAAKKEQERQKKLEQQAEEAEKQRAAEQ--ARQKELEQRAAA 100
Query: 284 ENQTREEYLNEEEDKLNNKRKRIMNENHLSDAEKQKLLQEVESKQKAIEAEKKYTEELAK 343
E ++ E+ K ++++ E A + K E E+++KA E KK EE AK
Sbjct: 101 EKAAKQA---EQAAKQAEEKQKQAEEAKAKQAAEAKAKAEAEAEKKAKEEAKKQAEEEAK 157
>gnl|CDD|240038 cd04682, Nudix_Hydrolase_23, 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 = 122
Score = 29.2 bits (66), Expect = 1.3
Identities = 9/16 (56%), Positives = 10/16 (62%)
Query: 248 NEDPKEALLREYQEEI 263
E P E +LRE EEI
Sbjct: 41 GETPLECVLRELLEEI 56
>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 908
Score = 30.5 bits (69), Expect = 1.4
Identities = 30/136 (22%), Positives = 60/136 (44%), Gaps = 13/136 (9%)
Query: 232 LRYANRAKNIKNQPRVNEDPKEALLREYQEEIQRLKNLLNQRTVQPSSKLNDE---NQTR 288
+ + ++ Q + E LL +EE++ LK L + Q +L E + R
Sbjct: 181 KEAKAKIEELEGQLSELLEDIEDLLEALEEELKELKKLEEIQEEQEEEELEQEIEALEER 240
Query: 289 EEYLNEEEDKLNNKRKRIMNENHL----------SDAEKQKLLQEVESKQKAIEAEKKYT 338
L EE+++L + R++ L E ++LL+E+E K + +E ++
Sbjct: 241 LAELEEEKERLEELKARLLEIESLELEALKIREEELRELERLLEELEEKIERLEELEREI 300
Query: 339 EELAKRINSMESKLLQ 354
EEL + + + + L +
Sbjct: 301 EELEEELEGLRALLEE 316
Score = 30.5 bits (69), Expect = 1.7
Identities = 26/98 (26%), Positives = 48/98 (48%), Gaps = 2/98 (2%)
Query: 256 LREYQEEIQRLKNLLNQRTVQPSSKLND-ENQTREEYLNEEEDKLNNKRKRIMNENHLSD 314
LRE +E+++ L +R Q L E E L E E++L ++ +++ + L +
Sbjct: 591 LRERLKELKKKLKELEERLSQLEELLQSLELSEAENELEEAEEELESELEKLNLQAELEE 650
Query: 315 AEKQKLLQEVESKQKAIEAEKKYTEELAKRINSMESKL 352
Q L+E+E K + +EAE + + + +E KL
Sbjct: 651 LL-QAALEELEEKVEELEAEIRRELQRIENEEQLEEKL 687
>gnl|CDD|238103 cd00176, SPEC, Spectrin repeats, found in several proteins involved
in cytoskeletal structure; family members include
spectrin, alpha-actinin and dystrophin; the spectrin
repeat forms a three helix bundle with the second helix
interrupted by proline in some sequences; the repeats
are independent folding units; tandem repeats are found
in differing numbers and arrange in an antiparallel
manner to form dimers; the repeats are defined by a
characteristic tryptophan (W) residue in helix A and a
leucine (L) at the carboxyl end of helix C and separated
by a linker of 5 residues; two copies of the repeat are
present here.
Length = 213
Score = 29.7 bits (67), Expect = 1.6
Identities = 16/99 (16%), Positives = 45/99 (45%), Gaps = 3/99 (3%)
Query: 256 LREYQEEIQRLKNLLNQRTVQPSSKLNDENQTREEY--LNEEEDKLNNKRKRIMNENHLS 313
++E EE+ + L + + +L + ++ + ++ E L K + +E+
Sbjct: 77 IQERLEELNQRWEELRELAEERRQRLEEALDLQQFFRDADDLEQWLEEKEAALASEDLGK 136
Query: 314 DAEK-QKLLQEVESKQKAIEAEKKYTEELAKRINSMESK 351
D E ++LL++ + ++ +EA + + L + + +
Sbjct: 137 DLESVEELLKKHKELEEELEAHEPRLKSLNELAEELLEE 175
>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell
envelope biogenesis, outer membrane].
