RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780552|ref|YP_003064965.1| Holliday junction DNA helicase
RuvB [Candidatus Liberibacter asiaticus str. psy62]
(334 letters)
>gnl|CDD|32436 COG2255, RuvB, Holliday junction resolvasome, helicase subunit [DNA
replication, recombination, and repair].
Length = 332
Score = 475 bits (1225), Expect = e-135
Identities = 201/331 (60%), Positives = 255/331 (77%), Gaps = 1/331 (0%)
Query: 2 MDREGLLSRNVSQEDADISLLRPRTLEEFTGQVEACSNLKVFIEAAKARAEALDHVLFVG 61
MDR + + + SL RP+TL+EF GQ + L++FI+AAK R EALDHVL G
Sbjct: 1 MDRIISPEKQEEEMKIERSL-RPKTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFG 59
Query: 62 PPGLGKTTLAQVVARELGVNFRSTSGPVIAKAGDLAALLTNLEDRDVLFIDEIHRLSIIV 121
PPGLGKTTLA ++A ELGVN + TSGP + K GDLAA+LTNLE+ DVLFIDEIHRLS V
Sbjct: 60 PPGLGKTTLAHIIANELGVNLKITSGPALEKPGDLAAILTNLEEGDVLFIDEIHRLSPAV 119
Query: 122 EEILYPAMEDFQLDLMVGEGPSARSVKINLSRFTLIAATTRVGLLTNPLQDRFGIPIRLN 181
EE+LYPAMEDF+LD+++G+GP+ARS++++L FTLI ATTR G+LTNPL+DRFGI RL
Sbjct: 120 EEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTLIGATTRAGMLTNPLRDRFGIIQRLE 179
Query: 182 FYEIEDLKTIVQRGAKLTGLAVTDEAACEIAMRSRGTPRIAGRLLRRVRDFAEVAHAKTI 241
FY +E+L+ IV+R AK+ G+ + +EAA EIA RSRGTPRIA RLLRRVRDFA+V I
Sbjct: 180 FYTVEELEEIVKRSAKILGIEIDEEAALEIARRSRGTPRIANRLLRRVRDFAQVKGDGDI 239
Query: 242 TREIADAALLRLAIDKMGFDQLDLRYLTMIARNFGGGPVGIETISAGLSEPRDAIEDLIE 301
R+IAD AL L +D++G D++D +YL + FGGGPVG++TI+A L E RD IED+IE
Sbjct: 240 DRDIADKALKMLDVDELGLDEIDRKYLRALIEQFGGGPVGLDTIAAALGEDRDTIEDVIE 299
Query: 302 PYMIQQGFIQRTPRGRLLMPIAWQHLGIDIP 332
PY+IQQGFIQRTPRGR+ A++HLG+ P
Sbjct: 300 PYLIQQGFIQRTPRGRIATAKAYEHLGLPPP 330
>gnl|CDD|147593 pfam05496, RuvB_N, Holliday junction DNA helicase ruvB N-terminus.
The RuvB protein makes up part of the RuvABC revolvasome
which catalyses the resolution of Holliday junctions
that arise during genetic recombination and DNA repair.
Branch migration is catalysed by the RuvB protein that
is targeted to the Holliday junction by the structure
specific RuvA protein. This family contains the
N-terminal region of the protein.
Length = 234
Score = 406 bits (1045), Expect = e-114
Identities = 148/231 (64%), Positives = 185/231 (80%), Gaps = 1/231 (0%)
Query: 7 LLSRNVSQEDADISL-LRPRTLEEFTGQVEACSNLKVFIEAAKARAEALDHVLFVGPPGL 65
L+S +E+ D+ LRPR L+E+ GQ + NLK+FIEAAK R EALDHVL GPPGL
Sbjct: 2 LVSPEAQEEEDDVERSLRPRRLDEYIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGL 61
Query: 66 GKTTLAQVVARELGVNFRSTSGPVIAKAGDLAALLTNLEDRDVLFIDEIHRLSIIVEEIL 125
GKTTLA ++A E+GVN R TSGP + K GDLAA+LTNLE DVLFIDEIHRL+ VEEIL
Sbjct: 62 GKTTLANIIANEMGVNIRITSGPALEKPGDLAAILTNLEPGDVLFIDEIHRLNRAVEEIL 121
Query: 126 YPAMEDFQLDLMVGEGPSARSVKINLSRFTLIAATTRVGLLTNPLQDRFGIPIRLNFYEI 185
YPAMEDF+LD+++G+GPSARS++++L FTL+ ATTR GLLT+PL+DRFGI +RL FY +
Sbjct: 122 YPAMEDFRLDIVIGKGPSARSIRLDLPPFTLVGATTRAGLLTSPLRDRFGIVLRLEFYSV 181
Query: 186 EDLKTIVQRGAKLTGLAVTDEAACEIAMRSRGTPRIAGRLLRRVRDFAEVA 236
E+L+ IV+R A++ G+ + +E A EIA RSRGTPRIA RLLRRVRDFA+V
Sbjct: 182 EELEEIVKRSARILGVEIDEEGAAEIARRSRGTPRIANRLLRRVRDFAQVK 232
>gnl|CDD|147589 pfam05491, RuvB_C, Holliday junction DNA helicase ruvB C-terminus.
The RuvB protein makes up part of the RuvABC revolvasome
which catalyses the resolution of Holliday junctions
that arise during genetic recombination and DNA repair.
Branch migration is catalysed by the RuvB protein that
is targeted to the Holliday junction by the structure
specific RuvA protein. This family consists of the
C-terminal region of the RuvB protein which is thought
to be helicase DNA-binding domain.
Length = 75
Score = 126 bits (320), Expect = 8e-30
Identities = 44/74 (59%), Positives = 59/74 (79%)
Query: 256 DKMGFDQLDLRYLTMIARNFGGGPVGIETISAGLSEPRDAIEDLIEPYMIQQGFIQRTPR 315
D++G D++D RYL + FGGGPVG++T++A L E RD IED+IEPY+IQ GFIQRTPR
Sbjct: 1 DELGLDEMDRRYLETLIEKFGGGPVGLDTLAAALGEERDTIEDVIEPYLIQIGFIQRTPR 60
Query: 316 GRLLMPIAWQHLGI 329
GR+ P A++HLG+
Sbjct: 61 GRVATPKAYEHLGL 74
>gnl|CDD|143797 pfam00004, AAA, ATPase family associated with various cellular
activities (AAA). AAA family proteins often perform
chaperone-like functions that assist in the assembly,
operation, or disassembly of protein complexes.
Length = 131
Score = 87.3 bits (217), Expect = 5e-18
Identities = 45/144 (31%), Positives = 56/144 (38%), Gaps = 35/144 (24%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNFRSTSGP------VIAKAGDLAALLTNLEDR--DV 108
+L GPPG GKTTLA+ VA+ELG F SG V L L + V
Sbjct: 1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCV 60
Query: 109 LFIDEIHRL-----------SIIVEEILYPAMEDFQLDLMVGEGPSARSVKINLSRFTLI 157
+FIDEI L S V L ++ F +LS+ +I
Sbjct: 61 IFIDEIDALAGSRGSGGDSESRRVVNQLLTELDGFT---------------SSLSKVIVI 105
Query: 158 AATTRVGLLTNPL-QDRFGIPIRL 180
AAT R L L + RF I
Sbjct: 106 AATNRPDKLDPALLRGRFDRIIEF 129
>gnl|CDD|32437 COG2256, MGS1, ATPase related to the helicase subunit of the
Holliday junction resolvase [DNA replication,
recombination, and repair].
Length = 436
Score = 82.2 bits (203), Expect = 2e-16
Identities = 63/246 (25%), Positives = 94/246 (38%), Gaps = 44/246 (17%)
Query: 21 LLRPRTLEEFTGQVEACSNLKVFIEAAKARAEALDHVLFVGPPGLGKTTLAQVVARELGV 80
LRP++L+E GQ K A +A L ++ GPPG GKTTLA+++A
Sbjct: 17 RLRPKSLDEVVGQEHLLGEGKPLRRAVEAGH--LHSMILWGPPGTGKTTLARLIAGTTNA 74
Query: 81 NFRSTSGPV-----IAKAGDLAALLTNLEDRDVLFIDEIHRLSIIVEEILYPAMEDFQLD 135
F + S + + + A L R +LF+DEIHR + ++ L P +E+
Sbjct: 75 AFEALSAVTSGVKDLREIIEEARKNRLLGRRTILFLDEIHRFNKAQQDALLPHVEN---- 130
Query: 136 LMVGEGPSARSVKINLSRFTLIAATTR--VGLLTNPLQDRFGIPIRLNFYEIEDLKTIVQ 193
LI ATT L L R + L ED+K +++
Sbjct: 131 ----------------GTIILIGATTENPSFELNPALLSRARV-FELKPLSSEDIKKLLK 173
Query: 194 RGAKLTG-------LAVTDEAACEIAMRSRGTPRIAGRLLRRVRDFAEVAHAKTITREIA 246
R + + +EA + S G R A LL E+A E+
Sbjct: 174 RALLDEERGLGGQIIVLDEEALDYLVRLSNGDARRALNLL-------ELAALSAEPDEVL 226
Query: 247 DAALLR 252
LL
Sbjct: 227 ILELLE 232
>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 = 69.1 bits (169), Expect = 1e-12
Identities = 42/149 (28%), Positives = 56/149 (37%), Gaps = 28/149 (18%)
Query: 49 ARAEALDHVLFVGPPGLGKTTLAQVVAREL---GVNFRSTSGPVIAKAGDLAAL------ 99
++L GPPG GKTTLA+ +A EL G F + + + +A L
Sbjct: 14 LELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHFLV 73
Query: 100 -----LTNLEDRDVLFIDEIHRLSIIVEEILYPAMEDFQLDLMVGEGPSARSVKINLSRF 154
L VLFIDEI LS + L +E I+
Sbjct: 74 RLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLR------------IDRENV 121
Query: 155 TLIAATTR--VGLLTNPLQDRFGIPIRLN 181
+I AT R +G L L DR I I +
Sbjct: 122 RVIGATNRPLLGDLDRALYDRLDIRIVIP 150
>gnl|CDD|37239 KOG2028, KOG2028, KOG2028, ATPase related to the helicase subunit
of the Holliday junction resolvase [Replication,
recombination and repair].
Length = 554
Score = 59.3 bits (143), Expect = 2e-09
Identities = 42/147 (28%), Positives = 70/147 (47%), Gaps = 21/147 (14%)
Query: 22 LRPRTLEEFTGQVEACSN---LKVFIEAAKARAEALDHVLFVGPPGLGKTTLAQVVA--- 75
+RP+TL+++ GQ L+ IE + + ++ GPPG GKTTLA+++A
Sbjct: 132 MRPKTLDDYVGQSHLVGQDGLLRSLIEQNR-----IPSMILWGPPGTGKTTLARLIASTS 186
Query: 76 RELGVNFRSTSGPVIAKAGDL-------AALLTNLEDRDVLFIDEIHRLSIIVEEILYPA 128
++ F S AK D+ + + + +LFIDEIHR + ++ P
Sbjct: 187 KKHSYRFVELSA-TNAKTNDVRDIFEQAQNEKSLTKRKTILFIDEIHRFNKSQQDTFLPH 245
Query: 129 MEDFQLDLM--VGEGPSARSVKINLSR 153
+E+ + L+ E PS + LSR
Sbjct: 246 VENGDITLIGATTENPSFQLNAALLSR 272
>gnl|CDD|31058 COG0714, COG0714, MoxR-like ATPases [General function prediction
only].
Length = 329
Score = 57.4 bits (138), Expect = 5e-09
Identities = 47/196 (23%), Positives = 72/196 (36%), Gaps = 29/196 (14%)
Query: 44 IEAAKARAEALDHVLFVGPPGLGKTTLAQVVARELGVNFRSTS-----------GPVIAK 92
IE A A HVL GPPG+GKT LA+ +AR LG+ F G
Sbjct: 33 IELALLALLAGGHVLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDLLGTYAYA 92
Query: 93 AGDLAALLTNLED-------RDVLFIDEIHRLSIIVEEILYPAMEDFQLDLMVGEGPSAR 145
A L R +L +DEI+R V+ L A+E+ Q P
Sbjct: 93 ALLLEPGEFRFVPGPLFAAVRVILLLDEINRAPPEVQNALLEALEERQ-----VTVPGLT 147
Query: 146 SVKINLSRFTLIAATT-----RVGLLTNPLQDRFGIPIRLNFYEIEDLKTIVQRGAKLTG 200
++++ F +IA L L DRF + I +++ + E+ + I+
Sbjct: 148 TIRLP-PPFIVIATQNPGEYEGTYPLPEALLDRFLLRIYVDYPDSEEEERIILARVGGVD 206
Query: 201 LAVTDEAACEIAMRSR 216
+ +
Sbjct: 207 ELDLESLVKPVLSDEE 222
>gnl|CDD|30812 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational
modification, protein turnover, chaperones].
Length = 494
Score = 48.2 bits (114), Expect = 3e-06
Identities = 57/216 (26%), Positives = 80/216 (37%), Gaps = 29/216 (13%)
Query: 9 SRNVSQEDADISLLRPRTLEEFTGQVEACSNLKVFIEAAKARAEALD--------HVLFV 60
SR V ED D++L LEE LK IE R E VL
Sbjct: 229 SRGVLFEDEDVTLDDIGGLEEAK------EELKEAIETPLKRPELFRKLGLRPPKGVLLY 282
Query: 61 GPPGLGKTTLAQVVARELGVNFRSTSGPVIAK--AGDLAALLTNLEDR------DVLFID 112
GPPG GKT LA+ VA E F S G + G+ + L ++ ++FID
Sbjct: 283 GPPGTGKTLLAKAVALESRSRFISVKGSELLSKWVGESEKNIRELFEKARKLAPSIIFID 342
Query: 113 EIHRLSIIVEEILYPAMEDFQLDLMVGEGPSARSVKINLSRFTLIAATTRVGLLTNPL-- 170
EI L ED +VG+ + +IAAT R L L
Sbjct: 343 EIDSL-----ASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLR 397
Query: 171 QDRFGIPIRLNFYEIEDLKTIVQRGAKLTGLAVTDE 206
RF I + ++E+ I + + + ++
Sbjct: 398 PGRFDRLIYVPLPDLEERLEIFKIHLRDKKPPLAED 433
Score = 29.0 bits (64), Expect = 2.1
Identities = 25/69 (36%), Positives = 30/69 (43%), Gaps = 9/69 (13%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIA--------KAGDLAALLTNLEDRDV 108
VL GPPG GKT LA+ +A E G F S +GP I +
Sbjct: 21 VLLHGPPGTGKTLLARALANE-GAEFLSINGPEILSKYVGESELRLRELFEEAEKLAPSI 79
Query: 109 LFIDEIHRL 117
+FIDEI L
Sbjct: 80 IFIDEIDAL 88
>gnl|CDD|31416 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 368
Score = 48.0 bits (114), Expect = 3e-06
Identities = 65/249 (26%), Positives = 103/249 (41%), Gaps = 39/249 (15%)
Query: 26 TLEEFTGQVEA---CSNLKVFIEAAKA-RAEALDHVLFVGPPGLGKTTLAQVVARELGVN 81
TL++ GQ EA C + ++E + A +VLF GPPG GKT +A+ +A E V
Sbjct: 119 TLDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVP 178
Query: 82 FRSTSGPVI--AKAGDLAALLTNLEDRD------VLFIDEIHRLSII---------VEEI 124
+ GD A + L +R ++FIDE+ +++ V EI
Sbjct: 179 LLLVKATELIGEHVGDGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEI 238
Query: 125 LYPAMEDFQLD-LMVGEGPSARSVKINLSRFTLIAATTRVGLLTNPLQDRFGIPIRLNFY 183
+ + +LD + EG IAAT R LL ++ RF I
Sbjct: 239 VNALLT--ELDGIKENEG------------VVTIAATNRPELLDPAIRSRFEEEIEFKLP 284
Query: 184 EIEDLKTIVQRGAKLTGLAVTDEAACEIAMRSRGTP--RIAGRLLRRVRDFAEVAHAKTI 241
E+ I++ AK L V D +A +++G I ++L+ A + +
Sbjct: 285 NDEERLEILEYYAKKFPLPV-DADLRYLAAKTKGMSGRDIKEKVLKTALHRAIAEDREKV 343
Query: 242 TREIADAAL 250
RE + AL
Sbjct: 344 EREDIEKAL 352
>gnl|CDD|36207 KOG0989, KOG0989, KOG0989, Replication factor C, subunit RFC4
[Replication, recombination and repair].
