RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780684|ref|YP_003065097.1| flagellum-specific ATP
synthase [Candidatus Liberibacter asiaticus str. psy62]
(438 letters)
>gnl|CDD|31351 COG1157, FliI, Flagellar biosynthesis/type III secretory pathway
ATPase [Cell motility and secretion / Intracellular
trafficking and secretion].
Length = 441
Score = 479 bits (1234), Expect = e-136
Identities = 194/444 (43%), Positives = 262/444 (59%), Gaps = 11/444 (2%)
Query: 1 MQKNLETLAQLAEDYSKNL-VVQGGYISSITSVYYTVTCLSQYVCLGDF--VVHQGKNSD 57
+ ++L L L + G ++ +T + +G+ + +
Sbjct: 2 LSRDLTHLDSLELALRNTDPYKRRGRLTRVTGLLLEAVGPQ--ARIGELCKIERSRGSEK 59
Query: 58 NLGQVIRINLDIVYICPVGIGEEISLGDLVFHWGR-FRISPSACWCGRVINALGKPIDGD 116
L +V+ N + V + P E +S G V GR + GRV++ LG+P+DG
Sbjct: 60 VLAEVVGFNEERVLLMPFEPVEGVSPGAEVVPTGRPLSVPVGDALLGRVLDGLGRPLDGG 119
Query: 117 DSLGKGDLSMEIMSKVPPAMNRQRVEKGFKTGIRVIDIFTPLCHGQRIGVFAGSGIGKST 176
L G + + P + R+ +E+ TG+R ID GQRIG+FAGSG+GKST
Sbjct: 120 -GLPDGTERRPLDAPPPNPLKRRPIEEPLDTGVRAIDGLLTCGKGQRIGIFAGSGVGKST 178
Query: 177 LLSMFARSDCFDKVIISLVGERGREVREFIEDYLGDN-LKKSVVVVATSDESPILRKMAP 235
LL M AR+ D +I+L+GERGREVREFIE LG+ LK+SVVVVATSDES ++R A
Sbjct: 179 LLGMIARNTEADVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESALMRLKAA 238
Query: 236 LTAVTIAEYFSSKGDNVLLILDSITRFAHSIREIATNSGELPVARGYPTSVFSELPRLLE 295
TA TIAEYF +G VLLI+DS+TRFA + REI +GE P +GYP SVFSELPRLLE
Sbjct: 239 FTATTIAEYFRDQGKRVLLIMDSLTRFAMAQREIGLAAGEPPATKGYPPSVFSELPRLLE 298
Query: 296 RIGPSEKEKGNITAVISVLVDGDNHNDPIADSVRSILDGHIVLNRSLAEEGRYPPVDPLA 355
R G +K G+ITA +VLV+GD+ NDPIAD VRSILDGHIVL+R+LAE G YP +D LA
Sbjct: 299 RAGNGDK--GSITAFYTVLVEGDDMNDPIADEVRSILDGHIVLSRALAEAGHYPAIDVLA 356
Query: 356 SVSRLADKAWSADEKKLVSSLTHLIHRFEETRDIRLIGGYRPGVDLILDKAVHQVPIIYD 415
S+SR+ + S + +K L L+ R+EE D+ IG Y+ G D LDKA+ P I
Sbjct: 357 SISRVMPQIVSEEHRKAARRLRQLLSRYEENEDLIRIGAYQKGSDPELDKAIKLYPKIEQ 416
Query: 416 FLKQSPSDLSS-EDVFQEITKKLQ 438
FLKQ + SS E+ +++ L
Sbjct: 417 FLKQGIDEKSSFEETLEQLEAILS 440
>gnl|CDD|30002 cd01136, ATPase_flagellum-secretory_path_III, Flagellum-specific
ATPase/type III secretory pathway virulence-related
protein. This group of ATPases are responsible for the
export of flagellum and virulence-related proteins. The
bacterial flagellar motor is similar to the F0F1-ATPase,
in that they both are proton driven rotary molecular
devices. However, the main function of the bacterial
flagellar motor is to rotate the flagellar filament for
cell motility. Intracellular pathogens such as
Salmonella and Chlamydia also have proteins which are
similar to the flagellar-specific ATPase, but function
in the secretion of virulence-related proteins via the
type III secretory pathway..
Length = 326
Score = 376 bits (968), Expect = e-105
Identities = 164/320 (51%), Positives = 221/320 (69%), Gaps = 4/320 (1%)
Query: 101 WCGRVINALGKPIDGDDSLGKGDLSMEIMSKVPPAMNRQRVEKGFKTGIRVIDIFTPLCH 160
GRV++A G+P+DG LGK ++ ++ P + R+ +++ TG+R ID +
Sbjct: 10 LLGRVLDAFGEPLDGKGPLGK-EVRYPLLRTPPNPLKRRPIDEVLPTGVRAIDGLLTVGK 68
Query: 161 GQRIGVFAGSGIGKSTLLSMFARSDCFDKVIISLVGERGREVREFIEDYLG-DNLKKSVV 219
GQR+G+FAGSG+GKSTLL M AR D +I+L+GERGREVREFIE LG + LK+SVV
Sbjct: 69 GQRLGIFAGSGVGKSTLLGMIARGTTADVNVIALIGERGREVREFIEKDLGEEGLKRSVV 128
Query: 220 VVATSDESPILRKMAPLTAVTIAEYFSSKGDNVLLILDSITRFAHSIREIATNSGELPVA 279
VVATSDESP+LR A TA IAEYF +G +VLL++DS+TRFA + REI +GE P
Sbjct: 129 VVATSDESPLLRVKAAYTATAIAEYFRDQGKDVLLLMDSLTRFAMAQREIGLAAGEPPTT 188
Query: 280 RGYPTSVFSELPRLLERIGPSEKEKGNITAVISVLVDGDNHNDPIADSVRSILDGHIVLN 339
+GYP SVF+ LPRLLER G S+K G+ITA +VLV+GD+ N+PIAD+VRSILDGHIVL+
Sbjct: 189 KGYPPSVFALLPRLLERAGNSDK--GSITAFYTVLVEGDDLNEPIADAVRSILDGHIVLS 246
Query: 340 RSLAEEGRYPPVDPLASVSRLADKAWSADEKKLVSSLTHLIHRFEETRDIRLIGGYRPGV 399
R+LA G YP +D L S+SRL + + + K+ L L+ ++E D+ IG Y+ G
Sbjct: 247 RALAAAGHYPAIDVLKSISRLMNAVVTPEHKEAARKLRELLSAYQEVEDLIRIGAYKKGS 306
Query: 400 DLILDKAVHQVPIIYDFLKQ 419
D +D+A+ +P I FLKQ
Sbjct: 307 DPEVDEAIKLLPKIEAFLKQ 326
>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 = 292 bits (750), Expect = 1e-79
Identities = 123/214 (57%), Positives = 151/214 (70%), Gaps = 3/214 (1%)
Query: 147 TGIRVIDIFTPLCHGQRIGVFAGSGIGKSTLLSMFARSDCFDKV-IISLVGERGREVREF 205
TGIR ID+ P+ GQRIG+F GSG GK+ LL M AR+ D V + L+GERGREV EF
Sbjct: 1 TGIRAIDLLLPIGKGQRIGIFGGSGTGKTVLLGMIARNAKADVVEVYVLIGERGREVAEF 60
Query: 206 IEDYLG-DNLKKSVVVVATSDESPILRKMAPLTAVTIAEYFSSKGDNVLLILDSITRFAH 264
IE+ LG LK++VVV ATSDE P R +AP TA+TIAEYF +G +VLL+LDS+TRFA
Sbjct: 61 IEELLGEGALKRTVVVAATSDEPPAERYLAPYTALTIAEYFRDQGKDVLLLLDSLTRFAR 120
Query: 265 SIREIATNSGELPVARGYPTSVFSELPRLLERIGPSEKEKGNITAVISVLVDGDNHNDPI 324
++REI+ GE P GYP S+FS+L RLLER G E G+ITA+ +VLV G + DPI
Sbjct: 121 ALREISLLLGEPPGREGYPGSLFSDLARLLERAGKVE-GGGSITALPTVLVPGGDITDPI 179
Query: 325 ADSVRSILDGHIVLNRSLAEEGRYPPVDPLASVS 358
D+ SI DG IVL+R LAE G YP +D L SVS
Sbjct: 180 PDNTISITDGQIVLSRELAERGIYPAIDILLSVS 213
>gnl|CDD|30404 COG0055, AtpD, F0F1-type ATP synthase, beta subunit [Energy
production and conversion].
Length = 468
Score = 175 bits (445), Expect = 3e-44
Identities = 99/299 (33%), Positives = 157/299 (52%), Gaps = 9/299 (3%)
Query: 103 GRVINALGKPIDGDDSLGKGDLSMEIMSKVPPAMNRQRVEKG-FKTGIRVIDIFTPLCHG 161
GR+ N LG+PID + D + + P+ + +TGI+VID+ P G
Sbjct: 88 GRIFNVLGEPIDEKGPIKAEDFEKWPIHRKAPSFEELSTKTEILETGIKVIDLLAPYAKG 147
Query: 162 QRIGVFAGSGIGKSTLLSMFARSDCFDKVIISL---VGERGREVREFIEDYLGDN-LKKS 217
+IG+F G+G+GK+ L+ + + S+ VGER RE + + L K+
Sbjct: 148 GKIGLFGGAGVGKTVLIQELINNIAKEHGGYSVFAGVGERTREGNDLYHEMKESGVLDKT 207
Query: 218 VVVVATSDESPILRKMAPLTAVTIAEYF-SSKGDNVLLILDSITRFAHSIREIATNSGEL 276
+V +E P R LT +T+AEYF +G +VLL +D+I RF + E++ G +
Sbjct: 208 ALVFGQMNEPPGARMRVALTGLTMAEYFRDEEGQDVLLFIDNIFRFTQAGSEVSALLGRM 267
Query: 277 PVARGYPTSVFSELPRLLERIGPSEKEKGNITAVISVLVDGDNHNDPIADSVRSILDGHI 336
P A GY ++ +E+ +L ERI + +KG+IT+V +V V D+ DP + + LD
Sbjct: 268 PSAVGYQPTLATEMGQLQERI--TSTKKGSITSVQAVYVPADDLTDPAPATTFAHLDATT 325
Query: 337 VLNRSLAEEGRYPPVDPLASVSRLADKAWSADEK-KLVSSLTHLIHRFEETRDIRLIGG 394
VL+R +A G YP VDPL S SR D +E ++ + ++ R++E +DI I G
Sbjct: 326 VLSRQIAALGIYPAVDPLDSTSRALDPKIVGEEHYEVAREVQSILQRYKELQDIIAILG 384
>gnl|CDD|29999 cd01133, F1-ATPase_beta, F1 ATP synthase beta subunit,
nucleotide-binding domain. The F-ATPase is found in
bacterial plasma membranes, mitochondrial inner
membranes and in chloroplast thylakoid membranes. It has
also been found in the archaea Methanosarcina barkeri.