Length = 387
Score = 30.3 bits (68), Expect = 1.7
Identities = 26/96 (27%), Positives = 42/96 (43%), Gaps = 5/96 (5%)
Query: 257 REYQEEIQRLKNLLNQRTVQPSSKLNDENQTREEYLNEEEDKLN-NKRKRIMNENHLSDA 315
R Q E +RLK Q+ + + K Q ++E E+ K ++K+ + A
Sbjct: 102 RLKQLEKERLKAQEQQKQAEEAEKQAQLEQKQQE---EQARKAAAEQKKKAEAAKAKAAA 158
Query: 316 EKQKLLQEVESKQKAIEAEKKYTEELAKRINSMESK 351
E KL E+K+KA E K EE + + +K
Sbjct: 159 EAAKLKAAAEAKKKA-EEAAKAAEEAKAKAEAAAAK 193
>gnl|CDD|189010 cd09603, M1_APN_4, Peptidase M1 family Aminopeptidase N. This
family contains mostly bacterial and some archaeal
aminopeptidase N (APN; CD13; Alanyl aminopeptidase; EC
3.4.11.2), a Type II integral membrane protease
belonging to the M1 gluzincin family. APN consists of a
small N-terminal cytoplasmic domain, a single
transmembrane domain and a large extracellular
ectodomain that contains the active site. It
preferentially cleaves neutral amino acids from the
N-terminus of oligopeptides and, in higher eukaryotes,
is present in a variety of human tissues and cell types
(leukocyte, fibroblast, endothelial and epithelial
cells). APN expression is dysregulated in inflammatory
diseases such as chronic pain, rheumatoid arthritis,
multiple sclerosis, systemic sclerosis, systemic lupus
erythematosus, polymyositis/dermatomyosytis and
pulmonary sarcoidosis, and is enhanced in tumor cells
such as melanoma, renal, prostate, pancreas, colon,
gastric and thyroid cancers. It is predominantly
expressed on stem cells and on cells of the granulocytic
and monocytic lineages at distinct stages of
differentiation, thus considered a marker of
differentiation. Thus, APN inhibition may lead to the
development of anti-cancer and anti-inflammatory drugs.
APNs are also present in many pathogenic bacteria and
represent potential drug targets, Some APNs have been
used commercially, such as one from Lactococcus lactis
used in the food industry. APN also serves as a receptor
for coronaviruses, although the virus receptor
interaction site seems to be distinct from the enzymatic
site and aminopeptidase activity is not necessary for
viral infection. APNs have also been extensively studied
as putative Cry toxin receptors. Cry1 proteins are
pore-forming toxins that bind to the midgut epithelial
cell membrane of susceptible insect larvae, causing
extensive damage. Several different toxins, including
Cry1Aa, Cry1Ab, Cry1Ac, Cry1Ba, Cry1Ca and Cry1Fa, have
been shown to bind to APNs; however, a direct role of
APN in cytotoxicity has been yet to be firmly
established.
Length = 415
Score = 30.3 bits (69), Expect = 1.7
Identities = 13/41 (31%), Positives = 21/41 (51%), Gaps = 1/41 (2%)
Query: 159 TGKRLKEASKINLSLSALGNVISALVDGKNIHVPYRDSKLT 199
T + ++ S +NL L+ L V S VDG+ + +LT
Sbjct: 25 TARATQDLSSLNLDLAGL-TVSSVTVDGRPAAFRHDGDELT 64
>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 = 30.0 bits (68), Expect = 1.7
Identities = 25/102 (24%), Positives = 44/102 (43%), Gaps = 15/102 (14%)
Query: 253 EALLREYQEEIQRLKNLLNQRTVQPSSKLNDENQTREEYLNEEEDKLNNKRKRIMNENHL 312
L+ +EEI L+ L ++ + +L + R+E L K++ KRK++
Sbjct: 181 RKKLQALKEEIASLRQLADELNLCDPLELE---KARQE-LRSLSVKISEKRKQL------ 230
Query: 313 SDAEKQKLLQEVESKQKAIEAEKKYTEELAKRINSMESKLLQ 354
++L QE++ AIEA EL + I E +
Sbjct: 231 -----EELQQELQELTIAIEALTNKKSELLEEIAEAEKIREE 267
>gnl|CDD|129242 TIGR00136, gidA, glucose-inhibited division protein A. GidA, the
longer of two forms of GidA-related proteins, appears to
be present in all complete eubacterial genomes so far,
as well as Saccharomyces cerevisiae. A subset of these
organisms have a closely related protein. GidA is absent
in the Archaea. It appears to act with MnmE, in an
alpha2/beta2 heterotetramer, in the
5-carboxymethylaminomethyl modification of uridine 34 in
certain tRNAs. The shorter, related protein, previously
called gid or gidA(S), is now called TrmFO (see model
TIGR00137) [Protein synthesis, tRNA and rRNA base
modification].