Length = 346
Score = 48.0 bits (114), Expect = 4e-06
Identities = 57/221 (25%), Positives = 82/221 (37%), Gaps = 45/221 (20%)
Query: 23 RPRTLEEFTGQVEACSNLKVFIEAAKARAEALDHVLFVGPPGLGKTTLAQVVAREL---- 78
RP+T +E GQ LK + L H LF GPPG GKT+ A AR L
Sbjct: 31 RPKTFDELAGQEHVVQVLKNALLRR-----ILPHYLFYGPPGTGKTSTALAFARALNCEQ 85
Query: 79 ---------GVNFRSTSGPVIAKAGDLAALLTNLEDRD--------VLFIDEIHRLSIIV 121
+ V K + A L L+ D ++ +DE ++
Sbjct: 86 LFPCRVLELNASDERGISVVREKIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDA 145
Query: 122 EEILYPAMEDFQLDLMVGEGPSARSVKINLSRFTLIAATTRVGLLTNPLQDRFGIPIRLN 181
+ L MEDF +R+ RF LI + + PL R R
Sbjct: 146 QAALRRTMEDF-----------SRTT-----RFILI--CNYLSRIIRPLVSRCQ-KFRFK 186
Query: 182 FYEIEDLKTIVQRGAKLTGLAVTDEAACEIAMRSRGTPRIA 222
+ ED+ +++ A G+ + D+A IA S G R A
Sbjct: 187 KLKDEDIVDRLEKIASKEGVDIDDDALKLIAKISDGDLRRA 227
>gnl|CDD|35952 KOG0733, KOG0733, KOG0733, Nuclear AAA ATPase (VCP subfamily)
[Posttranslational modification, protein turnover,
chaperones].
Length = 802
Score = 46.9 bits (111), Expect = 9e-06
Identities = 29/66 (43%), Positives = 37/66 (56%), Gaps = 8/66 (12%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAK--AGDLAALLTNLEDRD------V 108
VL GPPG GKT+LA +A ELGV F S S P I +G+ + L D+ +
Sbjct: 226 VLLHGPPGCGKTSLANAIAGELGVPFLSISAPEIVSGVSGESEKKIRELFDQAKSNAPCI 285
Query: 109 LFIDEI 114
+FIDEI
Sbjct: 286 VFIDEI 291
Score = 43.4 bits (102), Expect = 1e-04
Identities = 20/32 (62%), Positives = 21/32 (65%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNFRSTSGP 88
VL GPPG GKT LA+ VA E G NF S GP
Sbjct: 548 VLLCGPPGCGKTLLAKAVANEAGANFISVKGP 579
>gnl|CDD|36209 KOG0991, KOG0991, KOG0991, Replication factor C, subunit RFC2
[Replication, recombination and repair].
Length = 333
Score = 46.5 bits (110), Expect = 1e-05
Identities = 21/77 (27%), Positives = 35/77 (45%), Gaps = 5/77 (6%)
Query: 2 MDREGLLSRNVSQEDADISLLRPRTLEEFTGQVEACSNLKVFIEAAKARAEALDHVLFVG 61
M +S++ + + RP L++ G + L V A+ + +++ G
Sbjct: 1 MPEFSEMSKSDKYQLPWVEKYRPSVLQDIVGNEDTVERLSVI-----AKEGNMPNLIISG 55
Query: 62 PPGLGKTTLAQVVAREL 78
PPG GKTT +AREL
Sbjct: 56 PPGTGKTTSILCLAREL 72
>gnl|CDD|35949 KOG0730, KOG0730, KOG0730, AAA+-type ATPase [Posttranslational
modification, protein turnover, chaperones].
Length = 693
Score = 44.2 bits (104), Expect = 5e-05
Identities = 25/66 (37%), Positives = 36/66 (54%), Gaps = 8/66 (12%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNFRSTSGP-VIAK-AGDLAALLTNLEDR------DV 108
VL GPPG GKT LA+ +A E G+NF S GP + +K G+ + + + +
Sbjct: 471 VLLYGPPGCGKTLLAKALANEAGMNFLSVKGPELFSKYVGESERAIREVFRKARQVAPCI 530
Query: 109 LFIDEI 114
+F DEI
Sbjct: 531 IFFDEI 536
Score = 39.9 bits (93), Expect = 0.001
Identities = 22/70 (31%), Positives = 32/70 (45%), Gaps = 9/70 (12%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVI--AKAGDLAALL-------TNLEDRD 107
+L GPPG GKT L + VA E G +GP + G+ + L +
Sbjct: 221 LLLYGPPGTGKTFLVRAVANEYGAFLFLINGPELISKFPGETESNLRKAFAEALKFQVPS 280
Query: 108 VLFIDEIHRL 117
++FIDE+ L
Sbjct: 281 IIFIDELDAL 290
>gnl|CDD|30813 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational
modification, protein turnover, chaperones].
Length = 596
Score = 43.8 bits (103), Expect = 6e-05
Identities = 21/33 (63%), Positives = 22/33 (66%)
Query: 56 HVLFVGPPGLGKTTLAQVVARELGVNFRSTSGP 88
VL VGPPG GKT LA+ VA E GV F S SG
Sbjct: 185 GVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGS 217
>gnl|CDD|35953 KOG0734, KOG0734, KOG0734, AAA+-type ATPase containing the
peptidase M41 domain [Posttranslational modification,
protein turnover, chaperones].
Length = 752
Score = 43.9 bits (103), Expect = 7e-05
Identities = 29/66 (43%), Positives = 34/66 (51%), Gaps = 8/66 (12%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNFRSTSGP------VIAKAGDLAALLTNLEDRD--V 108
VL VGPPG GKT LA+ VA E GV F SG V A + L + R +
Sbjct: 340 VLLVGPPGTGKTLLARAVAGEAGVPFFYASGSEFDEMFVGVGARRVRDLFAAAKARAPCI 399
Query: 109 LFIDEI 114
+FIDEI
Sbjct: 400 IFIDEI 405
>gnl|CDD|35955 KOG0736, KOG0736, KOG0736, Peroxisome assembly factor 2 containing
the AAA+-type ATPase domain [Posttranslational
modification, protein turnover, chaperones].
Length = 953
Score = 43.8 bits (103), Expect = 7e-05
Identities = 18/32 (56%), Positives = 21/32 (65%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNFRSTSGP 88
+L GPPG GKT LA+ VA E +NF S GP
Sbjct: 708 ILLYGPPGTGKTLLAKAVATECSLNFLSVKGP 739
Score = 33.4 bits (76), Expect = 0.086
Identities = 15/26 (57%), Positives = 19/26 (73%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNF 82
VL GPPG GKTT+ + VA ELG++
Sbjct: 434 VLLHGPPGSGKTTVVRAVASELGLHL 459
>gnl|CDD|31417 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein
[Transcription].
Length = 450
Score = 43.3 bits (102), Expect = 9e-05
Identities = 27/60 (45%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 30 FTGQVEACSNLKVFIEAAKARAEALDHVLFVGPPGLGKTTLAQVVARELG--VNFRSTSG 87
GQ EA V ++ K A +L VGPPG GKT LA +ARELG V F + SG
Sbjct: 41 LVGQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIARELGEDVPFVAISG 100
Score = 32.5 bits (74), Expect = 0.17
Identities = 36/150 (24%), Positives = 59/150 (39%), Gaps = 33/150 (22%)
Query: 108 VLFIDEIHRLSIIVEEILYPAMEDFQLDLMVGEGPSARSVKINLSRFTLIAATTRVGLLT 167
VLFIDE+H L I L A+E L+ +I AT R G+
Sbjct: 294 VLFIDEVHMLDIECFSFLNRALES------------------ELAP-IIILATNR-GMTK 333
Query: 168 ---NPLQDRFGIP---------IRLNFYEIEDLKTIVQRGAKLTGLAVTDEAACEIA-MR 214
++ GIP I Y E+++ I++ AK + ++D+A + +
Sbjct: 334 IRGTDIESPHGIPLDLLDRLLIISTRPYSREEIREIIRIRAKEEDIELSDDALEYLTDIG 393
Query: 215 SRGTPRIAGRLLRRVRDFAEVAHAKTITRE 244
+ R A +LL A+ +K + E
Sbjct: 394 EETSLRYAVQLLTPASIIAKRRGSKRVEVE 423
>gnl|CDD|35870 KOG0651, KOG0651, KOG0651, 26S proteasome regulatory complex,
ATPase RPT4 [Posttranslational modification, protein
turnover, chaperones].
Length = 388
Score = 43.4 bits (102), Expect = 9e-05
Identities = 39/122 (31%), Positives = 54/122 (44%), Gaps = 10/122 (8%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNF--RSTSGPVIAKAGDLAALLTNLED--RDV---- 108
+L GPPG GKT LA+ VA +GVNF +S V G+ A L+ ++ R+V
Sbjct: 169 LLLYGPPGTGKTLLARAVAATMGVNFLKVVSSALVDKYIGESARLIRDMFRYAREVIPCI 228
Query: 109 LFIDEIHRLSIIVEEILYPAMEDFQLDLMVGEGPSARSVKINLSRFTLIAATTRVGLLTN 168
+F+DEI + + + Q LM E + L R I AT R L
Sbjct: 229 IFMDEIDAIGGRRFSEGTSSDREIQRTLM--ELLNQMDGFDTLHRVKTIMATNRPDTLDP 286
Query: 169 PL 170
L
Sbjct: 287 AL 288
>gnl|CDD|30938 COG0593, DnaA, ATPase involved in DNA replication initiation [DNA
replication, recombination, and repair].
Length = 408
Score = 43.3 bits (102), Expect = 9e-05
Identities = 58/264 (21%), Positives = 89/264 (33%), Gaps = 47/264 (17%)
Query: 11 NVSQEDADISLLRPRTLEEFTGQVEACSNLKVFIEAAKARAEALDH----VLFVGPPGLG 66
+Q L T + F V SN + AAKA AE + G GLG
Sbjct: 70 APAQLPLPSGLNPKYTFDNF---VVGPSNRLAY-AAAKAVAENPGGAYNPLFIYGGVGLG 125
Query: 67 KTTLAQVV---ARELGVNFR--------STSGPVIAKAGDLAALLTNLEDRDVLFIDEIH 115
KT L Q + A G N R T+ V A + D+L ID+I
Sbjct: 126 KTHLLQAIGNEALANGPNARVVYLTSEDFTNDFVKALRDNEMEKFKEKYSLDLLLIDDIQ 185
Query: 116 RLSI---IVEEILYP----AMEDFQLDLMVGEGPSARSVKINLSRFTLIAATTRVGLLTN 168
L+ EE + Q+ L T + L +
Sbjct: 186 FLAGKERTQEEFFHTFNALLENGKQIVL------------------TSDRPPKELNGLED 227
Query: 169 PLQDRF--GIPIRLNFYEIEDLKTIVQRGAKLTGLAVTDEAACEIAMRSRGTPRIAGRLL 226
L+ R G+ + + + E I+++ A+ G+ + DE +A R R L
Sbjct: 228 RLRSRLEWGLVVEIEPPDDETRLAILRKKAEDRGIEIPDEVLEFLAKRLDRNVRELEGAL 287
Query: 227 RRVRDFAEVAHAKTITREIADAAL 250
R+ D + + IT ++ L
Sbjct: 288 NRL-DAFALFTKRAITIDLVKEIL 310
>gnl|CDD|177080 CHL00176, ftsH, cell division protein; Validated.
Length = 638
Score = 43.1 bits (102), Expect = 1e-04
Identities = 19/31 (61%), Positives = 21/31 (67%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNFRSTSG 87
VL VGPPG GKT LA+ +A E V F S SG
Sbjct: 219 VLLVGPPGTGKTLLAKAIAGEAEVPFFSISG 249
>gnl|CDD|35950 KOG0731, KOG0731, KOG0731, AAA+-type ATPase containing the
peptidase M41 domain [Posttranslational modification,
protein turnover, chaperones].
Length = 774
Score = 43.1 bits (101), Expect = 1e-04
Identities = 70/292 (23%), Positives = 108/292 (36%), Gaps = 42/292 (14%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNFRSTSGP--VIAKAGDLAALLTNL--EDRD----V 108
VL VGPPG GKT LA+ +A E GV F S SG V G A+ + +L R +
Sbjct: 347 VLLVGPPGTGKTLLAKAIAGEAGVPFFSVSGSEFVEMFVGVGASRVRDLFPLARKNAPSI 406
Query: 109 LFIDEIHRLSIIVEEILYPAMEDFQLDLMVGEGPSARSVKIN-----LSRFT------LI 157
+FIDEI A+ + G G R +N + F ++
Sbjct: 407 IFIDEI------------DAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGVIVL 454
Query: 158 AATTRVGLLTNPL--QDRFGIPIRLNFYEIEDLKTIVQRGAKLTGLAVTDEAACEIAMRS 215
AAT R +L L RF I+++ +++ +I++ + L D ++A
Sbjct: 455 AATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSKLASL- 513
Query: 216 RGTPRIAGRLLRRVRDFAEVAHAKTITREIADAAL---LRLAIDKMGFDQLDLRYLTMIA 272
TP +G L + + A + A+ REI L + I M L
Sbjct: 514 --TPGFSGADLANLCNEAALLAARKGLREIGTKDLEYAIERVIAGMEKKSRVLSLEEK-- 569
Query: 273 RNFGGGPVGIETISAGLSEPRDAIEDLIEPYMIQQGFIQRTPRGRLLMPIAW 324
+ G + L E D + + G+ Q P L+
Sbjct: 570 KTVAYHEAG-HAVVGWLLEHADPLLKVSIIPGQALGYAQYLPTDDYLLSKEQ 620
>gnl|CDD|36208 KOG0990, KOG0990, KOG0990, Replication factor C, subunit RFC5
[Replication, recombination and repair].
Length = 360
Score = 42.7 bits (100), Expect = 2e-04
Identities = 18/56 (32%), Positives = 22/56 (39%), Gaps = 5/56 (8%)
Query: 23 RPRTLEEFTGQVEACSNLKVFIEAAKARAEALDHVLFVGPPGLGKTTLAQVVAREL 78
RP L Q S + L H+LF GPPG GKT+ AR+
Sbjct: 36 RPPFLGIVIKQEPIWSTENRYSGMPG-----LPHLLFYGPPGTGKTSTILANARDF 86
>gnl|CDD|35957 KOG0738, KOG0738, KOG0738, AAA+-type ATPase [Posttranslational
modification, protein turnover, chaperones].
Length = 491
Score = 40.7 bits (95), Expect = 6e-04
Identities = 27/69 (39%), Positives = 34/69 (49%), Gaps = 8/69 (11%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAKA--GDLAALLTNLEDR------DV 108
VL VGPPG GKT LA+ VA E G F + S + G+ L+ L +
Sbjct: 248 VLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLTSKWRGESEKLVRLLFEMARFYAPST 307
Query: 109 LFIDEIHRL 117
+FIDEI L
Sbjct: 308 IFIDEIDSL 316
>gnl|CDD|37153 KOG1942, KOG1942, KOG1942, DNA helicase, TBP-interacting protein
[Replication, recombination and repair].
Length = 456
Score = 40.3 bits (94), Expect = 8e-04
Identities = 20/50 (40%), Positives = 28/50 (56%)
Query: 30 FTGQVEACSNLKVFIEAAKARAEALDHVLFVGPPGLGKTTLAQVVARELG 79
F GQ A + ++ K++ A VL GPPG GKT LA +++ELG
Sbjct: 40 FVGQENAREAAGIIVDLIKSKKMAGRAVLLAGPPGTGKTALALAISQELG 89
Score = 35.7 bits (82), Expect = 0.017
Identities = 42/142 (29%), Positives = 64/142 (45%), Gaps = 16/142 (11%)
Query: 108 VLFIDEIHRLSIIVEEILYPAMEDFQLDLMVGEGPSARSVKINLSR-FTLIAATTRVGL- 165
VLFIDE+H L I L+ A+E P A V +R I T +
Sbjct: 299 VLFIDEVHMLDIECFTYLHKALES----------PIAPIVIFASNRGMCTIRGTEDILSP 348
Query: 166 --LTNPLQDRFGIPIRLNFYEIEDLKTIVQRGAKLTGLAVTDEAACEIA-MRSRGTPRIA 222
+ L DR I IR Y+ E+++ I++ A++ GL V +EA +A + + + R A
Sbjct: 349 HGIPPDLLDRLLI-IRTLPYDEEEIRQIIKIRAQVEGLQVEEEALDLLAEIGTSTSLRYA 407
Query: 223 GRLLRRVRDFAEVAHAKTITRE 244
+LL A+ K I+ E
Sbjct: 408 VQLLTPASILAKTNGRKEISVE 429
>gnl|CDD|31673 COG1484, DnaC, DNA replication protein [DNA replication,
recombination, and repair].
Length = 254
Score = 40.4 bits (94), Expect = 8e-04
Identities = 30/110 (27%), Positives = 47/110 (42%), Gaps = 15/110 (13%)
Query: 19 ISLLRPRTLEEFTGQVEACSNLKVFIEAAKARAEALDH---VLFVGPPGLGKTTLAQVVA 75
S +T EEF + + + K E + E + ++ +GPPG+GKT LA +
Sbjct: 68 ASFPAKKTFEEFDFEFQPGIDKKAL-EDLASLVEFFERGENLVLLGPPGVGKTHLAIAIG 126
Query: 76 REL---GVNFRSTSGP----VIAKAGDLAALLTNLEDR----DVLFIDEI 114
EL G++ + P + A D L L D+L ID+I
Sbjct: 127 NELLKAGISVLFITAPDLLSKLKAAFDEGRLEEKLLRELKKVDLLIIDDI 176
>gnl|CDD|37181 KOG1970, KOG1970, KOG1970, Checkpoint RAD17-RFC complex,
RAD17/RAD24 component [Energy production and conversion,
Replication, recombination and repair].