It uses a proton gradient to drive ATP synthesis and
hydrolyzes ATP to build the proton gradient. The
extrinisic membrane domain, F1, is composed of alpha,
beta, gamma, delta and epsilon subunits with a
stoichiometry of 3:3:1:1:1. The beta subunit of ATP
synthase is catalytic..
Length = 274
Score = 174 bits (442), Expect = 6e-44
Identities = 95/266 (35%), Positives = 146/266 (54%), Gaps = 10/266 (3%)
Query: 103 GRVINALGKPIDGDDSLGKGDLSMEIMSKVPPAMNRQRVEKGFKTGIRVIDIFTPLCHGQ 162
GR+ N LG+PID + K + I + P + + + +TGI+VID+ P G
Sbjct: 12 GRIFNVLGEPIDERGPI-KTKKTWPIHREAPEFVEQSTKTEILETGIKVIDLLAPYAKGG 70
Query: 163 RIGVFAGSGIGKSTLL----SMFARSDCFDKVIISLVGERGREVREFIEDYLGDN-LKKS 217
+IG+F G+G+GK+ L+ + A++ V VGER RE + + L K+
Sbjct: 71 KIGLFGGAGVGKTVLIMELINNIAKAHGGYSVFAG-VGERTREGNDLYHEMKESGVLSKT 129
Query: 218 VVVVATSDESPILRKMAPLTAVTIAEYF-SSKGDNVLLILDSITRFAHSIREIATNSGEL 276
+V +E P R LT +T+AEYF +G +VLL +D+I RF + E++ G +
Sbjct: 130 ALVYGQMNEPPGARARVALTGLTMAEYFRDEEGQDVLLFIDNIFRFTQAGSEVSALLGRM 189
Query: 277 PVARGYPTSVFSELPRLLERIGPSEKEKGNITAVISVLVDGDNHNDPIADSVRSILDGHI 336
P A GY ++ +E+ L ERI + +KG+IT+V +V V D+ DP + + LD
Sbjct: 190 PSAVGYQPTLATEMGALQERI--TSTKKGSITSVQAVYVPADDLTDPAPATTFAHLDATT 247
Query: 337 VLNRSLAEEGRYPPVDPLASVSRLAD 362
VL+R++AE G YP VDPL S SR+ D
Sbjct: 248 VLSRAIAELGIYPAVDPLDSTSRILD 273
>gnl|CDD|31350 COG1156, NtpB, Archaeal/vacuolar-type H+-ATPase subunit B [Energy
production and conversion].
Length = 463
Score = 168 bits (426), Expect = 3e-42
Identities = 99/357 (27%), Positives = 167/357 (46%), Gaps = 22/357 (6%)
Query: 56 SDNLGQVIRINLDIVYICPVGIGEEISLGD-LVFHWGR-FRISPSACWCGRVINALGKPI 113
GQV+ + D + + V G +I S GR+ N GKPI
Sbjct: 40 EVRRGQVLEVRGDKAVVQVFEGTSGLDTKGTTVRFTGETLKIPVSEDLLGRIFNGSGKPI 99
Query: 114 DGDDSLGKGDLSMEIMSKVPPAMN---RQRVEKGFKTGIRVIDIFTPLCHGQRIGVFAGS 170
DG + D ++I +N R E+ +TGI ID L GQ++ +F+GS
Sbjct: 100 DGGPEIVPEDR-LDING---APINPYARIYPEEFIQTGISAIDGMNTLVRGQKLPIFSGS 155
Query: 171 GIGKSTLLSMFAR------SDCFDKVIISLVGERGREVREFIEDY-LGDNLKKSVVVVAT 223
G+ + L + AR + V+ + +G E F++++ L ++V+ +
Sbjct: 156 GLPHNELAAQIARQATVDGEEEEFAVVFAAMGITHEEALFFMDEFEETGALDRAVLFLNL 215
Query: 224 SDESPILRKMAPLTAVTIAEYFS-SKGDNVLLILDSITRFAHSIREIATNSGELPVARGY 282
+D+ + R + P A+T+AEY + K +VL+IL +T + ++REI+ E+P RGY
Sbjct: 216 ADDPAVERIITPRMALTVAEYLAFEKDMHVLVILTDMTNYCEALREISAAREEVPGRRGY 275
Query: 283 PTSVFSELPRLLERIGPSEKEKGNITAVISVLVDGDNHNDPIADSVRSILDGHIVLNRSL 342
P ++++L + ER G KG+IT + + + GD+ PI D I +G IVL+R L
Sbjct: 276 PGYMYTDLATIYERAGRIRGRKGSITQIPILTMPGDDITHPIPDLTGYITEGQIVLSRDL 335
Query: 343 AEEGRYPPVDPLASVSRLADKAWS-----ADEKKLVSSLTHLIHRFEETRDIRLIGG 394
+G YPP++ L S+SRL D + + L + R++ + G
Sbjct: 336 HRKGIYPPINVLPSLSRLMKDGIGEGKTREDHGDVSNQLYAAYAEGRDLRELVAVVG 392
>gnl|CDD|30001 cd01135, V_A-ATPase_B, V/A-type ATP synthase (non-catalytic)
subunit B. These ATPases couple ATP hydrolysis to the
build up of a H+ gradient, but V-type ATPases do not
catalyze the reverse reaction. The Vacuolar (V-type)
ATPase is found in the membranes of vacuoles, the golgi
apparatus and in other coated vesicles in eukaryotes.
Archaea have a protein which is similar in sequence to
V-ATPases, but functions like an F-ATPase (called
A-ATPase). A similar protein is also found in a few
bacteria. This subfamily consists of the non-catalytic
beta subunit..
Length = 276
Score = 159 bits (404), Expect = 1e-39
Identities = 90/269 (33%), Positives = 144/269 (53%), Gaps = 15/269 (5%)
Query: 103 GRVINALGKPIDGDDSLGKGDLSMEIMSKVPPAMN---RQRVEKGFKTGIRVIDIFTPLC 159
GR+ N GKPIDG + + ++I P +N R E+ +TGI ID L
Sbjct: 12 GRIFNGSGKPIDGGPEILAEEY-LDING---PPINPVARIYPEEMIQTGISAIDGMNTLV 67
Query: 160 HGQRIGVFAGSGIGKSTLLSMFAR------SDCFDKVIISLVGERGREVREFIEDY-LGD 212
GQ+I +F+GSG+ + L + AR + V+ + +G + R F +D+
Sbjct: 68 RGQKIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETG 127
Query: 213 NLKKSVVVVATSDESPILRKMAPLTAVTIAEYFS-SKGDNVLLILDSITRFAHSIREIAT 271
L++ V+ + +++ I R + P A+T AEY + KG +VL+IL +T +A ++REI+
Sbjct: 128 ALERVVLFLNLANDPTIERIITPRMALTTAEYLAYEKGKHVLVILTDMTNYAEALREISA 187
Query: 272 NSGELPVARGYPTSVFSELPRLLERIGPSEKEKGNITAVISVLVDGDNHNDPIADSVRSI 331
E+P RGYP ++++L + ER G E G+IT + + + D+ PI D I
Sbjct: 188 AREEVPGRRGYPGYMYTDLATIYERAGRVEGRNGSITQIPILTMPNDDITHPIPDLTGYI 247
Query: 332 LDGHIVLNRSLAEEGRYPPVDPLASVSRL 360
+G IVL+R L G YPP++ L S+SRL
Sbjct: 248 TEGQIVLDRQLHNRGIYPPINVLPSLSRL 276
>gnl|CDD|30405 COG0056, AtpA, F0F1-type ATP synthase, alpha subunit [Energy
production and conversion].
Length = 504
Score = 152 bits (385), Expect = 2e-37
Identities = 96/332 (28%), Positives = 152/332 (45%), Gaps = 7/332 (2%)
Query: 60 GQVIRINLDIVYICPVGIGEEISLGDLVFHWGRFRISP-SACWCGRVINALGKPIDGDDS 118
G + + D V +G +I GD V GR P GRV++ALG PIDG
Sbjct: 61 GMALNLEEDSVGAVILGDYSDIKEGDEVKRTGRILEVPVGEELLGRVVDALGNPIDGKGP 120
Query: 119 LGKGDLSMEIMSKVPPAMNRQRVEKGFKTGIRVIDIFTPLCHGQRIGVFAGSGIGKSTLL 178
+ + + K P M+R+ V + +TGI+ ID P+ GQR + GK+ +
Sbjct: 121 I-DATKTRPVEKKAPGVMDRKSVNEPLQTGIKAIDALIPIGRGQRELIIGDRQTGKTAIA 179
Query: 179 --SMFARSDCFDKVIISLVGERGREVREFIEDYL-GDNLKKSVVVVATSDESPILRKMAP 235
++ + K I +G++ V + + ++VV A++ +S L+ +AP
Sbjct: 180 IDTIINQKGSGVKCIYVAIGQKRSTVANVVRTLEEHGAMDYTIVVAASASDSAPLQYLAP 239
Query: 236 LTAVTIAEYFSSKGDNVLLILDSITRFAHSIREIATNSGELPVARGYPTSVFSELPRLLE 295
+AEYF G +VL++ D +++ A + REI+ P YP VF RLLE
Sbjct: 240 YAGCAMAEYFRDNGKDVLIVYDDLSKHAVAYREISLLLRRPPGREAYPGDVFYLHSRLLE 299
Query: 296 RIGP--SEKEKGNITAVISVLVDGDNHNDPIADSVRSILDGHIVLNRSLAEEGRYPPVDP 353
R E G+ITA+ + + + I +V SI DG I L L G P ++
Sbjct: 300 RAAKLSDELGGGSITALPIIETQAGDVSAYIPTNVISITDGQIFLETDLFNAGIRPAINV 359
Query: 354 LASVSRLADKAWSADEKKLVSSLTHLIHRFEE 385
SVSR+ A KK+ SL ++ ++ E
Sbjct: 360 GLSVSRVGSAAQIKAMKKVAGSLRLILAQYRE 391
>gnl|CDD|36564 KOG1350, KOG1350, KOG1350, F0F1-type ATP synthase, beta subunit
[Energy production and conversion].
