RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780831|ref|YP_003065244.1| hypothetical protein
CLIBASIA_03620 [Candidatus Liberibacter asiaticus str. psy62]
(341 letters)
>gnl|CDD|38232 KOG3022, KOG3022, KOG3022, Predicted ATPase, nucleotide-binding
[Cell cycle control, cell division, chromosome
partitioning].
Length = 300
Score = 261 bits (669), Expect = 2e-70
Identities = 111/260 (42%), Positives = 164/260 (63%), Gaps = 3/260 (1%)
Query: 85 PPQQRNNLNVKKFVAVASGKGGVGKSTTVVNIACALKNKGKNVAILDADVYGPSIPKLLK 144
P +Q N VK + V SGKGGVGKST VN+A AL ++GK V +LDAD+ GPSIP+++
Sbjct: 37 PAKQENLSGVKHIILVLSGKGGVGKSTVTVNLALALASEGKKVGLLDADLCGPSIPRMMG 96
Query: 145 ISGKVEISDKKFLKP-KENYGIKIMSMASLV-DENVAMIWRGPMVQSAIMHMLHNVVWGQ 202
+ G+V P N +K+MSM L+ + ++IWRGP S I L +V WG+
Sbjct: 97 LEGEVVHQSDNGWIPVVVNKNLKLMSMGFLLKPRDDSVIWRGPKKNSMIKQFLKDVDWGE 156
Query: 203 LDFLLIDMPPGTGDAHLTIAQKIPLS-GVVIVSTPQDLALIDVKRAISMYQKMNIPIIGM 261
LD+L+ID PPGT D HL++ Q + S G VIV+TPQ++AL DV++ I +K IPI+G+
Sbjct: 157 LDYLVIDTPPGTSDEHLSLVQFLRESDGAVIVTTPQEVALQDVRKEIDFCRKAGIPILGV 216
Query: 262 IENMSYFLASDTGKKYDLFGNGGARFEAEKIGIPFLESVPFDMDVRVLSDLGIPIVVHNM 321
+ENMS F+ G ++FG+GG AE++G+P L S+P D + SD G+P V
Sbjct: 217 VENMSGFVCPKCGHSTNIFGSGGGERLAEELGLPLLGSLPLDPLIAESSDSGVPFVEEYP 276
Query: 322 NSATSEIYQEISDRIQQFFV 341
+S SE +++I++++ +
Sbjct: 277 DSPASEAFEDIAEKLVEQLS 296
>gnl|CDD|73300 cd02037, MRP-like, MRP (Multiple Resistance and pH adaptation) is a
homologue of the Fer4_NifH superfamily. Like the other
members of the superfamily, MRP contains a ATP-binding
domain at the N-termini. It is found in bacteria as a
membrane-spanning protein and functions as a Na+/H+
antiporter..
Length = 169
Score = 238 bits (610), Expect = 1e-63
Identities = 99/207 (47%), Positives = 128/207 (61%), Gaps = 39/207 (18%)
Query: 98 VAVASGKGGVGKSTTVVNIACALKNKGKNVAILDADVYGPSIPKLLKISGKVEISDKKFL 157
+AV SGKGGVGKST VN+A AL G V +LDAD+YGPSIPK+
Sbjct: 2 IAVMSGKGGVGKSTVAVNLALALAKLGYKVGLLDADIYGPSIPKM--------------- 46
Query: 158 KPKENYGIKIMSMASLVDENVAMIWRGPMVQSAIMHMLHNVVWGQLDFLLIDMPPGTGDA 217
WRGPM AI L +V WG+LD+L+IDMPPGTGD
Sbjct: 47 ------------------------WRGPMKMGAIKQFLTDVDWGELDYLVIDMPPGTGDE 82
Query: 218 HLTIAQKIPLSGVVIVSTPQDLALIDVKRAISMYQKMNIPIIGMIENMSYFLASDTGKKY 277
HLT+AQ +P+ G VIV+TPQ++AL DV++AI M++K+NIPI+G++ENMSYF+ GKK
Sbjct: 83 HLTLAQSLPIDGAVIVTTPQEVALDDVRKAIDMFKKVNIPILGVVENMSYFVCPHCGKKI 142
Query: 278 DLFGNGGARFEAEKIGIPFLESVPFDM 304
+FG GG AE++G+P L +P D
Sbjct: 143 YIFGKGGGEKLAEELGVPLLGKIPLDP 169
>gnl|CDD|30835 COG0489, Mrp, ATPases involved in chromosome partitioning [Cell
division and chromosome partitioning].
Length = 265
Score = 194 bits (493), Expect = 3e-50
Identities = 103/274 (37%), Positives = 153/274 (55%), Gaps = 17/274 (6%)
Query: 43 LSITVPHTIAHQLQSLRSNAQQIIQNIPTVKNAVVTLTENKNPPQQRNNL--NVKKFVAV 100
+ I + A + + + + + A L + + L VK +AV
Sbjct: 3 VEIELALPFASSSEEIPELLAKALAALLPKSTASEALRALRTNLKFAKVLRKGVKNVIAV 62
Query: 101 ASGKGGVGKSTTVVNIACALKNKGKNVAILDADVYGPSIPKLLKISGKVEISD----KKF 156
SGKGGVGKST VN+A AL GK V +LDAD+ GPSIP++L + +++ +
Sbjct: 63 TSGKGGVGKSTVAVNLAAALAQLGKRVLLLDADLRGPSIPRMLGLENLPGLTELLAGEAL 122
Query: 157 LKPKENYGIKIMSMASLVDENVAMIWRGPMVQSAIMHMLHNVVWGQLDFLLIDMPPGTGD 216
++ GIK++S+ L V +I RG + A++ +L +V+WG+ D+++ID PPGTGD
Sbjct: 123 EPVIQHDGIKVLSILPLGP--VPVIPRGLLGSKAMLQLLEDVLWGEYDYVIIDTPPGTGD 180
Query: 217 AHLTIAQKIPLSGVVIVSTPQDLALIDVKRAISMYQKMNIPIIGMIENMSYFLASDTGKK 276
A T+ Q+IP GVVIV+TP AL DVK+AI M +K IP++G++ENMSYF+ G+
Sbjct: 181 ADATVLQRIPD-GVVIVTTPGKTALEDVKKAIDMLEKAGIPVLGVVENMSYFICPRCGE- 238
Query: 277 YDLFGNGGARFEAEKIGIPFLESVPFDMDVRVLS 310
GG AE+ G P+L S+P D R S
Sbjct: 239 ------GGGEKYAERYG-PYLGSIPLDPSAREAS 265
>gnl|CDD|73299 cd02036, MinD, Bacterial cell division requires the formation of a
septum at mid-cell. The site is determined by the min
operon products MinC, MinD and MinE. MinC is a
nonspecific inhibitor of the septum protein FtsZ. MinE
is the supressor of MinC. MinD plays a pivotal role,
selecting the mid-cell over other sites through the
activation and regulation of MinC and MinE. MinD is a
membrane-associated ATPase, related to nitrogenase iron
protein. More distantly related proteins include
flagellar biosynthesis proteins and ParA chromosome
partitioning proteins. MinD is a monomer..
Length = 179
Score = 90.6 bits (225), Expect = 6e-19
Identities = 59/234 (25%), Positives = 99/234 (42%), Gaps = 58/234 (24%)
Query: 98 VAVASGKGGVGKSTTVVNIACALKNKGKNVAILDADVYGPSIPKLLKISGKVEISDKKFL 157
+ V SGKGGVGK+TT N+ AL G V ++DAD+ ++ +L + +V +
Sbjct: 2 IVVTSGKGGVGKTTTTANLGTALAQLGYKVVLIDADLGLRNLDLILGLENRVVYT----- 56
Query: 158 KPKENYGIKIMSMASLVDENVAMIWRGPMVQSAIMHMLHNVVWGQLDFLLIDMPPGTG-D 216
LH+V+ G D++LID P G
Sbjct: 57 -------------------------------------LHDVLAG--DYILIDSPAGIERG 77
Query: 217 AHLTIAQKIPLSGVVIVSTPQDLALIDVKRAISMYQKMNIPIIGMIENMSYFLASDTGKK 276
IA P ++V+TP+ +L D R + + + I ++G+I N +
Sbjct: 78 FITAIA---PADEALLVTTPEISSLRDADRVKGLLEALGIKVVGVIVNRV---------R 125
Query: 277 YDLFGNGGARFEAEKI-GIPFLESVPFDMDVRVLSDLGIPIVVHNMNSATSEIY 329
D+ G + E+I G+P L +P D V ++ G P+V++ S ++ Y
Sbjct: 126 PDMVEGGDMVEDIEEILGVPLLGVIPEDPAVIRATNRGEPVVLNKPKSPAAQAY 179
>gnl|CDD|30803 COG0455, COG0455, ATPases involved in chromosome partitioning [Cell
division and chromosome partitioning].
Length = 262
Score = 86.5 bits (214), Expect = 1e-17
Identities = 62/258 (24%), Positives = 116/258 (44%), Gaps = 29/258 (11%)
Query: 96 KFVAVASGKGGVGKSTTVVNI-ACALKNKGKNVAILDADVYGPSIPKLLKI-SGKVEISD 153
K +AV SGKGGVGK+T N+ A GK V ++DAD+ ++ LL + S + D
Sbjct: 3 KVIAVVSGKGGVGKTTITANLGAALAALGGKVVLLIDADLGLGNLSLLLGVESKPTTLHD 62
Query: 154 --KKFLKPKE------NYGIKIMSMASLVDENVAMIWRGPMVQSAIMHMLHNVVWGQLDF 205
++ G+ ++ S +++ + P ++ L D+
Sbjct: 63 VLAGEASIEDIIYETPQDGLYVLPGGSGLEDLAKL---DPEDLEDVIKELE----ELYDY 115
Query: 206 LLIDMPPGTGDAHLTIAQKIPLSGVVIVSTPQDLALIDVKRAISMYQKMNIPIIG--MIE 263
+LID G T++ + +VIV+TP+ ++ D + I + K+ + ++G ++
Sbjct: 116 ILIDTGAGLSRD--TLSFILSSDELVIVTTPEPTSITDAYKTIKILSKLGLDLLGRRVVL 173
Query: 264 NMSYFLASDTGKKYDLFGNGGARFEAEKIGIPFLESVPFDMDVRVLSDLGIPIVVHNMNS 323
N T + D+ A +P L+ +PFD +VR G PIV+++ NS
Sbjct: 174 NR----VRSTKEGVDVA----ALLIQVVKQVPVLQVIPFDPEVRRALAEGKPIVLYSPNS 225
Query: 324 ATSEIYQEISDRIQQFFV 341
S+ +E++ ++
Sbjct: 226 KASQAIKELAAKLAGLPE 243
>gnl|CDD|145019 pfam01656, CbiA, CobQ/CobB/MinD/ParA nucleotide binding domain.