Length = 617
Score = 30.4 bits (69), Expect = 1.8
Identities = 22/104 (21%), Positives = 43/104 (41%), Gaps = 14/104 (13%)
Query: 258 EYQEEIQRLKNLLNQRTVQPSSKLNDE-NQTREEYLNEEEDKLN-NKRKRIMNENHLSDA 315
+EEIQRLK+ + PS ++ +E + L E + +R + E
Sbjct: 467 NIEEEIQRLKS----TWLTPSKEVKEELKNHLQSPLKREASGEDLLRRPEMNLEKLTKLT 522
Query: 316 EKQKLLQEVESKQKAIEAEKKY------TEELAKRINSMESKLL 353
L E +Q +E + KY ++ K+++ +E+ +
Sbjct: 523 PFLPALDEEVLEQ--VEIQIKYEGYIKKQQDEIKKLDRLENVKI 564
>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 = 30.4 bits (69), Expect = 1.9
Identities = 23/123 (18%), Positives = 51/123 (41%), Gaps = 9/123 (7%)
Query: 241 IKNQPRVNEDPKEALLREYQEEIQRLKNLLNQRTVQPSSKLNDENQTREEYLNEEEDKLN 300
+ + K+ +E++Q L++ L Q+ + N+E E L + +L+
Sbjct: 400 NNERLAAIREEKDRQKAAIEEDLQALESQLRQQLEAGKLEFNEEEYELELRLGRLKQRLD 459
Query: 301 N--------KRKRIMNEN-HLSDAEKQKLLQEVESKQKAIEAEKKYTEELAKRINSMESK 351
+ ++ I +E + E+++ VE Q + +K +E + + E +
Sbjct: 460 SATATPEELEQLEINDEALEKAQEEQEQAEANVEQLQSELRQLRKRRDEALEALQRAERR 519
Query: 352 LLQ 354
LLQ
Sbjct: 520 LLQ 522
>gnl|CDD|233830 TIGR02350, prok_dnaK, chaperone protein DnaK. Members of this
family are the chaperone DnaK, of the DnaK-DnaJ-GrpE
chaperone system. All members of the seed alignment were
taken from completely sequenced bacterial or archaeal
genomes and (except for Mycoplasma sequence) found
clustered with other genes of this systems. This model
excludes DnaK homologs that are not DnaK itself, such as
the heat shock cognate protein HscA (TIGR01991).
However, it is not designed to distinguish among DnaK
paralogs in eukaryotes. Note that a number of dnaK genes
have shadow ORFs in the same reverse (relative to dnaK)
reading frame, a few of which have been assigned
glutamate dehydrogenase activity. The significance of
this observation is unclear; lengths of such shadow ORFs
are highly variable as if the presumptive protein
product is not conserved [Protein fate, Protein folding
and stabilization].
Length = 595
Score = 30.0 bits (68), Expect = 2.0
Identities = 26/107 (24%), Positives = 45/107 (42%), Gaps = 28/107 (26%)
Query: 274 TVQPSSKLND---ENQTREEYLNEEEDKLNNKRKRIMNENH------------------L 312
T+ SS L++ E +E N EEDK +++ I N+ L
Sbjct: 491 TITASSGLSEEEIERMVKEAEANAEEDK--KRKEEIEARNNADSLAYQAEKTLKEAGDKL 548
Query: 313 SDAEKQKLLQEVESKQKAIEAE-----KKYTEELAKRINSMESKLLQ 354
EK+K+ + V ++A++ E K TEEL + + + + Q
Sbjct: 549 PAEEKEKIEKAVAELKEALKGEDVEEIKAKTEELQQALQKLAEAMYQ 595
>gnl|CDD|239643 cd03671, Ap4A_hydrolase_plant_like, Diadenosine tetraphosphate
(Ap4A) hydrolase is a member of the Nudix hydrolase
superfamily. Members of this family are well represented
in a variety of prokaryotic and eukaryotic organisms.
Phylogenetic analysis reveals two distinct subgroups
where plant enzymes fall into one group (represented by
this subfamily) and fungi/animals/archaea enzymes fall
into another. Bacterial enzymes are found in both
subfamilies. Ap4A is a potential by-product of aminoacyl
tRNA synthesis, and accumulation of Ap4A has been
implicated in a range of biological events, such as DNA
replication, cellular differentiation, heat shock,
metabolic stress, and apoptosis. Ap4A hydrolase cleaves
Ap4A asymmetrically into ATP and AMP. It is important in
the invasive properties of bacteria and thus presents a
potential target for the inhibition of such invasive
bacteria. Besides the signature nudix motif
(G[X5]E[X7]REUXEEXGU where U is Ile, Leu, or Val), Ap4A
hydrolase is structurally similar to the other members
of the nudix superfamily with some degree of variations.
Several regions in the sequences are poorly defined and
substrate and metal binding sites are only predicted
based on kinetic studies.
Length = 147
Score = 29.1 bits (66), Expect = 2.1
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 248 NEDPKEALLREYQEEI 263
EDP++A LRE +EE
Sbjct: 39 GEDPEQAALRELEEET 54
>gnl|CDD|223683 COG0610, COG0610, Type I site-specific restriction-modification
system, R (restriction) subunit and related helicases
[Defense mechanisms].
Length = 962
Score = 30.1 bits (68), Expect = 2.2
Identities = 24/151 (15%), Positives = 48/151 (31%), Gaps = 12/151 (7%)
Query: 215 IANIGPASYNYEESLTTLRYANRAKNIK--NQPRVNED--PKEALLREYQEEIQRLKNLL 270
+ IG N + L L+ N + + LR+ ++ I+RL +
Sbjct: 805 LELIGKQEINIDYILELLQTFNDKNGAYESLKELIERIIKEWIEDLRQKKKLIERLIEAI 864
Query: 271 NQRTVQPSSKLNDENQ-------TREEYLNEEEDKLNNKRKRIMNENHLSDAEKQKLLQE 323
NQ + + E EE+ LN + ++ L+ + + E
Sbjct: 865 NQYRAKKLDTAEKLEELYILAKKEEEFKQFAEEEGLNEEELAFYDDLALNGGKLPENGTE 924
Query: 324 VESKQKAIEAEKKYTEELAKRINSMESKLLQ 354
+ K A E + + + L+
Sbjct: 925 LVEKL-AKEKSLREKNKDDWKAKEEVEAKLK 954
>gnl|CDD|217472 pfam03280, Lipase_chap, Proteobacterial lipase chaperone protein.