Length = 634
Score = 40.0 bits (93), Expect = 0.001
Identities = 22/70 (31%), Positives = 35/70 (50%), Gaps = 2/70 (2%)
Query: 22 LRPRTLEEFTGQVEACSNLKVFIEAAKARAEALDH--VLFVGPPGLGKTTLAQVVARELG 79
+PRTLEE + S +K +++ L +L GP G GK+T +V+++ELG
Sbjct: 76 YKPRTLEELAVHKKKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKELG 135
Query: 80 VNFRSTSGPV 89
S P+
Sbjct: 136 YQLIEWSNPI 145
>gnl|CDD|35954 KOG0735, KOG0735, KOG0735, AAA+-type ATPase [Posttranslational
modification, protein turnover, chaperones].
Length = 952
Score = 40.0 bits (93), Expect = 0.001
Identities = 15/32 (46%), Positives = 18/32 (56%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNFRSTSGP 88
+L GPPG GKT LA +A + F S GP
Sbjct: 704 ILLYGPPGCGKTLLASAIASNSNLRFISVKGP 735
Score = 28.5 bits (63), Expect = 2.7
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 56 HVLFVGPPGLGKTTLAQVVAREL 78
++L GP G GKT L + +
Sbjct: 433 NILLNGPKGSGKTNLVKALFDYY 455
>gnl|CDD|31412 COG1219, ClpX, ATP-dependent protease Clp, ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 408
Score = 39.8 bits (93), Expect = 0.001
Identities = 24/76 (31%), Positives = 39/76 (51%), Gaps = 14/76 (18%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAKAG----DLAALLTNL--------- 103
+L +GP G GKT LAQ +A+ L V F + +AG D+ +L L
Sbjct: 100 ILLIGPTGSGKTLLAQTLAKILNVPFAIADATTLTEAGYVGEDVENILLKLLQAADYDVE 159
Query: 104 -EDRDVLFIDEIHRLS 118
+R +++IDEI +++
Sbjct: 160 RAERGIIYIDEIDKIA 175
>gnl|CDD|31663 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA
replication, recombination, and repair /
Posttranslational modification, protein turnover,
chaperones].
Length = 366
Score = 39.6 bits (92), Expect = 0.001
Identities = 49/263 (18%), Positives = 83/263 (31%), Gaps = 54/263 (20%)
Query: 24 PRTLEEFTGQVEACSNLKVFIEAAKARAEALDHVLFVGPPGLGKTTLAQVVARELG---- 79
P L ++ ++ A R E +++ GP G GKT + V EL
Sbjct: 16 PEELPHREEEINQLAS----FLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSA 71
Query: 80 ------VNFRSTSGP-----------------VIAKAGDLAALLTNLEDRDVLFI---DE 113
+N P + L L NL + I DE
Sbjct: 72 NVEVVYINCLELRTPYQVLSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDE 131
Query: 114 IHRLSIIVEEILYPAMEDFQLDLMVGEGPSARSVKINLSRFTLIAATTRVGLLTNPLQDR 173
+ L E+LY L GE S+ + + L ++
Sbjct: 132 VDALVDKDGEVLY------SLLRAPGENKVKVSIIAVSNDDKFLD------YLDPRVKSS 179
Query: 174 FGIPIRLNF--YEIEDLKTIVQRGAK--LTGLAVTDEA---ACEIAMRSRGTPRIAGRLL 226
G P + F Y E+L I++ + + + D+ + G R A +L
Sbjct: 180 LG-PSEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDIL 238
Query: 227 RRVRDFAEVAHAKTITREIADAA 249
RR + AE ++ ++ + A
Sbjct: 239 RRAGEIAEREGSRKVSEDHVREA 261
>gnl|CDD|35956 KOG0737, KOG0737, KOG0737, AAA+-type ATPase [Posttranslational
modification, protein turnover, chaperones].
Length = 386
Score = 39.5 bits (92), Expect = 0.001
Identities = 23/66 (34%), Positives = 36/66 (54%), Gaps = 8/66 (12%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVI-----AKAGDLAALLTNLEDR---DV 108
+L GPPG GKT LA+ +A+E G NF + S + +A L + +L + +
Sbjct: 130 ILLYGPPGTGKTMLAKAIAKEAGANFINVSVSNLTSKWFGEAQKLVKAVFSLASKLQPSI 189
Query: 109 LFIDEI 114
+FIDE+
Sbjct: 190 IFIDEV 195
>gnl|CDD|35964 KOG0745, KOG0745, KOG0745, Putative ATP-dependent Clp-type protease
(AAA+ ATPase superfamily) [Posttranslational
modification, protein turnover, chaperones].
Length = 564
Score = 39.6 bits (92), Expect = 0.001
Identities = 32/136 (23%), Positives = 53/136 (38%), Gaps = 18/136 (13%)
Query: 7 LLSRNVSQEDADISLLRPRTLEEFTGQVEACSNLKVFIEAAKARAEALD----HVLFVGP 62
+ P LE + +N + +A E ++ +VL +GP
Sbjct: 175 RQKELAEASKSAKDRDNPIELEISESNAQWPNNQRQIAKALDEDDEDVELEKSNVLLLGP 234
Query: 63 PGLGKTTLAQVVARELGVNFRSTSGPVIAKAGD--------LAALLTNLE------DRDV 108
G GKT LAQ +AR L V F + +AG + LL E + +
Sbjct: 235 TGSGKTLLAQTLARVLDVPFAICDCTTLTQAGYVGEDVESVIQKLLQEAEYNVEKAQQGI 294
Query: 109 LFIDEIHRLSIIVEEI 124
+F+DE+ +++ E I
Sbjct: 295 VFLDEVDKITKKAESI 310
>gnl|CDD|37246 KOG2035, KOG2035, KOG2035, Replication factor C, subunit RFC3
[Energy production and conversion, Replication,
recombination and repair].
Length = 351
Score = 38.4 bits (89), Expect = 0.003
Identities = 50/241 (20%), Positives = 91/241 (37%), Gaps = 48/241 (19%)
Query: 23 RPRTLEEFTGQVEACSNLKVFIEAAKARAEALDHVLFVGPPGLGKTTLAQVVAREL---G 79
RP++L+E E + LK + H+L GP G GK T + REL G
Sbjct: 8 RPKSLDELIYHEELANLLKSL-----SSTGDFPHLLVYGPSGAGKKTRIMCLLRELYGVG 62
Query: 80 V--------NFRSTSGPVIAKAGDLAALLTN----LEDRDVLFIDEIHRLSIIVEEILYP 127
V F + S + +++ + +N + D D ++++E+L
Sbjct: 63 VEKLKIETRTFTTPSKKKL----EISTVSSNYHLEITPSDAGNYDR-----VVIQELLKE 113
Query: 128 AMEDFQLDLM---------VGEGPS---------ARSVKINLSRFTLIAATTRVGLLTNP 169
+ Q++ + E R+++ S LI + P
Sbjct: 114 VAQTQQIETQGQRPFKVVVINEADELTRDAQHALRRTMEKYSSNCRLILVCNSTSRIIEP 173
Query: 170 LQDRFGIPIRLNFYEIEDLKTIVQRGAKLTGLAVTDEAACEIAMRSRGTPRIAGRLLRRV 229
++ R + IR+ E++ +++ + K GL + E IA +S R A +L V
Sbjct: 174 IRSRC-LFIRVPAPSDEEITSVLSKVLKKEGLQLPKELLKRIAEKSNRNLRRALLMLEAV 232
Query: 230 R 230
R
Sbjct: 233 R 233
>gnl|CDD|35958 KOG0739, KOG0739, KOG0739, AAA+-type ATPase [Posttranslational
modification, protein turnover, chaperones].
Length = 439
Score = 38.4 bits (89), Expect = 0.003
Identities = 26/69 (37%), Positives = 37/69 (53%), Gaps = 8/69 (11%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNFRS-TSGPVIAK-AGDLAALLTNL------EDRDV 108
+L GPPG GK+ LA+ VA E F S +S +++K G+ L+ NL +
Sbjct: 169 ILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKNLFEMARENKPSI 228
Query: 109 LFIDEIHRL 117
+FIDEI L
Sbjct: 229 IFIDEIDSL 237
>gnl|CDD|37215 KOG2004, KOG2004, KOG2004, Mitochondrial ATP-dependent protease
PIM1/LON [Posttranslational modification, protein
turnover, chaperones].
Length = 906
Score = 38.0 bits (88), Expect = 0.004
Identities = 55/213 (25%), Positives = 87/213 (40%), Gaps = 41/213 (19%)
Query: 11 NVSQEDADISLLRPRTLEEFTGQVEACSNLKVFIEAAKARAEALDHVL-FVGPPGLGKTT 69
S E+ D++ + E+ G + + FI K R +L FVGPPG+GKT+
Sbjct: 394 KSSTENLDLARAKEILDEDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTS 453
Query: 70 LAQVVARELGVNF-RSTSGP--------------VIAKAGDLAALLTNLEDRDVLF-IDE 113
+A+ +AR L F R + G V A G + L ++ + L IDE
Sbjct: 454 IAKSIARALNRKFFRFSVGGMTDVAEIKGHRRTYVGAMPGKIIQCLKKVKTENPLILIDE 513
Query: 114 IHRL--------SIIVEEILYP----AMEDFQLDLMVGEGPSARSVKINLSRFTLIAATT 161
+ +L + + E+L P D LD V ++LS+ I
Sbjct: 514 VDKLGSGHQGDPASALLELLDPEQNANFLDHYLD-----------VPVDLSKVLFICTAN 562
Query: 162 RVGLLTNPLQDRFGIPIRLNFYEIEDLKTIVQR 194
+ + PL DR + I L+ Y E+ I +R
Sbjct: 563 VIDTIPPPLLDRMEV-IELSGYVAEEKVKIAER 594
>gnl|CDD|32641 COG2812, DnaX, DNA polymerase III, gamma/tau subunits [DNA
replication, recombination, and repair].
Length = 515
Score = 38.1 bits (88), Expect = 0.004
Identities = 31/115 (26%), Positives = 50/115 (43%), Gaps = 15/115 (13%)
Query: 23 RPRTLEEFTGQVEACSNLKVFIEAAKARAEALDHVLFVGPPGLGKTTLAQVVARELGVNF 82
RP+T ++ GQ ++ + A LF GP G+GKTT+A+++A+ L N
Sbjct: 11 RPKTFDDVVGQ----EHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKAL--NC 64
Query: 83 RSTSGPVIAKAGDLAALLTNLEDR--DVLFIDEIHRLSI-----IVEEILYPAME 130
+GP G + E DV+ ID + I+E++ Y E
Sbjct: 65 --ENGPTAEPCGKCISCKEINEGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSE 117
>gnl|CDD|37180 KOG1969, KOG1969, KOG1969, DNA replication checkpoint protein
CHL12/CTF18 [Energy production and conversion,
Replication, recombination and repair].
Length = 877
Score = 38.1 bits (88), Expect = 0.004
Identities = 15/22 (68%), Positives = 18/22 (81%)
Query: 58 LFVGPPGLGKTTLAQVVARELG 79
L GPPGLGKTTLA V+A++ G
Sbjct: 330 LLCGPPGLGKTTLAHVIAKQAG 351
>gnl|CDD|31415 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 406
Score = 37.5 bits (87), Expect = 0.005
Identities = 24/66 (36%), Positives = 33/66 (50%), Gaps = 8/66 (12%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAKA--GDLAALLTNL------EDRDV 108
VL GPPG GKT LA+ VA + F G + + G+ A L+ L + +
Sbjct: 188 VLLYGPPGTGKTLLAKAVANQTDATFIRVVGSELVQKYIGEGARLVRELFELAREKAPSI 247
Query: 109 LFIDEI 114
+FIDEI
Sbjct: 248 IFIDEI 253
>gnl|CDD|146043 pfam03215, Rad17, Rad17 cell cycle checkpoint protein.
Length = 490
Score = 37.7 bits (87), Expect = 0.005
Identities = 21/79 (26%), Positives = 35/79 (44%), Gaps = 10/79 (12%)
Query: 22 LRPRTLEEFTGQVEACSNLK-----VFIEAAKARAEALDHVLFVGPPGLGKTTLAQVVAR 76
+PR +E + + + VF+E+ K +L GP G GK+T +V+++
Sbjct: 13 YKPRRRDELAIHKKKIAEVDHWLKAVFLESNKQLI-----LLLTGPSGCGKSTTVKVLSK 67
Query: 77 ELGVNFRSTSGPVIAKAGD 95
ELG+ S P D
Sbjct: 68 ELGIEIIEWSNPEYLHNPD 86
>gnl|CDD|30814 COG0466, Lon, ATP-dependent Lon protease, bacterial type
[Posttranslational modification, protein turnover,
chaperones].
Length = 782
Score = 37.1 bits (86), Expect = 0.007
Identities = 13/26 (50%), Positives = 19/26 (73%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNF 82
+ VGPPG+GKT+L + +A+ LG F
Sbjct: 353 LCLVGPPGVGKTSLGKSIAKALGRKF 378
>gnl|CDD|35962 KOG0743, KOG0743, KOG0743, AAA+-type ATPase [Posttranslational
modification, protein turnover, chaperones].
Length = 457
Score = 37.2 bits (86), Expect = 0.007
Identities = 16/57 (28%), Positives = 26/57 (45%)
Query: 58 LFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAKAGDLAALLTNLEDRDVLFIDEI 114
L GPPG GK++ +A L + + DL LL ++ +L I++I
Sbjct: 239 LLYGPPGTGKSSFIAAMANYLNYDIYDLELTEVKLDSDLRHLLLATPNKSILLIEDI 295
>gnl|CDD|31414 COG1221, PspF, Transcriptional regulators containing an AAA-type
ATPase domain and a DNA-binding domain [Transcription /
Signal transduction mechanisms].
Length = 403
Score = 36.9 bits (85), Expect = 0.007
Identities = 60/315 (19%), Positives = 106/315 (33%), Gaps = 77/315 (24%)
Query: 28 EEFTGQVEACSNLKVFIEAAKARAEALDHVLFVGPPGLGKTTLAQVVARELGVNFRSTSG 87
E + +L+ E KA A + VL +G G GK A+++ + R
Sbjct: 75 EALDDLIGESPSLQELREQIKAYAPSGLPVLIIGETGTGKELFARLIHAL---SARRAEA 131
Query: 88 PVIAKAGDLAALLTNLE--------------------------DRDVLFIDEIHRLSIIV 121
P IA + AA NL+ + LF+DEIHRL
Sbjct: 132 PFIAF--NCAAYSENLQEAELFGHEKGAFTGAQGGKAGLFEQANGGTLFLDEIHRLPPEG 189
Query: 122 EEILYPAMEDFQLDLMVGEGPSARSVKI------NLSRFTLIAATTRVGLLTN-----PL 170
+E L +E+ + + G P V++ +L L A L PL
Sbjct: 190 QEKLLRVLEEGEYRRVGGSQPRPVDVRLICATTEDLEEAVLAGADLTRRLNILTITLPPL 249
Query: 171 QDR------------------FGIPIRLNFYE-------------IEDLKTIVQRGAKLT 199
++R G+P+ ++ E I +LK +V+R
Sbjct: 250 RERKEDILLLAEHFLKSEARRLGLPLSVDSPEALRALLAYDWPGNIRELKNLVERAVAQA 309
Query: 200 GLAVTDEAACEIAMRSRGTP---RIAGRLLRRVRDFAEVAHAKTITREIADAALLRLAID 256
D I++R P + + ++ + + E + LL+ A++
Sbjct: 310 SGEGQDLEDLIISIRLDELPGLNDVPAGISLQLNLPELPLSLRETSLEQVEERLLQKALE 369
Query: 257 KMGFDQLD-LRYLTM 270
+ ++ R L +
Sbjct: 370 QNKGNKKKAARLLGI 384
>gnl|CDD|73174 COG0470, HolB, ATPase involved in DNA replication [DNA replication,
recombination, and repair].
Length = 325
Score = 36.9 bits (84), Expect = 0.008
Identities = 29/99 (29%), Positives = 42/99 (42%), Gaps = 7/99 (7%)
Query: 28 EEFTGQVEACSNLKVFIEAAKARAEALDHVLFVGPPGLGKTTLAQVVARELGVNFRSTSG 87
+E EA L V + AL LF GPPG+GKTT A +A+EL +
Sbjct: 1 DELVPWQEAVKRLLVQALESGRLPHAL---LFYGPPGVGKTTAALALAKELLCENPTGLL 57
Query: 88 PVIAKAGDLAALLTNLEDRDVLFIDEI--HRLSIIVEEI 124
P L+ D L ++ ++ IIVE++
Sbjct: 58 PCGHCRSCK--LIPAGNHPDFLELNPSDLRKIDIIVEQV 94
>gnl|CDD|30909 COG0563, Adk, Adenylate kinase and related kinases [Nucleotide
transport and metabolism].