This family consists of various cobyrinic acid
a,c-diamide synthases. These include CbiA and CbiP from
S.typhimurium, and CobQ from R. capsulatus. These
amidases catalyse amidations to various side chains of
hydrogenobyrinic acid or cobyrinic acid a,c-diamide in
the biosynthesis of cobalamin (vitamin B12) from
uroporphyrinogen III. Vitamin B12 is an important
cofactor and an essential nutrient for many plants and
animals and is primarily produced by bacteria. The
family also contains dethiobiotin synthetases as well as
the plasmid partitioning proteins of the MinD/ParA
family.
Length = 212
Score = 76.3 bits (188), Expect = 1e-14
Identities = 39/180 (21%), Positives = 81/180 (45%), Gaps = 19/180 (10%)
Query: 98 VAVASGKGGVGKSTTVVNIACALKNKGKNVAILDADVYGP---SIPKLLKISGKV----E 150
+A+A KGGVGK+T N+A AL +G V ++D D S+ K + + E
Sbjct: 1 IAIAGTKGGVGKTTLAANLARALAKRGYRVLLIDLDPQANLTSSLGKGPDLIDVLKEGLE 60
Query: 151 ISDKKFLKPKENYGIKIMSMASLVDENVAMI-----WRGPMVQSAIMHMLHNVVWGQLDF 205
I D + L+ + ++ + + +I + + ++ D+
Sbjct: 61 IVDAQPLQHIAAAIVPSRNL-----DPLLLIPSNLSLANFESELILEGGEEGLIKLAYDY 115
Query: 206 LLIDMPPGTGDAHLTIAQKIPLSGVVIVSTPQDLALIDVKRAISMYQKMNIPIIGMIENM 265
++ID PG G LT + +V+ P+ +A++ +R + + +++ + I+G++ N
Sbjct: 116 VIIDGAPGLG--ELTANALVAADILVVPIEPEGVAVLGAQRLLELVERLGLKILGVVLNK 173
>gnl|CDD|31343 COG1149, COG1149, MinD superfamily P-loop ATPase containing an
inserted ferredoxin domain [Energy production and
conversion].
Length = 284
Score = 70.7 bits (173), Expect = 5e-13
Identities = 73/306 (23%), Positives = 111/306 (36%), Gaps = 88/306 (28%)
Query: 98 VAVASGKGGVGKSTTVVNIACALKNKGK-----------NVAIL-------DADVYGPSI 139
VAVASGKGG GK+T N+A L +K K N+ +L + +V I
Sbjct: 4 VAVASGKGGTGKTTVAANLAVLLGDKYKLVLADCDVEAPNLHLLLGVEVLEEEEVIRGEI 63
Query: 140 PKL---------------LKISGKVEISDKKFLKPKENYGIKIMSMA------------- 171
P++ + V K L P G S+
Sbjct: 64 PEIDPEKCIRCGKCAEVCRFGAIVVLPGGKPVLNPDLCEGCGACSIVCPEPAIEEEPVVI 123
Query: 172 -----SLVDENVAMIW---------RGPMVQSAIMHMLHNVVWGQLDFLLIDMPPGTGD- 216
S D +I G +V + H D L+ID GTG
Sbjct: 124 GKIYESKTDYGFPLISGRLNVGEEESGKLVTALKKHAKEL-----ADLLIIDSAAGTGCP 178
Query: 217 --AHLTIAQKIPLSGVVIVSTPQDLALIDVKRAISMYQKMNIPIIGMIENMSYFLASDTG 274
A L A ++V+ P L D+KRA+ + + IP G++ N
Sbjct: 179 VIASLKGADL-----AILVTEPTPFGLHDLKRALELVEHFGIPT-GIVIN---------- 222
Query: 275 KKYDLFGNGGARFEAEKIGIPFLESVPFDMDVRVLSDLGIPIVVHNMNSATSEIYQEISD 334
+Y+L G+ E+ GIP L +P+D D+ G P V + A E E ++
Sbjct: 223 -RYNL-GDSEIEEYCEEEGIPILGEIPYDKDIPEAYVNGEPFVEPDSKEA--EAILEEAE 278
Query: 335 RIQQFF 340
++++F
Sbjct: 279 KLKEFI 284
>gnl|CDD|32719 COG2894, MinD, Septum formation inhibitor-activating ATPase [Cell
division and chromosome partitioning].
Length = 272
Score = 69.8 bits (171), Expect = 1e-12
Identities = 60/271 (22%), Positives = 112/271 (41%), Gaps = 56/271 (20%)
Query: 96 KFVAVASGKGGVGKSTTVVNIACALKNKGKNVAILDADVYGPSIPKLLK----------- 144
+ + V SGKGGVGK+TT NI AL GK V ++D D+ ++ ++
Sbjct: 3 RIIVVTSGKGGVGKTTTTANIGTALAQLGKKVVLIDFDIGLRNLDLIMGLENRIVYDLVD 62
Query: 145 -ISGKVEISDKKFLKPKENYGIKIMSMASLVDENVAMIWRGPMVQSAIMHMLHNVVWGQL 203
I G+ ++ + +K K + ++ + D++ + + +++ +
Sbjct: 63 VIEGEATLN-QALIKDKRLENLFLLPASQTRDKDA-------LTPEGVKKVVNELKAMDF 114
Query: 204 DFLLIDMPPG--TGDAHLTIAQKIPLSGVVIVSTPQDLALIDVKRAISMYQKMNIPIIGM 261
D+++ID P G G + ++V+ P+ ++ D R IIG+
Sbjct: 115 DYIIIDSPAGIEQG-FKNAVY---FADEAIVVTNPEVSSVRDSDR-----------IIGL 159
Query: 262 IENMSYFLASDTGKKYDLFGNGGARFEAEKI---------------GIPFLESVPFDMDV 306
+E+ S K L N R+ E + IP + +P D DV
Sbjct: 160 LESKSRRAEIGEEPKEHLLLN---RYRPEMVKRGEMLSVEDVLEILSIPLIGVIPEDQDV 216
Query: 307 RVLSDLGIPIVVHNMNSATSEIYQEISDRIQ 337
S+ G P V+ + NS + Y++I+ R+
Sbjct: 217 LRASNKGEP-VILDDNSDAGKAYRDIARRLL 246
>gnl|CDD|73339 cd03110, Fer4_NifH_child, This protein family's function is unkown.
It contains nucleotide binding site. It uses NTP as
energy source to transfer electron or ion..
Length = 179
Score = 67.9 bits (166), Expect = 3e-12
Identities = 57/206 (27%), Positives = 85/206 (41%), Gaps = 30/206 (14%)
Query: 98 VAVASGKGGVGKSTTVVNIACALKNKGKNVAILDADVYGPSIPKLLKISGKVEISDKKFL 157
+AV SGKGG GK+T +A LKN V + D DV P++ LK ++E + +
Sbjct: 2 IAVISGKGGTGKTTVTAALAALLKN----VVLADCDVDAPNLHLFLK--PEIEEEEDFIV 55
Query: 158 KPKENYGIKIMSMASLVDENVAMIWRGPMVQSAIMHMLHNVVWGQLDFLLIDMPPGTGDA 217
K K + L G +V H + ++ID PPG G
Sbjct: 56 GGK-----KAVIDPELCISCGLC---GKLVTEVRKHAKEIAKAEGAELIIIDGPPGIGCP 107
Query: 218 HLTIAQKIPLSGVVIVSTPQDLALIDVKRAISMYQKMNIPIIGMIENMSYFLASDTGKKY 277
IA ++V+ P L D++RA+ + + IP +G++ N KY
Sbjct: 108 --VIASLTGADAALLVTEPTPSGLHDLERAVELVRHFGIP-VGVVIN-----------KY 153
Query: 278 DLFGNGGARFE--AEKIGIPFLESVP 301
DL E E+ GIP L +P
Sbjct: 154 DLNDEIAEEIEDYCEEEGIPILGKIP 179
>gnl|CDD|164554 CHL00175, minD, septum-site determining protein; Validated.
Length = 281
Score = 64.8 bits (158), Expect = 3e-11
Identities = 55/249 (22%), Positives = 112/249 (44%), Gaps = 28/249 (11%)
Query: 81 ENKNPPQQRNNLNVKKFVAVASGKGGVGKSTTVVNIACALKNKGKNVAILDADVYGPSIP 140
E + + + + + + SGKGGVGK+TT N+ ++ G VA++DAD+ ++
Sbjct: 1 EQITTEDKEKSATMSRIIVITSGKGGVGKTTTTANLGMSIARLGYRVALIDADIGLRNLD 60
Query: 141 KLLKISGKVEIS-----------DKKFLKPKENYGIKIMSMASLVDENVAMIWRGPMVQS 189
LL + +V + D+ ++ K + +++++ R + +
Sbjct: 61 LLLGLENRVLYTAMDVLEGECRLDQALIRDKRWKNLSLLAISKNRQ-------RYNVTRK 113
Query: 190 AIMHMLHNVVWGQLDFLLIDMPPGTGDA-HLTIAQKIPLSGVVIVSTPQDLALIDVKRAI 248
+ ++ ++ D++LID P G IA P ++V+TP+ A+ D R
Sbjct: 114 NMNMLVDSLKNRGYDYILIDCPAGIDVGFINAIA---PAQEAIVVTTPEITAIRDADRVA 170
Query: 249 SMYQKMNIPIIGMIENMSYFLASDTGKKYDLFGNGGARFEAEKIGIPFLESVPFDMDVRV 308
+ + I + ++ N + D + D+ R E +GIP L ++P D +V +
Sbjct: 171 GLLEANGIYNVKLLVNR---VRPDMIQANDMM---SVRDVQEMLGIPLLGAIPEDENVII 224
Query: 309 LSDLGIPIV 317
++ G P+V
Sbjct: 225 STNRGEPLV 233
>gnl|CDD|31385 COG1192, Soj, ATPases involved in chromosome partitioning [Cell
division and chromosome partitioning].