Length = 189
Score = 29.2 bits (66), Expect = 2.7
Identities = 15/76 (19%), Positives = 30/76 (39%), Gaps = 15/76 (19%)
Query: 288 REEYLNEEE-----------DKLNNKRKRIMNENHLSDAEKQKLLQEVESKQ----KAIE 332
R +Y + +E D+ +R RI + LSD +K + L + ++ +
Sbjct: 41 RRQYFSADEAQAFFGDENRYDQYALERLRIAQDPSLSDEQKARRLAALIAQLPEDLREAR 100
Query: 333 AEKKYTEELAKRINSM 348
+ELA+ +
Sbjct: 101 RNAALQQELAQATAQL 116
>gnl|CDD|114011 pfam05262, Borrelia_P83, Borrelia P83/100 protein. This family
consists of several Borrelia P83/P100 antigen proteins.
Length = 489
Score = 29.6 bits (66), Expect = 2.9
Identities = 28/122 (22%), Positives = 51/122 (41%), Gaps = 5/122 (4%)
Query: 235 ANRAKNIKNQPRVNEDPKEALLREYQEEIQRLKNLLNQRTVQ--PSSKLNDENQTREEYL 292
A + + +D + E +++ Q KNL K ENQ RE
Sbjct: 226 QIDADKAQQKADFAQDNADKQRDEVRQKQQEAKNLPKPADTSSPKEDKQVAENQKREIEK 285
Query: 293 NEEEDKLNNKRKRIMNENHLSDAEKQKLLQEVESKQKAIEAEKK---YTEELAKRINSME 349
+ E K N++ ++ D +++ E E++ K +EA+KK E+L K +E
Sbjct: 286 AQIEIKKNDEEALKAKDHKAFDLKQESKASEKEAEDKELEAQKKREPVAEDLQKTKPQVE 345
Query: 350 SK 351
++
Sbjct: 346 AQ 347
>gnl|CDD|221250 pfam11831, Myb_Cef, pre-mRNA splicing factor component. This
family is a region of the Myb-Related Cdc5p/Cef1
proteins, in fungi, and is part of the pre-mRNA splicing
factor complex.
Length = 363
Score = 29.3 bits (66), Expect = 2.9
Identities = 21/92 (22%), Positives = 45/92 (48%), Gaps = 1/92 (1%)
Query: 261 EEIQRLKNLLNQRTVQPSSKLNDENQTREEYLNEEEDKLNNKRKRIMNENHLSDAEKQKL 320
EE++ + L+ + ++ + ++ EE+ E +LN + + N +D E
Sbjct: 262 EELEEARKLIEAELEKLKGEMGHQEESLEEFD-EAWSELNEQVLFLPGLNAYTDIEDASE 320
Query: 321 LQEVESKQKAIEAEKKYTEELAKRINSMESKL 352
+E+ + A+E +K E+ A++ N +E KL
Sbjct: 321 EDRIEAYKAALENVRKKMEKEAEKANKLEKKL 352
>gnl|CDD|240020 cd04662, Nudix_Hydrolase_5, 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 = 28.2 bits (63), Expect = 3.0
Identities = 9/22 (40%), Positives = 11/22 (50%)
Query: 242 KNQPRVNEDPKEALLREYQEEI 263
K + EDP A RE+ EE
Sbjct: 39 KGEYTEGEDPLLAAKREFSEET 60
>gnl|CDD|235427 PRK05354, PRK05354, arginine decarboxylase; Provisional.
Length = 634
Score = 29.3 bits (67), Expect = 3.2
Identities = 13/38 (34%), Positives = 25/38 (65%), Gaps = 1/38 (2%)
Query: 290 EYLN-EEEDKLNNKRKRIMNENHLSDAEKQKLLQEVES 326
EY+ + ++ L R++ + E LS E+Q+LL+E+E+
Sbjct: 586 EYVQYDPKELLERLREKAVKEGKLSPEERQQLLEELEA 623
>gnl|CDD|221117 pfam11460, DUF3007, Protein of unknown function (DUF3007). This is
a family of uncharacterized proteins found in bacteria
and eukaryotes.
Length = 104
Score = 27.7 bits (62), Expect = 3.2
Identities = 12/39 (30%), Positives = 18/39 (46%), Gaps = 6/39 (15%)
Query: 288 REEYLNEEEDKLNNKRKRIMNENHLSDAEKQKLLQEVES 326
RE Y ++L +KR + LS E + L E+E
Sbjct: 72 REAYDALTNEEL---QKRF---DSLSPEELEALQAELEE 104
>gnl|CDD|236979 PRK11779, sbcB, exonuclease I; Provisional.
