RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780559|ref|YP_003064972.1| thiamine transporter
ATP-binding subunit [Candidatus Liberibacter asiaticus str. psy62]
(234 letters)
>gnl|CDD|33632 COG3840, ThiQ, ABC-type thiamine transport system, ATPase component
[Coenzyme metabolism].
Length = 231
Score = 294 bits (753), Expect = 2e-80
Identities = 122/230 (53%), Positives = 167/230 (72%)
Query: 1 MIKLDHLIYCYDNLKMQFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNG 60
M+ LD + + Y +L M+FD V E + ILGPSGAGKSTLL+L+AGF+ P G I +NG
Sbjct: 1 MLALDDVRFSYGHLPMRFDLTVPAGEIVAILGPSGAGKSTLLNLIAGFETPASGEILING 60
Query: 61 QNHTRSSPSKRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLE 120
+HT S P++RP+S+LFQENNLF+HLTV QNI LG++P L+L+ Q +V+ +V L
Sbjct: 61 VDHTASPPAERPVSMLFQENNLFAHLTVAQNIGLGLSPGLKLNAEQREKVEAAAAQVGLA 120
Query: 121 DFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQ 180
F R P ++SGGQRQRVALARCL+R++PILLLDEPF+ DPALR E+L L+ Q+CDER+
Sbjct: 121 GFLKRLPGELSGGQRQRVALARCLVREQPILLLDEPFSALDPALRAEMLALVSQLCDERK 180
Query: 181 LTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMNGLIPESTLLGI 230
+TLLM++H+ ED+ +IA R + + G+I G L++G + LLGI
Sbjct: 181 MTLLMVTHHPEDAARIADRVVFLDNGRIAAQGSTQELLSGKASAAALLGI 230
>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 = 251 bits (642), Expect = 1e-67
Identities = 98/211 (46%), Positives = 142/211 (67%)
Query: 2 IKLDHLIYCYDNLKMQFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQ 61
++LD + + Y M FD + E I+GPSG+GKSTLL+L+AGF+ P G + +NG
Sbjct: 1 VRLDKIRFSYGEQPMHFDLTFAQGEITAIVGPSGSGKSTLLNLIAGFETPQSGRVLINGV 60
Query: 62 NHTRSSPSKRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLED 121
+ T + P+ RP+S+LFQENNLF+HLTV QN+ LG++P L+L ++ L +V L
Sbjct: 61 DVTAAPPADRPVSMLFQENNLFAHLTVEQNVGLGLSPGLKLTAEDRQAIEVALARVGLAG 120
Query: 122 FFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQL 181
R P ++SGG+RQRVALAR L+R KP+LLLDEPFA DPALR E+L L+ + E ++
Sbjct: 121 LEKRLPGELSGGERQRVALARVLVRDKPVLLLDEPFAALDPALRAEMLDLVLDLHAETKM 180
Query: 182 TLLMISHNLEDSMQIATRFIVIAGGQIVYDG 212
T+LM++H ED+ ++A R + + G+I G
Sbjct: 181 TVLMVTHQPEDAKRLAQRVVFLDNGRIAAQG 211
>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 = 209 bits (535), Expect = 4e-55
Identities = 80/197 (40%), Positives = 121/197 (61%)
Query: 16 MQFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSI 75
V E + +LGPSG GK+TLL L+AG + P G I ++G++ T P +R + +
Sbjct: 17 DDLSLTVEPGEFLALLGPSGCGKTTLLRLIAGLERPDSGEILIDGRDVTGVPPERRNIGM 76
Query: 76 LFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQMSGGQR 135
+FQ+ LF HLTV +NIA G+ A+V+++LE V LE NR+P ++SGGQ+
Sbjct: 77 VFQDYALFPHLTVAENIAFGLKLRGVPKAEIRARVRELLELVGLEGLLNRYPHELSGGQQ 136
Query: 136 QRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSMQ 195
QRVALAR L R+ +LLLDEP + D LR E+ LK++ E +T + ++H+ E+++
Sbjct: 137 QRVALARALAREPSLLLLDEPLSALDAKLREELREELKELQRELGITTIYVTHDQEEALA 196
Query: 196 IATRFIVIAGGQIVYDG 212
+A R V+ G+IV G
Sbjct: 197 LADRIAVMNEGRIVQVG 213
>gnl|CDD|33633 COG3842, PotA, ABC-type spermidine/putrescine transport systems,
ATPase components [Amino acid transport and metabolism].
Length = 352
Score = 191 bits (487), Expect = 1e-49
Identities = 80/220 (36%), Positives = 134/220 (60%), Gaps = 3/220 (1%)
Query: 1 MIKLDHLIYCYDNLK--MQFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
+++ ++ + + + K E + +LGPSG GK+TLL ++AGF+ P+ G I L
Sbjct: 5 ALEIRNVSKSFGDFTAVDDISLDIKKGEFVTLLGPSGCGKTTLLRMIAGFEQPSSGEILL 64
Query: 59 NGQNHTRSSPSKRPLSILFQENNLFSHLTVWQNIALGIAPNLRL-DHYQHAQVKQMLEKV 117
+G++ T P KRP+ ++FQ LF H+TV +N+A G+ +L A+V++ LE V
Sbjct: 65 DGEDITDVPPEKRPIGMVFQSYALFPHMTVEENVAFGLKVRKKLKKAEIKARVEEALELV 124
Query: 118 FLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCD 177
LE F +R P Q+SGGQ+QRVALAR L+ + +LLLDEP + D LR ++ LK++
Sbjct: 125 GLEGFADRKPHQLSGGQQQRVALARALVPEPKVLLLDEPLSALDAKLREQMRKELKELQR 184
Query: 178 ERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRL 217
E +T + ++H+ E+++ ++ R V+ G+I G P+ +
Sbjct: 185 ELGITFVYVTHDQEEALAMSDRIAVMNDGRIEQVGTPEEI 224
>gnl|CDD|31315 COG1118, CysA, ABC-type sulfate/molybdate transport systems, ATPase
component [Inorganic ion transport and metabolism].
Length = 345
Score = 189 bits (482), Expect = 5e-49
Identities = 80/224 (35%), Positives = 130/224 (58%), Gaps = 7/224 (3%)
Query: 1 MIKLDHLIYCYDNLKM--QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
I+++++ + + E + +LGPSGAGKSTLL ++AG + P G I L
Sbjct: 2 SIRINNVKKRFGAFGALDDISLDIKSGELVALLGPSGAGKSTLLRIIAGLETPDAGRIRL 61
Query: 59 NGQ---NHTRSSPSKRPLSILFQENNLFSHLTVWQNIALGIA-PNLRLDHYQ-HAQVKQM 113
NG+ + + + R + +FQ LF H+TV NIA G+ R + A+V+++
Sbjct: 62 NGRVLFDVSNLAVRDRKVGFVFQHYALFPHMTVADNIAFGLKVRKERPSEAEIRARVEEL 121
Query: 114 LEKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLK 173
L V LE +R+P+Q+SGGQRQRVALAR L + +LLLDEPF D +R E+ L+
Sbjct: 122 LRLVQLEGLADRYPAQLSGGQRQRVALARALAVEPKVLLLDEPFGALDAKVRKELRRWLR 181
Query: 174 QVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRL 217
++ D +T + ++H+ E+++++A R +V+ G+I G PD +
Sbjct: 182 KLHDRLGVTTVFVTHDQEEALELADRVVVLNQGRIEQVGPPDEV 225
>gnl|CDD|31313 COG1116, TauB, ABC-type nitrate/sulfonate/bicarbonate transport
system, ATPase component [Inorganic ion transport and
metabolism].
Length = 248
Score = 186 bits (475), Expect = 3e-48
Identities = 73/208 (35%), Positives = 125/208 (60%), Gaps = 5/208 (2%)
Query: 1 MIKLDHLIYCYDNLKM--QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
+++++ + + +++ + V K E + ILGPSG GKSTLL L+AG + PT G + L
Sbjct: 3 LLEIEGVSKSFGGVEVLEDINLSVEKGEFVAILGPSGCGKSTLLRLIAGLEKPTSGEVLL 62
Query: 59 NGQNHTRSSPSKRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVF 118
+G+ T P + +FQE+ L LTV N+ALG+ + + K++LE V
Sbjct: 63 DGRPVTGPGPD---IGYVFQEDALLPWLTVLDNVALGLELRGKSKAEARERAKELLELVG 119
Query: 119 LEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDE 178
L F +++P Q+SGG RQRVA+AR L + +LLLDEPF D R E+ L ++ +E
Sbjct: 120 LAGFEDKYPHQLSGGMRQRVAIARALATRPKLLLLDEPFGALDALTREELQDELLRLWEE 179
Query: 179 RQLTLLMISHNLEDSMQIATRFIVIAGG 206
+ T+L+++H++++++ +A R +V++
Sbjct: 180 TRKTVLLVTHDVDEAVYLADRVVVLSNR 207
>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 = 181 bits (461), Expect = 2e-46
Identities = 71/216 (32%), Positives = 118/216 (54%), Gaps = 11/216 (5%)
Query: 2 IKLDHLIYCYDNLKMQF------DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGS 55
+++ ++ Y V + E + ++GPSG GKSTLL ++AG + PT G
Sbjct: 1 LEVRNVSKTYGGGGGAVTALEDISLSVEEGEFVALVGPSGCGKSTLLRIIAGLERPTSGE 60
Query: 56 IFLNGQNHTRSSPSKRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLE 115
+ ++G+ T P +FQ++ L LTV N+ALG+ + +++LE
Sbjct: 61 VLVDGEPVTGPGP---DRGYVFQQDALLPWLTVLDNVALGLELQGVPKAEARERAEELLE 117
Query: 116 KVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQV 175
V L F N +P Q+SGG RQRVALAR L +LLLDEPF+ D R ++ L +
Sbjct: 118 LVGLSGFENAYPHQLSGGMRQRVALARALAVDPDVLLLDEPFSALDALTREQLQEELLDI 177
Query: 176 CDERQLTLLMISHNLEDSMQIATRFIVIAG--GQIV 209
E T+L+++H++++++ +A R +V++ G+IV
Sbjct: 178 WRETGKTVLLVTHDIDEAVFLADRVVVLSARPGRIV 213
>gnl|CDD|33631 COG3839, MalK, ABC-type sugar transport systems, ATPase components
[Carbohydrate transport and metabolism].
Length = 338
Score = 178 bits (453), Expect = 1e-45
Identities = 80/223 (35%), Positives = 133/223 (59%), Gaps = 10/223 (4%)
Query: 1 MIKLDHLIYCYDNLKM--QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
++L ++ + + ++ + + E +V+LGPSG GKSTLL ++AG + PT G I +
Sbjct: 3 ELELKNVRKSFGSFEVLKDVNLDIEDGEFVVLLGPSGCGKSTLLRMIAGLEEPTSGEILI 62
Query: 59 NGQNHTRSSPSKRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQ----VKQML 114
+G++ T P KR ++++FQ L+ H+TV++NIA G L+L A+ VK++
Sbjct: 63 DGRDVTDLPPEKRGIAMVFQNYALYPHMTVYENIAFG----LKLRGVPKAEIDKRVKEVA 118
Query: 115 EKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQ 174
+ + LE NR P Q+SGGQRQRVALAR L+R+ + LLDEP + D LR + +K+
Sbjct: 119 KLLGLEHLLNRKPLQLSGGQRQRVALARALVRKPKVFLLDEPLSNLDAKLRVLMRSEIKK 178
Query: 175 VCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRL 217
+ + T + ++H+ ++M +A R +V+ G+I G P L
Sbjct: 179 LHERLGTTTIYVTHDQVEAMTLADRIVVMNDGRIQQVGTPLEL 221
>gnl|CDD|73059 cd03300, ABC_PotA_N, PotA is an ABC-type transporter and the ATPase
component of the spermidine/putrescine-preferential
uptake system consisting of PotA, -B, -C, and -D. PotA
has two domains with the N-terminal domain containing
the ATPase activity and the residues required for
homodimerization with PotA and heterdimerization with
PotB. 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 = 232
Score = 177 bits (451), Expect = 2e-45
Identities = 83/220 (37%), Positives = 130/220 (59%), Gaps = 2/220 (0%)
Query: 2 IKLDHLIYCYDNLKM--QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLN 59
I+L+++ Y + + E +LGPSG GK+TLL L+AGF+ PT G I L+
Sbjct: 1 IELENVSKFYGGFVALDGVSLDIKEGEFFTLLGPSGCGKTTLLRLIAGFETPTSGEILLD 60
Query: 60 GQNHTRSSPSKRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFL 119
G++ T P KRP++ +FQ LF HLTV++NIA G+ +V + L+ V L
Sbjct: 61 GKDITNLPPHKRPVNTVFQNYALFPHLTVFENIAFGLRLKKLPKAEIKERVAEALDLVQL 120
Query: 120 EDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDER 179
E + NR PSQ+SGGQ+QRVA+AR L+ + +LLLDEP D LR ++ LK++ E
Sbjct: 121 EGYANRKPSQLSGGQQQRVAIARALVNEPKVLLLDEPLGALDLKLRKDMQLELKRLQKEL 180
Query: 180 QLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
+T + ++H+ E+++ ++ R V+ G+I G P+ +
Sbjct: 181 GITFVFVTHDQEEALTMSDRIAVMNKGKIQQIGTPEEIYE 220
>gnl|CDD|31326 COG1131, CcmA, ABC-type multidrug transport system, ATPase
component [Defense mechanisms].
Length = 293
Score = 174 bits (441), Expect = 3e-44
Identities = 70/223 (31%), Positives = 122/223 (54%), Gaps = 4/223 (1%)
Query: 1 MIKLDHLIYCYDNLKM---QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIF 57
+I++ +L Y K F+V E +LGP+GAGK+TLL ++AG PT G I
Sbjct: 4 VIEVRNLTKKYGGDKTALDGVSFEVEPGEIFGLLGPNGAGKTTLLKILAGLLKPTSGEIL 63
Query: 58 LNGQNHTRSSPS-KRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEK 116
+ G + + +R + + QE +L+ LTV +N+ +++++LE
Sbjct: 64 VLGYDVVKEPAKVRRRIGYVPQEPSLYPELTVRENLEFFARLYGLSKEEAEERIEELLEL 123
Query: 117 VFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVC 176
LED N+ +SGG +QR+++A L+ +L+LDEP + DP R EI LL+++
Sbjct: 124 FGLEDKANKKVRTLSGGMKQRLSIALALLHDPELLILDEPTSGLDPESRREIWELLRELA 183
Query: 177 DERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
E +T+L+ +H LE++ ++ R I++ G+I+ +G P+ L
Sbjct: 184 KEGGVTILLSTHILEEAEELCDRVIILNDGKIIAEGTPEELKE 226
>gnl|CDD|73055 cd03296, ABC_CysA_sulfate_importer, Part of the ABC transporter
complex cysAWTP involved in sulfate import. Responsible
for energy coupling to the transport system. The
complex is composed of two ATP-binding proteins (cysA),
two transmembrane proteins (cysT and cysW), and a
solute-binding protein (cysP). 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 = 239
Score = 170 bits (432), Expect = 3e-43
Identities = 75/205 (36%), Positives = 126/205 (61%), Gaps = 4/205 (1%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILFQ 78
+ E + +LGPSG+GK+TLL L+AG + P G+I G++ T +R + +FQ
Sbjct: 22 SLDIPSGELVALLGPSGSGKTTLLRLIAGLERPDSGTILFGGEDATDVPVQERNVGFVFQ 81
Query: 79 ENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVK----QMLEKVFLEDFFNRFPSQMSGGQ 134
LF H+TV+ N+A G+ R + A+++ ++L+ V L+ +R+P+Q+SGGQ
Sbjct: 82 HYALFRHMTVFDNVAFGLRVKPRSERPPEAEIRAKVHELLKLVQLDWLADRYPAQLSGGQ 141
Query: 135 RQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSM 194
RQRVALAR L + +LLLDEPF D +R E+ L+++ DE +T + ++H+ E+++
Sbjct: 142 RQRVALARALAVEPKVLLLDEPFGALDAKVRKELRRWLRRLHDELHVTTVFVTHDQEEAL 201
Query: 195 QIATRFIVIAGGQIVYDGDPDRLMN 219
++A R +V+ G+I G PD + +
Sbjct: 202 EVADRVVVMNKGRIEQVGTPDEVYD 226
>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 = 169 bits (431), Expect = 5e-43
Identities = 67/219 (30%), Positives = 116/219 (52%), Gaps = 13/219 (5%)
Query: 2 IKLDHLIYCYDNLKMQF------DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGS 55
I+L +L Y + + K E + I+GPSG+GKSTLL+++ G PT G
Sbjct: 1 IELKNLSKTYGGGGEKVQALKGVSLSIEKGEFVAIVGPSGSGKSTLLNILGGLDRPTSGE 60
Query: 56 IFLNGQNHTRSSPSKRP------LSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQ 109
+ ++G + ++ S + + +FQ NL LT +N+ L + + +
Sbjct: 61 VRVDGTDISKLSEKELAAFRRRHIGFVFQSFNLLPDLTALENVELPLLLAGVPKKERRER 120
Query: 110 VKQMLEKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEIL 169
+++LE+V L D N +PS++SGGQ+QRVA+AR L I+L DEP D E++
Sbjct: 121 AEELLERVGLGDRLNHYPSELSGGQQQRVAIARALANDPKIILADEPTGNLDSETGKEVM 180
Query: 170 GLLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQI 208
LL+++ E T+++++H+ + + A R I + G+I
Sbjct: 181 ELLRELNKEAGTTIVVVTHD-PELAEYADRIIELRDGKI 218
>gnl|CDD|31323 COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase
component [Amino acid transport and metabolism].
Length = 240
Score = 167 bits (426), Expect = 2e-42
Identities = 76/223 (34%), Positives = 133/223 (59%), Gaps = 7/223 (3%)
Query: 1 MIKLDHLIYCYDNLKM--QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
MI++ +L + + ++ V K E +VI+GPSG+GKSTLL + G + P GSI +
Sbjct: 2 MIEIKNLSKSFGDKEVLKGISLSVEKGEVVVIIGPSGSGKSTLLRCLNGLEEPDSGSITV 61
Query: 59 NGQNHTRSS---PSKRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQ-HAQVKQML 114
+G++ +R + ++FQ+ NLF HLTV +N+ L +L + + ++L
Sbjct: 62 DGEDVGDKKDILKLRRKVGMVFQQFNLFPHLTVLENVTLAPVKVKKLSKAEAREKALELL 121
Query: 115 EKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQ 174
EKV L D + +P+Q+SGGQ+QRVA+AR L ++L DEP + DP L E+L ++K
Sbjct: 122 EKVGLADKADAYPAQLSGGQQQRVAIARALAMDPKVMLFDEPTSALDPELVGEVLDVMKD 181
Query: 175 VCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRL 217
+ +E +T+++++H + + ++A R I + G+I+ +G P+
Sbjct: 182 LAEE-GMTMIIVTHEMGFAREVADRVIFMDQGKIIEEGPPEEF 223
>gnl|CDD|73020 cd03261, ABC_Org_Solvent_Resistant, ABC (ATP-binding cassette)
transport system involved in resistant to organic
solvents; 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 = 167 bits (425), Expect = 2e-42
Identities = 75/208 (36%), Positives = 118/208 (56%), Gaps = 6/208 (2%)
Query: 18 FDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSK-----RP 72
D V + E + I+GPSG+GKSTLL L+ G P G + ++G++ + S ++ R
Sbjct: 19 VDLDVRRGEILAIIGPSGSGKSTLLRLIVGLLRPDSGEVLIDGEDISGLSEAELYRLRRR 78
Query: 73 LSILFQENNLFSHLTVWQNIALGIAPNLRL-DHYQHAQVKQMLEKVFLEDFFNRFPSQMS 131
+ +LFQ LF LTV++N+A + + RL + V + LE V L + +P+++S
Sbjct: 79 MGMLFQSGALFDSLTVFENVAFPLREHTRLSEEEIREIVLEKLEAVGLRGAEDLYPAELS 138
Query: 132 GGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLE 191
GG ++RVALAR L +LL DEP A DP I L++ + E LT +M++H+L+
Sbjct: 139 GGMKKRVALARALALDPELLLYDEPTAGLDPIASGVIDDLIRSLKKELGLTSIMVTHDLD 198
Query: 192 DSMQIATRFIVIAGGQIVYDGDPDRLMN 219
+ IA R V+ G+IV +G P+ L
Sbjct: 199 TAFAIADRIAVLYDGKIVAEGTPEELRA 226
>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 = 166 bits (422), Expect = 4e-42
Identities = 76/232 (32%), Positives = 125/232 (53%), Gaps = 16/232 (6%)
Query: 2 IKLDHLIYCYDNLKMQFD---FQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
I++++L Y N K +N E + ++GPSGAGKSTLL + G PT GS+ +
Sbjct: 1 IEVENLSKTYPNGKKALKDVSLSINPGEFVALIGPSGAGKSTLLRCLNGLVEPTSGSVLI 60
Query: 59 NGQNHTRSSPSK-----RPLSILFQENNLFSHLTVWQNI---ALGIAPNLR-----LDHY 105
+G + + R + ++FQ+ NL L+V +N+ LG R
Sbjct: 61 DGTDINKLKGKALRQLRRQIGMIFQQFNLIERLSVLENVLSGRLGRRSTWRSLFGLFPKE 120
Query: 106 QHAQVKQMLEKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALR 165
+ + LE+V L D + Q+SGGQ+QRVA+AR L++Q ++L DEP A DPA
Sbjct: 121 EKQRALAALERVGLLDKAYQRADQLSGGQQQRVAIARALMQQPKLILADEPVASLDPASS 180
Query: 166 HEILGLLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRL 217
+++ LLK++ E +T+++ H ++ + + A R + + G+IV+DG P L
Sbjct: 181 RQVMDLLKRINREEGITVIVSLHQVDLAREYADRIVGLKDGRIVFDGPPAEL 232
>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 = 166 bits (421), Expect = 5e-42
Identities = 72/206 (34%), Positives = 119/206 (57%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILFQ 78
+V + + VILGP+G+GKS LL +AGF P G I LNG++ T P KR +S + Q
Sbjct: 19 SLEVERGDYFVILGPTGSGKSVLLETIAGFIKPDSGKILLNGKDITNLPPEKRDISYVPQ 78
Query: 79 ENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQMSGGQRQRV 138
LF H+TV++NIA G+ +V ++ E + ++ NR P +SGG++QRV
Sbjct: 79 NYALFPHMTVYKNIAYGLKKRKVDKKEIERKVLEIAEMLGIDHLLNRKPETLSGGEQQRV 138
Query: 139 ALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSMQIAT 198
A+AR L+ ILLLDEPF+ D + ++ LK++ E +T+L ++H+ E++ +A
Sbjct: 139 AIARALVVNPKILLLDEPFSALDVRTKEKLREELKKIRKEFGVTVLHVTHDFEEAWALAD 198
Query: 199 RFIVIAGGQIVYDGDPDRLMNGLIPE 224
+ ++ G+++ G P+ + E
Sbjct: 199 KVAIMLNGKLIQVGKPEEVFKKPKNE 224
>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 = 164 bits (416), Expect = 2e-41
Identities = 69/212 (32%), Positives = 111/212 (52%), Gaps = 40/212 (18%)
Query: 2 IKLDHLIYCYDNLK--MQFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLN 59
++L ++ Y + E + +LGPSG+GKSTLL +AG + P GSI ++
Sbjct: 1 LELKNVSKRYGQKTVLNDVSLNIEAGEIVALLGPSGSGKSTLLRCIAGLEEPDSGSILID 60
Query: 60 GQNHTRSS----PSKRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLE 115
G++ T P +R + ++FQ+ LF HLTV +NIALG
Sbjct: 61 GEDLTDLEDELPPLRRRIGMVFQDFALFPHLTVLENIALG-------------------- 100
Query: 116 KVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQV 175
+SGGQ+QRVALAR L +LLLDEP + DP R E+ LLK +
Sbjct: 101 --------------LSGGQQQRVALARALAMDPDVLLLDEPTSALDPITRREVRALLKSL 146
Query: 176 CDERQLTLLMISHNLEDSMQIATRFIVIAGGQ 207
+ +T+++++H+L+++ ++A R +V+ G+
Sbjct: 147 QAQLGITVVLVTHDLDEAARLADRVVVLRDGK 178
>gnl|CDD|31330 COG1135, AbcC, ABC-type metal ion transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 339
Score = 163 bits (414), Expect = 4e-41
Identities = 83/229 (36%), Positives = 127/229 (55%), Gaps = 20/229 (8%)
Query: 1 MIKLDHLIYCYDNLKMQF-------DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTR 53
MI+L+++ + ++ K E I+G SGAGKSTLL L+ + PT
Sbjct: 1 MIELENVSKTFGQTGTGTVTALDDVSLEIPKGEIFGIIGYSGAGKSTLLRLINLLERPTS 60
Query: 54 GSIFLNGQNHTRSSPS-----KRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHA 108
GS+F++GQ+ T S + ++ + ++FQ NL S TV++N+A L L A
Sbjct: 61 GSVFVDGQDLTALSEAELRQLRQKIGMIFQHFNLLSSRTVFENVAFP----LELAGVPKA 116
Query: 109 QVKQ----MLEKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPAL 164
++KQ +LE V L D +R+P+Q+SGGQ+QRVA+AR L ILL DE + DP
Sbjct: 117 EIKQRVAELLELVGLSDKADRYPAQLSGGQKQRVAIARALANNPKILLCDEATSALDPET 176
Query: 165 RHEILGLLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGD 213
IL LLK + E LT+++I+H +E +I R V+ G++V +G
Sbjct: 177 TQSILELLKDINRELGLTIVLITHEMEVVKRICDRVAVLDQGRLVEEGT 225
>gnl|CDD|73017 cd03258, ABC_MetN_methionine_transporter, MetN (also known as YusC)
is an ABC-type transporter encoded by metN of the metNPQ
operon in Bacillus subtilis that is involved in
methionine transport. Other members of this system
include the MetP permease and the MetQ substrate
binding protein. 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 = 233
Score = 163 bits (413), Expect = 5e-41
Identities = 77/228 (33%), Positives = 122/228 (53%), Gaps = 19/228 (8%)
Query: 1 MIKLDHLIYCYDNLKMQF------DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRG 54
MI+L ++ + + + V K E I+G SGAGKSTL+ + G + PT G
Sbjct: 1 MIELKNVSKVFGDTGGKVTALKDVSLSVPKGEIFGIIGRSGAGKSTLIRCINGLERPTSG 60
Query: 55 SIFLNGQNHTRSSPSK-----RPLSILFQENNLFSHLTVWQNIALGIAPNLRLDH----Y 105
S+ ++G + T S + R + ++FQ NL S TV++N+AL L +
Sbjct: 61 SVLVDGTDLTLLSGKELRKARRRIGMIFQHFNLLSSRTVFENVALP----LEIAGVPKAE 116
Query: 106 QHAQVKQMLEKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALR 165
+V ++LE V LED + +P+Q+SGGQ+QRV +AR L +LL DE + DP
Sbjct: 117 IEERVLELLELVGLEDKADAYPAQLSGGQKQRVGIARALANNPKVLLCDEATSALDPETT 176
Query: 166 HEILGLLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGD 213
IL LL+ + E LT+++I+H +E +I R V+ G++V +G
Sbjct: 177 QSILALLRDINRELGLTIVLITHEMEVVKRICDRVAVMEKGEVVEEGT 224
>gnl|CDD|31322 COG1125, OpuBA, ABC-type proline/glycine betaine transport systems,
ATPase components [Amino acid transport and metabolism].
Length = 309
Score = 161 bits (408), Expect = 2e-40
Identities = 72/227 (31%), Positives = 130/227 (57%), Gaps = 10/227 (4%)
Query: 1 MIKLDHLIYCYDNLKM--QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
MI+ +++ Y N K + + + E +V++GPSG+GK+T L ++ PT G I +
Sbjct: 1 MIEFENVSKRYGNKKAVDDVNLTIEEGEFLVLIGPSGSGKTTTLKMINRLIEPTSGEILI 60
Query: 59 NGQNHTRSSPSKRPLSI--LFQENNLFSHLTVWQNIALGIAPNLR--LDHYQHAQVKQML 114
+G++ + P + I + Q+ LF HLTV +NIA P L + ++L
Sbjct: 61 DGEDISDLDPVELRRKIGYVIQQIGLFPHLTVAENIAT--VPKLLGWDKERIKKRADELL 118
Query: 115 EKVFLE--DFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLL 172
+ V L+ ++ +R+P ++SGGQ+QRV +AR L PILL+DEPF DP R ++ +
Sbjct: 119 DLVGLDPSEYADRYPHELSGGQQQRVGVARALAADPPILLMDEPFGALDPITRKQLQEEI 178
Query: 173 KQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
K++ E T++ ++H++++++++A R V+ G+IV PD ++
Sbjct: 179 KELQKELGKTIVFVTHDIDEALKLADRIAVMDAGEIVQYDTPDEILA 225
>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 = 160 bits (405), Expect = 4e-40
Identities = 77/207 (37%), Positives = 122/207 (58%), Gaps = 9/207 (4%)
Query: 12 DNLKMQFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNG------QNHTR 65
+ ++ DF +N E I G SGAGKSTLL +AG + P G+I LNG +
Sbjct: 11 PDFTLKIDFDLN-EEVTGIFGASGAGKSTLLRCIAGLEKPDGGTIVLNGTVLFDSRKKIN 69
Query: 66 SSPSKRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNR 125
P +R + ++FQ+ LF HL V +N+A G+ + V ++L+ + L+ NR
Sbjct: 70 LPPQQRKIGLVFQQYALFPHLNVRENLAFGLKRKRNREDRI--SVDELLDLLGLDHLLNR 127
Query: 126 FPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLM 185
+P+Q+SGG++QRVALAR L Q +LLLDEPF+ D ALR ++L LKQ+ + ++
Sbjct: 128 YPAQLSGGEKQRVALARALAAQPELLLLDEPFSALDRALRLQLLPELKQIKKNLNIPVIF 187
Query: 186 ISHNLEDSMQIATRFIVIAGGQIVYDG 212
++H+L ++ +A R +V+ G++ Y G
Sbjct: 188 VTHDLSEAEYLADRIVVMEDGRLQYIG 214
>gnl|CDD|73060 cd03301, ABC_MalK_N, The N-terminal ATPase domain of the maltose
transporter, MalK. ATP binding cassette (ABC) proteins
function from bacteria to human, mediating the
translocation of substances into and out of cells or
organelles. ABC transporters contain two
transmembrane-spanning domains (TMDs) or subunits and
two nucleotide binding domains (NBDs) or subunits that
couple transport to the hydrolysis of ATP. In the
maltose transport system, the periplasmic maltose
binding protein (MBP) stimulates the ATPase activity of
the membrane-associated transporter, which consists of
two transmembrane subunits, MalF and MalG, and two
copies of the ATP binding subunit, MalK, and becomes
tightly bound to the transporter in the catalytic
transition state, ensuring that maltose is passed to the
transporter as ATP is hydrolyzed..
Length = 213
Score = 158 bits (402), Expect = 9e-40
Identities = 70/214 (32%), Positives = 123/214 (57%), Gaps = 10/214 (4%)
Query: 2 IKLDHLIYCYDNLKM--QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLN 59
++L+++ + N+ + + E +V+LGPSG GK+T L ++AG + PT G I++
Sbjct: 1 VELENVTKRFGNVTALDDLNLDIADGEFVVLLGPSGCGKTTTLRMIAGLEEPTSGRIYIG 60
Query: 60 GQNHTRSSPSKRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVF- 118
G++ T P R ++++FQ L+ H+TV+ NIA G L+L ++ + + +V
Sbjct: 61 GRDVTDLPPKDRDIAMVFQNYALYPHMTVYDNIAFG----LKLRKVPKDEIDERVREVAE 116
Query: 119 ---LEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQV 175
+E +R P Q+SGGQRQRVAL R ++R+ + L+DEP + D LR ++ LK++
Sbjct: 117 LLQIEHLLDRKPKQLSGGQRQRVALGRAIVREPKVFLMDEPLSNLDAKLRVQMRAELKRL 176
Query: 176 CDERQLTLLMISHNLEDSMQIATRFIVIAGGQIV 209
T + ++H+ ++M +A R V+ GQI
Sbjct: 177 QQRLGTTTIYVTHDQVEAMTMADRIAVMNDGQIQ 210
>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 = 158 bits (402), Expect = 1e-39
Identities = 78/213 (36%), Positives = 128/213 (60%), Gaps = 10/213 (4%)
Query: 3 KLDHLIYCYDNLKMQ----FDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
+L +L + Y + + K E ++I+GP+G+GKSTLL L+ G PT G + +
Sbjct: 1 ELKNLSFSYPDGARPALDDISLTIKKGEFVLIVGPNGSGKSTLLRLLNGLLGPTSGEVLV 60
Query: 59 NGQNHTRSSPSK--RPLSILFQE-NNLFSHLTVWQNIALGIAPNLRLDHYQ-HAQVKQML 114
+G++ T+ S + R + ++FQ ++ F TV + +A G+ NL L + +V++ L
Sbjct: 61 DGKDLTKLSLKELRRKVGLVFQNPDDQFFGPTVEEEVAFGLE-NLGLPEEEIEERVEEAL 119
Query: 115 EKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQ 174
E V LE +R P +SGGQ+QRVA+A L ILLLDEP A DPA R E+L LLK+
Sbjct: 120 ELVGLEGLRDRSPFTLSGGQKQRVAIAGVLAMDPDILLLDEPTAGLDPAGRRELLELLKK 179
Query: 175 VCDERQLTLLMISHNLEDSMQIATRFIVIAGGQ 207
+ E + T+++++H+L+ +++A R IV+ G+
Sbjct: 180 LKAEGK-TIIIVTHDLDLLLELADRVIVLEDGK 211
>gnl|CDD|31331 COG1136, SalX, ABC-type antimicrobial peptide transport system,
ATPase component [Defense mechanisms].
Length = 226
Score = 158 bits (401), Expect = 1e-39
Identities = 74/221 (33%), Positives = 121/221 (54%), Gaps = 14/221 (6%)
Query: 1 MIKLDHLIYCYDNLKMQ------FDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRG 54
MI+L ++ Y + + ++ E + I+GPSG+GKSTLL+L+ G PT G
Sbjct: 1 MIELKNVSKIYGLGGEKVEALKDVNLEIEAGEFVAIVGPSGSGKSTLLNLLGGLDKPTSG 60
Query: 55 SIFLNGQNHTRSSPSKRP------LSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHA 108
+ +NG++ T+ S + + +FQ NL LTV +N+ L + + +
Sbjct: 61 EVLINGKDLTKLSEKELAKLRRKKIGFVFQNFNLLPDLTVLENVELPLLIAGKSAGRRKR 120
Query: 109 QVKQMLEKVFLEDFFN-RFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHE 167
+++LE + LED + PS++SGGQ+QRVA+AR LI I+L DEP D E
Sbjct: 121 AAEELLEVLGLEDRLLKKKPSELSGGQQQRVAIARALINNPKIILADEPTGNLDSKTAKE 180
Query: 168 ILGLLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQI 208
+L LL+++ ER T++M++H+ E + A R I + G+I
Sbjct: 181 VLELLRELNKERGKTIIMVTHDPE-LAKYADRVIELKDGKI 220
>gnl|CDD|31317 COG1120, FepC, ABC-type cobalamin/Fe3+-siderophores transport
systems, ATPase components [Inorganic ion transport and
metabolism / Coenzyme metabolism].
Length = 258
Score = 158 bits (400), Expect = 2e-39
Identities = 78/227 (34%), Positives = 129/227 (56%), Gaps = 8/227 (3%)
Query: 1 MIKLDHLIYCYDNLKM--QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
M+++++L + Y + F + K E ILGP+G+GKSTLL +AG P G + L
Sbjct: 2 MLEVENLSFGYGGKPILDDLSFSIPKGEITGILGPNGSGKSTLLKCLAGLLKPKSGEVLL 61
Query: 59 NGQNHTRSSPS--KRPLSILFQENNLFSHLTVWQNIALGIAPNL----RLDHYQHAQVKQ 112
+G++ SP + L+ + Q + LTV++ + LG P+L R V++
Sbjct: 62 DGKDIASLSPKELAKKLAYVPQSPSAPFGLTVYELVLLGRYPHLGLFGRPSKEDEEIVEE 121
Query: 113 MLEKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLL 172
LE + LE +R ++SGG+RQRV +AR L ++ PILLLDEP + D A + E+L LL
Sbjct: 122 ALELLGLEHLADRPVDELSGGERQRVLIARALAQETPILLLDEPTSHLDIAHQIEVLELL 181
Query: 173 KQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
+ + E+ LT++M+ H+L + + A I++ G+IV G P+ ++
Sbjct: 182 RDLNREKGLTVVMVLHDLNLAARYADHLILLKDGKIVAQGTPEEVLT 228
>gnl|CDD|31324 COG1127, Ttg2A, ABC-type transport system involved in resistance to
organic solvents, ATPase component [Secondary
metabolites biosynthesis, transport, and catabolism].
Length = 263
Score = 157 bits (399), Expect = 2e-39
Identities = 75/226 (33%), Positives = 128/226 (56%), Gaps = 9/226 (3%)
Query: 1 MIKLDHLIYCYDNLKM--QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
+I++ + + + + D V + E + ILG SG+GKSTLL L+ G P +G I +
Sbjct: 8 LIEVRGVTKSFGDRVILDGVDLDVPRGEILAILGGSGSGKSTLLRLILGLLRPDKGEILI 67
Query: 59 NGQNHTRSSPSK-----RPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQ-HAQVKQ 112
+G++ + S + + + +LFQ+ LFS LTV++N+A + + +L V
Sbjct: 68 DGEDIPQLSEEELYEIRKRMGVLFQQGALFSSLTVFENVAFPLREHTKLPESLIRELVLM 127
Query: 113 MLEKVFL-EDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGL 171
LE V L + +PS++SGG R+RVALAR + +L LDEP + DP I L
Sbjct: 128 KLELVGLRGAAADLYPSELSGGMRKRVALARAIALDPELLFLDEPTSGLDPISAGVIDEL 187
Query: 172 LKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRL 217
++++ D LT++M++H+L+ + IA R V+A G+++ +G P+ L
Sbjct: 188 IRELNDALGLTVIMVTHDLDSLLTIADRVAVLADGKVIAEGTPEEL 233
>gnl|CDD|31319 COG1122, CbiO, ABC-type cobalt transport system, ATPase component
[Inorganic ion transport and metabolism].
Length = 235
Score = 157 bits (399), Expect = 2e-39
Identities = 83/228 (36%), Positives = 133/228 (58%), Gaps = 11/228 (4%)
Query: 1 MIKLDHLIYCYDNLKMQFD---FQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIF 57
MI+ ++L + Y K ++ K ER++++GP+G+GKSTLL L+ G PT G +
Sbjct: 3 MIEAENLSFRYPGRKAALKDVSLEIEKGERVLLIGPNGSGKSTLLKLLNGLLKPTSGEVL 62
Query: 58 LNGQNHTRSSPSK---RPLSILFQ--ENNLFSHLTVWQNIALGIAPNLRLDHYQ-HAQVK 111
++G + + + + ++FQ ++ LF TV +A G NL L + +V
Sbjct: 63 VDGLDTSSEKSLLELRQKVGLVFQNPDDQLFG-PTVEDEVAFG-LENLGLPREEIEERVA 120
Query: 112 QMLEKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGL 171
+ LE V LE+ +R P +SGGQ+QRVA+A L ILLLDEP A DP R E+L L
Sbjct: 121 EALELVGLEELLDRPPFNLSGGQKQRVAIAGVLAMGPEILLLDEPTAGLDPKGRRELLEL 180
Query: 172 LKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
LK++ +E T+++++H+LE ++ A R +V+ G+I+ DGDP + N
Sbjct: 181 LKKLKEEGGKTIIIVTHDLELVLEYADRVVVLDDGKILADGDPAEIFN 228
>gnl|CDD|73021 cd03262, ABC_HisP_GlnQ_permeases, HisP and GlnQ are the ATP-binding
components of the bacterial periplasmic histidine and
glutamine permeases, repectively. Histidine permease is
a multisubunit complex containing the HisQ and HisM
integral membrane subunits and two copies of HisP. HisP
has properties intermediate between those of integral
and peripheral membrane proteins and is accessible from
both sides of the membrane, presumably by its
interaction with HisQ and HisM. The two HisP subunits
form a homodimer within the complex. The domain
structure of the amino acid uptake systems is typical
for prokaryote extracellular solute binding
protein-dependent uptake systems. All of the amino acid
uptake systems also have at least one, and in a few
cases, two extracellular solute binding proteins located
in the periplasm of Gram-negative bacteria, or attached
to the cell membrane of Gram-positive bacteria. The
best-studied member of the PAAT (polar amino acid
transport) family is the HisJQMP system of S.
typhimurium, where HisJ is the extracellular solute
binding proteins and HisP is the ABC protein..
Length = 213
Score = 156 bits (395), Expect = 7e-39
Identities = 70/195 (35%), Positives = 117/195 (60%), Gaps = 6/195 (3%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPS----KRPLS 74
D V K E +VI+GPSG+GKSTLL + + P G+I ++G T + ++ +
Sbjct: 20 DLTVKKGEVVVIIGPSGSGKSTLLRCINLLEEPDSGTIIIDGLKLTDDKKNINELRQKVG 79
Query: 75 ILFQENNLFSHLTVWQNIALGIAPNLRLDHYQ-HAQVKQMLEKVFLEDFFNRFPSQMSGG 133
++FQ+ NLF HLTV +NI L + + + ++LEKV L D + +P+Q+SGG
Sbjct: 80 MVFQQFNLFPHLTVLENITLAPIKVKGMSKAEAEERALELLEKVGLADKADAYPAQLSGG 139
Query: 134 QRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDS 193
Q+QRVA+AR L ++L DEP + DP L E+L ++K + +E +T+++++H + +
Sbjct: 140 QQQRVAIARALAMNPKVMLFDEPTSALDPELVGEVLDVMKDLAEE-GMTMVVVTHEMGFA 198
Query: 194 MQIATRFIVIAGGQI 208
++A R I + G+I
Sbjct: 199 REVADRVIFMDDGRI 213
>gnl|CDD|30760 COG0411, LivG, ABC-type branched-chain amino acid transport
systems, ATPase component [Amino acid transport and
metabolism].
Length = 250
Score = 154 bits (390), Expect = 3e-38
Identities = 65/217 (29%), Positives = 120/217 (55%), Gaps = 15/217 (6%)
Query: 18 FDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRP---LS 74
+V E + ++GP+GAGK+TL +L+ GF P+ G++ G++ T P + ++
Sbjct: 23 VSLEVRPGEIVGLIGPNGAGKTTLFNLITGFYKPSSGTVIFRGRDITGLPPHRIARLGIA 82
Query: 75 ILFQENNLFSHLTVWQNIALG------IAPNLRLDHYQH------AQVKQMLEKVFLEDF 122
FQ LF LTV +N+A+G ++ L + + +++LE V L +
Sbjct: 83 RTFQITRLFPGLTVLENVAVGAHARLGLSGLLGRPRARKEEREARERARELLEFVGLGEL 142
Query: 123 FNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLT 182
+R +S GQ++R+ +AR L Q +LLLDEP A +P E+ L++++ D +T
Sbjct: 143 ADRPAGNLSYGQQRRLEIARALATQPKLLLLDEPAAGLNPEETEELAELIRELRDRGGVT 202
Query: 183 LLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
+L+I H+++ M +A R +V+ G+++ +G P+ + N
Sbjct: 203 ILLIEHDMKLVMGLADRIVVLNYGEVIAEGTPEEVRN 239
>gnl|CDD|72978 cd03219, ABC_Mj1267_LivG_branched, The Mj1267/LivG ABC transporter
subfamily is involved in the transport of the
hydrophobic amino acids leucine, isoleucine and valine.