Length = 259
Score = 62.5 bits (151), Expect = 1e-10
Identities = 55/259 (21%), Positives = 97/259 (37%), Gaps = 21/259 (8%)
Query: 96 KFVAVASGKGGVGKSTTVVNIACAL-KNKGKNVAILDADVYG---------PSIPKLLKI 145
K +AVA+ KGGVGK+TT VN+A AL K GK V ++D D G P + L
Sbjct: 3 KIIAVANQKGGVGKTTTAVNLAAALAKRGGKKVLLIDLDPQGSLTSWLGLRPDLEGDLYN 62
Query: 146 SGKVEISDKKFLKPK-ENYGIKIMSMASLVDENVAMIWRGPMVQSAIMHMLHNVVWGQLD 204
L G+ ++ + E + + + +L + V D
Sbjct: 63 LLSGLKERPDILDYTVVIEGLDLIPSNIDLAEGAEIELNAVAKELLLKRLL-DPVKDDYD 121
Query: 205 FLLIDMPPGTGDAHLTIAQKIPLSGVVIVSTPQDLALI---DVKRAISMYQKMNIPIIGM 261
+++ID PP G LT+ V+I P+ L L + + K+ + +
Sbjct: 122 YIIIDTPPSLGV--LTLNALAAADHVLIPVQPEFLDLEGLEQLLNTLEDLLKLRRNKLIV 179
Query: 262 IENMSYFLASDTGKKYDLFGNGGARFEAEKIGIPFLESVPFDMDVRVLSDLGIPIVVHNM 321
+ + S T ++ + V + R + G P+ ++
Sbjct: 180 VGILITRFDSRTKLADEVLQELKQLLGDPVLKTKIPRRVAY----REAAAEGKPLYEYDP 235
Query: 322 NSATSEIYQEISDRIQQFF 340
S +E Y E++ + +
Sbjct: 236 KSKAAEEYYELAKELLEEL 254
>gnl|CDD|73301 cd02038, FleN-like, FleN is a member of the Fer4_NifH superfamily.
It shares the common function as an ATPase, with the
ATP-binding domain at the N-terminus. In Pseudomonas
aeruginosa, FleN gene is involved in regulating the
number of flagella and chemotactic motility by
influencing FleQ activity..
Length = 139
Score = 58.6 bits (142), Expect = 2e-09
Identities = 21/38 (55%), Positives = 26/38 (68%)
Query: 97 FVAVASGKGGVGKSTTVVNIACALKNKGKNVAILDADV 134
+AV SGKGGVGK+ N+A AL GK V +LDAD+
Sbjct: 1 IIAVTSGKGGVGKTNISANLALALAKLGKRVLLLDADL 38
Score = 30.5 bits (69), Expect = 0.78
Identities = 19/100 (19%), Positives = 42/100 (42%), Gaps = 6/100 (6%)
Query: 203 LDFLLIDMPPGTGDAHLTIAQKIPLSGVVIVSTPQDLALIDVKRAIS-MYQKMNIPIIGM 261
D+++ID G D L V++V+TP+ ++ D I + +++ + +
Sbjct: 45 YDYIIIDTGAGISDNVLDFFLAAD--EVIVVTTPEPTSITDAYALIKKLAKQLRVLNFRV 102
Query: 262 IENMSYFLASDTGKKYDLFGNGGARFEAEKIGIPFLESVP 301
+ N + + K + N RF + + +L +P
Sbjct: 103 VVNRAES-PKEGKKVFKRLSNVSNRFLG--LSLDYLGFIP 139
>gnl|CDD|73298 cd02035, ArsA, ArsA ATPase functionas as an efflux pump located on
the inner membrane of the cell. This ATP-driven oxyanion
pump catalyzes the extrusion of arsenite, antimonite and
arsenate. Maintenance of a low intracellular
concentration of oxyanion produces resistance to the
toxic agents. The pump is composed of two subunits, the
catalytic ArsA subunit and the membrane subunit ArsB,
which are encoded by arsA and arsB genes respectively.
Arsenic efflux in bacteria is catalyzed by either ArsB
alone or by ArsAB complex. The ATP-coupled pump,
however, is more efficient. ArsA is composed of two
homologous halves, A1 and A2, connected by a short
linker sequence..
Length = 217
Score = 58.4 bits (141), Expect = 3e-09
Identities = 40/187 (21%), Positives = 72/187 (38%), Gaps = 15/187 (8%)
Query: 102 SGKGGVGKSTTVVNIACALKNKGKNVAILDAD----VYGPSIPKL--LKISGKVEISDKK 155
+GKGGVGK+T A L +GK V ++ D + +P L I EI+
Sbjct: 5 TGKGGVGKTTIAAATAVRLAEEGKKVLLVSTDPAHNLSDKGLPNLSDAFIVEDPEIAPNL 64
Query: 156 FL---KPKENYGIKIMSMASLVDENVAMIWRGPMVQSAIMHMLHNVVWGQLDFLLIDMPP 212
+ L+ E +A G ++++ + G D ++ D P
Sbjct: 65 YREEVDATRRVERAWGGEGGLMLE-LAAALPGIEELASLLAVFREFSEGLYDVIVFDTAP 123
Query: 213 GTGDAHLTIAQKI----PLSGVVIVSTPQDLALIDVKRAISMYQKMNIPIIGMIENMSYF 268
TG + +++ + +V+ P+ L L + +RAI+ IP+ ++ N
Sbjct: 124 -TGHTLRLLVRELLTDPERTSFRLVTLPEKLPLYETERAITELALYGIPVDAVVVNRVLP 182
Query: 269 LASDTGK 275
D
Sbjct: 183 AEVDDDP 189
>gnl|CDD|73302 cd02042, ParA, ParA and ParB of Caulobacter crescentus belong to a
conserved family of bacterial proteins implicated in
chromosome segregation. ParB binds to DNA sequences
adjacent to the origin of replication and localizes to
opposite cell poles shortly following the initiation of
DNA replication. ParB regulates the ParA ATPase activity
by promoting nucleotide exchange in a fashion
reminiscent of the exchange factors of eukaryotic G
proteins. ADP-bound ParA binds single-stranded DNA,
whereas the ATP-bound form dissociates ParB from its DNA
binding sites. Increasing the fraction of ParA-ADP in
the cell inhibits cell division, suggesting that this
simple nucleotide switch may regulate cytokinesis. ParA
shares sequence similarity to a conserved and widespread
family of ATPases which includes the repA protein of the
repABC operon in R. etli Sym plasmid. This operon is
involved in the plasmid replication and partition..
Length = 104
Score = 51.4 bits (123), Expect = 4e-07
Identities = 21/36 (58%), Positives = 28/36 (77%)
Query: 98 VAVASGKGGVGKSTTVVNIACALKNKGKNVAILDAD 133
+AVA+ KGGVGK+TT VN+A AL +GK V ++D D
Sbjct: 2 IAVANQKGGVGKTTTAVNLAAALARRGKRVLLIDLD 37
>gnl|CDD|48363 cd02033, BchX, Chlorophyllide reductase converts chlorophylls into
bacteriochlorophylls by reducing the chlorin B-ring.
This family contains the X subunit of this three-subunit
enzyme. Sequence and structure similarity between bchX,
protochlorophyllide reductase L subunit (bchL and chlL)
and nitrogenase Fe protein (nifH gene) suggest their
functional similarity. Members of the BchX family serve
as the unique electron donors to their respective
catalytic subunits (bchN-bchB, bchY-bchZ and nitrogenase
component 1). Mechanistically, they hydrolyze ATP and
transfer electrons through a Fe4-S4 cluster..
Length = 329
Score = 48.1 bits (114), Expect = 4e-06
Identities = 69/254 (27%), Positives = 110/254 (43%), Gaps = 51/254 (20%)
Query: 78 TLTENKNPPQQRNNLNVKKFVAVASGKGGVGKSTTVVNIACALKNKGKNVAILDADVYGP 137
TL PP ++ + +A+ GKGG+GKS T+ N++ + +GK V ++ D
Sbjct: 19 TLEIPTAPPTKKTQI-----IAI-YGKGGIGKSFTLANLSYMMAQQGKRVLLIGCDPKSD 72
Query: 138 SIPKLLKISGK-----VEISDKKFLKPKENYGIKIMSMASLVDENVAMIWRGPMV----- 187
+ L GK +E S KK L +E ++I + D AM GP V
Sbjct: 73 TTSLLF--GGKACPTIIETSAKKKLAGEE---VQIGDVCFKRDGVFAMELGGPEVGRGCG 127
Query: 188 QSAIMHMLHNVV------WGQLDFLLIDMPPGT--GDAHLTIAQKIPLSGVVIVSTPQDL 239
I+H + W D++L+D G L IA+ ++ VIV DL
Sbjct: 128 GRGIIHGFELLEKLGFHDWD-FDYVLLDFLGDVVCGGFGLPIARD--MAQKVIVVGSNDL 184
Query: 240 ALI----DVKRAISMYQKM--NIPIIGMIENMSYFLASDTGKKYDLFGNGGARFEAEKIG 293
+ +V A+ ++K+ N+ + GM+ N K D G G A+ A G
Sbjct: 185 QSLYVANNVCNAVEYFRKLGGNVGVAGMVIN-----------KDD--GTGEAQAFAAHAG 231
Query: 294 IPFLESVPFDMDVR 307
IP L ++P D ++R
Sbjct: 232 IPILAAIPADEELR 245
>gnl|CDD|73290 cd01983, Fer4_NifH, The Fer4_NifH superfamily contains a variety of
proteins which share a common ATP-binding domain.
Functionally, proteins in this superfamily use the
energy from hydrolysis of NTP to transfer electron or
ion..
Length = 99
Score = 46.6 bits (110), Expect = 1e-05
Identities = 19/37 (51%), Positives = 25/37 (67%)
Query: 98 VAVASGKGGVGKSTTVVNIACALKNKGKNVAILDADV 134
V V +GKGGVGK+T N+A AL +GK V ++D V
Sbjct: 1 VIVVTGKGGVGKTTLAANLAAALAKRGKRVLLIDDYV 37
Score = 35.1 bits (80), Expect = 0.032
Identities = 18/58 (31%), Positives = 32/58 (55%), Gaps = 1/58 (1%)
Query: 204 DFLLIDMPPGTGDAH-LTIAQKIPLSGVVIVSTPQDLALIDVKRAISMYQKMNIPIIG 260
D++LID PPG G L + + V+IV+TP+ LA++ +R + ++ I +
Sbjct: 35 DYVLIDTPPGLGLLVLLCLLALLAADLVIIVTTPEALAVLGARRLTEVVLELAIEGLR 92
>gnl|CDD|33438 COG3640, CooC, CO dehydrogenase maturation factor [Cell division
and chromosome partitioning].