Length = 476
Score = 29.4 bits (67), Expect = 3.2
Identities = 19/71 (26%), Positives = 30/71 (42%), Gaps = 17/71 (23%)
Query: 281 LNDENQTR-EEY----LNEEE-DKLNNKRKRIMNENHLSDAEKQKLLQEVESKQKAIEAE 334
L+DE Q R E+ L E + + +++ E + D EKQ LL+ +
Sbjct: 417 LDDEEQQRWLEHRRQRLTPERLQQYAAELEQLAQE-YEDDEEKQALLKALY--------- 466
Query: 335 KKYTEELAKRI 345
Y EEL +
Sbjct: 467 -DYAEELVPTL 476
>gnl|CDD|118668 pfam10140, YukC, WXG100 protein secretion system (Wss), protein
YukC. Members of this family of proteins include
predicted membrane proteins homologous to YukC in B.
subtilis. The YukC protein family would participate to
the formation of a translocon required for the secretion
of WXG100 proteins (pfam06013) in monoderm bacteria, the
WXG100 protein secretion system (Wss). This family
includes EssB in Staphylococcus aureus.
Length = 359
Score = 28.8 bits (65), Expect = 4.1
Identities = 12/39 (30%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 299 LNNKRKRIMNENHLSDAEKQKLLQEVESKQKAIEAEKKY 337
L R+++ N++ LS E+Q+ L E+E + E K+
Sbjct: 323 LTKYREQVKNDDDLSGDERQEKLDELEDELD--EYWKER 359
>gnl|CDD|236421 PRK09231, PRK09231, fumarate reductase flavoprotein subunit;
Validated.
Length = 582
Score = 29.2 bits (66), Expect = 4.1
Identities = 23/78 (29%), Positives = 33/78 (42%), Gaps = 13/78 (16%)
Query: 238 AKNIKNQPRVNEDPKEALLREYQEEIQRLKNLLNQRTVQPSSKLNDE-NQTREE----YL 292
A+ NE AL + + QRLK L+NQ + +K+ DE + EE Y
Sbjct: 411 AERAATAGPGNE---AALDAQAADVEQRLKALVNQEGGENWAKIRDEMGLSMEEGCGIYR 467
Query: 293 NEEE-----DKLNNKRKR 305
E DKL ++R
Sbjct: 468 TPELMQKTIDKLAELKER 485
>gnl|CDD|235078 PRK02858, PRK02858, germination protease; Provisional.
Length = 369
Score = 28.9 bits (65), Expect = 4.3
Identities = 14/51 (27%), Positives = 22/51 (43%), Gaps = 3/51 (5%)
Query: 277 PSSKLNDENQT--REEYLNEEEDKLNNKRKRIMNE-NHLSDAEKQKLLQEV 324
PS L T ++ L EE+ R + L + EK++L+ EV
Sbjct: 271 PSRSLLPAGMTFGEKKKLTEEDLPDEKSRNTFLGMVGTLEEEEKRQLIYEV 321
>gnl|CDD|132062 TIGR03017, EpsF, chain length determinant protein EpsF. Sequences
in this family of proteins are members of the chain
length determinant family (pfam02706) which includes the
wzc protein from E.coli. This family of proteins are
homologous to the EpsF protein of the methanolan
biosynthesis operon of Methylobacillus species strain
12S. The distribution of this protein appears to be
restricted to a subset of exopolysaccharide operons
containing a syntenic grouping of genes including a
variant of the EpsH exosortase protein. Exosortase has
been proposed to be involved in the targetting and
processing of proteins containing the PEP-CTERM domain
to the exopolysaccharide layer.
Length = 444
Score = 29.0 bits (65), Expect = 4.4
Identities = 24/96 (25%), Positives = 49/96 (51%), Gaps = 8/96 (8%)
Query: 260 QEEIQRLKNLLNQRTVQPSSKLNDENQTREEYLNEEEDKLNNKRKRIMNENHLSDAEKQK 319
Q EI LK+ LN + +S + ++ ++ E + L N++ +++ N D E
Sbjct: 288 QAEINSLKSQLNAEIKKVTSSVGTNSRILKQREAELREALENQKAKVLELNRQRD-EMSV 346
Query: 320 LLQEVESKQKAIE-AEKKYTEELAKRINSMESKLLQ 354
L ++VE+ Q+A + A ++YT+ +E++ Q
Sbjct: 347 LQRDVENAQRAYDAAMQRYTQ------TRIEAQSNQ 376
>gnl|CDD|240046 cd04690, Nudix_Hydrolase_31, 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 = 118
Score = 27.6 bits (62), Expect = 4.6
Identities = 8/15 (53%), Positives = 11/15 (73%)
Query: 249 EDPKEALLREYQEEI 263
E P +AL+RE EE+
Sbjct: 36 ETPLQALIRELSEEL 50
>gnl|CDD|238686 cd01390, HMGB-UBF_HMG-box, HMGB-UBF_HMG-box, class II and III
members of the HMG-box superfamily of DNA-binding
proteins. These proteins bind the minor groove of DNA in
a non-sequence specific fashion and contain two or more
tandem HMG boxes. Class II members include non-histone
chromosomal proteins, HMG1 and HMG2, which bind to bent
or distorted DNA such as four-way DNA junctions,
synthetic DNA cruciforms, kinked cisplatin-modified DNA,
DNA bulges, cross-overs in supercoiled DNA, and can
cause looping of linear DNA. Class III members include
nucleolar and mitochondrial transcription factors, UBF
and mtTF1, which bind four-way DNA junctions.