Length = 178
Score = 36.0 bits (83), Expect = 0.013
Identities = 22/62 (35%), Positives = 34/62 (54%), Gaps = 3/62 (4%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNFRSTSG---PVIAKAGDLAALLTNLEDRDVLFIDE 113
+L +GPPG GK+TLA+ +A++LG+ T IA+ +L + D+ L DE
Sbjct: 3 ILILGPPGAGKSTLAKKLAKKLGLPHLDTGDILRAAIAERTELGEEIKKYIDKGELVPDE 62
Query: 114 IH 115
I
Sbjct: 63 IV 64
>gnl|CDD|35871 KOG0652, KOG0652, KOG0652, 26S proteasome regulatory complex,
ATPase RPT5 [Posttranslational modification, protein
turnover, chaperones].
Length = 424
Score = 36.1 bits (83), Expect = 0.014
Identities = 23/66 (34%), Positives = 33/66 (50%), Gaps = 8/66 (12%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAKA--GDLAAL------LTNLEDRDV 108
VL GPPG GKT +A+ A + F +GP + + GD A L L + +
Sbjct: 208 VLMYGPPGTGKTLMARACAAQTNATFLKLAGPQLVQMFIGDGAKLVRDAFALAKEKAPTI 267
Query: 109 LFIDEI 114
+FIDE+
Sbjct: 268 IFIDEL 273
>gnl|CDD|147155 pfam04851, ResIII, Type III restriction enzyme, res subunit.
Length = 103
Score = 35.3 bits (82), Expect = 0.022
Identities = 21/86 (24%), Positives = 27/86 (31%), Gaps = 16/86 (18%)
Query: 33 QVEACSNLKVFIEAAKARAEALDHVLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAK 92
Q+EA NL L V G GKT A + L + +
Sbjct: 8 QIEAIRNLLEK-----------KRGLIVMATGSGKTLTAAKLIARLLKGKKKVL--FLV- 53
Query: 93 AGDLAALLTNLEDRDVLFIDEIHRLS 118
LL + V+ IDE H S
Sbjct: 54 --PRKDLLEQALEEFVIIIDEAHHSS 77
>gnl|CDD|35959 KOG0740, KOG0740, KOG0740, AAA+-type ATPase [Posttranslational
modification, protein turnover, chaperones].
Length = 428
Score = 35.4 bits (81), Expect = 0.023
Identities = 28/76 (36%), Positives = 36/76 (47%), Gaps = 9/76 (11%)
Query: 50 RAEALDHVLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAK--AGDLAALLTNLED-- 105
R +LF GPPG GKT LA+ +A E G F + S + G+ L+ L
Sbjct: 183 REPVRGLLLF-GPPGTGKTMLAKAIATESGATFFNISASSLTSKYVGESEKLVRALFKVA 241
Query: 106 RD----VLFIDEIHRL 117
R V+FIDEI L
Sbjct: 242 RSLQPSVIFIDEIDSL 257
>gnl|CDD|144608 pfam01078, Mg_chelatase, Magnesium chelatase, subunit ChlI.
Magnesium-chelatase is a three-component enzyme that
catalyses the insertion of Mg2+ into protoporphyrin IX.
This is the first unique step in the synthesis of
(bacterio)chlorophyll. Due to this, it is thought that
Mg-chelatase has an important role in channelling
inter- mediates into the (bacterio)chlorophyll branch
in response to conditions suitable for photosynthetic
growth. ChlI and BchD have molecular weight between
38-42 kDa.
Length = 207
Score = 35.2 bits (82), Expect = 0.024
Identities = 10/17 (58%), Positives = 14/17 (82%)
Query: 56 HVLFVGPPGLGKTTLAQ 72
++L +GPPG GKT LA+
Sbjct: 24 NLLMIGPPGSGKTMLAK 40
>gnl|CDD|33078 COG3267, ExeA, Type II secretory pathway, component ExeA (predicted
ATPase) [Intracellular trafficking and secretion].
Length = 269
Score = 34.5 bits (79), Expect = 0.040
Identities = 46/197 (23%), Positives = 77/197 (39%), Gaps = 13/197 (6%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAKAGD-LAALLTNLEDRDVLFIDEIH 115
V+ + P L TL + + +L + V+ + LAAL+ + VL +DE H
Sbjct: 82 VVVIDKPTLSDATLLEAIVADLESQPKVNVNAVLEQIDRELAALVKKGKRPVVLMVDEAH 141
Query: 116 RLSIIVEEILYPAMEDFQLDLMVGEGPSARSVKINLSRFTLIAATTRVGLLTNPLQDRFG 175
L+ A+E +L L E S++ + I L + R+ +L L+ R
Sbjct: 142 DLN-------DSALEALRL-LTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRE-LEQRID 192
Query: 176 IPIRLNFYEIEDLKTIVQRGAKLTGLA---VTDEAACEIAMRSRGTPRIAGRLLRRVRDF 232
I I L + ++ + GL +D+A I S+G PR+ L D
Sbjct: 193 IRIELPPLTEAETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLATLALDA 252
Query: 233 AEVAHAKTITREIADAA 249
A A ++ A
Sbjct: 253 AYSAGEDGVSEAEIKNA 269
>gnl|CDD|144489 pfam00910, RNA_helicase, RNA helicase. This family includes RNA
helicases thought to be involved in duplex unwinding
during viral RNA replication. Members of this family
are found in a variety of single stranded RNA viruses.
Length = 105
Score = 34.1 bits (79), Expect = 0.052
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 57 VLFVGPPGLGKTTLAQVVARELG 79
+ GPPG GK+TLA+ +AR L
Sbjct: 1 IWLYGPPGCGKSTLAKYLARALL 23
>gnl|CDD|35961 KOG0742, KOG0742, KOG0742, AAA+-type ATPase [Posttranslational
modification, protein turnover, chaperones].
Length = 630
Score = 33.9 bits (77), Expect = 0.062
Identities = 16/39 (41%), Positives = 25/39 (64%)
Query: 56 HVLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAKAG 94
++LF GPPG GKT A+ +AR G+++ +G +A G
Sbjct: 386 NILFYGPPGTGKTMFARELARHSGLDYAIMTGGDVAPLG 424
>gnl|CDD|37891 KOG2680, KOG2680, KOG2680, DNA helicase TIP49, TBP-interacting
protein [Transcription].
Length = 454
Score = 33.8 bits (77), Expect = 0.063
Identities = 25/72 (34%), Positives = 35/72 (48%), Gaps = 3/72 (4%)
Query: 22 LRPRTLEE-FTGQVEACSNLKVFIEAAKARAEALDHVLFVGPPGLGKTTLAQVVARELG- 79
L PR + E GQV+A V ++ + A +L G PG GKT +A +++ LG
Sbjct: 33 LEPRYVSEGMVGQVKARKAAGVILKMIREGKIAGRAILIAGQPGTGKTAIAMGMSKSLGD 92
Query: 80 -VNFRSTSGPVI 90
F S SG I
Sbjct: 93 DTPFTSISGSEI 104
>gnl|CDD|31047 COG0703, AroK, Shikimate kinase [Amino acid transport and
metabolism].
Length = 172
Score = 33.6 bits (77), Expect = 0.082
Identities = 10/39 (25%), Positives = 22/39 (56%)
Query: 56 HVLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAKAG 94
+++ +G G GK+T+ + +A+ L + F T + + G
Sbjct: 4 NIVLIGFMGAGKSTIGRALAKALNLPFIDTDQEIEKRTG 42
>gnl|CDD|35701 KOG0480, KOG0480, KOG0480, DNA replication licensing factor, MCM6
component [Replication, recombination and repair].
Length = 764
Score = 33.4 bits (76), Expect = 0.084
Identities = 32/126 (25%), Positives = 54/126 (42%), Gaps = 26/126 (20%)
Query: 56 HVLFVGPPGLGKTTLAQVVARELGVNFRS--TSGPVIAKAGDLAALLTN----------- 102
+V VG PG GK+ + V + RS TSG + AG AA++ +
Sbjct: 380 NVCIVGDPGTGKSQFLKAVC---AFSPRSVYTSGKASSAAGLTAAVVKDEESGDFTIEAG 436
Query: 103 ---LEDRDVLFIDEIHRLSIIVEEILYPAMEDFQLDLMVGEGPSARSVKINLS-RFTLIA 158
L D + IDE ++ + + ++ AME + + + V L+ R +++A
Sbjct: 437 ALMLADNGICCIDEFDKMDVKDQVAIHEAMEQQTISI------AKAGVVATLNARTSILA 490
Query: 159 ATTRVG 164
A VG
Sbjct: 491 AANPVG 496
>gnl|CDD|30189 cd01428, ADK, Adenylate kinase (ADK) catalyzes the reversible
phosphoryl transfer from adenosine triphosphates (ATP)
to adenosine monophosphates (AMP) and to yield
adenosine diphosphates (ADP). This enzyme is required
for the biosynthesis of ADP and is essential for
homeostasis of adenosine phosphates..
Length = 194
Score = 33.7 bits (77), Expect = 0.084
Identities = 13/31 (41%), Positives = 20/31 (64%)
Query: 56 HVLFVGPPGLGKTTLAQVVARELGVNFRSTS 86
+L +GPPG GK T A+ +A++ G+ ST
Sbjct: 1 RILLLGPPGSGKGTQAERLAKKYGLPHISTG 31
>gnl|CDD|144046 pfam00308, Bac_DnaA, Bacterial dnaA protein.
Length = 219
Score = 33.0 bits (76), Expect = 0.11
Identities = 32/109 (29%), Positives = 43/109 (39%), Gaps = 20/109 (18%)
Query: 26 TLEEFTGQVEACSNLKVFIEAAKARAEALDHV---LFV-GPPGLGKTTLAQVVARELGVN 81
T E F V SN + AA A AEA LF+ G GLGKT L + N
Sbjct: 6 TFENF---VIGSSN-RFAHAAALAVAEAPGKAYNPLFIYGGVGLGKTHLLHAIGNYALRN 61
Query: 82 FRS------TSGPVIAKA------GDLAALLTNLEDRDVLFIDEIHRLS 118
F + TS + + A + + D+L ID+I L+
Sbjct: 62 FPNLRVVYLTSEEFLNDFVDALRDNKIEAFKKSYRNVDLLLIDDIQFLA 110
>gnl|CDD|73296 cd02020, CMPK, Cytidine monophosphate kinase (CMPK) catalyzes the
reversible phosphorylation of cytidine monophosphate
(CMP) to produce cytidine diphosphate (CDP), using ATP
as the preferred phosphoryl donor..
Length = 147
Score = 32.8 bits (75), Expect = 0.13
Identities = 12/27 (44%), Positives = 21/27 (77%)
Query: 61 GPPGLGKTTLAQVVARELGVNFRSTSG 87
GP G GK+T+A+++A++LG+ + T G
Sbjct: 6 GPAGSGKSTVAKLLAKKLGLPYLDTGG 32
>gnl|CDD|35945 KOG0726, KOG0726, KOG0726, 26S proteasome regulatory complex,
ATPase RPT2 [Posttranslational modification, protein
turnover, chaperones].
Length = 440
Score = 33.0 bits (75), Expect = 0.13
Identities = 24/66 (36%), Positives = 31/66 (46%), Gaps = 8/66 (12%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNF-RSTSGPVIAK-AGDLAALLTNL------EDRDV 108
V+ G PG GKT LA+ VA + F R +I K GD L+ L +
Sbjct: 222 VILYGEPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGPKLVRELFRVAEEHAPSI 281
Query: 109 LFIDEI 114
+FIDEI
Sbjct: 282 VFIDEI 287
>gnl|CDD|30188 cd00464, SK, Shikimate kinase (SK) is the fifth enzyme in the
shikimate pathway, a seven-step biosynthetic pathway
which converts erythrose-4-phosphate to chorismic acid,
found in bacteria, fungi and plants. Chorismic acid is
a important intermediate in the synthesis of aromatic
compounds, such as aromatic amino acids, p-aminobenzoic
acid, folate and ubiquinone. Shikimate kinase catalyses
the phosphorylation of the 3-hydroxyl group of shikimic
acid using ATP..
Length = 154
Score = 32.5 bits (74), Expect = 0.18
Identities = 10/26 (38%), Positives = 19/26 (73%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNF 82
++ +G G GKTT+ +++A+ LG+ F
Sbjct: 2 IVLIGMMGAGKTTVGRLLAKALGLPF 27
>gnl|CDD|30888 COG0542, ClpA, ATPases with chaperone activity, ATP-binding subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 786
Score = 31.8 bits (72), Expect = 0.29
Identities = 31/128 (24%), Positives = 49/128 (38%), Gaps = 29/128 (22%)
Query: 58 LFVGPPGLGKTTLAQVVARELG--------------VNFRSTSGPVIAKAG----DLAAL 99
LF+GP G+GKT LA+ +A L + S S + A G +
Sbjct: 525 LFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYMEKHSVSRLIGAPPGYVGYEEGGQ 584
Query: 100 LTNLEDRD---VLFIDEIHRLSIIVEEILYPAMEDFQLDLMVGEGPSARSVKINLSRFTL 156
LT R V+ +DEI + V +L ++D G + ++ T+
Sbjct: 585 LTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDD-------GRLTDGQGRTVDFRN-TI 636
Query: 157 IAATTRVG 164
I T+ G
Sbjct: 637 IIMTSNAG 644
Score = 31.8 bits (72), Expect = 0.30
Identities = 23/80 (28%), Positives = 38/80 (47%), Gaps = 20/80 (25%)
Query: 58 LFVGPPGLGKTTLAQVVARELGVN-----------FRSTSGPVIAKA---GD----LAAL 99
+ VG PG+GKT + + +A+ + + G ++A A G+ L A+
Sbjct: 195 VLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSLVAGAKYRGEFEERLKAV 254
Query: 100 LTNLEDRD--VLFIDEIHRL 117
L +E +LFIDEIH +
Sbjct: 255 LKEVEKSKNVILFIDEIHTI 274
>gnl|CDD|35699 KOG0478, KOG0478, KOG0478, DNA replication licensing factor, MCM4
component [Replication, recombination and repair].
Length = 804
Score = 31.5 bits (71), Expect = 0.30
Identities = 23/88 (26%), Positives = 36/88 (40%), Gaps = 13/88 (14%)
Query: 56 HVLFVGPPGLGKTTLAQVVARELG----VNFRSTSG----PVIAKAGD-----LAALLTN 102
++L VG PG K+ L Q R L + + +S + K D L +
Sbjct: 464 NILLVGDPGTSKSQLLQYCHRLLPRGVYTSGKGSSAVGLTAYVTKDPDTRQLVLESGALV 523
Query: 103 LEDRDVLFIDEIHRLSIIVEEILYPAME 130
L D + IDE ++S +L+ ME
Sbjct: 524 LSDNGICCIDEFDKMSDSTRSVLHEVME 551
>gnl|CDD|37179 KOG1968, KOG1968, KOG1968, Replication factor C, subunit RFC1
(large subunit) [Replication, recombination and repair].
Length = 871
Score = 31.6 bits (71), Expect = 0.30
Identities = 14/25 (56%), Positives = 17/25 (68%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVN 81
+L GPPG+GKTT A A+ELG
Sbjct: 360 LLLSGPPGIGKTTAAHKAAKELGFK 384
>gnl|CDD|146080 pfam03266, DUF265, Protein of unknown function, DUF265.
Length = 168
Score = 31.4 bits (72), Expect = 0.33
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 56 HVLFVGPPGLGKTTLAQVVAREL 78
+ GPPG+GKTTL + V L
Sbjct: 1 RIFITGPPGVGKTTLVKKVIELL 23
>gnl|CDD|35963 KOG0744, KOG0744, KOG0744, AAA+-type ATPase [Posttranslational
modification, protein turnover, chaperones].
Length = 423
Score = 31.1 bits (70), Expect = 0.39
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNFRST 85
+L GPPG GKT+L + +A++L +
Sbjct: 180 ILLHGPPGTGKTSLCKALAQKLSIRTNDR 208
>gnl|CDD|35946 KOG0727, KOG0727, KOG0727, 26S proteasome regulatory complex,
ATPase RPT3 [Posttranslational modification, protein
turnover, chaperones].
Length = 408
Score = 31.1 bits (70), Expect = 0.42
Identities = 15/31 (48%), Positives = 16/31 (51%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNFRSTSG 87
VL GPPG GKT LA+ VA F G
Sbjct: 192 VLLYGPPGTGKTMLAKAVANHTTAAFIRVVG 222
>gnl|CDD|146036 pfam03205, MobB, Molybdopterin guanine dinucleotide synthesis
protein B. This protein contains a P-loop.
Length = 122
Score = 31.2 bits (71), Expect = 0.44
Identities = 20/81 (24%), Positives = 31/81 (38%), Gaps = 14/81 (17%)
Query: 57 VLFVGPPGLGKTTLAQVVAREL------GVNFRST--SGPVIAKAGDLAALLTNLEDRDV 108
VL VGP GKTTL + + L + I K G +AAL +
Sbjct: 3 VLVVGPKDSGKTTLIRKLLNYLKRRGYRVAVVKHLDHGQGEIDKPGKIAALSI---EEPA 59
Query: 109 LFIDEIHR---LSIIVEEILY 126
I+ R L ++ +++
Sbjct: 60 DVIEGFPREMPLEELISDLVL 80
>gnl|CDD|32040 COG1855, COG1855, ATPase (PilT family) [General function prediction
only].