Length = 255
Score = 46.4 bits (110), Expect = 1e-05
Identities = 55/269 (20%), Positives = 113/269 (42%), Gaps = 52/269 (19%)
Query: 102 SGKGGVGKST-TVVNIACALKNKGKNVAILDADVYGPSIPKLLKISGKVE-ISDKK-FLK 158
+GKGGVGK+T + + L G NV ++DAD ++P+ L + ++ + K+ LK
Sbjct: 6 TGKGGVGKTTIAALLLKRLLSKGGYNVLVVDADP-DSNLPEALGVEEPMKYLGGKRELLK 64
Query: 159 P--------------KENYGI-KIMSMASLVDENVAMIWRG-----------PMVQSAIM 192
KEN + + + + ++ ++ G PM + +
Sbjct: 65 KRTGAEPGGPPGEMFKENPLVSDLPDEYLVENGDIDLLVMGKIEEGGEGCACPM-NALLR 123
Query: 193 HMLHNVVWGQLDFLLIDMPPGTGDAHLT--IAQKIPLSGVVIVSTPQDLALIDVKRAISM 250
+L +++ + + +++D G H + + L V++V P +L +R +
Sbjct: 124 RLLRHLILNRYEVVIVDTEAGI--EHFGRGTIEGVDL--VIVVVDPSYKSLRTAERIKEL 179
Query: 251 YQKMNIPIIGMIENMSYFLASDTGKKYDLFGNGGARFEAEKIGIPFLESVPFDMDVRVLS 310
+++ I I ++ N K D R AE++G+ L +P+D +V
Sbjct: 180 AEELGIKRIFVVLN-----------KVDE-EEELLRELAEELGLEVLGVIPYDPEVVEAD 227
Query: 311 DLGIPIVVHNMNSATSEIYQEISDRIQQF 339
G P+ N + +EI++R+ +
Sbjct: 228 LKGEPL---NEEPEVLKEIEEIAERLIKL 253
>gnl|CDD|48369 cd02040, NifH, NifH gene encodes component II (iron protein) of
nitrogenase. Nitrogenase is responsible for the
biological nitrogen fixation, i.e. reduction of
molecular nitrogen to ammonia. NifH consists of two
oxygen-sensitive metallosulfur proteins: the
mollybdenum-iron (alternatively, vanadium-iron or
iron-iron) protein (commonly referred to as component
1), and the iron protein (commonly referred to as
component 2). The iron protein is a homodimer, with an
Fe4S4 cluster bound between the subunits and two
ATP-binding domains. It supplies energy by ATP
hydrolysis, and transfers electrons from reduced
ferredoxin or flavodoxin to component 1 for the
reduction of molecular nitrogen to ammonia..
Length = 270
Score = 44.0 bits (104), Expect = 5e-05
Identities = 63/261 (24%), Positives = 113/261 (43%), Gaps = 50/261 (19%)
Query: 103 GKGGVGKSTTVVNIACALKNKGKNVAILDAD------------VYGPSIPKLLKISGKVE 150
GKGG+GKSTT N++ AL GK V I+ D P++ L+ G+VE
Sbjct: 8 GKGGIGKSTTTQNLSAALAEMGKKVMIVGCDPKADSTRLLLGGKAIPTVLDTLREKGEVE 67
Query: 151 ISDKKFLKPKENYGIKIMSMASLVDENVAMIWRGPMVQSAIMHMLHNVVWGQLDFLLID- 209
+ + + GIK + + + V RG + ++ L LDF++ D
Sbjct: 68 LELEDVIFEGFG-GIKCVE-SGGPEPGVGCAGRGVITAINLLEEL-GAYEDDLDFVIYDV 124
Query: 210 ----------MPPGTGDAHLTIAQKIPLSGVVIVSTPQDLALI---DVKRAISMYQKM-N 255
MP G AQ+I IV++ + +AL ++ + I Y K
Sbjct: 125 LGDVVCGGFAMPIREG-----KAQEI-----YIVTSGEMMALYAANNICKGILKYAKSGG 174
Query: 256 IPIIGMIENMSYFLASDTGKKYDLFGNGGARFEAEKIGIPFLESVPFDMDVRVLSDLGIP 315
+ + G+I N + +T ++ +L F A+++G + VP D V+ G
Sbjct: 175 VRLGGLICN-----SRNTDREDELI----DAF-AKRLGTQMIHFVPRDNVVQRAELRGKT 224
Query: 316 IVVHNMNSATSEIYQEISDRI 336
++ ++ S ++ Y+E++ +I
Sbjct: 225 VIEYDPESKQADEYRELARKI 245
>gnl|CDD|73214 cd00550, ArsA_ATPase, Oxyanion-translocating ATPase (ArsA). This
ATPase is involved in transport of arsenite, antimonite
or other oxyanions across biological membranes in all
three kingdoms of life. ArsA contains a highly
conserved AAA motif present in the AAA+ ATPase
superfamily associated with a variety of cellular
activities. To form a functional ATP-driven pump, ArsA
interacts with the permease ArsB, which is a
channel-forming integral membrane protein. One of the
most interesting features of ArsA is the allosteric
activation by its transport substrates. A divalent
cation, typically Mg2+, is required for its enzymatic
activity..
Length = 254
Score = 42.6 bits (100), Expect = 2e-04
Identities = 37/194 (19%), Positives = 69/194 (35%), Gaps = 33/194 (17%)
Query: 102 SGKGGVGKSTTVVNIACALKNKGKNVAILD-------ADVYGPSIPKL-LKISGK----- 148
GKGGVGK+T A L +GK V ++ +D + K + G
Sbjct: 6 GGKGGVGKTTISAATAVRLAEQGKKVLLVSTDPAHSLSDSFNQEFGKGPTPVKGVENLSA 65
Query: 149 VEISDKKFLKPKENYG-----IKIMSMASLVDENVAMIWRGPMVQ--SAIMHMLHNVVWG 201
+EI ++ L +E I+ + ++ + P ++ +A +
Sbjct: 66 MEIDPQEAL--EEYRQEVLEPIEANLLLEMLKGILEEELESPGIEEIAAFDEFSRYIDEA 123
Query: 202 QLDFLLIDMPP-----------GTGDAHLTIAQKIPLSGVVIVSTPQDLALIDVKRAISM 250
+ D ++ D P I + +V P+ ++L + +RAI
Sbjct: 124 EYDVVVFDTAPTGHTLRLLSLPTVLSWAREILSDPERTSFRLVCIPEKMSLYETERAIQE 183
Query: 251 YQKMNIPIIGMIEN 264
K I + +I N
Sbjct: 184 LAKYGIDVDAVIVN 197
>gnl|CDD|73297 cd02034, CooC, The accessory protein CooC, which contains a
nucleotide-binding domain (P-loop) near the N-terminus,
participates in the maturation of the nickel center of
carbon monoxide dehydrogenase (CODH). CODH from
Rhodospirillum rubrum catalyzes the reversible oxidation
of CO to CO2. CODH contains a nickel-iron-sulfur cluster
(C-center) and an iron-sulfur cluster (B-center). CO
oxidation occurs at the C-center. Three accessory
proteins encoded by cooCTJ genes are involved in nickel
incorporation into a nickel site. CooC functions as a
nickel insertase that mobilizes nickel to apoCODH using
energy released from ATP hydrolysis. CooC is a homodimer
and has NTPase activities. Mutation at the P-loop
abolishs its function..
Length = 116
Score = 41.7 bits (98), Expect = 3e-04
Identities = 17/32 (53%), Positives = 21/32 (65%)
Query: 102 SGKGGVGKSTTVVNIACALKNKGKNVAILDAD 133
+GKGGVGK+T +A L KGK V +DAD
Sbjct: 5 TGKGGVGKTTIAALLARYLAEKGKPVLAIDAD 36
>gnl|CDD|48371 cd02117, NifH_like, This family contains the NifH (iron protein) of
nitrogenase, L subunit (BchL/ChlL) of the
protochlorophyllide reductase and the BchX subunit of
the Chlorophyllide reductase. Members of this family use
energey from ATP hydrolysis and transfer electrons
through a Fe4-S4 cluster to other subunit for reduction
of substrate..
Length = 212
Score = 41.7 bits (98), Expect = 3e-04
Identities = 16/31 (51%), Positives = 20/31 (64%)
Query: 103 GKGGVGKSTTVVNIACALKNKGKNVAILDAD 133
GKGG+GKSTT N++ AL GK V + D
Sbjct: 7 GKGGIGKSTTSQNLSAALAEMGKKVLQVGCD 37
>gnl|CDD|31539 COG1348, NifH, Nitrogenase subunit NifH (ATPase) [Inorganic ion
transport and metabolism].
Length = 278
Score = 41.4 bits (97), Expect = 3e-04
Identities = 18/31 (58%), Positives = 21/31 (67%)
Query: 103 GKGGVGKSTTVVNIACALKNKGKNVAILDAD 133
GKGG+GKSTT N+A AL GK V I+ D
Sbjct: 8 GKGGIGKSTTSQNLAAALAELGKKVLIVGCD 38
Score = 33.3 bits (76), Expect = 0.10
Identities = 13/49 (26%), Positives = 26/49 (53%)
Query: 289 AEKIGIPFLESVPFDMDVRVLSDLGIPIVVHNMNSATSEIYQEISDRIQ 337
AE++G + VP D V+ G ++ + +S +E Y+E++ +I
Sbjct: 199 AERLGTQLIHFVPRDNIVQKAELNGKTVIEYAPDSNQAEEYRELAKKIL 247
>gnl|CDD|143913 pfam00142, Fer4_NifH, 4Fe-4S iron sulfur cluster binding proteins,
NifH/frxC family.
Length = 269
Score = 40.4 bits (95), Expect = 7e-04
Identities = 17/31 (54%), Positives = 20/31 (64%)
Query: 103 GKGGVGKSTTVVNIACALKNKGKNVAILDAD 133
GKGG+GKSTT N + AL GK V I+ D
Sbjct: 7 GKGGIGKSTTSQNTSAALAEMGKKVLIVGCD 37
Score = 26.9 bits (60), Expect = 7.6
Identities = 10/48 (20%), Positives = 22/48 (45%)
Query: 289 AEKIGIPFLESVPFDMDVRVLSDLGIPIVVHNMNSATSEIYQEISDRI 336
AE +G + VP D V+ ++ + ++ Y+E++ +I
Sbjct: 197 AEALGTQMIHFVPRDNIVQKAELNKQTVIEYAPTCNQAKEYRELARKI 244
>gnl|CDD|48379 cd03115, SRP, The signal recognition particle (SRP) mediates the
transport to or across the plasma membrane in bacteria
and the endoplasmic reticulum in eukaryotes. SRP
recognizes N-terminal sighnal sequences of newly
synthesized polypeptides at the ribosome. The
SRP-polypeptide complex is then targeted to the membrane
by an interaction between SRP and its cognated receptor
(SR). In mammals, SRP consists of six protein subunits
and a 7SL RNA. One of these subunits is a 54 kd protein
(SRP54), which is a GTP-binding protein that interacts
with the signal sequence when it emerges from the
ribosome. SRP54 is a multidomain protein that consists
of an N-terminal domain, followed by a central G
(GTPase) domain and a C-terminal M domain..