Length = 521
Score = 151 bits (383), Expect = 3e-37
Identities = 99/305 (32%), Positives = 157/305 (51%), Gaps = 17/305 (5%)
Query: 103 GRVINALGKPIDGDDSLGKGDLSMEIMSKVPPAMNRQRVEKGFKTGIRVIDIFTPLCHGQ 162
GR++N +G+PID + K I ++ P + ++ TGI+V+D+ P G
Sbjct: 134 GRIMNVIGEPIDERGPI-KSKKYSPIHAEAPEFVEMSVEQEILVTGIKVVDLLAPYAKGG 192
Query: 163 RIGVFAGSGIGKST----LLSMFARSDCFDKVIISLVGERGRE----VREFIED---YLG 211
+IG+F G+G+GK+ L++ A++ V VGER RE E IE L
Sbjct: 193 KIGLFGGAGVGKTVLIMELINNIAKAHGGYSVFAG-VGERTREGNDLYHEMIESGVINLE 251
Query: 212 DNLKKSVVVVATSDESPILRKMAPLTAVTIAEYFSS-KGDNVLLILDSITRFAHSIREIA 270
K +V +E P R LT +T+AEYF +G +VLL +D+I RF + E++
Sbjct: 252 GETSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVS 311
Query: 271 TNSGELPVARGYPTSVFSELPRLLERIGPSEKEKGNITAVISVLVDGDNHNDPIADSVRS 330
G +P A GY ++ +++ + ERI + +KG+IT+V +V V D+ DP + +
Sbjct: 312 ALLGRIPSAVGYQPTLATDMGTMQERI--TTTKKGSITSVQAVYVPADDLTDPAPATTFA 369
Query: 331 ILDGHIVLNRSLAEEGRYPPVDPLASVSRLADKAWSADEK-KLVSSLTHLIHRFEETRDI 389
LD VL+R +AE G YP VDPL S SR+ D +E + + + ++ +DI
Sbjct: 370 HLDATTVLSRGIAELGIYPAVDPLDSTSRIMDPNIVGEEHYNVARGVQKTLQDYKSLQDI 429
Query: 390 RLIGG 394
I G
Sbjct: 430 IAILG 434
>gnl|CDD|177000 CHL00060, atpB, ATP synthase CF1 beta subunit.
Length = 494
Score = 126 bits (319), Expect = 9e-30
Identities = 101/288 (35%), Positives = 145/288 (50%), Gaps = 55/288 (19%)
Query: 103 GRVINALGKPIDGDDSLGKGDLSMEIMS---KVPPAMNRQRVEKG--FKTGIRVIDIFTP 157
GR+ N LG+P+D G + S + PA Q K F+TGI+V+D+ P
Sbjct: 104 GRIFNVLGEPVDN-----LGPVDTRTTSPIHRSAPAF-IQLDTKLSIFETGIKVVDLLAP 157
Query: 158 LCHGQRIGVFAGSGIGKSTLL--------------SMFARSDCFDKVIISLVGERGRE-- 201
G +IG+F G+G+GK+ L+ S+F VGER RE
Sbjct: 158 YRRGGKIGLFGGAGVGKTVLIMELINNIAKAHGGVSVFGG-----------VGERTREGN 206
Query: 202 -----VRE--FIEDYLGDNLKKSVV--VVATSDESPILRKMAPLTAVTIAEYF--SSKGD 250
++E I + N+ +S V V +E P R LTA+T+AEYF +K D
Sbjct: 207 DLYMEMKESGVINE---QNIAESKVALVYGQMNEPPGARMRVGLTALTMAEYFRDVNKQD 263
Query: 251 NVLLILDSITRFAHSIREIATNSGELPVARGYPTSVFSELPRLLERIGPSEKEKGNITAV 310
VLL +D+I RF + E++ G +P A GY ++ +E+ L ERI S KE G+IT++
Sbjct: 264 -VLLFIDNIFRFVQAGSEVSALLGRMPSAVGYQPTLSTEMGSLQERI-TSTKE-GSITSI 320
Query: 311 ISVLVDGDNHNDPIADSVRSILDGHIVLNRSLAEEGRYPPVDPLASVS 358
+V V D+ DP + + LD VL+R LA +G YP VDPL S S
Sbjct: 321 QAVYVPADDLTDPAPATTFAHLDATTVLSRGLAAKGIYPAVDPLDSTS 368
>gnl|CDD|29998 cd01132, F1_ATPase_alpha, F1 ATP synthase alpha, central domain.
The F-ATPase is found in bacterial plasma membranes,
mitochondrial inner membranes and in chloroplast
thylakoid membranes. It has also been found in the
archaea Methanosarcina barkeri. It uses a proton
gradient to drive ATP synthesis and hydrolyzes ATP to
build the proton gradient. The extrinisic membrane
domain, F1, is composed of alpha, beta, gamma, delta and
epsilon subunits with a stoichiometry of 3:3:1:1:1. The
alpha subunit of the F1 ATP synthase can bind
nucleotides, but is non-catalytic..
Length = 274
Score = 117 bits (296), Expect = 4e-27
Identities = 77/265 (29%), Positives = 129/265 (48%), Gaps = 10/265 (3%)
Query: 103 GRVINALGKPIDGDDSLGKGDLSMEIMSKVPPAMNRQRVEKGFKTGIRVIDIFTPLCHGQ 162
GRV++ALG PIDG + + I SK P + R+ V + +TGI+ ID P+ GQ
Sbjct: 12 GRVVDALGNPIDGKGPI-ETKERRPIESKAPGIIPRKSVNEPLQTGIKAIDAMIPIGRGQ 70
Query: 163 RIGVFAGSGIGKSTLL--SMFARSDCFDKVIISLVGERGREVREFI---EDYLGDNLKKS 217
R + GK+ + ++ + I +G++ V + + E++ ++ +
Sbjct: 71 RELIIGDRQTGKTAIAIDTIINQKGKKVYCIYVAIGQKASTVAQVVKTLEEH--GAMEYT 128
Query: 218 VVVVATSDESPILRKMAPLTAVTIAEYFSSKGDNVLLILDSITRFAHSIREIATNSGELP 277
+VV AT+ + L+ +AP T + EYF G + L+I D +++ A + R+++ P
Sbjct: 129 IVVAATASDPAPLQYLAPYTGCAMGEYFMDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 188
Query: 278 VARGYPTSVFSELPRLLERIGPSEKEK--GNITAVISVLVDGDNHNDPIADSVRSILDGH 335
YP VF RLLER E G++TA+ + + + I +V SI DG
Sbjct: 189 GREAYPGDVFYLHSRLLERAAKLNDELGGGSLTALPIIETQAGDVSAYIPTNVISITDGQ 248
Query: 336 IVLNRSLAEEGRYPPVDPLASVSRL 360
I L L +G P ++ SVSR+
Sbjct: 249 IFLETDLFNKGIRPAINVGLSVSRV 273
>gnl|CDD|31349 COG1155, NtpA, Archaeal/vacuolar-type H+-ATPase subunit A [Energy
production and conversion].
Length = 588
Score = 116 bits (293), Expect = 8e-27
Identities = 92/344 (26%), Positives = 156/344 (45%), Gaps = 33/344 (9%)
Query: 121 KGDLSMEIMSKVP-----PAMNRQRVEKGFKTGIRVIDIFTPLCHGQRIGVFAGSGIGKS 175
G++ +++M+ P P + E TG RVID P+ G V G GK+
Sbjct: 179 GGEVDVQMMTTWPVRKARPVKRKLPPEIPLVTGQRVIDTLFPVAKGGTAAVPGPFGSGKT 238
Query: 176 TLLSMFARSDCFDKVIISLVGERGREVREFIEDYL-------GDNLKKSVVVVATSDESP 228
++ D VI GERG E+ E ++++ G L V++A + P
Sbjct: 239 VSQHTLSKLADGDIVIYVGCGERGNEMTEVLQEFPELKDPNTGQPLMDRTVLIANTSNMP 298
Query: 229 ILRKMAPL-TAVTIAEYFSSKGDNVLLILDSITRFAHSIREIATNSGELPVARGYPTSVF 287
+ + A + T +TIAEY+ G +V L+ DS +R+A ++REI+ E+P GYP +
Sbjct: 299 VAAREASIYTGITIAEYYRDMGYDVALMADSTSRWAEALREISGRLEEMPGEEGYPAYLG 358
Query: 288 SELPRLLERIG-----PSEKEKGNITAVISVLVDGDNHNDPIADSVRSILDGHIVLNRSL 342
S L ER G E+ G+IT + +V G + ++P+ + ++ L+ +L
Sbjct: 359 SRLAEFYERAGRVRLVSPEERFGSITVIGAVSPPGGDFSEPVTQNTLRVVRVFWALDAAL 418
Query: 343 AEEGRYPPVDPLASVSRLAD--KAW-----SADEKKLVSSLTHLIHRFEETRDI-RLIG- 393
A +P ++ L S S + ++W S + L ++ R E ++I +L+G
Sbjct: 419 ANRRHFPSINWLNSYSLYTEDLRSWYDENVSPEWGALRDQAMEILQRESELQEIVQLVGY 478
Query: 394 -GYRPGVDLILDKAVHQVPIIYDFLKQSPSDLSSEDVFQEITKK 436
ILD A I DFL+Q+ D D + + K+
Sbjct: 479 DALPEKEKSILDVARI---IREDFLQQNAFD--EIDAYCSLRKQ 517
>gnl|CDD|30000 cd01134, V_A-ATPase_A, V/A-type ATP synthase catalytic subunit A.
These ATPases couple ATP hydrolysis to the build up of a
H+ gradient, but V-type ATPases do not catalyze the
reverse reaction. The Vacuolar (V-type) ATPase is found
in the membranes of vacuoles, the golgi apparatus and in
other coated vesicles in eukaryotes. Archaea have a
protein which is similar in sequence to V-ATPases, but
functions like an F-ATPase (called A-ATPase). A similar
protein is also found in a few bacteria..