MJ1267 is a branched-chain amino acid transporter with
29% similarity to both the LivF and LivG components of
the E. coli branched-chain amino acid transporter.
MJ1267 contains an insertion from residues 114 to 123
characteristic of LivG (Leucine-Isoleucine-Valine)
homologs. The branched-chain amino acid transporter
from E. coli comprises a heterodimer of ABCs (LivF and
LivG), a heterodimer of six-helix TM domains (LivM and
LivH), and one of two alternative soluble periplasmic
substrate binding proteins (LivK or LivJ)..
Length = 236
Score = 153 bits (389), Expect = 3e-38
Identities = 68/214 (31%), Positives = 119/214 (55%), Gaps = 14/214 (6%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRP---LSI 75
F V E ++GP+GAGK+TL +L++GF PT GS+ +G++ T P + +
Sbjct: 20 SFSVRPGEIHGLIGPNGAGKTTLFNLISGFLRPTSGSVLFDGEDITGLPPHEIARLGIGR 79
Query: 76 LFQENNLFSHLTVWQNIALG----------IAPNLRLDHYQHAQVKQMLEKVFLEDFFNR 125
FQ LF LTV +N+ + +A R + + +++LE+V L D +R
Sbjct: 80 TFQIPRLFPELTVLENVMVAAQARTGSGLLLARARREEREARERAEELLERVGLADLADR 139
Query: 126 FPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLM 185
++S GQ++R+ +AR L +LLLDEP A +P E+ L++++ ER +T+L+
Sbjct: 140 PAGELSYGQQRRLEIARALATDPKLLLLDEPAAGLNPEETEELAELIREL-RERGITVLL 198
Query: 186 ISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
+ H+++ M +A R V+ G+++ +G PD + N
Sbjct: 199 VEHDMDVVMSLADRVTVLDQGRVIAEGTPDEVRN 232
>gnl|CDD|33436 COG3638, COG3638, ABC-type phosphate/phosphonate transport system,
ATPase component [Inorganic ion transport and
metabolism].
Length = 258
Score = 152 bits (386), Expect = 6e-38
Identities = 77/233 (33%), Positives = 121/233 (51%), Gaps = 16/233 (6%)
Query: 1 MIKLDHLIYCYDNLK---MQFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIF 57
MI++ +L Y + ++N+ E + I+GPSGAGKSTLL + G PT G I
Sbjct: 3 MIEVKNLSKTYPGGHQALKDVNLEINQGEMVAIIGPSGAGKSTLLRSLNGLVDPTSGEIL 62
Query: 58 LNGQNHTRSSPS-----KRPLSILFQENNLFSHLTVWQNIALGIAPNL--------RLDH 104
NG T+ +R + ++FQ+ NL L+V +N+ LG
Sbjct: 63 FNGVQITKLKGKELRKLRRDIGMIFQQFNLVPRLSVLENVLLGRLGYTSTWRSLFGLFSK 122
Query: 105 YQHAQVKQMLEKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPAL 164
AQ LE+V + D + S +SGGQ+QRVA+AR L++Q I+L DEP A DP
Sbjct: 123 EDKAQALDALERVGILDKAYQRASTLSGGQQQRVAIARALVQQPKIILADEPVASLDPES 182
Query: 165 RHEILGLLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRL 217
+++ +LK + E +T+++ H ++ + + A R I + G+IV+DG L
Sbjct: 183 AKKVMDILKDINQEDGITVIVNLHQVDLAKKYADRIIGLKAGRIVFDGPASEL 235
>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 = 151 bits (384), Expect = 1e-37
Identities = 71/205 (34%), Positives = 118/205 (57%), Gaps = 10/205 (4%)
Query: 18 FDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPL---- 73
F + K E + ++G SG+GKSTL + G PT GSI +G++ + S R +
Sbjct: 24 VSFSIKKGETLGLVGESGSGKSTLARAILGLLKPTSGSIIFDGKDLLKLSRRLRKIRRKE 83
Query: 74 -SILFQE--NNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFL---EDFFNRFP 127
++FQ+ ++L +T+ + IA + + +L + + +L V + E+ NR+P
Sbjct: 84 IQMVFQDPMSSLNPRMTIGEQIAEPLRIHGKLSKKEARKEAVLLLLVGVGLPEEVLNRYP 143
Query: 128 SQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMIS 187
++SGGQRQRVA+AR L +L+ DEP + D +++ +IL LLK++ +E LTLL I+
Sbjct: 144 HELSGGQRQRVAIARALALNPKLLIADEPTSALDVSVQAQILDLLKKLQEELGLTLLFIT 203
Query: 188 HNLEDSMQIATRFIVIAGGQIVYDG 212
H+L +IA R V+ G+IV +G
Sbjct: 204 HDLGVVAKIADRVAVMYAGKIVEEG 228
>gnl|CDD|73053 cd03294, ABC_Pro_Gly_Bertaine, This family comprises the glycine
betaine/L-proline ATP binding subunit in bacteria and
its equivalents in archaea. This transport system
belong to the larger ATP-Binding Cassette (ABC)
transporter superfamily. The characteristic feature of
these transporters is the obligatory coupling of ATP
hydrolysis to substrate translocation. 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 = 269
Score = 151 bits (382), Expect = 2e-37
Identities = 67/207 (32%), Positives = 116/207 (56%), Gaps = 6/207 (2%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPS------KRP 72
V + E VI+G SG+GKSTLL + PT G + ++GQ+ S ++
Sbjct: 44 SLDVREGEIFVIMGLSGSGKSTLLRCINRLIEPTSGKVLIDGQDIAAMSRKELRELRRKK 103
Query: 73 LSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQMSG 132
+S++FQ L H TV +N+A G+ + + + LE V LE + +++P ++SG
Sbjct: 104 ISMVFQSFALLPHRTVLENVAFGLEVQGVPRAEREERAAEALELVGLEGWEHKYPDELSG 163
Query: 133 GQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLED 192
G +QRV LAR L ILL+DE F+ DP +R E+ L ++ E Q T++ I+H+L++
Sbjct: 164 GMQQRVGLARALAVDPDILLMDEAFSALDPLIRREMQDELLRLQAELQKTIVFITHDLDE 223
Query: 193 SMQIATRFIVIAGGQIVYDGDPDRLMN 219
++++ R ++ G++V G P+ ++
Sbjct: 224 ALRLGDRIAIMKDGRLVQVGTPEEILT 250
>gnl|CDD|33915 COG4175, ProV, ABC-type proline/glycine betaine transport system,
ATPase component [Amino acid transport and metabolism].
Length = 386
Score = 150 bits (381), Expect = 2e-37
Identities = 68/207 (32%), Positives = 121/207 (58%), Gaps = 6/207 (2%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPS------KRP 72
V + E VI+G SG+GKSTL+ L+ PTRG I ++G++ + S + ++
Sbjct: 48 SLDVEEGEIFVIMGLSGSGKSTLVRLLNRLIEPTRGEILVDGKDIAKLSAAELRELRRKK 107
Query: 73 LSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQMSG 132
+S++FQ L H TV +N+A G+ + + + LE V LE + +++P+++SG
Sbjct: 108 ISMVFQSFALLPHRTVLENVAFGLEVQGVPKAEREERALEALELVGLEGYADKYPNELSG 167
Query: 133 GQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLED 192
G +QRV LAR L ILL+DE F+ DP +R E+ L ++ + + T++ I+H+L++
Sbjct: 168 GMQQRVGLARALANDPDILLMDEAFSALDPLIRTEMQDELLELQAKLKKTIVFITHDLDE 227
Query: 193 SMQIATRFIVIAGGQIVYDGDPDRLMN 219
+++I R ++ G+IV G P+ ++
Sbjct: 228 ALRIGDRIAIMKDGEIVQVGTPEEILL 254
>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 = 149 bits (377), Expect = 8e-37
Identities = 79/238 (33%), Positives = 130/238 (54%), Gaps = 14/238 (5%)
Query: 1 MIKLDHLIYCYDNLKMQF------DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRG 54
++ + +L Y K F ++ + E + I+G SG+GKSTL L+AG + P+ G
Sbjct: 3 LLSVRNLSIVYGGGKFAFHALNNVSLEIERGETLGIVGESGSGKSTLARLLAGLEKPSSG 62
Query: 55 SIFLNGQ---NHTRSSPSKRPLSILFQ--ENNLFSHLTVWQNIALGIAPNLRLDHYQHAQ 109
SI L+G+ R+ RP+ ++FQ ++L TV + ++ + P+ Q
Sbjct: 63 SILLDGKPLAPKKRAKAFYRPVQMVFQDPYSSLNPRRTVGRILSEPLRPHGLSKSQQRIA 122
Query: 110 VKQMLEKVFL-EDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEI 168
++L++V L F +R P ++SGGQRQR+A+AR LI + +L+LDEP + D +++ +I
Sbjct: 123 --ELLDQVGLPPSFLDRRPHELSGGQRQRIAIARALIPEPKLLILDEPTSALDVSVQAQI 180
Query: 169 LGLLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMNGLIPEST 226
L LL ++ ER LT L ISH+L + R V+ GQIV G + L++ T
Sbjct: 181 LNLLLELKKERGLTYLFISHDLALVEHMCDRIAVMDNGQIVEIGPTEELLSHPSHPYT 238
>gnl|CDD|31320 COG1123, COG1123, ATPase components of various ABC-type transport
systems, contain duplicated ATPase [General function
prediction only].
Length = 539
Score = 149 bits (377), Expect = 9e-37
Identities = 74/211 (35%), Positives = 121/211 (57%), Gaps = 10/211 (4%)
Query: 18 FDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQN----HTRSSPSKRPL 73
F + + E + ++G SG+GKSTL ++AG P+ GSI +GQ+ +R +
Sbjct: 310 VSFDLREGETLGLVGESGSGKSTLARILAGLLPPSSGSIIFDGQDLDLTGGELRRLRRRI 369
Query: 74 SILFQ--ENNLFSHLTVWQNIA--LGIAPNLRLDHYQHAQVKQMLEKVFL-EDFFNRFPS 128
++FQ ++L +TV +A L I + A+V ++LE V L +F +R+P
Sbjct: 370 QMVFQDPYSSLNPRMTVGDILAEPLRIHGGGSGA-ERRARVAELLELVGLPPEFLDRYPH 428
Query: 129 QMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISH 188
++SGGQRQRVA+AR L + +L+LDEP + D +++ ++L LLK + +E LT L ISH
Sbjct: 429 ELSGGQRQRVAIARALALEPKLLILDEPVSALDVSVQAQVLNLLKDLQEELGLTYLFISH 488
Query: 189 NLEDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
+L IA R V+ G+IV +G +++
Sbjct: 489 DLAVVRYIADRVAVMYDGRIVEEGPTEKVFE 519
Score = 129 bits (325), Expect = 9e-31
Identities = 67/220 (30%), Positives = 111/220 (50%), Gaps = 21/220 (9%)
Query: 18 FDFQVNKAERIVILGPSGAGKSTL-LSLMAGFKYP---TRGSIFLNGQN------HTRSS 67
F+V E + I+G SG+GKSTL L+LM T G + L+G++
Sbjct: 28 VSFEVEPGEILGIVGESGSGKSTLALALMGLLPEGGRITSGEVILDGRDLLGLSEREMRK 87
Query: 68 PSKRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQ------HAQVKQMLEKVFLED 121
+ ++++FQ+ + L I I LRL H + + ++LE+V L D
Sbjct: 88 LRGKRIAMIFQDP--MTSLNPVMTIGDQIREALRL-HGKGSRAEARKRAVELLEQVGLPD 144
Query: 122 --FFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDER 179
+R+P Q+SGG RQRV +A L + +L+ DEP D + +IL LLK + E
Sbjct: 145 PERRDRYPHQLSGGMRQRVMIAMALALKPKLLIADEPTTALDVTTQAQILDLLKDLQREL 204
Query: 180 QLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
+ +L I+H+L ++A R +V+ G+IV G + +++
Sbjct: 205 GMAVLFITHDLGVVAELADRVVVMYKGEIVETGPTEEILS 244
>gnl|CDD|30759 COG0410, LivF, ABC-type branched-chain amino acid transport
systems, ATPase component [Amino acid transport and
metabolism].
Length = 237
Score = 146 bits (371), Expect = 4e-36
Identities = 68/237 (28%), Positives = 124/237 (52%), Gaps = 9/237 (3%)
Query: 1 MIKLDHLIYCYDNLKMQF--DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
M+++++L Y ++ +V + E + +LG +GAGK+TLL + G P G I
Sbjct: 3 MLEVENLSAGYGKIQALRGVSLEVERGEIVALLGRNGAGKTTLLKTIMGLVRPRSGRIIF 62
Query: 59 NGQNHTRSSPSKRP---LSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLE 115
+G++ T P +R ++ + + +F LTV +N+ LG R Q ++++ E
Sbjct: 63 DGEDITGLPPHERARLGIAYVPEGRRIFPRLTVEENLLLGAYA-RRDKEAQERDLEEVYE 121
Query: 116 KVF--LEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLK 173
+F L++ N+ +SGG++Q +A+AR L+ + +LLLDEP P + EI +K
Sbjct: 122 -LFPRLKERRNQRAGTLSGGEQQMLAIARALMSRPKLLLLDEPSEGLAPKIVEEIFEAIK 180
Query: 174 QVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMNGLIPESTLLGI 230
++ E +T+L++ N +++IA R V+ G+IV G L+ LG+
Sbjct: 181 ELRKEGGMTILLVEQNARFALEIADRGYVLENGRIVLSGTAAELLADPDVREAYLGV 237
>gnl|CDD|72983 cd03224, ABC_TM1139_LivF_branched, LivF (TM1139) is part of the
LIV-I bacterial ABC-type two-component transport system
that imports neutral, branched-chain amino acids. The
E. coli branched-chain amino acid transporter comprises
a heterodimer of ABC transporters (LivF and LivG), a
heterodimer of six-helix TM domains (LivM and LivH), and
one of two alternative soluble periplasmic substrate
binding proteins (LivK or LivJ). 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..
Length = 222
Score = 146 bits (371), Expect = 4e-36
Identities = 64/209 (30%), Positives = 111/209 (53%), Gaps = 15/209 (7%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRP---LSI 75
V + E + +LG +GAGK+TLL + G P GSI +G++ T P +R +
Sbjct: 20 SLTVPEGEIVALLGRNGAGKTTLLKTIMGLLPPRSGSIRFDGRDITGLPPHERARAGIGY 79
Query: 76 LFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVF-----LEDFFNRFPSQM 130
+ + +F LTV +N+ LG R A+ K LE+V+ L++ + +
Sbjct: 80 VPEGRRIFPELTVEENLLLGAYARRR------AKRKARLERVYELFPRLKERRKQLAGTL 133
Query: 131 SGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNL 190
SGG++Q +A+AR L+ + +LLLDEP P + EI ++++ DE +T+L++ N
Sbjct: 134 SGGEQQMLAIARALMSRPKLLLLDEPSEGLAPKIVEEIFEAIRELRDE-GVTILLVEQNA 192
Query: 191 EDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
+++IA R V+ G++V +G L+
Sbjct: 193 RFALEIADRAYVLERGRVVLEGTAAELLA 221
>gnl|CDD|32710 COG2884, FtsE, Predicted ATPase involved in cell division [Cell
division and chromosome partitioning].
Length = 223
Score = 144 bits (364), Expect = 2e-35
Identities = 75/228 (32%), Positives = 125/228 (54%), Gaps = 17/228 (7%)
Query: 1 MIKLDHLIYCYDNLKMQFD---FQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIF 57
MI+ +++ Y + F + K E + + GPSGAGKSTLL L+ G + PTRG I
Sbjct: 1 MIRFENVSKAYPGGREALRDVSFHIPKGEFVFLTGPSGAGKSTLLKLIYGEERPTRGKIL 60
Query: 58 LNGQNHTRSSPS-----KRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQ 112
+NG + +R +R + ++FQ+ L TV++N+AL LR+ ++++
Sbjct: 61 VNGHDLSRLKGREIPFLRRQIGVVFQDFRLLPDRTVYENVALP----LRVIGKPPREIRR 116
Query: 113 ----MLEKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEI 168
+L+ V L+ PSQ+SGG++QRVA+AR ++ Q +LL DEP DP L EI
Sbjct: 117 RVSEVLDLVGLKHKARALPSQLSGGEQQRVAIARAIVNQPAVLLADEPTGNLDPDLSWEI 176
Query: 169 LGLLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDR 216
+ L +++ + T+LM +H+LE ++ R + + G++V D
Sbjct: 177 MRLFEEI-NRLGTTVLMATHDLELVNRMRHRVLALEDGRLVRDESRGV 223
>gnl|CDD|73054 cd03295, ABC_OpuCA_Osmoprotection, OpuCA is a the ATP binding
component of a bacterial solute transporter that serves
a protective role to cells growing in a hyperosmolar
environment. 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 = 242
Score = 144 bits (364), Expect = 2e-35
Identities = 69/225 (30%), Positives = 126/225 (56%), Gaps = 7/225 (3%)
Query: 2 IKLDHLIYCYDNLKM---QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
I+ +++ Y K + ++ K E +V++GPSG+GK+T + ++ PT G IF+
Sbjct: 1 IEFENVTKRYGGGKKAVNNLNLEIAKGEFLVLIGPSGSGKTTTMKMINRLIEPTSGEIFI 60
Query: 59 NGQNHTRSSPSK--RPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEK 116
+G++ P + R + + Q+ LF H+TV +NIAL + ++L
Sbjct: 61 DGEDIREQDPVELRRKIGYVIQQIGLFPHMTVEENIALVPKLLKWPKEKIRERADELLAL 120
Query: 117 VFLED--FFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQ 174
V L+ F +R+P ++SGGQ+QRV +AR L P+LL+DEPF DP R ++ K+
Sbjct: 121 VGLDPAEFADRYPHELSGGQQQRVGVARALAADPPLLLMDEPFGALDPITRDQLQEEFKR 180
Query: 175 VCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
+ E T++ ++H+++++ ++A R ++ G+IV G PD ++
Sbjct: 181 LQQELGKTIVFVTHDIDEAFRLADRIAIMKNGEIVQVGTPDEILR 225
>gnl|CDD|34177 COG4525, TauB, ABC-type taurine transport system, ATPase component
[Inorganic ion transport and metabolism].
Length = 259
Score = 143 bits (361), Expect = 5e-35
Identities = 78/226 (34%), Positives = 118/226 (52%), Gaps = 19/226 (8%)
Query: 1 MIKLDHLIYCYDNLKM----QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSI 56
M+ + HL Y+ + E +V+LGPSG GK+TLL+L+AGF P+RGSI
Sbjct: 3 MLNVSHLSLSYEGKPRSALEDVSLTIASGELVVVLGPSGCGKTTLLNLIAGFVTPSRGSI 62
Query: 57 FLNGQNHTRSSPSKRPLSILFQENNLFSHLTVWQNIAL-----GIAPNLRLDHYQHAQVK 111
LNG+ + ++FQ L L V N+A GI R +
Sbjct: 63 QLNGRRIEGPGAER---GVVFQNEALLPWLNVIDNVAFGLQLRGIEKAQRRE-----IAH 114
Query: 112 QMLEKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGL 171
QML V LE +++ Q+SGG RQRV +AR L + +LLLDEPF D R ++ L
Sbjct: 115 QMLALVGLEGAEHKYIWQLSGGMRQRVGIARALAVEPQLLLLDEPFGALDALTREQMQEL 174
Query: 172 LKQVCDERQLTLLMISHNLEDSMQIATRFIVIAG--GQIVYDGDPD 215
L + E +L+I+H++E+++ +ATR +V++ G++V D
Sbjct: 175 LLDLWQETGKQVLLITHDIEEALFLATRLVVLSPGPGRVVERLPLD 220
>gnl|CDD|72977 cd03218, ABC_YhbG, The ABC transporters belonging to the YhbG
family are similar to members of the Mj1267_LivG family,
which is involved in the transport of branched-chain
amino acids. The genes yhbG and yhbN are located in a
single operon and may function together in cell envelope
during biogenesis. YhbG is the putative ATP-binding
cassette component and YhbN is the putative
periplasmic-binding protein. Depletion of each gene
product leads to growth arrest, irreversible cell damage
and loss of viability in E. coli. The YhbG homolog
(NtrA) is essential in Rhizobium meliloti, a symbiotic
nitrogen-fixing bacterium..
Length = 232
Score = 141 bits (356), Expect = 2e-34
Identities = 63/204 (30%), Positives = 109/204 (53%), Gaps = 4/204 (1%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRP---LSI 75
V + E + +LGP+GAGK+T ++ G P G I L+GQ+ T+ KR +
Sbjct: 20 SLSVKQGEIVGLLGPNGAGKTTTFYMIVGLVKPDSGKILLDGQDITKLPMHKRARLGIGY 79
Query: 76 LFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQMSGGQR 135
L QE ++F LTV +NI + + +++++LE+ + S +SGG+R
Sbjct: 80 LPQEASIFRKLTVEENILAVLEIRGLSKKEREEKLEELLEEFHITHLRKSKASSLSGGER 139
Query: 136 QRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSMQ 195
+RV +AR L LLLDEPFA DP +I ++K + +R + +L+ HN+ +++
Sbjct: 140 RRVEIARALATNPKFLLLDEPFAGVDPIAVQDIQKIIKIL-KDRGIGVLITDHNVRETLS 198
Query: 196 IATRFIVIAGGQIVYDGDPDRLMN 219
I R +I G+++ +G P+ +
Sbjct: 199 ITDRAYIIYEGKVLAEGTPEEIAA 222
>gnl|CDD|31318 COG1121, ZnuC, ABC-type Mn/Zn transport systems, ATPase component
[Inorganic ion transport and metabolism].
Length = 254
Score = 139 bits (353), Expect = 4e-34
Identities = 74/229 (32%), Positives = 114/229 (49%), Gaps = 15/229 (6%)
Query: 1 MIKLDHLIYCYDNLKM--QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
MI++++L Y N + V K E ++GP+GAGKSTLL + G P+ G I +
Sbjct: 4 MIEVENLTVSYGNRPVLEDISLSVEKGEITALIGPNGAGKSTLLKAILGLLKPSSGEIKI 63
Query: 59 NGQNHTRSSPSKR----PLSILFQENNLFSHLTVWQNIALGIAPNL----RLDHYQHAQV 110
G+ + R P + +TV + LG RL+ +V
Sbjct: 64 FGKPVRKRRKRLRIGYVPQKSSV---DRSFPITVKDVVLLGRYGKKGWFRRLNKKDKEKV 120
Query: 111 KQMLEKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILG 170
+ LE+V +ED +R ++SGGQ+QRV LAR L + +LLLDEPF D A + EI
Sbjct: 121 DEALERVGMEDLRDRQIGELSGGQKQRVLLARALAQNPDLLLLDEPFTGVDVAGQKEIYD 180
Query: 171 LLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
LLK++ E T+LM++H+L M R I + ++ G P+ ++
Sbjct: 181 LLKELRQE-GKTVLMVTHDLGLVMAYFDRVICLNRH-LIASGPPEEVLT 227
>gnl|CDD|33892 COG4136, COG4136, ABC-type uncharacterized transport system, ATPase
component [General function prediction only].
Length = 213
Score = 139 bits (352), Expect = 5e-34
Identities = 66/182 (36%), Positives = 102/182 (56%), Gaps = 4/182 (2%)
Query: 14 LKMQFDFQVNKAERIVILGPSGAGKSTLLSLMAGF---KYPTRGSIFLNGQNHTRSSPSK 70
L +F + K E + ++GPSG GKSTLLS M G ++ G ++LN Q ++
Sbjct: 17 LLANVNFTIAKGEIVTLMGPSGCGKSTLLSWMIGALAGQFSCTGELWLNEQRLDMLPAAQ 76
Query: 71 RPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQM 130
R + ILFQ+ LF HL+V QN+ + L+ + ++A LE+ L+ F++ P+ +
Sbjct: 77 RQIGILFQDALLFPHLSVGQNLLFALPATLKGNARRNA-ANAALERSGLDGAFHQDPATL 135
Query: 131 SGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNL 190
SGGQR RVAL R L+ Q LLLDEPF+ D ALR + + + + ++H+L
Sbjct: 136 SGGQRARVALLRALLAQPKALLLDEPFSRLDVALRDQFRQWVFSEVRAAGIPTVQVTHDL 195
Query: 191 ED 192
+D
Sbjct: 196 QD 197
>gnl|CDD|72973 cd03214, ABC_Iron-Siderophores_B12_Hemin, ABC transporters,
involved in the uptake of siderophores, heme, and
vitamin B12, are widely conserved in bacteria and
archaea. Only very few species lack representatives of
the siderophore family transporters. The E. coli BtuCD
protein is an ABC transporter mediating vitamin B12
uptake. The two ATP-binding cassettes (BtuD) are in
close contact with each other, as are the two
membrane-spanning subunits (BtuC); this arrangement is
distinct from that observed for the E. coli lipid
flippase MsbA. The BtuC subunits provide 20
transmembrane helices grouped around a translocation
pathway that is closed to the cytoplasm by a gate
region, whereas the dimer arrangement of the BtuD
subunits resembles the ATP-bound form of the Rad50 DNA
repair enzyme. A prominent cytoplasmic loop of BtuC
forms the contact region with the ATP-binding cassette
and represent a conserved motif among the ABC
transporters..
Length = 180
Score = 138 bits (349), Expect = 1e-33
Identities = 70/212 (33%), Positives = 108/212 (50%), Gaps = 34/212 (16%)
Query: 3 KLDHLIYCYDNLKM--QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNG 60
++++L Y + + E + ILGP+GAGKSTLL +AG P+ G I L+G
Sbjct: 1 EVENLSVGYGGRTVLDDLSLSIEAGEIVGILGPNGAGKSTLLKTLAGLLKPSSGEILLDG 60
Query: 61 QNHTRSSPSKRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLE 120
++ SP + + IA V Q LE + L
Sbjct: 61 KDLASLSPKELA-----------------RKIAY---------------VPQALELLGLA 88
Query: 121 DFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQ 180
+R +++SGG+RQRV LAR L ++ PILLLDEP + D A + E+L LL+++ ER
Sbjct: 89 HLADRPFNELSGGERQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERG 148
Query: 181 LTLLMISHNLEDSMQIATRFIVIAGGQIVYDG 212
T++M+ H+L + + A R I++ G+IV G
Sbjct: 149 KTVVMVLHDLNLAARYADRVILLKDGRIVAQG 180
>gnl|CDD|31325 COG1129, MglA, ABC-type sugar transport system, ATPase component
[Carbohydrate transport and metabolism].
Length = 500
Score = 136 bits (345), Expect = 4e-33
Identities = 58/203 (28%), Positives = 102/203 (50%), Gaps = 8/203 (3%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPS---KRPLSI 75
V E +LG +GAGKSTL+ +++G P G I ++G+ SSP ++
Sbjct: 28 SLTVRPGEVHALLGENGAGKSTLMKILSGVYPPDSGEILIDGKPVAFSSPRDALAAGIAT 87
Query: 76 LFQENNLFSHLTVWQNIALGIAPNLR---LDH-YQHAQVKQMLEKVFLEDFFNRFPSQMS 131
+ QE +L +L+V +NI LG P R +D + +++L ++ L+ + +S
Sbjct: 88 VHQELSLVPNLSVAENIFLGREPTRRFGLIDRKAMRRRARELLARLGLDIDPDTLVGDLS 147
Query: 132 GGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLE 191
QRQ V +AR L +L+LDEP A + L++++ + + ++ ISH L+
Sbjct: 148 IAQRQMVEIARALSFDARVLILDEPTAALTVKETERLFDLIRRL-KAQGVAIIYISHRLD 206
Query: 192 DSMQIATRFIVIAGGQIVYDGDP 214
+ +IA R V+ G++V
Sbjct: 207 EVFEIADRITVLRDGRVVGTRPT 229
Score = 92.5 bits (230), Expect = 9e-20
Identities = 55/207 (26%), Positives = 93/207 (44%), Gaps = 21/207 (10%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKR-PLSILF 77
F V E + I G GAG++ L + G + + G I L+G+ SP I +
Sbjct: 279 SFTVRAGEILGIAGLVGAGRTELARALFGARPASSGEILLDGKPVRIRSPRDAIKAGIAY 338
Query: 78 -----QENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRF------ 126
+ L +++ +NI L +LR + + + E+ E + R
Sbjct: 339 VPEDRKSEGLVLDMSIAENITL---ASLR-RFSRRGLIDRRKERALAERYIRRLRIKTPS 394
Query: 127 ----PSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLT 182
+SGG +Q+V LAR L +L+LDEP D + EI L++++ E
Sbjct: 395 PEQPIGTLSGGNQQKVVLARWLATDPKVLILDEPTRGIDVGAKAEIYRLIRELAAE-GKA 453
Query: 183 LLMISHNLEDSMQIATRFIVIAGGQIV 209
+LMIS L + + ++ R +V+ G+IV
Sbjct: 454 ILMISSELPELLGLSDRILVMREGRIV 480
>gnl|CDD|32455 COG2274, SunT, ABC-type bacteriocin/lantibiotic exporters, contain
an N-terminal double-glycine peptidase domain [Defense
mechanisms].
Length = 709
Score = 136 bits (344), Expect = 5e-33
Identities = 71/235 (30%), Positives = 116/235 (49%), Gaps = 27/235 (11%)
Query: 2 IKLDHLIYCYDNLKMQ----FDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIF 57
I+ +++ + Y ++ E++ I+G SG+GKSTLL L+ G P +G I
Sbjct: 472 IEFENVSFRYGPDDPPVLEDLSLEIPPGEKVAIVGRSGSGKSTLLKLLLGLYKPQQGRIL 531
Query: 58 LNGQNHTRSSPS--KRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLE 115
L+G + + +R + + Q+ LFS ++ +NIALG P + ++ + +
Sbjct: 532 LDGVDLNDIDLASLRRQVGYVLQDPFLFSG-SIRENIALG-NPEATDE-----EIIEAAQ 584
Query: 116 KVFLEDFFNRFPSQM-----------SGGQRQRVALARCLIRQKPILLLDEPFAVFDPAL 164
+F P SGGQRQR+ALAR L+ + ILLLDE + DP
Sbjct: 585 LAGAHEFIENLPMGYDTPVGEGGANLSGGQRQRLALARALLSKPKILLLDEATSALDPET 644
Query: 165 RHEILGLLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
IL L Q+ R T+++I+H L +++ A R IV+ G+IV G + L+
Sbjct: 645 EAIILQNLLQILQGR--TVIIIAHRLS-TIRSADRIIVLDQGKIVEQGSHEELLA 696
>gnl|CDD|33900 COG4148, ModC, ABC-type molybdate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 352
Score = 135 bits (342), Expect = 9e-33
Identities = 69/218 (31%), Positives = 122/218 (55%), Gaps = 13/218 (5%)
Query: 1 MIKLDHLIYCYDNLKMQFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNG 60
M++L+ N + +F + + GPSG+GK++L++++AG P G I LNG
Sbjct: 1 MLELN-FRQRLGNFALDANFTLPARGITALFGPSGSGKTSLINMIAGLTRPDEGRIELNG 59
Query: 61 QNHTRSS------PSKRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQML 114
+ + P KR + +FQ+ LF H TV N+ G+ ++R AQ Q++
Sbjct: 60 RVLVDAEKGIFLPPEKRRIGYVFQDARLFPHYTVRGNLRYGMWKSMR------AQFDQLV 113
Query: 115 EKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQ 174
+ +E +R+P +SGG++QRVA+ R L+ +LL+DEP A D + EIL L++
Sbjct: 114 ALLGIEHLLDRYPGTLSGGEKQRVAIGRALLTAPELLLMDEPLASLDLPRKREILPYLER 173
Query: 175 VCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDG 212
+ DE + +L +SH+L++ +++A R +V+ G++ G
Sbjct: 174 LRDEINIPILYVSHSLDEVLRLADRVVVLENGKVKASG 211
>gnl|CDD|72989 cd03230, ABC_DR_subfamily_A, This family of ATP-binding proteins
belongs to a multisubunit transporter involved in drug
resistance (BcrA and DrrA), nodulation, lipid transport,
and lantibiotic immunity. In bacteria and archaea,
these transporters usually include an ATP-binding
protein and one or two integral membrane proteins.
Eukaryote systems of the ABCA subfamily display ABC
domains that are quite similar to this family. The
ATP-binding domain shows the highest similarity between
all members of the ABC transporter 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 = 173
Score = 134 bits (338), Expect = 3e-32
Identities = 60/210 (28%), Positives = 99/210 (47%), Gaps = 40/210 (19%)
Query: 2 IKLDHLIYCYDNLKM--QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLN 59
I++ +L Y V K E +LGP+GAGK+TL+ ++ G P G I +
Sbjct: 1 IEVRNLSKRYGKKTALDDISLTVEKGEIYGLLGPNGAGKTTLIKIILGLLKPDSGEIKVL 60
Query: 60 GQNHTRSSPS-KRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVF 118
G++ + KR + L +E +L+ +LTV +N+ L
Sbjct: 61 GKDIKKEPEEVKRRIGYLPEEPSLYENLTVRENLKL------------------------ 96
Query: 119 LEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDE 178
SGG +QR+ALA+ L+ +L+LDEP + DP R E LL+++ E
Sbjct: 97 ------------SGGMKQRLALAQALLHDPELLILDEPTSGLDPESRREFWELLRELKKE 144
Query: 179 RQLTLLMISHNLEDSMQIATRFIVIAGGQI 208
T+L+ SH LE++ ++ R ++ G+I
Sbjct: 145 -GKTILLSSHILEEAERLCDRVAILNNGRI 173
>gnl|CDD|35278 KOG0055, KOG0055, KOG0055, Multidrug/pheromone exporter, ABC
superfamily [Secondary metabolites biosynthesis,
transport and catabolism].
Length = 1228
Score = 133 bits (335), Expect = 6e-32
Identities = 60/215 (27%), Positives = 106/215 (49%), Gaps = 23/215 (10%)
Query: 18 FDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQN-HTRSSPSKRP-LSI 75
++ + + ++GPSG+GKSTL+ L+A F PT G + ++G++ + R + +
Sbjct: 372 VSLKIPSGQTVALVGPSGSGKSTLIQLLARFYDPTSGEVLIDGEDIRNLNLKWLRSQIGL 431
Query: 76 LFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFP-------- 127
+ QE LF+ T+ +NI G ++++ + DF + P
Sbjct: 432 VSQEPVLFA-TTIRENIRYG------KPDATREEIEEAAKAANAHDFILKLPDGYDTLVG 484
Query: 128 ---SQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLL 184
Q+SGGQ+QR+A+AR L+R ILLLDE + D + L + R T +
Sbjct: 485 ERGVQLSGGQKQRIAIARALVRNPKILLLDEATSALDAESERVVQEALDKASKGR--TTI 542
Query: 185 MISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
+++H L +++ A + V+ G+IV G D L+
Sbjct: 543 VVAHRLS-TIRNADKIAVMEEGKIVEQGTHDELIA 576
Score = 111 bits (278), Expect = 2e-25
Identities = 59/236 (25%), Positives = 111/236 (47%), Gaps = 28/236 (11%)
Query: 2 IKLDHLIYCYDNLKMQ-----FDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSI 56
I+ ++ + Y + + + ++GPSG+GKST++SL+ F P G +
Sbjct: 988 IEFRNVSFAYPTRPDVPVLNNLSLSIRAGQTVALVGPSGSGKSTVISLLERFYDPDAGKV 1047
Query: 57 FLNGQNHTRSSPS--KRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQML 114
++G + + ++ + ++ QE LF+ T+ +NIA G + ++ +
Sbjct: 1048 KIDGVDIKDLNLKWLRKQIGLVSQEPVLFN-GTIRENIAYG------SEEVSEEEIIEAA 1100
Query: 115 EKVFLEDFFNRFP-----------SQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPA 163
+ +F + P Q+SGGQ+QR+A+AR ++R ILLLDE + D
Sbjct: 1101 KLANAHNFISSLPQGYDTRVGERGVQLSGGQKQRIAIARAILRNPKILLLDEATSALDSE 1160
Query: 164 LRHEILGLLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
+ L + + R T ++I+H L ++Q A V+ G++V G D L+
Sbjct: 1161 SERVVQEALDRAMEGR--TTIVIAHRLS-TIQNADVIAVLKNGKVVEQGTHDELLA 1213
>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 = 131 bits (330), Expect = 2e-31
Identities = 74/232 (31%), Positives = 120/232 (51%), Gaps = 25/232 (10%)
Query: 2 IKLDHLIYCYDNLKM---QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
I L++L + Y + K + + + ++G SGAGKSTLL+L+ GF PT+G I +
Sbjct: 321 ISLENLSFRYPDGKPALSDLNLTIKAGQLTALVGASGAGKSTLLNLLLGFLAPTQGEIRV 380
Query: 59 NGQNHTRSSPS--KRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEK 116
NG + SP ++ +S + Q LF+ T+ +NI L P+ ++ L++
Sbjct: 381 NGIDLRDLSPEAWRKQISWVSQNPYLFAG-TIRENILLA-RPDA-----SDEEIIAALDQ 433
Query: 117 VFLEDFFNRFP----------SQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRH 166
L +F + + +SGGQ QR+ALAR L+ +LLLDEP A D
Sbjct: 434 AGLLEFVPKPDGLDTVIGEGGAGLSGGQAQRLALARALLSPASLLLLDEPTAHLDAETEQ 493
Query: 167 EILGLLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLM 218
IL L+++ ++ T+L+I+H LED A R +V+ G++V G + L
Sbjct: 494 IILQALQELAKQK--TVLVITHRLED-AADADRIVVLDNGRLVEQGTHEELS 542
>gnl|CDD|72994 cd03235, ABC_Metallic_Cations, ABC component of the metal-type
transporters. This family includes transporters
involved in the uptake of various metallic cations such
as iron, manganese, and zinc. The ATPases of this group
of transporters are very similar to members of
iron-siderophore uptake family suggesting that they
share a common ancestor. The best characterized
metal-type ABC transporters are the YfeABCD system of Y.
pestis, the SitABCD system of Salmonella enterica
serovar Typhimurium, and the SitABCD transporter of
Shigella flexneri. Moreover other uncharacterized
homologs of these metal-type transporters are mainly
found in pathogens like Haemophilus or enteroinvasive E.
coli isolates..
Length = 213
Score = 131 bits (330), Expect = 2e-31
Identities = 69/222 (31%), Positives = 117/222 (52%), Gaps = 21/222 (9%)
Query: 3 KLDHLIYCYDNLKM--QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNG 60
+++ L Y + F+V E + I+GP+GAGKSTLL + G PT GSI + G
Sbjct: 1 EVEDLTVSYGGHPVLEDVSFEVKPGEFLAIVGPNGAGKSTLLKAILGLLKPTSGSIRVFG 60
Query: 61 QNHTRSS------PSKRPLSILFQENNLFSHLTVWQNIALGIAPNL----RLDHYQHAQV 110
+ + P +R + F ++V + +G+ + RL A+V
Sbjct: 61 KPLEKERKRIGYVPQRRSIDRDFP-------ISVRDVVLMGLYGHKGLFRRLSKADKAKV 113
Query: 111 KQMLEKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILG 170
+ LE+V L + +R ++SGGQ+QRV LAR L++ +LLLDEPFA DP + +I
Sbjct: 114 DEALERVGLSELADRQIGELSGGQQQRVLLARALVQDPDLLLLDEPFAGVDPKTQEDIYE 173
Query: 171 LLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDG 212
LL+++ E +T+L+++H+L ++ R +++ +V G
Sbjct: 174 LLRELRREG-MTILVVTHDLGLVLEYFDRVLLLNRT-VVASG 213
>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 = 130 bits (329), Expect = 3e-31
Identities = 74/234 (31%), Positives = 121/234 (51%), Gaps = 27/234 (11%)
Query: 2 IKLDHLIYCYDNLKMQ----FDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIF 57
++L ++ + Y + + F+ + + E++ ILG SG+GKSTLL L+AG P +GSI
Sbjct: 337 LELRNVSFTYPGQQTKALKNFNLTLAQGEKVAILGRSGSGKSTLLQLLAGAWDPQQGSIT 396
Query: 58 LNGQN--HTRSSPSKRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLE 115
LNG + +S+L Q +LFS T+ N+ L P+ ++ L+
Sbjct: 397 LNGVEIASLDEQALRETISVLTQRVHLFSG-TLRDNLRLA-NPDA-----SDEELWAALQ 449
Query: 116 KVFLEDFFNRFPS-----------QMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPAL 164
+V LE P ++SGG+R+R+ALAR L+ P+ LLDEP DP
Sbjct: 450 QVGLEKLLESAPDGLNTWLGEGGRRLSGGERRRLALARALLHDAPLWLLDEPTEGLDPIT 509
Query: 165 RHEILGLLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLM 218
++L LL + + + TLLM++H L ++ R IV+ G+I+ +G L+
Sbjct: 510 ERQVLALLFEHAEGK--TLLMVTHRLR-GLERMDRIIVLDNGKIIEEGTHAELL 560
>gnl|CDD|73023 cd03264, ABC_drug_resistance_like, ABC-type multidrug transport
system, ATPase component. The biological function of
this family is not well characterized, but display ABC
domains similar to members of ABCA subfamily. 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 = 130 bits (328), Expect = 4e-31
Identities = 55/185 (29%), Positives = 103/185 (55%), Gaps = 5/185 (2%)
Query: 30 ILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPS-KRPLSILFQENNLFSHLTV 88
+LGP+GAGK+TL+ ++A P+ G+I ++GQ+ + +R + L QE ++ + TV
Sbjct: 30 LLGPNGAGKTTLMRILATLTPPSSGTIRIDGQDVLKQPQKLRRRIGYLPQEFGVYPNFTV 89
Query: 89 WQNIA-LGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQ 147
+ + + + A+V ++LE V L D + +SGG R+RV +A+ L+
Sbjct: 90 REFLDYIAWLKGIP-SKEVKARVDEVLELVNLGDRAKKKIGSLSGGMRRRVGIAQALVGD 148
Query: 148 KPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQ 207
IL++DEP A DP R LL ++ ++R +++ +H +ED + + V+ G+
Sbjct: 149 PSILIVDEPTAGLDPEERIRFRNLLSELGEDR--IVILSTHIVEDVESLCNQVAVLNKGK 206
Query: 208 IVYDG 212
+V++G
Sbjct: 207 LVFEG 211
>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 = 129 bits (327), Expect = 5e-31
Identities = 59/212 (27%), Positives = 98/212 (46%), Gaps = 47/212 (22%)
Query: 2 IKLDHLIYCYDNLKMQ----FDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIF 57
I+ ++ + Y + E++ I+GPSG+GKSTLL L+ PT G I
Sbjct: 1 IEFKNVSFSYPGRPKPVLKDVSLTIKPGEKVAIVGPSGSGKSTLLKLLLRLYDPTSGEIL 60
Query: 58 LNGQNHTRSSPS--KRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLE 115
++G + ++ ++ + Q+ LFS T+ +NI
Sbjct: 61 IDGVDLRDLDLESLRKNIAYVPQDPFLFS-GTIRENI----------------------- 96
Query: 116 KVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQV 175
+SGGQRQR+A+AR L+R PIL+LDE + DP IL L+ +
Sbjct: 97 --------------LSGGQRQRIAIARALLRDPPILILDEATSALDPETEALILEALRAL 142
Query: 176 CDERQLTLLMISHNLEDSMQIATRFIVIAGGQ 207
+ T+++I+H L +++ A R IV+ G+
Sbjct: 143 AKGK--TVIVIAHRLS-TIRDADRIIVLDDGR 171
>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 = 128 bits (323), Expect = 1e-30
Identities = 62/194 (31%), Positives = 104/194 (53%), Gaps = 6/194 (3%)
Query: 20 FQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQN----HTRSSPS-KRPLS 74
++ E + ++GPSGAGKSTLL L+ + PT G+I +NGQ+ R+ P +R +
Sbjct: 22 ISISAGEFVFLVGPSGAGKSTLLKLIYKEELPTSGTIRVNGQDVSDLRGRAIPYLRRKIG 81
Query: 75 ILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQMSGGQ 134
++FQ+ L V++N+A + +V LE V L P+++SGG+
Sbjct: 82 VVFQDFRLLPDRNVYENVAFALEVTGVPPREIRKRVPAALELVGLSHKHRALPAELSGGE 141
Query: 135 RQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSM 194
+QRVA+AR ++ IL+ DEP DP EI+ LLK++ ++ T+++ +H E
Sbjct: 142 QQRVAIARAIVNSPTILIADEPTGNLDPDTTWEIMNLLKKI-NKAGTTVVVATHAKELVD 200
Query: 195 QIATRFIVIAGGQI 208
R I + G++
Sbjct: 201 TTRHRVIALERGKL 214
>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 = 128 bits (323), Expect = 2e-30
Identities = 58/203 (28%), Positives = 105/203 (51%), Gaps = 5/203 (2%)
Query: 17 QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQN-HTRSSPSKRPLSI 75
V K E +LG +GAGK+T L ++ G PT G+ ++NG + T +++ L
Sbjct: 20 DLSLNVYKGEIFGLLGHNGAGKTTTLKMLTGELRPTSGTAYINGYSIRTDRKAARQSLGY 79
Query: 76 LFQENNLFSHLTVWQNIAL-GIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQMSGGQ 134
Q + LF LTV +++ L +V+ +L + L D N+ +SGG
Sbjct: 80 CPQFDALFDELTVREHLRFYARLKGLPKSEI-KEEVELLLRVLGLTDKANKRARTLSGGM 138
Query: 135 RQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSM 194
+++++LA LI +LLLDEP + DPA R I L+ +V R ++++ +H+++++
Sbjct: 139 KRKLSLAIALIGGPSVLLLDEPTSGLDPASRRAIWDLILEVRKGR--SIILTTHSMDEAE 196
Query: 195 QIATRFIVIAGGQIVYDGDPDRL 217
+ R +++ G++ G P L
Sbjct: 197 ALCDRIAIMSDGKLRCIGSPQEL 219
>gnl|CDD|73178 COG4608, AppF, ABC-type oligopeptide transport system, ATPase
component [Amino acid transport and metabolism].