Length = 173
Score = 39.3 bits (92), Expect = 0.001
Identities = 21/52 (40%), Positives = 31/52 (59%)
Query: 97 FVAVASGKGGVGKSTTVVNIACALKNKGKNVAILDADVYGPSIPKLLKISGK 148
V + G GVGK+TT +A LK KGK V ++ AD Y P+ + L++ G+
Sbjct: 1 TVILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAADTYRPAAIEQLRVLGE 52
>gnl|CDD|177011 CHL00072, chlL, photochlorophyllide reductase subunit L.
Length = 290
Score = 39.3 bits (92), Expect = 0.001
Identities = 16/25 (64%), Positives = 19/25 (76%)
Query: 103 GKGGVGKSTTVVNIACALKNKGKNV 127
GKGG+GKSTT NI+ AL +GK V
Sbjct: 7 GKGGIGKSTTSCNISIALARRGKKV 31
>gnl|CDD|48362 cd02032, Bchl_like, This family of proteins contains bchL and chlL.
Protochlorophyllide reductase catalyzes the reductive
formation of chlorophyllide from protochlorophyllide
during biosynthesis of chlorophylls and
bacteriochlorophylls. Three genes, bchL, bchN and bchB,
are involved in light-independent protochlorophyllide
reduction in bacteriochlorophyll biosynthesis. In
cyanobacteria, algae, and gymnosperms, three similar
genes, chlL, chlN and chlB are involved in
protochlorophyllide reduction during chlorophylls
biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit
significant sequence similarity to the nifH, nifD and
nifK subunits of nitrogenase, respectively. Nitrogenase
catalyzes the reductive formation of ammonia from
dinitrogen..
Length = 267
Score = 39.1 bits (91), Expect = 0.002
Identities = 15/25 (60%), Positives = 19/25 (76%)
Query: 103 GKGGVGKSTTVVNIACALKNKGKNV 127
GKGG+GKSTT N++ AL +GK V
Sbjct: 7 GKGGIGKSTTSSNLSVALAKRGKKV 31
>gnl|CDD|73340 cd03111, CpaE_like, This protein family consists of proteins
similar to the cpaE protein of the Caulobacter pilus
assembly and the orf4 protein of Actinobacillus pilus
formation gene cluster. The function of these proteins
are unkown. The Caulobacter pilus assembly contains 7
genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF.
These genes are clustered together on chromosome..
Length = 106
Score = 38.7 bits (90), Expect = 0.002
Identities = 16/37 (43%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 98 VAVASGKGGVGKSTTVVNIACAL-KNKGKNVAILDAD 133
+A KGGVG +T N+A AL K G+ V ++D D
Sbjct: 2 IAFIGAKGGVGATTLAANLAVALAKEAGRRVLLVDLD 38
>gnl|CDD|30352 COG0003, ArsA, Predicted ATPase involved in chromosome partitioning
[Cell division and chromosome partitioning].
Length = 322
Score = 37.6 bits (87), Expect = 0.005
Identities = 29/138 (21%), Positives = 49/138 (35%), Gaps = 28/138 (20%)
Query: 102 SGKGGVGKSTTVVNIACALKNKGKNVAILDADVYGPSIPKLLKISGKVEISDKKFLKPKE 161
+GKGGVGK+T A L GK V ++ D P+ L + +E+
Sbjct: 8 TGKGGVGKTTIAAATAVKLAESGKKVLLVSTD---PA-HSLGDVFD-LELGHDPRKVGPN 62
Query: 162 NYGIKIMSMASL------VDENVAMIWRGPMVQSAIMHMLHN----------------VV 199
+++ +L V + +A + R + L V
Sbjct: 63 LDALELDPEKALEEYWDEVKDYLARLLRTRGLGGIYADELATLPGIDEALALLKILEYYV 122
Query: 200 WGQLDFLLIDMPPGTGDA 217
G+ D +++D P TG
Sbjct: 123 SGEYDVIVVDTAP-TGHT 139
>gnl|CDD|48378 cd03114, ArgK-like, The function of this protein family is unkown.
The protein sequences are similar to the ArgK protein in
E. coli. ArgK protein is a membrane ATPase which is
required for transporting arginine, ornithine and lysine
into the cells by the arginine and ornithine (AO system)
and lysine, arginine and ornithine (LAO) transport
systems..
Length = 148
Score = 37.1 bits (86), Expect = 0.007
Identities = 24/72 (33%), Positives = 38/72 (52%), Gaps = 8/72 (11%)
Query: 102 SGKGGVGKSTTVVNIACALKNKGKNVAILDADVYGPSIPKLLKISGKVEISDK-KFLKPK 160
+G G GKST + + AL+ +GK VA+L D PS P SG + D+ + +
Sbjct: 5 TGVPGAGKSTLIDALITALRARGKRVAVLAID---PSSPF----SGGAILGDRIRMERHA 57
Query: 161 ENYGIKIMSMAS 172
+ G+ I S+A+
Sbjct: 58 SDPGVFIRSLAT 69
>gnl|CDD|30887 COG0541, Ffh, Signal recognition particle GTPase [Intracellular
trafficking and secretion].
Length = 451
Score = 34.7 bits (80), Expect = 0.041
Identities = 18/43 (41%), Positives = 25/43 (58%)
Query: 106 GVGKSTTVVNIACALKNKGKNVAILDADVYGPSIPKLLKISGK 148
G GK+TT +A LK KGK V ++ AD Y P+ + LK +
Sbjct: 110 GSGKTTTAGKLAKYLKKKGKKVLLVAADTYRPAAIEQLKQLAE 152
>gnl|CDD|35999 KOG0780, KOG0780, KOG0780, Signal recognition particle, subunit
Srp54 [Intracellular trafficking, secretion, and
vesicular transport].
Length = 483
Score = 33.7 bits (77), Expect = 0.068
Identities = 26/87 (29%), Positives = 38/87 (43%), Gaps = 4/87 (4%)
Query: 61 NAQQIIQNIPTVKNAVVTLTENKNPPQQRNNLNVKKFVAVASGKGGVGKSTTVVNIACAL 120
N ++IIQ V + +V L + Q K V + G G GK+TT +A
Sbjct: 70 NKRRIIQKA--VFDELVKLLDPGKSALQPKKG--KPSVIMFVGLQGSGKTTTCTKLAYYY 125
Query: 121 KNKGKNVAILDADVYGPSIPKLLKISG 147
K KG VA++ AD + LK +
Sbjct: 126 KKKGYKVALVCADTFRAGAFDQLKQNA 152
>gnl|CDD|31889 COG1703, ArgK, Putative periplasmic protein kinase ArgK and related
GTPases of G3E family [Amino acid transport and
metabolism].
Length = 323
Score = 33.4 bits (76), Expect = 0.088
Identities = 21/72 (29%), Positives = 34/72 (47%), Gaps = 8/72 (11%)
Query: 102 SGKGGVGKSTTVVNIACALKNKGKNVAILDADVYGPSIPKLLKISGKVEISDK-KFLKPK 160
+G G GKST + + L+ +G VA+L D PS P +G + D+ + +
Sbjct: 57 TGVPGAGKSTLIEALGRELRERGHRVAVLAVD---PSSPF----TGGSILGDRIRMQRLA 109
Query: 161 ENYGIKIMSMAS 172
+ G+ I S S
Sbjct: 110 VDPGVFIRSSPS 121
>gnl|CDD|144151 pfam00448, SRP54, SRP54-type protein, GTPase domain. This family
includes relatives of the G-domain of the SRP54 family
of proteins.
Length = 196
Score = 33.3 bits (77), Expect = 0.091
Identities = 13/30 (43%), Positives = 20/30 (66%)
Query: 106 GVGKSTTVVNIACALKNKGKNVAILDADVY 135
G GK+TT+ +A LK +GK V ++ AD +
Sbjct: 11 GSGKTTTIAKLAAYLKKQGKKVLLVAADTF 40
>gnl|CDD|30898 COG0552, FtsY, Signal recognition particle GTPase [Intracellular
trafficking and secretion].
Length = 340
Score = 32.9 bits (75), Expect = 0.11
Identities = 36/138 (26%), Positives = 62/138 (44%), Gaps = 12/138 (8%)
Query: 6 KNQIVDSLKVLSIPGEKNNIVE--MQRLSEIFIVHNTVYLSITVPHTIAHQLQSLRSNAQ 63
K +K L + K + E ++ L E+ I + + + I +L+ R +
Sbjct: 45 KKNFGKGIKGLFLKKIKEKLDEDLLEELEELLIEAD---VGVETAEEIIEELRK-REGKK 100
Query: 64 QIIQNIPTVKNAVV-TLTENKNPPQQRNNLNV-----KKFVAVASGKGGVGKSTTVVNIA 117
+ I++ TVK A+ L E P + + K FV + G GVGK+TT+ +A
Sbjct: 101 KKIKDEETVKEALREALIEILRPVDKVDLPLEIPKEKKPFVILFVGVNGVGKTTTIAKLA 160
Query: 118 CALKNKGKNVAILDADVY 135
LK +GK+V + D +
Sbjct: 161 KYLKQQGKSVLLAAGDTF 178
>gnl|CDD|31609 COG1419, FlhF, Flagellar GTP-binding protein [Cell motility and
secretion].
Length = 407
Score = 32.6 bits (74), Expect = 0.14
Identities = 36/178 (20%), Positives = 64/178 (35%), Gaps = 13/178 (7%)
Query: 89 RNNLNVKKFVAVASGKGGVGKSTTVVNIAC--ALKNKGKNVAILDADVYGPSIPKLLKIS 146
N + +K V G GVGK+TT+ +A + K K VAI+ D Y + LK
Sbjct: 196 ENLIVEQKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTY 255
Query: 147 GKVEISDKKFLKPKENYGIKIMSMAS----LVDENVAMIWRGPMVQSAIMHMLHNVVWGQ 202
+ + + + I ++ LVD + + L +V
Sbjct: 256 ADIMGVPLEVVYSPKELAEAIEALRDCDVILVD-TAGRSQYDKE-KIEELKELIDVSHSI 313
Query: 203 LDFLLIDMPPGTGDAHLTIAQ--KIPLSGVVIVSTPQDLALIDVKRAISMYQKMNIPI 258
+L++ D I Q P+ G++ T D + S+ + +P+
Sbjct: 314 EVYLVLSATTKYEDLKEIIKQFSLFPIDGLIF--TKLDETTS-LGNLFSLMYETRLPV 368
>gnl|CDD|146080 pfam03266, DUF265, Protein of unknown function, DUF265.