Length = 369
Score = 115 bits (290), Expect = 2e-26
Identities = 73/242 (30%), Positives = 120/242 (49%), Gaps = 19/242 (7%)
Query: 134 PAMNRQRVEKGFKTGIRVIDIFTPLCHGQRIGVFAGSGIGKSTL---LSMFARSDCFDKV 190
P + + TG RV+D P+ G + G GK+ + LS ++ SD V
Sbjct: 130 PVKEKLPPNEPLLTGQRVLDTLFPVVKGGTAAIPGPFGCGKTVIQQSLSKYSNSDI---V 186
Query: 191 IISLVGERGREVREFIEDYL-------GDNLKKSVVVVATSDESPILRKMAPL-TAVTIA 242
I GERG E+ E +E++ G+ L K V++A + P+ + A + T +TIA
Sbjct: 187 IYVGCGERGNEMTEVLEEFPELTDPVTGEPLMKRTVLIANTSNMPVAAREASIYTGITIA 246
Query: 243 EYFSSKGDNVLLILDSITRFAHSIREIATNSGELPVARGYPTSVFSELPRLLERIGP--- 299
EYF G NV L+ DS +R+A ++REI+ E+P GYP + + L ER G
Sbjct: 247 EYFRDMGYNVALMADSTSRWAEALREISGRLEEMPGEEGYPAYLGARLASFYERAGRVKC 306
Query: 300 --SEKEKGNITAVISVLVDGDNHNDPIADSVRSILDGHIVLNRSLAEEGRYPPVDPLASV 357
S +G++T V +V G + ++P+ + I+ L++ LA+ +P ++ L S
Sbjct: 307 LGSPGREGSVTIVGAVSPPGGDFSEPVTQATLRIVQVFWGLDKKLAQRRHFPSINWLISY 366
Query: 358 SR 359
S+
Sbjct: 367 SK 368
>gnl|CDD|36565 KOG1351, KOG1351, KOG1351, Vacuolar H+-ATPase V1 sector, subunit B
[Energy production and conversion].
Length = 489
Score = 113 bits (283), Expect = 1e-25
Identities = 76/289 (26%), Positives = 140/289 (48%), Gaps = 18/289 (6%)
Query: 93 FRISPSACWCGRVINALGKPIDGDDSLGKGDLSMEIMSKVPPAMNRQRVEKGFKTGIRVI 152
R S GR+ N GKPID + D ++I + R E+ +TGI I
Sbjct: 96 LRTPVSEDMLGRIFNGSGKPIDKGPPVLAEDY-LDINGQPINPYARIYPEEMIQTGISAI 154
Query: 153 DIFTPLCHGQRIGVFAGSGIGKSTLLSMFARSDCFDK---------------VIISLVGE 197
D+ + GQ+I +F+ +G+ + + + R K ++ + +G
Sbjct: 155 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKRPEKDVHDGHEDNFAIVFAAMGV 214
Query: 198 RGREVREFIEDYLGD-NLKKSVVVVATSDESPILRKMAPLTAVTIAEYFSSK-GDNVLLI 255
R F +D+ + ++++ + + +++ I R + P A+T AE+ + + +VL+I
Sbjct: 215 NMETARFFKQDFEENGSMERVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVI 274
Query: 256 LDSITRFAHSIREIATNSGELPVARGYPTSVFSELPRLLERIGPSEKEKGNITAVISVLV 315
L ++ +A ++RE++ E+P RGYP ++++L + ER G E G+IT + + +
Sbjct: 275 LTDMSSYADALREVSAAREEVPGRRGYPGYMYTDLATIYERAGRVEGRNGSITQIPILTM 334
Query: 316 DGDNHNDPIADSVRSILDGHIVLNRSLAEEGRYPPVDPLASVSRLADKA 364
D+ PI D I +G I ++R L YPP++ L S+SRL A
Sbjct: 335 PNDDITHPIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSA 383
>gnl|CDD|36566 KOG1352, KOG1352, KOG1352, Vacuolar H+-ATPase V1 sector, subunit A
[Energy production and conversion].
Length = 618
Score = 98.9 bits (246), Expect = 2e-21
Identities = 67/232 (28%), Positives = 115/232 (49%), Gaps = 23/232 (9%)
Query: 147 TGIRVIDIFTPLCHGQRIGVFAGSGIGKSTL---LSMFARSDCFDKVIISL-VGERGREV 202
TG RV+D P G + G GK+ + LS ++ SD II + GERG E+
Sbjct: 231 TGQRVLDALFPCVQGGTTAIPGAFGCGKTVISQSLSKYSNSD----AIIYVGCGERGNEM 286
Query: 203 REFIEDY---------LGDNLKKSVVVVATSDESPILRKMAPL-TAVTIAEYFSSKGDNV 252
E + D+ +++ K +VA + P+ + A + T +T++EYF G NV
Sbjct: 287 SEVLMDFPELTMEVDGKTESIMKRTALVANTSNMPVAAREASIYTGITLSEYFRDMGYNV 346
Query: 253 LLILDSITRFAHSIREIATNSGELPVARGYPTSVFSELPRLLERIGP-----SEKEKGNI 307
++ DS +R+A ++REI+ E+P GYP + + L ER G S +G++
Sbjct: 347 SMMADSTSRWAEALREISGRLAEMPADSGYPAYLGARLASFYERAGRVKCLGSPDREGSV 406
Query: 308 TAVISVLVDGDNHNDPIADSVRSILDGHIVLNRSLAEEGRYPPVDPLASVSR 359
+ V +V G + +DP+ + I+ L++ LA+ +P ++ L S S+
Sbjct: 407 SIVGAVSPPGGDFSDPVTSATLGIVQVFWGLDKKLAQRKHFPSINWLISYSK 458
>gnl|CDD|176999 CHL00059, atpA, ATP synthase CF1 alpha subunit.
Length = 485
Score = 93.9 bits (234), Expect = 8e-20
Identities = 98/338 (28%), Positives = 158/338 (46%), Gaps = 40/338 (11%)
Query: 56 SDNLGQVIRINLDIVYICPVGIGEEISLGDLVFHWGRF-RISPSACWCGRVINALGKPID 114
S+N+G V+ +G G I G V G+ +I S + GRV+NAL KPID
Sbjct: 47 SNNVGVVL-----------MGDGLMIQEGSSVKATGKIAQIPVSEAYLGRVVNALAKPID 95
Query: 115 GDDSLGKGDLSME----IMSKVPPAMNRQRVEKGFKTGIRVIDIFTPLCHGQRIGVFAGS 170
G KG++S I S P ++R+ V + +TG+ ID P+ GQR +
Sbjct: 96 G-----KGEISASESRLIESPAPGIISRRSVYEPLQTGLIAIDSMIPIGRGQRELIIGDR 150
Query: 171 GIGKS-----TLLSMFARSDCFDKVIISLV--GERG---REVREFIEDYLGDNLKKSVVV 220
GK+ T+L+ + VI V G++ +V +++ ++ ++VV
Sbjct: 151 QTGKTAVATDTILNQKGQ-----NVICVYVAIGQKASSVAQVVTTLQE--RGAMEYTIVV 203
Query: 221 VATSDESPILRKMAPLTAVTIAEYFSSKGDNVLLILDSITRFAHSIREIATNSGELPVAR 280
T+D L+ +AP T +AEYF +G + L+I D +++ A + R+++ P
Sbjct: 204 AETADSPATLQYLAPYTGAALAEYFMYRGRHTLIIYDDLSKQAQAYRQMSLLLRRPPGRE 263
Query: 281 GYPTSVFSELPRLLERIGPSEKE--KGNITAVISVLVDGDNHNDPIADSVRSILDGHIVL 338
YP VF RLLER + +G++TA+ V + + I +V SI DG I L
Sbjct: 264 AYPGDVFYLHSRLLERAAKLSSQLGEGSMTALPIVETQAGDVSAYIPTNVISITDGQIFL 323
Query: 339 NRSLAEEGRYPPVDPLASVSRLADKAWSADEKKLVSSL 376
+ L G P ++ SVSR+ A K++ L
Sbjct: 324 SADLFNAGIRPAINVGISVSRVGSAAQIKAMKQVAGKL 361
>gnl|CDD|29994 cd01128, rho_factor, Transcription termination factor rho is a
bacterial ATP-dependent RNA/DNA helicase. It is a
homohexamer. Each monomer consists of an N-terminal
domain of the OB fold, which is responsible for binding
to cysteine rich nucleotides. This alignment is of the
C-terminal ATP binding domain..
Length = 249
Score = 76.4 bits (188), Expect = 1e-14
Identities = 66/256 (25%), Positives = 114/256 (44%), Gaps = 29/256 (11%)
Query: 150 RVIDIFTPLCHGQRIGVFAGSGIGKSTLLSMFARS------DCFDKVIISLVGERGREVR 203
RV+D+F P+ GQR + A GK+TLL A + + + +I+ L+ ER EV
Sbjct: 5 RVVDLFAPIGKGQRGLIVAPPKAGKTTLLQSIANAITKNHPEVY--LIVLLIDERPEEVT 62
Query: 204 EFIEDYLGDNLKKSVVVVATSDESPILRKMAPLTAVTIAEYFSSKGDNVLLILDSITRFA 263
+ G+ V+ +T DE P + A+ G +V+++LDSITR A
Sbjct: 63 DMQRSVKGE------VIASTFDEPPERHVQVAEMVLEKAKRLVEHGKDVVILLDSITRLA 116
Query: 264 HSIREIATNSGEL------PVARGYPTSVFSELPRLLERIGPSEKEKGNITAVISVLVD- 316
+ + SG++ A P F R +E E G++T + + LVD
Sbjct: 117 RAYNTVVPPSGKILSGGVDANALHKPKRFFGA-ARNIE-------EGGSLTIIATALVDT 168
Query: 317 GDNHNDPIADSVRSILDGHIVLNRSLAEEGRYPPVDPLASVSRLADKAWSADEKKLVSSL 376
G +D I + + + +VL+R LAE +P +D L S +R + +E + + L
Sbjct: 169 GSRMDDVIFEEFKGTGNMELVLDRRLAERRIFPAIDILKSGTRKEELLLDPEELQRMWLL 228
Query: 377 THLIHRFEETRDIRLI 392
++ + + +
Sbjct: 229 RRVLSDMDPIEAMEFL 244
>gnl|CDD|29986 cd01120, RecA-like_NTPases, RecA-like NTPases. This family includes
the NTP binding domain of F1 and V1 H+ATPases, DnaB and
related helicases as well as bacterial RecA and related
eukaryotic and archaeal recombinases. This group also
includes bacterial conjugation proteins and related DNA
transfer proteins involved in type II and type IV
secretion..
Length = 165
Score = 73.2 bits (179), Expect = 1e-13
Identities = 56/185 (30%), Positives = 84/185 (45%), Gaps = 27/185 (14%)
Query: 163 RIGVFAGSGIGKSTLLSMFAR--SDCFDKVIISLVGERGREVREF-IEDYLGDNLKKSVV 219
I VF +G GK+TL A + KV+ + E E+ E I + L L ++
Sbjct: 1 LILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEELTERLIGESLKGALDNLII 60
Query: 220 VVATSDESPILRKMAPLTAVTIAEYFSSKGDNVLLILDSITRFAHSIREIATNSGELPVA 279
V AT+D+ R + + AE +G + L+ILD +TR ++REI
Sbjct: 61 VFATADDPAAARLL------SKAERLRERGGDDLIILDELTRLVRALREI---------R 105
Query: 280 RGYPTSVFSELPRLLERIGPSEKEKGNITAVISVLVDGDNHNDP----IADSVRSILDGH 335
GYP + EL LLER KG +T + ++ V + DP A ++ I D
Sbjct: 106 EGYPGELDEELRELLERAR-----KGGVTVIFTLQVPSGDKGDPRLTRGAQNLEDIADTV 160
Query: 336 IVLNR 340
IVL+R
Sbjct: 161 IVLSR 165
>gnl|CDD|31352 COG1158, Rho, Transcription termination factor [Transcription].