Length = 604
Score = 31.0 bits (70), Expect = 0.48
Identities = 14/33 (42%), Positives = 18/33 (54%), Gaps = 3/33 (9%)
Query: 44 IEAAKARAEALDHVLFVGPPGLGKTTLAQVVAR 76
E + RAE +L G PG GK+T AQ +A
Sbjct: 256 KERLEERAEG---ILIAGAPGAGKSTFAQALAE 285
>gnl|CDD|31432 COG1239, ChlI, Mg-chelatase subunit ChlI [Coenzyme metabolism].
Length = 423
Score = 30.7 bits (69), Expect = 0.53
Identities = 25/96 (26%), Positives = 45/96 (46%), Gaps = 7/96 (7%)
Query: 105 DRDVLFIDEIHRLSIIVEEILYPAMEDFQLDLMVGEGPSARSVKINLSRFTLIAATT-RV 163
+R +L++DE++ L + + L + D+ EG S R +RF LI
Sbjct: 144 NRGILYVDEVNLLDDHLVDALLDVAAEGVNDVER-EGISIRHP----ARFLLIGTMNPEE 198
Query: 164 GLLTNPLQDRFGIPIRLNF-YEIEDLKTIVQRGAKL 198
G L L DRFG+ + ++ ++E+ I++R
Sbjct: 199 GELRPQLLDRFGLEVDTHYPLDLEERVEIIRRRLAF 234
>gnl|CDD|33845 COG4088, COG4088, Predicted nucleotide kinase [Nucleotide
transport and metabolism].
Length = 261
Score = 30.7 bits (69), Expect = 0.57
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 57 VLFVGPPGLGKTTLAQVVAREL 78
++ G PG GKTT A+ +A+EL
Sbjct: 4 IILTGYPGSGKTTFAKELAKEL 25
>gnl|CDD|35960 KOG0741, KOG0741, KOG0741, AAA+-type ATPase [Posttranslational
modification, protein turnover, chaperones].
Length = 744
Score = 30.7 bits (69), Expect = 0.57
Identities = 21/72 (29%), Positives = 31/72 (43%), Gaps = 13/72 (18%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNF------RSTSGPVIAKAGDLAALLTNLEDR---- 106
VL GPPG GKT LA +A F G ++++ A + ED
Sbjct: 541 VLLEGPPGSGKTALAAKIALSSDFPFVKIISPEDMIG--LSESAKCAHIKKIFEDAYKSP 598
Query: 107 -DVLFIDEIHRL 117
++ +D+I RL
Sbjct: 599 LSIIVVDDIERL 610
>gnl|CDD|144508 pfam00931, NB-ARC, NB-ARC domain.
Length = 285
Score = 30.8 bits (70), Expect = 0.61
Identities = 51/238 (21%), Positives = 83/238 (34%), Gaps = 39/238 (16%)
Query: 57 VLFVGPPGLGKTTLAQVVAR--ELGVNFRSTSGPVIAKAGD----LAALLTNL--EDRDV 108
V VG G+GKTTLA+ + +G +F S + V++K +L L +D D
Sbjct: 22 VGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVVVSKTYTEFRLQKDILQELGLDDSDW 81
Query: 109 LFIDE------IHRL-----SIIVEEILYPAMEDFQLDLMVGEGPSARSVKINLSRFTLI 157
+ +E I ++V L E D + P N SR +
Sbjct: 82 VEKNESELAVKIKEALLRKRFLLV---LDDVWEKNDWDKIGVPFPD----GENGSR---V 131
Query: 158 AATTR-VGLLTNPLQDRFGIPIRLNFYEIEDLKTIVQRGA---KLTGLAVTDEAACEIAM 213
TTR + P + E E+ + +L +E A EI
Sbjct: 132 IVTTRSESVAGRMGGTSK--PHEVESLEPEESWELFSNKVFEKELPPCPELEEVAKEIVE 189
Query: 214 RSRGTP---RIAGRLLRRVRDFAEVAHA-KTITREIADAALLRLAIDKMGFDQLDLRY 267
+ +G P ++ G LL E H + + E+A L + + +L
Sbjct: 190 KCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNNELAGRDGLNEVLSILSLSYDNLPM 247
>gnl|CDD|133282 cd01882, BMS1, Bms1. Bms1 is an essential, evolutionarily
conserved, nucleolar protein. Its depletion interferes
with processing of the 35S pre-rRNA at sites A0, A1,
and A2, and the formation of 40S subunits. Bms1, the
putative endonuclease Rc11, and the essential U3 small
nucleolar RNA form a stable subcomplex that is believed
to control an early step in the formation of the 40S
subumit. The C-terminal domain of Bms1 contains a
GTPase-activating protein (GAP) that functions
intramolecularly. It is believed that Rc11 activates
Bms1 by acting as a guanine-nucleotide exchange factor
(GEF) to promote GDP/GTP exchange, and that activated
(GTP-bound) Bms1 delivers Rc11 to the preribosomes.
Length = 225
Score = 30.7 bits (70), Expect = 0.65
Identities = 15/34 (44%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 57 VLFVGPPGLGKTTLAQ-VVARELGVNFRSTSGPV 89
V VGPPG+GKTTL + +V N GP+
Sbjct: 42 VAVVGPPGVGKTTLIKSLVKNYTKQNISDIKGPI 75
>gnl|CDD|35194 COG5635, COG5635, Predicted NTPase (NACHT family) [Signal
transduction mechanisms].
Length = 824
Score = 30.4 bits (68), Expect = 0.68
Identities = 35/190 (18%), Positives = 59/190 (31%), Gaps = 25/190 (13%)
Query: 9 SRNVSQEDADISLLRPRTLEEFTGQVEACSNLKVFIEAAKARAEALDHVLFVGPPGLGKT 68
S+ + + R EEF ++ ++ + + +A E +L +G PG GKT
Sbjct: 178 SQRSKRIFDLNTKGEKRFDEEFLLELTQSADDQDALPGLEAL-EKYAKLLILGAPGSGKT 236
Query: 69 TLAQVVARELGVNFRSTSGPVIAKAGDLAALLTNLEDRDVLFIDEIHRLSIIVEEILYPA 128
T Q +A L LE DV L+ +
Sbjct: 237 TFLQRLA--------------------LWLAQRTLEPEDV---PIFLLLNAFALARKF-E 272
Query: 129 MEDFQLDLMVGEGPSARSVKINLSRFTLIAATTRVGLLTNPLQDRFGIPIRLNFYEIEDL 188
+ +D + E S K + + T ++ LL + L + R EI
Sbjct: 273 KQLSLIDYLAEELFSQGIAKQLIEAHQELLKTGKLLLLLDGLDELEPKNQRALIREINKF 332
Query: 189 KTIVQRGAKL 198
L
Sbjct: 333 LQEYPDAQVL 342
>gnl|CDD|31564 COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 398
Score = 30.4 bits (68), Expect = 0.69
Identities = 18/67 (26%), Positives = 31/67 (46%), Gaps = 6/67 (8%)
Query: 57 VLFVGPPGLGKTTLAQVVARELG-----VNFRSTSGPVIAKAGDLAAL-LTNLEDRDVLF 110
+L +GP +GKTTL +++ + L +NF I L A ++ +F
Sbjct: 40 ILILGPRQVGKTTLLKLLIKGLLEEIIYINFDDLRLDRIELLDLLRAYIELKEREKSYIF 99
Query: 111 IDEIHRL 117
+DEI +
Sbjct: 100 LDEIQNV 106
>gnl|CDD|31434 COG1241, MCM2, Predicted ATPase involved in replication control,
Cdc46/Mcm family [DNA replication, recombination, and
repair].
Length = 682
Score = 30.3 bits (68), Expect = 0.73
Identities = 26/89 (29%), Positives = 39/89 (43%), Gaps = 15/89 (16%)
Query: 56 HVLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAKAGDLAALLTN------------- 102
H+L VG PG K+ L + VA+ TSG + AG AA++ +
Sbjct: 321 HILLVGDPGTAKSQLLKYVAKLAPRGVY-TSGKGSSAAGLTAAVVRDKVTGEWVLEAGAL 379
Query: 103 -LEDRDVLFIDEIHRLSIIVEEILYPAME 130
L D V IDE +++ ++ AME
Sbjct: 380 VLADGGVCCIDEFDKMNEEDRVAIHEAME 408
>gnl|CDD|32257 COG2074, COG2074, 2-phosphoglycerate kinase [Carbohydrate transport
and metabolism].
Length = 299
Score = 30.2 bits (68), Expect = 0.77
Identities = 11/24 (45%), Positives = 17/24 (70%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGV 80
+L G G+GK+T+A +AR LG+
Sbjct: 92 ILIGGASGVGKSTIAGELARRLGI 115
>gnl|CDD|31299 COG1102, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 179
Score = 30.2 bits (68), Expect = 0.84
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 61 GPPGLGKTTLAQVVARELGVNFRST 85
G PG GKTT+A+ +A LG+ S
Sbjct: 7 GLPGSGKTTVARELAEHLGLKLVSA 31
>gnl|CDD|147726 pfam05729, NACHT, NACHT domain. This NTPase domain is found in
apoptosis proteins as well as those involved in MHC
transcription activation. This family is closely
related to pfam00931.
Length = 165
Score = 30.0 bits (68), Expect = 0.86
Identities = 10/23 (43%), Positives = 12/23 (52%)
Query: 57 VLFVGPPGLGKTTLAQVVARELG 79
V+ G G GKTTL Q +A
Sbjct: 3 VILQGEAGSGKTTLLQKLALLWA 25
>gnl|CDD|73016 cd03257, ABC_NikE_OppD_transporters, The ABC transporter
subfamily specific for the transport of dipeptides,
oligopeptides (OppD), and nickel (NikDE). The NikABCDE
system of E. coli belongs to this family and is
composed of the periplasmic binding protein NikA, two
integral membrane components (NikB and NikC), and two
ATPase (NikD and NikE). The NikABCDE transporter is
synthesized under anaerobic conditions to meet the
increased demand for nickel resulting from hydrogenase
synthesis. The molecular mechanism of nickel uptake in
many bacteria and most archaea is not known. Many
other members of this ABC family are also involved in
the uptake of dipeptides and oligopeptides. The
oligopeptide transport system (Opp) is a five-component
ABC transport composed of a membrane-anchored substrate
binding proteins (SRP), OppA, two transmembrane
proteins, OppB and OppC, and two ATP-binding domains,
OppD and OppF..
Length = 228
Score = 30.1 bits (68), Expect = 0.87
Identities = 24/72 (33%), Positives = 30/72 (41%), Gaps = 14/72 (19%)
Query: 38 SNLKVFIEAAKARAEALDHVLF----------VGPPGLGKTTLAQVVARELGVNFRSTSG 87
NL V +ALD V F VG G GK+TLA+ + L + TSG
Sbjct: 5 KNLSVSFPTGGGSVKALDDVSFSIKKGETLGLVGESGSGKSTLARAILGLL----KPTSG 60
Query: 88 PVIAKAGDLAAL 99
+I DL L
Sbjct: 61 SIIFDGKDLLKL 72
>gnl|CDD|31320 COG1123, COG1123, ATPase components of various ABC-type transport
systems, contain duplicated ATPase [General function
prediction only].
Length = 539
Score = 30.2 bits (68), Expect = 0.88
Identities = 25/72 (34%), Positives = 28/72 (38%), Gaps = 10/72 (13%)
Query: 38 SNLKVFIEAAKARAEALDHVLF----------VGPPGLGKTTLAQVVARELGVNFRSTSG 87
NL V R A+ V F VG G GK+TLA + L R TSG
Sbjct: 9 ENLTVEFATDGGRVPAVRDVSFEVEPGEILGIVGESGSGKSTLALALMGLLPEGGRITSG 68
Query: 88 PVIAKAGDLAAL 99
VI DL L
Sbjct: 69 EVILDGRDLLGL 80
>gnl|CDD|34868 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 30.1 bits (67), Expect = 0.92
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 55 DHVLFVGPPGLGKTTLAQVVARELG 79
+ L VG G GKTT+ Q +A +L
Sbjct: 465 EPTLLVGETGTGKTTMIQYLALKLH 489
Score = 29.7 bits (66), Expect = 1.2
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 57 VLFVGPPGLGKTTLAQVVARELG 79
+L G PG+GKT+L +AR+ G
Sbjct: 1546 ILLEGSPGVGKTSLITALARKTG 1568
>gnl|CDD|38557 KOG3347, KOG3347, KOG3347, Predicted nucleotide kinase/nuclear
protein involved oxidative stress response [Nucleotide
transport and metabolism].
Length = 176
Score = 29.8 bits (67), Expect = 0.94
Identities = 11/26 (42%), Positives = 18/26 (69%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNF 82
+L G PG GK+TLA+ +A + G+ +
Sbjct: 10 ILVTGTPGTGKSTLAERLAEKTGLEY 35
>gnl|CDD|31266 COG1067, LonB, Predicted ATP-dependent protease [Posttranslational
modification, protein turnover, chaperones].
Length = 647
Score = 29.9 bits (67), Expect = 1.1
Identities = 55/207 (26%), Positives = 75/207 (36%), Gaps = 41/207 (19%)
Query: 108 VLFIDEIHRLSIIVEEILYPAMED-FQLDLMVGEGPSARSVKIN--LSRFTLIAATTR-- 162
VL IDEI L+ ++ L A+ D Q E S V+ LI A R
Sbjct: 228 VLIIDEIGLLAQPLQWKLLKALLDKEQPIWGSSEPSSGAPVRPESVPLDLKLILAGNRED 287
Query: 163 VGLLTNPLQDRFGIPIRLNFYEIE--------------DLKTIVQRGAKLTGL-AVTDEA 207
+ L P + R I YE E ++ VQ A+ + + +A
Sbjct: 288 LEDLHEPDRSR----IEGFGYEAEFEDTMPITDANRSKLVQFYVQELARDGNIPHLDKDA 343
Query: 208 ACEI---AMRSRG-------TPRIAGRLLRRVRDFAEVAHAKTITREIADAALLRLAIDK 257
E+ A R G R G L+R D A K IT E + A L +
Sbjct: 344 VEELIREAARRAGDQNKLTLRLRDLGNLVREAGDIAVSEGRKLITAEDVEEA---LQKRE 400
Query: 258 MGFDQLDLRYLTMIARNFGGGPVGIET 284
+ QL RY+ I GG + IET
Sbjct: 401 LREGQLAERYIEDIK----GGQILIET 423
>gnl|CDD|35948 KOG0729, KOG0729, KOG0729, 26S proteasome regulatory complex,
ATPase RPT1 [Posttranslational modification, protein
turnover, chaperones].
Length = 435
Score = 29.9 bits (67), Expect = 1.1
Identities = 13/26 (50%), Positives = 14/26 (53%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNF 82
VL GPPG GKT A+ VA F
Sbjct: 214 VLLYGPPGTGKTLCARAVANRTDACF 239
>gnl|CDD|35947 KOG0728, KOG0728, KOG0728, 26S proteasome regulatory complex,
ATPase RPT6 [Posttranslational modification, protein
turnover, chaperones].
Length = 404
Score = 29.6 bits (66), Expect = 1.2
Identities = 16/31 (51%), Positives = 17/31 (54%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNFRSTSG 87
VL GPPG GKT LA+ VA F SG
Sbjct: 184 VLLYGPPGTGKTLLARAVAHHTDCTFIRVSG 214
>gnl|CDD|38801 KOG3595, KOG3595, KOG3595, Dyneins, heavy chain [Cytoskeleton].
Length = 1395
Score = 29.5 bits (66), Expect = 1.4
Identities = 31/127 (24%), Positives = 44/127 (34%), Gaps = 27/127 (21%)
Query: 24 PRTLEEFTGQVEACSNLKVFIEAAKARAEALDHVLFVGPPGLGKTTLAQVVAREL----- 78
L V LK+ + K VL VGP G GKT L R L
Sbjct: 104 EDILVPTIDTVRYDRLLKLLLAHGKP-------VLLVGPTGTGKTVLVLSELRSLQDREV 156
Query: 79 -GVNFRS-TSGPVIAKAGDLAA-------LLTNLEDRDVLFIDEIH------RLSIIVEE 123
+NF S TS ++ + + L + VLF+D+I+ E
Sbjct: 157 YLLNFSSVTSSELLQEIIESKLDKRRSGNYGPPLGKKLVLFVDDINMPALDKYGDQPPIE 216
Query: 124 ILYPAME 130
+L +E
Sbjct: 217 LLRQMLE 223
>gnl|CDD|37014 KOG1803, KOG1803, KOG1803, DNA helicase [Replication, recombination
and repair].