Length = 268
Score = 125 bits (316), Expect = 8e-30
Identities = 64/202 (31%), Positives = 101/202 (50%), Gaps = 36/202 (17%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILFQ 78
F + + E + ++G SG GKSTL L+ G + PT G I G++ T+ S +R
Sbjct: 33 SFSIKEGETLGLVGESGCGKSTLGRLILGLEEPTSGEILFEGKDITKLSKEER------- 85
Query: 79 ENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFL-EDFFNRFPSQMSGGQRQR 137
+V ++LEKV L E+F R+P ++SGGQRQR
Sbjct: 86 ----------------------------RERVLELLEKVGLPEEFLYRYPHELSGGQRQR 117
Query: 138 VALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSMQIA 197
+ +AR L +++ DEP + D +++ +IL LLK + +E LT L ISH+L I+
Sbjct: 118 IGIARALALNPKLIVADEPVSALDVSVQAQILNLLKDLQEELGLTYLFISHDLSVVRYIS 177
Query: 198 TRFIVIAGGQIVYDGDPDRLMN 219
R V+ G+IV G + + +
Sbjct: 178 DRIAVMYLGKIVEIGPTEEVFS 199
>gnl|CDD|73019 cd03260, ABC_PstB_phosphate_transporter, Phosphate uptake is of
fundamental importance in the cell physiology of
bacteria because phosphate is required as a nutrient.
The Pst system of E. coli comprises four distinct
subunits encoded by the pstS, pstA, pstB, and pstC
genes. The PstS protein is a phosphate-binding protein
located in the periplasmic space. P stA and PstC are
hydrophobic and they form the transmembrane portion of
the Pst system. PstB is the catalytic subunit, which
couples the energy of ATP hydrolysis to the import of
phosphate across cellular membranes through the Pst
system, often referred as ABC-protein. PstB belongs to
one of the largest superfamilies of proteins
characterized by a highly conserved adenosine
triphosphate (ATP) binding cassette (ABC), which is also
a nucleotide binding domain (NBD)..
Length = 227
Score = 125 bits (315), Expect = 1e-29
Identities = 64/230 (27%), Positives = 116/230 (50%), Gaps = 17/230 (7%)
Query: 2 IKLDHLIYCYDNLKM--QFDFQVNKAERIVILGPSGAGKSTLLSLMAGF-----KYPTRG 54
I+L L Y + + K E ++GPSG GKSTLL L+ P G
Sbjct: 1 IELRDLNVYYGDKHALKDISLDIPKGEITALIGPSGCGKSTLLRLLNRLNDLIPGAPDEG 60
Query: 55 SIFLNGQNHTRSSPS----KRPLSILFQENNLFSHLTVWQNIALGIAPN-LRLDHYQHAQ 109
+ L+G++ +R + ++FQ+ N F +++ N+A G+ + ++L +
Sbjct: 61 EVLLDGKDIYDLDVDVLELRRRVGMVFQKPNPF-PGSIYDNVAYGLRLHGIKLKEELDER 119
Query: 110 VKQMLEKVFLEDFFNR--FPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHE 167
V++ L K L D +SGGQ+QR+ LAR L + +LLLDEP + DP +
Sbjct: 120 VEEALRKAALWDEVKDRLHALGLSGGQQQRLCLARALANEPEVLLLDEPTSALDPISTAK 179
Query: 168 ILGLLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRL 217
I L+ ++ E T+++++HN++ + ++A R + G++V G +++
Sbjct: 180 IEELIAELKKE--YTIVIVTHNMQQAARVADRTAFLLNGRLVEFGPTEQI 227
>gnl|CDD|33907 COG4161, ArtP, ABC-type arginine transport system, ATPase component
[Amino acid transport and metabolism].
Length = 242
Score = 124 bits (312), Expect = 2e-29
Identities = 74/229 (32%), Positives = 133/229 (58%), Gaps = 12/229 (5%)
Query: 2 IKLDHLIYCYDNLKMQFD--FQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLN 59
I+L+ + Y + FD + E +V+LGPSGAGKS+LL ++ + P G++ +
Sbjct: 3 IQLNGINCFYGAHQALFDITLDCPEGETLVLLGPSGAGKSSLLRVLNLLEMPRSGTLNIA 62
Query: 60 GQNHTRS-SPS-------KRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQ-HAQV 110
G + S +PS +R + ++FQ+ NL+ HLTV +N+ L L Q A+
Sbjct: 63 GNHFDFSKTPSDKAIRDLRRNVGMVFQQYNLWPHLTVQENLIEAPCRVLGLSKDQALARA 122
Query: 111 KQMLEKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILG 170
+++L+++ L+ + +R+P +SGGQ+QRVA+AR L+ + +LL DEP A DP + +I+
Sbjct: 123 EKLLKRLRLKPYADRYPLHLSGGQQQRVAIARALMMEPQVLLFDEPTAALDPEITAQIVS 182
Query: 171 LLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
++K++ E +T ++++H +E + + A+R + + G IV GD
Sbjct: 183 IIKEL-AETGITQVIVTHEVEVARKTASRVVYMENGHIVEQGDASCFTE 230
>gnl|CDD|31327 COG1132, MdlB, ABC-type multidrug transport system, ATPase and
permease components [Defense mechanisms].
Length = 567
Score = 124 bits (312), Expect = 2e-29
Identities = 73/234 (31%), Positives = 116/234 (49%), Gaps = 26/234 (11%)
Query: 2 IKLDHLIYCYDNLKM---QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
I+ +++ + Y K F + E++ I+GPSG+GKSTL+ L+ PT G I +
Sbjct: 329 IEFENVSFSYPGKKPVLKDISFSIEPGEKVAIVGPSGSGKSTLIKLLLRLYDPTSGEILI 388
Query: 59 NGQNHTRSSPSKRP--LSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEK 116
+G + S + I+ Q+ LFS T+ +NIALG ++++ L+
Sbjct: 389 DGIDIRDISLDSLRKRIGIVSQDPLLFS-GTIRENIALG------RPDATDEEIEEALKL 441
Query: 117 VFLEDFFNRFP-----------SQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALR 165
+F P +SGGQRQR+A+AR L+R PIL+LDE + D
Sbjct: 442 ANAHEFIANLPDGYDTIVGERGVNLSGGQRQRLAIARALLRNPPILILDEATSALDTETE 501
Query: 166 HEILGLLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
I LK++ R T L+I+H L +++ A R IV+ G+IV G + L+
Sbjct: 502 ALIQDALKKLLKGR--TTLIIAHRL-STIKNADRIIVLDNGRIVERGTHEELLA 552
>gnl|CDD|73004 cd03245, ABCC_bacteriocin_exporters, ABC-type bacteriocin
exporters. Many non-lantibiotic bacteriocins of lactic
acid bacteria are produced as precursors which have
N-terminal leader peptides that share similarities in
amino acid sequence and contain a conserved processing
site of two glycine residues in positions -1 and -2. A
dedicated ATP-binding cassette (ABC) transporter is
responsible for the proteolytic cleavage of the leader
peptides and subsequent translocation of the
bacteriocins across the cytoplasmic membrane..
Length = 220
Score = 124 bits (312), Expect = 3e-29
Identities = 72/207 (34%), Positives = 108/207 (52%), Gaps = 25/207 (12%)
Query: 20 FQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPS--KRPLSILF 77
+ E++ I+G G+GKSTLL L+AG PT GS+ L+G + + P+ +R + +
Sbjct: 25 LTIRAGEKVAIIGRVGSGKSTLLKLLAGLYKPTSGSVLLDGTDIRQLDPADLRRNIGYVP 84
Query: 78 QENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFP---------- 127
Q+ LF T+ NI LG AP ++ + E + DF N+ P
Sbjct: 85 QDVTLFYG-TLRDNITLG-AP-----LADDERILRAAELAGVTDFVNKHPNGLDLQIGER 137
Query: 128 -SQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMI 186
+SGGQRQ VALAR L+ PILLLDEP + D + L+Q+ ++ TL++I
Sbjct: 138 GRGLSGGQRQAVALARALLNDPPILLLDEPTSAMDMNSEERLKERLRQLLGDK--TLIII 195
Query: 187 SHNLEDSM-QIATRFIVIAGGQIVYDG 212
+H S+ + R IV+ G+IV DG
Sbjct: 196 THRP--SLLDLVDRIIVMDSGRIVADG 220
>gnl|CDD|31332 COG1137, YhbG, ABC-type (unclassified) transport system, ATPase
component [General function prediction only].
Length = 243
Score = 124 bits (312), Expect = 3e-29
Identities = 66/226 (29%), Positives = 117/226 (51%), Gaps = 8/226 (3%)
Query: 1 MIKLDHLIYCYDNLKM--QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
+ ++L Y K+ +VN E + +LGP+GAGK+T ++ G P G I L
Sbjct: 4 TLVAENLAKSYKKRKVVNDVSLEVNSGEIVGLLGPNGAGKTTTFYMIVGLVRPDSGKILL 63
Query: 59 NGQNHTRSSPSKRP---LSILFQENNLFSHLTVWQNI--ALGIAPNLRLDHYQHAQVKQM 113
+ ++ T+ KR + L QE ++F LTV NI L I + ++ +
Sbjct: 64 DDEDITKLPMHKRARLGIGYLPQEASIFRKLTVEDNIMAVLEIREKDLKKAERKEELDAL 123
Query: 114 LEKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLK 173
LE+ + + +SGG+R+RV +AR L +LLDEPFA DP +I ++K
Sbjct: 124 LEEFHITHLRDSKAYSLSGGERRRVEIARALAANPKFILLDEPFAGVDPIAVIDIQRIIK 183
Query: 174 QVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
+ +R + +L+ HN+ +++ I R +I+ G+++ +G P+ ++N
Sbjct: 184 HL-KDRGIGVLITDHNVRETLDICDRAYIISDGKVLAEGSPEEIVN 228
>gnl|CDD|34199 COG4555, NatA, ABC-type Na+ transport system, ATPase component
[Energy production and conversion / Inorganic ion
transport and metabolism].
Length = 245
Score = 123 bits (311), Expect = 3e-29
Identities = 59/221 (26%), Positives = 111/221 (50%), Gaps = 5/221 (2%)
Query: 1 MIKLDHLIYCYDNLKMQFD---FQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIF 57
M+++ L Y + F+ + E +LG +GAGK+TLL ++A P G +
Sbjct: 1 MLEVTDLTKSYGSKVQAVRDVSFEAEEGEITGLLGENGAGKTTLLRMIATLLIPDSGKVT 60
Query: 58 LNGQNHTR-SSPSKRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEK 116
++G + R S +R + +LF E L++ LT +N+ N A++ ++ ++
Sbjct: 61 IDGVDTVRDPSFVRRKIGVLFGERGLYARLTARENLKYFARLNGLSRKEIKARIAELSKR 120
Query: 117 VFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVC 176
+ L ++ +R + S G +Q+VA+AR L+ IL+LDEP + D R + +KQ
Sbjct: 121 LQLLEYLDRRVGEFSTGMKQKVAIARALVHDPSILVLDEPTSGLDIRTRRKFHDFIKQ-L 179
Query: 177 DERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRL 217
++ SH +++ + R IV+ G++V +G + L
Sbjct: 180 KNEGRAVIFSSHIMQEVEALCDRVIVLHKGEVVLEGSIEAL 220
>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 = 122 bits (307), Expect = 9e-29
Identities = 61/217 (28%), Positives = 110/217 (50%), Gaps = 18/217 (8%)
Query: 19 DFQVNKAERIVILGPSGAGKSTL-LSLMAGFKYP----TRGSIFLNGQNHTRSSPSKRP- 72
F++ K E + I+G SG+GKS L ++M P G I +G++ S +
Sbjct: 25 SFELKKGEILGIVGESGSGKSVLAKAIMGLLPKPNARIVGGEILFDGKDLLSLSEKELRK 84
Query: 73 -----LSILFQE--NNLFSHLTVWQNIALGIAPNLRLDHYQHA--QVKQMLEKVFLED-- 121
++++FQ+ +L +T+ IA + + + + A + ++LE V + D
Sbjct: 85 IRGKEIAMIFQDPMTSLNPVMTIGDQIAEVLRLHGKGLSKKEAKERAIELLELVGIPDPE 144
Query: 122 -FFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQ 180
+P ++SGG RQRV +A L +L+ DEP D ++ +IL LLK++ E+
Sbjct: 145 RRLKSYPHELSGGMRQRVMIAMALALNPKLLIADEPTTALDVTVQAQILDLLKELQREKG 204
Query: 181 LTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRL 217
L++I+H+L +IA R V+ G+IV +G + +
Sbjct: 205 TALILITHDLGVVAEIADRVAVMYAGRIVEEGPVEEI 241
>gnl|CDD|34201 COG4559, COG4559, ABC-type hemin transport system, ATPase component
[Inorganic ion transport and metabolism].
Length = 259
Score = 121 bits (306), Expect = 1e-28
Identities = 69/231 (29%), Positives = 109/231 (47%), Gaps = 13/231 (5%)
Query: 1 MIKLDHLIYCYDNLKM--QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
MI+ ++L Y ++ + E + ILGP+GAGKSTLL ++G P G + L
Sbjct: 1 MIRAENLSYSLAGRRLLDGVSLDLRPGEVLAILGPNGAGKSTLLKALSGELSPDSGEVTL 60
Query: 59 NGQNHTRSSPSK--RPLSILFQENNLFSHLTVWQNIALGIAPNL--RLDHYQHAQVKQML 114
NG P + R ++L Q ++L TV + + +G P+ R Q L
Sbjct: 61 NGVPLNSWPPEELARHRAVLPQNSSLAFPFTVQEVVQMGRIPHRSGREPEEDERIAAQAL 120
Query: 115 EKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKP------ILLLDEPFAVFDPALRHEI 168
L R +SGG++QRV LAR L + P L LDEP + D A +H
Sbjct: 121 AATDLSGLAGRDYRTLSGGEQQRVQLARVLAQLWPPVPSGRWLFLDEPTSALDIAHQHHT 180
Query: 169 LGLLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
L L +Q+ E +L + H+L + Q A R +++ G+++ G P ++
Sbjct: 181 LRLARQLAREG-GAVLAVLHDLNLAAQYADRIVLLHQGRVIASGSPQDVLT 230
>gnl|CDD|34233 COG4598, HisP, ABC-type histidine transport system, ATPase
component [Amino acid transport and metabolism].
Length = 256
Score = 120 bits (302), Expect = 4e-28
Identities = 62/213 (29%), Positives = 118/213 (55%), Gaps = 17/213 (7%)
Query: 21 QVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQN-------HTRSSPSKRP- 72
Q N + I I+G SG+GKST L + + P+ GSI +NG+ + P+ +
Sbjct: 28 QANAGDVISIIGSSGSGKSTFLRCINFLEKPSAGSIRVNGEEIRLKRDKDGQLKPADKRQ 87
Query: 73 -------LSILFQENNLFSHLTVWQNIALGIAPNLRLD-HYQHAQVKQMLEKVFLEDFFN 124
L ++FQ NL+SH+TV +N+ L + + ++ L KV + + +
Sbjct: 88 LQRLRTRLGMVFQHFNLWSHMTVLENVIEAPVHVLGVSKAEAIERAEKYLAKVGIAEKAD 147
Query: 125 RFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLL 184
+P+ +SGGQ+QRVA+AR L + ++L DEP + DP L E+L +++ + +E + T++
Sbjct: 148 AYPAHLSGGQQQRVAIARALAMEPEVMLFDEPTSALDPELVGEVLKVMQDLAEEGR-TMV 206
Query: 185 MISHNLEDSMQIATRFIVIAGGQIVYDGDPDRL 217
+++H + + +++ I + G+I +G P+++
Sbjct: 207 VVTHEMGFARDVSSHVIFLHQGKIEEEGPPEQV 239
>gnl|CDD|31298 COG1101, PhnK, ABC-type uncharacterized transport system, ATPase
component [General function prediction only].
Length = 263
Score = 119 bits (301), Expect = 5e-28
Identities = 67/213 (31%), Positives = 113/213 (53%), Gaps = 24/213 (11%)
Query: 17 QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRP--LS 74
++ + + + ++G +GAGKSTLL+ +AG PT G I ++G + T+ S +KR L+
Sbjct: 24 GLSLEIAEGDFVTVIGSNGAGKSTLLNAIAGDLKPTSGQILIDGVDVTKKSVAKRANLLA 83
Query: 75 ILFQ--ENNLFSHLTVWQNIAL--------GIAPNL---RLDHYQHAQVKQMLEKVFLED 121
+FQ LT+ +N+AL G++ L R ++ + L ++ L
Sbjct: 84 RVFQDPLAGTAPELTIEENLALAESRGKKRGLSSALNERRRSSFR-----ERLARLGL-G 137
Query: 122 FFNRFPSQM---SGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDE 178
NR ++ SGGQRQ ++L + ILLLDE A DP ++ L ++ +E
Sbjct: 138 LENRLSDRIGLLSGGQRQALSLLMATLHPPKILLLDEHTAALDPKTAEFVMELTAKIVEE 197
Query: 179 RQLTLLMISHNLEDSMQIATRFIVIAGGQIVYD 211
+LT LM++HN+ED++ R I++ G+IV D
Sbjct: 198 HKLTTLMVTHNMEDALDYGNRLIMLHSGKIVLD 230
>gnl|CDD|33636 COG3845, COG3845, ABC-type uncharacterized transport systems,
ATPase components [General function prediction only].
Length = 501
Score = 119 bits (300), Expect = 7e-28
Identities = 68/217 (31%), Positives = 111/217 (51%), Gaps = 16/217 (7%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPS---KRPLSI 75
V K E +LG +GAGKSTL+ ++ G P G I ++G+ SP + + +
Sbjct: 24 SLSVKKGEIHALLGENGAGKSTLMKILFGLYQPDSGEIRVDGKEVRIKSPRDAIRLGIGM 83
Query: 76 LFQENNLFSHLTVWQNIALGIAP--NLRLDHYQ-HAQVKQMLEKVFLEDFFNRFPSQMSG 132
+ Q L LTV +NI LG+ P +D Q A++K++ E+ L + + +S
Sbjct: 84 VHQHFMLVPTLTVAENIILGLEPSKGGLIDRRQARARIKELSERYGLPVDPDAKVADLSV 143
Query: 133 GQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLED 192
G++QRV + + L R +L+LDEP AV P E+ +L+++ E T++ I+H L++
Sbjct: 144 GEQQRVEILKALYRGARLLILDEPTAVLTPQEADELFEILRRLAAE-GKTIIFITHKLKE 202
Query: 193 SMQIATRFIVIAGGQIV--YDGDPD-------RLMNG 220
M IA R V+ G++V D + LM G
Sbjct: 203 VMAIADRVTVLRRGKVVGTVDPVAETTEEELAELMVG 239
Score = 77.5 bits (191), Expect = 3e-15
Identities = 60/213 (28%), Positives = 103/213 (48%), Gaps = 18/213 (8%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQN-HTRSSPSKRPLSILF 77
F+V E + I G +G G+S L+ ++G + P G I LNG++ R SP +R L
Sbjct: 278 SFEVRAGEIVGIAGVAGNGQSELVEAISGLRKPASGRILLNGKDVLGRLSPRERRRLGLA 337
Query: 78 ------QENNLFSHLTVWQNIALG---IAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPS 128
+ L L++ +N+ LG P R +++ ++ +E+F R PS
Sbjct: 338 YVPEDRHGHGLVLDLSLAENLVLGRHDKKPFSRGGFLDRRAIRKFAREL-IEEFDVRAPS 396
Query: 129 ------QMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLT 182
+SGG +Q++ LAR L R+ +L+ +P D I L ++ D +
Sbjct: 397 PDAPARSLSGGNQQKLILARELARRPDLLIAAQPTRGLDVGAIEFIHERLLELRDAGKAV 456
Query: 183 LLMISHNLEDSMQIATRFIVIAGGQIVYDGDPD 215
LL IS +L++ ++++ R VI G+IV P+
Sbjct: 457 LL-ISEDLDEILELSDRIAVIYEGRIVGIVPPE 488
>gnl|CDD|73008 cd03249, ABC_MTABC3_MDL1_MDL2, MTABC3 (also known as ABCB6) is a
mitochondrial ATP-binding cassette protein involved in
iron homeostasis and one of four ABC transporters
expressed in the mitochondrial inner membrane, the other
three being MDL1(ABC7), MDL2, and ATM1. In fact, the
yeast MDL1 (multidrug resistance-like protein 1) and
MDL2 (multidrug resistance-like protein 2) transporters
are also included in this CD. MDL1 is an ATP-dependent
permease that acts as a high-copy suppressor of ATM1 and
is thought to have a role in resistance to oxidative
stress. Interestingly, subfamily B is more closely
related to the carboxyl-terminal component of subfamily
C than the two halves of ABCC molecules are with one
another..
Length = 238
Score = 117 bits (295), Expect = 2e-27
Identities = 64/214 (29%), Positives = 102/214 (47%), Gaps = 23/214 (10%)
Query: 18 FDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPS--KRPLSI 75
+ + + ++G SG GKST++SL+ F PT G I L+G + + + + +
Sbjct: 22 LSLTIPPGKTVALVGSSGCGKSTVVSLLERFYDPTSGEILLDGVDIRDLNLRWLRSQIGL 81
Query: 76 LFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFP-------- 127
+ QE LF T+ +NI G +V++ +K + DF P
Sbjct: 82 VSQEPVLFD-GTIAENIRYGKPDA------TDEEVEEAAKKANIHDFIMSLPDGYDTLVG 134
Query: 128 ---SQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLL 184
SQ+SGGQ+QR+A+AR L+R ILLLDE + D + L + R T +
Sbjct: 135 ERGSQLSGGQKQRIAIARALLRNPKILLLDEATSALDAESEKLVQEALDRAMKGR--TTI 192
Query: 185 MISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLM 218
+I+H L +++ A V+ GQ+V G D LM
Sbjct: 193 VIAHRLS-TIRNADLIAVLQNGQVVEQGTHDELM 225
>gnl|CDD|73025 cd03266, ABC_NatA_sodium_exporter, NatA is the ATPase component of
a bacterial ABC-type Na+ transport system called NatAB,
which catalyzes ATP-dependent electrogenic Na+ extrusion
without mechanically coupled proton or K+ uptake. NatB
possess six putative membrane spanning regions at its
C-terminus. In B. subtilus, NatAB is inducible by
agents such as ethanol and protonophores, which lower
the protonmotive force across the membrane. The closest
sequence similarity to NatA is exhibited by DrrA of the
two-component daunomycin- and doxorubicin-efflux system.
Hence, the functional NatAB is presumably assembled
with two copies of a single ATP-binding protein and a
single intergral membrane protein..
Length = 218
Score = 117 bits (294), Expect = 3e-27
Identities = 58/224 (25%), Positives = 108/224 (48%), Gaps = 18/224 (8%)
Query: 1 MIKLDHLIYCYDNLKMQF------DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRG 54
MI D L + ++K F V E +LGP+GAGK+T L ++AG P G
Sbjct: 1 MITADALTKRFRDVKKTVQAVDGVSFTVKPGEVTGLLGPNGAGKTTTLRMLAGLLEPDAG 60
Query: 55 SIFLNGQN-HTRSSPSKRPLSILFQENNLFSHLTVWQNIAL-----GIAPNLRLDHYQHA 108
++G + + ++R L + L+ LT +N+ G+ A
Sbjct: 61 FATVDGFDVVKEPAEARRRLGFVSDSTGLYDRLTARENLEYFAGLYGLKG-----DELTA 115
Query: 109 QVKQMLEKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEI 168
+++++ +++ +E+ +R S G RQ+VA+AR L+ P+LLLDEP D +
Sbjct: 116 RLEELADRLGMEELLDRRVGGFSTGMRQKVAIARALVHDPPVLLLDEPTTGLDVMATRAL 175
Query: 169 LGLLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDG 212
++Q+ +L +H +++ ++ R +V+ G++VY+G
Sbjct: 176 REFIRQLRAL-GKCILFSTHIMQEVERLCDRVVVLHRGRVVYEG 218
>gnl|CDD|73024 cd03265, ABC_DrrA, DrrA is the ATP-binding protein component of a
bacterial exporter complex that confers resistance to
the antibiotics daunorubicin and doxorubicin. In
addition to DrrA, the complex includes an integral
membrane protein called DrrB. DrrA belongs to the ABC
family of transporters and shares sequence and
functional similarities with a protein found in cancer
cells called P-glycoprotein. 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 = 116 bits (292), Expect = 5e-27
Identities = 63/223 (28%), Positives = 122/223 (54%), Gaps = 11/223 (4%)
Query: 2 IKLDHLIYCYDNLKM--QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLN 59
I++++L+ Y + + F+V + E +LGP+GAGK+T + ++ PT G +
Sbjct: 1 IEVENLVKKYGDFEAVRGVSFRVRRGEIFGLLGPNGAGKTTTIKMLTTLLKPTSGRATVA 60
Query: 60 GQNHTRSSPS-KRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQ----ML 114
G + R +R + I+FQ+ ++ LT W+N+ + + RL A+ ++ +L
Sbjct: 61 GHDVVREPREVRRRIGIVFQDLSVDDELTGWENLYI----HARLYGVPGAERRERIDELL 116
Query: 115 EKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQ 174
+ V L + +R SGG R+R+ +AR L+ + +L LDEP DP R + +++
Sbjct: 117 DFVGLLEAADRLVKTYSGGMRRRLEIARSLVHRPEVLFLDEPTIGLDPQTRAHVWEYIEK 176
Query: 175 VCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRL 217
+ +E +T+L+ +H +E++ Q+ R +I G+I+ +G P+ L
Sbjct: 177 LKEEFGMTILLTTHYMEEAEQLCDRVAIIDHGRIIAEGTPEEL 219
>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 = 115 bits (290), Expect = 8e-27
Identities = 55/190 (28%), Positives = 87/190 (45%), Gaps = 50/190 (26%)
Query: 18 FDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILF 77
+ E + ++GP+G+GKSTLL +AG PT G I ++G++ + + I +
Sbjct: 18 VSLTLKAGEIVALVGPNGSGKSTLLRAIAGLLKPTSGEILIDGKDIAKLPLEELRRRIGY 77
Query: 78 QENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQMSGGQRQR 137
V Q+SGGQRQR
Sbjct: 78 ---------------------------------------VP----------QLSGGQRQR 88
Query: 138 VALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSMQIA 197
VALAR L+ +LLLDEP + DPA R +L LL+++ +E T+++++H+ E + A
Sbjct: 89 VALARALLLNPDLLLLDEPTSGLDPASRERLLELLRELAEE-GRTVIIVTHDPELAELAA 147
Query: 198 TRFIVIAGGQ 207
R IV+ G+
Sbjct: 148 DRVIVLKDGK 157
>gnl|CDD|31316 COG1119, ModF, ABC-type molybdenum transport system, ATPase
component/photorepair protein PhrA [Inorganic ion
transport and metabolism].
Length = 257
Score = 113 bits (285), Expect = 3e-26
Identities = 58/237 (24%), Positives = 106/237 (44%), Gaps = 37/237 (15%)
Query: 1 MIKLDHLIYCYDNLKM--QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
+I+L ++ + K+ +QVN E I+GP+GAGK+TLLSL+ G P+ G + L
Sbjct: 31 LIELKNVSVRRNGKKILGDLSWQVNPGEHWAIVGPNGAGKTTLLSLLTGEHPPSSGDVTL 90
Query: 59 NGQNHTR-------------SSPSKRPLSILFQENNL---------FSHLTVWQNIALGI 96
G+ + S L F+ F+ + ++Q
Sbjct: 91 LGRRFGKGETIFELRKRIGLVSSE---LHERFRVRETVRDVVLSGFFASIGIYQE----- 142
Query: 97 APNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEP 156
L A + +LE + + +R +S G+++RV +AR L++ +L+LDEP
Sbjct: 143 ----DLTAEDLAAAQWLLELLGAKHLADRPFGSLSQGEQRRVLIARALVKDPELLILDEP 198
Query: 157 FAVFDPALRHEILGLLKQVC-DERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDG 212
D R ++L L+++ LL ++H+ E+ T +++ G++V G
Sbjct: 199 AQGLDLIAREQLLNRLEELAASPGAPALLFVTHHAEEIPPCFTHRLLLKEGEVVAQG 255
>gnl|CDD|34235 COG4604, CeuD, ABC-type enterochelin transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 252
Score = 113 bits (284), Expect = 4e-26
Identities = 72/226 (31%), Positives = 120/226 (53%), Gaps = 8/226 (3%)
Query: 1 MIKLDHLIYCYDNLKMQFD--FQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
MI ++++ Y + D + K I+GP+GAGKSTLLS+M+ G I +
Sbjct: 1 MITIENVSKSYGTKVVLDDVSLDIPKGGITSIIGPNGAGKSTLLSMMSRLLKKDSGEITI 60
Query: 59 NGQNHTRSSPSK---RPLSILFQENNLFSHLTVWQNIALGIAP--NLRLDHYQHAQVKQM 113
+G T S+PSK + LSIL QEN++ S LTV + G P RL + +
Sbjct: 61 DGLELT-STPSKELAKKLSILKQENHINSRLTVRDLVGFGRFPYSQGRLTKEDRRIINEA 119
Query: 114 LEKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLK 173
+E + LED +R+ ++SGGQRQR +A L + +LLDEP D +I+ +L+
Sbjct: 120 IEYLHLEDLSDRYLDELSGGQRQRAFIAMVLAQDTDYVLLDEPLNNLDMKHSVQIMKILR 179
Query: 174 QVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
++ DE T++++ H++ + + + + G++V G PD ++
Sbjct: 180 RLADELGKTIVVVLHDINFASCYSDHIVALKNGKVVKQGSPDEIIQ 225
>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 = 113 bits (283), Expect = 5e-26
Identities = 66/201 (32%), Positives = 107/201 (53%), Gaps = 7/201 (3%)
Query: 17 QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQ------NHTRSSPSK 70
+ V + E + I+GPSG+GKSTLL+++AG P+ G + L GQ R++
Sbjct: 28 GVELVVKRGETVAIVGPSGSGKSTLLAVLAGLDDPSSGEVRLLGQPLHKLDEDARAALRA 87
Query: 71 RPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQM 130
R + +FQ +L +LT +N+AL + A K +LE V L +P+Q+
Sbjct: 88 RHVGFVFQSFHLIPNLTALENVALPLELRGESSADSRAGAKALLEAVGLGKRLTHYPAQL 147
Query: 131 SGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNL 190
SGG++QRVALAR + +L DEP D A +I LL + ER TL++++H+
Sbjct: 148 SGGEQQRVALARAFAGRPDVLFADEPTGNLDRATGDKIADLLFALNRERGTTLVLVTHDP 207
Query: 191 EDSMQIATRFIVIAGGQIVYD 211
+ + + R + + G++V D
Sbjct: 208 QLAAR-CDRQLRLRSGRLVED 227
>gnl|CDD|73012 cd03253, ABCC_ATM1_transporter, ATM1 is an ABC transporter that is
expressed in the mitochondria. Although the specific
function of ATM1 is unknown, its disruption results in
the accumulation of excess mitochondrial iron, loss of
mitochondrial cytochromes, oxidative damage to
mitochondrial DNA, and decreased levels of cytosolic
heme proteins. 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 = 236
Score = 112 bits (283), Expect = 6e-26
Identities = 72/235 (30%), Positives = 118/235 (50%), Gaps = 28/235 (11%)
Query: 2 IKLDHLIYCYDNLKMQFD---FQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
I+ +++ + YD + F + +++ I+GPSG+GKST+L L+ F + GSI +
Sbjct: 1 IEFENVTFAYDPGRPVLKDVSFTIPAGKKVAIVGPSGSGKSTILRLLFRFYDVSSGSILI 60
Query: 59 NGQ---NHTRSSPSKRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLE 115
+GQ T S +R + ++ Q+ LF + T+ NI G R D +V + +
Sbjct: 61 DGQDIREVTLDS-LRRAIGVVPQDTVLF-NDTIGYNIRYG-----RPD-ATDEEVIEAAK 112
Query: 116 KVFLEDFFNRFPSQ-----------MSGGQRQRVALARCLIRQKPILLLDEPFAVFDPAL 164
+ D RFP +SGG++QRVA+AR +++ PILLLDE + D
Sbjct: 113 AAQIHDKIMRFPDGYDTIVGERGLKLSGGEKQRVAIARAILKNPPILLLDEATSALDTHT 172
Query: 165 RHEILGLLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
EI L+ V R T ++I+H L + A + IV+ G+IV G + L+
Sbjct: 173 EREIQAALRDVSKGR--TTIVIAHRLSTIVN-ADKIIVLKDGRIVERGTHEELLA 224
>gnl|CDD|73010 cd03251, ABCC_MsbA, MsbA is an essential ABC transporter, closely
related to eukaryotic MDR proteins. 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 = 234
Score = 110 bits (276), Expect = 4e-25
Identities = 61/214 (28%), Positives = 107/214 (50%), Gaps = 23/214 (10%)
Query: 18 FDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPS--KRPLSI 75
+ E + ++GPSG+GKSTL++L+ F G I ++G + + + +R + +
Sbjct: 21 ISLDIPAGETVALVGPSGSGKSTLVNLIPRFYDVDSGRILIDGHDVRDYTLASLRRQIGL 80
Query: 76 LFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFP-------- 127
+ Q+ LF+ TV +NIA G P +V++ +F P
Sbjct: 81 VSQDVFLFND-TVAENIAYG-RPGA-----TREEVEEAARAANAHEFIMELPEGYDTVIG 133
Query: 128 ---SQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLL 184
++SGGQRQR+A+AR L++ PIL+LDE + D + L+++ R T
Sbjct: 134 ERGVKLSGGQRQRIAIARALLKDPPILILDEATSALDTESERLVQAALERLMKNR--TTF 191
Query: 185 MISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLM 218
+I+H L +++ A R +V+ G+IV G + L+
Sbjct: 192 VIAHRLS-TIENADRIVVLEDGKIVERGTHEELL 224
>gnl|CDD|73013 cd03254, ABCC_Glucan_exporter_like, Glucan exporter ATP-binding
protein. In A. tumefaciens cyclic beta-1, 2-glucan must
be transported into the periplasmic space to exert its
action as a virluence factor. This subfamily belongs to
the MRP-like family and is involved in drug, peptide,
and lipid export. The MRP-like family, similar 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 = 229
Score = 110 bits (276), Expect = 4e-25
Identities = 67/233 (28%), Positives = 121/233 (51%), Gaps = 26/233 (11%)
Query: 2 IKLDHLIYCYDNLKM---QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
I+ +++ + YD K +F + E + I+GP+GAGK+TL++L+ F P +G I +
Sbjct: 3 IEFENVNFSYDEKKPVLKDINFSIKPGETVAIVGPTGAGKTTLINLLMRFYDPQKGQILI 62
Query: 59 NGQN-HTRSSPSKRP-LSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEK 116
+G + S S R + ++ Q+ LFS T+ +NI LG PN + +V + ++
Sbjct: 63 DGIDIRDISRKSLRSMIGVVLQDTFLFSG-TIMENIRLG-RPNATDE-----EVIEAAKE 115
Query: 117 VFLEDFFNRFP-----------SQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALR 165
DF + P +S G+RQ +A+AR ++R IL+LDE + D
Sbjct: 116 AGAHDFIMKLPNGYDTVLGENGGNLSQGERQLLAIARAMLRDPKILILDEATSNIDTETE 175
Query: 166 HEILGLLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLM 218
I L+++ R T ++I+H L +++ A + +V+ G+I+ +G D L+
Sbjct: 176 KLIQEALEKLMKGR--TSIIIAHRL-STIKNADKILVLDDGKIIEEGTHDELL 225
>gnl|CDD|33913 COG4172, COG4172, ABC-type uncharacterized transport system,
duplicated ATPase component [General function prediction
only].
Length = 534
Score = 108 bits (272), Expect = 1e-24
Identities = 65/214 (30%), Positives = 113/214 (52%), Gaps = 17/214 (7%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSS-----PSKRPL 73
+ + + + ++G SG+GKSTL + P++G I +GQ+ S P +R +
Sbjct: 307 SLTLRRGQTLGLVGESGSGKSTLGLALLRL-IPSQGEIRFDGQDIDGLSRKEMRPLRRRM 365
Query: 74 SILFQENNLFSHLTVWQNIALGIAPNLRLDHYQH-------AQVKQMLEKVFLE-DFFNR 125
++FQ+ + L+ + I LR+ H +V + LE+V L+ NR
Sbjct: 366 QVVFQDP--YGSLSPRMTVGQIIEEGLRV-HEPKLSAAERDQRVIEALEEVGLDPATRNR 422
Query: 126 FPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLM 185
+P + SGGQRQR+A+AR LI + ++LLDEP + D +++ ++L LL+ + + L+ L
Sbjct: 423 YPHEFSGGQRQRIAIARALILKPELILLDEPTSALDRSVQAQVLDLLRDLQQKHGLSYLF 482
Query: 186 ISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
ISH+L + R IV+ G+IV G + +
Sbjct: 483 ISHDLAVVRALCHRVIVMRDGKIVEQGPTEAVFA 516
Score = 100 bits (250), Expect = 4e-22
Identities = 65/219 (29%), Positives = 108/219 (49%), Gaps = 23/219 (10%)
Query: 19 DFQVNKAERIVILGPSGAGKS-TLLSLMAGFKYPTR----GSIFLNGQNHTRSSPSKR-- 71
F + E + ++G SG+GKS T LS++ P GSI +G++ +S +
Sbjct: 30 SFDIEAGETLALVGESGSGKSVTALSILGLLPSPAAAHPSGSILFDGEDLLAASERQLRG 89
Query: 72 ----PLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQ------HAQVKQMLEKVFLED 121
+ ++FQE + L I +A LRL H A+ ++LE V + +
Sbjct: 90 VRGNKIGMIFQEP--MTSLNPLHTIGKQLAEVLRL-HRGLSRAAARARALELLELVGIPE 146
Query: 122 ---FFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDE 178
+ +P ++SGGQRQRV +A L + +L+ DEP D ++ +IL LLK++ E
Sbjct: 147 PEKRLDAYPHELSGGQRQRVMIAMALANEPDLLIADEPTTALDVTVQAQILDLLKELQAE 206
Query: 179 RQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRL 217
+ +L I+H+L + A R V+ G+IV G + L
Sbjct: 207 LGMAILFITHDLGIVRKFADRVYVMQHGEIVETGTTETL 245
>gnl|CDD|35280 KOG0057, KOG0057, KOG0057, Mitochondrial Fe/S cluster exporter, ABC
superfamily [Intracellular trafficking, secretion, and
vesicular transport].