Length = 422
Score = 72.6 bits (178), Expect = 2e-13
Identities = 69/256 (26%), Positives = 116/256 (45%), Gaps = 29/256 (11%)
Query: 150 RVIDIFTPLCHGQRIGVFAGSGIGKSTLLSMFARS------DCFDKVIISLVGERGREVR 203
RVID+ +P+ GQR + A GK+TLL A + +C ++I+ L+ ER EV
Sbjct: 162 RVIDLISPIGKGQRGLIVAPPKAGKTTLLQNIANAITTNHPEC--ELIVLLIDERPEEVT 219
Query: 204 EFIEDYLGDNLKKSVVVVATSDESPILRKMAPLTAVTIAEYFSSKGDNVLLILDSITRFA 263
+ G+ VV +T DE P + A+ G +V+++LDSITR A
Sbjct: 220 DMQRSVKGE------VVASTFDEPPSRHVQVAEMVIEKAKRLVEHGKDVVILLDSITRLA 273
Query: 264 HSIREIATNSGEL------PVARGYPTSVFSELPRLLERIGPSEKEKGNITAVISVLVD- 316
+ + +SG++ A P F R +E E G++T + + LVD
Sbjct: 274 RAYNTVVPSSGKVLSGGVDANALHRPKRFFGA-ARNIE-------EGGSLTIIATALVDT 325
Query: 317 GDNHNDPIADSVRSILDGHIVLNRSLAEEGRYPPVDPLASVSRLADKAWSADEKKLVSSL 376
G ++ I + + + + L+R LAE +P +D S +R + S DE + + L
Sbjct: 326 GSRMDEVIFEEFKGTGNMELHLDRKLAERRIFPAIDINKSGTRKEELLLSPDELQKMWVL 385
Query: 377 THLIHRFEETRDIRLI 392
++ +E I +
Sbjct: 386 RRILSPMDEIDAIEFL 401
>gnl|CDD|36567 KOG1353, KOG1353, KOG1353, F0F1-type ATP synthase, alpha subunit
[Energy production and conversion].
Length = 340
Score = 45.7 bits (108), Expect = 2e-05
Identities = 46/194 (23%), Positives = 84/194 (43%), Gaps = 21/194 (10%)
Query: 60 GQVIRINLDIVYICPVGIGEEISLGDLVFHWGRF-RISPSACWCGRVINALGKPIDGDDS 118
G + + + V + G I GD V + P GRV ALG+PID
Sbjct: 54 GMALNLEGENVGVVVFGEDSLIKEGDTVKRTAAISDVPPLKALLGRVGCALGEPID---- 109
Query: 119 LGKGDLSMEIMSKVPPAMNRQRVEKGFKTGIRVIDIFTPLCHGQRIGVFAGSGIGKS--- 175
G G +S + +P R V++ +TG++ +D P+ GQR + GK+
Sbjct: 110 -GNGKISAKERRIIP----RASVDEPMQTGLKAVDSLVPIGRGQRELIIGDRQTGKTSLA 164
Query: 176 --TLLSMFARSDCFD-----KVIISLVGERGREVREFIEDYL-GDNLKKSVVVVATSDES 227
T+L+ ++C D + +G++ V + ++ D ++ S+VV AT+ ++
Sbjct: 165 IDTILNQKRGNECLDEKKKIYCVYVAIGQKRSTVAQLVQRLEEADAMEYSIVVAATASQA 224
Query: 228 PILRKMAPLTAVTI 241
+ P ++I
Sbjct: 225 GDVSAYIPTNVISI 238
>gnl|CDD|146027 pfam03193, DUF258, Protein of unknown function, DUF258.
Length = 161
Score = 32.9 bits (76), Expect = 0.18
Identities = 15/28 (53%), Positives = 18/28 (64%), Gaps = 2/28 (7%)
Query: 152 IDIFTPLCHGQRIGVFAG-SGIGKSTLL 178
I+ PL G + V AG SG+GKSTLL
Sbjct: 26 IEELKPLLKG-KTSVLAGQSGVGKSTLL 52
>gnl|CDD|111391 pfam02487, CLN3, CLN3 protein. This is a family of proteins from
the CLN3 gene. A missense mutation of glutamic acid (E)
to lysine (K) at position 295 in the human protein has
been implicated in Juvenile neuronal ceroid
lipofuscinosis (Batten disease).
Length = 409
Score = 32.1 bits (73), Expect = 0.28
Identities = 16/42 (38%), Positives = 23/42 (54%)
Query: 228 PILRKMAPLTAVTIAEYFSSKGDNVLLILDSITRFAHSIREI 269
P+L M PL V +AEY ++G LL+ D F+ S+R
Sbjct: 246 PLLFYMVPLATVYLAEYMINQGLTELLLFDCSHGFSLSLRSQ 287
>gnl|CDD|73048 cd03289, ABCC_CFTR2, The CFTR subfamily domain 2. The cystic
fibrosis transmembrane regulator (CFTR), the product of
the gene mutated in patients with cystic fibrosis, has
adapted the ABC transporter structural motif to form a
tightly regulated anion channel at the apical surface of
many epithelia. Use of the term assembly of a
functional ion channel implies the coming together of
subunits or at least smaller not-yet functional
components of the active whole. In fact, on the basis
of current knowledge only the CFTR polypeptide itself is
required to form an ATP- and protein kinase A-dependent
low-conductance chloride channel of the type present in
the apical membrane of many epithelial cells. CFTR
displays the typical organization (IM-ABC)2 and carries
a characteristic hydrophilic R-domain that separates
IM1-ABC1 from IM2-ABC2..
Length = 275
Score = 31.5 bits (71), Expect = 0.49
Identities = 14/23 (60%), Positives = 17/23 (73%)
Query: 161 GQRIGVFAGSGIGKSTLLSMFAR 183
GQR+G+ +G GKSTLLS F R
Sbjct: 30 GQRVGLLGRTGSGKSTLLSAFLR 52
>gnl|CDD|35278 KOG0055, KOG0055, KOG0055, Multidrug/pheromone exporter, ABC
superfamily [Secondary metabolites biosynthesis,
transport and catabolism].
Length = 1228
Score = 31.0 bits (70), Expect = 0.61
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 9/63 (14%)
Query: 121 KGDLSMEIMSKVPPAMNRQRVEKGFKTGIRVIDIFTPLCHGQRIGVFAGSGIGKSTLLSM 180
KG++ + P+ ++ KG I GQ + + SG GKSTL+ +
Sbjct: 348 KGEIEFRNVCFSYPSRPDVKILKGVSLKIP---------SGQTVALVGPSGSGKSTLIQL 398
Query: 181 FAR 183
AR
Sbjct: 399 LAR 401
>gnl|CDD|30815 COG0467, RAD55, RecA-superfamily ATPases implicated in signal
transduction [Signal transduction mechanisms].
Length = 260
Score = 31.2 bits (70), Expect = 0.63
Identities = 37/217 (17%), Positives = 69/217 (31%), Gaps = 29/217 (13%)
Query: 143 KGFKTGIRVIDIFTP--LCHGQRIGVFAGSGIGKSTLLSMFARSDC--FDKVIISLVGER 198
+ TGI +D L G + + G GK+ F + V+ E
Sbjct: 3 ERIPTGIPGLDEILGGGLPRGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTEES 62
Query: 199 GREVRE-------FIEDYLGDNLKKSVVVVATSDESPILRKMAPLTAVTIAEYFSSKGDN 251
E+ E +E Y+ K ++ A E ++ + +
Sbjct: 63 PEELLENARSFGWDLEVYIEKG--KLAILDAFLSEKGLVSIVVGDPLDL---------EE 111
Query: 252 VLLILDSITRFAHSIREIATNSGELPVARGYPTSVFSELPRLLERIGPSEKEKGNITAVI 311
+L + I + R + + EL + P V L L + +K +T+++
Sbjct: 112 LLDRIREIVEKEGADRVVIDSITELTLYLNDPALVRRILLLLKRFL-----KKLGVTSLL 166
Query: 312 SVLVDGDNHNDPIADSVRSILDGHIVLNRSLAEEGRY 348
+ + I+DG I L+ E G
Sbjct: 167 --TTEAPVEERGESGVEEYIVDGVIRLDLKEIEGGGD 201
>gnl|CDD|30834 COG0488, Uup, ATPase components of ABC transporters with duplicated
ATPase domains [General function prediction only].
Length = 530
Score = 31.0 bits (70), Expect = 0.64
Identities = 14/56 (25%), Positives = 26/56 (46%)
Query: 139 QRVEKGFKTGIRVIDIFTPLCHGQRIGVFAGSGIGKSTLLSMFARSDCFDKVIISL 194
+ + + + ++ L G+RIG+ +G GKSTLL + A D ++
Sbjct: 7 ENLSLAYGDRPLLENVSLTLNPGERIGLVGRNGAGKSTLLKILAGELEPDSGEVTR 62
Score = 29.5 bits (66), Expect = 2.1
Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 141 VEKGFKTGIRVIDIFT-PLCHGQRIGVFAGSGIGKSTLLSMFA 182
V KG+ G ++ + + G RI + +G GKSTLL + A
Sbjct: 327 VSKGYDGGRLLLKDLSFRIDRGDRIAIVGPNGAGKSTLLKLLA 369
>gnl|CDD|32455 COG2274, SunT, ABC-type bacteriocin/lantibiotic exporters, contain
an N-terminal double-glycine peptidase domain [Defense
mechanisms].
Length = 709
Score = 30.6 bits (69), Expect = 0.80
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 161 GQRIGVFAGSGIGKSTLLSMFAR 183
G+++ + SG GKSTLL +
Sbjct: 499 GEKVAIVGRSGSGKSTLLKLLLG 521
>gnl|CDD|30653 COG0305, DnaB, Replicative DNA helicase [DNA replication,
recombination, and repair].