Length = 168
Score = 31.8 bits (73), Expect = 0.31
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 102 SGKGGVGKSTTVVNIACALKNKGKNVA 128
+G GVGK+T V + LK++G V
Sbjct: 5 TGPPGVGKTTLVKKVIELLKSEGVKVG 31
>gnl|CDD|111283 pfam02374, ArsA_ATPase, Anion-transporting ATPase. This Pfam
family represents a conserved domain, which is sometimes
repeated, in an anion-transporting ATPase. The ATPase is
involved in the removal of arsenate, antimonite, and
arsenate from the cell.
Length = 304
Score = 31.6 bits (72), Expect = 0.34
Identities = 14/32 (43%), Positives = 18/32 (56%)
Query: 102 SGKGGVGKSTTVVNIACALKNKGKNVAILDAD 133
GKGGVGK+T A L +GK V ++ D
Sbjct: 7 GGKGGVGKTTVSCATAVRLSEQGKKVLLVSTD 38
>gnl|CDD|31532 COG1341, COG1341, Predicted GTPase or GTP-binding protein [General
function prediction only].
Length = 398
Score = 31.5 bits (71), Expect = 0.35
Identities = 17/42 (40%), Positives = 22/42 (52%)
Query: 98 VAVASGKGGVGKSTTVVNIACALKNKGKNVAILDADVYGPSI 139
V + G GKST +A L +G+ VAI+DADV I
Sbjct: 75 VVMVVGPVDSGKSTLTTYLANKLLARGRKVAIIDADVGQSEI 116
>gnl|CDD|30875 COG0529, CysC, Adenylylsulfate kinase and related kinases
[Inorganic ion transport and metabolism].
Length = 197
Score = 31.4 bits (71), Expect = 0.37
Identities = 18/51 (35%), Positives = 24/51 (47%), Gaps = 1/51 (1%)
Query: 85 PPQQRNNLNVKK-FVAVASGKGGVGKSTTVVNIACALKNKGKNVAILDADV 134
Q+R L +K V +G G GKST + L KG +V +LD D
Sbjct: 11 TKQEREALKGQKGAVIWFTGLSGSGKSTIANALEEKLFAKGYHVYLLDGDN 61
>gnl|CDD|112137 pfam03308, ArgK, ArgK protein. The ArgK protein acts as an ATPase
enzyme and as a kinase, and phosphorylates periplasmic
binding proteins involved in the LAO (lysine, arginine,
ornithine)/AO transport systems.
Length = 267
Score = 30.4 bits (69), Expect = 0.77
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 3/39 (7%)
Query: 102 SGKGGVGKSTTVVNIACALKNKGKNVAILDADVYGPSIP 140
+G G GKST + + L+ +G VA+L D PS P
Sbjct: 35 TGVPGAGKSTLIEALGMELRRRGHRVAVLAVD---PSSP 70
>gnl|CDD|34570 COG4963, CpaE, Flp pilus assembly protein, ATPase CpaE
[Intracellular trafficking and secretion].
Length = 366
Score = 29.9 bits (67), Expect = 0.92
Identities = 50/236 (21%), Positives = 93/236 (39%), Gaps = 38/236 (16%)
Query: 98 VAVASGKGGVGKSTTVVNIACALKNK-GKNVAILDADVYGPSIPKLLKISGKVEISDKKF 156
+A KGGVG ST N+A L G V ++D D+ G + L I++
Sbjct: 107 LAFLGAKGGVGTSTLAHNLAKGLAILSGAAVLLVDLDLQGGTAALYLDQDPAFGIAEAVK 166
Query: 157 ------------LKPKENYGIKIMSMASLVDENVAMIWRGPMVQSAIMHMLHNVVWGQLD 204
L + G+K+++ + + +N + A+ +L +++ G D
Sbjct: 167 QPERLDQVLLDSLLTRLASGLKLLAAPTELAKN------YDLKTGAVERLL-DLLRGSFD 219
Query: 205 FLLIDMPPGTGDAHLTIAQKIPLSG---VVIVSTPQDLALIDVKRAISMYQKMNIPIIGM 261
F+++D+P D + LSG +VIV+ P +L + K + +++
Sbjct: 220 FVVVDLPNIWTDWTRQV-----LSGSDEIVIVAEPSLASLRNAKELLDELKRLRPNDPKP 274
Query: 262 IENMSYFLASDTGKKYDLFGNGGARFEAEKIGIPFLESVPFDMD-VRVLSDLGIPI 316
I ++ + DL E +GI L +PFD ++ G +
Sbjct: 275 ILVLNRVGVPKRPEPSDL---------EEILGIESLLVLPFDPALFGDAANNGRML 321
>gnl|CDD|133262 cd01853, Toc34_like, Toc34-like (Translocon at the Outer-envelope
membrane of Chloroplasts). This family contains several
Toc proteins, including Toc34, Toc33, Toc120, Toc159,
Toc86, Toc125, and Toc90. The Toc complex at the outer
envelope membrane of chloroplasts is a molecular machine
of ~500 kDa that contains a single Toc159 protein, four
Toc75 molecules, and four or five copies of Toc34. Toc64
and Toc12 are associated with the translocon, but do not
appear to be part of the core complex. The Toc
translocon initiates the import of nuclear-encoded
preproteins from the cytosol into the organelle. Toc34
and Toc159 are both GTPases, while Toc75 is a
beta-barrel integral membrane protein. Toc159 is
equally distributed between a soluble cytoplasmic form
and a membrane-inserted form, suggesting that assembly
of the Toc complex is dynamic. Toc34 and Toc75 act
sequentially to mediate docking and insertion of Toc159
resulting in assembly of the functional translocon.
Length = 249
Score = 29.6 bits (67), Expect = 1.3
Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 8/48 (16%)
Query: 103 GKGGVGKSTTVVNIACALKNKGKNVAILDADVYGPSIPKLLKISGKVE 150
GK GVGKS+T+ +I G+ A A + ++ ++SG V+
Sbjct: 38 GKTGVGKSSTINSIF------GERKAATSA--FQSETLRVREVSGTVD 77
>gnl|CDD|38036 KOG2825, KOG2825, KOG2825, Putative arsenite-translocating ATPase
[Inorganic ion transport and metabolism].
Length = 323
Score = 29.2 bits (65), Expect = 1.5
Identities = 13/31 (41%), Positives = 19/31 (61%)
Query: 103 GKGGVGKSTTVVNIACALKNKGKNVAILDAD 133
GKGGVGK+T ++A L ++V I+ D
Sbjct: 26 GKGGVGKTTCSCSLAVQLAKVRESVLIISTD 56
>gnl|CDD|33697 COG3910, COG3910, Predicted ATPase [General function prediction
only].
Length = 233
Score = 29.1 bits (65), Expect = 1.9
Identities = 29/135 (21%), Positives = 51/135 (37%), Gaps = 21/135 (15%)
Query: 89 RNNLNVKKFVAVASGKGGVGKSTTVVNIACALK----NKGKNVAILDADVYGPSIPKLLK 144
L + + +G+ G GKST + IA + GKN + D ++ K
Sbjct: 30 EERLEFRAPITFITGENGSGKSTLLEAIAAGMGFNAAGGGKNFK-GELDASHSALVDYAK 88
Query: 145 ISGKVEISDKKFLKPKENYGIKIMSMASLVDENVAMIWRGPMVQS--------AIMHMLH 196
+ + + FL+ + Y + AS +DE A +S + + + H
Sbjct: 89 LHKRKKPPIGFFLRAESFYNV-----ASYLDE--ADGEANYGGRSLHHMSHGESFLAIFH 141
Query: 197 NVVWGQLDFLLIDMP 211
N GQ ++D P
Sbjct: 142 NRFNGQ-GIYILDEP 155
>gnl|CDD|29986 cd01120, RecA-like_NTPases, RecA-like NTPases. This family includes
the NTP binding domain of F1 and V1 H+ATPases, DnaB and
related helicases as well as bacterial RecA and related
eukaryotic and archaeal recombinases. This group also
includes bacterial conjugation proteins and related DNA
transfer proteins involved in type II and type IV
secretion..
Length = 165
Score = 28.9 bits (64), Expect = 2.0
Identities = 12/52 (23%), Positives = 20/52 (38%)
Query: 103 GKGGVGKSTTVVNIACALKNKGKNVAILDADVYGPSIPKLLKISGKVEISDK 154
G G GK+T + +A + KG V +D + + + L D
Sbjct: 6 GPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEELTERLIGESLKGALDN 57
>gnl|CDD|33398 COG3598, RepA, RecA-family ATPase [DNA replication, recombination,
and repair].
Length = 402
Score = 28.8 bits (64), Expect = 2.2
Identities = 28/102 (27%), Positives = 44/102 (43%), Gaps = 14/102 (13%)
Query: 51 IAHQLQSLRSNAQQIIQNIPTVKNAVVTLTENK--NPPQQRNNLNVKKFVAVASGKGGVG 108
A Q S +S I Q+ V+ + L+E N PQ + K +V++ G GVG
Sbjct: 42 QAAQPHSRKSALVTITQSFIQVQAEAMRLSEWDRSNSPQLIDEFFRKGYVSILYGDSGVG 101
Query: 109 KSTTVVNIACAL-----------KNKGKNVAILDADVYGPSI 139
K+T ++ + AL K GK V + ++Y I
Sbjct: 102 KTTLLLYLCIALAAGKNLFGNKVKEPGK-VLYVSLELYREDI 142
>gnl|CDD|48377 cd03113, CTGs, CTP synthetase (CTPs) is a two-domain protein, which
consists of an N-terminal synthetase domain and
C-terminal glutaminase domain. The enzymes hydrolyze the
amide bond of glutamine to ammonia and glutamate at the
glutaminase domains and transfer nascent ammonia to the
acceptor substrate at the synthetase domain to form an
aminated product. Glutaminase domains have evolved from
the same ancestor, whereas the synthetase domains are
evolutionarily unrelated and have different functions.
This protein family is classified based on the
N-terminal synthetase domain..