Length = 649
Score = 29.6 bits (66), Expect = 1.4
Identities = 22/89 (24%), Positives = 41/89 (46%), Gaps = 9/89 (10%)
Query: 61 GPPGLGKT-TLAQVVARELGVNFRSTSGPVIAKAGDLAALLTNLEDRDVLFIDEIHRLSI 119
GPPG GKT TL +++++ + R V+ A A + N+ +R + R+
Sbjct: 208 GPPGTGKTRTLVEIISQLVKQKKR-----VLVCAPSNVA-VDNIVERLTHLKLNLVRVGH 261
Query: 120 IVEEILYPAMEDFQLDLMVGEGPSARSVK 148
L ++ D LDL+ ++++ K
Sbjct: 262 PAR--LLESVADHSLDLLSNTKDNSQNAK 288
>gnl|CDD|34592 COG4987, CydC, ABC-type transport system involved in cytochrome bd
biosynthesis, fused ATPase and permease components
[Energy production and conversion / Posttranslational
modification, protein turnover, chaperones].
Length = 573
Score = 29.4 bits (66), Expect = 1.4
Identities = 12/45 (26%), Positives = 22/45 (48%), Gaps = 4/45 (8%)
Query: 55 DHVLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAKAGDLAAL 99
+ V +G G GK+TL Q++A + G + ++A+L
Sbjct: 365 EKVAILGRSGSGKSTLLQLLAG----AWDPQQGSITLNGVEIASL 405
>gnl|CDD|110677 pfam01695, IstB, IstB-like ATP binding protein. This protein
contains an ATP/GTP binding P-loop motif. It is found
associated with IS21 family insertion sequences. The
function of this protein is unknown, but it may perform
a transposase function.
Length = 178
Score = 29.5 bits (67), Expect = 1.5
Identities = 25/68 (36%), Positives = 32/68 (47%), Gaps = 10/68 (14%)
Query: 57 VLFVGPPGLGKTTLA-----QVVARELGVNFRSTSGPV----IAKA-GDLAALLTNLEDR 106
+L +GPPG+GKT LA Q V F T V A+ G LA L L
Sbjct: 50 LLLLGPPGVGKTHLACALGHQACRAGYSVLFTRTPDLVEQLKRARGDGRLARTLQRLAKA 109
Query: 107 DVLFIDEI 114
D+L +D+I
Sbjct: 110 DLLILDDI 117
>gnl|CDD|31145 COG0802, COG0802, Predicted ATPase or kinase [General function
prediction only].
Length = 149
Score = 29.5 bits (66), Expect = 1.5
Identities = 19/46 (41%), Positives = 25/46 (54%), Gaps = 3/46 (6%)
Query: 44 IEAAKARAEAL---DHVLFVGPPGLGKTTLAQVVARELGVNFRSTS 86
+ + AEAL D VL G G GKTTL + +A+ LGV+ S
Sbjct: 12 LALGERLAEALKAGDVVLLSGDLGAGKTTLVRGIAKGLGVDGNVKS 57
>gnl|CDD|72971 cd00267, ABC_ATPase, ABC (ATP-binding cassette) transporter
nucleotide-binding domain; ABC transporters are a large
family of proteins involved in the transport of a wide
variety of different compounds, like sugars, ions,
peptides, and more complex organic molecules. The
nucleotide-binding domain shows the highest similarity
between all members of the family. ABC transporters are
a subset of nucleotide hydrolases that contain a
signature motif, Q-loop, and H-loop/switch region, in
addition to, the Walker A motif/P-loop and Walker B
motif commonly found in a number of ATP- and GTP-binding
and hydrolyzing proteins..
Length = 157
Score = 29.1 bits (65), Expect = 1.5
Identities = 18/60 (30%), Positives = 31/60 (51%), Gaps = 4/60 (6%)
Query: 55 DHVLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAKAGDLAALLTNLEDRDVLFIDEI 114
+ V VGP G GK+TL + +A L + TSG ++ D+A L R + ++ ++
Sbjct: 26 EIVALVGPNGSGKSTLLRAIAGLL----KPTSGEILIDGKDIAKLPLEELRRRIGYVPQL 81
>gnl|CDD|30875 COG0529, CysC, Adenylylsulfate kinase and related kinases
[Inorganic ion transport and metabolism].
Length = 197
Score = 29.1 bits (65), Expect = 2.0
Identities = 8/22 (36%), Positives = 13/22 (59%)
Query: 57 VLFVGPPGLGKTTLAQVVAREL 78
+ F G G GK+T+A + +L
Sbjct: 26 IWFTGLSGSGKSTIANALEEKL 47
>gnl|CDD|36269 KOG1051, KOG1051, KOG1051, Chaperone HSP104 and related
ATP-dependent Clp proteases [Posttranslational
modification, protein turnover, chaperones].
Length = 898
Score = 28.8 bits (64), Expect = 2.1
Identities = 35/167 (20%), Positives = 59/167 (35%), Gaps = 21/167 (12%)
Query: 8 LSRNVSQEDADISLLRPRTLEEFTGQVEACSNLKVFIEAAKARAEALDHV---LFVGPPG 64
+ R E + L R E GQ EA + + I ++A + + LF+GP G
Sbjct: 542 VDRLAEAEAERLKKLEERLHERVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDG 601
Query: 65 LGKTTLAQVVA---------------RELGVNFRSTSGPVIAKAGDLAALLTNLEDRD-- 107
+GKT LA+ +A E + P + LT R
Sbjct: 602 VGKTELAKALAEYVFGSEENFIRLDMSEFQEVSKLIGSPPGYVGKEEGGQLTEAVKRRPY 661
Query: 108 -VLFIDEIHRLSIIVEEILYPAMEDFQLDLMVGEGPSARSVKINLSR 153
V+ +EI + V IL ++ +L G ++ ++
Sbjct: 662 SVVLFEEIEKAHPDVLNILLQLLDRGRLTDSHGREVDFKNAIFIMTS 708
>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 = 28.9 bits (65), Expect = 2.3
Identities = 7/22 (31%), Positives = 13/22 (59%)
Query: 57 VLFVGPPGLGKTTLAQVVAREL 78
+ G G GK+T+A+ + +L
Sbjct: 2 IWLTGLSGSGKSTIARALEEKL 23
>gnl|CDD|133305 cd04105, SR_beta, Signal recognition particle receptor, beta
subunit (SR-beta). SR-beta and SR-alpha form the
heterodimeric signal recognition particle (SRP or SR)
receptor that binds SRP to regulate protein
translocation across the ER membrane. Nascent
polypeptide chains are synthesized with an N-terminal
hydrophobic signal sequence that binds SRP54, a
component of the SRP. SRP directs targeting of the
ribosome-nascent chain complex (RNC) to the ER membrane
via interaction with the SR, which is localized to the
ER membrane. The RNC is then transferred to the
protein-conducting channel, or translocon, which
facilitates polypeptide translation across the ER
membrane or integration into the ER membrane. SR-beta
is found only in eukaryotes; it is believed to control
the release of the signal sequence from SRP54 upon
binding of the ribosome to the translocon. High
expression of SR-beta has been observed in human colon
cancer, suggesting it may play a role in the
development of this type of cancer.
Length = 203
Score = 28.8 bits (65), Expect = 2.3
Identities = 8/15 (53%), Positives = 9/15 (60%)
Query: 56 HVLFVGPPGLGKTTL 70
VL +GP GKT L
Sbjct: 2 TVLLLGPSDSGKTAL 16
>gnl|CDD|31617 COG1428, COG1428, Deoxynucleoside kinases [Nucleotide transport
and metabolism].
Length = 216
Score = 28.7 bits (64), Expect = 2.3
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 61 GPPGLGKTTLAQVVARELGVNF 82
G G GK+TLAQ +A LG
Sbjct: 11 GMIGAGKSTLAQALAEHLGFKV 32
>gnl|CDD|72877 cd04701, Asparaginase_2, L-Asparaginase type 2. L-Asparaginase
hydrolyzes L-asparagine to L-aspartate and ammonia. The
proenzyme undergoes an autoproteolytic cleavage into
alpha and beta subunits to expose a threonine residue
which becomes the N-terminal residue of the beta
subunit. The threonine residue plays a central role in
hydrolase activity. Some asparaginases can also
hydrolyze L-glutamine and are termed
glutaminase-asparaginase. This is a member of the
Ntn-hydrolase superfamily..
Length = 260
Score = 28.6 bits (64), Expect = 2.4
Identities = 28/82 (34%), Positives = 35/82 (42%), Gaps = 12/82 (14%)
Query: 18 DISLLRPRTLEEFTGQVEACSNLKVFIEAAKARAEALDHVLFVGPPGLGKTTLAQVVARE 77
D S++ RTL G V +K I A+A E HVL G A+ ARE
Sbjct: 79 DASIMDGRTL--RAGAVAGLRRVKNPILLARAVMEKTPHVLLAGEG-------AEAFARE 129
Query: 78 LGVNFRSTSGPV-IAKAGDLAA 98
G T G V + G+LAA
Sbjct: 130 QG--KHGTVGAVALDSHGNLAA 149
>gnl|CDD|72976 cd03217, ABC_FeS_Assembly, ABC-type transport system involved in
Fe-S cluster assembly, ATPase component. Biosynthesis
of iron-sulfur clusters (Fe-S) depends on multiprotein
systems. The SUF system of E. coli and Erwinia
chrysanthemi is important for Fe-S biogenesis under
stressful conditions. The SUF system is made of six
proteins: SufC is an atypical cytoplasmic ABC-ATPase,
which forms a complex with SufB and SufD; SufA plays the
role of a scaffold protein for assembly of iron-sulfur
clusters and delivery to target proteins; SufS is a
cysteine desulfurase which mobilizes the sulfur atom
from cysteine and provides it to the cluster; SufE has
no associated function yet..
Length = 200
Score = 28.5 bits (64), Expect = 2.5
Identities = 18/57 (31%), Positives = 27/57 (47%), Gaps = 5/57 (8%)
Query: 56 HVLFVGPPGLGKTTLAQVVARELGV-NFRSTSGPVIAKAGDLAALLTNLEDRDVLFI 111
H L GP G GK+TLA+ + G + T G ++ K D+ L R +F+
Sbjct: 29 HALM-GPNGSGKSTLAKTIM---GHPKYEVTEGEILFKGEDITDLPPEERARLGIFL 81
>gnl|CDD|33459 COG3661, AguA, Alpha-glucuronidase [Carbohydrate transport and
metabolism].
Length = 684
Score = 28.5 bits (63), Expect = 2.5
Identities = 15/50 (30%), Positives = 24/50 (48%), Gaps = 1/50 (2%)
Query: 118 SIIVEEILYPAMEDFQLDLMVGE-GPSARSVKINLSRFTLIAATTRVGLL 166
I++ PA+ L L +GE G R+V + +IA T +G+L
Sbjct: 71 VILLASGATPAITGLGLPLKLGEEGYLIRTVTVGGKATLVIAGNTDIGVL 120
>gnl|CDD|36682 KOG1469, KOG1469, KOG1469, Predicted acyl-CoA dehydrogenase
[General function prediction only].
Length = 392
Score = 28.4 bits (63), Expect = 2.5
Identities = 22/74 (29%), Positives = 33/74 (44%), Gaps = 3/74 (4%)
Query: 184 EIEDLKTIVQRGAKLTGLAVTDEAACEIAMRSRGTPRIAGRLLRR---VRDFAEVAHAKT 240
EIE + +V + A A EIAM P +A ++L R V+ A V+
Sbjct: 292 EIEQARLLVLKAAHSMDTLGNKGAKKEIAMIKVAAPNMASKILDRAIQVQGGAGVSSDTP 351
Query: 241 ITREIADAALLRLA 254
+ A A +LR+A
Sbjct: 352 LANLYAIARVLRIA 365
>gnl|CDD|31308 COG1111, MPH1, ERCC4-like helicases [DNA replication,
recombination, and repair].
Length = 542
Score = 28.7 bits (64), Expect = 2.5
Identities = 20/62 (32%), Positives = 27/62 (43%), Gaps = 14/62 (22%)
Query: 15 EDADISLLRPRTLEEFTGQVEACSNLKVFIEAAKARAEALDH-VLFVGPPGLGKTTLAQV 73
E A L++P T+E Q+ A+AL L V P GLGKT +A +
Sbjct: 2 EYAAHPLIKPNTIEPRLYQLNIA-------------AKALFKNTLVVLPTGLGKTFIAAM 48
Query: 74 VA 75
V
Sbjct: 49 VI 50
>gnl|CDD|73178 COG4608, AppF, ABC-type oligopeptide transport system, ATPase
component [Amino acid transport and metabolism].
Length = 268
Score = 28.7 bits (64), Expect = 2.6
Identities = 14/50 (28%), Positives = 22/50 (44%), Gaps = 4/50 (8%)
Query: 60 VGPPGLGKTTLAQVVARELGVNFRSTSGPVIAKAGDLAALLTNLEDRDVL 109
VG G GK+TL +++ TSG ++ + D+ L VL
Sbjct: 45 VGESGCGKSTLGRLILGLE----EPTSGEILFEGKDITKLSKEERRERVL 90
>gnl|CDD|99821 cd05778, DNA_polB_zeta_exo, inactive DEDDy 3'-5' exonuclease domain
of eukaryotic DNA polymerase zeta, a family-B DNA
polymerase. The 3'-5' exonuclease domain of eukaryotic
DNA polymerase zeta. DNA polymerase zeta is a family-B
DNA polymerase which is distantly related to DNA
polymerase delta. It plays a major role in translesion
replication and the production of either spontaneous or
induced mutations. In addition, DNA polymerase zeta also
appears to be involved in somatic hypermutability in B
lymphocytes, an important element for the production of
high affinity antibodies in response to an antigen. The
catalytic subunit contains both polymerase and 3'-5'
exonuclease domains, but only exhibits polymerase
activity. The DnaQ-like 3'-5' exonuclease domain
contains three sequence motifs termed ExoI, ExoII and
ExoIII, without the four conserved acidic residues that
are crucial for metal binding and catalysis.
Length = 231
Score = 28.4 bits (64), Expect = 2.6
Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 5/58 (8%)
Query: 150 NLSRFTL-IAATTRVGLLTNPLQDRFGIPIRLNFYEIEDLKTIVQRGAKLTGLAVTDE 206
+L+ +L + TR LL +P D PI FY I+D + A G+ + DE
Sbjct: 3 HLTILSLEVHVNTRGDLLPDPEFD----PISAIFYCIDDDVSPFILDANKVGVIIVDE 56
>gnl|CDD|38288 KOG3078, KOG3078, KOG3078, Adenylate kinase [Nucleotide transport
and metabolism].
Length = 235
Score = 28.4 bits (63), Expect = 2.7
Identities = 10/40 (25%), Positives = 15/40 (37%)
Query: 41 KVFIEAAKARAEALDHVLFVGPPGLGKTTLAQVVARELGV 80
F + + +G PG GK T A + + GV
Sbjct: 2 SPFAPGFDEDEKKGVRAVLLGAPGSGKGTQAPRLTKNFGV 41
>gnl|CDD|34791 COG5192, BMS1, GTP-binding protein required for 40S ribosome
biogenesis [Translation, ribosomal structure and
biogenesis].
Length = 1077
Score = 28.2 bits (62), Expect = 2.9
Identities = 21/59 (35%), Positives = 27/59 (45%), Gaps = 4/59 (6%)
Query: 57 VLFVGPPGLGKTTLAQ-VVARELGVNFRSTSGPVIAKAGDLAALLTNLEDRDVL--FID 112
V VGPPG GK+TL + +V R GP+ +G +T LE L ID
Sbjct: 72 VAVVGPPGTGKSTLIRSLVRRFTKQTIDEIRGPITVVSGK-TRRITFLECPSDLHQMID 129
>gnl|CDD|72980 cd03221, ABCF_EF-3, ABCF_EF-3 Elongation factor 3 (EF-3) is a
cytosolic protein required by fungal ribosomes for in
vitro protein synthesis and for in vivo growth. EF-3
stimulates the binding of the EF-1: GTP: aa-tRNA ternary
complex to the ribosomal A site by facilitated release
of the deacylated tRNA from the E site. The reaction
requires ATP hydrolysis. EF-3 contains two ATP
nucleotide binding sequence (NBS) motifs. NBSI is
sufficient for the intrinsic ATPase activity. NBSII is
essential for the ribosome-stimulated functions..
Length = 144
Score = 28.5 bits (64), Expect = 2.9
Identities = 23/73 (31%), Positives = 34/73 (46%), Gaps = 17/73 (23%)
Query: 55 DHVLFVGPPGLGKTTLAQVVARELGVN--------------FRSTSGPVIAKAGDLAALL 100
D + VG G GK+TL +++A EL + F SG + LA LL
Sbjct: 27 DRIGLVGRNGAGKSTLLKLIAGELEPDEGIVTWGSTVKIGYFEQLSGGEKMRLA-LAKLL 85
Query: 101 TNLEDRDVLFIDE 113
LE+ ++L +DE
Sbjct: 86 --LENPNLLLLDE 96
>gnl|CDD|143799 pfam00006, ATP-synt_ab, ATP synthase alpha/beta family,
nucleotide-binding domain. This family includes the ATP
synthase alpha and beta subunits, the ATP synthase
associated with flagella and the termination factor Rho.