Length = 66
Score = 26.4 bits (59), Expect = 5.2
Identities = 14/54 (25%), Positives = 25/54 (46%), Gaps = 2/54 (3%)
Query: 285 NQTREEYLNEEEDKLNNKRKRIMNE--NHLSDAEKQKLLQEVESKQKAIEAEKK 336
+ R + E D + +I+ E LS+ EK+K ++ E ++ E E K
Sbjct: 13 QEQRPKLKKENPDASVTEVTKILGEKWKELSEEEKKKYEEKAEKDKERYEKEMK 66
>gnl|CDD|200340 TIGR03927, T7SS_EssA_Firm, type VII secretion protein EssA.
Members of this family are associated with type VII
secretion of WXG100 family targets in the Firmicutes,
but not in the Actinobacteria. This highly divergent
protein family consists largely of a central region of
highly polar low-complexity sequence containing
occasional LF motifs in weak repeats about 17 residues
in length, flanked by hydrophobic N- and C-terminal
regions [Protein fate, Protein and peptide secretion and
trafficking].
Length = 150
Score = 27.7 bits (62), Expect = 5.7
Identities = 14/59 (23%), Positives = 25/59 (42%), Gaps = 2/59 (3%)
Query: 278 SSKLNDENQTREEYLNEEEDKLNNKRKRIMNENHLSDAEKQKLLQEVESKQKAIEAEKK 336
+ L +E + +E EE K +K E + K +L E ++ ++A KK
Sbjct: 40 TDYLQEETELDKELFTPEEQKKITFQK--HKEKPEQEELKNQLFSENATENNTVKATKK 96
>gnl|CDD|218749 pfam05788, Orbi_VP1, Orbivirus RNA-dependent RNA polymerase (VP1).
This family consists of the RNA-dependent RNA polymerase
protein VP1 from the Orbiviruses. VP1 may have both
enzymatic and structural roles in the virus life cycle.
Length = 1301
Score = 28.6 bits (64), Expect = 5.8
Identities = 16/41 (39%), Positives = 24/41 (58%), Gaps = 5/41 (12%)
Query: 315 AEKQKLLQEVESKQKAI----EAEKKYT-EELAKRINSMES 350
AEK+K + S+ KA+ E K +T E L K+ N++ES
Sbjct: 462 AEKRKEFIRIVSRIKALVIFTEGHKIFTPENLEKKYNTVES 502
>gnl|CDD|132364 TIGR03321, alt_F1F0_F0_B, alternate F1F0 ATPase, F0 subunit B. A
small number of taxonomically diverse prokaryotic
species, including Methanosarcina barkeri, have what
appears to be a second ATP synthase, in addition to the
normal F1F0 ATPase in bacteria and A1A0 ATPase in
archaea. These enzymes use ion gradients to synthesize
ATP, CC and in principle may run in either direction.
This model represents the F0 subunit B of this apparent
second ATP synthase.
Length = 246
Score = 28.1 bits (63), Expect = 5.9
Identities = 21/97 (21%), Positives = 42/97 (43%), Gaps = 25/97 (25%)
Query: 253 EALLREYQEEIQRLKNLLNQRTVQPSSKLNDENQTREEYLNEEEDKLNNKRKRIMNENHL 312
E REY+E+ + L +Q RE L + +++ +R+R+++E
Sbjct: 56 EQERREYEEKNEEL------------------DQQREVLLTKAKEEAQAERQRLLDEARE 97
Query: 313 SDAEKQKLLQEVESKQKAIEAEKK-YTEELAKRINSM 348
E ++ QE A+ E+ ++EL +R +
Sbjct: 98 EADEIREKWQE------ALRREQAALSDELRRRTGAE 128
>gnl|CDD|236841 PRK11088, rrmA, 23S rRNA methyltransferase A; Provisional.
Length = 272
Score = 28.3 bits (64), Expect = 6.0
Identities = 15/60 (25%), Positives = 25/60 (41%), Gaps = 7/60 (11%)
Query: 303 RKRIMNENH---LSDAEKQKLLQEVESKQKAIE----AEKKYTEELAKRINSMESKLLQG 355
R+ ++ H L DA L + ++ K A+ E YT LA + + + L G
Sbjct: 58 RRAFLDAGHYQPLRDAVANLLAERLDEKATALLDIGCGEGYYTHALADALPEITTMQLFG 117
>gnl|CDD|215969 pfam00521, DNA_topoisoIV, DNA gyrase/topoisomerase IV, subunit A.