Length = 255
Score = 28.6 bits (64), Expect = 2.3
Identities = 12/41 (29%), Positives = 18/41 (43%), Gaps = 1/41 (2%)
Query: 96 KFVAVASG-KGGVGKSTTVVNIACALKNKGKNVAILDADVY 135
K++ V G +GK T ++ LK +G V D Y
Sbjct: 1 KYIFVTGGVVSSLGKGITAASLGRLLKARGLKVTAQKLDPY 41
>gnl|CDD|73210 cd00477, FTHFS, Formyltetrahydrofolate synthetase (FTHFS) catalyzes
the ATP-dependent activation of formate ion via its
addition to the N10 position of tetrahydrofolate. FTHFS
is a highly expressed key enzyme in both the
Wood-Ljungdahl pathway of autotrophic CO2 fixation
(acetogenesis) and the glycine synthase/reductase
pathways of purinolysis. The key physiological role of
this enzyme in acetogens is to catalyze the formylation
of tetrahydrofolate, an initial step in the reduction of
carbon dioxide and other one-carbon precursors to
acetate. In purinolytic organisms, the enzymatic
reaction is reversed, liberating formate from
10-formyltetrahydrofolate with concurrent production of
ATP..
Length = 524
Score = 28.5 bits (64), Expect = 2.8
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 106 GVGKSTTVVNIACALKNKGKNVAI 129
G GK+TT + +A AL GK
Sbjct: 52 GEGKTTTTIGLAQALNAHGKKAIA 75
>gnl|CDD|31331 COG1136, SalX, ABC-type antimicrobial peptide transport system,
ATPase component [Defense mechanisms].
Length = 226
Score = 28.6 bits (64), Expect = 2.9
Identities = 18/57 (31%), Positives = 26/57 (45%), Gaps = 3/57 (5%)
Query: 91 NLNVKK--FVAVASGKGGVGKSTTVVNIACALKNKGKNVAILDADVYGPSIPKLLKI 145
NL ++ FVA+ G G GKST + + K V I D+ S +L K+
Sbjct: 25 NLEIEAGEFVAI-VGPSGSGKSTLLNLLGGLDKPTSGEVLINGKDLTKLSEKELAKL 80
>gnl|CDD|110446 pfam01443, Viral_helicase1, Viral (Superfamily 1) RNA helicase.
Helicase activity for this family has been demonstrated
and NTPase activity. This helicase has multiple roles at
different stages of viral RNA replication, as dissected
by mutational analysis.
Length = 226
Score = 28.5 bits (64), Expect = 3.1
Identities = 17/77 (22%), Positives = 27/77 (35%), Gaps = 11/77 (14%)
Query: 100 VASGKGGVGKSTTVVNIACALKNKGKNVAILDADVYGPSIPKLLKISGKVEISDKKFLKP 159
V G G GKST + + + A L P L ++ + + FL
Sbjct: 2 VVHGVPGCGKSTLIRKLLRTDLTVIRPTAEL----RTEGKPDLPNLNVR---TVDTFLMA 54
Query: 160 KENYGIKIMSMASLVDE 176
KI+ ++DE
Sbjct: 55 LLKPTGKIL----ILDE 67
>gnl|CDD|146036 pfam03205, MobB, Molybdopterin guanine dinucleotide synthesis
protein B. This protein contains a P-loop.
Length = 122
Score = 28.5 bits (64), Expect = 3.1
Identities = 11/38 (28%), Positives = 16/38 (42%), Gaps = 1/38 (2%)
Query: 103 GKGGVGKSTTVVNIACALKNKGKNVA-ILDADVYGPSI 139
G GK+T + + LK +G VA + D I
Sbjct: 7 GPKDSGKTTLIRKLLNYLKRRGYRVAVVKHLDHGQGEI 44
>gnl|CDD|31805 COG1618, COG1618, Predicted nucleotide kinase [Nucleotide transport
and metabolism].
Length = 179
Score = 28.3 bits (63), Expect = 3.1
Identities = 13/27 (48%), Positives = 18/27 (66%)
Query: 102 SGKGGVGKSTTVVNIACALKNKGKNVA 128
+G+ GVGK+T V+ IA L+ KG V
Sbjct: 11 TGRPGVGKTTLVLKIAEKLREKGYKVG 37
>gnl|CDD|30850 COG0504, PyrG, CTP synthase (UTP-ammonia lyase) [Nucleotide
transport and metabolism].
Length = 533
Score = 28.2 bits (63), Expect = 3.2
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 95 KKFVAVASG-KGGVGKSTTVVNIACALKNKGKNVAILDADVY 135
K++ V G +GK T ++ LK +G V I D Y
Sbjct: 1 TKYIFVTGGVVSSLGKGITAASLGRLLKARGLKVTIQKLDPY 42
>gnl|CDD|29070 cd00155, RasGEF, Guanine nucleotide exchange factor for Ras-like
small GTPases. Small GTP-binding proteins of the Ras
superfamily function as molecular switches in
fundamental events such as signal transduction,
cytoskeleton dynamics and intracellular trafficking.
Guanine-nucleotide-exchange factors (GEFs) positively
regulate these GTP-binding proteins in response to a
variety of signals. GEFs catalyze the dissociation of
GDP from the inactive GTP-binding proteins. GTP can then
bind and induce structural changes that allow
interaction with effectors..
Length = 237
Score = 28.3 bits (63), Expect = 3.3
Identities = 22/106 (20%), Positives = 38/106 (35%), Gaps = 15/106 (14%)
Query: 53 HQLQSLRSNAQQIIQNIPTVKNAVVTLTENKNPPQQRNNLNVKKFVAVASGKGGVGKSTT 112
+ L N ++ I+ + N V + P++R L + KF+ VA
Sbjct: 38 DKNIHLSPNLERFIERFNNLSNWVASEILLCTNPKKRARL-LSKFIQVA----------- 85
Query: 113 VVNIACALKNKGKNVAILDADVYGPSIPKLLKISGKVEISDKKFLK 158
L N +AI+ A + I +L K + KK +
Sbjct: 86 --KHCRELNNFNSLMAIVSA-LSSSPISRLKKTWEVLSSKLKKLFE 128
>gnl|CDD|32626 COG2759, MIS1, Formyltetrahydrofolate synthetase [Nucleotide
transport and metabolism].
Length = 554
Score = 28.3 bits (63), Expect = 3.4
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 106 GVGKSTTVVNIACALKNKGKNVAI 129
G GK+TT + + AL GK I
Sbjct: 66 GEGKTTTTIGLVDALNKLGKKAII 89
>gnl|CDD|35854 KOG0635, KOG0635, KOG0635, Adenosine 5'-phosphosulfate kinase
[Inorganic ion transport and metabolism].
Length = 207
Score = 28.0 bits (62), Expect = 3.7
Identities = 19/46 (41%), Positives = 22/46 (47%), Gaps = 8/46 (17%)
Query: 92 LNVKKFVAVASGKGGVGKSTTVVNIACALK----NKGKNVAILDAD 133
L K V +G G GKST +ACAL +GK ILD D
Sbjct: 27 LKQKGCVIWITGLSGSGKST----LACALSQALLQRGKLTYILDGD 68
>gnl|CDD|30200 cd02027, APSK, Adenosine 5'-phosphosulfate kinase (APSK) catalyzes
the phosphorylation of adenosine 5'-phosphosulfate to
form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The
end-product PAPS is a biologically "activated" sulfate
form important for the assimilation of inorganic
sulfate..
Length = 149
Score = 28.1 bits (63), Expect = 3.8
Identities = 15/36 (41%), Positives = 19/36 (52%), Gaps = 8/36 (22%)
Query: 102 SGKGGVGKSTTVVNIACA----LKNKGKNVAILDAD 133
+G G GKST IA A L +G+ V +LD D
Sbjct: 5 TGLSGSGKST----IARALEEKLFQRGRPVYVLDGD 36
>gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of
cellular Activities) superfamily represents an ancient
group of ATPases belonging to the ASCE (for additional
strand, catalytic E) division of the P-loop NTPase fold.
The ASCE division also includes ABC, RecA-like,
VirD4-like, PilT-like, and SF1/2 helicases. Members of
the AAA+ ATPases function as molecular chaperons, ATPase
subunits of proteases, helicases, or nucleic-acid
stimulated ATPases. The AAA+ proteins contain several
distinct features in addition to the conserved
alpha-beta-alpha core domain structure and the Walker A
and B motifs of the P-loop NTPases..
Length = 151
Score = 27.9 bits (62), Expect = 3.8
Identities = 12/53 (22%), Positives = 19/53 (35%), Gaps = 4/53 (7%)
Query: 106 GVGKSTTVVNIACALKNKGKNVAILDADVYGPSIPKLLKISGKVEISDKKFLK 158
G GK+T IA L G L+A + + L ++ + L
Sbjct: 29 GTGKTTLARAIANELFRPGAPFLYLNA----SDLLEGLVVAELFGHFLVRLLF 77
>gnl|CDD|38034 KOG2823, KOG2823, KOG2823, Cellular protein (glioma tumor
suppressor candidate region gene 2) [General function
prediction only].
Length = 438
Score = 28.1 bits (62), Expect = 3.9
Identities = 22/108 (20%), Positives = 38/108 (35%), Gaps = 6/108 (5%)
Query: 59 RSNAQQIIQNIPTVKNAVVTLTENKNPPQQRNNLNVKKFVAVASGKGGVGKSTTVVNIAC 118
R T + V K+ + L + K A G+ + +
Sbjct: 77 RKKVLDKKPKKITSNISKVQSPSTKSGHPNKIKLELSKKTAKI------GRKQAGLALPK 130
Query: 119 ALKNKGKNVAILDADVYGPSIPKLLKISGKVEISDKKFLKPKENYGIK 166
AL K ++ D++G K+ K+ V D+ FLK + G+K
Sbjct: 131 ALVAKPGPQDTVERDLWGLDSTKIPKLDLDVWEQDEFFLKQVKKKGVK 178
>gnl|CDD|38952 KOG3748, KOG3748, KOG3748, Uncharacterized conserved protein
[Function unknown].
Length = 477
Score = 28.2 bits (62), Expect = 3.9
Identities = 27/99 (27%), Positives = 44/99 (44%), Gaps = 4/99 (4%)
Query: 80 TENKNPPQQRNNLNVKKFVAVASGKGGVGKSTTVVNIACALKNKGKNVAILDADVYGPSI 139
T++ P +++ + AV G + +TVV G+ A+L + + P+
Sbjct: 242 TDSNEPIATPPTFSLQDWQAVEFSSSG-SQLSTVVRSEKGPAFLGEPTALLLSKIPPPNF 300
Query: 140 PKLLKISGKVEISDKKFLKP---KENYGIKIMSMASLVD 175
P KISGKV KK ++ EN G+ I M + D
Sbjct: 301 PSEQKISGKVHFLPKKGMENVDLDENSGVSIYLMDKVQD 339
>gnl|CDD|37014 KOG1803, KOG1803, KOG1803, DNA helicase [Replication, recombination
and repair].