Length = 213
Score = 28.2 bits (64), Expect = 3.1
Identities = 11/53 (20%), Positives = 20/53 (37%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAKAGDLAALLTNLEDRDVL 109
+ G G GKT L ++AR + + + ++A + L L
Sbjct: 18 IGIFGGSGTGKTVLLGMIARNAKADVVEVYVLIGERGREVAEFIEELLGEGAL 70
>gnl|CDD|29991 cd01125, repA, Hexameric Replicative Helicase RepA. RepA is
encoded by a plasmid, which is found in most Gram
negative bacteria. RepA is a 5'-3' DNA helicase which
can utilize ATP, GTP and CTP to a lesser extent..
Length = 239
Score = 28.4 bits (63), Expect = 3.1
Identities = 16/59 (27%), Positives = 24/59 (40%), Gaps = 5/59 (8%)
Query: 58 LFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAKAGDLAALLTNLEDRDVLFIDEIHR 116
V P G GK++L V+A + + G + L + ED +EIHR
Sbjct: 5 ALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYL-SAED----PREEIHR 58
>gnl|CDD|30631 COG0283, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 222
Score = 28.3 bits (63), Expect = 3.2
Identities = 17/48 (35%), Positives = 29/48 (60%), Gaps = 2/48 (4%)
Query: 61 GPPGLGKTTLAQVVARELGVNFRSTSGPVIAKAGDLAALLTNLEDRDV 108
GP G GK+T+A+++A +LG ++ T + +A LAAL ++ D
Sbjct: 11 GPAGSGKSTVAKILAEKLGFHYLDTG--AMYRAVALAALKHGVDLDDE 56
>gnl|CDD|33892 COG4136, COG4136, ABC-type uncharacterized transport system, ATPase
component [General function prediction only].
Length = 213
Score = 28.0 bits (62), Expect = 3.4
Identities = 17/60 (28%), Positives = 25/60 (41%), Gaps = 1/60 (1%)
Query: 55 DHVLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAKAGDLAALLTNLEDRDVLFIDEI 114
+ V +GP G GK+TL + L F S +G + L L +LF D +
Sbjct: 29 EIVTLMGPSGCGKSTLLSWMIGALAGQF-SCTGELWLNEQRLDMLPAAQRQIGILFQDAL 87
>gnl|CDD|39857 KOG4658, KOG4658, KOG4658, Apoptotic ATPase [Signal transduction
mechanisms].
Length = 889
Score = 28.0 bits (62), Expect = 3.4
Identities = 20/72 (27%), Positives = 33/72 (45%), Gaps = 3/72 (4%)
Query: 3 DREGLLSRNVSQEDADISLLRPRTLEEFTGQVEACSNLKVFIEAAKAR--AEALDHVLFV 60
+ E L S+ V + + R + +E Q E+ L+ +E R + + V
Sbjct: 127 EVESLGSKGVFEVVGESLDPREK-VETRPIQSESDVGLETMLEKLWNRLMEDDVGIVGIY 185
Query: 61 GPPGLGKTTLAQ 72
G G+GKTTLA+
Sbjct: 186 GMGGVGKTTLAR 197
>gnl|CDD|33687 COG3899, COG3899, Predicted ATPase [General function prediction
only].
Length = 849
Score = 28.0 bits (62), Expect = 3.6
Identities = 26/142 (18%), Positives = 48/142 (33%), Gaps = 22/142 (15%)
Query: 40 LKVFIEAAKARAEALDHVLFVGPPGLGKTTLAQVVARELG-------------VNFRSTS 86
L F +K R E VL G G+GK+ L V + +
Sbjct: 13 LAAFDRVSKGRGEV---VLVAGESGIGKSALVNEVHKPITQQRGYFIKGKFDQFERNIPL 69
Query: 87 GPVIAKAGDLA-ALLTNLEDRDVLFIDEIHRLSIIVEEILYPAMEDFQL-----DLMVGE 140
P++ DL LL+ + R + + + +++ + + +L +
Sbjct: 70 SPLVQAFRDLMGQLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALEL 129
Query: 141 GPSARSVKINLSRFTLIAATTR 162
P+A + NL+ I T
Sbjct: 130 SPTAAQNRFNLAFLRFIQVFTA 151
>gnl|CDD|73058 cd03299, ABC_ModC_like, Archeal protein closely related to ModC.
ModC is an ABC-type transporter and the ATPase component
of a molybdate transport system that also includes the
periplasmic binding protein ModA and the membrane
protein ModB. ABC transporters are a large family of
proteins involved in the transport of a wide variety of
different compounds, like sugars, ions, peptides, and
more complex organic molecules. The nucleotide binding
domain shows the highest similarity between all members
of the family. ABC transporters are a subset of
nucleotide hydrolases that contain a signature motif,
Q-loop, and H-loop/switch region, in addition to, the
Walker A motif/P-loop and Walker B motif commonly found
in a number of ATP- and GTP-binding and hydrolyzing
proteins..
Length = 235
Score = 28.3 bits (63), Expect = 3.6
Identities = 22/84 (26%), Positives = 40/84 (47%), Gaps = 11/84 (13%)
Query: 37 CSNLKVF-IEAAKARAEALDHVLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAKAGD 95
+ K F ++ E D+ + +GP G GK+ L + +A G + SG ++ D
Sbjct: 7 SKDWKEFKLKNVSLEVERGDYFVILGPTGSGKSVLLETIA---GF-IKPDSGKILLNGKD 62
Query: 96 LAALLTNL--EDRDVLFIDEIHRL 117
+TNL E RD+ ++ + + L
Sbjct: 63 ----ITNLPPEKRDISYVPQNYAL 82
>gnl|CDD|72979 cd03220, ABC_KpsT_Wzt, ABC_KpsT_Wzt The KpsT/Wzt ABC transporter
subfamily is involved in extracellular polysaccharide
export. Among the variety of membrane-linked or
extracellular polysaccharides excreted by bacteria, only
capsular polysaccharides, lipopolysaccharides, and
teichoic acids have been shown to be exported by ABC
transporters. A typical system is made of a conserved
integral membrane and an ABC. In addition to these
proteins, capsular polysaccharide exporter systems
require two 'accessory' proteins to perform their
function: a periplasmic (E.coli) or a lipid-anchored
outer membrane protein called OMA (Neisseria
meningitidis and Haemophilus influenzae) and a
cytoplasmic membrane protein MPA2..
Length = 224
Score = 28.2 bits (63), Expect = 3.6
Identities = 13/46 (28%), Positives = 24/46 (52%), Gaps = 5/46 (10%)
Query: 55 DHVLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAKAGDLAALL 100
+ + +G G GK+TL +++A SG V + G +++LL
Sbjct: 49 ERIGLIGRNGAGKSTLLRLLAGIY----PPDSGTVTVR-GRVSSLL 89
>gnl|CDD|31609 COG1419, FlhF, Flagellar GTP-binding protein [Cell motility and
secretion].
Length = 407
Score = 28.0 bits (62), Expect = 3.6
Identities = 23/87 (26%), Positives = 35/87 (40%), Gaps = 27/87 (31%)
Query: 57 VLFVGPPGLGKTT-LAQVVARELGV------------NFR-------STSG-----PVIA 91
+ VGP G+GKTT LA++ AR + + +R T P+
Sbjct: 206 IALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEV 265
Query: 92 --KAGDLAALLTNLEDRDVLFIDEIHR 116
+LA + L D DV+ +D R
Sbjct: 266 VYSPKELAEAIEALRDCDVILVDTAGR 292
>gnl|CDD|30834 COG0488, Uup, ATPase components of ABC transporters with duplicated
ATPase domains [General function prediction only].
Length = 530
Score = 27.9 bits (62), Expect = 3.8
Identities = 13/25 (52%), Positives = 18/25 (72%)
Query: 55 DHVLFVGPPGLGKTTLAQVVARELG 79
D + VGP G GK+TL +++A ELG
Sbjct: 349 DRIAIVGPNGAGKSTLLKLLAGELG 373
>gnl|CDD|31438 COG1245, COG1245, Predicted ATPase, RNase L inhibitor (RLI) homolog
[General function prediction only].
Length = 591
Score = 27.9 bits (62), Expect = 3.9
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 60 VGPPGLGKTTLAQVVARELGVNFRSTSGP 88
+GP G+GK+T +++A EL N P
Sbjct: 106 LGPNGIGKSTALKILAGELKPNLGRYEDP 134
Score = 27.5 bits (61), Expect = 5.6
Identities = 13/54 (24%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 25 RTLEEFTGQVEACSNLKVFIEAAKARAEALDHVLFVGPPGLGKTTLAQVVAREL 78
TL E+ + + K+ +E + + + +GP G+GKTT +++A +
Sbjct: 340 DTLVEYPDLKKTYGDFKLEVEEGEIYDGEV--IGILGPNGIGKTTFVKLLAGVI 391
>gnl|CDD|73051 cd03292, ABC_FtsE_transporter, FtsE is a hydrophilic
nucleotide-binding protein that binds FtsX to form a
heterodimeric ATP-binding cassette (ABC)-type
transporter that associates with the bacterial inner
membrane. The FtsE/X transporter is thought to be
involved in cell division and is important for assembly
or stability of the septal ring..
Length = 214
Score = 27.9 bits (62), Expect = 4.0
Identities = 18/71 (25%), Positives = 30/71 (42%), Gaps = 11/71 (15%)
Query: 29 EFTGQVEACSNLKVFIEAAKARAEALDHVLFVGPPGLGKTTLAQVVARELGVNFRSTSGP 88
+ A + + I A + V VGP G GK+TL +++ +E TSG
Sbjct: 9 TYPNGTAALDGINISISAG-------EFVFLVGPSGAGKSTLLKLIYKEE----LPTSGT 57
Query: 89 VIAKAGDLAAL 99
+ D++ L
Sbjct: 58 IRVNGQDVSDL 68
>gnl|CDD|72987 cd03228, ABCC_MRP_Like, The MRP (Mutidrug Resistance
Protein)-like transporters are involved in drug,
peptide, and lipid export. They belong to the
subfamily C of the ATP-binding cassette (ABC)
superfamily of transport proteins. The ABCC subfamily
contains transporters with a diverse functional
spectrum that includes ion transport, cell surface
receptor, and toxin secretion activities. The MRP-like
family, simlar to all ABC proteins, have a common
four-domain core structure constituted by two
membrane-spanning domains, each composed of six
transmembrane (TM) helices, and two nucleotide-binding
domains (NBD). ABC transporters are a subset of
nucleotide hydrolases that contain a signature motif,
Q-loop, and H-loop/switch region, in addition to, the
Walker A motif/P-loop and Walker B motif commonly found
in a number of ATP- and GTP-binding and hydrolyzing
proteins..
Length = 171
Score = 28.1 bits (63), Expect = 4.1
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 57 VLFVGPPGLGKTTLAQVVAR 76
V VGP G GK+TL +++ R
Sbjct: 31 VAIVGPSGSGKSTLLKLLLR 50
>gnl|CDD|32599 COG2607, COG2607, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 287
Score = 27.9 bits (62), Expect = 4.1
Identities = 48/190 (25%), Positives = 76/190 (40%), Gaps = 29/190 (15%)
Query: 37 CSNLKVFIEAAKARAEALDHVLFVGPPGLGKTTLAQVVAREL---GVNFRSTSGPVIAKA 93
N + F E A ++VL G G GK++L + + E G+ +A
Sbjct: 73 VRNTEQFAEGLPA-----NNVLLWGARGTGKSSLVKALLNEYADEGLRLVEVDKEDLATL 127
Query: 94 GDLAALLTNLEDRDVLFIDEIHRLSIIVEEILYPAMEDFQLDLMVGEGPS-----ARSVK 148
DL LL ++ +LF D+ LS + Y A++ L+ V P+ A S +
Sbjct: 128 PDLVELLRARPEKFILFCDD---LSFEEGDDAYKALKSA-LEGGVEGRPANVLFYATSNR 183
Query: 149 INLSRFTLIAATTRVGLLTN--------PLQDRFGIPIRLNFYEI--EDLKTIVQRGAKL 198
+L + G + L DRFG + L+FY ++ IV AK
Sbjct: 184 RHLLPEDMKDNEGSTGEIHPSEAVEEKLSLSDRFG--LWLSFYPCDQDEYLKIVDHYAKH 241
Query: 199 TGLAVTDEAA 208
GL ++DE
Sbjct: 242 FGLDISDEEL 251
>gnl|CDD|31329 COG1134, TagH, ABC-type polysaccharide/polyol phosphate transport
system, ATPase component [Carbohydrate transport and
metabolism / Cell envelope biogenesis, outer membrane].
Length = 249
Score = 27.9 bits (62), Expect = 4.3
Identities = 16/46 (34%), Positives = 27/46 (58%), Gaps = 5/46 (10%)
Query: 55 DHVLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAKAGDLAALL 100
+ V +G G GK+TL +++A G+ ++ TSG V G +A L+
Sbjct: 54 ERVGIIGHNGAGKSTLLKLIA---GI-YKPTSGKVKVT-GKVAPLI 94
>gnl|CDD|144183 pfam00493, MCM, MCM2/3/5 family.
Length = 327
Score = 27.9 bits (63), Expect = 4.3
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 56 HVLFVGPPGLGKTTLAQVVAR 76
+VL VG PG K+ L + VA+
Sbjct: 59 NVLLVGDPGTAKSQLLKYVAK 79
>gnl|CDD|31385 COG1192, Soj, ATPases involved in chromosome partitioning [Cell
division and chromosome partitioning].
Length = 259
Score = 27.8 bits (61), Expect = 4.4
Identities = 35/153 (22%), Positives = 59/153 (38%), Gaps = 22/153 (14%)
Query: 64 GLGKTTLAQVVARELGV---------------NFRSTSGPVIAKAGDLAALLTNLEDRD- 107
G+GKTT A +A L + S G GDL LL+ L++R
Sbjct: 13 GVGKTTTAVNLAAALAKRGGKKVLLIDLDPQGSLTSWLGLRPDLEGDLYNLLSGLKERPD 72
Query: 108 -VLFIDEIHRLSIIVEEILYPAMEDFQLDLMVGEGPSARSVKINLSRFTLIAATT--RVG 164
+ + I L +I I + +L+ + E R + + I T +G
Sbjct: 73 ILDYTVVIEGLDLIPSNIDLAEGAEIELNAVAKELLLKRLLDPVKDDYDYIIIDTPPSLG 132
Query: 165 LLTNPLQ---DRFGIPIRLNFYEIEDLKTIVQR 194
+LT D IP++ F ++E L+ ++
Sbjct: 133 VLTLNALAAADHVLIPVQPEFLDLEGLEQLLNT 165
>gnl|CDD|33644 COG3854, SpoIIIAA, ncharacterized protein conserved in bacteria
[Function unknown].
Length = 308
Score = 27.6 bits (61), Expect = 4.5
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 56 HVLFVGPPGLGKTTLAQVVARELGV 80
+ L +GPP +GKTTL + +AR L
Sbjct: 139 NTLIIGPPQVGKTTLLRDIARLLSD 163
>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 = 27.8 bits (62), Expect = 4.5
Identities = 19/45 (42%), Positives = 25/45 (55%), Gaps = 4/45 (8%)
Query: 55 DHVLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAKAGDLAAL 99
+ VL VGP G GK+TL +++ LG TSG V+ DL L
Sbjct: 28 EFVLIVGPNGSGKSTLLRLLNGLLG----PTSGEVLVDGKDLTKL 68
>gnl|CDD|31343 COG1149, COG1149, MinD superfamily P-loop ATPase containing an
inserted ferredoxin domain [Energy production and
conversion].
Length = 284
Score = 27.6 bits (61), Expect = 4.6
Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 4/59 (6%)
Query: 61 GPPGLGKTTLAQVVARELGVNFRSTSGPVIAKAGDLAALLTNLEDRDVLFIDEIHRLSI 119
G G GKTT+A +A LG ++ +A +L LL +VL +E+ R I
Sbjct: 9 GKGGTGKTTVAANLAVLLGDKYKLVLADCDVEAPNLHLLL----GVEVLEEEEVIRGEI 63
>gnl|CDD|31805 COG1618, COG1618, Predicted nucleotide kinase [Nucleotide
transport and metabolism].
Length = 179
Score = 27.9 bits (62), Expect = 4.6
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 57 VLFVGPPGLGKTTLAQVVARELGVN 81
+ G PG+GKTTL +A +L
Sbjct: 8 IFITGRPGVGKTTLVLKIAEKLREK 32
>gnl|CDD|144120 pfam00406, ADK, Adenylate kinase.
Length = 186
Score = 27.7 bits (62), Expect = 4.6
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 59 FVGPPGLGKTTLAQVVARELGVNFRST 85
+GPPG GK T A+ + ++ G+ ST
Sbjct: 1 LLGPPGAGKGTQAERIVQKYGIVHLST 27
>gnl|CDD|153411 cd07957, Anticodon_Ia_Met, Anticodon-binding domain of methionyl
tRNA synthetases. This domain is found in methionyl
tRNA synthetases (MetRS), which belong to the class Ia
aminoacyl tRNA synthetases. It lies C-terminal to the
catalytic core domain, and recognizes and specifically
binds to the tRNA anticodon (CAU). MetRS catalyzes the
transfer of methionine to the 3'-end of its tRNA.