Length = 427
Score = 28.6 bits (65), Expect = 6.1
Identities = 24/124 (19%), Positives = 42/124 (33%), Gaps = 25/124 (20%)
Query: 243 NQPRVNEDPKEALLRE--------YQEEIQRLKNLLNQRTVQPSSKLNDENQTRE-EYLN 293
P+ + KE +L+E Y+ + L L +R L N+ +
Sbjct: 299 GGPKY-LNLKE-ILKEFLEHRLEVYKRRKEYLLEKLEERLHILEGLLKALNKIDFVIEVI 356
Query: 294 EEEDKLNNKRKRIMNE--------------NHLSDAEKQKLLQEVESKQKAIEAEKKYTE 339
L +K ++ E L+ E +KL +E+E +K I +K
Sbjct: 357 RGSIDLKKAKKELIEELSEIQADYLLDMRLRRLTKEEIEKLEKEIEELEKEIAELEKILA 416
Query: 340 ELAK 343
K
Sbjct: 417 SEKK 420
>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 = 27.1 bits (61), Expect = 6.6
Identities = 8/16 (50%), Positives = 13/16 (81%)
Query: 248 NEDPKEALLREYQEEI 263
E P++AL+RE +EE+
Sbjct: 40 GETPEQALVRELREEL 55
>gnl|CDD|171853 PRK13038, PRK13038, superantigen-like protein; Reviewed.
Length = 227
Score = 28.1 bits (62), Expect = 6.7
Identities = 17/42 (40%), Positives = 25/42 (59%), Gaps = 2/42 (4%)
Query: 228 SLTTLRYANRAKNIKNQPRVNEDPKEALLREYQEEIQRLKNL 269
+LTT ++ AK +NQ VN+ KEAL R Y + +KN+
Sbjct: 20 TLTTEVHSGHAK--QNQKSVNKHDKEALYRYYTGKTMEMKNI 59
>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 = 28.5 bits (64), Expect = 6.8
Identities = 23/96 (23%), Positives = 44/96 (45%), Gaps = 9/96 (9%)
Query: 261 EEIQRLKNLLN-QRTVQPSSKLNDENQTREEYLNEEEDKLNNKRKRIMNENHLSDAEKQK 319
+Q L ++ N L D+ ++ EE D+L+ K++ L E+++
Sbjct: 136 PVVQELVSIFNDLIDSIKEDNLKDDLESLIASAKEELDQLS---KKL---AELKAEEEEE 189
Query: 320 LLQEVESKQKAIEAEKKYTEELAKRINSMESKLLQG 355
L + ++ K++ E K EEL R+ S E+ L +
Sbjct: 190 LERALKEKRE--ELLSKLEEELLARLESKEAALEKQ 223
>gnl|CDD|233467 TIGR01554, major_cap_HK97, phage major capsid protein, HK97 family.
This model family represents the major capsid protein
component of the heads (capsids) of bacteriophage HK97,
phi-105, P27, and related phage. This model represents
one of several analogous families lacking detectable
sequence similarity. The gene encoding this component is
typically located in an operon encoding the small and
large terminase subunits, the portal protein and the
prohead or maturation protease [Mobile and
extrachromosomal element functions, Prophage functions].
Length = 384
Score = 28.1 bits (63), Expect = 7.0
Identities = 19/98 (19%), Positives = 40/98 (40%), Gaps = 3/98 (3%)
Query: 256 LREYQEEIQRLKNLLNQRTVQPSSKLNDENQTREEYLNEEEDKLNNKRKRI---MNENHL 312
L+E +E + L L + T +E + + L EE DKL+ + R+ ++E
Sbjct: 1 LKELREALAELAKELRKLTEDEKLAEAEEEKAEYDALKEEIDKLDAEIDRLEELLDELEA 60
Query: 313 SDAEKQKLLQEVESKQKAIEAEKKYTEELAKRINSMES 350
A + E +++A ++ L +++
Sbjct: 61 KPAASGEGGGGEEEEEEAKAEAAEFRAYLRGGDDALAE 98
>gnl|CDD|217933 pfam04156, IncA, IncA protein. Chlamydia trachomatis is an
obligate intracellular bacterium that develops within a
parasitophorous vacuole termed an inclusion. The
inclusion is non-fusogenic with lysosomes but intercepts
lipids from a host cell exocytic pathway. Initiation of
chlamydial development is concurrent with modification
of the inclusion membrane by a set of C.
trachomatis-encoded proteins collectively designated
Incs. One of these Incs, IncA, is functionally
associated with the homotypic fusion of inclusions. This
family probably includes members of the wider Inc family
rather than just IncA.
Length = 186
Score = 27.4 bits (61), Expect = 8.0
Identities = 24/100 (24%), Positives = 44/100 (44%), Gaps = 5/100 (5%)
Query: 253 EALLREYQEEIQRLKNLLNQRTVQPSSKLNDENQTREEY--LNEEEDKLNNKRKRIMNEN 310
+ L E QEE++ L+ + + + D RE L E + L K + E
Sbjct: 85 KQQLSELQEELEDLEERIAELESELEDLKEDLQLLRELLKSLEERLESLEESIKELAKE- 143
Query: 311 HLSDAEKQKLLQEVESKQKAIEAEKKYTEELAKRINSMES 350
L + Q L +EVE ++ +E ++ + L + I ++S
Sbjct: 144 -LRELR-QDLREEVEELREELERLQENLQRLQEAIQELQS 181
>gnl|CDD|204784 pfam11932, DUF3450, Protein of unknown function (DUF3450). This
family of proteins are functionally uncharacterized.