Length = 435
Score = 30.6 bits (69), Expect = 0.90
Identities = 23/78 (29%), Positives = 30/78 (38%), Gaps = 6/78 (7%)
Query: 122 GDLSMEIMSKVPPAMNRQRVEKGFKTGIRVIDIFT-PLCHGQRIGVFAGSGIGKSTLLSM 180
GDL E M ++ + G TG +D T G I V A G+GK+ L
Sbjct: 157 GDLLKETMDEIEARFENGGL-IGVPTGFTDLDEITSGFRPGDLIIVAARPGMGKTALALN 215
Query: 181 FARSDCFDK----VIISL 194
A + D I SL
Sbjct: 216 IALNAAADGRKPVAIFSL 233
>gnl|CDD|33919 COG4181, COG4181, Predicted ABC-type transport system involved in
lysophospholipase L1 biosynthesis, ATPase component
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 228
Score = 30.7 bits (69), Expect = 0.95
Identities = 13/37 (35%), Positives = 21/37 (56%)
Query: 161 GQRIGVFAGSGIGKSTLLSMFARSDCFDKVIISLVGE 197
G+ + + SG GKSTLL++ A D + L+G+
Sbjct: 36 GETVAIVGPSGSGKSTLLAVLAGLDDPSSGEVRLLGQ 72
>gnl|CDD|35285 KOG0062, KOG0062, KOG0062, ATPase component of ABC transporters
with duplicated ATPase domains/Translation elongation
factor EF-3b [Amino acid transport and metabolism,
Translation, ribosomal structure and biogenesis].
Length = 582
Score = 30.3 bits (68), Expect = 1.1
Identities = 13/29 (44%), Positives = 16/29 (55%)
Query: 158 LCHGQRIGVFAGSGIGKSTLLSMFARSDC 186
L G+R G+ +GIGKSTLL A
Sbjct: 103 LSRGRRYGLVGRNGIGKSTLLRAIANGQV 131
>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 = 30.4 bits (69), Expect = 1.1
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 160 HGQRIGVFAGSGIGKSTLLSMFAR 183
G+++ + SG GKSTLL + R
Sbjct: 27 PGEKVAIVGPSGSGKSTLLKLLLR 50
>gnl|CDD|73015 cd03256, ABC_PhnC_transporter, ABC-type phosphate/phosphonate
transport system. Phosphonates are a class of
organophosphorus compounds characterized by a chemically
stable carbon-to-phosphorus (C-P) bond. Phosphonates
are widespread among naturally occurring compounds in
all kingdoms of wildlife, but only procaryotic
microorganisms are able to cleave this bond. Certain
bacteria such as E. coli can use alkylphosphonates as a
phosphorus source. 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 = 241
Score = 30.1 bits (68), Expect = 1.2
Identities = 12/46 (26%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 139 QRVEKGFKTGIRVI-DIFTPLCHGQRIGVFAGSGIGKSTLLSMFAR 183
+ + K + G + + D+ + G+ + + SG GKSTLL
Sbjct: 4 ENLSKTYPNGKKALKDVSLSINPGEFVALIGPSGAGKSTLLRCLNG 49
>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 = 30.0 bits (68), Expect = 1.3
Identities = 15/44 (34%), Positives = 24/44 (54%)
Query: 139 QRVEKGFKTGIRVIDIFTPLCHGQRIGVFAGSGIGKSTLLSMFA 182
+ + K + + + DI + G RIG+ +G GKSTLL + A
Sbjct: 4 ENLSKTYGGKLLLKDISLTINPGDRIGLVGRNGAGKSTLLKLIA 47
>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 = 29.9 bits (67), Expect = 1.5
Identities = 10/45 (22%), Positives = 20/45 (44%)
Query: 139 QRVEKGFKTGIRVIDIFTPLCHGQRIGVFAGSGIGKSTLLSMFAR 183
+ + + + ++ L G+ + + +G GKSTLL A
Sbjct: 3 ENLSFRYGGRTALDNVSLTLKAGEIVALVGPNGSGKSTLLRAIAG 47
>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 = 29.8 bits (67), Expect = 1.6
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 161 GQRIGVFAGSGIGKSTLLSMFARSDCFDKVIISLVGERGREVRE 204
G+++ + SG GKSTLL + A + + I+L G + E
Sbjct: 364 GEKVAILGRSGSGKSTLLQLLAGAWDPQQGSITLNGVEIASLDE 407
>gnl|CDD|39383 KOG4181, KOG4181, KOG4181, Uncharacterized conserved protein
[Function unknown].
Length = 491
Score = 29.7 bits (66), Expect = 1.6
Identities = 23/98 (23%), Positives = 34/98 (34%), Gaps = 13/98 (13%)
Query: 96 SPSACWCGRVINALGKPIDGDDSLGKGDLSMEIMSKVPPAMNRQRVEKGFKTGIRVIDIF 155
+PS+ ++++ +P D G S P ++ K +I
Sbjct: 114 APSSSVKAALVSS--RPTSRDKGSCSGGAGTAATSAGAPNALQELQPPRMKRSTPLIVDN 171
Query: 156 TPLCHGQR-----------IGVFAGSGIGKSTLLSMFA 182
R IGV G G GKSTLLS+ A
Sbjct: 172 GIFNDNARKLLHKTTDFTVIGVLGGQGSGKSTLLSLLA 209
>gnl|CDD|33436 COG3638, COG3638, ABC-type phosphate/phosphonate transport system,
ATPase component [Inorganic ion transport and
metabolism].
Length = 258
Score = 29.4 bits (66), Expect = 1.8
Identities = 12/44 (27%), Positives = 21/44 (47%), Gaps = 1/44 (2%)
Query: 141 VEKGFKTGIRVI-DIFTPLCHGQRIGVFAGSGIGKSTLLSMFAR 183
+ K + G + + D+ + G+ + + SG GKSTLL
Sbjct: 9 LSKTYPGGHQALKDVNLEINQGEMVAIIGPSGAGKSTLLRSLNG 52
>gnl|CDD|37944 KOG2733, KOG2733, KOG2733, Uncharacterized membrane protein
[Function unknown].
Length = 423
Score = 29.5 bits (66), Expect = 1.9
Identities = 18/79 (22%), Positives = 38/79 (48%), Gaps = 3/79 (3%)
Query: 166 VFAGSGIGKSTLLSMFARSDCFDKVIISLVG---ERGREVREFIEDYLGDNLKKSVVVVA 222
++ SG ++ S F+ + +++ G ++ +EV E + + G +L SV+++A
Sbjct: 10 IYGASGFTGKYIVEEAVSSQVFEGLSLAVAGRNEKKLQEVLEKVGEKTGTDLSSSVILIA 69
Query: 223 TSDESPILRKMAPLTAVTI 241
S L +MA V +
Sbjct: 70 DSANEASLDEMAKQARVIV 88
>gnl|CDD|31297 COG1100, COG1100, GTPase SAR1 and related small G proteins [General
function prediction only].
Length = 219
Score = 29.2 bits (64), Expect = 2.1
Identities = 19/85 (22%), Positives = 31/85 (36%), Gaps = 4/85 (4%)
Query: 163 RIGVFAGSGIGKSTLLSMFARSDCFDKVIISLVGERGREVREFIEDYLGDNLKKSVVVVA 222
+I V G+GK+TLL+ + F + +G + N+K + A
Sbjct: 7 KIVVLGDGGVGKTTLLNRLVGDE-FPEGYPPTIGN---LDPAKTIEPYRRNIKLQLWDTA 62
Query: 223 TSDESPILRKMAPLTAVTIAEYFSS 247
+E LR A I + S
Sbjct: 63 GQEEYRSLRPEYYRGANGILIVYDS 87
>gnl|CDD|73018 cd03259, ABC_Carb_Solutes_like, ABC Carbohydrate and Solute
Transporters-like subgroup. This family is comprised of
proteins involved in the transport of apparently
unrelated solutes and proteins specific for di- and
oligosaccharides and polyols. 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 = 213
Score = 29.3 bits (66), Expect = 2.2
Identities = 11/44 (25%), Positives = 23/44 (52%)
Query: 139 QRVEKGFKTGIRVIDIFTPLCHGQRIGVFAGSGIGKSTLLSMFA 182
+ + K + + + D+ + G+ + + SG GK+TLL + A
Sbjct: 4 KGLSKTYGSVRALDDLSLTVEPGEFLALLGPSGCGKTTLLRLIA 47
>gnl|CDD|31356 COG1162, COG1162, Predicted GTPases [General function prediction
only].
Length = 301
Score = 29.1 bits (65), Expect = 2.4
Identities = 15/39 (38%), Positives = 19/39 (48%), Gaps = 1/39 (2%)
Query: 163 RIGVFAG-SGIGKSTLLSMFARSDCFDKVIISLVGERGR 200
+I V G SG+GKSTL++ IS RGR
Sbjct: 165 KITVLLGQSGVGKSTLINALLPELNQKTGEISEKLGRGR 203
>gnl|CDD|31330 COG1135, AbcC, ABC-type metal ion transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 339
Score = 29.1 bits (65), Expect = 2.4
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 160 HGQRIGVFAGSGIGKSTLLSMFAR 183
G+ G+ SG GKSTLL +
Sbjct: 31 KGEIFGIIGYSGAGKSTLLRLINL 54
>gnl|CDD|57925 cd01854, YjeQ_engC, YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis)
represents a protein family whose members are broadly
conserved in bacteria and have been shown to be
essential to the growth of E. coli and B. subtilis.
Proteins of the YjeQ 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. All YjeQ family proteins display a
unique domain architecture, which includes an N-terminal
OB-fold RNA-binding domain, the central permuted GTPase
domain, and a zinc knuckle-like C-terminal cysteine
domain. This domain architecture suggests a role for
YjeQ as a regulator of translation..
Length = 287
Score = 29.0 bits (65), Expect = 2.4
Identities = 16/50 (32%), Positives = 21/50 (42%), Gaps = 2/50 (4%)
Query: 152 IDIFTPLCHGQRIGVFAG-SGIGKSTLLSMFARSDCFDKVIISLVGERGR 200
+D G + V G SG+GKSTL++ IS RGR
Sbjct: 152 LDELREYLKG-KTSVLVGQSGVGKSTLINALLPDLDLATGEISEKLGRGR 200
>gnl|CDD|73056 cd03297, ABC_ModC_molybdenum_transporter, 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 = 214
Score = 29.0 bits (65), Expect = 2.4
Identities = 15/38 (39%), Positives = 19/38 (50%)
Query: 159 CHGQRIGVFAGSGIGKSTLLSMFARSDCFDKVIISLVG 196
+ + G+F SG GKSTLL A + D I L G
Sbjct: 21 LNEEVTGIFGASGAGKSTLLRCIAGLEKPDGGTIVLNG 58
>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 = 29.0 bits (65), Expect = 2.6
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 158 LCHGQRIGVFAGSGIGKSTLLSMFA 182
+ G+ +G+ SG GKSTL + A
Sbjct: 30 IERGETLGIVGESGSGKSTLARLLA 54
>gnl|CDD|29988 cd01122, GP4d_helicase, GP4d_helicase is a homohexameric 5'-3'
helicases. Helicases couple NTP hydrolysis to the
unwinding of nucleic acid duplexes into their component
strands..