Length = 591
Score = 108 bits (272), Expect = 1e-24
Identities = 64/214 (29%), Positives = 106/214 (49%), Gaps = 24/214 (11%)
Query: 18 FDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPS--KRPLSI 75
F + K E++ I+G +G+GKST+L L+ F + GSI ++GQ+ S ++ + +
Sbjct: 371 VSFTIPKGEKVAIVGSNGSGKSTILRLLLRF-FDYSGSILIDGQDIKEVSLESLRQSIGV 429
Query: 76 LFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQ------ 129
+ Q++ LF + T+ NI G N + V + ++ L D +R P
Sbjct: 430 VPQDSVLF-NDTILYNIKYG---NPSASDEE---VVEACKRAGLHDVISRLPDGYQTLVG 482
Query: 130 -----MSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLL 184
+SGG++QRV+LAR ++ PILLLDE + D EIL ++ V R T++
Sbjct: 483 ERGLMLSGGEKQRVSLARAFLKDAPILLLDEATSALDSETEREILDMIMDVMSGR--TVI 540
Query: 185 MISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLM 218
MI H L+ + IV+ G + G L+
Sbjct: 541 MIVHRLDLLKD-FDKIIVLDNGTVKEYGTHSELL 573
>gnl|CDD|72985 cd03226, ABC_cobalt_CbiO_domain2, Domain II 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. The CbiMNQO family ABC transport system is
involved in cobalt transport in association with the
cobalamin (vitamin B12) biosynthetic pathways. Most
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 = 205
Score = 108 bits (271), Expect = 2e-24
Identities = 54/194 (27%), Positives = 100/194 (51%), Gaps = 11/194 (5%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILFQ 78
+ E I + G +GAGK+TL ++AG + GSI LNG+ +R SI +
Sbjct: 20 SLDLYAGEIIALTGKNGAGKTTLAKILAGLIKESSGSILLNGKP---IKAKERRKSIGYV 76
Query: 79 ENNLFSHL---TVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQMSGGQR 135
++ L +V + + LG L+ + Q + +L+ + L R P +SGGQ+
Sbjct: 77 MQDVDYQLFTDSVREELLLG----LKELDAGNEQAETVLKDLDLYALKERHPLSLSGGQK 132
Query: 136 QRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSMQ 195
QR+A+A L+ K +L+ DEP + D + L++++ + + +++I+H+ E +
Sbjct: 133 QRLAIAAALLSGKDLLIFDEPTSGLDYKNMERVGELIRELAAQGK-AVIVITHDYEFLAK 191
Query: 196 IATRFIVIAGGQIV 209
+ R +++A G IV
Sbjct: 192 VCDRVLLLANGAIV 205
>gnl|CDD|35281 KOG0058, KOG0058, KOG0058, Peptide exporter, ABC superfamily
[Intracellular trafficking, secretion, and vesicular
transport].
Length = 716
Score = 108 bits (270), Expect = 2e-24
Identities = 69/235 (29%), Positives = 119/235 (50%), Gaps = 28/235 (11%)
Query: 2 IKLDHLIYCYDNLKMQ-----FDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSI 56
I+ + + + Y F + E + ++GPSG+GKST+ SL+ F PT G I
Sbjct: 466 IEFEDVSFAYPTRPDVPVLKNLSFTIRPGEVVALVGPSGSGKSTIASLLLRFYDPTSGRI 525
Query: 57 FLNGQNHTRSSPS--KRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQML 114
L+G + + +R + ++ QE LFS ++ +NIA G LD+ +++
Sbjct: 526 LLDGVPISDINHKYLRRKIGLVGQEPVLFSG-SIRENIAYG------LDNATDEEIEAAA 578
Query: 115 EKVFLEDFFNRFP-----------SQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPA 163
+ +F FP SQ+SGGQ+QR+A+AR L+R +L+LDE + D
Sbjct: 579 KMANAHEFITNFPDGYNTVVGEKGSQLSGGQKQRIAIARALLRNPRVLILDEATSALDAE 638
Query: 164 LRHEILGLLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLM 218
+ + L ++ R T+L+I+H L +++ A + +VI G++V G D L+
Sbjct: 639 SEYLVQEALDRLMQGR--TVLVIAHRLS-TVRHADQIVVIDKGRVVEMGTHDELL 690
>gnl|CDD|34242 COG4619, COG4619, ABC-type uncharacterized transport system, ATPase
component [General function prediction only].
Length = 223
Score = 107 bits (269), Expect = 2e-24
Identities = 58/193 (30%), Positives = 96/193 (49%), Gaps = 8/193 (4%)
Query: 20 FQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPS--KRPLSILF 77
V E I I GPSG GKSTLL ++A PT G++ G++ + P ++ +S
Sbjct: 24 LSVRAGEFIAITGPSGCGKSTLLKIVASLISPTSGTLLFEGEDVSTLKPEAYRQQVSYCA 83
Query: 78 QENNLFSHLTVWQNIALGIAP-NLRLDHYQHAQVKQMLEKVFLED-FFNRFPSQMSGGQR 135
Q LF TV N+ I P +R A +L + L D + +++SGG++
Sbjct: 84 QTPALFGD-TVEDNL---IFPWQIRNRRPDRAAALDLLARFALPDSILTKNITELSGGEK 139
Query: 136 QRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSMQ 195
QR+AL R L ILLLDE + D + + I ++ + E+ + +L I+H+ + +++
Sbjct: 140 QRIALIRNLQFMPKILLLDEITSALDESNKRNIEEMIHRYVREQNVAVLWITHDKDQAIR 199
Query: 196 IATRFIVIAGGQI 208
A + I + G
Sbjct: 200 HADKVITLQPGHA 212
>gnl|CDD|143798 pfam00005, ABC_tran, ABC transporter. ABC transporters for a large
family of proteins responsible for translocation of a
variety of compounds across biological membranes. ABC
transporters are the largest family of proteins in many
completely sequenced bacteria. ABC transporters are
composed of two copies of this domain and two copies of
a transmembrane domain pfam00664. These four domains may
belong to a single polypeptide or belong in different
polypeptide chains.
Length = 119
Score = 107 bits (268), Expect = 4e-24
Identities = 51/124 (41%), Positives = 75/124 (60%), Gaps = 9/124 (7%)
Query: 39 STLLSLMAGFKYPTRGSIFLNGQNHTRSSPSK---RPLSILFQENNLFSHLTVWQNIALG 95
STLL L+ G PT G+I L+G++ T S K + + ++FQ+ LF LTV +N+ G
Sbjct: 1 STLLKLITGLLQPTSGTILLDGEDGTDLSSRKALRKRIGVVFQDPQLFPELTVRENLFFG 60
Query: 96 IAPNLRLDHYQHAQVKQMLEKVFLEDFFNR-FPSQMSGGQRQRVALARCLIRQKPILLLD 154
D A+ ++ LE+V L DF +R +SGGQ+QRVA+AR L+++ +LLLD
Sbjct: 61 -----LRDKEADARAEEALERVGLPDFLDRSPVGTLSGGQKQRVAIARALLKKPKLLLLD 115
Query: 155 EPFA 158
EP A
Sbjct: 116 EPTA 119
>gnl|CDD|72975 cd03216, ABC_Carb_Monos_I, This family represents the domain I of
the carbohydrate uptake proteins that transport only
monosaccharides (Monos). The Carb_Monos family is
involved in the uptake of monosaccharides, such as
pentoses (such as xylose, arabinose, and ribose) and
hexoses (such as xylose, arabinose, and ribose), that
cannot be broken down to simple sugars by hydrolysis.
Pentoses include xylose, arabinose, and ribose.
Important hexoses include glucose, galactose, and
fructose. In members of the Carb_monos family, the
single hydrophobic gene product forms a homodimer while
the ABC protein represents a fusion of two
nucleotide-binding domains. However, it is assumed that
two copies of the ABC domains are present in the
assembled transporter..
Length = 163
Score = 105 bits (265), Expect = 9e-24
Identities = 50/193 (25%), Positives = 84/193 (43%), Gaps = 49/193 (25%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILFQ 78
V + E +LG +GAGKSTL+ +++G P G I ++G+ + +SP
Sbjct: 20 SLSVRRGEVHALLGENGAGKSTLMKILSGLYKPDSGEILVDGKEVSFASPRDA------- 72
Query: 79 ENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQMSGGQRQRV 138
GIA V+ Q+S G+RQ V
Sbjct: 73 -------------RRAGIAM------------------VY----------QLSVGERQMV 91
Query: 139 ALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSMQIAT 198
+AR L R +L+LDEP A PA + +++++ + + ++ ISH L++ +IA
Sbjct: 92 EIARALARNARLLILDEPTAALTPAEVERLFKVIRRLR-AQGVAVIFISHRLDEVFEIAD 150
Query: 199 RFIVIAGGQIVYD 211
R V+ G++V
Sbjct: 151 RVTVLRDGRVVGT 163
>gnl|CDD|73027 cd03268, ABC_BcrA_bacitracin_resist, The BcrA subfamily represents
ABC transporters involved in peptide antibiotic
resistance. Bacitracin is a dodecapeptide antibiotic
produced by B. licheniformis and B. subtilis. The
synthesis of bacitracin is non-ribosomally catalyzed by
a multienzyme complex BcrABC. Bacitracin has potent
antibiotic activity against gram-positive bacteria. The
inhibition of peptidoglycan biosynthesis is the best
characterized bacterial effect of bacitracin. The
bacitracin resistance of B. licheniformis is mediated by
the ABC transporter Bcr which is composed of two
identical BcrA ATP-binding subunits and one each of the
integral membrane proteins, BcrB and BcrC. B. subtilis
cells carrying bcr genes on high-copy number plasmids
develop collateral detergent sensitivity, a similar
phenomenon in human cells with overexpressed multi-drug
resistance P-glycoprotein..
Length = 208
Score = 105 bits (264), Expect = 9e-24
Identities = 54/196 (27%), Positives = 101/196 (51%), Gaps = 5/196 (2%)
Query: 17 QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSIL 76
V K E LGP+GAGK+T + ++ G P G I +G+++ ++ + R + L
Sbjct: 18 DISLHVKKGEIYGFLGPNGAGKTTTMKIILGLIKPDSGEITFDGKSYQKNIEALRRIGAL 77
Query: 77 FQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQMSGGQRQ 136
+ + +LT +N+ L RL + ++ ++L+ V L+D + S G +Q
Sbjct: 78 IEAPGFYPNLTARENLRL----LARLLGIRKKRIDEVLDVVGLKDSAKKKVKGFSLGMKQ 133
Query: 137 RVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSMQI 196
R+ +A L+ +L+LDEP DP E+ L+ + D+ +T+L+ SH L + ++
Sbjct: 134 RLGIALALLGNPDLLILDEPTNGLDPDGIKELRELILSLRDQ-GITVLISSHLLSEIQKV 192
Query: 197 ATRFIVIAGGQIVYDG 212
A R +I G+++ +G
Sbjct: 193 ADRIGIINKGKLIEEG 208
>gnl|CDD|73026 cd03267, ABC_NatA_like, Similar in sequence to NatA, this is the
ATPase component of a bacterial ABC-type Na+ transport
system called NatAB, which catalyzes ATP-dependent
electrogenic Na+ extrusion without mechanically coupled
to proton or K+ uptake. NatB possess six putative
membrane spanning regions at its C-terminus. In B.
subtilis, NatAB is inducible by agents such as ethanol
and protonophores, which lower the protonmotive force
across the membrane. The closest sequence similarity to
NatA is exhibited by DrrA of the two-component
daunomycin- and doxorubicin-efflux system. Hence, the
functional NatAB is presumably assembled with two copies
of the single ATP-binding protein and the single
intergral membrane protein..
Length = 236
Score = 105 bits (264), Expect = 1e-23
Identities = 62/197 (31%), Positives = 102/197 (51%), Gaps = 4/197 (2%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQN-HTRSSPSKRPLSILF 77
F + K E + +GP+GAGK+T L +++G PT G + + G R R + ++F
Sbjct: 41 SFTIEKGEIVGFIGPNGAGKTTTLKILSGLLQPTSGEVRVAGLVPWKRRKKFLRRIGVVF 100
Query: 78 -QENNLFSHLTVWQNIALGIAPNLRLDHYQHAQ-VKQMLEKVFLEDFFNRFPSQMSGGQR 135
Q+ L+ L V + L +A L + + + ++ E + LE+ + Q+S GQR
Sbjct: 101 GQKTQLWWDLPVIDSFYL-LAAIYDLPPARFKKRLDELSELLDLEELLDTPVRQLSLGQR 159
Query: 136 QRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSMQ 195
R +A L+ + IL LDEP D + I LK+ ER T+L+ SH ++D
Sbjct: 160 MRAEIAAALLHEPEILFLDEPTIGLDVVAQENIRNFLKEYNRERGTTVLLTSHYMKDIEA 219
Query: 196 IATRFIVIAGGQIVYDG 212
+A R +VI G+++YDG
Sbjct: 220 LARRVLVIDKGRLLYDG 236
>gnl|CDD|34224 COG4586, COG4586, ABC-type uncharacterized transport system, ATPase
component [General function prediction only].
Length = 325
Score = 104 bits (261), Expect = 2e-23
Identities = 64/216 (29%), Positives = 99/216 (45%), Gaps = 14/216 (6%)
Query: 20 FQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILFQE 79
F++ K E + LG +GAGKST L ++ G PT G + +NG++ P +R L
Sbjct: 45 FEIPKGEIVGFLGANGAGKSTTLKMLTGLLLPTSGKVRVNGKD-----PFRRREEYLRSI 99
Query: 80 NNLFSHLT--VWQNIALGIAPNLRL------DHYQHAQVKQMLEKVFLEDFFNRFPSQMS 131
+ W AL L+L D + ++ + E + LE F ++S
Sbjct: 100 GLVMGQKLQLWWDLPALDSLEVLKLIYEIPDDEF-AERLDFLTEILDLEGFLKWPVRKLS 158
Query: 132 GGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLE 191
GQR R LA L+ +L LDEP D + I LK+ +ERQ T+L+ +H +
Sbjct: 159 LGQRMRAELAAALLHPPKVLFLDEPTVGLDVNAQANIREFLKEYNEERQATVLLTTHIFD 218
Query: 192 DSMQIATRFIVIAGGQIVYDGDPDRLMNGLIPESTL 227
D + R ++I GQ+V+DG +L P
Sbjct: 219 DIATLCDRVLLIDQGQLVFDGTLAQLQEQFGPYKEF 254
>gnl|CDD|34291 COG4674, COG4674, Uncharacterized ABC-type transport system, ATPase
component [General function prediction only].
Length = 249
Score = 103 bits (259), Expect = 3e-23
Identities = 59/229 (25%), Positives = 111/229 (48%), Gaps = 23/229 (10%)
Query: 12 DNLKMQFD---------FQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQN 62
D + + F F V+ E V++GP+GAGK+TL+ ++ G P G + +G
Sbjct: 9 DGVSVSFGGFKALNDLSFSVDPGELRVLIGPNGAGKTTLMDVITGKTRPQEGEVLFDGDT 68
Query: 63 HTRSSP----SKRPLSILFQENNLFSHLTVWQNIAL------GIAPNL--RLDHYQHAQV 110
P ++ + FQ+ +F +LTV +N+ L + +L RL + ++
Sbjct: 69 DLTKLPEHRIARAGIGRKFQKPTVFENLTVRENLELALNRDKSVFASLFARLRAEERRRI 128
Query: 111 KQMLEKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILG 170
++L + L D +R + +S GQ+Q + + L + +LLLDEP A A +
Sbjct: 129 DELLATIGLGDERDRLAALLSHGQKQWLEIGMLLAQDPKLLLLDEPVAGMTDAETEKTAE 188
Query: 171 LLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
LLK + + ++L++ H++ +IA + V+ G ++ +G D + N
Sbjct: 189 LLKSL--AGKHSILVVEHDMGFVREIADKVTVLHEGSVLAEGSLDEVQN 235
>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 = 102 bits (256), Expect = 7e-23
Identities = 59/216 (27%), Positives = 101/216 (46%), Gaps = 43/216 (19%)
Query: 2 IKLDHLIYCYDNLKMQ----FDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIF 57
+ ++++ + Y + Q ++ + E+I +LG SG+GKSTLL L+ G P +G I
Sbjct: 1 LSINNVSFSYPEQEQQVLKNLSLELKQGEKIALLGRSGSGKSTLLQLLTGDLKPQQGEIT 60
Query: 58 LNGQN-HTRSSPSKRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEK 116
L+G +S+L Q LF T+ N+
Sbjct: 61 LDGVPVSDLEKALSSLISVLNQRPYLFDT-TLRNNLGR---------------------- 97
Query: 117 VFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVC 176
+ SGG+RQR+ALAR L++ PI+LLDEP DP ++L L+ +V
Sbjct: 98 ------------RFSGGERQRLALARILLQDAPIVLLDEPTVGLDPITERQLLSLIFEVL 145
Query: 177 DERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDG 212
++ TL+ I+H+L ++ + + + G+I+ G
Sbjct: 146 KDK--TLIWITHHLT-GIEHMDKILFLENGKIIMQG 178
>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 = 102 bits (256), Expect = 7e-23
Identities = 60/207 (28%), Positives = 101/207 (48%), Gaps = 21/207 (10%)
Query: 18 FDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILF 77
F++ K ER+ I+G +GAGKSTLL L+AG PT G + + G+ ++ L
Sbjct: 46 ISFEIYKGERVGIIGHNGAGKSTLLKLIAGIYKPTSGKVKVTGK-----------VAPLI 94
Query: 78 QENNLFSH-LTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVF----LEDFFNRFPSQMSG 132
+ F LT +NI L + ++ + ++++ L DF ++ S
Sbjct: 95 ELGAGFDPELTGRENIYL----RGLILGLTRKEIDEKVDEIIEFAELGDFIDQPVKTYSS 150
Query: 133 GQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLED 192
G R+A + + ILLLDE AV D A + + L L ++ E+ T++++SH+L
Sbjct: 151 GMYARLAFSVATHVEPDILLLDEVLAVGDAAFQEKCLERLNELV-EKNKTIVLVSHDLGA 209
Query: 193 SMQIATRFIVIAGGQIVYDGDPDRLMN 219
Q R I + GQI +G P+ ++
Sbjct: 210 IKQYCDRAIWLEHGQIRMEGSPEEVIP 236
>gnl|CDD|35284 KOG0061, KOG0061, KOG0061, Transporter, ABC superfamily (Breast
cancer resistance protein) [Secondary metabolites
biosynthesis, transport and catabolism].
Length = 613
Score = 101 bits (254), Expect = 1e-22
Identities = 58/207 (28%), Positives = 102/207 (49%), Gaps = 16/207 (7%)
Query: 26 ERIVILGPSGAGKSTLLSLMAGFKYP---TRGSIFLNGQNHTRSSPSKRPLSILFQENNL 82
E + I+GPSG+GK+TLL+ +AG G I LNG+ S K + Q++ L
Sbjct: 57 ELLAIMGPSGSGKTTLLNALAGRLNGGLKLSGEILLNGRPRDSRSFRKIS-GYVQQDDVL 115
Query: 83 FSHLTVWQNIALGIAPNLRLDHYQHAQ-----VKQMLEKVFLED-----FFNRFPSQMSG 132
LTV + L + LRL + V++++ ++ LE N +SG
Sbjct: 116 LPTLTVRET--LRFSALLRLPSSLSKEEKRERVEEVISELGLEKCADTLIGNPGIRGLSG 173
Query: 133 GQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLED 192
G+R+RV++A L+ IL LDEP + D +++ LLK++ + + I +
Sbjct: 174 GERKRVSIALELLTDPSILFLDEPTSGLDSFSALQVVQLLKRLARSGRTVICTIHQPSSE 233
Query: 193 SMQIATRFIVIAGGQIVYDGDPDRLMN 219
++ + ++++ G++VY G P L+
Sbjct: 234 LFELFDKLLLLSEGEVVYSGSPRELLE 260
>gnl|CDD|73011 cd03252, ABCC_Hemolysin, The ABC-transporter hemolysin B is a
central component of the secretion machinery that
translocates the toxin, hemolysin A, in a
Sec-independent fashion across both membranes of E.
coli. The hemolysin A (HlyA) transport machinery is
composed of the ATP-binding cassette (ABC) transporter
HlyB located in the inner membrane, hemolysin D (HlyD),
also anchored in the inner membrane, and TolC, which
resides in the outer membrane. HlyD apparently forms a
continuous channel that bridges the entire periplasm,
interacting with TolC and HlyB. This arrangement
prevents the appearance of periplasmic intermediates of
HlyA during substrate transport. Little is known about
the molecular details of HlyA transport, but it is
evident that ATP-hydrolysis by the ABC-transporter HlyB
is a necessary source of energy..
Length = 237
Score = 101 bits (252), Expect = 2e-22
Identities = 63/209 (30%), Positives = 107/209 (51%), Gaps = 15/209 (7%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPS--KRPLSIL 76
++ E + I+G SG+GKSTL L+ F P G + ++G + + P+ +R + ++
Sbjct: 22 SLRIKPGEVVGIVGRSGSGKSTLTKLIQRFYVPENGRVLVDGHDLALADPAWLRRQVGVV 81
Query: 77 FQENNLFSHLTVWQNIALG-IAPNLRLDHY------QHAQVKQMLEKVFLEDFFNRFPSQ 129
QEN LF+ ++ NIAL ++ H + ++ E + +
Sbjct: 82 LQENVLFNR-SIRDNIALADPGMSMERVIEAAKLAGAHDFISELPEG--YDTIVGEQGAG 138
Query: 130 MSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHN 189
+SGGQRQR+A+AR LI IL+ DE + D H I+ + +C R T+++I+H
Sbjct: 139 LSGGQRQRIAIARALIHNPRILIFDEATSALDYESEHAIMRNMHDICAGR--TVIIIAHR 196
Query: 190 LEDSMQIATRFIVIAGGQIVYDGDPDRLM 218
L +++ A R IV+ G+IV G D L+
Sbjct: 197 LS-TVKNADRIIVMEKGRIVEQGSHDELL 224
>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 = 99.4 bits (248), Expect = 7e-22
Identities = 63/230 (27%), Positives = 108/230 (46%), Gaps = 28/230 (12%)
Query: 2 IKLDHLIYCY-DNLKM---QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIF 57
I+ ++ Y NL F + E++ I+G +G+GKS+LL + + GSI
Sbjct: 3 IEFKNVSLRYRPNLPPVLKNISFSIKPGEKVGIVGRTGSGKSSLLLALFRLVELSSGSIL 62
Query: 58 LNGQNHTRSSPSK--RPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLE 115
++G + ++ +SI+ Q+ LFS T+ N+ Y ++ Q LE
Sbjct: 63 IDGVDISKIGLHDLRSRISIIPQDPVLFSG-TIRSNLDP-------FGEYSDEELWQALE 114
Query: 116 KVFLEDFFNRFP-----------SQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPAL 164
+V L++F P +S GQRQ + LAR L+R+ IL+LDE A DP
Sbjct: 115 RVGLKEFVESLPGGLDTVVEEGGENLSVGQRQLLCLARALLRKSKILVLDEATASVDPET 174
Query: 165 RHEILGLLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDP 214
I +++ + T+L I+H L+ + + R +V+ G++V P
Sbjct: 175 DALIQKTIREAFKDC--TVLTIAHRLDTIID-SDRILVLDKGRVVEFDSP 221
>gnl|CDD|72972 cd03213, ABCG_EPDR, ABCG transporters are involved in eye pigment
(EP) precursor transport, regulation of
lipid-trafficking mechanisms, and pleiotropic drug
resistance (DR). DR is a well-described phenomenon
occurring in fungi and shares several similarities with
processes in bacteria and higher eukaryotes. Compared
to other members of the ABC transporter subfamilies, the
ABCG transporter family is composed of proteins that
have an ATP-binding cassette domain at the N-terminus
and a TM (transmembrane) domain at the C-terminus..
Length = 194
Score = 97.5 bits (243), Expect = 3e-21
Identities = 51/196 (26%), Positives = 93/196 (47%), Gaps = 34/196 (17%)
Query: 20 FQVNKAERIVILGPSGAGKSTLLSLMAGFK--YPTRGSIFLNGQNHTRSSPSKRPLSILF 77
+ E I+GPSGAGKSTLL+ +AG + G + +NG+ + S K + +
Sbjct: 30 GKAKPGELTAIMGPSGAGKSTLLNALAGRRTGLGVSGEVLINGRPLDKRSFRKI-IGYVP 88
Query: 78 QENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQMSGGQRQR 137
Q++ L LTV + L A LR +SGG+R+R
Sbjct: 89 QDDILHPTLTVRE--TLMFAAKLR---------------------------GLSGGERKR 119
Query: 138 VALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSM-QI 196
V++A L+ +L LDEP + D + +++ LL+++ D T++ H + ++
Sbjct: 120 VSIALELVSNPSLLFLDEPTSGLDSSSALQVMSLLRRLADT-GRTIICSIHQPSSEIFEL 178
Query: 197 ATRFIVIAGGQIVYDG 212
+ ++++ G+++Y G
Sbjct: 179 FDKLLLLSQGRVIYFG 194
>gnl|CDD|30834 COG0488, Uup, ATPase components of ABC transporters with duplicated
ATPase domains [General function prediction only].
Length = 530
Score = 96.5 bits (240), Expect = 6e-21
Identities = 55/220 (25%), Positives = 106/220 (48%), Gaps = 24/220 (10%)
Query: 1 MIKLDHLIYCYDNLKM---QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIF 57
+++ +++ YD ++ F++++ +RI I+GP+GAGKSTLL L+AG P G++
Sbjct: 321 VLEFENVSKGYDGGRLLLKDLSFRIDRGDRIAIVGPNGAGKSTLLKLLAGELGPLSGTV- 379
Query: 58 LNGQNHTRSSPSKRPLSILFQENN-LFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEK 116
+ Q + L TV + ++ G P+ V+ L +
Sbjct: 380 --------KVGETVKIGYFDQHRDELDPDKTVLEELSEG-FPDGDEQE-----VRAYLGR 425
Query: 117 V-FLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQV 175
F + + +SGG++ R+ LA+ L++ +LLLDEP D E L L++
Sbjct: 426 FGFTGEDQEKPVGVLSGGEKARLLLAKLLLQPPNLLLLDEPTNHLDI----ESLEALEEA 481
Query: 176 CDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPD 215
+ + T+L++SH+ ++ATR ++ ++G +
Sbjct: 482 LLDFEGTVLLVSHDRYFLDRVATRIWLVEDKVEEFEGGYE 521
Score = 83.8 bits (207), Expect = 4e-17
Identities = 64/250 (25%), Positives = 100/250 (40%), Gaps = 45/250 (18%)
Query: 1 MIKLDHLIYCYDNLKMQFD--FQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
MI L++L Y + + + +N ERI ++G +GAGKSTLL ++AG P G +
Sbjct: 3 MITLENLSLAYGDRPLLENVSLTLNPGERIGLVGRNGAGKSTLLKILAGELEPDSGEVTR 62
Query: 59 NGQNHTRSSPSKRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQM----- 113
P + L QE L TV + G L +
Sbjct: 63 ---------PKGLRVGYLSQEPPLDPEKTVLDYVIEGFGELRELLAELEEAYALLADPDD 113
Query: 114 -----LEKVFLE-------------------DFFNRFPSQMSGGQRQRVALARCLIRQKP 149
LE + E +R S +SGG R+RVALAR L+ +
Sbjct: 114 ELLAELEALLEELDGWTLEARAEEALLGLGFPDEDRPVSSLSGGWRRRVALARALLEEPD 173
Query: 150 ILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQI- 208
+LLLDEP D E + L+ T++++SH+ +AT + + G++
Sbjct: 174 LLLLDEPTNHLD----LESIEWLEDYLKRYPGTVIVVSHDRYFLDNVATHILELDRGKLT 229
Query: 209 VYDGDPDRLM 218
Y G+ +
Sbjct: 230 PYKGNYSSYL 239
>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 = 96.4 bits (240), Expect = 6e-21
Identities = 58/198 (29%), Positives = 99/198 (50%), Gaps = 19/198 (9%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILFQ 78
F+V + ERI ++G +GAGKSTLL L+AG P G++ + G R S+L
Sbjct: 42 SFEVPRGERIGLIGRNGAGKSTLLRLLAGIYPPDSGTVTVRG----------RVSSLLGL 91
Query: 79 ENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVF----LEDFFNRFPSQMSGGQ 134
LT +NI L N RL ++ + ++++ L DF + S G
Sbjct: 92 GGGFNPELTGRENIYL----NGRLLGLSRKEIDEKIDEIIEFSELGDFIDLPVKTYSSGM 147
Query: 135 RQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSM 194
+ R+A A + ILL+DE AV D A + + L+++ ++ T++++SH+
Sbjct: 148 KARLAFAIATALEPDILLIDEVLAVGDAAFQEKCQRRLRELL-KQGKTVILVSHDPSSIK 206
Query: 195 QIATRFIVIAGGQIVYDG 212
++ R +V+ G+I +DG
Sbjct: 207 RLCDRALVLEKGKIRFDG 224
>gnl|CDD|72993 cd03234, ABCG_White, The White subfamily represents ABC
transporters homologous to the Drosophila white gene,
which acts as a dimeric importer for eye pigment
precursors. The eye pigmentation of Drosophila is
developed from the synthesis and deposition in the cells
of red pigments, which are synthesized from guanine, and
brown pigments, which are synthesized from tryptophan.
The pigment precursors are encoded by the white, brown,
and scarlet genes, respectively. Evidence from genetic
and biochemical studies suggest that the White and Brown
proteins function as heterodimers to import guanine,
while the White and Scarlet proteins function to import
tryptophan. However, a recent study also suggests that
White may be involved in the transport of a metabolite,
such as 3-hydroxykynurenine, across intracellular
membranes. Mammalian ABC transporters belonging to the
White subfamily (ABCG1, ABCG5, and ABCG8) have been
shown to be involved in the regulation of
lipid-trafficking mechanisms in macrophages,
hepatocytes, and intestinal mucosa cells. ABCG1 (ABC8),
the human homolog of the Drosophila white gene is
induced in monocyte-derived macrophages during
cholesterol influx mediated by acetylated low-density
lipoprotein. It is possible that human ABCG1 forms
heterodimers with several heterologous partners..
Length = 226
Score = 95.7 bits (238), Expect = 1e-20
Identities = 52/202 (25%), Positives = 93/202 (46%), Gaps = 12/202 (5%)
Query: 20 FQVNKAERIVILGPSGAGKSTLLSLMAG---FKYPTRGSIFLNGQNHTRSSPSKRPLSIL 76
V + + ILG SG+GK+TLL ++G T G I NGQ ++ ++ +
Sbjct: 28 LHVESGQVMAILGSSGSGKTTLLDAISGRVEGGGTTSGQILFNGQPRKPDQ-FQKCVAYV 86
Query: 77 FQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVF------LEDFFNRFPSQM 130
Q++ L LTV + + LRL +++ + L +
Sbjct: 87 RQDDILLPGLTVRETLTY--TAILRLPRKSSDAIRKKRVEDVLLRDLALTRIGGNLVKGI 144
Query: 131 SGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNL 190
SGG+R+RV++A L+ +L+LDEP + D ++ L Q+ ++ +L I
Sbjct: 145 SGGERRRVSIAVQLLWDPKVLILDEPTSGLDSFTALNLVSTLSQLARRNRIVILTIHQPR 204
Query: 191 EDSMQIATRFIVIAGGQIVYDG 212
D ++ R ++++ G+IVY G
Sbjct: 205 SDLFRLFDRILLLSSGEIVYSG 226
>gnl|CDD|33894 COG4138, BtuD, ABC-type cobalamin transport system, ATPase
component [Coenzyme metabolism].
Length = 248
Score = 95.1 bits (236), Expect = 1e-20
Identities = 61/215 (28%), Positives = 105/215 (48%), Gaps = 26/215 (12%)
Query: 18 FDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSK--RPLSI 75
+V E + ++GP+GAGKSTLL+ MAG GSI GQ S ++ R +
Sbjct: 18 LSGEVRAGEILHLVGPNGAGKSTLLARMAGM-TSGSGSIQFAGQPLEAWSATELARHRAY 76
Query: 76 LFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQ-----VKQMLEKVFLEDFFNRFPSQM 130
L Q+ + VW + L +Q + + + + L+D R +Q+
Sbjct: 77 LSQQQTPPFAMPVWHYLTL----------HQPDKTRTELLNDVAGALALDDKLGRSTNQL 126
Query: 131 SGGQRQRVALARCLIRQKP-------ILLLDEPFAVFDPALRHEILGLLKQVCDERQLTL 183
SGG+ QRV LA +++ P +LLLDEP D A + + LL +C ++ L +
Sbjct: 127 SGGEWQRVRLAAVVLQITPDANPAGQLLLLDEPMNSLDVAQQSALDRLLSALC-QQGLAI 185
Query: 184 LMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLM 218
+M SH+L +++ A R ++ G+++ G + ++
Sbjct: 186 VMSSHDLNHTLRHAHRAWLLKRGKLLASGRREEVL 220
>gnl|CDD|73007 cd03248, ABCC_TAP, TAP, the Transporter Associated with Antigen
Processing; TAP is essential for peptide delivery from
the cytosol into the lumen of the endoplasmic reticulum
(ER), where these peptides are loaded on major
histocompatibility complex (MHC) I molecules. Loaded
MHC I leave the ER and display their antigenic cargo on
the cell surface to cytotoxic T cells. Subsequently,
virus-infected or malignantly transformed cells can be
eliminated. TAP belongs to the large family of
ATP-binding cassette (ABC) transporters, which
translocate a vast variety of solutes across membranes..
Length = 226
Score = 95.0 bits (236), Expect = 2e-20
Identities = 61/204 (29%), Positives = 102/204 (50%), Gaps = 23/204 (11%)
Query: 18 FDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQ--NHTRSSPSKRPLSI 75
F ++ E ++GPSG+GKST+++L+ F P G + L+G+ + +S+
Sbjct: 33 VSFTLHPGEVTALVGPSGSGKSTVVALLENFYQPQGGQVLLDGKPISQYEHKYLHSKVSL 92
Query: 76 LFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFP-------- 127
+ QE LF+ ++ NIA G L VK+ +K F +
Sbjct: 93 VGQEPVLFAR-SLQDNIAYG------LQSCSFECVKEAAQKAHAHSFISELASGYDTEVG 145
Query: 128 ---SQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLL 184
SQ+SGGQ+QRVA+AR LIR +L+LDE + D ++ L + T+L
Sbjct: 146 EKGSQLSGGQKQRVAIARALIRNPQVLILDEATSALDAESEQQVQQALY--DWPERRTVL 203
Query: 185 MISHNLEDSMQIATRFIVIAGGQI 208
+I+H L +++ A + +V+ GG+I
Sbjct: 204 VIAHRLS-TVERADQILVLDGGRI 226
>gnl|CDD|73005 cd03246, ABCC_Protease_Secretion, This family represents the ABC
component of the protease secretion system PrtD, a
60-kDa integral membrane protein sharing 37% identity
with HlyB, the ABC component of the alpha-hemolysin
secretion pathway, in the C-terminal domain. They
export degradative enzymes by using a type I protein
secretion system and lack an N-terminal signal peptide,
but contain a C-terminal secretion signal. The Type I
secretion apparatus is made up of three components, an
ABC transporter, a membrane fusion protein (MFP), and an
outer membrane protein (OMP). For the HlyA transporter
complex, HlyB (ABC transporter) and HlyD (MFP) reside in
the inner membrane of E. coli. The OMP component is
TolC, which is thought to interact with the MFP to form
a continuous channel across the periplasm from the
cytoplasm to the exterior. HlyB belongs to the family
of ABC transporters, which are ubiquitous, ATP-dependent
transmembrane pumps or channels. The spectrum of
transport substrates ranges from inorganic ions,
nutrients such as amino acids, sugars, or peptides,
hydrophobic drugs, to large polypeptides, such as HlyA..
Length = 173
Score = 93.7 bits (233), Expect = 4e-20
Identities = 53/192 (27%), Positives = 86/192 (44%), Gaps = 42/192 (21%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPS--KRPLSIL 76
F + E + I+GPSG+GKSTL L+ G PT G + L+G + ++ P+ + L
Sbjct: 22 SFSIEPGESLAIIGPSGSGKSTLARLILGLLRPTSGRVRLDGADISQWDPNELGDHVGYL 81
Query: 77 FQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQMSGGQRQ 136
Q++ LFS ++ +NI +SGGQRQ
Sbjct: 82 PQDDELFSG-SIAENI-------------------------------------LSGGQRQ 103
Query: 137 RVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSMQI 196
R+ LAR L IL+LDEP + D + + + T ++I+H E ++
Sbjct: 104 RLGLARALYGNPRILVLDEPNSHLDVEGERALNQAIAAL-KAAGATRIVIAHRPE-TLAS 161
Query: 197 ATRFIVIAGGQI 208
A R +V+ G++
Sbjct: 162 ADRILVLEDGRV 173
>gnl|CDD|72990 cd03231, ABC_CcmA_heme_exporter, CcmA, the ATP-binding component of
the bacterial CcmAB transporter. The CCM family is
involved in bacterial cytochrome c biogenesis.
Cytochrome c maturation in E. coli requires the ccm
operon, which encodes eight membrane proteins
(CcmABCDEFGH). CcmE is a periplasmic heme chaperone
that binds heme covalently and transfers it onto
apocytochrome c in the presence of CcmF, CcmG, and CcmH.
The CcmAB proteins represent an ABC transporter and the
CcmCD proteins participate in heme transfer to CcmE..
Length = 201
Score = 93.5 bits (232), Expect = 4e-20
Identities = 57/180 (31%), Positives = 87/180 (48%), Gaps = 11/180 (6%)
Query: 17 QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPS-KRPLSI 75
F + E + + GP+G+GK+TLL ++AG P G + LNG S R L
Sbjct: 18 GLSFTLAAGEALQVTGPNGSGKTTLLRILAGLSPPLAGRVLLNGGPLDFQRDSIARGLLY 77
Query: 76 LFQENNLFSHLTVWQNIALGIAPNLRLDHYQHA--QVKQMLEKVFLEDFFNRFPSQMSGG 133
L + + L+V +N LR H H+ QV++ L +V L F +R +Q+S G
Sbjct: 78 LGHAPGIKTTLSVLEN--------LRFWHADHSDEQVEEALARVGLNGFEDRPVAQLSAG 129
Query: 134 QRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDS 193
Q++RVALAR L+ +P+ +LDEP D A + C + +L +L S
Sbjct: 130 QQRRVALARLLLSGRPLWILDEPTTALDKAGVARFAEAMAGHCARGGMVVLTTHQDLGLS 189
>gnl|CDD|31314 COG1117, PstB, ABC-type phosphate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 253
Score = 93.7 bits (233), Expect = 4e-20
Identities = 55/203 (27%), Positives = 109/203 (53%), Gaps = 20/203 (9%)
Query: 30 ILGPSGAGKSTLLS-------LMAGFKYPTRGSIFLNGQNHTRSSPS----KRPLSILFQ 78
++GPSG GKSTLL L+ G + G + L+G+N +R + ++FQ
Sbjct: 38 LIGPSGCGKSTLLRCLNRMNDLIPGARV--EGEVLLDGKNIYDPKVDVVELRRRVGMVFQ 95
Query: 79 ENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFL----EDFFNRFPSQMSGGQ 134
+ N F ++++ N+A G+ + D V+ L+K L +D ++ +SGGQ
Sbjct: 96 KPNPFP-MSIYDNVAYGLRLHGIKDKELDEIVESSLKKAALWDEVKDRLHKSALGLSGGQ 154
Query: 135 RQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSM 194
+QR+ +AR L + +LL+DEP + DP +I L+ ++ +++ T+++++HN++ +
Sbjct: 155 QQRLCIARALAVKPEVLLMDEPTSALDPISTLKIEELITEL--KKKYTIVIVTHNMQQAA 212
Query: 195 QIATRFIVIAGGQIVYDGDPDRL 217
+++ G++V G D++
Sbjct: 213 RVSDYTAFFYLGELVEFGPTDKI 235
>gnl|CDD|73028 cd03269, ABC_putative_ATPase, This subfamily is involved in drug
resistance, nodulation, lipid transport, and bacteriocin
and lantibiotic immunity. In eubacteria and archaea,
the typical organization consists of one ABC and one or
two IMs. Eukaryote systems of the ABCA subfamily
display ABC domains strongly similar to this family.
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 = 210
Score = 93.0 bits (231), Expect = 7e-20
Identities = 51/197 (25%), Positives = 94/197 (47%), Gaps = 11/197 (5%)
Query: 20 FQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILFQE 79
F V K E +LGP+GAGK+T + ++ G P G + +G ++ + L +E
Sbjct: 21 FSVEKGEIFGLLGPNGAGKTTTIRMILGIILPDSGEVLFDG--KPLDIAARNRIGYLPEE 78
Query: 80 NNLFSHLTVWQN-IALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQMSGGQRQRV 138
L+ + V + L L+ ++ + LE++ L ++ N+ ++S G +Q+V
Sbjct: 79 RGLYPKMKVIDQLVYLAQLKGLKK-EEARRRIDEWLERLELSEYANKRVEELSKGNQQKV 137
Query: 139 ALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDE---RQLTLLMISHNLEDSMQ 195
+I +L+LDEPF+ DP LLK V E T+++ +H +E +
Sbjct: 138 QFIAAVIHDPELLILDEPFSGLDPVNVE----LLKDVIRELARAGKTVILSTHQMELVEE 193
Query: 196 IATRFIVIAGGQIVYDG 212
+ R +++ G+ V G
Sbjct: 194 LCDRVLLLNKGRAVLYG 210
>gnl|CDD|33889 COG4133, CcmA, ABC-type transport system involved in cytochrome c
biogenesis, ATPase component [Posttranslational
modification, protein turnover, chaperones].
Length = 209
Score = 92.3 bits (229), Expect = 1e-19
Identities = 48/172 (27%), Positives = 78/172 (45%), Gaps = 8/172 (4%)
Query: 16 MQFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQN-HTRSSPSKRPLS 74
F +N E + I GP+GAGK+TLL ++AG P G ++ G+ + L
Sbjct: 19 SDLSFTLNAGEALQITGPNGAGKTTLLRILAGLLRPDAGEVYWQGEPIQNVRESYHQALL 78
Query: 75 ILFQENNLFSHLTVWQNIALGIAPNLRLDHYQH--AQVKQMLEKVFLEDFFNRFPSQMSG 132
L + + + LT +N+ + H A + + L +V L + Q+S
Sbjct: 79 YLGHQPGIKTELTALENLHF-----WQRFHGSGNAATIWEALAQVGLAGLEDLPVGQLSA 133
Query: 133 GQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLL 184
GQ++RVALAR + P+ +LDEPF D + L+ + + LL
Sbjct: 134 GQQRRVALARLWLSPAPLWILDEPFTALDKEGVALLTALMAAHAAQGGIVLL 185
>gnl|CDD|72974 cd03215, ABC_Carb_Monos_II, This family represents domain II of the
carbohydrate uptake proteins that transport only
monosaccharides (Monos). The Carb_Monos family is
involved in the uptake of monosaccharides, such as
pentoses (such as xylose, arabinose, and ribose) and
hexoses (such as xylose, arabinose, and ribose), that
cannot be broken down to simple sugars by hydrolysis.
In members of Carb_Monos family the single hydrophobic
gene product forms a homodimer, while the ABC protein
represents a fusion of two nucleotide-binding domains.
However, it is assumed that two copies of the ABC
domains are present in the assembled transporter..
Length = 182
Score = 91.3 bits (227), Expect = 2e-19
Identities = 55/197 (27%), Positives = 86/197 (43%), Gaps = 39/197 (19%)
Query: 18 FDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKR-PLSIL 76
F+V E + I G G G++ L + G + P G I L+G+ TR SP I
Sbjct: 19 VSFEVRAGEIVGIAGLVGNGQTELAEALFGLRPPASGEITLDGKPVTRRSPRDAIRAGIA 78
Query: 77 F-----QENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQMS 131
+ + L L+V +NIAL S +S
Sbjct: 79 YVPEDRKREGLVLDLSVAENIAL--------------------------------SSLLS 106
Query: 132 GGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLE 191
GG +Q+V LAR L R +L+LDEP D + EI L++++ D +L+IS L+
Sbjct: 107 GGNQQKVVLARWLARDPRVLILDEPTRGVDVGAKAEIYRLIRELADAG-KAVLLISSELD 165
Query: 192 DSMQIATRFIVIAGGQI 208
+ + + R +V+ G+I
Sbjct: 166 ELLGLCDRILVMYEGRI 182
>gnl|CDD|35277 KOG0054, KOG0054, KOG0054, Multidrug resistance-associated
protein/mitoxantrone resistance protein, ABC superfamily
[Secondary metabolites biosynthesis, transport and
catabolism].