Length = 649
Score = 28.0 bits (62), Expect = 4.2
Identities = 38/223 (17%), Positives = 69/223 (30%), Gaps = 32/223 (14%)
Query: 88 QRNNLNVKKFVAVASGKGGVGKSTTVVNIA--CALKNKGKNVAILDADVYGPSIPKLLKI 145
N+ V + + K + A + S +LLK+
Sbjct: 71 PSNSFGPGDVVWLRTDKLNNKSKPCTEGVVYRVAEDSIDVAFEEEVDKPLTLSSLRLLKL 130
Query: 146 SGKVEI----SDKKFLKPKENYGIKIMSMASLVDENVAMIWRGPMVQS------------ 189
KV L N G + +L + + ++
Sbjct: 131 ENKVTYRRMKDTMICLSKFSNPGPSSDVVETLFGDRKPIPSPNIEIKKITFFNKNLNSSQ 190
Query: 190 --AIMHMLHNVVWGQLDFLLIDMPPGTGDAH---LTIAQKIPLSGVVIVSTPQDLALIDV 244
A+ ++N D L+I PPGTG I+Q + V+V P ++A+ ++
Sbjct: 191 KAAVSFAINNK-----DLLIIHGPPGTGKTRTLVEIISQLVKQKKRVLVCAPSNVAVDNI 245
Query: 245 KRAISMYQKMNIPIIGMIENMSYFLASDTGKKYDLFGNGGARF 287
++ K+N+ +G + L S DL N
Sbjct: 246 VERLTH-LKLNLVRVGHPARL---LESVADHSLDLLSNTKDNS 284
>gnl|CDD|32636 COG2805, PilT, Tfp pilus assembly protein, pilus retraction ATPase
PilT [Cell motility and secretion / Intracellular
trafficking and secretion].
Length = 353
Score = 27.9 bits (62), Expect = 4.2
Identities = 21/72 (29%), Positives = 33/72 (45%), Gaps = 4/72 (5%)
Query: 59 RSNAQQIIQNIPTVKNAVVTLTENKNPPQQRNNLNVKKFVAVASGKGGVGKSTTVVNIAC 118
R +++ IP+ + TL E PP R + + + +G G GKSTT+ +
Sbjct: 91 RGGYALVLRLIPSK---IPTLEELGLPPIVRELAESPRGLILVTGPTGSGKSTTLAAMID 147
Query: 119 ALKNKGKNVAIL 130
+ NK K IL
Sbjct: 148 YI-NKHKAKHIL 158
>gnl|CDD|31982 COG1797, CobB, Cobyrinic acid a,c-diamide synthase [Coenzyme
metabolism].
Length = 451
Score = 27.9 bits (62), Expect = 4.5
Identities = 10/31 (32%), Positives = 16/31 (51%)
Query: 98 VAVASGKGGVGKSTTVVNIACALKNKGKNVA 128
V +A G GK+T + + AL+ +G V
Sbjct: 3 VVIAGTSSGSGKTTVTLGLMRALRRRGLKVQ 33
>gnl|CDD|29987 cd01121, Sms, Sms (bacterial radA) DNA repair protein. This protein
is not related to archael radA any more than is to other
RecA-like NTPases. Sms has a role in recombination and
recombinational repair and is responsible for the
stabilization or processing of branched DNA molecules..
Length = 372
Score = 27.5 bits (61), Expect = 5.0
Identities = 12/34 (35%), Positives = 18/34 (52%)
Query: 94 VKKFVAVASGKGGVGKSTTVVNIACALKNKGKNV 127
V V + G G+GKST ++ +A L +G V
Sbjct: 80 VPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKV 113
>gnl|CDD|72996 cd03237, ABC_RNaseL_inhibitor_domain2, The ATPase domain 2 of RNase
L inhibitor. The ABC ATPase, RNase L inhibitor (RLI),
is a key enzyme in ribosomal biogenesis, formation of
translation preinitiation complexes, and assembly of HIV
capsids. RLI's are not transport proteins and thus
cluster with a group of soluble proteins that lack the
transmembrane components commonly found in other members
of the family. Structurally, RLI's have an N-terminal
Fe-S domain and two nucleotide-binding domains which are
arranged to form two composite active sites in their
interface cleft. RLI is one of the most conserved
enzymes between archaea and eukaryotes with a sequence
identity of more than 48%. The high degree of
evolutionary conservation suggests that RLI performs a
central role in archaeal and eukaryotic physiology..
Length = 246
Score = 27.6 bits (61), Expect = 5.2
Identities = 32/145 (22%), Positives = 54/145 (37%), Gaps = 24/145 (16%)
Query: 98 VAVASGKGGVGKSTTVVNIACALKNKGKNVAILDADV-YGPSIPKLLKISGKVEISDKKF 156
V G G+GK+T + +A LK ++ I V Y P I E + +
Sbjct: 27 VIGILGPNGIGKTTFIKMLAGVLKPDEGDIEIELDTVSYKPQ-----YIKADYEGTVRDL 81
Query: 157 LKPK----------ENYGIKIMSMASLVDENVAMIWRGPMVQSAIMHMLHNVVWGQLDFL 206
L + K + + ++D V + G + + AI L D
Sbjct: 82 LSSITKDFYTHPYFKTEIAKPLQIEQILDREVPELSGGELQRVAIAACLSK----DADIY 137
Query: 207 LIDMPPGTGDAHLTIAQKIPLSGVV 231
L+D P A+L + Q++ S V+
Sbjct: 138 LLDEP----SAYLDVEQRLMASKVI 158
>gnl|CDD|31265 COG1066, Sms, Predicted ATP-dependent serine protease
[Posttranslational modification, protein turnover,
chaperones].
Length = 456
Score = 27.5 bits (61), Expect = 5.6
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 94 VKKFVAVASGKGGVGKSTTVVNIACALKNKGK 125
V V + G G+GKST ++ +A L +GK
Sbjct: 91 VPGSVILIGGDPGIGKSTLLLQVAARLAKRGK 122
>gnl|CDD|107288 cd06293, PBP1_LacI_like_11, Ligand-binding domain of
uncharacterized DNA-binding regulatory proteins that are
members of the LacI-GalR family of bacterial
transcription repressors. This group includes the
ligand-binding domain of uncharacterized DNA-binding
regulatory proteins that are members of the LacI-GalR
family of bacterial transcription repressors. The
LacI-GalR family repressors are composed of two
functional domains: an N-terminal HTH (helix-turn-helix)
domain, which is responsible for the DNA-binding
specificity, and a C-terminal ligand-binding domain,
which is homologous to the sugar-binding domain of
ABC-type transport systems that contain the type I
periplasmic binding protein-like fold. As also observed
in the periplasmic binding proteins, the C-terminal
domain of the bacterial transcription repressor
undergoes a conformational change upon ligand binding
which in turn changes the DNA binding affinity of the
repressor.
Length = 269
Score = 27.4 bits (61), Expect = 6.3
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 119 ALKNKGKNVAILDADVYGPSIPKL 142
L N N+ ++D DV G +PK+
Sbjct: 73 KLINSYGNIVLVDEDVPGAKVPKV 96
>gnl|CDD|110578 pfam01583, APS_kinase, Adenylylsulphate kinase. Enzyme that
catalyses the phosphorylation of adenylylsulphate to
3'-phosphoadenylylsulfate. This domain contains an ATP
binding P-loop motif.
Length = 157
Score = 27.3 bits (61), Expect = 6.9
Identities = 16/37 (43%), Positives = 20/37 (54%), Gaps = 8/37 (21%)
Query: 102 SGKGGVGKSTTVVNIACALKNK----GKNVAILDADV 134
+G G GKST IA AL+ K G +V +LD D
Sbjct: 8 TGLSGSGKST----IANALERKLFAQGISVYVLDGDN 40
>gnl|CDD|145169 pfam01861, DUF43, Protein of unknown function DUF43. This family
includes archaebacterial proteins of unknown function.
All the members are 350-400 amino acids long.
Length = 243
Score = 27.0 bits (60), Expect = 8.5
Identities = 12/53 (22%), Positives = 22/53 (41%), Gaps = 14/53 (26%)
Query: 116 IACALKNKGKNVAILDADVYGPSIPKLLKISGKVEISDKKFLKPKENYGIKIM 168
+A AL K +A++D D +L+K ++ K +E I+
Sbjct: 59 LAAALTGLPKRIAVVDID------ERLIKF-------IERVAK-EEGLKIEAF 97
>gnl|CDD|72984 cd03225, ABC_cobalt_CbiO_domain1, Domain I of the ABC component of
a cobalt transport family found in bacteria, archaea,
and eukaryota. The transition metal cobalt is an
essential component of many enzymes and must be
transported into cells in appropriate amounts when
needed. This ABC transport system of the CbiMNQO family
is involved in cobalt transport in association with the
cobalamin (vitamin B12) biosynthetic pathways. Most of
cobalt (Cbi) transport systems possess a separate CbiN
component, the cobalt-binding periplasmic protein, and
they are encoded by the conserved gene cluster cbiMNQO.
Both the CbiM and CbiQ proteins are integral cytoplasmic
membrane proteins, and the CbiO protein has the linker
peptide and the Walker A and B motifs commonly found in
the ATPase components of the ABC-type transport
systems..
Length = 211
Score = 26.6 bits (59), Expect = 9.9
Identities = 18/61 (29%), Positives = 28/61 (45%), Gaps = 3/61 (4%)
Query: 91 NLNVKK--FVAVASGKGGVGKSTTVVNIACALKNKGKNVAILDADVYGPSIPKLLKISGK 148
+L +KK FV + G G GKST + + L V + D+ S+ +L + G
Sbjct: 21 SLTIKKGEFVLIV-GPNGSGKSTLLRLLNGLLGPTSGEVLVDGKDLTKLSLKELRRKVGL 79
Query: 149 V 149
V
Sbjct: 80 V 80
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.319 0.135 0.381
Gapped
Lambda K H
0.267 0.0703 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,980,318
Number of extensions: 211406
Number of successful extensions: 781
Number of sequences better than 10.0: 1
Number of HSP's gapped: 756
Number of HSP's successfully gapped: 100
Length of query: 341
Length of database: 6,263,737
Length adjustment: 94
Effective length of query: 247
Effective length of database: 4,232,491
Effective search space: 1045425277
Effective search space used: 1045425277
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.2 bits)