This protein is found in bacteria and eukaryotes.
Proteins in this family are about 260 amino acids in
length.
Length = 250
Score = 27.6 bits (62), Expect = 8.7
Identities = 9/42 (21%), Positives = 21/42 (50%)
Query: 313 SDAEKQKLLQEVESKQKAIEAEKKYTEELAKRINSMESKLLQ 354
+ Q+LL E+ K IE + Y ++L + + + + ++
Sbjct: 48 WADQTQELLAEIRQLLKEIENLRVYNDQLQRLVANQQQEIAS 89
>gnl|CDD|223571 COG0497, RecN, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 557
Score = 27.9 bits (63), Expect = 8.7
Identities = 18/95 (18%), Positives = 34/95 (35%), Gaps = 23/95 (24%)
Query: 253 EALLREYQEEIQRLKNLLNQRTVQPSSKLNDENQTREEYLN-------------EEEDKL 299
E YQE Q K + + + E R + L E+++L
Sbjct: 153 ELAQEAYQEAYQAWKQARREL--EDLQEKERERAQRADLLQFQLEELEELNLQPGEDEEL 210
Query: 300 NNKRKRIMNENHLSDAEKQKLLQEVESKQKAIEAE 334
+RKR+ N +KL + +++ + + E
Sbjct: 211 EEERKRLSN--------SEKLAEAIQNALELLSGE 237
>gnl|CDD|184287 PRK13735, PRK13735, conjugal transfer mating pair stabilization
protein TraG; Provisional.
Length = 942
Score = 28.2 bits (63), Expect = 9.3
Identities = 15/93 (16%), Positives = 34/93 (36%), Gaps = 8/93 (8%)
Query: 260 QEEIQRLKNLLNQRTVQPSSKLNDENQTREEYLNEEEDKLNNKRKRIMNENHLSDAEKQK 319
+ +++ + N T + + D + + EE+ + + + N + +
Sbjct: 856 RNDVK--HQVDNMVT-EYEGNIGDTQNS----IRGEENTVKGQYSELQNHHKTEALSQNN 908
Query: 320 LLQEVESKQKAIEAEKKYTEELAKRINSMESKL 352
E +S Q+ + EEL KR + K
Sbjct: 909 KYNEEKSAQERMPGADS-PEELMKRAKEYQDKH 940
>gnl|CDD|188441 TIGR03926, T7_EssB, type VII secretion protein EssB. Members of
this family are associated with type VII secretion of
WXG100 family targets in the Firmicutes, but not in the
Actinobacteria. This protein is designated YukC in
Bacillus subtilis and EssB is Staphylococcus aureus
[Protein fate, Protein and peptide secretion and
trafficking].
Length = 377
Score = 27.7 bits (62), Expect = 9.3
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 299 LNNKRKRIMNENHLSDAEKQKLLQEVESK 327
L R+++ N+ LS E+Q+ L E+E +
Sbjct: 342 LVKYREQVKNDTDLSGDERQEKLDELEKE 370
>gnl|CDD|132983 cd06652, STKc_MEKK2, Catalytic domain of the Protein
Serine/Threonine Kinase, MAP/ERK kinase kinase 2.
Serine/threonine kinases (STKs), MAP/ERK kinase kinase 2
(MEKK2) subfamily, catalytic (c) domain. STKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
MEKK2 subfamily is part of a larger superfamily that
includes the catalytic domains of other protein STKs,
protein tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. MEKK2 is a mitogen-activated protein kinase
(MAPK) kinase kinase (MAPKKK or MKKK or MAP3K), that
phosphorylates and activates the MAPK kinase MEK5 (or
MKK5), which in turn phosphorylates and activates
extracellular signal-regulated kinase 5 (ERK5). The ERK5
cascade plays roles in promoting cell proliferation,
differentiation, neuronal survival, and neuroprotection.
MEKK2 also activates ERK1/2, c-Jun N-terminal kinase
(JNK) and p38 through their respective MAPKKs MEK1/2,
JNK-activating kinase 2 (JNKK2), and MKK3/6. MEKK2 plays
roles in T cell receptor signaling, immune synapse
formation, cytokine gene expression, as well as in EGF
and FGF receptor signaling.
Length = 265
Score = 27.7 bits (61), Expect = 9.4
Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 239 KNIKNQPRVNEDPKEALLREYQEEIQRLKNLLNQRTVQPSSKLND 283
K ++ P E KE + + EIQ LKNLL++R VQ L D
Sbjct: 33 KQVQFDPESPETSKE--VNALECEIQLLKNLLHERIVQYYGCLRD 75
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
0.309 0.127 0.331
Gapped
Lambda K H
0.267 0.0788 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,417,177
Number of extensions: 1690204
Number of successful extensions: 2927
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2654
Number of HSP's successfully gapped: 417
Length of query: 355
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 257
Effective length of database: 6,590,910
Effective search space: 1693863870
Effective search space used: 1693863870
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 60 (26.8 bits)