Length = 1381
Score = 90.7 bits (225), Expect = 3e-19
Identities = 66/217 (30%), Positives = 102/217 (47%), Gaps = 34/217 (15%)
Query: 20 FQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQN------HT-RSSPSKRP 72
F + E++ I+G +GAGKS+L+ + P G I ++G + H RS
Sbjct: 1161 FTIKPGEKVGIVGRTGAGKSSLILALFRLVEPAEGEILIDGVDISKIGLHDLRSR----- 1215
Query: 73 LSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFP----- 127
LSI+ Q+ LFS TV N+ P D Y ++ + LE+ L+D + P
Sbjct: 1216 LSIIPQDPVLFSG-TVRFNLD----P---FDEYSDDEIWEALERCQLKDVVSSLPGGLDS 1267
Query: 128 ------SQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQL 181
S GQRQ + LAR L+R+ IL+LDE A DP I +++ +
Sbjct: 1268 EVSEGGENFSVGQRQLLCLARALLRKSKILVLDEATASVDPETDALIQKTIREEFKDC-- 1325
Query: 182 TLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLM 218
T+L I+H L M + R +V+ G++V P L+
Sbjct: 1326 TVLTIAHRLNTVMD-SDRVLVLDAGRVVEFDSPAELL 1361
Score = 83.8 bits (207), Expect = 4e-17
Identities = 58/219 (26%), Positives = 102/219 (46%), Gaps = 46/219 (21%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILF- 77
+F++ K + + ++GP G+GKS+LLS + G GS+ +NG S+ +
Sbjct: 541 NFEIKKGQLVAVVGPVGSGKSSLLSAILGEMPKLSGSVAVNG-------------SVAYV 587
Query: 78 -QENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFP--------- 127
Q+ + + TV +NI G D ++ +V ++ L+ P
Sbjct: 588 PQQPWIQN-GTVRENILFG----SPYDEERYDKV---IKACALKKDLEILPFGDLTEIGE 639
Query: 128 --SQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDP-----ALRHEILGLLKQVCDERQ 180
+SGGQ+QR++LAR + + I LLD+P + D I GLL R
Sbjct: 640 RGINLSGGQKQRISLARAVYQDADIYLLDDPLSAVDAHVGKHIFEECIRGLL------RG 693
Query: 181 LTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
T+++++H L+ + A + IV+ G+IV G + L+
Sbjct: 694 KTVILVTHQLQ-FLPHADQIIVLKDGKIVESGTYEELLK 731
>gnl|CDD|34241 COG4618, ArpD, ABC-type protease/lipase transport system, ATPase
and permease components [General function prediction
only].
Length = 580
Score = 90.7 bits (225), Expect = 3e-19
Identities = 64/234 (27%), Positives = 107/234 (45%), Gaps = 36/234 (15%)
Query: 20 FQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSK--RPLSILF 77
F + E + I+GPSG+GKSTL L+ G PT GS+ L+G + + + R + L
Sbjct: 357 FALQAGEALGIIGPSGSGKSTLARLLVGIWPPTSGSVRLDGADLRQWDREQLGRHIGYLP 416
Query: 78 QENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFL---EDFFNRFP------- 127
Q+ LF T+ +NIA R + A ++++E L + R P
Sbjct: 417 QDVELFDG-TIAENIA-------RFG--EEADPEKVIEAARLAGVHELILRLPQGYDTRI 466
Query: 128 ----SQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDP----ALRHEILGLLKQVCDER 179
+ +SGGQRQR+ALAR L +++LDEP + D AL IL +
Sbjct: 467 GEGGATLSGGQRQRIALARALYGDPFLVVLDEPNSNLDSEGEAALAAAILAAKARGG--- 523
Query: 180 QLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMNGLIPESTLLGIPSR 233
T+++I+H ++ + +V+ G+I G + ++ ++ P
Sbjct: 524 --TVVVIAHRPS-ALASVDKILVLQDGRIAAFGPREEVLAKVLRPPPRQAKPGT 574
>gnl|CDD|33909 COG4167, SapF, ABC-type antimicrobial peptide transport system,
ATPase component [Defense mechanisms].
Length = 267
Score = 89.6 bits (222), Expect = 6e-19
Identities = 55/205 (26%), Positives = 111/205 (54%), Gaps = 6/205 (2%)
Query: 20 FQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQ--NHTRSSPSKRPLSILF 77
F + + + + I+G +G+GKSTL ++AG PT G I +N + S + + ++F
Sbjct: 34 FTLREGQTLAIIGENGSGKSTLAKMLAGMIEPTSGEILINDHPLHFGDYSFRSKRIRMIF 93
Query: 78 QENN--LFSHLTVWQNIALGIAPNLRLDHYQHAQ-VKQMLEKV-FLEDFFNRFPSQMSGG 133
Q+ N L L + Q + + N L+ Q + + + L V L D N +P ++ G
Sbjct: 94 QDPNTSLNPRLRIGQILDFPLRLNTDLEPEQRRKQIFETLRMVGLLPDHANYYPHMLAPG 153
Query: 134 QRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDS 193
Q+QRVALAR LI + I++ DE A D ++R +++ L+ ++ +++ ++ + ++ ++
Sbjct: 154 QKQRVALARALILRPKIIIADEALASLDMSMRSQLINLMLELQEKQGISYIYVTQHIGMI 213
Query: 194 MQIATRFIVIAGGQIVYDGDPDRLM 218
I+ + +V+ G++V G ++
Sbjct: 214 KHISDQVLVMHEGEVVERGSTADVL 238
>gnl|CDD|33903 COG4152, COG4152, ABC-type uncharacterized transport system, ATPase
component [General function prediction only].
Length = 300
Score = 88.0 bits (218), Expect = 2e-18
Identities = 53/220 (24%), Positives = 103/220 (46%), Gaps = 15/220 (6%)
Query: 1 MIKLDHLIYCYDNLKMQFD--FQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
++++ + + + K + F+V E +LGP+GAGK+T ++ G PT G I
Sbjct: 2 ALEIEGVTKSFGDKKAVDNISFEVPPGEIFGLLGPNGAGKTTTFRMILGLLEPTEGEITW 61
Query: 59 NGQNHTRSSPSKRPLSILFQENNLFSHLTVWQNIA-LGIAPNLRLDHYQHAQVKQMLEKV 117
NG ++ ++ + L +E L+ +TV + L + Q +++ LE++
Sbjct: 62 NGGPLSQEIKNR--IGYLPEERGLYPKMTVEDQLKYLAELKGMPKAEIQ-KKLQAWLERL 118
Query: 118 FLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDP----ALRHEILGLLK 173
+ + ++S G +Q++ +I + +L+LDEPF+ DP L+ I L
Sbjct: 119 EIVGKKTKKIKELSKGNQQKIQFISAVIHEPELLILDEPFSGLDPVNVELLKDAIFEL-- 176
Query: 174 QVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGD 213
E T++ SH +E ++ R +++ GQ V G
Sbjct: 177 ---KEEGATIIFSSHRMEHVEELCDRLLMLKKGQTVLYGT 213
>gnl|CDD|35282 KOG0059, KOG0059, KOG0059, Lipid exporter ABCA1 and related
proteins, ABC superfamily [Lipid transport and
metabolism, General function prediction only].
Length = 885
Score = 87.8 bits (217), Expect = 2e-18
Identities = 55/224 (24%), Positives = 102/224 (45%), Gaps = 7/224 (3%)
Query: 2 IKLDHLIYCYDNLKM---QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
+ L++L Y F V E +LG +GAGK+T ++ G PT G +
Sbjct: 565 LVLNNLSKVYGGKDGAVRGLSFAVPPGECFGLLGVNGAGKTTTFKMLTGETKPTSGEALI 624
Query: 59 NGQNHTRSSPSKRPLSILF---QENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLE 115
G + T S+ ++ L Q + L+ LT +++ + ++++L
Sbjct: 625 KGHDITVSTDFQQVRKQLGYCPQFDALWEELTGREHLEFYARLRGLPRSDIGSAIEKLLR 684
Query: 116 KVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQV 175
V L + N+ SGG ++R++ A LI ++LLDEP DP R + ++ ++
Sbjct: 685 LVGLGPYANKQVRTYSGGNKRRLSFAIALIGDPSVILLDEPSTGLDPKARRHLWDIIARL 744
Query: 176 CDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
+ +L SH++E++ + TR ++ GQ+ G P L +
Sbjct: 745 RKNGKAIIL-TSHSMEEAEALCTRTAIMVIGQLRCIGSPQELKS 787
>gnl|CDD|34862 COG5265, ATM1, ABC-type transport system involved in Fe-S cluster
assembly, permease and ATPase components
[Posttranslational modification, protein turnover,
chaperones].
Length = 497
Score = 87.2 bits (216), Expect = 4e-18
Identities = 66/213 (30%), Positives = 104/213 (48%), Gaps = 23/213 (10%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQN--HTRSSPSKRPLSIL 76
F + + + I+G SGAGKST+L L+ F GSI ++GQ+ +R + I+
Sbjct: 283 SFTIPLGKTVAIVGESGAGKSTILRLLFRFYDVNSGSITIDGQDIRDVTQQSLRRAIGIV 342
Query: 77 FQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPS-------- 128
Q+ LF+ T+ NI G P+ +V E + DF P
Sbjct: 343 PQDTVLFND-TIAYNIKYG-RPDA-----TAEEVGAAAEAAQIHDFIQSLPEGYDTGVGE 395
Query: 129 ---QMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLM 185
++SGG++QRVA+AR +++ PIL+LDE + D I L++V R T L+
Sbjct: 396 RGLKLSGGEKQRVAIARTILKNPPILILDEATSALDTHTEQAIQAALREVSAGR--TTLV 453
Query: 186 ISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLM 218
I+H L ++ A IV+ G+IV G + L+
Sbjct: 454 IAHRLS-TIIDADEIIVLDNGRIVERGTHEELL 485
>gnl|CDD|35279 KOG0056, KOG0056, KOG0056, Heavy metal exporter HMT1, ABC
superfamily [Inorganic ion transport and metabolism].
Length = 790
Score = 85.5 bits (211), Expect = 1e-17
Identities = 68/228 (29%), Positives = 118/228 (51%), Gaps = 16/228 (7%)
Query: 2 IKLDHLIYCYDNLKM---QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
I+ ++ + YD K F V + + ++GPSGAGKST++ L+ F GSI +
Sbjct: 538 IEFSNVTFAYDPGKPVLSDISFTVQPGKTVALVGPSGAGKSTIMRLLFRFFDVNSGSITI 597
Query: 59 NGQ---NHTRSSPSKRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLE 115
+GQ N T+SS + + ++ Q+ LF+ T+ NI + Y A+ Q+ +
Sbjct: 598 DGQDIRNVTQSS-LRSSIGVVPQDTVLFND-TILYNIRYAKPSASNEEVYAAAKAAQIHD 655
Query: 116 KV--FLEDFFNRFPS---QMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILG 170
++ F E + R ++SGG++QRVA+AR +++ I+LLDE + D I
Sbjct: 656 RILQFPEGYNTRVGERGLKLSGGEKQRVAIARTILKAPSIILLDEATSALDTNTERAIQA 715
Query: 171 LLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLM 218
L ++C R T ++++H L + A +VI+ G+IV G + L+
Sbjct: 716 ALARLCANR--TTIVVAHRLSTIVN-ADLILVISNGRIVERGRHEELL 760
>gnl|CDD|73009 cd03250, ABCC_MRP_domain1, Domain 1 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-terminas, but the function of these additional
membrane-spanning domains is not clear. The MRP was
found in the multidrug-resisting 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 = 204
Score = 83.2 bits (206), Expect = 6e-17
Identities = 54/205 (26%), Positives = 93/205 (45%), Gaps = 41/205 (20%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILFQ 78
+ +V K E + I+GP G+GKS+LLS + G GS+ + G ++ + Q
Sbjct: 25 NLEVPKGELVAIVGPVGSGKSSLLSALLGELEKLSGSVSVPGS-----------IAYVSQ 73
Query: 79 ENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFP----------- 127
E + + T+ +NI G D ++ +V ++ LE P
Sbjct: 74 EPWIQN-GTIRENILFG----KPFDEERYEKV---IKACALEPDLEILPDGDLTEIGEKG 125
Query: 128 SQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPA-----LRHEILGLLKQVCDERQLT 182
+SGGQ+QR++LAR + I LLD+P + D + ILGLL T
Sbjct: 126 INLSGGQKQRISLARAVYSDADIYLLDDPLSAVDAHVGRHIFENCILGLLL-----NNKT 180
Query: 183 LLMISHNLEDSMQIATRFIVIAGGQ 207
++++H L+ + A + +V+ G+
Sbjct: 181 RILVTHQLQ-LLPHADQIVVLDNGR 204
>gnl|CDD|72996 cd03237, ABC_RNaseL_inhibitor_domain2, The ATPase domain 2 of RNase
L inhibitor. The ABC ATPase, RNase L inhibitor (RLI),
is a key enzyme in ribosomal biogenesis, formation of
translation preinitiation complexes, and assembly of HIV
capsids. RLI's are not transport proteins and thus
cluster with a group of soluble proteins that lack the
transmembrane components commonly found in other members
of the family. Structurally, RLI's have an N-terminal
Fe-S domain and two nucleotide-binding domains which are
arranged to form two composite active sites in their
interface cleft. RLI is one of the most conserved
enzymes between archaea and eukaryotes with a sequence
identity of more than 48%. The high degree of
evolutionary conservation suggests that RLI performs a
central role in archaeal and eukaryotic physiology..
Length = 246
Score = 81.1 bits (200), Expect = 3e-16
Identities = 57/210 (27%), Positives = 99/210 (47%), Gaps = 23/210 (10%)
Query: 22 VNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILFQENN 81
++++E I ILGP+G GK+T + ++AG P G I + + S +P Q
Sbjct: 22 ISESEVIGILGPNGIGKTTFIKMLAGVLKPDEGDIEIE-----LDTVSYKP-----QYIK 71
Query: 82 LFSHLTVWQNIALGIAPNLRLDHYQHAQVK-QMLEKVFLEDFFNRFPSQMSGGQRQRVAL 140
TV +++ I D Y H K ++ + + +E +R ++SGG+ QRVA+
Sbjct: 72 ADYEGTV-RDLLSSITK----DFYTHPYFKTEIAKPLQIEQILDREVPELSGGELQRVAI 126
Query: 141 ARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSMQIATRF 200
A CL + I LLDEP A D R ++++ + + T ++ H++ +A R
Sbjct: 127 AACLSKDADIYLLDEPSAYLDVEQRLMASKVIRRFAENNEKTAFVVEHDIIMIDYLADRL 186
Query: 201 IVIAGGQIVYDGDPDRLMNGLIPESTLLGI 230
IV++G+P P+S G+
Sbjct: 187 -------IVFEGEPSVNGVANPPQSLRSGM 209
>gnl|CDD|34240 COG4615, PvdE, ABC-type siderophore export system, fused ATPase and
permease components [Secondary metabolites biosynthesis,
transport, and catabolism / Inorganic ion transport and
metabolism].
Length = 546
Score = 79.2 bits (195), Expect = 8e-16
Identities = 58/198 (29%), Positives = 96/198 (48%), Gaps = 20/198 (10%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPS--KRPLSIL 76
+ + + E + ++G +G+GKSTL L+ G P G I L+G+ + ++ S +
Sbjct: 343 NLTIKRGELVFLIGGNGSGKSTLAMLLTGLYQPQSGEILLDGKPVSAEQLEDYRKLFSAV 402
Query: 77 FQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRF-PSQMSGGQR 135
F + +LF L + A +P L Q ++ L D RF ++S GQ+
Sbjct: 403 FSDYHLFDQLLGPEGKA---SPQLIEKWLQRLELAHKTS---LND--GRFSNLKLSTGQK 454
Query: 136 QRVALARCLIRQKPILLLDEPFAVFDPALR----HEILGLLKQVCDERQLTLLMISHNLE 191
+R+AL L+ ++ IL+LDE A DPA R +L LLK E+ T+ ISH+ +
Sbjct: 455 KRLALLLALLEERDILVLDEWAADQDPAFRREFYQVLLPLLK----EQGKTIFAISHD-D 509
Query: 192 DSMQIATRFIVIAGGQIV 209
A R + + GQ+
Sbjct: 510 HYFIHADRLLEMRNGQLS 527
>gnl|CDD|31438 COG1245, COG1245, Predicted ATPase, RNase L inhibitor (RLI) homolog
[General function prediction only].
Length = 591
Score = 77.6 bits (191), Expect = 3e-15
Identities = 52/185 (28%), Positives = 84/185 (45%), Gaps = 16/185 (8%)
Query: 21 QVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILFQEN 80
++ E I ILGP+G GK+T + L+AG P GS S +P I +
Sbjct: 363 EIYDGEVIGILGPNGIGKTTFVKLLAGVIKPDEGSE-------EDLKVSYKPQYISPDYD 415
Query: 81 NLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQMSGGQRQRVAL 140
TV + + Y ++ + L LED R ++SGG+ QRVA+
Sbjct: 416 G-----TVEDLLR-SAIRSAFGSSYFKTEIVKPLN---LEDLLERPVDELSGGELQRVAI 466
Query: 141 ARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSMQIATRF 200
A L R+ + LLDEP A D R + ++++ + + T L++ H++ ++ R
Sbjct: 467 AAALSREADLYLLDEPSAYLDVEQRIIVAKVIRRFIENNEKTALVVDHDIYMIDYVSDRL 526
Query: 201 IVIAG 205
IV G
Sbjct: 527 IVFEG 531
Score = 56.4 bits (136), Expect = 7e-09
Identities = 44/178 (24%), Positives = 79/178 (44%), Gaps = 26/178 (14%)
Query: 30 ILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILFQENNLFSHLT-- 87
ILGP+G GKST L ++AG P G PS + F+ L ++
Sbjct: 105 ILGPNGIGKSTALKILAGELKPNLGR--------YEDPPSWDEVIKRFRGTELQNYFKKL 156
Query: 88 VWQNIALGIAPNL--RLDHYQHAQVKQMLEKVF-------------LEDFFNRFPSQMSG 132
+ P + +V ++L+KV LE+ +R S++SG
Sbjct: 157 YEGELRAVHKPQYVDLIPKVVKGKVGELLKKVDERGKFDEVVERLGLENVLDRDVSELSG 216
Query: 133 GQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNL 190
G+ QRVA+A L+R + DEP + D R +++++ ++ + ++++ H+L
Sbjct: 217 GELQRVAIAAALLRDADVYFFDEPSSYLDIRQRLNAARVIRELAEDGK-YVIVVEHDL 273
>gnl|CDD|30745 COG0396, SufC, ABC-type transport system involved in Fe-S cluster
assembly, ATPase component [Posttranslational
modification, protein turnover, chaperones].
Length = 251
Score = 77.1 bits (190), Expect = 4e-15
Identities = 58/218 (26%), Positives = 97/218 (44%), Gaps = 30/218 (13%)
Query: 18 FDFQVNKAERIVILGPSGAGKSTLLSLMAGF-KY-PTRGSIFLNGQNHTRSSPSKRP--- 72
+ V + E I+GP+G+GKSTL + G KY T G I +G++ SP +R
Sbjct: 23 VNLTVKEGEVHAIMGPNGSGKSTLAYTIMGHPKYEVTEGEILFDGEDILELSPDERARAG 82
Query: 73 LSILFQEN------NLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFL-EDFFNR 125
+ + FQ L N G L ++K+ E + L E+F R
Sbjct: 83 IFLAFQYPVEIPGVTNSDFLRAAMNARRGARGILPEF---IKELKEKAELLGLDEEFLER 139
Query: 126 FPSQ-MSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCD------E 178
+ ++ SGG+++R + + L+ + + +LDEP + D + LK V + E
Sbjct: 140 YVNEGFSGGEKKRNEILQLLLLEPKLAILDEPDSGLD-------IDALKIVAEGINALRE 192
Query: 179 RQLTLLMISHNLEDSMQIATRFI-VIAGGQIVYDGDPD 215
+L+I+H I + V+ G+IV GDP+
Sbjct: 193 EGRGVLIITHYQRLLDYIKPDKVHVLYDGRIVKSGDPE 230
>gnl|CDD|34390 COG4778, PhnL, ABC-type phosphonate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 235
Score = 76.9 bits (189), Expect = 5e-15
Identities = 55/198 (27%), Positives = 89/198 (44%), Gaps = 12/198 (6%)
Query: 17 QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSIL 76
VN E +V+ GPSG+GKSTLL + P G I + + + P +L
Sbjct: 29 NVSLSVNAGECVVLHGPSGSGKSTLLRSLYANYLPDEGQILVRHEGEWVDLVTAEPREVL 88
Query: 77 FQENNLFSHLTVWQNI-----ALGIAPNLRLD-----HYQHAQVKQMLEKVFL-EDFFNR 125
+++ + + AL + L A+ +L ++ L E ++
Sbjct: 89 EVRRTTIGYVSQFLRVIPRVSALDVVAEPLLARGVPREVARAKAADLLTRLNLPERLWSL 148
Query: 126 FPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLM 185
P+ SGG++QRV +AR I PILLLDEP A D R ++ L+++ R L+
Sbjct: 149 APATFSGGEQQRVNIARGFIVDYPILLLDEPTASLDATNRAVVVELIREA-KARGAALVG 207
Query: 186 ISHNLEDSMQIATRFIVI 203
I H+ E +A R + +
Sbjct: 208 IFHDEEVREAVADRLLDV 225
>gnl|CDD|35288 KOG0065, KOG0065, KOG0065, Pleiotropic drug resistance proteins
(PDR1-15), ABC superfamily [Secondary metabolites
biosynthesis, transport and catabolism].
Length = 1391
Score = 75.7 bits (186), Expect = 1e-14
Identities = 53/218 (24%), Positives = 92/218 (42%), Gaps = 20/218 (9%)
Query: 18 FDFQVNKAERIVILGPSGAGKSTLLSLMAG----FKYPTRGSIFLNGQNHTRSSPSKRPL 73
+ E ++LGP G+GK+TLL +AG F + G I NG + P K+ +
Sbjct: 134 ISGIIKPGEMTLVLGPPGSGKTTLLKALAGKLDNFLKSS-GEITYNGHDLKEFVP-KKTV 191
Query: 74 SILFQENNLFSHLTVWQNIALGIA---PNLRLD-----HYQHAQVKQMLEKVFLEDFF-- 123
+ +++ F LTV + + P R D A +L+ + L+
Sbjct: 192 AYNSEQDVHFPELTVRETLDFAARCKGPGSRYDEVSRREKLAAMTDYLLKILGLDHCADT 251
Query: 124 ---NRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQ 180
N +SGG+R+RV++ L+ IL DE D + +I+ L+Q+
Sbjct: 252 LVGNDMVRGVSGGERKRVSIGEMLVGPASILFWDEITRGLDSSTAFQIIKALRQLAHITG 311
Query: 181 LTLLM-ISHNLEDSMQIATRFIVIAGGQIVYDGDPDRL 217
T L+ I + + I+++ G +Y G D +
Sbjct: 312 ATALVSILQPSPEIYDLFDDVILLSEGYQIYQGPRDEV 349
Score = 65.3 bits (159), Expect = 2e-11
Identities = 52/201 (25%), Positives = 96/201 (47%), Gaps = 18/201 (8%)
Query: 30 ILGPSGAGKSTLLSLMAGFKYP--TRGSIFLNGQNHTRSSPSKRPLSILFQENNLFS-HL 86
++G SGAGK+TLL ++AG K G I ++G + + ++ S ++ ++ S L
Sbjct: 822 LMGESGAGKTTLLDVLAGRKTGGYIEGDILISGFPKDQETFARV--SGYVEQQDIHSPEL 879
Query: 87 TVWQNIALGIAPNLRLDHY-----QHAQVKQMLEKVFLEDFFNRF----PSQMSGGQRQR 137
TV + +L + LRL ++ V++++E + L+++ + S +S QR+R
Sbjct: 880 TVRE--SLRFSAALRLPKEVSDEEKYEYVEEVIELLELKEYADALVGLPGSGLSTEQRKR 937
Query: 138 VALARCLI-RQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSMQI 196
+ + L+ IL LDEP + D ++ L+++ D Q L I D +
Sbjct: 938 LTIGVELVANPSSILFLDEPTSGLDSQAAAIVMRFLRKLADTGQTILCTIHQPSIDIFEA 997
Query: 197 ATRFIVIA-GGQIVYDGDPDR 216
+++ GGQ VY G
Sbjct: 998 FDELLLLKRGGQTVYFGPLGE 1018
>gnl|CDD|33864 COG4107, PhnK, ABC-type phosphonate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 258
Score = 75.4 bits (185), Expect = 1e-14
Identities = 56/223 (25%), Positives = 106/223 (47%), Gaps = 29/223 (13%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSI--L 76
F + E + I+G SG+GK+TLL ++G P G++ T +P + +
Sbjct: 26 SFDLYPGEVLGIVGESGSGKTTLLKCISGRLTPDAGTV-------TYRMRDGQPRDLYTM 78
Query: 77 FQENNLFSHLTVWQNIALGIAPNLRLD-----------------HYQH--AQVKQMLEKV 117
+ T W + LR+ HY + A+ + LE+V
Sbjct: 79 SEAERRRLLRTEWGFVHQNPRDGLRMQVSAGGNIGERLMAIGARHYGNIRAEAQDWLEEV 138
Query: 118 FLE-DFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVC 176
++ D + P SGG +QR+ +AR L+ + ++ +DEP D +++ +L LL+ +
Sbjct: 139 EIDLDRIDDLPRTFSGGMQQRLQIARNLVTRPRLVFMDEPTGGLDVSVQARLLDLLRGLV 198
Query: 177 DERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMN 219
E L +++++H+L + +A R +V+ GQ+V G DR+++
Sbjct: 199 RELGLAVVIVTHDLAVARLLADRLMVMKQGQVVESGLTDRVLD 241
>gnl|CDD|73061 cd03369, ABCC_NFT1, Domain 2 of NFT1 (New full-length MRP-type
transporter 1). NFT1 belongs to the MRP (mulrtidrug
resisitance-associated protein) family of ABC
transporters. Some of the MRP members have five
additional transmembrane segments in their N-terminas,
but the function of these additional membrane-spanning
domains is not clear. The MRP was found in the
multidrug-resisting 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 = 207
Score = 72.6 bits (178), Expect = 8e-14
Identities = 53/197 (26%), Positives = 91/197 (46%), Gaps = 20/197 (10%)
Query: 20 FQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQN--HTRSSPSKRPLSILF 77
F+V E+I I+G +GAGKSTL+ + F G I ++G + + L+I+
Sbjct: 29 FKVKAGEKIGIVGRTGAGKSTLILALFRFLEAEEGKIEIDGIDISTIPLEDLRSSLTIIP 88
Query: 78 QENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQMSGGQRQR 137
Q+ LFS T+ N+ D Y ++ L + +S GQRQ
Sbjct: 89 QDPTLFSG-TIRSNLD-------PFDEYSDEEIYGALR-------VSEGGLNLSQGQRQL 133
Query: 138 VALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSMQIA 197
+ LAR L+++ +L+LDE A D A I +++ + T+L I+H L ++
Sbjct: 134 LCLARALLKRPRVLVLDEATASIDYATDALIQKTIRE--EFTNSTILTIAHRLR-TIIDY 190
Query: 198 TRFIVIAGGQIVYDGDP 214
+ +V+ G++ P
Sbjct: 191 DKILVMDAGEVKEYDHP 207
>gnl|CDD|36145 KOG0927, KOG0927, KOG0927, Predicted transporter (ABC superfamily)
[General function prediction only].
Length = 614
Score = 72.7 bits (178), Expect = 9e-14
Identities = 46/218 (21%), Positives = 90/218 (41%), Gaps = 24/218 (11%)
Query: 20 FQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILFQE 79
++N+ R ++GP+G+GKST L +AG + P I + K+ + + E
Sbjct: 96 LELNRGRRYGLIGPNGSGKSTFLRAIAGREVPIPEHIDFYLLSREIEPSEKQAVQAVVME 155
Query: 80 N------------------NLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLED 121
+ + + + + A++ + FL +
Sbjct: 156 TDHERKRLEYLAEDLAQACDDKEKDELDELYERLDEMDNDTFEAKAAKI--LHGLGFLSE 213
Query: 122 FFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQL 181
++ +SGG R R ALAR L ++ +LLLDEP D + L + ++
Sbjct: 214 MQDKKVKDLSGGWRMRAALARALFQKPDLLLLDEPTNHLDLEAIVWLEEYLAK---YDRI 270
Query: 182 TLLMISHNLEDSMQIATRFIVIAGGQ-IVYDGDPDRLM 218
L+++SH+ + + T I + + I Y+G+ D+ +
Sbjct: 271 ILVIVSHSQDFLNGVCTNIIHLDNKKLIYYEGNYDQYV 308
Score = 68.1 bits (166), Expect = 2e-12
Identities = 57/217 (26%), Positives = 98/217 (45%), Gaps = 21/217 (9%)
Query: 2 IKLDHLIYCYDNLKMQF---DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
I + ++ + Y + M + +F ++ R+ ++GP+GAGKSTLL L+ G PT G +
Sbjct: 390 IMVQNVSFGYSDNPMIYKKLNFGIDLDSRVALVGPNGAGKSTLLKLITGDLQPTIGMVSR 449
Query: 59 NGQNHTRSSPSKRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVF 118
+ N P L + + + L+ +++ +L +
Sbjct: 450 HSHNKL-------PRYNQHLAEQLDLDKSSLEFMMPKFPDEKELE-----EMRSILGRFG 497
Query: 119 LE-DFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCD 177
L D SQ+S GQR+RV AR ++Q +LLLDEP D E + L + +
Sbjct: 498 LTGDAQVVPMSQLSDGQRRRVLFARLAVKQPHLLLLDEPTNHLDI----ETIDALAEAIN 553
Query: 178 ERQLTLLMISHNLEDSMQIATRFIVIAGGQIV-YDGD 213
E ++++SH+ Q+A V G + +DGD
Sbjct: 554 EFPGGVVLVSHDFRLISQVAEEIWVCENGTVTKWDGD 590
>gnl|CDD|32537 COG2401, COG2401, ABC-type ATPase fused to a predicted
acetyltransferase domain [General function prediction
only].
Length = 593
Score = 70.8 bits (173), Expect = 3e-13
Identities = 47/196 (23%), Positives = 83/196 (42%), Gaps = 36/196 (18%)
Query: 9 YCYDNLKMQFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKY--------PTRGSIFLNG 60
Y NL + ++ + + ++G SGAGK+TLL ++ G + P G + +
Sbjct: 397 YVLRNL----NLEIKPGDVVAVVGQSGAGKTTLLRMILGAQKGRGEEKYRPDSGKVEVPK 452
Query: 61 QNHTRSSPSKRPLSILFQENNLFSHL---TVWQNIALGIAPNLRLDHYQHAQVKQMLEKV 117
+ P + F E + HL T N A+ I L +
Sbjct: 453 NTVSALIPGE--YEPEFGEVTILEHLRSKTGDLNAAVEI-----------------LNRA 493
Query: 118 FLED--FFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQV 175
L D + R S++S GQ++R LA+ L + +LL+DE A D + + ++
Sbjct: 494 GLSDAVLYRRKFSELSTGQKERAKLAKLLAERPNVLLIDEFAAHLDELTAVRVARKISEL 553
Query: 176 CDERQLTLLMISHNLE 191
E +TL++++H E
Sbjct: 554 AREAGITLIVVTHRPE 569
>gnl|CDD|33918 COG4178, COG4178, ABC-type uncharacterized transport system,
permease and ATPase components [General function
prediction only].
Length = 604
Score = 70.3 bits (172), Expect = 5e-13
Identities = 49/178 (27%), Positives = 78/178 (43%), Gaps = 22/178 (12%)
Query: 17 QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSIL 76
+ +F+V ER++I G SGAGK++LL +AG G I + + P +RP
Sbjct: 411 ELNFEVRPGERLLITGESGAGKTSLLRALAGLWPWGSGRISMPADSALLFLP-QRPY--- 466
Query: 77 FQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRF------PSQM 130
+ L L PN + A++ +L KV L D R +
Sbjct: 467 LPQGTLREAL---------CYPNA-APDFSDAELVAVLHKVGLGDLAERLDEEDRWDRVL 516
Query: 131 SGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISH 188
SGG++QR+A AR L+ + + LDE + D + LLK+ T++ + H
Sbjct: 517 SGGEQQRLAFARLLLHKPKWVFLDEATSALDEETEDRLYQLLKEEL--PDATVISVGH 572
>gnl|CDD|37566 KOG2355, KOG2355, KOG2355, Predicted ABC-type transport, ATPase
component/CCR4 associated factor [General function
prediction only, Transcription].
Length = 291
Score = 69.3 bits (169), Expect = 8e-13
Identities = 53/215 (24%), Positives = 97/215 (45%), Gaps = 8/215 (3%)
Query: 2 IKLDHLIYCY---DNLKMQFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
I++ L + Y D + F+ + R +++G +GAGK+TLL +++G G + +
Sbjct: 14 IEVSGLQFKYKVSDPIFFDFNLDLPAGSRCLLVGANGAGKTTLLKILSGKHMVGGGVVQV 73
Query: 59 NGQN--HTRSSPSKRPLSILFQE--NNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQML 114
G++ H S S LS L E + V + + + ++ L
Sbjct: 74 LGRSAFHDTSLESSGDLSYLGGEWSKTVGIAGEVPLQGDISAEHMIFGVGGDDPERREKL 133
Query: 115 EKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQ 174
+ D R ++S GQR+RV + L++ +LLLDE D R ++L LK+
Sbjct: 134 IDILDIDLRWRM-HKVSDGQRRRVQICMGLLKPFKVLLLDEVTVDLDVLARADLLEFLKE 192
Query: 175 VCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIV 209
C++R T++ +H + T + I G++V
Sbjct: 193 ECEQRGATIVYATHIFDGLETWPTHLVYIKSGKLV 227
>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 = 66.3 bits (162), Expect = 6e-12
Identities = 50/204 (24%), Positives = 84/204 (41%), Gaps = 38/204 (18%)
Query: 18 FDFQVNKAERIVILGPSGAGKSTLLSLMAGF-KY-PTRGSIFLNGQNHTRSSPSKRPLSI 75
+ + K E ++GP+G+GKSTL + G KY T G I G++ T P +R
Sbjct: 19 VNLTIKKGEVHALMGPNGSGKSTLAKTIMGHPKYEVTEGEILFKGEDITDLPPEERARLG 78
Query: 76 LFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQMSGGQR 135
+F +Q + V DF SGG++
Sbjct: 79 IF---------LAFQYPP-------------------EIPGVKNADFLRYVNEGFSGGEK 110
Query: 136 QRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCD---ERQLTLLMISHNLED 192
+R + + L+ + + +LDEP D L + L L+ +V + E ++L+I+H
Sbjct: 111 KRNEILQLLLLEPDLAILDEP----DSGLDIDALRLVAEVINKLREEGKSVLIITHYQRL 166
Query: 193 SMQIATRFI-VIAGGQIVYDGDPD 215
I + V+ G+IV GD +
Sbjct: 167 LDYIKPDRVHVLYDGRIVKSGDKE 190
>gnl|CDD|73050 cd03291, ABCC_CFTR1, The CFTR subfamily domain 1. 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 = 282
Score = 63.9 bits (155), Expect = 4e-11
Identities = 60/228 (26%), Positives = 105/228 (46%), Gaps = 37/228 (16%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILFQ 78
+ ++ K E + I G +G+GK++LL L+ G P+ G I +G R S S + I+
Sbjct: 57 NLKIEKGEMLAITGSTGSGKTSLLMLILGELEPSEGKIKHSG----RISFSSQFSWIMPG 112
Query: 79 ENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQ--------- 129
T+ +NI G++ D Y++ V + + LE+ +FP +
Sbjct: 113 --------TIKENIIFGVS----YDEYRYKSVVKACQ---LEEDITKFPEKDNTVLGEGG 157
Query: 130 --MSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCD-ERQLTLLMI 186
+SGGQR R++LAR + + + LLD PF D EI VC T +++
Sbjct: 158 ITLSGGQRARISLARAVYKDADLYLLDSPFGYLDVFTEKEIFE--SCVCKLMANKTRILV 215
Query: 187 SHNLEDSMQIATRFIVIAGGQIVYDGDPDRLMNGLIPE--STLLGIPS 232
+ +E ++ A + +++ G + G L L P+ S L+G +
Sbjct: 216 TSKME-HLKKADKILILHEGSSYFYGTFSEL-QSLRPDFSSKLMGYDT 261
>gnl|CDD|72992 cd03233, ABC_PDR_domain1, The pleiotropic drug resistance (PDR)
family of ATP-binding cassette (ABC) transporters. PDR
is a well-described phenomenon occurring in fungi and
shares several similarities with processes in bacteria
and higher eukaryotes. This PDR subfamily represents
domain I of its (ABC-IM)2 organization. ABC
transporters are a large family of proteins involved in
the transport of a wide variety of different compounds
including 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 = 202
Score = 63.7 bits (155), Expect = 4e-11
Identities = 43/200 (21%), Positives = 80/200 (40%), Gaps = 28/200 (14%)
Query: 18 FDFQVNKAERIVILGPSGAGKSTLLSLMAG---FKYPTRGSIFLNG-QNHTRSSPSKRPL 73
F V E +++LG G+G STLL +A G I NG + +
Sbjct: 26 FSGVVKPGEMVLVLGRPGSGCSTLLKALANRTEGNVSVEGDIHYNGIPYKEFAEKYPGEI 85
Query: 74 SILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQMSGG 133
+ +E+ F LTV + LD + + + + SGG
Sbjct: 86 IYVSEEDVHFPTLTVRET----------LDFALRCKGNEFVRGI-------------SGG 122
Query: 134 QRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLM-ISHNLED 192
+R+RV++A L+ + +L D D + EIL ++ + D + T + + ++
Sbjct: 123 ERKRVSIAEALVSRASVLCWDNSTRGLDSSTALEILKCIRTMADVLKTTTFVSLYQASDE 182
Query: 193 SMQIATRFIVIAGGQIVYDG 212
+ + +V+ G+ +Y G
Sbjct: 183 IYDLFDKVLVLYEGRQIYYG 202
>gnl|CDD|72981 cd03222, ABC_RNaseL_inhibitor, The ABC ATPase RNase L inhibitor
(RLI) is a key enzyme in ribosomal biogenesis, formation
of translation preinitiation complexes, and assembly of
HIV capsids. RLI's are not transport proteins, and thus
cluster with a group of soluble proteins that lack the
transmembrane components commonly found in other members
of the family. Structurally, RLI's have an N-terminal
Fe-S domain and two nucleotide-binding domains, which
are arranged to form two composite active sites in their
interface cleft. RLI is one of the most conserved
enzymes between archaea and eukaryotes with a sequence
identity more than 48%. The high degree of evolutionary
conservation suggests that RLI performs a central role
in archaeal and eukaryotic physiology..
Length = 177
Score = 63.5 bits (154), Expect = 5e-11
Identities = 48/209 (22%), Positives = 77/209 (36%), Gaps = 65/209 (31%)
Query: 22 VNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILFQENN 81
V + E I I+GP+G GK+T + ++AG P + + +P +P
Sbjct: 22 VKEGEVIGIVGPNGTGKTTAVKILAGQLIPNGDNDEWD-----GITPVYKP--------- 67
Query: 82 LFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQMSGGQRQRVALA 141
Q I L SGG+ QRVA+A
Sbjct: 68 --------QYIDL------------------------------------SGGELQRVAIA 83
Query: 142 RCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSMQIATRFI 201
L+R L DEP A D R ++++ +E + T L++ H+L ++ R
Sbjct: 84 AALLRNATFYLFDEPSAYLDIEQRLNAARAIRRLSEEGKKTALVVEHDLAVLDYLSDRI- 142
Query: 202 VIAGGQIVYDGDPDRLMNGLIPESTLLGI 230
V++G+P P+ T GI
Sbjct: 143 ------HVFEGEPGVYGIASQPKGTREGI 165
>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 = 62.7 bits (152), Expect = 9e-11
Identities = 57/202 (28%), Positives = 97/202 (48%), Gaps = 25/202 (12%)
Query: 20 FQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSK--RPLSILF 77
F ++ +R+ +LG +G+GKSTLLS T G I ++G + K + ++
Sbjct: 25 FSISPGQRVGLLGRTGSGKSTLLSAFLRLLN-TEGDIQIDGVSWNSVPLQKWRKAFGVIP 83
Query: 78 QENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQM------- 130
Q+ +FS T +N+ P + ++ ++ E+V L+ +FP Q+
Sbjct: 84 QKVFIFSG-TFRKNLD----PY---GKWSDEEIWKVAEEVGLKSVIEQFPGQLDFVLVDG 135
Query: 131 ----SGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMI 186
S G +Q + LAR ++ + ILLLDEP A DP I LKQ + T+++
Sbjct: 136 GCVLSHGHKQLMCLARSVLSKAKILLLDEPSAHLDPITYQVIRKTLKQAFAD--CTVILS 193
Query: 187 SHNLEDSMQIATRFIVIAGGQI 208
H +E +M RF+VI ++
Sbjct: 194 EHRIE-AMLECQRFLVIEENKV 214
>gnl|CDD|35289 KOG0066, KOG0066, KOG0066, eIF2-interacting protein ABC50 (ABC
superfamily) [Translation, ribosomal structure and
biogenesis].