Length = 271
Score = 28.7 bits (64), Expect = 3.2
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 161 GQRIGVFAGSGIGKSTLLSMFARSDC 186
G+ I + AG+G+GK+T L +A
Sbjct: 30 GELIILTAGTGVGKTTFLREYALDLI 55
>gnl|CDD|72995 cd03236, ABC_RNaseL_inhibitor_domain1, The ATPase domain 1 of RNase
L inhibitor. The ABC ATPase, RNase L inhibitor (RLI),
is a key enzyme in ribosomal biogenesis, formation of
translation preinitiation complexes, and assembly of HIV
capsids. RLI s are not transport proteins and thus
cluster with a group of soluble proteins that lack the
transmembrane components commonly found in other members
of the family. Structurally, RLIs have an N-terminal
Fe-S domain and two nucleotide binding domains which are
arranged to form two composite active sites in their
interface cleft. RLI is one of the most conserved
enzymes between archaea and eukaryotes with a sequence
identity more than 48%. The high degree of evolutionary
conservation suggests that RLI performs a central role
in archaeal and eukaryotic physiology..
Length = 255
Score = 28.3 bits (63), Expect = 3.9
Identities = 18/69 (26%), Positives = 31/69 (44%), Gaps = 14/69 (20%)
Query: 161 GQRIGVFAGSGIGKSTLLSMFA-----------RSDCFDKVIISLVGERGREVREFIEDY 209
GQ +G+ +GIGKST L + A +D+++ RG E++ +
Sbjct: 26 GQVLGLVGPNGIGKSTALKILAGKLKPNLGKFDDPPDWDEILDEF---RGSELQNYFTKL 82
Query: 210 LGDNLKKSV 218
L ++K V
Sbjct: 83 LEGDVKVIV 91
>gnl|CDD|33632 COG3840, ThiQ, ABC-type thiamine transport system, ATPase component
[Coenzyme metabolism].
Length = 231
Score = 28.3 bits (63), Expect = 3.9
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 161 GQRIGVFAGSGIGKSTLLSMFA 182
G+ + + SG GKSTLL++ A
Sbjct: 25 GEIVAILGPSGAGKSTLLNLIA 46
>gnl|CDD|31313 COG1116, TauB, ABC-type nitrate/sulfonate/bicarbonate transport
system, ATPase component [Inorganic ion transport and
metabolism].
Length = 248
Score = 28.2 bits (63), Expect = 4.3
Identities = 12/41 (29%), Positives = 18/41 (43%)
Query: 161 GQRIGVFAGSGIGKSTLLSMFARSDCFDKVIISLVGERGRE 201
G+ + + SG GKSTLL + A + + L G
Sbjct: 29 GEFVAILGPSGCGKSTLLRLIAGLEKPTSGEVLLDGRPVTG 69
>gnl|CDD|34593 COG4988, CydD, ABC-type transport system involved in cytochrome bd
biosynthesis, ATPase and permease components [Energy
production and conversion / Posttranslational
modification, protein turnover, chaperones].
Length = 559
Score = 28.2 bits (63), Expect = 4.5
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 161 GQRIGVFAGSGIGKSTLLSMFA 182
GQ + SG GKSTLL++
Sbjct: 347 GQLTALVGASGAGKSTLLNLLL 368
>gnl|CDD|36760 KOG1547, KOG1547, KOG1547, Septin CDC10 and related P-loop GTPases
[Cell cycle control, cell division, chromosome
partitioning, Signal transduction mechanisms,
Cytoskeleton].
Length = 336
Score = 28.0 bits (62), Expect = 4.8
Identities = 19/93 (20%), Positives = 31/93 (33%), Gaps = 27/93 (29%)
Query: 124 LSMEIMSKVPPA------------MNRQRVEKGFKTGIRVIDIFTPLCHGQRIGVFAGSG 171
+ M+ MS M ++ ++ GF I V+ SG
Sbjct: 12 VPMKPMSINSNLLGYVGIDTIIEQMRKKTMKTGFDFNIMVV---------------GQSG 56
Query: 172 IGKSTLLSMFARSDCFDKVIISLVGERGREVRE 204
+GKSTL++ +S D E + E
Sbjct: 57 LGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTE 89
>gnl|CDD|145639 pfam02600, DsbB, Disulfide bond formation protein DsbB. This
family consists of disulfide bond formation protein DsbB
from bacteria. The DsbB protein oxidizes the periplasmic
protein DsbA which in turn oxidizes cysteines in other
periplasmic proteins in order to make disulfide bonds.
DsbB acts as a redox potential transducer across the
cytoplasmic membrane and is an integral membrane
protein. DsbB posses six cysteines four of which are
necessary for it proper function in vivo.
Length = 159
Score = 28.0 bits (63), Expect = 4.8
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 3/40 (7%)
Query: 157 PLCHGQRIGVFAGSGIGKSTLLSMFARSDCFDKVIISLVG 196
PLC QRI + A + IG LL++ A ++ + L
Sbjct: 38 PLCIYQRIAMLALALIG---LLALLAGRRGRRRLALLLAL 74
>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 = 5.0
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 161 GQRIGVFAGSGIGKSTLLSMFAR 183
G+RIG+ +G GKSTLL + A
Sbjct: 48 GERIGLIGRNGAGKSTLLRLLAG 70
>gnl|CDD|31315 COG1118, CysA, ABC-type sulfate/molybdate transport systems, ATPase
component [Inorganic ion transport and metabolism].
Length = 345
Score = 28.0 bits (62), Expect = 5.6
Identities = 15/44 (34%), Positives = 22/44 (50%)
Query: 139 QRVEKGFKTGIRVIDIFTPLCHGQRIGVFAGSGIGKSTLLSMFA 182
V+K F + DI + G+ + + SG GKSTLL + A
Sbjct: 6 NNVKKRFGAFGALDDISLDIKSGELVALLGPSGAGKSTLLRIIA 49
>gnl|CDD|35310 KOG0087, KOG0087, KOG0087, GTPase Rab11/YPT3, small G protein
superfamily [Intracellular trafficking, secretion, and
vesicular transport].
Length = 222
Score = 28.0 bits (62), Expect = 5.7
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 163 RIGVFAGSGIGKSTLLSMFAR 183
+I + S +GKS LLS F R
Sbjct: 16 KIVLIGDSAVGKSNLLSRFTR 36
>gnl|CDD|33633 COG3842, PotA, ABC-type spermidine/putrescine transport systems,
ATPase components [Amino acid transport and metabolism].
Length = 352
Score = 28.0 bits (62), Expect = 6.1
Identities = 18/50 (36%), Positives = 25/50 (50%)
Query: 133 PPAMNRQRVEKGFKTGIRVIDIFTPLCHGQRIGVFAGSGIGKSTLLSMFA 182
PA+ + V K F V DI + G+ + + SG GK+TLL M A
Sbjct: 3 KPALEIRNVSKSFGDFTAVDDISLDIKKGEFVTLLGPSGCGKTTLLRMIA 52
>gnl|CDD|133266 cd01863, Rab18, Rab18 subfamily. Mammalian Rab18 is implicated in
endocytic transport and is expressed most highly in
polarized epithelial cells. However, trypanosomal Rab,
TbRAB18, is upregulated in the BSF (Blood Stream Form)
stage and localized predominantly to elements of the
Golgi complex. In human and mouse cells, Rab18 has been
identified in lipid droplets, organelles that store
neutral lipids. GTPase activating proteins (GAPs)
interact with GTP-bound Rab and accelerate the
hydrolysis of GTP to GDP. Guanine nucleotide exchange
factors (GEFs) interact with GDP-bound Rabs to promote
the formation of the GTP-bound state. Rabs are further
regulated by guanine nucleotide dissociation inhibitors
(GDIs), which facilitate Rab recycling by masking
C-terminal lipid binding and promoting cytosolic
localization. Most Rab GTPases contain a lipid
modification site at the C-terminus, with sequence
motifs CC, CXC, or CCX. Lipid binding is essential for
membrane attachment, a key feature of most Rab proteins.
Due to the presence of truncated sequences in this CD,
the lipid modification site is not available for
annotation.
Length = 161
Score = 27.6 bits (62), Expect = 6.2
Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 170 SGIGKSTLLSMFARSDCFDKVIISLVG 196
SG+GKS+LL F D FD + + +G
Sbjct: 9 SGVGKSSLLLRFT-DDTFDPDLAATIG 34
>gnl|CDD|73006 cd03247, ABCC_cytochrome_bd, The CYD subfamily implicated in
cytochrome bd biogenesis. The CydC and CydD proteins
are important for the formation of cytochrome bd
terminal oxidase of E. coli and it has been proposed
that they were necessary for biosynthesis of the
cytochrome bd quinol oxidase and for periplasmic c-type
cytochromes. CydCD were proposed to determine a
heterooligomeric complex important for heme export into
the periplasm or to be involved in the maintenance of
the proper redox state of the periplasmic space. In
Bacillus subtilius, the absence of CydCD does not affect
the presence of halo-cytochrome c in the membrane and
this observation suggests that CydCD proteins are not
involved in the export of heme in this organism..
Length = 178
Score = 27.9 bits (62), Expect = 6.3
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 161 GQRIGVFAGSGIGKSTLLSMFAR 183
G++I + SG GKSTLL +
Sbjct: 28 GEKIALLGRSGSGKSTLLQLLTG 50
>gnl|CDD|73047 cd03288, ABCC_SUR2, The SUR domain 2. The sulfonylurea receptor
SUR is an ATP binding cassette (ABC) protein of the
ABCC/MRP family. Unlike other ABC proteins, it has no
intrinsic transport function, neither active nor
passive, but associates with the potassium channel
proteins Kir6.1 or Kir6.2 to form the ATP-sensitive
potassium (K(ATP)) channel. Within the channel complex,
SUR serves as a regulatory subunit that fine-tunes the
gating of Kir6.x in response to alterations in cellular
metabolism. It constitutes a major pharmaceutical
target as it binds numerous drugs, K(ATP) channel
openers and blockers, capable of up- or down-regulating
channel activity..
Length = 257
Score = 27.7 bits (61), Expect = 6.4
Identities = 14/33 (42%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 161 GQRIGVFAGSGIGKSTL-LSMFARSDCFDKVII 192
GQ++G+ +G GKS+L L+ F D FD I+
Sbjct: 47 GQKVGICGRTGSGKSSLSLAFFRMVDIFDGKIV 79
>gnl|CDD|39083 KOG3880, KOG3880, KOG3880, Predicted small molecule transporter
involved in cellular pH homeostasis (Batten disease
protein in human) [General function prediction only].