Length = 129
Score = 27.5 bits (62), Expect = 4.8
Identities = 10/38 (26%), Positives = 17/38 (44%)
Query: 266 RYLTMIARNFGGGPVGIETISAGLSEPRDAIEDLIEPY 303
R L M ++ FGG ++ E + E+L+E
Sbjct: 15 RTLNMASKYFGGVVPEFGGLTEEDEELLEEAEELLEEV 52
>gnl|CDD|73014 cd03255, ABC_MJ0796_Lo1CDE_FtsE, This family is comprised of MJ0796
ATP-binding cassette, macrolide-specific ABC-type efflux
carrier (MacAB), and proteins involved in cell division
(FtsE), and release of liporoteins from the cytoplasmic
membrane (LolCDE). They are clustered together
phylogenetically. MacAB is an exporter that confers
resistance to macrolides, while the LolCDE system is not
a transporter at all. An FtsE null mutants showed
filamentous growth and appeared viable on high salt
medium only, indicating a role for FtsE in cell division
and/or salt transport. The LolCDE complex catalyses the
release of lipoproteins from the cytoplasmic membrane
prior to their targeting to the outer membrane..
Length = 218
Score = 27.8 bits (62), Expect = 5.0
Identities = 26/96 (27%), Positives = 35/96 (36%), Gaps = 18/96 (18%)
Query: 36 ACSNLKVFIEAAKARAEALDHVLF----------VGPPGLGKTTLAQVVARELGVNFRST 85
NL + +AL V VGP G GK+TL + LG R T
Sbjct: 2 ELKNLSKTYGGGGEKVQALKGVSLSIEKGEFVAIVGPSGSGKSTLLNI----LGGLDRPT 57
Query: 86 SGPVIAKAGDLAAL----LTNLEDRDVLFIDEIHRL 117
SG V D++ L L R + F+ + L
Sbjct: 58 SGEVRVDGTDISKLSEKELAAFRRRHIGFVFQSFNL 93
>gnl|CDD|30191 cd01673, dNK, Deoxyribonucleoside kinase (dNK) catalyzes the
phosphorylation of deoxyribonucleosides to yield
corresponding monophosphates (dNMPs). This family
consists of various deoxynucleoside kinases including
deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC
2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC
2.7.1.21) kinases. They are key enzymes in the salvage
of deoxyribonucleosides originating from extra- or
intracellular breakdown of DNA..
Length = 193
Score = 27.5 bits (61), Expect = 5.2
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 61 GPPGLGKTTLAQVVARELGVNF 82
G G GK+TLA+ +A LG
Sbjct: 6 GNIGAGKSTLAKELAEHLGYEV 27
>gnl|CDD|72982 cd03223, ABCD_peroxisomal_ALDP, Peroxisomal ATP-binding cassette
transporter (Pat) is involved in the import of very
long-chain fatty acids (VLCFA) into the peroxisome.
The peroxisomal membrane forms a permeability barrier
for a wide variety of metabolites required for and
formed during fatty acid beta-oxidation. To
communicate with the cytoplasm and mitochondria,
peroxisomes need dedicated proteins to transport such
hydrophilic molecules across their membranes. X-linked
adrenoleukodystrophy (X-ALD) is caused by mutations in
the ALD gene, which encodes ALDP (adrenoleukodystrophy
protein ), a peroxisomal integral membrane protein that
is a member of the ATP-binding cassette (ABC)
transporter protein family. The disease is
characterized by a striking and unpredictable variation
in phenotypic expression. Phenotypes include the
rapidly progressive childhood cerebral form (CCALD),
the milder adult form, adrenomyeloneuropathy (AMN), and
variants without neurologic involvement (i.e.
asymptomatic)..
Length = 166
Score = 27.4 bits (61), Expect = 5.4
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 55 DHVLFVGPPGLGKTTLAQVVA 75
D +L GP G GK++L + +A
Sbjct: 28 DRLLITGPSGTGKSSLFRALA 48
>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 = 27.6 bits (62), Expect = 5.5
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 57 VLFVGPPGLGKTTLAQVVAREL 78
V F G G GK+T+A + R+L
Sbjct: 5 VWFTGLSGSGKSTIANALERKL 26
>gnl|CDD|38564 KOG3354, KOG3354, KOG3354, Gluconate kinase [Carbohydrate
transport and metabolism].
Length = 191
Score = 27.3 bits (60), Expect = 5.5
Identities = 9/28 (32%), Positives = 18/28 (64%)
Query: 55 DHVLFVGPPGLGKTTLAQVVARELGVNF 82
++ +G G GK+T+ + ++ ELG+ F
Sbjct: 13 YVIVVMGVSGSGKSTIGKALSEELGLKF 40
>gnl|CDD|30990 COG0645, COG0645, Predicted kinase [General function prediction
only].
Length = 170
Score = 27.6 bits (61), Expect = 5.6
Identities = 13/23 (56%), Positives = 16/23 (69%)
Query: 57 VLFVGPPGLGKTTLAQVVARELG 79
VL G PG GK+TLA+ +A LG
Sbjct: 4 VLVGGLPGSGKSTLARGLAELLG 26
>gnl|CDD|37016 KOG1805, KOG1805, KOG1805, DNA replication helicase [Replication,
recombination and repair].
Length = 1100
Score = 27.3 bits (60), Expect = 5.7
Identities = 17/66 (25%), Positives = 27/66 (40%), Gaps = 5/66 (7%)
Query: 13 SQEDADISLLRPRTLEEFTGQVEACSNLKVFIEAAKARAEALDHVLFVGPPGLGKTTLAQ 72
DA +L P+ + + N +A A D+ L +G PG GKTT
Sbjct: 649 KFVDALSKVLIPKIKKI----ILLRLN-NDQRQALLKALAAEDYALILGMPGTGKTTTIS 703
Query: 73 VVAREL 78
++ + L
Sbjct: 704 LLIKIL 709
>gnl|CDD|177083 CHL00181, cbbX, CbbX; Provisional.
Length = 287
Score = 27.4 bits (61), Expect = 5.8
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 56 HVLFVGPPGLGKTTLA 71
H+ F G PG GKTT+A
Sbjct: 61 HMSFTGSPGTGKTTVA 76
>gnl|CDD|29990 cd01124, KaiC, KaiC is a circadian clock protein primarily found in
cyanobacteria KaiC is a RecA-like ATPase, having both
Walker A and Walker B motifs. A related protein is found
in archaea..
Length = 187
Score = 27.2 bits (60), Expect = 6.2
Identities = 22/75 (29%), Positives = 26/75 (34%), Gaps = 8/75 (10%)
Query: 57 VLFVGPPGLGKTTLAQVVARE--------LGVNFRSTSGPVIAKAGDLAALLTNLEDRDV 108
L G PG GKTT A L V + +I A L L LED +
Sbjct: 2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTLEESPEELIENAESLGWDLERLEDEGL 61
Query: 109 LFIDEIHRLSIIVEE 123
L I + I E
Sbjct: 62 LAIVDADPDEIGPAE 76
>gnl|CDD|57926 cd01855, YqeH, YqeH. YqeH is an essential GTP-binding protein.
Depletion of YqeH induces an excess initiation of DNA
replication, suggesting that it negatively controls
initiation of chromosome replication. The YqeH subfamily
is common in eukaryotes and sporadically present in
bacteria with probable acquisition by plants from
chloroplasts. Proteins of the YqeH family contain all
sequence motifs typical of the vast class of
P-loop-containing GTPases, but show a circular
permutation, with a G4-G1-G3 pattern of motifs as
opposed to the regular G1-G3-G4 pattern seen in most
GTPases..
Length = 190
Score = 27.1 bits (60), Expect = 6.6
Identities = 11/54 (20%), Positives = 21/54 (38%)
Query: 39 NLKVFIEAAKARAEALDHVLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAK 92
++ I A K A+ V VG +GK+TL + ++ + +
Sbjct: 112 GVEELINAIKKLAKKGGDVYVVGATNVGKSTLINALLKKDNGKKKLKDLLTTSP 165
>gnl|CDD|35288 KOG0065, KOG0065, KOG0065, Pleiotropic drug resistance proteins
(PDR1-15), ABC superfamily [Secondary metabolites
biosynthesis, transport and catabolism].
Length = 1391
Score = 27.1 bits (60), Expect = 6.8
Identities = 13/35 (37%), Positives = 21/35 (60%)
Query: 51 AEALDHVLFVGPPGLGKTTLAQVVARELGVNFRST 85
+ + L +GPPG GKTTL + +A +L +S+
Sbjct: 138 IKPGEMTLVLGPPGSGKTTLLKALAGKLDNFLKSS 172
>gnl|CDD|35951 KOG0732, KOG0732, KOG0732, AAA+-type ATPase containing the
bromodomain [Posttranslational modification, protein
turnover, chaperones].
Length = 1080
Score = 27.3 bits (60), Expect = 7.1
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 55 DHVLFVGPPGLGKTTLAQVVAREL 78
VLF GPPG GKT +A+ +A
Sbjct: 300 RGVLFHGPPGTGKTLMARALAAAC 323
>gnl|CDD|31319 COG1122, CbiO, ABC-type cobalt transport system, ATPase component
[Inorganic ion transport and metabolism].
Length = 235
Score = 27.2 bits (60), Expect = 7.5
Identities = 10/25 (40%), Positives = 16/25 (64%)
Query: 51 AEALDHVLFVGPPGLGKTTLAQVVA 75
E + VL +GP G GK+TL +++
Sbjct: 27 IEKGERVLLIGPNGSGKSTLLKLLN 51
>gnl|CDD|31321 COG1124, DppF, ABC-type dipeptide/oligopeptide/nickel transport
system, ATPase component [Amino acid transport and
metabolism / Inorganic ion transport and metabolism].
Length = 252
Score = 27.1 bits (60), Expect = 7.6
Identities = 15/49 (30%), Positives = 22/49 (44%), Gaps = 10/49 (20%)
Query: 37 CSNLKVFIEAAKARAEALDHVLF----------VGPPGLGKTTLAQVVA 75
NL + K AL++V VG G GK+TLA+++A
Sbjct: 6 VRNLSIVYGGGKFAFHALNNVSLEIERGETLGIVGESGSGKSTLARLLA 54
>gnl|CDD|58609 cd04243, AAK_AK-HSDH-like, AAK_AK-HSDH-like: Amino Acid Kinase
Superfamily (AAK), AK-HSDH-like; this family includes
the N-terminal catalytic domain of aspartokinase (AK) of
the bifunctional enzyme AK- homoserine dehydrogenase
(HSDH). These aspartokinases are found in such bacteria
as E. coli (AKI-HSDHI, ThrA and AKII-HSDHII, MetL) and
in higher plants (Z. mays AK-HSDH). AK and HSDH are the
first and third enzymes in the biosynthetic pathway of
the aspartate family of amino acids. AK catalyzes the
phosphorylation of Asp to P-aspartyl phosphate. HSDH
catalyzes the NADPH-dependent conversion of Asp
3-semialdehyde to homoserine. ThrA and MetL are involved
in threonine and methionine biosynthesis, respectively.
In E. coli, ThrA is subject to allosteric regulation by
the end product L-threonine and the native enzyme is
reported to be tetrameric. As with bacteria, plant AK
and HSDH are feedback inhibited by pathway end products.
Maize AK-HSDH is a Thr-sensitive 180-kD enzyme.
Arabidopsis AK-HSDH is an alanine-activated,
threonine-sensitive enzyme whose ACT domains, located
C-terminal to the AK catalytic domain, were shown to be
involved in allosteric activation. Also included in this
CD is the catalytic domain of the aspartokinase (AK) of
the lysine-sensitive aspartokinase isoenzyme AKIII, a
monofunctional class enzyme (LysC) found in some
bacteria such as E. coli. In E. coli, LysC is reported
to be a homodimer of 50 kD subunits. Also included in
this CD is the catalytic domain of aspartokinase (AK)
of the bifunctional enzyme AK - DAP decarboxylase
(DapDC) found in some bacteria. DapDC, which is the lysA
gene product, catalyzes the decarboxylation of DAP to
lysine..
Length = 293
Score = 27.1 bits (60), Expect = 7.8
Identities = 15/77 (19%), Positives = 28/77 (36%), Gaps = 6/77 (7%)
Query: 244 EIADAALLRLAIDKMGFD--QLDLRYLTMIARNFGGGPVGIETISAGLSEPRDAIEDLIE 301
E+ + L+ + + G LD R L + F V ++ L++ ++
Sbjct: 124 ELLSSRLMSAYLQEQGLPAAWLDARELLLTDDGFLNAVVDLKLSKERLAQLLAEHGKVV- 182
Query: 302 PYMIQQGFIQRTPRGRL 318
+ QGFI G
Sbjct: 183 ---VTQGFIASNEDGET 196
>gnl|CDD|35841 KOG0622, KOG0622, KOG0622, Ornithine decarboxylase [Amino acid
transport and metabolism].
Length = 448
Score = 26.8 bits (59), Expect = 7.8
Identities = 16/61 (26%), Positives = 20/61 (32%), Gaps = 2/61 (3%)
Query: 245 IADAALLRLAIDKMG--FDQLDLRYLTMIARNFGGGPVGIETISAGLSEPRDAIEDLIEP 302
D R AI FD M + GGG G E + E D I ++
Sbjct: 220 CTDLQAYRDAISDARNVFDMGAELGFEMDILDIGGGFPGDEGHAVVFEEIADVINTALDL 279
Query: 303 Y 303
Y
Sbjct: 280 Y 280
>gnl|CDD|33918 COG4178, COG4178, ABC-type uncharacterized transport system,
permease and ATPase components [General function
prediction only].
Length = 604
Score = 26.8 bits (59), Expect = 8.4
Identities = 11/44 (25%), Positives = 18/44 (40%), Gaps = 7/44 (15%)
Query: 39 NLKVFIEAAKARAEALD-------HVLFVGPPGLGKTTLAQVVA 75
NL + + L+ +L G G GKT+L + +A
Sbjct: 397 NLSLRTPDGQTLLSELNFEVRPGERLLITGESGAGKTSLLRALA 440
>gnl|CDD|30835 COG0489, Mrp, ATPases involved in chromosome partitioning [Cell
division and chromosome partitioning].
Length = 265
Score = 27.0 bits (59), Expect = 8.6
Identities = 27/104 (25%), Positives = 41/104 (39%), Gaps = 14/104 (13%)
Query: 35 EACSNLKVFIEAAKARAEALDHVLFV--GPPGLGKTT----LAQVVARE------LGVNF 82
EA L+ ++ AK + + +V+ V G G+GK+T LA +A+ L +
Sbjct: 37 EALRALRTNLKFAKVLRKGVKNVIAVTSGKGGVGKSTVAVNLAAALAQLGKRVLLLDADL 96
Query: 83 RSTSGPVIAKAGDLAALLTNLEDRDVLFIDEIHRLSIIVEEILY 126
R S P + +L L L I I V IL
Sbjct: 97 RGPSIPRMLGLENLPGLTELLAGEA--LEPVIQHDGIKVLSILP 138
>gnl|CDD|144702 pfam01202, SKI, Shikimate kinase.
Length = 158
Score = 26.8 bits (60), Expect = 8.7
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 63 PGLGKTTLAQVVARELGVNFRST 85
G GKTT+ +++A+ LG+ F T
Sbjct: 1 MGAGKTTIGRLLAKALGLPFIDT 23
>gnl|CDD|33631 COG3839, MalK, ABC-type sugar transport systems, ATPase
components [Carbohydrate transport and metabolism].
Length = 338
Score = 26.8 bits (59), Expect = 9.2
Identities = 9/21 (42%), Positives = 16/21 (76%)
Query: 55 DHVLFVGPPGLGKTTLAQVVA 75
+ V+ +GP G GK+TL +++A
Sbjct: 30 EFVVLLGPSGCGKSTLLRMIA 50
>gnl|CDD|30793 COG0444, DppD, ABC-type dipeptide/oligopeptide/nickel transport
system, ATPase component [Amino acid transport and
metabolism / Inorganic ion transport and metabolism].
Length = 316
Score = 26.7 bits (59), Expect = 9.3
Identities = 21/72 (29%), Positives = 29/72 (40%), Gaps = 11/72 (15%)
Query: 39 NLKVFIEAAKARAEALDHVLF----------VGPPGLGKTTLAQVVAREL-GVNFRSTSG 87
NL V +A+D V F VG G GK+ LA+ + L N R G
Sbjct: 6 NLSVSFPTDAGVVKAVDGVSFELKKGEILGIVGESGSGKSVLAKAIMGLLPKPNARIVGG 65
Query: 88 PVIAKAGDLAAL 99
++ DL +L
Sbjct: 66 EILFDGKDLLSL 77
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
0.323 0.140 0.396
Gapped
Lambda K H
0.267 0.0724 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,982,732
Number of extensions: 216442
Number of successful extensions: 1057
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1033
Number of HSP's successfully gapped: 236
Length of query: 334
Length of database: 6,263,737
Length adjustment: 94
Effective length of query: 240
Effective length of database: 4,232,491
Effective search space: 1015797840
Effective search space used: 1015797840
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 58 (26.1 bits)