Length = 807
Score = 62.0 bits (150), Expect = 1e-10
Identities = 48/179 (26%), Positives = 78/179 (43%), Gaps = 19/179 (10%)
Query: 12 DNLKMQFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKR 71
L + DF ++ RI I+GP+G GKSTLL L+ G P G + +NH
Sbjct: 600 KPLFKKLDFGIDMDSRIAIVGPNGVGKSTLLKLLIGKLDPNDGEL---RKNHR------- 649
Query: 72 PLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFP-SQM 130
L I + + + L + + L + + ++ L L + +
Sbjct: 650 -LRIGWFDQHANEALNGEETPVEYLQRKFNLP---YQEARKQLGTFGLASHAHTIKIKDL 705
Query: 131 SGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHN 189
SGGQ+ RVALA + +L+LDEP D E + L + +E ++M+SH+
Sbjct: 706 SGGQKARVALAELALGGPDVLILDEPTNNLDI----ESIDALAEAINEYNGGVIMVSHD 760
Score = 42.8 bits (100), Expect = 8e-05
Identities = 53/189 (28%), Positives = 83/189 (43%), Gaps = 22/189 (11%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMA--GFKYPTRGSIFLNGQNHTRSSPS------- 69
+ R ++GP+G GK+TLL +A P + L Q S S
Sbjct: 284 SLTIVYGRRYGLVGPNGMGKTTLLKHIAARALAIPPNIDVLLCEQEVVADSTSAIDTVLK 343
Query: 70 --KRPLSILFQENNLFSHLTVWQNIAL----GIAPNLRL--DHYQHAQVKQMLEKV-FLE 120
K+ L++L +E L S + A +A LR A+ +++L + F +
Sbjct: 344 ADKKRLALLEEEAKLMSQIEEGDTTAAERLKEVADELRAIGADSAEARARRILAGLGFSK 403
Query: 121 DFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQ 180
+ R ++ SGG R RV+LAR L + +L+LDEP D L I L +
Sbjct: 404 EMQERPTTKFSGGWRMRVSLARALFLEPTLLMLDEPTNHLD--LNAVI--WLDNYLQGWK 459
Query: 181 LTLLMISHN 189
TLL++SH+
Sbjct: 460 KTLLIVSHD 468
>gnl|CDD|73049 cd03290, ABCC_SUR1_N, The SUR domain 1. The sulfonylurea receptor
SUR is an ATP transporter of the ABCC/MRP family with
tandem ATPase binding domains. 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 = 218
Score = 60.5 bits (146), Expect = 4e-10
Identities = 48/192 (25%), Positives = 93/192 (48%), Gaps = 28/192 (14%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRS------SPSKRP 72
+ ++ + +I+G G GKS+LL + G G + + +N + S ++
Sbjct: 21 NIRIPTGQLTMIVGQVGCGKSSLLLAILGEMQTLEGKVHWSNKNESEPSFEATRSRNRYS 80
Query: 73 LSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPS---- 128
++ Q+ L + TV +NI G +P + + K + + L+ + P
Sbjct: 81 VAYAAQKPWLLN-ATVEENITFG-SP------FNKQRYKAVTDACSLQPDIDLLPFGDQT 132
Query: 129 -------QMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEIL--GLLKQVCDER 179
+SGGQRQR+ +AR L + I+ LD+PF+ D L ++ G+LK + D++
Sbjct: 133 EIGERGINLSGGQRQRICVARALYQNTNIVFLDDPFSALDIHLSDHLMQEGILKFLQDDK 192
Query: 180 QLTLLMISHNLE 191
+ TL++++H L+
Sbjct: 193 R-TLVLVTHKLQ 203
>gnl|CDD|35286 KOG0063, KOG0063, KOG0063, RNAse L inhibitor, ABC superfamily [RNA
processing and modification].
Length = 592
Score = 58.4 bits (141), Expect = 2e-09
Identities = 54/207 (26%), Positives = 90/207 (43%), Gaps = 24/207 (11%)
Query: 25 AERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILFQENNLFS 84
+E IV+LG +G GK+T + ++AG P G + S +P I +
Sbjct: 367 SEIIVMLGENGTGKTTFIRMLAGRLKPDEGGEI------PVLNVSYKPQKISPKREGTVR 420
Query: 85 HLTVWQNIALGIAPNLRLDHYQHAQ-VKQMLEKVFLEDFFNRFPSQMSGGQRQRVALARC 143
L D Y H Q V +++ + +E+ ++ +SGG+ QRVALA C
Sbjct: 421 QL----------LHTKIRDAYMHPQFVNDVMKPLQIENIIDQEVQGLSGGELQRVALALC 470
Query: 144 LIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSMQIATRFIVI 203
L + + L+DEP A D R ++K+ + T ++ H+ + +A R
Sbjct: 471 LGKPADVYLIDEPSAYLDSEQRIIASKVIKRFILHAKKTAFVVEHDFIMATYLADRV--- 527
Query: 204 AGGQIVYDGDPDRLMNGLIPESTLLGI 230
IV++G P P+S L G+
Sbjct: 528 ----IVFEGQPSVNTVANSPQSLLAGM 550
Score = 41.4 bits (97), Expect = 2e-04
Identities = 34/150 (22%), Positives = 67/150 (44%), Gaps = 27/150 (18%)
Query: 30 ILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILFQENNLFSHLT-- 87
++G +G GKST L ++AG + P G + P + + F+ + L ++ T
Sbjct: 105 LVGTNGIGKSTALKILAGKQKPNLGRY--------DNPPDWQEILTYFRGSELQNYFTKI 156
Query: 88 VWQNIALGIAPNLRLDHYQHA----------------QVKQMLEKVFLEDFFNRFPSQMS 131
+ N+ I P +D A +++ +++ L + +R Q+S
Sbjct: 157 LEDNLKAIIKPQY-VDQIPRAVKGTVGSLLDRKDERDNKEEVCDQLDLNNLLDREVEQLS 215
Query: 132 GGQRQRVALARCLIRQKPILLLDEPFAVFD 161
GG+ QR A+A +++ + + DEP + D
Sbjct: 216 GGELQRFAIAMVCVQKADVYMFDEPSSYLD 245
>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 = 56.1 bits (135), Expect = 8e-09
Identities = 41/177 (23%), Positives = 67/177 (37%), Gaps = 20/177 (11%)
Query: 17 QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSIL 76
Q RI +G +G GKSTLL ++ G PTRG + + + +
Sbjct: 382 QLGLDRESDSRISRVGENGDGKSTLLKILKGDLTPTRGIVGRHP---------RLRIKYF 432
Query: 77 FQ-ENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLE-DFFNRFPSQMSGGQ 134
Q + + P + + L L + + + +SGGQ
Sbjct: 433 AQHHVDFLDKNVNAVDFMEKSFPGKTEEEIRRH-----LGSFGLSGELALQSIASLSGGQ 487
Query: 135 RQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLE 191
+ RVA A C +L+LDEP D + LG L + ++++SH+ E
Sbjct: 488 KSRVAFAACTWNNPHLLVLDEPTNHLD----RDSLGALAKALKNFNGGVVLVSHDEE 540
Score = 47.6 bits (113), Expect = 3e-06
Identities = 36/134 (26%), Positives = 53/134 (39%), Gaps = 14/134 (10%)
Query: 24 KAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSK-RPLSILFQENNL 82
+ R ++G +G GKSTLL +A NGQ + R ++ L
Sbjct: 105 RGRRYGLVGRNGIGKSTLLRAIA------------NGQVSGFHVEQEVRGDDTEALQSVL 152
Query: 83 FSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQMSGGQRQRVALAR 142
S +A L + K + F + + +SGG R R+ALAR
Sbjct: 153 ESDTERLDFLAEEKELLAGL-TLEEIYDKILAGLGFTPEMQLQPTKSLSGGWRMRLALAR 211
Query: 143 CLIRQKPILLLDEP 156
L + +LLLDEP
Sbjct: 212 ALFAKPDLLLLDEP 225
Score = 35.3 bits (81), Expect = 0.016
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 4/46 (8%)
Query: 16 MQFDFQVNKAE----RIVILGPSGAGKSTLLSLMAGFKYPTRGSIF 57
+F + +A RI +LG A KSTL+ ++ GF +PT G +
Sbjct: 313 DKFRYNAARASSVQSRIKMLGKLPALKSTLIEVLIGFLFPTEGEVL 358
>gnl|CDD|33911 COG4170, SapD, ABC-type antimicrobial peptide transport system,
ATPase component [Defense mechanisms].
Length = 330
Score = 55.0 bits (132), Expect = 2e-08
Identities = 52/220 (23%), Positives = 101/220 (45%), Gaps = 25/220 (11%)
Query: 22 VNKAERIVILGPSGAGKSTLLSLMAGFKYP----TRGSIFLNGQNHTRSSPSKR------ 71
+N+ E ++G SG+GKS + + G T + + + R SP +R
Sbjct: 30 LNEGEIRGLVGESGSGKSLIAKAICGVNKDNWRVTADRMRFDDIDLLRLSPRERRKLVGH 89
Query: 72 PLSILFQENNLFSHLTVWQNIALGIAPNL----------RLDHYQHAQVKQMLEKVFL-- 119
+S++FQE S L + + + N+ + ++ + ++L +V +
Sbjct: 90 NVSMIFQEPQ--SCLDPSERVGRQLIQNIPAWTYKGRWWQRFGWRKRRAIELLHRVGIKD 147
Query: 120 -EDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDE 178
+D +P +++ G+ Q+V +A L Q +L+ DEP +P + +I LL ++
Sbjct: 148 HKDIMRSYPYELTEGECQKVMIAIALANQPRLLIADEPTNSMEPTTQAQIFRLLSRLNQN 207
Query: 179 RQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLM 218
T+L+ISH+L+ Q A + V+ GQ V + L+
Sbjct: 208 SNTTILLISHDLQMISQWADKINVLYCGQTVESAPSEELV 247
>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 = 54.0 bits (130), Expect = 4e-08
Identities = 47/190 (24%), Positives = 75/190 (39%), Gaps = 47/190 (24%)
Query: 2 IKLDHLIYCYDN---LKMQFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFL 58
I+L++L + L F++ +R++I GPSG GKS+L +AG G I +
Sbjct: 1 IELENLSLATPDGRVLLKDLSFEIKPGDRLLITGPSGTGKSSLFRALAGLWPWGSGRIGM 60
Query: 59 NGQNHTRSSPSKRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVF 118
P +RP + LG LR Q+ + V
Sbjct: 61 PEGEDLLFLP-QRPY------------------LPLG---TLR------EQLIYPWDDVL 92
Query: 119 LEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDE 178
SGG++QR+A AR L+ + + LDE + D E L Q+ E
Sbjct: 93 ------------SGGEQQRLAFARLLLHKPKFVFLDEATSALDE----ESEDRLYQLLKE 136
Query: 179 RQLTLLMISH 188
+T++ + H
Sbjct: 137 LGITVISVGH 146
>gnl|CDD|35283 KOG0060, KOG0060, KOG0060, Long-chain acyl-CoA transporter, ABC
superfamily (involved in peroxisome organization and
biogenesis) [Lipid transport and metabolism, General
function prediction only].
Length = 659
Score = 53.8 bits (129), Expect = 4e-08
Identities = 45/208 (21%), Positives = 79/208 (37%), Gaps = 35/208 (16%)
Query: 1 MIKLDHLIYCYDN----LKMQFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSI 56
I+ + + L +V + ++I GPSG GK++LL ++ G T G +
Sbjct: 433 AIEFEEVSLSTPTNGDLLIENLSLEVPSGQNLLITGPSGCGKTSLLRVLGGLWPSTGGKL 492
Query: 57 FLNGQNHTRSSPSKRPLSILFQENNLFSHL-TVWQNIALGIAPNLRLDHYQHA----QVK 111
T P + F + L T+ + I P D + +
Sbjct: 493 ----TKPTDGGPK----DLFFLPQRPYMTLGTLRDQV---IYPLKAEDMDSKSASDEDIL 541
Query: 112 QMLEKVFLEDFFNRFP-----------SQMSGGQRQRVALARCLIRQKPILLLDEPFAVF 160
++LE V L R +S G++QR+A AR + +LDE +
Sbjct: 542 RILENVQLGHLLEREGGLDQQVDWDWMDVLSPGEQQRLAFARLFYHKPKFAILDECTS-- 599
Query: 161 DPALRHEILGLLKQVCDERQLTLLMISH 188
A+ ++ G L + C E +T + + H
Sbjct: 600 --AVTEDVEGALYRKCREMGITFISVGH 625
>gnl|CDD|30527 COG0178, UvrA, Excinuclease ATPase subunit [DNA replication,
recombination, and repair].
Length = 935
Score = 51.3 bits (123), Expect = 2e-07
Identities = 38/142 (26%), Positives = 67/142 (47%), Gaps = 25/142 (17%)
Query: 99 NLRLDHYQHAQVKQMLEKV-----FLEDF------FNRFPSQMSGGQRQRVALARCLIRQ 147
NL+L + + +L+++ FL D +R +SGG+ QR+ LA +
Sbjct: 440 NLKLSEKEKKIAEPILKEIKERLGFLVDVGLGYLTLSRSAGTLSGGEAQRIRLATQIGSG 499
Query: 148 KPILL--LDEPFAVFDPALRHEILGLLKQVCDERQL--TLLMISHNLEDSMQIATRFIVI 203
+L LDEP ++ LK++ R L T++++ H+ ED+++ A I I
Sbjct: 500 LTGVLYVLDEPSIGLHQRDNERLIETLKRL---RDLGNTVIVVEHD-EDTIRAADHIIDI 555
Query: 204 A------GGQIVYDGDPDRLMN 219
GG+IV +G P+ L+
Sbjct: 556 GPGAGEHGGEIVAEGTPEELLA 577
Score = 40.9 bits (96), Expect = 3e-04
Identities = 31/99 (31%), Positives = 54/99 (54%), Gaps = 11/99 (11%)
Query: 128 SQMSGGQRQRVALARCLIRQ---KPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLL 184
+ +SGG+ QRV LA+ L ++ K + +LDEP ++L +L ++ D+ T++
Sbjct: 821 TTLSGGEAQRVKLAKELSKRSTGKTLYILDEPTTGLHFDDIKKLLEVLHRLVDKGN-TVI 879
Query: 185 MISHNLEDSMQIATRFIVI------AGGQIVYDGDPDRL 217
+I HNL D ++ A I + GG+IV G P+ +
Sbjct: 880 VIEHNL-DVIKTADWIIDLGPEGGDGGGEIVASGTPEEV 917
Score = 29.8 bits (67), Expect = 0.60
Identities = 13/29 (44%), Positives = 20/29 (68%), Gaps = 1/29 (3%)
Query: 13 NLKMQFDFQVNKAERIVILGPSGAGKSTL 41
NLK D ++ + + +VI G SG+GKS+L
Sbjct: 15 NLK-NIDLEIPRNKLVVITGLSGSGKSSL 42
Score = 26.7 bits (59), Expect = 6.4
Identities = 8/16 (50%), Positives = 12/16 (75%)
Query: 28 IVILGPSGAGKSTLLS 43
+ G SG+GKSTL++
Sbjct: 630 TCVTGVSGSGKSTLIN 645
>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 = 50.8 bits (122), Expect = 3e-07
Identities = 27/80 (33%), Positives = 44/80 (55%), Gaps = 4/80 (5%)
Query: 128 SQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMIS 187
Q+SGG++ R+ALA+ L+ +LLLDEP D + LK E T++++S
Sbjct: 69 EQLSGGEKMRLALAKLLLENPNLLLLDEPTNHLDLESIEALEEALK----EYPGTVILVS 124
Query: 188 HNLEDSMQIATRFIVIAGGQ 207
H+ Q+AT+ I + G+
Sbjct: 125 HDRYFLDQVATKIIELEDGK 144
Score = 50.1 bits (120), Expect = 5e-07
Identities = 21/57 (36%), Positives = 32/57 (56%), Gaps = 2/57 (3%)
Query: 2 IKLDHLIYCYDNLKM--QFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSI 56
I+L++L Y + +N +RI ++G +GAGKSTLL L+AG P G +
Sbjct: 1 IELENLSKTYGGKLLLKDISLTINPGDRIGLVGRNGAGKSTLLKLIAGELEPDEGIV 57
>gnl|CDD|72991 cd03232, ABC_PDR_domain2, The pleiotropic drug resistance-like
(PDR) family of ATP-binding cassette (ABC) transporters.
PDR is a well-described phenomenon occurring in fungi
and shares several similarities with processes in
bacteria and higher eukaryotes. This PDR subfamily
represents domain I of its (ABC-IM)2 organization. ABC
transporters are a large family of proteins involved in
the transport of a wide variety of different compounds
including 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 = 192
Score = 49.4 bits (118), Expect = 8e-07
Identities = 54/225 (24%), Positives = 89/225 (39%), Gaps = 51/225 (22%)
Query: 6 HLIYCYDNLKMQFDFQVNKAERIVI---------------LGPSGAGKSTLLSLMAGFKY 50
+ + NL + V +R ++ +G SGAGK+TLL ++AG K
Sbjct: 1 GSVLTWKNL--NYTVPVKGGKRQLLNNISGYVKPGTLTALMGESGAGKTTLLDVLAGRKT 58
Query: 51 P--TRGSIFLNGQNHTRSSPSKRPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHA 108
G I +NG+ ++ R + Q++ +LTV + AL + LR
Sbjct: 59 AGVITGEILINGRPLDKNFQ--RSTGYVEQQDVHSPNLTVRE--ALRFSALLR------- 107
Query: 109 QVKQMLEKVFLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEI 168
+S QR+R+ + L + IL LDEP + D + I
Sbjct: 108 --------------------GLSVEQRKRLTIGVELAAKPSILFLDEPTSGLDSQAAYNI 147
Query: 169 LGLLKQVCDERQLTLLMISHNLEDSMQIATRFIVIA-GGQIVYDG 212
+ LK++ D Q L I + R +++ GG+ VY G
Sbjct: 148 VRFLKKLADSGQAILCTIHQPSASIFEKFDRLLLLKRGGKTVYFG 192
>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 = 49.5 bits (118), Expect = 8e-07
Identities = 44/179 (24%), Positives = 77/179 (43%), Gaps = 28/179 (15%)
Query: 30 ILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILFQENNLFSHLTVW 89
++GP+G GKST L ++AG P G P + F+ + L ++ T
Sbjct: 31 LVGPNGIGKSTALKILAGKLKPNLGKF--------DDPPDWDEILDEFRGSELQNYFTKL 82
Query: 90 QN--IALGIAPNLRLDHYQHA---QVKQMLEKV-------------FLEDFFNRFPSQMS 131
+ + + P +D A +V ++L+K L +R Q+S
Sbjct: 83 LEGDVKVIVKPQY-VDLIPKAVKGKVGELLKKKDERGKLDELVDQLELRHVLDRNIDQLS 141
Query: 132 GGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNL 190
GG+ QRVA+A L R DEP + D R L++++ ++ +L++ H+L
Sbjct: 142 GGELQRVAIAAALARDADFYFFDEPSSYLDIKQRLNAARLIRELAEDDN-YVLVVEHDL 199
>gnl|CDD|72999 cd03240, ABC_Rad50, The catalytic domains of Rad50 are similar to
the ATP-binding cassette of ABC transporters, but are
not associated with membrane-spanning domains. The
conserved ATP-binding motifs common to Rad50 and the ABC
transporter family include the Walker A and Walker B
motifs, the Q loop, a histidine residue in the switch
region, a D-loop, and a conserved LSGG sequence. This
conserved sequence, LSGG, is the most specific and
characteristic motif of this family and is thus known as
the ABC signature sequence..
Length = 204
Score = 46.7 bits (111), Expect = 5e-06
Identities = 39/194 (20%), Positives = 71/194 (36%), Gaps = 27/194 (13%)
Query: 11 YDNLKMQFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSK 70
++ +++F + +I+G +GAGK+T++ KY G + N +
Sbjct: 13 HERSEIEFFSPLT-----LIVGQNGAGKTTIIE---ALKYALTGELPPN-----SKGGAH 59
Query: 71 RPLSILFQENNLFSHLTVWQNIALGIAPNLRLDHYQHA-QVKQMLEKVFLEDFFNRFPSQ 129
P I E L L ++ Q L D +
Sbjct: 60 DPKLIREGEVRAQVKLAFENANGKKYTITRSLAILENVIFCHQGESNWPLLDM----RGR 115
Query: 130 MSGGQRQ------RVALARCLIRQKPILLLDEPFAVFDPA-LRHEILGLLKQVCDERQLT 182
SGG++ R+ALA IL LDEP D + + ++++ ++
Sbjct: 116 CSGGEKVLASLIIRLALAETFGSNCGILALDEPTTNLDEENIEESLAEIIEERKSQKNFQ 175
Query: 183 LLMISH--NLEDSM 194
L++I+H L D+
Sbjct: 176 LIVITHDEELVDAA 189
>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 = 47.0 bits (111), Expect = 5e-06
Identities = 62/237 (26%), Positives = 108/237 (45%), Gaps = 34/237 (14%)
Query: 2 IKLDHLIYCYDN-LK---MQFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPT--RGS 55
IK+ L Y+N LK + +++ I G +G+GKS+L +A F+ G
Sbjct: 20 IKIHDLCVRYENNLKPVLKHVKAYIKPGQKVGICGRTGSGKSSLS--LAFFRMVDIFDGK 77
Query: 56 IFLNGQN------HTRSSPSKRPLSILFQENNLFSHLTVWQNIALGIAPNLRL------D 103
I ++G + HT S LSI+ Q+ LFS +I + P + +
Sbjct: 78 IVIDGIDISKLPLHTLRSR----LSIILQDPILFS-----GSIRFNLDPECKCTDDRLWE 128
Query: 104 HYQHAQVKQMLEKV--FLEDFFNRFPSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFD 161
+ AQ+K M++ + L+ S GQRQ LAR +R+ IL++DE A D
Sbjct: 129 ALEIAQLKNMVKSLPGGLDAVVTEGGENFSVGQRQLFCLARAFVRKSSILIMDEATASID 188
Query: 162 PALRHEILGLLKQVCDERQLTLLMISHNLEDSMQIATRFIVIAGGQIVYDGDPDRLM 218
A + + ++ +R T++ I+H + + A +V++ G +V P+ L+
Sbjct: 189 MATENILQKVVMTAFADR--TVVTIAHRVSTILD-ADLVLVLSRGILVECDTPENLL 242
>gnl|CDD|73038 cd03279, ABC_sbcCD, SbcCD and other Mre11/Rad50 (MR) complexes are
implicated in the metabolism of DNA ends. They cleave
ends sealed by hairpin structures and are thought to
play a role in removing protein bound to DNA termini..
Length = 213
Score = 45.6 bits (108), Expect = 1e-05
Identities = 45/206 (21%), Positives = 74/206 (35%), Gaps = 31/206 (15%)
Query: 18 FDF-QVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSIL 76
DF ++ +I GP+GAGKST+L + Y + +P + +
Sbjct: 20 IDFTGLDNNGLFLICGPTGAGKSTILDAITYALYGKTPRYGRQENLRSVFAPGEDTAEVS 79
Query: 77 FQENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFL-----EDFFNRFPSQMS 131
F LG R++ + Q V L + F R S +S
Sbjct: 80 FT-------------FQLGGK-KYRVERSRGLDYDQFTRIVLLPQGEFDRFLARPVSTLS 125
Query: 132 GGQRQRVALARCLIRQKPI----------LLLDEPFAVFDPALRHEILGLLKQVCDERQL 181
GG+ +L+ L + + L +DE F DP + L+ + E ++
Sbjct: 126 GGETFLASLSLALALSEVLQNRGGARLEALFIDEGFGTLDPEALEAVATALELIRTENRM 185
Query: 182 TLLMISHNLEDSMQIATRFIVIAGGQ 207
+ +ISH E +I R VI
Sbjct: 186 -VGVISHVEELKERIPQRLEVIKTPG 210
>gnl|CDD|35287 KOG0064, KOG0064, KOG0064, Peroxisomal long-chain acyl-CoA
transporter, ABC superfamily [Lipid transport and
metabolism].
Length = 728
Score = 44.6 bits (105), Expect = 2e-05
Identities = 44/182 (24%), Positives = 74/182 (40%), Gaps = 30/182 (16%)
Query: 20 FQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILFQE 79
FQ+ ++I GP+G GKS+L ++ G G + + N+ P +RP
Sbjct: 503 FQIEPGMHLLITGPNGCGKSSLFRILGGLWPVYNGLLSIPRPNNIFYIP-QRP------- 554
Query: 80 NNLFSHLTVWQNIALGIAPNLRLD----HYQHAQVKQMLEKVFLEDFFNR---------F 126
S T+ I I P+ Y ++ +L+ V LE R +
Sbjct: 555 --YMSGGTLRDQI---IYPDSSEQMKRKGYTDQDLEAILDIVHLEHILQREGGWDAVRDW 609
Query: 127 PSQMSGGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMI 186
+SGG++QR+ +AR + LLDE + + +I K ++LL I
Sbjct: 610 KDVLSGGEKQRMGMARMFYHRPKYALLDECTSAVSIDVEGKIFQAAKDA----GISLLSI 665
Query: 187 SH 188
+H
Sbjct: 666 TH 667
>gnl|CDD|72997 cd03238, ABC_UvrA, The excision repair protein UvrA; Nucleotide
excision repair in eubacteria is a process that repairs
DNA damage by the removal of a 12-13-mer oligonucleotide
containing the lesion. Recognition and cleavage of the
damaged DNA is a multistep ATP-dependent reaction that
requires the UvrA, UvrB, and UvrC proteins. Both UvrA
and UvrB are ATPases, with UvrA having two ATP binding
sites, which have the characteristic signature of the
family of ABC proteins, and UvrB having one ATP binding
site that is structurally related to that of helicases..
Length = 176
Score = 43.7 bits (103), Expect = 5e-05
Identities = 48/202 (23%), Positives = 79/202 (39%), Gaps = 48/202 (23%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILFQ 78
D + +V+ G SG+GKSTL++ G + + S+ L + Q
Sbjct: 15 DVSIPLNVLVVVTGVSGSGKSTLVN--EGLYASGKARL-----ISFLPKFSRNKLIFIDQ 67
Query: 79 ENNLFSHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQMSGGQRQRV 138
L I +G+ L L + S +SGG+ QRV
Sbjct: 68 LQFL---------IDVGLG-YLTL---------------------GQKLSTLSGGELQRV 96
Query: 139 ALARCLIRQKP--ILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSMQI 196
LA L + P + +LDEP +++L ++K + D T+++I HN D +
Sbjct: 97 KLASELFSEPPGTLFILDEPSTGLHQQDINQLLEVIKGLIDLGN-TVILIEHN-LDVLSS 154
Query: 197 ATRFIVIA------GGQIVYDG 212
A I GG++V+ G
Sbjct: 155 ADWIIDFGPGSGKSGGKVVFSG 176
>gnl|CDD|73029 cd03270, ABC_UvrA_I, The excision repair protein UvrA domain I;
Nucleotide excision repair in eubacteria is a process
that repairs DNA damage by the removal of a 12-13-mer
oligonucleotide containing the lesion. Recognition and
cleavage of the damaged DNA is a multistep ATP-dependent
reaction that requires the UvrA, UvrB, and UvrC
proteins. Both UvrA and UvrB are ATPases, with UvrA
having two ATP binding sites, which have the
characteristic signature of the family of ABC proteins,
and UvrB having one ATP binding site that is
structurally related to that of helicases..
Length = 226
Score = 42.9 bits (101), Expect = 8e-05
Identities = 58/233 (24%), Positives = 99/233 (42%), Gaps = 49/233 (21%)
Query: 13 NLKMQFDFQVNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQ---NHTRSSPS 69
NLK D + + + +VI G SG+GKS+L F +I+ GQ + S+ +
Sbjct: 10 NLK-NVDVDIPRNKLVVITGVSGSGKSSL-----AF-----DTIYAEGQRRYVESLSAYA 58
Query: 70 KRPLSILFQEN-----NLFSHLTVWQNIA-----------LGIAPNLRLDHYQHAQVKQM 113
++ L + + + L + + Q I LRL + +++
Sbjct: 59 RQFLGQMDKPDVDSIEGLSPAIAIDQKTTSRNPRSTVGTVTEIYDYLRL-LFARVGIRER 117
Query: 114 LEKVFLEDF------FNRFPSQMSGGQRQRVALARCLIRQ--KPILLLDEPFAVFDPALR 165
L FL D +R +SGG+ QR+ LA + + +LDEP P
Sbjct: 118 LG--FLVDVGLGYLTLSRSAPTLSGGEAQRIRLATQIGSGLTGVLYVLDEPSIGLHPRDN 175
Query: 166 HEILGLLKQVCDERQLTLLMISHNLEDSMQIATRFIVIA------GGQIVYDG 212
++ LK++ D T+L++ H+ ED+++ A I I GG+IV G
Sbjct: 176 DRLIETLKRLRDLGN-TVLVVEHD-EDTIRAADHVIDIGPGAGVHGGEIVAQG 226
>gnl|CDD|177053 CHL00131, ycf16, sulfate ABC transporter protein; Validated.
Length = 252
Score = 42.3 bits (100), Expect = 1e-04
Identities = 20/57 (35%), Positives = 31/57 (54%), Gaps = 6/57 (10%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFKYP----TRGSIFLNGQNHTRSSPSKR 71
+ +NK E I+GP+G+GKSTL ++AG +P G I G++ P +R
Sbjct: 27 NLSINKGEIHAIMGPNGSGKSTLSKVIAG--HPAYKILEGDILFKGESILDLEPEER 81
>gnl|CDD|30768 COG0419, SbcC, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 908
Score = 41.2 bits (96), Expect = 2e-04
Identities = 23/86 (26%), Positives = 39/86 (45%), Gaps = 9/86 (10%)
Query: 125 RFPSQMSGGQRQ------RVALARCLIRQKPI--LLLDEPFAVFDPALRHEILGLLKQVC 176
R +SGG+R R+AL+ L + + L LDEPF D ++ +L+++
Sbjct: 811 RPIKTLSGGERFLASLALRLALSDLLQGRARLELLFLDEPFGTLDEERLEKLAEILEEL- 869
Query: 177 DERQLTLLMISHNLEDSMQIATRFIV 202
+++ISH E + R V
Sbjct: 870 LSDGRQIIIISHVEELKERADVRIRV 895
Score = 27.7 bits (61), Expect = 2.6
Identities = 9/14 (64%), Positives = 14/14 (100%)
Query: 29 VILGPSGAGKSTLL 42
+I+GP+GAGKS++L
Sbjct: 29 LIVGPNGAGKSSIL 42
>gnl|CDD|73030 cd03271, ABC_UvrA_II, The excision repair protein UvrA domain II;
Nucleotide excision repair in eubacteria is a process
that repairs DNA damage by the removal of a 12-13-mer
oligonucleotide containing the lesion. Recognition and
cleavage of the damaged DNA is a multistep ATP-dependent
reaction that requires the UvrA, UvrB, and UvrC
proteins. Both UvrA and UvrB are ATPases, with UvrA
having two ATP binding sites, which have the
characteristic signature of the family of ABC proteins
and UvrB having one ATP binding site that is
structurally related to that of helicases..
Length = 261
Score = 41.3 bits (97), Expect = 2e-04
Identities = 30/94 (31%), Positives = 52/94 (55%), Gaps = 11/94 (11%)
Query: 130 MSGGQRQRVALARCLIRQ---KPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMI 186
+SGG+ QR+ LA+ L ++ K + +LDEP ++L +L+++ D+ T+++I
Sbjct: 170 LSGGEAQRIKLAKELSKRSTGKTLYILDEPTTGLHFHDVKKLLEVLQRLVDKGN-TVVVI 228
Query: 187 SHNLEDSMQIATRFIVI------AGGQIVYDGDP 214
HNL D ++ A I + GGQ+V G P
Sbjct: 229 EHNL-DVIKCADWIIDLGPEGGDGGGQVVASGTP 261
Score = 26.3 bits (58), Expect = 7.4
Identities = 7/15 (46%), Positives = 11/15 (73%)
Query: 28 IVILGPSGAGKSTLL 42
+ G SG+GKS+L+
Sbjct: 24 TCVTGVSGSGKSSLI 38
>gnl|CDD|72986 cd03227, ABC_Class2, ABC-type Class 2 contains systems involved in
cellular processes other than transport. These families
are characterised by the fact that the ABC subunit is
made up of duplicated, fused ABC modules (ABC2). No
known transmembrane proteins or domains are associated
with these proteins..
Length = 162
Score = 37.6 bits (87), Expect = 0.003
Identities = 18/86 (20%), Positives = 39/86 (45%), Gaps = 6/86 (6%)
Query: 122 FFNRFPSQMSGGQRQRVALA----RCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCD 177
Q+SGG+++ ALA ++ +P+ +LDE DP + + +
Sbjct: 70 ELIFTRLQLSGGEKELSALALILALASLKPRPLYILDEIDRGLDPRDGQALAEAILEHLV 129
Query: 178 ERQLTLLMISHNLEDSMQIATRFIVI 203
+ +++I+H + ++A + I I
Sbjct: 130 K-GAQVIVITHL-PELAELADKLIHI 153
>gnl|CDD|36182 KOG0964, KOG0964, KOG0964, Structural maintenance of chromosome
protein 3 (sister chromatid cohesion complex Cohesin,
subunit SMC3) [Cell cycle control, cell division,
chromosome partitioning].
Length = 1200
Score = 36.1 bits (83), Expect = 0.008
Identities = 21/56 (37%), Positives = 28/56 (50%), Gaps = 4/56 (7%)
Query: 129 QMSGGQRQRVALARCLIRQK----PILLLDEPFAVFDPALRHEILGLLKQVCDERQ 180
Q+SGGQ+ VALA Q+ P L DE A D R + L+K++ D Q
Sbjct: 1097 QLSGGQKSVVALALIFAIQRCDPAPFYLFDEIDAALDAQYRTAVADLIKELSDSAQ 1152
>gnl|CDD|73031 cd03272, ABC_SMC3_euk, Eukaryotic SMC3 proteins; SMC proteins are
large (approximately 110 to 170 kDa), and each is
arranged into five recognizable domains. Amino-acid
sequence homology of SMC proteins between species is
largely confined to the amino- and carboxy-terminal
globular domains. The amino-terminal domain contains a
'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the
single-letter amino-acid code), which by mutational
studies has been shown to be essential in several
proteins. The carboxy-terminal domain contains a
sequence (the DA-box) that resembles a 'Walker B' motif,
and a motif with homology to the signature sequence of
the ATP-binding cassette (ABC) family of ATPases. The
sequence homology within the carboxy-terminal domain is
relatively high within the SMC1-SMC4 group, whereas SMC5
and SMC6 show some divergence in both of these
sequences. In eukaryotic cells, the proteins are found
as heterodimers of SMC1 paired with SMC3, SMC2 with
SMC4, and SMC5 with SMC6 (formerly known as Rad18)..
Length = 243
Score = 35.6 bits (82), Expect = 0.012
Identities = 21/56 (37%), Positives = 28/56 (50%), Gaps = 4/56 (7%)
Query: 129 QMSGGQRQRVALARCLIRQK----PILLLDEPFAVFDPALRHEILGLLKQVCDERQ 180
Q+SGGQ+ VALA QK P L DE A D R + ++K++ D Q
Sbjct: 158 QLSGGQKSLVALALIFAIQKCDPAPFYLFDEIDAALDAQYRTAVANMIKELSDGAQ 213
>gnl|CDD|73037 cd03278, ABC_SMC_barmotin, Barmotin is a tight junction-associated
protein expressed in rat epithelial cells which is
thought to have an important regulatory role in tight
junction barrier function. Barmotin belongs to the SMC
protein family. SMC proteins are large (approximately
110 to 170 kDa), and each is arranged into five
recognizable domains. Amino-acid sequence homology of
SMC proteins between species is largely confined to the
amino- and carboxy-terminal globular domains. The
amino-terminal domain contains a 'Walker A'
nucleotide-binding domain (GxxGxGKS/T, in the
single-letter amino-acid code), which by mutational
studies has been shown to be essential in several
proteins. The carboxy-terminal domain contains a
sequence (the DA-box) that resembles a 'Walker B' motif,
and a motif with homology to the signature sequence of
the ATP-binding cassette (ABC) family of ATPases. The
sequence homology within the carboxy-terminal domain is
relatively high within the SMC1-SMC4 group, whereas SMC5
and SMC6 show some divergence in both of these
sequences. In eukaryotic cells, the proteins are found
as heterodimers of SMC1 paired with SMC3, SMC2 with
SMC4, and SMC5 with SMC6 (formerly known as Rad18)..
Length = 197
Score = 35.0 bits (81), Expect = 0.019
Identities = 25/78 (32%), Positives = 37/78 (47%), Gaps = 7/78 (8%)
Query: 128 SQMSGGQRQRVALARC----LIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTL 183
S +SGG++ ALA +R P +LDE A D A LLK+ E Q
Sbjct: 112 SLLSGGEKALTALALLFAIFRVRPSPFCVLDEVDAALDDANVERFARLLKEFSKETQ--F 169
Query: 184 LMISHNLEDSMQIATRFI 201
++I+H + +M+ A R
Sbjct: 170 IVITHR-KGTMEAADRLY 186
>gnl|CDD|73180 cd00071, GMPK, Guanosine monophosphate kinase (GMPK, EC 2.7.4.8),
also known as guanylate kinase (GKase), catalyzes the
reversible phosphoryl transfer from adenosine
triphosphate (ATP) to guanosine monophosphate (GMP) to
yield adenosine diphosphate (ADP) and guanosine
diphosphate (GDP). It plays an essential role in the
biosynthesis of guanosine triphosphate (GTP). This
enzyme is also important for the activation of some
antiviral and anticancer agents, such as acyclovir,
ganciclovir, carbovir, and thiopurines..
Length = 137
Score = 34.7 bits (80), Expect = 0.021
Identities = 15/30 (50%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 28 IVILGPSGAGKSTLLS-LMAGFKYPTRGSI 56
IV+ GPSG GKSTLL L+ F S+
Sbjct: 2 IVLSGPSGVGKSTLLKRLLEEFDPNFGFSV 31
>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 = 34.0 bits (78), Expect = 0.031
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 20 FQVNKAERIVILGPSGAGKSTLLSLMA 46
V K +R+ I SG GKSTLL ++A
Sbjct: 64 LTVGKGQRLGIFAGSGVGKSTLLGMIA 90
>gnl|CDD|30909 COG0563, Adk, Adenylate kinase and related kinases [Nucleotide
transport and metabolism].
Length = 178
Score = 34.1 bits (78), Expect = 0.032
Identities = 13/15 (86%), Positives = 14/15 (93%)
Query: 27 RIVILGPSGAGKSTL 41
RI+ILGP GAGKSTL
Sbjct: 2 RILILGPPGAGKSTL 16
>gnl|CDD|143815 pfam00025, Arf, ADP-ribosylation factor family. Pfam combines a
number of different Prosite families together.
Length = 174
Score = 33.7 bits (78), Expect = 0.041
Identities = 14/32 (43%), Positives = 19/32 (59%), Gaps = 3/32 (9%)
Query: 11 YDNLKMQFDFQVNKAERIVILGPSGAGKSTLL 42
LK+ +NK RI+ILG AGK+T+L
Sbjct: 3 SILLKL---LGLNKEMRILILGLDNAGKTTIL 31
>gnl|CDD|31389 COG1196, Smc, Chromosome segregation ATPases [Cell division and
chromosome partitioning].
Length = 1163
Score = 33.8 bits (77), Expect = 0.041
Identities = 25/80 (31%), Positives = 41/80 (51%), Gaps = 7/80 (8%)
Query: 128 SQMSGGQRQRVALARCLIRQK----PILLLDEPFAVFDPALRHEILGLLKQVCDERQLTL 183
S +SGG++ ALA QK P +LDE A D A + L+K++ E Q
Sbjct: 1065 SLLSGGEKSLTALALLFAIQKYRPAPFYVLDEVDAALDDANVERVARLIKEMSKETQ--F 1122
Query: 184 LMISHNLEDSMQIATRFIVI 203
++I+H + +M+ A R + +
Sbjct: 1123 IVITHR-KGTMEAADRLVGV 1141
>gnl|CDD|31297 COG1100, COG1100, GTPase SAR1 and related small G proteins
[General function prediction only].
Length = 219
Score = 33.8 bits (76), Expect = 0.044
Identities = 12/26 (46%), Positives = 19/26 (73%)
Query: 27 RIVILGPSGAGKSTLLSLMAGFKYPT 52
+IV+LG G GK+TLL+ + G ++P
Sbjct: 7 KIVVLGDGGVGKTTLLNRLVGDEFPE 32
>gnl|CDD|73032 cd03273, ABC_SMC2_euk, Eukaryotic SMC2 proteins; SMC proteins are
large (approximately 110 to 170 kDa), and each is
arranged into five recognizable domains. Amino-acid
sequence homology of SMC proteins between species is
largely confined to the amino- and carboxy-terminal
globular domains. The amino-terminal domain contains a
'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the
single-letter amino-acid code), which by mutational
studies has been shown to be essential in several
proteins. The carboxy-terminal domain contains a
sequence (the DA-box) that resembles a 'Walker B' motif,
and a motif with homology to the signature sequence of
the ATP-binding cassette (ABC) family of ATPases. The
sequence homology within the carboxy-terminal domain is
relatively high within the SMC1-SMC4 group, whereas SMC5
and SMC6 show some divergence in both of these
sequences. In eukaryotic cells, the proteins are found
as heterodimers of SMC1 paired with SMC3, SMC2 with
SMC4, and SMC5 with SMC6 (formerly known as Rad18)..
Length = 251
Score = 33.3 bits (76), Expect = 0.056
Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 8/53 (15%)
Query: 128 SQMSGGQRQRVALARCLI------RQKPILLLDEPFAVFDPALRHEILGLLKQ 174
+++SGGQR VAL LI + P+ +LDE A D + I ++K
Sbjct: 165 TELSGGQRSLVAL--SLILALLLFKPAPMYILDEVDAALDLSHTQNIGRMIKT 215
>gnl|CDD|146027 pfam03193, DUF258, Protein of unknown function, DUF258.
Length = 161
Score = 32.9 bits (76), Expect = 0.074
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 28 IVILGPSGAGKSTLLSLMAG 47
V+ G SG GKSTLL+ +
Sbjct: 38 SVLAGQSGVGKSTLLNALLP 57
>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 = 32.5 bits (74), Expect = 0.093
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 24 KAERIVILGPSGAGKSTLLSLMAG 47
K + V++G SG GKSTL++ +
Sbjct: 160 KGKTSVLVGQSGVGKSTLINALLP 183
>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 = 32.7 bits (75), Expect = 0.097
Identities = 13/51 (25%), Positives = 22/51 (43%), Gaps = 2/51 (3%)
Query: 28 IVILGPSGAGKSTLLSLMAGFKYP-TRGSIFLNGQNHTRSSPSKRPLSILF 77
+++LGPS +GK+ L + + KY T SI N + +
Sbjct: 3 VLLLGPSDSGKTALFTKLTTGKYRSTVTSIEPN-VATFILNSEGKGKKFRL 52
>gnl|CDD|32040 COG1855, COG1855, ATPase (PilT family) [General function prediction
only].
Length = 604
Score = 32.5 bits (74), Expect = 0.100
Identities = 16/35 (45%), Positives = 21/35 (60%), Gaps = 1/35 (2%)
Query: 22 VNKAERIVILGPSGAGKSTLLSLMAGFKYPTRGSI 56
+AE I+I G GAGKST +A F Y ++G I
Sbjct: 260 EERAEGILIAGAPGAGKSTFAQALAEF-YASQGKI 293
>gnl|CDD|30631 COG0283, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 222
Score = 32.5 bits (74), Expect = 0.11
Identities = 14/33 (42%), Positives = 22/33 (66%), Gaps = 3/33 (9%)
Query: 28 IVILGPSGAGKSTLLSLMA---GFKYPTRGSIF 57
I I GP+G+GKST+ ++A GF Y G+++
Sbjct: 7 IAIDGPAGSGKSTVAKILAEKLGFHYLDTGAMY 39
>gnl|CDD|33254 COG3451, VirB4, Type IV secretory pathway, VirB4 components
[Intracellular trafficking and secretion].