Length = 409
Score = 27.6 bits (61), Expect = 7.0
Identities = 15/38 (39%), Positives = 21/38 (55%)
Query: 228 PILRKMAPLTAVTIAEYFSSKGDNVLLILDSITRFAHS 265
P+L+ M PL V AEYF ++G LL+ F+ S
Sbjct: 248 PLLKYMVPLALVYFAEYFINQGLAELLLFPCSHGFSLS 285
>gnl|CDD|34224 COG4586, COG4586, ABC-type uncharacterized transport system, ATPase
component [General function prediction only].
Length = 325
Score = 27.5 bits (61), Expect = 7.3
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 151 VIDIFTPLCHGQRIGVFAGSGIGKSTLLSM 180
V DI + G+ +G +G GKST L M
Sbjct: 40 VQDISFEIPKGEIVGFLGANGAGKSTTLKM 69
>gnl|CDD|73057 cd03298, ABC_ThiQ_thiamine_transporter, ABC-type thiamine tranport
system; part of the binding-protein-dependent transport
system tbpA-thiPQ for thiamine and TPP. Probably
responsible for the translocation of thiamine across the
membrane. 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 = 211
Score = 27.6 bits (61), Expect = 7.6
Identities = 11/36 (30%), Positives = 18/36 (50%)
Query: 161 GQRIGVFAGSGIGKSTLLSMFARSDCFDKVIISLVG 196
G+ + SG GKSTLL++ A + + + G
Sbjct: 24 GEITAIVGPSGSGKSTLLNLIAGFETPQSGRVLING 59
>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 = 27.4 bits (61), Expect = 7.9
Identities = 8/22 (36%), Positives = 13/22 (59%)
Query: 161 GQRIGVFAGSGIGKSTLLSMFA 182
G+ + + +G GKSTLL +
Sbjct: 27 GEFVLIVGPNGSGKSTLLRLLN 48
>gnl|CDD|37784 KOG2573, KOG2573, KOG2573, Ribosome biogenesis protein -
Nop56p/Sik1p [RNA processing and modification,
Translation, ribosomal structure and biogenesis].
Length = 498
Score = 27.2 bits (60), Expect = 7.9
Identities = 16/53 (30%), Positives = 29/53 (54%), Gaps = 8/53 (15%)
Query: 179 SMFARSDCFDKVIISLVGERGREVREFIEDYL-----GDNLKKSVVVVATSDE 226
S+ +R DCF + S+ GE ++RE +E+ L G+ +K+ V+ + E
Sbjct: 379 SIASRIDCFSEDPTSVFGE---KLREQVEERLEFYETGEAPRKNSDVMKEAME 428
>gnl|CDD|73052 cd03293, ABC_NrtD_SsuB_transporters, NrtD and SsuB are the
ATP-binding subunits of the bacterial ABC-type nitrate
and sulfonate transport systems, respectively. 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 = 220
Score = 27.4 bits (61), Expect = 8.0
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 161 GQRIGVFAGSGIGKSTLLSMFA 182
G+ + + SG GKSTLL + A
Sbjct: 30 GEFVALVGPSGCGKSTLLRIIA 51
>gnl|CDD|34235 COG4604, CeuD, ABC-type enterochelin transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 252
Score = 27.5 bits (61), Expect = 8.4
Identities = 21/76 (27%), Positives = 33/76 (43%), Gaps = 3/76 (3%)
Query: 139 QRVEKGFKTGIRVIDIFTPLCHGQRIGVFAGSGIGKSTLLSMFARSDCFDKVIISLVGER 198
+ V K + T + + D+ + G + +G GKSTLLSM +R D I++
Sbjct: 5 ENVSKSYGTKVVLDDVSLDIPKGGITSIIGPNGAGKSTLLSMMSRLLKKDSGEITI---D 61
Query: 199 GREVREFIEDYLGDNL 214
G E+ L L
Sbjct: 62 GLELTSTPSKELAKKL 77
>gnl|CDD|72988 cd03229, ABC_Class3, This class is comprised of all BPD (Binding
Protein Dependent) systems that are largely represented
in archaea and eubacteria and are primarily involved in
scavenging solutes from the environment. 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 = 178
Score = 27.4 bits (61), Expect = 8.8
Identities = 13/45 (28%), Positives = 21/45 (46%)
Query: 139 QRVEKGFKTGIRVIDIFTPLCHGQRIGVFAGSGIGKSTLLSMFAR 183
+ V K + + D+ + G+ + + SG GKSTLL A
Sbjct: 4 KNVSKRYGQKTVLNDVSLNIEAGEIVALLGPSGSGKSTLLRCIAG 48
>gnl|CDD|73022 cd03263, ABC_subfamily_A, The ABCA subfamily mediates the transport
of a variety of lipid compounds. Mutations of members
of ABCA subfamily are associated with human genetic
diseases, such as, familial high-density lipoprotein
(HDL) deficiency, neonatal surfactant deficiency,
degenerative retinopathies, and congenital
keratinization disorders. The ABCA1 protein is involved
in disorders of cholesterol transport and high-density
lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR)
protein transports vitamin A derivatives in the outer
segments of photoreceptor cells, and therefore, performs
a crucial step in the visual cycle. The ABCA genes are
not present in yeast. However, evolutionary studies of
ABCA genes indicate that they arose as transporters that
subsequently duplicated and that certain sets of ABCA
genes were lost in different eukaryotic lineages..
Length = 220
Score = 27.4 bits (61), Expect = 8.9
Identities = 12/44 (27%), Positives = 22/44 (50%), Gaps = 2/44 (4%)
Query: 139 QRVEKGFKTGIRVI--DIFTPLCHGQRIGVFAGSGIGKSTLLSM 180
+ + K +K G + D+ + G+ G+ +G GK+T L M
Sbjct: 4 RNLTKTYKKGTKPAVDDLSLNVYKGEIFGLLGHNGAGKTTTLKM 47
>gnl|CDD|133340 cd04140, ARHI_like, ARHI subfamily. ARHI (A Ras homolog member I)
is a member of the Ras family with several unique
structural and functional properties. ARHI is expressed
in normal human ovarian and breast tissue, but its
expression is decreased or eliminated in breast and
ovarian cancer. ARHI contains an N-terminal extension
of 34 residues (human) that is required to retain its
tumor suppressive activity. Unlike most other Ras
family members, ARHI is maintained in the constitutively
active (GTP-bound) state in resting cells and has modest
GTPase activity. ARHI inhibits STAT3 (signal
transducers and activators of transcription 3), a latent
transcription factor whose abnormal activation plays a
critical role in oncogenesis. Most Ras proteins contain
a lipid modification site at the C-terminus, with a
typical sequence motif CaaX, where a = an aliphatic
amino acid and X = any amino acid. Lipid binding is
essential for membrane attachment, a key feature of most
Ras proteins. Due to the presence of truncated
sequences in this CD, the lipid modification site is not
available for annotation.
Length = 165
Score = 27.1 bits (60), Expect = 9.1
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 163 RIGVFAGSGIGKSTLLSMFAR 183
R+ VF G+GKS+L+ F +
Sbjct: 3 RVVVFGAGGVGKSSLVLRFVK 23
>gnl|CDD|146905 pfam04497, Pox_E2, Poxvirus E2 protein. This family of proteins is
restricted to Poxviridae. It contains the proteins E2
and O1 which are uncharacterized.
Length = 726
Score = 27.4 bits (61), Expect = 9.4
Identities = 20/90 (22%), Positives = 32/90 (35%), Gaps = 2/90 (2%)
Query: 183 RSDCF-DKVIISLVGERGREVREFIEDYLGDNLKKSVVVVATSDESPILRKMAPLTAVTI 241
S+ F + VI +VG + + DYL D + ++ S I P A
Sbjct: 231 SSEEFKEFVIELIVGGNLPDYLPYANDYLSDRVPDDSLIREYGIYSNIFFDDRPDLAEYT 290
Query: 242 AEYFSSKGDNVLLILDSITRFAHSIREIAT 271
+K + + I I R+ R A
Sbjct: 291 DFDTLTK-EELSFICKYIDRYDAKARIFAN 319
>gnl|CDD|145096 pfam01761, DHQ_synthase, 3-dehydroquinate synthase. The
3-dehydroquinate synthase EC:4.6.1.3 domain is present
in isolation in various bacterial 3-dehydroquinate
synthases and also present as a domain in the
pentafunctional AROM polypeptide. 3-dehydroquinate (DHQ)
synthase catalyses the formation of dehydroquinate (DHQ)
and orthophosphate from 3-deoxy-D-arabino heptulosonic 7
phosphate. This reaction is part of the shikimate
pathway which is involved in the biosynthesis of
aromatic amino acids.
Length = 310
Score = 27.2 bits (61), Expect = 9.4
Identities = 13/57 (22%), Positives = 25/57 (43%), Gaps = 6/57 (10%)
Query: 199 GREVREFIEDYLGDNLKKSVVVVATSDESPILRKMAPLTAVTIAEYFSSKGDNVLLI 255
G + + + + L + LK +VV +DE+ A L + E + G V ++
Sbjct: 2 GEGLLDDLGELLSELLKGRRLVV-VTDENV-----AKLYGEKLEELLKAAGFEVEVV 52
>gnl|CDD|73003 cd03244, ABCC_MRP_domain2, Domain 2 of the ABC subfamily C. This
family is also known as MRP (mulrtidrug
resisitance-associated protein). Some of the MRP
members have five additional transmembrane segments in
their N-terminus, but the function of these additional
membrane-spanning domains is not clear. The MRP was
found in the multidrug-resistance lung cancer cell in
which p-glycoprotein was not overexpressed. MRP exports
glutathione by drug stimulation, as well as, certain
substrates in conjugated forms with anions, such as
glutathione, glucuronate, and sulfate..
Length = 221
Score = 27.0 bits (60), Expect = 10.0
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 161 GQRIGVFAGSGIGKSTLLSMFAR 183
G+++G+ +G GKS+LL R
Sbjct: 30 GEKVGIVGRTGSGKSSLLLALFR 52
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
0.320 0.138 0.401
Gapped
Lambda K H
0.267 0.0690 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 5,215,729
Number of extensions: 284694
Number of successful extensions: 1036
Number of sequences better than 10.0: 1
Number of HSP's gapped: 977
Number of HSP's successfully gapped: 101
Length of query: 438
Length of database: 6,263,737
Length adjustment: 97
Effective length of query: 341
Effective length of database: 4,167,664
Effective search space: 1421173424
Effective search space used: 1421173424
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 59 (26.6 bits)