Length = 796
Score = 32.2 bits (73), Expect = 0.11
Identities = 10/17 (58%), Positives = 14/17 (82%)
Query: 30 ILGPSGAGKSTLLSLMA 46
I+GP+GAGK+ LLS +
Sbjct: 441 IIGPTGAGKTVLLSFLL 457
>gnl|CDD|33697 COG3910, COG3910, Predicted ATPase [General function prediction
only].
Length = 233
Score = 32.2 bits (73), Expect = 0.12
Identities = 50/215 (23%), Positives = 73/215 (33%), Gaps = 57/215 (26%)
Query: 24 KAERIVILGPSGAGKSTLL-SLMAGFKYPTRGSIFLNGQNHTRSS-PSKRPLSILFQENN 81
+A I G +G+GKSTLL ++ AG + G G+N S L
Sbjct: 36 RAPITFITGENGSGKSTLLEAIAAGMGFNAAG----GGKNFKGELDASHSALV------- 84
Query: 82 LFSHLTVWQNIALGIAPNLRLDHYQHAQ----VKQMLEKVFLE-DFFNRFPSQMSGGQR- 135
L + + A+ V L++ E ++ R MS G+
Sbjct: 85 --------DYAKLHKRKKPPIGFFLRAESFYNVASYLDEADGEANYGGRSLHHMSHGESF 136
Query: 136 QRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSMQ 195
+ R + I +LDEP A P RQL LL I +L DS
Sbjct: 137 LAIFHNRF--NGQGIYILDEPEAALSP---------------SRQLELLAILRDLADS-- 177
Query: 196 IATRFIVIAGGQIVYDGDPDRLMNGLIPESTLLGI 230
G QI+ L+ IP + + I
Sbjct: 178 ---------GAQIIIATHSPILLA--IPGAEIYEI 201
>gnl|CDD|133364 cd04164, trmE, TrmE (MnmE, ThdF, MSS1) is a 3-domain protein
found in bacteria and eukaryotes. It controls
modification of the uridine at the wobble position
(U34) of tRNAs that read codons ending with A or G in
the mixed codon family boxes. TrmE contains a GTPase
domain that forms a canonical Ras-like fold. It
functions a molecular switch GTPase, and apparently
uses a conformational change associated with GTP
hydrolysis to promote the tRNA modification reaction,
in which the conserved cysteine in the C-terminal
domain is thought to function as a catalytic residue.
In bacteria that are able to survive in extremely low
pH conditions, TrmE regulates glutamate-dependent acid
resistance.
Length = 157
Score = 32.1 bits (74), Expect = 0.12
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 27 RIVILGPSGAGKSTLLSLMAG 47
++VI+G GKS+LL+ +AG
Sbjct: 3 KVVIVGKPNVGKSSLLNALAG 23
>gnl|CDD|39383 KOG4181, KOG4181, KOG4181, Uncharacterized conserved protein
[Function unknown].
Length = 491
Score = 32.0 bits (72), Expect = 0.13
Identities = 17/36 (47%), Positives = 20/36 (55%), Gaps = 5/36 (13%)
Query: 12 DNLKMQFDFQVNKAERIVILGPSGAGKSTLLSLMAG 47
L DF V I +LG G+GKSTLLSL+A
Sbjct: 180 KLLHKTTDFTV-----IGVLGGQGSGKSTLLSLLAA 210
>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 = 32.0 bits (73), Expect = 0.14
Identities = 15/33 (45%), Positives = 19/33 (57%), Gaps = 3/33 (9%)
Query: 27 RIVILGPSGAGKSTLLSLMA---GFKYPTRGSI 56
I I GP+G+GKST+ L+A G Y G I
Sbjct: 1 IIAIDGPAGSGKSTVAKLLAKKLGLPYLDTGGI 33
>gnl|CDD|37414 KOG2203, KOG2203, KOG2203, GTP-binding protein [General function
prediction only].
Length = 772
Score = 31.9 bits (72), Expect = 0.15
Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 5/44 (11%)
Query: 4 LDHLIYCYDNLKMQFDFQVNKAERIVILGPSGAGKSTLLSLMAG 47
LD+ C + V + ++G +GKSTLL+ + G
Sbjct: 21 LDYFQQCVGLRDCGLSYHV-----VAVMGSQSSGKSTLLNHLFG 59
>gnl|CDD|39108 KOG3905, KOG3905, KOG3905, Dynein light intermediate chain [Cell
motility].
Length = 473
Score = 31.9 bits (72), Expect = 0.15
Identities = 14/53 (26%), Positives = 32/53 (60%), Gaps = 4/53 (7%)
Query: 28 IVILGPSGAGKSTLLSLMAGFKYPTRGS----IFLNGQNHTRSSPSKRPLSIL 76
+++LG +G+GK++L+S + G + +GS ++L+ + R ++ + IL
Sbjct: 55 VLVLGDNGSGKTSLISKLQGSETVKKGSGLEYLYLHVHDEDRDDLTRCNVWIL 107
>gnl|CDD|31351 COG1157, FliI, Flagellar biosynthesis/type III secretory pathway
ATPase [Cell motility and secretion / Intracellular
trafficking and secretion].
Length = 441
Score = 31.7 bits (72), Expect = 0.16
Identities = 13/25 (52%), Positives = 16/25 (64%)
Query: 22 VNKAERIVILGPSGAGKSTLLSLMA 46
K +RI I SG GKSTLL ++A
Sbjct: 160 CGKGQRIGIFAGSGVGKSTLLGMIA 184
>gnl|CDD|31299 COG1102, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 179
Score = 31.8 bits (72), Expect = 0.17
Identities = 16/52 (30%), Positives = 25/52 (48%), Gaps = 10/52 (19%)
Query: 27 RIVILGPSGAGKSTLLSLMA---GFKYPTRGSIFLNGQNHTRSSPSKRPLSI 75
I I G G+GK+T+ +A G K + G+IF R +R +S+
Sbjct: 2 VITISGLPGSGKTTVARELAEHLGLKLVSAGTIF-------REMARERGMSL 46
>gnl|CDD|133370 cd04170, EF-G_bact, Elongation factor G (EF-G) subfamily.
Translocation is mediated by EF-G (also called
translocase). The structure of EF-G closely resembles
that of the complex between EF-Tu and tRNA. This is an
example of molecular mimicry; a protein domain evolved
so that it mimics the shape of a tRNA molecule. EF-G
in the GTP form binds to the ribosome, primarily
through the interaction of its EF-Tu-like domain with
the 50S subunit. The binding of EF-G to the ribosome
in this manner stimulates the GTPase activity of EF-G.
On GTP hydrolysis, EF-G undergoes a conformational
change that forces its arm deeper into the A site on
the 30S subunit. To accommodate this domain, the
peptidyl-tRNA in the A site moves to the P site,
carrying the mRNA and the deacylated tRNA with it. The
ribosome may be prepared for these rearrangements by
the initial binding of EF-G as well. The dissociation
of EF-G leaves the ribosome ready to accept the next
aminoacyl-tRNA into the A site. This group contains
only bacterial members.
Length = 268
Score = 31.8 bits (73), Expect = 0.17
Identities = 8/15 (53%), Positives = 12/15 (80%)
Query: 28 IVILGPSGAGKSTLL 42
I ++G SG+GK+TL
Sbjct: 2 IALVGHSGSGKTTLA 16
>gnl|CDD|30543 COG0194, Gmk, Guanylate kinase [Nucleotide transport and
metabolism].
Length = 191
Score = 31.3 bits (71), Expect = 0.21
Identities = 13/23 (56%), Positives = 16/23 (69%), Gaps = 1/23 (4%)
Query: 28 IVILGPSGAGKSTLLS-LMAGFK 49
IV+ GPSG GKSTL+ L+ K
Sbjct: 7 IVLSGPSGVGKSTLVKALLEDDK 29
>gnl|CDD|30833 COG0486, ThdF, Predicted GTPase [General function prediction only].
Length = 454
Score = 31.3 bits (71), Expect = 0.26
Identities = 13/45 (28%), Positives = 24/45 (53%), Gaps = 5/45 (11%)
Query: 3 KLDHLIYCYDNLKMQFDFQVNKAERIVILGPSGAGKSTLLSLMAG 47
+LD L+ K+ + + ++VI+G GKS+LL+ + G
Sbjct: 200 ELDELLATAKQGKI-----LREGLKVVIIGRPNVGKSSLLNALLG 239
>gnl|CDD|31356 COG1162, COG1162, Predicted GTPases [General function prediction
only].
Length = 301
Score = 31.0 bits (70), Expect = 0.27
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 29 VILGPSGAGKSTLLSLMAG 47
V+LG SG GKSTL++ +
Sbjct: 168 VLLGQSGVGKSTLINALLP 186
>gnl|CDD|35502 KOG0281, KOG0281, KOG0281, Beta-TrCP (transducin repeats
containing)/Slimb proteins [Function unknown].
Length = 499
Score = 31.1 bits (70), Expect = 0.29
Identities = 18/77 (23%), Positives = 30/77 (38%), Gaps = 6/77 (7%)
Query: 58 LNGQNHTRSSPSKRPLSILFQENN--LFSHLTVW-QNIALGIAPNL--RLDHYQHAQVKQ 112
NG + RP S +Q+ + W ++ + +L R+ HYQH +
Sbjct: 6 DNGTSSV-IVVRDRPSSCSYQKEKELCIKYFPQWSESDQVDFVEHLISRMCHYQHGHINN 64
Query: 113 MLEKVFLEDFFNRFPSQ 129
L+ + DF P Q
Sbjct: 65 YLKPMLQRDFITALPEQ 81
>gnl|CDD|35471 KOG0250, KOG0250, KOG0250, DNA repair protein RAD18 (SMC family
protein) [Replication, recombination and repair].
Length = 1074
Score = 30.7 bits (69), Expect = 0.35
Identities = 13/37 (35%), Positives = 23/37 (62%), Gaps = 5/37 (13%)
Query: 10 CYDNLKMQFDFQVNKAERIVILGPSGAGKSTLLSLMA 46
C+ NL ++F +VN I+G +G+GKS +L+ +
Sbjct: 52 CHSNLLIEFGPRVN-----FIVGNNGSGKSAILTALT 83
>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 = 30.5 bits (70), Expect = 0.44
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 27 RIVILGPSGAGKSTLLSLMA 46
RI I G SG GK+ LL ++A
Sbjct: 17 RIGIFGGSGTGKTVLLGMIA 36
>gnl|CDD|133365 cd04165, GTPBP1_like, GTPBP1-like. Mammalian GTP binding protein
1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and
CGP-1 are GTPases whose specific functions remain
unknown. In mouse, GTPBP1 is expressed in macrophages,
in smooth muscle cells of various tissues and in some
neurons of the cerebral cortex; GTPBP2 tissue
distribution appears to overlap that of GTPBP1. In
human leukemia and macrophage cell lines, expression of
both GTPBP1 and GTPBP2 is enhanced by interferon-gamma
(IFN-gamma). The chromosomal location of both genes
has been identified in humans, with GTPBP1 located in
chromosome 22q12-13.1 and GTPBP2 located in chromosome
6p21-12. Human glioblastoma multiforme (GBM), a
highly-malignant astrocytic glioma and the most common
cancer in the central nervous system, has been linked
to chromosomal deletions and a translocation on
chromosome 6. The GBM translocation results in a
fusion of GTPBP2 and PTPRZ1, a protein involved in
oligodendrocyte differentiation, recovery, and
survival. This fusion product may contribute to the
onset of GBM.
Length = 224
Score = 30.3 bits (69), Expect = 0.46
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 27 RIVILGPSGAGKSTLLS 43
R+ ++G AGKSTLL
Sbjct: 1 RVAVVGNVDAGKSTLLG 17
>gnl|CDD|36151 KOG0933, KOG0933, KOG0933, Structural maintenance of chromosome
protein 2 (chromosome condensation complex Condensin,
subunit E) [Chromatin structure and dynamics, Cell cycle
control, cell division, chromosome partitioning].
Length = 1174
Score = 30.3 bits (68), Expect = 0.48
Identities = 19/53 (35%), Positives = 27/53 (50%), Gaps = 8/53 (15%)
Query: 128 SQMSGGQRQRVALARCLI------RQKPILLLDEPFAVFDPALRHEILGLLKQ 174
S++SGGQR VAL LI + P+ +LDE A D + I ++K
Sbjct: 1081 SELSGGQRSLVAL--SLILAMLKFKPAPLYILDEVDAALDLSHTQNIGRMIKT 1131
>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 = 29.9 bits (68), Expect = 0.59
Identities = 9/20 (45%), Positives = 15/20 (75%)
Query: 22 VNKAERIVILGPSGAGKSTL 41
+ +AE +++LGP G GK+ L
Sbjct: 44 IEQAENLLLLGPPGVGKTHL 63
>gnl|CDD|33504 COG3709, COG3709, Uncharacterized component of phosphonate
metabolism [Inorganic ion transport and metabolism].
Length = 192
Score = 29.9 bits (67), Expect = 0.63
Identities = 11/16 (68%), Positives = 13/16 (81%)
Query: 28 IVILGPSGAGKSTLLS 43
I ++GPSGAGK TLL
Sbjct: 8 IAVVGPSGAGKDTLLD 23
>gnl|CDD|144080 pfam00350, Dynamin_N, Dynamin family.
Length = 168
Score = 29.9 bits (68), Expect = 0.64
Identities = 10/29 (34%), Positives = 16/29 (55%)
Query: 28 IVILGPSGAGKSTLLSLMAGFKYPTRGSI 56
I ++G AGKS++L+ + G RG
Sbjct: 1 IAVVGDQSAGKSSVLNALLGRDILPRGPG 29
>gnl|CDD|107274 cd06279, PBP1_LacI_like_3, Ligand-binding domain of uncharacterized
DNA-binding regulatory proteins that are members of the
LacI-GalR family of bacterial transcription repressors.
This group includes the ligand-binding domain of
uncharacterized DNA-binding regulatory proteins that are
members of the LacI-GalR family of bacterial
transcription repressors. The LacI-GalR family
repressors are composed of two functional domains: an
N-terminal HTH (helix-turn-helix) domain, which is
responsible for the DNA-binding specificity, and a
C-terminal ligand-binding domain, which is homologous to
the sugar-binding domain of ABC-type transport systems
that contain the type I periplasmic binding protein-like
fold. As also observed in the periplasmic binding
proteins, the C-terminal domain of the bacterial
transcription repressor undergoes a conformational
change upon ligand binding which in turn changes the DNA
binding affinity of the repressor.
Length = 283
Score = 29.9 bits (68), Expect = 0.64
Identities = 18/72 (25%), Positives = 29/72 (40%), Gaps = 13/72 (18%)
Query: 151 LLLDE--PFAVFDPALRHEILGLLKQVCDERQLTLLMISHNLEDSMQIATR------FIV 202
++L + +A DP + L + +V D + LL++ + EDS FIV
Sbjct: 4 VVLTDSLSYAFSDPVAS-QFLAGVAEVLDAAGVNLLLLPASSEDSDSALVVSALVDGFIV 62
Query: 203 IAGGQIVYDGDP 214
V DP
Sbjct: 63 YG----VPRDDP 70
>gnl|CDD|147025 pfam04665, Pox_A32, Poxvirus A32 protein. The A32 protein is
thought to be involved in viral DNA packaging.
Length = 241
Score = 29.7 bits (67), Expect = 0.65
Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 9/51 (17%)
Query: 9 YCYDNLKMQFDFQVNKAERIVILGPSGAGKST-LLSLMAGFKYPTRGSIFL 58
+ D+L R+ I+G SG+GK+T LLSL+ + IFL
Sbjct: 4 FDRDSLL-------AAPFRMAIVGGSGSGKTTYLLSLLRTLVRKFK-HIFL 46
>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 = 29.9 bits (68), Expect = 0.65
Identities = 12/35 (34%), Positives = 18/35 (51%), Gaps = 5/35 (14%)
Query: 28 IVILGPSGAGKSTL-----LSLMAGFKYPTRGSIF 57
I + GP G GKSTL +L+ P + S++
Sbjct: 1 IWLYGPPGCGKSTLAKYLARALLDHLGLPKKDSVY 35
>gnl|CDD|112137 pfam03308, ArgK, ArgK protein. The ArgK protein acts as an
ATPase enzyme and as a kinase, and phosphorylates
periplasmic binding proteins involved in the LAO
(lysine, arginine, ornithine)/AO transport systems.
Length = 267
Score = 29.6 bits (67), Expect = 0.65
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 24 KAERIVILGPSGAGKSTLLS 43
+A R+ I G GAGKSTL+
Sbjct: 28 RAHRVGITGVPGAGKSTLIE 47
>gnl|CDD|31532 COG1341, COG1341, Predicted GTPase or GTP-binding protein
[General function prediction only].
Length = 398
Score = 29.5 bits (66), Expect = 0.74
Identities = 9/24 (37%), Positives = 16/24 (66%)
Query: 23 NKAERIVILGPSGAGKSTLLSLMA 46
K ++++GP +GKSTL + +A
Sbjct: 71 GKVGVVMVVGPVDSGKSTLTTYLA 94
>gnl|CDD|133358 cd04158, ARD1, ARD1 subfamily. ARD1 (ADP-ribosylation factor
domain protein 1) is an unusual member of the Arf
family. In addition to the C-terminal Arf domain, ARD1
has an additional 46-kDa N-terminal domain that
contains a RING finger domain, two predicted B-Boxes,
and a coiled-coil protein interaction motif. This
domain belongs to the TRIM (tripartite motif) or RBCC
(RING, B-Box, coiled-coil) family. Like most Arfs, the
ARD1 Arf domain lacks detectable GTPase activity.
However, unlike most Arfs, the full-length ARD1 protein
has significant GTPase activity due to the GAP
(GTPase-activating protein) activity exhibited by the
46-kDa N-terminal domain. The GAP domain of ARD1 is
specific for its own Arf domain and does not bind other
Arfs. The rate of GDP dissociation from the ARD1 Arf
domain is slowed by the adjacent 15 amino acids, which
act as a GDI (GDP-dissociation inhibitor) domain. ARD1
is ubiquitously expressed in cells and localizes to the
Golgi and to the lysosomal membrane. Two Tyr-based
motifs in the Arf domain are responsible for Golgi
localization, while the GAP domain controls lysosomal
localization.
Length = 169
Score = 29.5 bits (66), Expect = 0.77
Identities = 13/32 (40%), Positives = 19/32 (59%), Gaps = 4/32 (12%)
Query: 27 RIVILGPSGAGKSTLLSLMAGFKY----PTRG 54
R+V LG GAGK+T+L + ++ PT G
Sbjct: 1 RVVTLGLDGAGKTTILFKLKQDEFMQPIPTIG 32
>gnl|CDD|35962 KOG0743, KOG0743, KOG0743, AAA+-type ATPase [Posttranslational
modification, protein turnover, chaperones].
Length = 457
Score = 29.5 bits (66), Expect = 0.78
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 32 GPSGAGKSTLLSLMAGF 48
GP G GKS+ ++ MA +
Sbjct: 242 GPPGTGKSSFIAAMANY 258
>gnl|CDD|133313 cd04113, Rab4, Rab4 subfamily. Rab4 has been implicated in
numerous functions within the cell. It helps regulate
endocytosis through the sorting, recycling, and
degradation of early endosomes. Mammalian Rab4 is
involved in the regulation of many surface proteins
including G-protein-coupled receptors, transferrin
receptor, integrins, and surfactant protein A.
Experimental data implicate Rab4 in regulation of the
recycling of internalized receptors back to the plasma
membrane. It is also believed to influence
receptor-mediated antigen processing in B-lymphocytes,
in calcium-dependent exocytosis in platelets, in
alpha-amylase secretion in pancreatic cells, and in
insulin-induced translocation of Glut4 from internal
vesicles to the cell surface. Rab4 is known to share
effector proteins with Rab5 and Rab11. 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 = 29.5 bits (67), Expect = 0.80
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 27 RIVILGPSGAGKSTLL 42
+ +I+G SG GKS LL
Sbjct: 2 KFIIIGSSGTGKSCLL 17
>gnl|CDD|73035 cd03276, ABC_SMC6_euk, Eukaryotic SMC6 proteins; SMC proteins are
large (approximately 110 to 170 kDa), and each is
arranged into five recognizable domains. Amino-acid
sequence homology of SMC proteins between species is
largely confined to the amino- and carboxy-terminal
globular domains. The amino-terminal domain contains a
'Walker A' nucleotide-binding domain (GxxGxGKS/T, in
the single-letter amino-acid code), which by mutational
studies has been shown to be essential in several
proteins. The carboxy-terminal domain contains a
sequence (the DA-box) that resembles a 'Walker B'
motif, and a motif with homology to the signature
sequence of the ATP-binding cassette (ABC) family of
ATPases. The sequence homology within the
carboxy-terminal domain is relatively high within the
SMC1-SMC4 group, whereas SMC5 and SMC6 show some
divergence in both of these sequences. In eukaryotic
cells, the proteins are found as heterodimers of SMC1
paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6
(formerly known as Rad18)..
Length = 198
Score = 29.4 bits (66), Expect = 0.81
Identities = 22/87 (25%), Positives = 40/87 (45%), Gaps = 21/87 (24%)
Query: 10 CYDNLKMQFDFQVNKAERIVILGPSGAGKSTLLS-LMAGF----KYPTRGS----IFLNG 60
C+ +L+++F +VN I+G +G+GKS +L+ L G RGS + +G
Sbjct: 11 CHRHLQIEFGPRVN-----FIVGNNGSGKSAILTALTIGLGGKASDTNRGSSLKDLIKDG 65
Query: 61 QNHTR-------SSPSKRPLSILFQEN 80
++ + PL +L Q+
Sbjct: 66 ESSAKITVTLKNQGLDANPLCVLSQDM 92
>gnl|CDD|33731 COG3950, COG3950, Predicted ATP-binding protein involved in
virulence [General function prediction only].
Length = 440
Score = 29.6 bits (66), Expect = 0.82
Identities = 10/26 (38%), Positives = 18/26 (69%)
Query: 17 QFDFQVNKAERIVILGPSGAGKSTLL 42
D ++E +I+GP+G+GK+T+L
Sbjct: 16 NLDITFGESETTIIVGPNGSGKTTVL 41
>gnl|CDD|144280 pfam00625, Guanylate_kin, Guanylate kinase.
Length = 182
Score = 29.6 bits (67), Expect = 0.84
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 28 IVILGPSGAGKSTLLS 43
IV+ GPSG GKS +
Sbjct: 4 IVLSGPSGVGKSHIKK 19
>gnl|CDD|31889 COG1703, ArgK, Putative periplasmic protein kinase ArgK and
related GTPases of G3E family [Amino acid transport and
metabolism].
Length = 323
Score = 29.5 bits (66), Expect = 0.89
Identities = 11/20 (55%), Positives = 12/20 (60%)
Query: 24 KAERIVILGPSGAGKSTLLS 43
A I I G GAGKSTL+
Sbjct: 50 NAHVIGITGVPGAGKSTLIE 69
>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 = 29.4 bits (66), Expect = 0.92
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 27 RIVILGPSGAGKSTLLSLMA 46
RI++LGP G+GK T +A
Sbjct: 1 RILLLGPPGSGKGTQAERLA 20
>gnl|CDD|133255 cd00879, Sar1, Sar1 subfamily. Sar1 is an essential component of
COPII vesicle coats involved in export of cargo from
the ER. The GTPase activity of Sar1 functions as a
molecular switch to control protein-protein and
protein-lipid interactions that direct vesicle budding
from the ER. Activation of the GDP to the GTP-bound
form of Sar1 involves the membrane-associated guanine
nucleotide exchange factor (GEF) Sec12. Sar1 is unlike
all Ras superfamily GTPases that use either myristoyl
or prenyl groups to direct membrane association and
function, in that Sar1 lacks such modification.
Instead, Sar1 contains a unique nine-amino-acid
N-terminal extension. This extension contains an
evolutionarily conserved cluster of bulky hydrophobic
amino acids, referred to as the Sar1-N-terminal
activation recruitment (STAR) motif. The STAR motif
mediates the recruitment of Sar1 to ER membranes and
facilitates its interaction with mammalian Sec12 GEF
leading to activation.
Length = 190
Score = 29.1 bits (66), Expect = 1.1
Identities = 13/32 (40%), Positives = 18/32 (56%), Gaps = 2/32 (6%)
Query: 11 YDNLKMQFDFQVNKAERIVILGPSGAGKSTLL 42
Y+ L + NK +I+ LG AGK+TLL
Sbjct: 7 YNVLSSLGLY--NKEAKILFLGLDNAGKTTLL 36
>gnl|CDD|145545 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain. This domain is
found at the N terminus of SMC proteins. The SMC
(structural maintenance of chromosomes) superfamily
proteins have ATP-binding domains at the N- and
C-termini, and two extended coiled-coil domains separated
by a hinge in the middle. The eukaryotic SMC proteins
form two kind of heterodimers: the SMC1/SMC3 and the
SMC2/SMC4 types. These heterodimers constitute an
essential part of higher order complexes, which are
involved in chromatin and DNA dynamics. This family also
includes the RecF and RecN proteins that are involved in
DNA metabolism and recombination.
Length = 1162
Score = 29.2 bits (65), Expect = 1.1
Identities = 25/80 (31%), Positives = 37/80 (46%), Gaps = 11/80 (13%)
Query: 128 SQMSGGQRQRVALARCLI------RQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQL 181
+SGG++ VALA LI R P LLDE A D + LK++ Q
Sbjct: 1077 DNLSGGEKTLVALA--LIFAIQKYRPAPFYLLDEIDAALDDQNVSRVANYLKELSKNAQ- 1133
Query: 182 TLLMISHNLEDSMQIATRFI 201
++IS E+ ++ A R +
Sbjct: 1134 -FIVISLR-EEMLEKADRLV 1151
>gnl|CDD|35926 KOG0707, KOG0707, KOG0707, Guanylate kinase [Nucleotide transport
and metabolism].
Length = 231
Score = 29.2 bits (65), Expect = 1.1
Identities = 17/41 (41%), Positives = 23/41 (56%), Gaps = 4/41 (9%)
Query: 28 IVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSP 68
IV+ GPSG GKSTLL + + G +F +HT +P
Sbjct: 40 IVLSGPSGVGKSTLLKRL--REEL--GGMFGFSVSHTTRTP 76
>gnl|CDD|37181 KOG1970, KOG1970, KOG1970, Checkpoint RAD17-RFC complex,
RAD17/RAD24 component [Energy production and conversion,
Replication, recombination and repair].
Length = 634
Score = 28.9 bits (64), Expect = 1.2
Identities = 11/32 (34%), Positives = 17/32 (53%), Gaps = 2/32 (6%)
Query: 17 QFDFQVNKAERIVIL--GPSGAGKSTLLSLMA 46
Q K ++L GPSG GKST + +++
Sbjct: 100 QVAEFTPKLGSRILLLTGPSGCGKSTTVKVLS 131
>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 = 29.0 bits (65), Expect = 1.2
Identities = 10/20 (50%), Positives = 15/20 (75%)
Query: 27 RIVILGPSGAGKSTLLSLMA 46
IV++G GAGK+T+ L+A
Sbjct: 1 NIVLIGMMGAGKTTVGRLLA 20
>gnl|CDD|34613 COG5008, PilU, Tfp pilus assembly protein, ATPase PilU [Cell
motility and secretion / Intracellular trafficking and
secretion].
Length = 375
Score = 28.8 bits (64), Expect = 1.3
Identities = 11/31 (35%), Positives = 21/31 (67%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMAGFK 49
D + K ++I+G +G+GKST ++ M G++
Sbjct: 121 DLALAKRGLVIIVGATGSGKSTTMAAMIGYR 151
>gnl|CDD|133250 cd00154, Rab, Rab family. Rab GTPases form the largest family
within the Ras superfamily. There are at least 60 Rab
genes in the human genome, and a number of Rab GTPases
are conserved from yeast to humans. Rab GTPases are
small, monomeric proteins that function as molecular
switches to regulate vesicle trafficking pathways. The
different Rab GTPases are localized to the cytosolic
face of specific intracellular membranes, where they
regulate distinct steps in membrane traffic pathways.
In the GTP-bound form, Rab GTPases recruit specific
sets of effector proteins onto membranes. Through their
effectors, Rab GTPases regulate vesicle formation,
actin- and tubulin-dependent vesicle movement, and
membrane fusion. 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 mask C-terminal lipid binding and promote
cytosolic localization. While most unicellular
organisms possess 5-20 Rab members, several have been
found to possess 60 or more Rabs; for many of these Rab
isoforms, homologous proteins are not found in other
organisms. 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. Since crystal structures often lack
C-terminal residues, the lipid modification site is not
available for annotation in many of the CDs in the
hierarchy, but is included where possible.
Length = 159
Score = 29.0 bits (66), Expect = 1.3
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 27 RIVILGPSGAGKSTLLS 43
+IV++G SG GK++LL
Sbjct: 2 KIVLIGDSGVGKTSLLL 18
>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 = 28.7 bits (64), Expect = 1.3
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 27 RIVILGPSGAGKSTLLSLMA 46
IV+ G GAGKSTL +A
Sbjct: 1 VIVVEGNIGAGKSTLAKELA 20
>gnl|CDD|35668 KOG0447, KOG0447, KOG0447, Dynamin-like GTP binding protein
[General function prediction only].
Length = 980
Score = 28.9 bits (64), Expect = 1.3
Identities = 19/48 (39%), Positives = 29/48 (60%), Gaps = 5/48 (10%)
Query: 27 RIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLS 74
R+V++G AGK+++L ++A + RGS G+ TR SP K LS
Sbjct: 310 RVVVVGDQSAGKTSVLEMIAQARIFPRGS----GEMMTR-SPVKVTLS 352
>gnl|CDD|147760 pfam05783, DLIC, Dynein light intermediate chain (DLIC). This
family consists of several eukaryotic dynein light
intermediate chain proteins. The light intermediate
chains (LICs) of cytoplasmic dynein consist of multiple
isoforms, which undergo post-translational modification
to produce a large number of species. DLIC1 is known to
be involved in assembly, organisation, and function of
centrosomes and mitotic spindles when bound to
pericentrin. DLIC2 is a subunit of cytoplasmic dynein 2
that may play a role in maintaining Golgi organisation
by binding cytoplasmic dynein 2 to its Golgi-associated
cargo.
Length = 490
Score = 28.7 bits (64), Expect = 1.3
Identities = 10/28 (35%), Positives = 21/28 (75%)
Query: 28 IVILGPSGAGKSTLLSLMAGFKYPTRGS 55
+++LG G+GK+TL++ + G ++P +G
Sbjct: 48 VLVLGEDGSGKTTLIAKLQGVEHPKKGR 75
>gnl|CDD|133293 cd01893, Miro1, Miro1 subfamily. Miro (mitochondrial Rho)
proteins have tandem GTP-binding domains separated by a
linker region containing putative calcium-binding EF
hand motifs. Genes encoding Miro-like proteins were
found in several eukaryotic organisms. This CD
represents the N-terminal GTPase domain of Miro
proteins. These atypical Rho GTPases have roles in
mitochondrial homeostasis and apoptosis. Most Rho
proteins contain a lipid modification site at the
C-terminus; however, Miro is one of few Rho subfamilies
that lack this feature.
Length = 166
Score = 28.8 bits (65), Expect = 1.4
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 27 RIVILGPSGAGKSTLLSLMAGFKYPT 52
RIV++G G GKS+L+ + ++P
Sbjct: 2 RIVLIGDEGVGKSSLIMSLVSEEFPE 27
>gnl|CDD|30194 cd02021, GntK, Gluconate kinase (GntK) catalyzes the phosphoryl
transfer from ATP to gluconate. The resulting product
gluconate-6-phoshate is an important precursor of
gluconate metabolism. GntK acts as a dimmer composed of
two identical subunits..
Length = 150
Score = 28.7 bits (64), Expect = 1.4
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 28 IVILGPSGAGKSTLLSLMA 46
IV++G SG+GKST+ +A
Sbjct: 2 IVVMGVSGSGKSTVGKALA 20
>gnl|CDD|133254 cd00878, Arf_Arl, Arf (ADP-ribosylation factor)/Arl (Arf-like)
small GTPases. Arf proteins are activators of
phospholipase D isoforms. Unlike Ras proteins they
lack cysteine residues at their C-termini and therefore
are unlikely to be prenylated. Arfs are N-terminally
myristoylated. Members of the Arf family are
regulators of vesicle formation in intracellular
traffic that interact reversibly with membranes of the
secretory and endocytic compartments in a GTP-dependent
manner. They depart from other small GTP-binding
proteins by a unique structural device, interswitch
toggle, that implements front-back communication from
N-terminus to the nucleotide binding site. Arf-like
(Arl) proteins are close relatives of the Arf, but only
Arl1 has been shown to function in membrane traffic
like the Arf proteins. Arl2 has an unrelated function
in the folding of native tubulin, and Arl4 may function
in the nucleus. Most other Arf family proteins are so
far relatively poorly characterized. Thus, despite
their significant sequence homologies, Arf family
proteins may regulate unrelated functions.
Length = 158
Score = 28.7 bits (65), Expect = 1.4
Identities = 11/16 (68%), Positives = 14/16 (87%)
Query: 27 RIVILGPSGAGKSTLL 42
RI+ILG GAGK+T+L
Sbjct: 1 RILILGLDGAGKTTIL 16
>gnl|CDD|36405 KOG1191, KOG1191, KOG1191, Mitochondrial GTPase [Translation,
ribosomal structure and biogenesis].
Length = 531
Score = 28.8 bits (64), Expect = 1.4
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 28 IVILGPSGAGKSTLLSLMA 46
I I+G GKS+LL+ ++
Sbjct: 271 IAIVGRPNVGKSSLLNALS 289
>gnl|CDD|133271 cd01868, Rab11_like, Rab11-like. Rab11a, Rab11b, and Rab25 are
closely related, evolutionary conserved Rab proteins
that are differentially expressed. Rab11a is
ubiquitously synthesized, Rab11b is enriched in brain
and heart and Rab25 is only found in epithelia.
Rab11/25 proteins seem to regulate recycling pathways
from endosomes to the plasma membrane and to the
trans-Golgi network. Furthermore, Rab11a is thought to
function in the histamine-induced fusion of
tubulovesicles containing H+, K+ ATPase with the plasma
membrane in gastric parietal cells and in
insulin-stimulated insertion of GLUT4 in the plasma
membrane of cardiomyocytes. Overexpression of Rab25 has
recently been observed in ovarian cancer and breast
cancer, and has been correlated with worsened outcomes
in both diseases. In addition, Rab25 overexpression has
also been observed in prostate cancer, transitional
cell carcinoma of the bladder, and invasive breast
tumor cells. 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 = 165
Score = 28.7 bits (65), Expect = 1.5
Identities = 11/17 (64%), Positives = 14/17 (82%)
Query: 27 RIVILGPSGAGKSTLLS 43
+IV++G SG GKS LLS
Sbjct: 5 KIVLIGDSGVGKSNLLS 21
>gnl|CDD|29620 cd01573, modD_like, ModD; Quinolinate phosphoribosyl transferase
(QAPRTase or QPRTase) present in some modABC operons in
bacteria, which are involved in molybdate transport. In
general, QPRTases are part of the de novo synthesis
pathway of NAD in both prokaryotes and eukaryotes. They
catalyse the reaction of quinolinic acid (QA) with
5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence
of Mg2+ to produce nicotinic acid mononucleotide (NAMN),
pyrophosphate and carbon dioxide..
Length = 272
Score = 28.7 bits (64), Expect = 1.6
Identities = 10/52 (19%), Positives = 20/52 (38%), Gaps = 6/52 (11%)
Query: 132 GGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTL 183
G R+ L+ + IL+ E A + L L+ E+++ +
Sbjct: 143 GAVPHRLGLS------ETILVFAEHRAFLGGPEPLKALARLRATAPEKKIVV 188
>gnl|CDD|31617 COG1428, COG1428, Deoxynucleoside kinases [Nucleotide transport
and metabolism].
Length = 216
Score = 28.7 bits (64), Expect = 1.6
Identities = 14/25 (56%), Positives = 16/25 (64%)
Query: 22 VNKAERIVILGPSGAGKSTLLSLMA 46
+N A IVI G GAGKSTL +A
Sbjct: 1 MNVAMVIVIEGMIGAGKSTLAQALA 25
>gnl|CDD|146080 pfam03266, DUF265, Protein of unknown function, DUF265.
Length = 168
Score = 28.3 bits (64), Expect = 1.6
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 27 RIVILGPSGAGKSTLL 42
RI I GP G GK+TL+
Sbjct: 1 RIFITGPPGVGKTTLV 16
>gnl|CDD|73295 cd02019, NK, Nucleoside/nucleotide kinase (NK) is a protein
superfamily consisting of multiple families of enzymes
that share structural similarity and are functionally
related to the catalysis of the reversible phosphate
group transfer from nucleoside triphosphates to
nucleosides/nucleotides, nucleoside monophosphates, or
sugars. Members of this family play a wide variety of
essential roles in nucleotide metabolism, the
biosynthesis of coenzymes and aromatic compounds, as
well as the metabolism of sugar and sulfate..
Length = 69
Score = 28.4 bits (63), Expect = 1.7
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 27 RIVILGPSGAGKSTLLSLMA 46
I I G SG+GKST+ +A
Sbjct: 1 IIAITGGSGSGKSTVAKKLA 20
>gnl|CDD|30190 cd01672, TMPK, Thymidine monophosphate kinase (TMPK), also known
as thymidylate kinase, catalyzes the phosphorylation of
thymidine monophosphate (TMP) to thymidine diphosphate
(TDP) utilizing ATP as its preferred phophoryl donor.
TMPK represents the rate-limiting step in either de
novo or salvage biosynthesis of thymidine triphosphate
(TTP)..
Length = 200
Score = 28.3 bits (63), Expect = 1.7
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 28 IVILGPSGAGKSTLLSLMA 46
IV G GAGK+TL+ L+A
Sbjct: 3 IVFEGIDGAGKTTLIELLA 21
>gnl|CDD|133302 cd04102, RabL3, RabL3 (Rab-like3) subfamily. RabL3s are novel
proteins that have high sequence similarity with Rab
family members, but display features that are distinct
from Rabs, and have been termed Rab-like. As in other
Rab-like proteins, RabL3 lacks a prenylation site at
the C-terminus. The specific function of RabL3 remains
unknown.
Length = 202
Score = 28.6 bits (64), Expect = 1.7
Identities = 9/20 (45%), Positives = 16/20 (80%)
Query: 27 RIVILGPSGAGKSTLLSLMA 46
R++++G SG GKS+L+ L+
Sbjct: 2 RVLVVGDSGVGKSSLVHLIC 21
>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 = 1.8
Identities = 16/61 (26%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 28 IVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILFQENNLFSHLT 87
+ ++GP G GKSTL+ + + T+ +I T S R ++ L ++L +
Sbjct: 72 VAVVGPPGTGKSTLIRSLV--RRFTKQTIDEIRGPITVVSGKTRRITFLECPSDLHQMID 129
Query: 88 V 88
V
Sbjct: 130 V 130
>gnl|CDD|29996 cd01130, VirB11-like_ATPase, Type IV secretory pathway component
VirB11, and related ATPases. The homohexamer, VirB11 is
one of eleven Vir proteins, which are required for
T-pilus biogenesis and virulence in the transfer of
T-DNA from the Ti (tumor-inducing) plasmid of bacterial
to plant cells. The pilus is a fibrous cell surface
organelle, which mediates adhesion between bacteria
during conjugative transfer or between bacteria and
host eukaryotic cells during infection. VirB11- related
ATPases include the archaeal flagella biosynthesis
protein and the pilus assembly proteins CpaF/TadA and
TrbB. This alignment contains the C-terminal domain,
which is the ATPase..
Length = 186
Score = 28.3 bits (63), Expect = 1.8
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 28 IVILGPSGAGKSTLLSLMAGF 48
I+I G +G+GK+TLL+ + F
Sbjct: 28 ILISGGTGSGKTTLLNALLAF 48
>gnl|CDD|36598 KOG1384, KOG1384, KOG1384, tRNA delta(2)-isopentenylpyrophosphate
transferase [Translation, ribosomal structure and
biogenesis].
Length = 348
Score = 28.4 bits (63), Expect = 1.9
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 24 KAERIVILGPSGAGKSTL 41
K + +VI+G +GAGKS L
Sbjct: 6 KDKVVVIMGATGAGKSRL 23
>gnl|CDD|72998 cd03239, ABC_SMC_head, The structural maintenance of chromosomes
(SMC) proteins are essential for successful chromosome
transmission during replication and segregation of the
genome in all organisms. SMCs are generally present as
single proteins in bacteria, and as at least six
distinct proteins in eukaryotes. The proteins range in
size from approximately 110 to 170 kDa, and each has
five distinct domains: amino- and carboxy-terminal
globular domains, which contain sequences characteristic
of ATPases, two coiled-coil regions separating the
terminal domains , and a central flexible hinge. SMC
proteins function together with other proteins in a
range of chromosomal transactions, including chromosome
condensation, sister-chromatid cohesion, recombination,
DNA repair, and epigenetic silencing of gene
expression..
Length = 178
Score = 28.3 bits (63), Expect = 2.0
Identities = 36/173 (20%), Positives = 63/173 (36%), Gaps = 49/173 (28%)
Query: 29 VILGPSGAGKSTLL-SLMAGFKYPT----RGSIFLNGQNHTRSSPSKRPLSILFQENNLF 83
I+GP+G+GKS ++ ++ RGS+ ++ + + I F ++
Sbjct: 26 AIVGPNGSGKSNIVDAICFVLGGKAAKLRRGSLLFLAGGGVKAGINSASVEITFDKSYFL 85
Query: 84 SHLTVWQNIALGIAPNLRLDHYQHAQVKQMLEKVFLEDFFNRFPSQMSGGQRQRVALARC 143
V Q +V+Q+L SGG++ ALA
Sbjct: 86 ----VLQ-----------------GKVEQIL----------------SGGEKSLSALALI 108
Query: 144 L----IRQKPILLLDEPFAVFDPALRHEILGLLK-QVCDERQLTLLMISHNLE 191
I+ P +LDE A DP R + ++K Q ++I+ E
Sbjct: 109 FALQEIKPSPFYVLDEIDAALDPTNRRRVSDMIKEMAKHTSQ--FIVITLKKE 159
>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 = 2.0
Identities = 13/30 (43%), Positives = 19/30 (63%), Gaps = 6/30 (20%)
Query: 14 LKMQFDFQVNKAERIVILGPSGAGKSTLLS 43
+K FDF I+++G SG GKSTL++
Sbjct: 41 MKTGFDFN------IMVVGQSGLGKSTLIN 64
>gnl|CDD|133351 cd04151, Arl1, Arl1 subfamily. Arl1 (Arf-like 1) localizes to
the Golgi complex, where it is believed to recruit
effector proteins to the trans-Golgi network. Like
most members of the Arf family, Arl1 is myristoylated
at its N-terminal helix and mutation of the
myristoylation site disrupts Golgi targeting. In
humans, the Golgi-localized proteins golgin-97 and
golgin-245 have been identified as Arl1 effectors.
Golgins are large coiled-coil proteins found in the
Golgi, and these golgins contain a C-terminal GRIP
domain, which is the site of Arl1 binding. Additional
Arl1 effectors include the GARP (Golgi-associated
retrograde protein)/VFT (Vps53) vesicle-tethering
complex and Arfaptin 2. Arl1 is not required for
exocytosis, but appears necessary for trafficking from
the endosomes to the Golgi. In Drosophila zygotes,
mutation of Arl1 is lethal, and in the host-bloodstream
form of Trypanosoma brucei, Arl1 is essential for
viability.
Length = 158
Score = 28.1 bits (63), Expect = 2.1
Identities = 10/16 (62%), Positives = 13/16 (81%)
Query: 27 RIVILGPSGAGKSTLL 42
RI+ILG AGK+T+L
Sbjct: 1 RILILGLDNAGKTTIL 16
>gnl|CDD|29833 cd01918, HprK_C, HprK/P, the bifunctional histidine-containing
protein kinase/phosphatase, controls the
phosphorylation state of the phosphocarrier protein HPr
and regulates the utilization of carbon sources by
gram-positive bacteria. It catalyzes both the
ATP-dependent phosphorylation of Ser-46 of HPr and its
dephosphorylation by phosphorolysis. The latter
reaction uses inorganic phosphate as substrate and
produces pyrophosphate. Phosphoenolpyruvate
carboxykinase (PEPCK) and the C-terminal catalytic
domain of HprK/P are structurally similar with
conserved active site residues suggesting these two
phosphotransferases have related functions. The HprK/P
N-terminal domain is structurally similar to the
N-terminal domains of the MurE and MurF amino acid
ligases..
Length = 149
Score = 28.3 bits (63), Expect = 2.1
Identities = 9/14 (64%), Positives = 11/14 (78%)
Query: 28 IVILGPSGAGKSTL 41
++I GPSG GKS L
Sbjct: 17 VLITGPSGIGKSEL 30
>gnl|CDD|35296 KOG0073, KOG0073, KOG0073, GTP-binding ADP-ribosylation
factor-like protein ARL2 [Intracellular trafficking,
secretion, and vesicular transport, Cytoskeleton].
Length = 185
Score = 27.9 bits (62), Expect = 2.2
Identities = 8/16 (50%), Positives = 13/16 (81%)
Query: 27 RIVILGPSGAGKSTLL 42
RI+ILG +GK+T++
Sbjct: 18 RILILGLDNSGKTTIV 33
>gnl|CDD|31673 COG1484, DnaC, DNA replication protein [DNA replication,
recombination, and repair].
Length = 254
Score = 28.0 bits (62), Expect = 2.2
Identities = 9/30 (30%), Positives = 14/30 (46%)
Query: 17 QFDFQVNKAERIVILGPSGAGKSTLLSLMA 46
+ E +V+LGP G GK+ L +
Sbjct: 97 SLVEFFERGENLVLLGPPGVGKTHLAIAIG 126
>gnl|CDD|111395 pfam02492, cobW, CobW/HypB/UreG, nucleotide-binding domain. This
domain is found in HypB, a hydrogenase expression /
formation protein, and UreG a urease accessory protein.
Both these proteins contain a P-loop nucleotide binding
motif. HypB has GTPase activity and is a guanine
nucleotide binding protein. It is not known whether
UreG binds GTP or some other nucleotide. Both enzymes
are involved in nickel binding. HypB can store nickel
and is required for nickel dependent hydrogenase
expression. UreG is required for functional
incorporation of the urease nickel metallocenter. GTP
hydrolysis may required by these proteins for nickel
incorporation into other nickel proteins. This family
of domains also contains P47K, a Pseudomonas
chlororaphis protein needed for nitrile hydratase
expression, and the cobW gene product, which may be
involved in cobalamin biosynthesis in Pseudomonas
denitrificans.
Length = 174
Score = 28.0 bits (63), Expect = 2.3
Identities = 8/16 (50%), Positives = 11/16 (68%)
Query: 27 RIVILGPSGAGKSTLL 42
V+ G G+GK+TLL
Sbjct: 2 VTVLTGFLGSGKTTLL 17
>gnl|CDD|35194 COG5635, COG5635, Predicted NTPase (NACHT family) [Signal
transduction mechanisms].
Length = 824
Score = 28.1 bits (62), Expect = 2.3
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 24 KAERIVILGPSGAGKSTLLSLMA 46
K +++ILG G+GK+T L +A
Sbjct: 221 KYAKLLILGAPGSGKTTFLQRLA 243
>gnl|CDD|34569 COG4962, CpaF, Flp pilus assembly protein, ATPase CpaF
[Intracellular trafficking and secretion].
Length = 355
Score = 28.0 bits (62), Expect = 2.4
Identities = 11/26 (42%), Positives = 18/26 (69%)
Query: 28 IVILGPSGAGKSTLLSLMAGFKYPTR 53
I+I G +G+GK+TLL+ ++GF
Sbjct: 176 ILISGGTGSGKTTLLNALSGFIDSDE 201
>gnl|CDD|73043 cd03284, ABC_MutS1, MutS1 homolog in eukaryotes. The MutS
protein initiates DNA mismatch repair by recognizing
mispaired and unpaired bases embedded in duplex DNA and
activating endo- and exonucleases to remove the
mismatch. Members of the MutS family possess
C-terminal domain with a conserved ATPase activity that
belongs to the ATP binding cassette (ABC) superfamily.
MutS homologs (MSH) have been identified in most
prokaryotic and all eukaryotic organisms examined.
Prokaryotes have two homologs (MutS1 and MutS2),
whereas seven MSH proteins (MSH1 to MSH7) have been
identified in eukaryotes. The homodimer MutS1 and
heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily
involved in mitotic mismatch repair, whereas MSH4-MSH5
is involved in resolution of Holliday junctions during
meiosis. All members of the MutS family contain the
highly conserved Walker A/B ATPase domain, and many
share a common mechanism of action. MutS1, MSH2-MSH3,
MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding
clamps, and recognition of specific DNA structures or
lesions results in ADP/ATP exchange..
Length = 216
Score = 27.9 bits (62), Expect = 2.4
Identities = 12/35 (34%), Positives = 23/35 (65%), Gaps = 7/35 (20%)
Query: 19 DFQVNKAERIVIL-GPSGAGKST------LLSLMA 46
D +++ +I+++ GP+ AGKST L++L+A
Sbjct: 23 DTELDPERQILLITGPNMAGKSTYLRQVALIALLA 57
>gnl|CDD|133261 cd01852, AIG1, AIG1 (avrRpt2-induced gene 1). This represents
Arabidoposis protein AIG1 that appears to be involved
in plant resistance to bacteria. The Arabidopsis
disease resistance gene RPS2 is involved in recognition
of bacterial pathogens carrying the avirulence gene
avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent
induction early after infection with Pseudomonas
syringae carrying avrRpt2. This subfamily also includes
IAN-4 protein, which has GTP-binding activity and
shares sequence homology with a novel family of
putative GTP-binding proteins: the immuno-associated
nucleotide (IAN) family. The evolutionary conservation
of the IAN family provides a unique example of a plant
pathogen response gene conserved in animals. The
IAN/IMAP subfamily has been proposed to regulate
apoptosis in vertebrates and angiosperm plants,
particularly in relation to cancer, diabetes, and
infections. The human IAN genes were renamed GIMAP
(GTPase of the immunity associated proteins).
Length = 196
Score = 27.9 bits (63), Expect = 2.6
Identities = 8/14 (57%), Positives = 12/14 (85%)
Query: 27 RIVILGPSGAGKST 40
R+V++G +GAGKS
Sbjct: 2 RLVLVGKTGAGKSA 15
>gnl|CDD|133348 cd04148, RGK, RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Kir)
subfamily of Ras GTPases are expressed in a
tissue-specific manner and are dynamically regulated by
transcriptional and posttranscriptional mechanisms in
response to environmental cues. RGK proteins bind to
the beta subunit of L-type calcium channels, causing
functional down-regulation of these voltage-dependent
calcium channels, and either termination of
calcium-dependent secretion or modulation of electrical
conduction and contractile function. Inhibition of
L-type calcium channels by Rem2 may provide a mechanism
for modulating calcium-triggered exocytosis in
hormone-secreting cells, and has been proposed to
influence the secretion of insulin in pancreatic beta
cells. RGK proteins also interact with and inhibit the
Rho/Rho kinase pathway to modulate remodeling of the
cytoskeleton. Two characteristics of RGK proteins
cited in the literature are N-terminal and C-terminal
extensions beyond the GTPase domain typical of Ras
superfamily members. The N-terminal extension is not
conserved among family members; the C-terminal
extension is reported to be conserved among the family
and lack the CaaX prenylation motif typical of
membrane-associated Ras proteins. However, a putative
CaaX motif has been identified in the alignment of the
C-terminal residues of this CD.
Length = 221
Score = 27.7 bits (62), Expect = 2.6
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 27 RIVILGPSGAGKSTLLSLMAG 47
R+V+LG G GKS+L S
Sbjct: 2 RVVMLGSPGVGKSSLASQFTS 22
>gnl|CDD|146043 pfam03215, Rad17, Rad17 cell cycle checkpoint protein.
Length = 490
Score = 27.7 bits (61), Expect = 2.6
Identities = 11/32 (34%), Positives = 21/32 (65%), Gaps = 1/32 (3%)
Query: 16 MQFDFQVNKAERIVIL-GPSGAGKSTLLSLMA 46
++ F + + I++L GPSG GKST + +++
Sbjct: 35 LKAVFLESNKQLILLLTGPSGCGKSTTVKVLS 66
>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 = 27.6 bits (62), Expect = 2.6
Identities = 12/30 (40%), Positives = 20/30 (66%), Gaps = 4/30 (13%)
Query: 28 IVILGPSGAGKSTLL-SLMAGFKYPTRGSI 56
+ ++GP G GK+TL+ SL+ K T+ +I
Sbjct: 42 VAVVGPPGVGKTTLIKSLV---KNYTKQNI 68
>gnl|CDD|30084 cd00124, MYSc, Myosin motor domain. This catalytic (head) domain
has ATPase activity and belongs to the larger group of
P-loop NTPases. Myosins are actin-dependent molecular
motors that play important roles in muscle contraction,
cell motility, and organelle transport. The head domain
is a molecular motor, which utilizes ATP hydrolysis to
generate directed movement toward the plus end along
actin filaments. A cyclical interaction between myosin
and actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle..
Length = 679
Score = 27.9 bits (62), Expect = 2.7
Identities = 9/38 (23%), Positives = 19/38 (50%)
Query: 8 IYCYDNLKMQFDFQVNKAERIVILGPSGAGKSTLLSLM 45
++ + + + + + I+I G SGAGK+ L+
Sbjct: 69 VFAIADRAYRNMLRDRRNQSIIISGESGAGKTENTKLI 106
>gnl|CDD|33698 COG3911, COG3911, Predicted ATPase [General function prediction
only].
Length = 183
Score = 27.7 bits (61), Expect = 2.7
Identities = 12/31 (38%), Positives = 19/31 (61%), Gaps = 2/31 (6%)
Query: 16 MQFDFQVNKAERIVILGPSGAGKSTLLSLMA 46
F N+ +R ++ G GAGK+TLL+ +A
Sbjct: 2 RVRPF--NRHKRFILTGGPGAGKTTLLAALA 30
>gnl|CDD|143853 pfam00071, Ras, Ras family. Includes sub-families Ras, Rab, Rac,
Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with
GTP_EFTU, arf and myosin_head. See pfam00009 pfam00025,
pfam00063. As regards Rab GTPases, these are important
regulators of vesicle formation, motility and fusion.
They share a fold in common with all Ras GTPases: this
is a six-stranded beta-sheet surrounded by five
alpha-helices.
Length = 162
Score = 27.9 bits (63), Expect = 2.8
Identities = 8/16 (50%), Positives = 13/16 (81%)
Query: 27 RIVILGPSGAGKSTLL 42
++V++G G GKS+LL
Sbjct: 1 KLVLVGDGGVGKSSLL 16
>gnl|CDD|35293 KOG0070, KOG0070, KOG0070, GTP-binding ADP-ribosylation factor
Arf1 [Intracellular trafficking, secretion, and
vesicular transport].
Length = 181
Score = 27.5 bits (61), Expect = 2.8
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 23 NKAERIVILGPSGAGKSTLL 42
K RI+++G AGK+T+L
Sbjct: 15 KKEMRILMVGLDAAGKTTIL 34
>gnl|CDD|133296 cd01896, DRG, The developmentally regulated GTP-binding protein
(DRG) subfamily is an uncharacterized member of the Obg
family, an evolutionary branch of GTPase superfamily
proteins. GTPases act as molecular switches regulating
diverse cellular processes. DRG2 and DRG1 comprise the
DRG subfamily in eukaryotes. In view of their
widespread expression in various tissues and high
conservation among distantly related species in
eukaryotes and archaea, DRG proteins may regulate
fundamental cellular processes. It is proposed that
the DRG subfamily proteins play their physiological
roles through RNA binding.
Length = 233
Score = 27.9 bits (63), Expect = 2.8
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 27 RIVILGPSGAGKSTLLSLMAG 47
R+ ++G GKSTLLS +
Sbjct: 2 RVALVGFPSVGKSTLLSKLTN 22
>gnl|CDD|35310 KOG0087, KOG0087, KOG0087, GTPase Rab11/YPT3, small G protein
superfamily [Intracellular trafficking, secretion, and
vesicular transport].
Length = 222
Score = 27.6 bits (61), Expect = 3.0
Identities = 14/46 (30%), Positives = 22/46 (47%), Gaps = 2/46 (4%)
Query: 27 RIVILGPSGAGKSTLLS--LMAGFKYPTRGSIFLNGQNHTRSSPSK 70
+IV++G S GKS LLS F ++ +I + T + K
Sbjct: 16 KIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGK 61
>gnl|CDD|36919 KOG1707, KOG1707, KOG1707, Predicted Ras related/Rac-GTP binding
protein [Defense mechanisms].
Length = 625
Score = 27.6 bits (61), Expect = 3.0
Identities = 8/26 (30%), Positives = 16/26 (61%)
Query: 27 RIVILGPSGAGKSTLLSLMAGFKYPT 52
RIV++G G GK++L+ + ++
Sbjct: 11 RIVLIGDEGVGKTSLIMSLLEEEFVD 36
Score = 26.9 bits (59), Expect = 5.1
Identities = 11/36 (30%), Positives = 16/36 (44%), Gaps = 4/36 (11%)
Query: 19 DFQVNKAERIV----ILGPSGAGKSTLLSLMAGFKY 50
D + + +R V ++GP GKS LL G
Sbjct: 415 DRKKKQTDRKVFQCFVVGPKNCGKSALLQSFLGRSM 450
>gnl|CDD|31829 COG1643, HrpA, HrpA-like helicases [DNA replication,
recombination, and repair].
Length = 845
Score = 27.6 bits (61), Expect = 3.1
Identities = 7/21 (33%), Positives = 16/21 (76%)
Query: 22 VNKAERIVILGPSGAGKSTLL 42
+ + + ++I+G +G+GK+T L
Sbjct: 62 IEQNQVVIIVGETGSGKTTQL 82
>gnl|CDD|146036 pfam03205, MobB, Molybdopterin guanine dinucleotide synthesis
protein B. This protein contains a P-loop.
Length = 122
Score = 27.7 bits (62), Expect = 3.2
Identities = 6/20 (30%), Positives = 14/20 (70%)
Query: 27 RIVILGPSGAGKSTLLSLMA 46
++++GP +GK+TL+ +
Sbjct: 2 IVLVVGPKDSGKTTLIRKLL 21
>gnl|CDD|30567 COG0218, COG0218, Predicted GTPase [General function prediction
only].
Length = 200
Score = 27.5 bits (61), Expect = 3.3
Identities = 10/28 (35%), Positives = 14/28 (50%)
Query: 28 IVILGPSGAGKSTLLSLMAGFKYPTRGS 55
I G S GKS+L++ + K R S
Sbjct: 27 IAFAGRSNVGKSSLINALTNQKNLARTS 54
>gnl|CDD|31609 COG1419, FlhF, Flagellar GTP-binding protein [Cell motility and
secretion].
Length = 407
Score = 27.6 bits (61), Expect = 3.3
Identities = 9/21 (42%), Positives = 15/21 (71%)
Query: 28 IVILGPSGAGKSTLLSLMAGF 48
I ++GP+G GK+T L+ +A
Sbjct: 206 IALVGPTGVGKTTTLAKLAAR 226
>gnl|CDD|34333 COG4717, COG4717, Uncharacterized conserved protein [Function
unknown].
Length = 984
Score = 27.3 bits (60), Expect = 3.5
Identities = 14/39 (35%), Positives = 20/39 (51%), Gaps = 2/39 (5%)
Query: 20 FQVNKAERIVILGPSGAGKSTLLSLMAG--FKYPTRGSI 56
F +++ VI G + AGKSTL S + F +PT
Sbjct: 19 FDFGESKFQVIYGENEAGKSTLFSFIHSMLFGFPTSSKY 57
>gnl|CDD|143847 pfam00063, Myosin_head, Myosin head (motor domain).
Length = 679
Score = 27.3 bits (61), Expect = 3.5
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 28 IVILGPSGAGKSTLLSLMAGF 48
IVI G SGAGK+ + +
Sbjct: 88 IVISGESGAGKTENTKKLMQY 108
>gnl|CDD|38564 KOG3354, KOG3354, KOG3354, Gluconate kinase [Carbohydrate
transport and metabolism].
Length = 191
Score = 27.3 bits (60), Expect = 3.5
Identities = 11/26 (42%), Positives = 18/26 (69%), Gaps = 3/26 (11%)
Query: 28 IVILGPSGAGKSTLLSLMA---GFKY 50
IV++G SG+GKST+ ++ G K+
Sbjct: 15 IVVMGVSGSGKSTIGKALSEELGLKF 40
>gnl|CDD|31564 COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 398
Score = 27.3 bits (60), Expect = 3.5
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 28 IVILGPSGAGKSTLLSLMA 46
I+ILGP GK+TLL L+
Sbjct: 40 ILILGPRQVGKTTLLKLLI 58
>gnl|CDD|32119 COG1936, COG1936, Predicted nucleotide kinase (related to CMP and
AMP kinases) [Nucleotide transport and metabolism].
Length = 180
Score = 27.5 bits (61), Expect = 3.6
Identities = 9/25 (36%), Positives = 12/25 (48%)
Query: 27 RIVILGPSGAGKSTLLSLMAGFKYP 51
I I G G GK+T+ L+ Y
Sbjct: 2 LIAITGTPGVGKTTVCKLLRELGYK 26
>gnl|CDD|133265 cd01862, Rab7, Rab7 subfamily. Rab7 is a small Rab GTPase that
regulates vesicular traffic from early to late
endosomal stages of the endocytic pathway. The yeast
Ypt7 and mammalian Rab7 are both involved in transport
to the vacuole/lysosome, whereas Ypt7 is also required
for homotypic vacuole fusion. Mammalian Rab7 is an
essential participant in the autophagic pathway for
sequestration and targeting of cytoplasmic components
to the lytic compartment. Mammalian Rab7 is also
proposed to function as a tumor suppressor. 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 = 172
Score = 27.2 bits (61), Expect = 3.8
Identities = 8/16 (50%), Positives = 14/16 (87%)
Query: 27 RIVILGPSGAGKSTLL 42
+++ILG SG GK++L+
Sbjct: 2 KVIILGDSGVGKTSLM 17
>gnl|CDD|30474 COG0125, Tmk, Thymidylate kinase [Nucleotide transport and
metabolism].
Length = 208
Score = 27.2 bits (60), Expect = 3.8
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 28 IVILGPSGAGKSTLLSLMA 46
IVI G GAGK+T L+
Sbjct: 6 IVIEGIDGAGKTTQAELLK 24
>gnl|CDD|73001 cd03242, ABC_RecF, RecF is a recombinational DNA repair ATPase that
maintains replication in the presence of DNA damage.
When replication is prematurely disrupted by DNA damage,
several recF pathway gene products play critical roles
processing the arrested replication fork, allowing it to
resume and complete its task. This CD represents the
nucleotide binding domain of RecF. RecF belongs to a
large superfamily of ABC transporters involved in the
transport of a wide variety of different compounds
including 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 with 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 = 270
Score = 27.1 bits (60), Expect = 4.1
Identities = 18/81 (22%), Positives = 31/81 (38%), Gaps = 19/81 (23%)
Query: 131 SGGQRQRVALA---------RCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQL 181
S GQ++ +ALA + + + P+LLLD+ A D + +L + + R
Sbjct: 185 SQGQQRTLALALKLAEIQLIKEVSGEYPVLLLDDVLAELDLGRQAALLDAI----EGRVQ 240
Query: 182 TLL------MISHNLEDSMQI 196
T + QI
Sbjct: 241 TFVTTTDLADFDALWLRRAQI 261
>gnl|CDD|39063 KOG3859, KOG3859, KOG3859, Septins (P-loop GTPases) [Cell cycle
control, cell division, chromosome partitioning].
Length = 406
Score = 27.3 bits (60), Expect = 4.3
Identities = 24/91 (26%), Positives = 41/91 (45%), Gaps = 15/91 (16%)
Query: 11 YDNLKMQFDFQVNKAER------IVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHT 64
+D+L Q VNK+ I+ +G +G GKSTL+ + K+ + S HT
Sbjct: 25 FDSLPDQL---VNKSVSQGFCFNILCVGETGLGKSTLMDTLFNTKFESEPS------THT 75
Query: 65 RSSPSKRPLSILFQENNLFSHLTVWQNIALG 95
+ + + QE+N+ LT+ + G
Sbjct: 76 LPNVKLQANTYELQESNVRLKLTIVDTVGFG 106
>gnl|CDD|100271 CHL00171, cpcB, phycocyanin beta subunit; Reviewed.
Length = 172
Score = 26.9 bits (59), Expect = 4.4
Identities = 16/41 (39%), Positives = 22/41 (53%), Gaps = 6/41 (14%)
Query: 194 MQIATRFI---VIAGGQIVYDGDPDRLMNGLIPESTLLGIP 231
M+I R++ +IAG V D DR +NGL LG+P
Sbjct: 86 MEIVLRYVSYAMIAGDSSVLD---DRCLNGLRETYQALGVP 123
>gnl|CDD|133258 cd00882, Ras_like_GTPase, Ras-like GTPase superfamily. The
Ras-like superfamily of small GTPases consists of
several families with an extremely high degree of
structural and functional similarity. The Ras
superfamily is divided into at least four families in
eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families.
This superfamily also includes proteins like the GTP
translation factors, Era-like GTPases, and G-alpha
chain of the heterotrimeric G proteins. Members of the
Ras superfamily regulate a wide variety of cellular
functions: the Ras family regulates gene expression,
the Rho family regulates cytoskeletal reorganization
and gene expression, the Rab and Sar1/Arf families
regulate vesicle trafficking, and the Ran family
regulates nucleocytoplasmic transport and microtubule
organization. The GTP translation factor family
regulate initiation, elongation, termination, and
release in translation, and the Era-like GTPase family
regulates cell division, sporulation, and DNA
replication. Members of the Ras superfamily are
identified by the GTP binding site, which is made up of
five characteristic sequence motifs, and the switch I
and switch II regions.
Length = 157
Score = 27.1 bits (60), Expect = 4.4
Identities = 7/14 (50%), Positives = 12/14 (85%)
Query: 30 ILGPSGAGKSTLLS 43
++G SG GK++LL+
Sbjct: 1 VVGDSGVGKTSLLN 14
>gnl|CDD|31307 COG1110, COG1110, Reverse gyrase [DNA replication, recombination,
and repair].
Length = 1187
Score = 27.2 bits (60), Expect = 4.4
Identities = 11/30 (36%), Positives = 18/30 (60%), Gaps = 6/30 (20%)
Query: 25 AERIV------ILGPSGAGKSTLLSLMAGF 48
A+R+V I+ P+G GK+T LM+ +
Sbjct: 91 AKRLVRGKSFAIIAPTGVGKTTFGLLMSLY 120
>gnl|CDD|35294 KOG0071, KOG0071, KOG0071, GTP-binding ADP-ribosylation factor
Arf6 (dArf3) [Intracellular trafficking, secretion, and
vesicular transport].
Length = 180
Score = 26.9 bits (59), Expect = 4.4
Identities = 11/21 (52%), Positives = 15/21 (71%)
Query: 23 NKAERIVILGPSGAGKSTLLS 43
NK RI++LG AGK+T+L
Sbjct: 15 NKEMRILMLGLDAAGKTTILY 35
>gnl|CDD|31047 COG0703, AroK, Shikimate kinase [Amino acid transport and
metabolism].
Length = 172
Score = 27.1 bits (60), Expect = 4.4
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 24 KAERIVILGPSGAGKSTLLSLMA 46
+ IV++G GAGKST+ +A
Sbjct: 1 RNMNIVLIGFMGAGKSTIGRALA 23
>gnl|CDD|145008 pfam01637, Arch_ATPase, Archaeal ATPase. This family contain a
conserved P-loop motif that is involved in binding ATP.
This family is almost exclusively found in
archaebacteria and particularly in Methanococcus
jannaschii that encodes sixteen members of this family.
Length = 223
Score = 26.9 bits (60), Expect = 4.5
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 28 IVILGPSGAGKSTLL 42
IV+ GP GK+ LL
Sbjct: 23 IVVYGPRRCGKTALL 37
>gnl|CDD|37984 KOG2773, KOG2773, KOG2773, Apoptosis antagonizing transcription
factor/protein transport protein [Transcription,
Intracellular trafficking, secretion, and vesicular
transport].
Length = 483
Score = 26.9 bits (59), Expect = 4.7
Identities = 15/48 (31%), Positives = 20/48 (41%), Gaps = 2/48 (4%)
Query: 48 FKYPTRGSIFLNGQNHTRSSPSKRPLSILFQE-NNLFSHLTVWQNIAL 94
KYP I +N + S KR L E N+L L ++N L
Sbjct: 258 TKYPNTTKI-VNAKKSFESGKFKRSLKEFSLEINSLDFFLLEYRNKVL 304
>gnl|CDD|30598 COG0249, MutS, Mismatch repair ATPase (MutS family) [DNA
replication, recombination, and repair].
Length = 843
Score = 26.8 bits (59), Expect = 4.8
Identities = 12/35 (34%), Positives = 19/35 (54%), Gaps = 7/35 (20%)
Query: 19 DFQVNKAERI-VILGPSGAGKST------LLSLMA 46
D ++ RI +I GP+ GKST L+ ++A
Sbjct: 600 DIDLSGNRRIILITGPNMGGKSTYLRQVALIVILA 634
>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 = 26.9 bits (60), Expect = 4.9
Identities = 7/16 (43%), Positives = 13/16 (81%)
Query: 27 RIVILGPSGAGKSTLL 42
+++ G +G+GK+TLL
Sbjct: 2 TVILQGEAGSGKTTLL 17
>gnl|CDD|31388 COG1195, RecF, Recombinational DNA repair ATPase (RecF pathway)
[DNA replication, recombination, and repair].
Length = 363
Score = 26.7 bits (59), Expect = 5.0
Identities = 11/33 (33%), Positives = 16/33 (48%), Gaps = 5/33 (15%)
Query: 10 CYDNLKMQFDFQVNKAERIVILGPSGAGKSTLL 42
Y L + VN V++G +G GK+ LL
Sbjct: 13 NYAELDLDLSPGVN-----VLVGENGQGKTNLL 40
>gnl|CDD|109493 pfam00437, GSPII_E, Type II/IV secretion system protein. This
family contains both type II and type IV pathway
secretion proteins from bacteria. VirB11 ATPase is a
subunit of the Agrobacterium tumefaciens transfer DNA
(T-DNA) transfer system, a type IV secretion pathway
required for delivery of T-DNA and effector proteins to
plant cells during infection.
Length = 283
Score = 26.8 bits (60), Expect = 5.1
Identities = 12/43 (27%), Positives = 20/43 (46%), Gaps = 5/43 (11%)
Query: 4 LDHLIYCYDNLKMQFDFQVNKAER----IVILGPSGAGKSTLL 42
LD L + +A + I++ G +G+GK+TLL
Sbjct: 115 LDDLGM-TGAFDADIAEFLRQAVQARGNILVSGGTGSGKTTLL 156
>gnl|CDD|114021 pfam05272, VirE, Virulence-associated protein E. This family
contains several bacterial virulence-associated protein
E like proteins.
Length = 198
Score = 27.0 bits (60), Expect = 5.2
Identities = 10/31 (32%), Positives = 16/31 (51%), Gaps = 6/31 (19%)
Query: 17 QFDFQVNKAERIVILGPSGAGKSTLLSLMAG 47
+FD +++ G G+GKST L + G
Sbjct: 50 KFDHV------LILQGAQGSGKSTFLKKLGG 74
>gnl|CDD|133256 cd00880, Era_like, Era (E. coli Ras-like protein)-like. This
family includes several distinct subfamilies
(TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that
generally show sequence conservation in the region
between the Walker A and B motifs (G1 and G3 box
motifs), to the exclusion of other GTPases. TrmE is
ubiquitous in bacteria and is a widespread
mitochondrial protein in eukaryotes, but is absent from
archaea. The yeast member of TrmE family, MSS1, is
involved in mitochondrial translation; bacterial
members are often present in translation-related
operons. FeoB represents an unusual adaptation of
GTPases for high-affinity iron (II) transport. YihA
(EngB) family of GTPases is typified by the E. coli
YihA, which is an essential protein involved in cell
division control. Era is characterized by a distinct
derivative of the KH domain (the pseudo-KH domain)
which is located C-terminal to the GTPase domain. EngA
and its orthologs are composed of two GTPase domains
and, since the sequences of the two domains are more
similar to each other than to other GTPases, it is
likely that an ancient gene duplication, rather than a
fusion of evolutionarily distinct GTPases, gave rise to
this family.
Length = 163
Score = 26.9 bits (60), Expect = 5.2
Identities = 7/13 (53%), Positives = 10/13 (76%)
Query: 30 ILGPSGAGKSTLL 42
+ G + AGKS+LL
Sbjct: 1 LFGRTNAGKSSLL 13
>gnl|CDD|35104 COG5545, COG5545, Predicted P-loop ATPase and inactivated
derivatives [General function prediction only].
Length = 517
Score = 27.0 bits (59), Expect = 5.3
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 28 IVILGPSGAGKSTLLSLMAG 47
+V+ GP G+ KST LS + G
Sbjct: 205 LVLEGPQGSHKSTFLSELFG 224
>gnl|CDD|31357 COG1163, DRG, Predicted GTPase [General function prediction
only].
Length = 365
Score = 26.7 bits (59), Expect = 5.5
Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 2/34 (5%)
Query: 18 FDFQVNK--AERIVILGPSGAGKSTLLSLMAGFK 49
F V K + ++G GKSTLL+ + K
Sbjct: 54 SGFAVKKSGDATVALVGFPSVGKSTLLNKLTNTK 87
>gnl|CDD|133362 cd04162, Arl9_Arfrp2_like, Arl9/Arfrp2-like subfamily. Arl9
(Arf-like 9) was first identified as part of the Human
Cancer Genome Project. It maps to chromosome 4q12 and
is sometimes referred to as Arfrp2 (Arf-related protein
2). This is a novel subfamily identified in human
cancers that is uncharacterized to date.
Length = 164
Score = 26.6 bits (59), Expect = 5.5
Identities = 9/20 (45%), Positives = 15/20 (75%)
Query: 28 IVILGPSGAGKSTLLSLMAG 47
I++LG GAGK++LL ++
Sbjct: 2 ILVLGLDGAGKTSLLHSLSS 21
>gnl|CDD|144409 pfam00800, PDT, Prephenate dehydratase. This protein is involved
in Phenylalanine biosynthesis. This protein catalyses
the decarboxylation of prephenate to phenylpyruvate.
Length = 181
Score = 26.7 bits (60), Expect = 5.6
Identities = 7/19 (36%), Positives = 13/19 (68%)
Query: 186 ISHNLEDSMQIATRFIVIA 204
++ N+ED+ TRF+V+
Sbjct: 159 LAENIEDNKNNTTRFLVLG 177
>gnl|CDD|133251 cd00157, Rho, Rho (Ras homology) family. Members of the Rho
family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB,
and Rop. There are 22 human Rho family members
identified currently. These proteins are all involved
in the reorganization of the actin cytoskeleton in
response to external stimuli. They also have roles in
cell transformation by Ras in cytokinesis, in focal
adhesion formation and in the stimulation of
stress-activated kinase. These various functions are
controlled through distinct effector proteins and
mediated through a GTP-binding/GTPase cycle involving
three classes of regulating proteins: GAPs
(GTPase-activating proteins), GEFs (guanine nucleotide
exchange factors), and GDIs (guanine nucleotide
dissociation inhibitors). Most Rho 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 Rho proteins. Since crystal structures often lack
C-terminal residues, this feature is not available for
annotation in many of the CDs in the hierarchy.
Length = 171
Score = 26.8 bits (60), Expect = 5.8
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 28 IVILGPSGAGKSTLLSLMAGFKYPT 52
IV++G GK+ LL K+PT
Sbjct: 3 IVVVGDGAVGKTCLLISYTTGKFPT 27
>gnl|CDD|36699 KOG1486, KOG1486, KOG1486, GTP-binding protein DRG2 (ODN
superfamily) [Signal transduction mechanisms].
Length = 364
Score = 26.8 bits (59), Expect = 5.9
Identities = 12/32 (37%), Positives = 18/32 (56%), Gaps = 2/32 (6%)
Query: 20 FQVNKA--ERIVILGPSGAGKSTLLSLMAGFK 49
F+V K+ R+ ++G GKSTLLS +
Sbjct: 55 FEVLKSGDARVALIGFPSVGKSTLLSKITSTH 86
>gnl|CDD|31353 COG1159, Era, GTPase [General function prediction only].
Length = 298
Score = 26.7 bits (59), Expect = 6.0
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 24 KAERIVILGPSGAGKSTLLSLMAGFK 49
K+ + I+G GKSTLL+ + G K
Sbjct: 5 KSGFVAIIGRPNVGKSTLLNALVGQK 30
>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 = 26.4 bits (58), Expect = 6.1
Identities = 34/177 (19%), Positives = 57/177 (32%), Gaps = 28/177 (15%)
Query: 24 KAERIVILGPSGAGKSTLLSLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILFQENNLF 83
K E I++ +G GK+T L A G + +L Q
Sbjct: 29 KGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTIS--LEEPVVRTARRLLGQYAGKR 86
Query: 84 SHLTVWQNI-----------ALGIAPNLRL-DHYQHAQVKQMLEKVFLEDFFNRFPSQMS 131
HL I L + D + + +LEKV R+ +
Sbjct: 87 LHLPDTVFIYTLEEFDAAFDEFEGTGRLFMYDSFGEYSMDSVLEKV-------RYMAVSH 139
Query: 132 GGQRQRVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQLTLLMISH 188
G Q +I I++ DE + + EI+ L+ E + + ++SH
Sbjct: 140 GIQ-------HIIIDNLSIMVSDERASGDERKALDEIMTKLRGFATEHGIHITLVSH 189
>gnl|CDD|144975 pfam01580, FtsK_SpoIIIE, FtsK/SpoIIIE family. FtsK has extensive
sequence similarity to wide variety of proteins from
prokaryotes and plasmids, termed the FtsK/SpoIIIE
family. This domain contains a putative ATP binding
P-loop motif. It is found in the FtsK cell division
protein from E. coli and the stage III sporulation
protein E SpoIIIE which has roles in regulation of
prespore specific gene expression in B. subtilis. A
mutation in FtsK causes a temperature sensitive block
in cell division and it is involved in peptidoglycan
synthesis or modification. The SpoIIIE protein is
implicated in intercellular chromosomal DNA transfer.
Length = 202
Score = 26.6 bits (59), Expect = 6.4
Identities = 10/29 (34%), Positives = 17/29 (58%), Gaps = 1/29 (3%)
Query: 20 FQVNKAERIVILGPSGAGKST-LLSLMAG 47
+ K ++I G +G+GKST L +L+
Sbjct: 33 ADLVKMPHLLIAGATGSGKSTFLNTLILS 61
>gnl|CDD|35299 KOG0076, KOG0076, KOG0076, GTP-binding ADP-ribosylation
factor-like protein yARL3 [Intracellular trafficking,
secretion, and vesicular transport].
Length = 197
Score = 26.4 bits (58), Expect = 6.6
Identities = 13/42 (30%), Positives = 18/42 (42%), Gaps = 8/42 (19%)
Query: 1 MIKLDHLIYCYDNLKMQFDFQVNKAERIVILGPSGAGKSTLL 42
M L +Y Y K + ++ILG AGK+T L
Sbjct: 1 MFTLMSGLYKYMFKKEDYS--------VLILGLDNAGKTTFL 34
>gnl|CDD|133329 cd04129, Rho2, Rho2 subfamily. Rho2 is a fungal GTPase that
plays a role in cell morphogenesis, control of cell
wall integrity, control of growth polarity, and
maintenance of growth direction. Rho2 activates the
protein kinase C homolog Pck2, and Pck2 controls Mok1,
the major (1-3) alpha-D-glucan synthase. Together with
Rho1 (RhoA), Rho2 regulates the construction of the
cell wall. Unlike Rho1, Rho2 is not an essential
protein, but its overexpression is lethal. Most Rho
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 proper intracellular
localization via membrane attachment. As with other
Rho family GTPases, the GDP/GTP cycling is regulated by
GEFs (guanine nucleotide exchange factors), GAPs
(GTPase-activating proteins) and GDIs (guanine
nucleotide dissociation inhibitors).
Length = 187
Score = 26.3 bits (58), Expect = 6.9
Identities = 9/26 (34%), Positives = 17/26 (65%)
Query: 27 RIVILGPSGAGKSTLLSLMAGFKYPT 52
++VI+G GK++LLS+ ++P
Sbjct: 3 KLVIVGDGACGKTSLLSVFTLGEFPE 28
>gnl|CDD|133259 cd01850, CDC_Septin, CDC/Septin. Septins are a conserved family
of GTP-binding proteins associated with diverse
processes in dividing and non-dividing cells. They
were first discovered in the budding yeast S.
cerevisiae as a set of genes (CDC3, CDC10, CDC11 and
CDC12) required for normal bud morphology. Septins are
also present in metazoan cells, where they are required
for cytokinesis in some systems, and implicated in a
variety of other processes involving organization of
the cell cortex and exocytosis. In humans, 12 septin
genes generate dozens of polypeptides, many of which
comprise heterooligomeric complexes. Since septin
mutants are commonly defective in cytokinesis and
formation of the neck formation of the neck
filaments/septin rings, septins have been considered to
be the primary constituents of the neck filaments.
Septins belong to the GTPase superfamily for their
conserved GTPase motifs and enzymatic activities.
Length = 276
Score = 26.3 bits (59), Expect = 6.9
Identities = 16/62 (25%), Positives = 30/62 (48%), Gaps = 2/62 (3%)
Query: 28 IVILGPSGAGKSTLL-SLMAGFKYPTRGSIFLNGQNHTRSSPSKRPLSILFQENNLFSHL 86
I+++G SG GKST + +L P+ ++ ++ K + + +EN + L
Sbjct: 7 IMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEI-EENGVKLKL 65
Query: 87 TV 88
TV
Sbjct: 66 TV 67
>gnl|CDD|35313 KOG0090, KOG0090, KOG0090, Signal recognition particle receptor,
beta subunit (small G protein superfamily)
[Intracellular trafficking, secretion, and vesicular
transport].
Length = 238
Score = 26.5 bits (58), Expect = 7.0
Identities = 12/38 (31%), Positives = 23/38 (60%), Gaps = 1/38 (2%)
Query: 20 FQVNKAERIVILGPSGAGKSTLLS-LMAGFKYPTRGSI 56
F+ +K ++++G S +GK++L + L+ G T SI
Sbjct: 33 FRRSKQNAVLLVGLSDSGKTSLFTQLITGSHRGTVTSI 70
>gnl|CDD|73042 cd03283, ABC_MutS-like, MutS-like homolog in eukaryotes. The
MutS protein initiates DNA mismatch repair by
recognizing mispaired and unpaired bases embedded in
duplex DNA and activating endo- and exonucleases to
remove the mismatch. Members of the MutS family
possess C-terminal domain with a conserved ATPase
activity that belongs to the ATP binding cassette (ABC)
superfamily. MutS homologs (MSH) have been identified
in most prokaryotic and all eukaryotic organisms
examined. Prokaryotes have two homologs (MutS1 and
MutS2), whereas seven MSH proteins (MSH1 to MSH7) have
been identified in eukaryotes. The homodimer MutS1 and
heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily
involved in mitotic mismatch repair, whereas MSH4-MSH5
is involved in resolution of Holliday junctions during
meiosis. All members of the MutS family contain the
highly conserved Walker A/B ATPase domain, and many
share a common mechanism of action. MutS1, MSH2-MSH3,
MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding
clamps, and recognition of specific DNA structures or
lesions results in ADP/ATP exchange..
Length = 199
Score = 26.4 bits (58), Expect = 7.0
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 19 DFQVNKAERIVILGPSGAGKSTLLSLMA 46
D + K I+I G + +GKST L +
Sbjct: 19 DIDMEKKNGILITGSNMSGKSTFLRTIG 46
>gnl|CDD|29997 cd01131, PilT, Pilus retraction ATPase PilT. PilT is a nucleotide
binding protein responsible for the retraction of type
IV pili, likely by pili disassembly. This retraction
provides the force required for travel of bacteria in
low water environments by a mechanism known as
twitching motility..
Length = 198
Score = 26.3 bits (58), Expect = 7.1
Identities = 9/21 (42%), Positives = 16/21 (76%)
Query: 28 IVILGPSGAGKSTLLSLMAGF 48
+++ GP+G+GKST L+ M +
Sbjct: 4 VLVTGPTGSGKSTTLAAMIDY 24
>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 = 26.3 bits (58), Expect = 7.1
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 28 IVILGPSGAGKSTLLSLMA 46
+++ GP G GK+TL +A
Sbjct: 22 LLLYGPPGTGKTTLARAIA 40
>gnl|CDD|133252 cd00876, Ras, Ras family. The Ras family of the Ras superfamily
includes classical N-Ras, H-Ras, and K-Ras, as well as
R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1,
RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins
regulate cell growth, proliferation and
differentiation. Ras is activated by guanine
nucleotide exchange factors (GEFs) that release GDP and
allow GTP binding. Many RasGEFs have been identified.
These are sequestered in the cytosol until activation
by growth factors triggers recruitment to the plasma
membrane or Golgi, where the GEF colocalizes with Ras.
Active GTP-bound Ras interacts with several effector
proteins: among the best characterized are the Raf
kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs
and NORE/MST1. 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 = 160
Score = 26.3 bits (59), Expect = 7.2
Identities = 7/15 (46%), Positives = 11/15 (73%)
Query: 27 RIVILGPSGAGKSTL 41
++V+LG G GKS +
Sbjct: 1 KVVVLGAGGVGKSAI 15
>gnl|CDD|144180 pfam00488, MutS_V, MutS domain V. This domain is found in
proteins of the MutS family (DNA mismatch repair
proteins) and is found associated with pfam01624,
pfam05188, pfam05192 and pfam05190. The mutS family of
proteins is named after the Salmonella typhimurium MutS
protein involved in mismatch repair; other members of
the family included the eukaryotic MSH 1,2,3, 4,5 and 6
proteins. These have various roles in DNA repair and
recombination. Human MSH has been implicated in
non-polyposis colorectal carcinoma (HNPCC) and is a
mismatch binding protein. The aligned region
corresponds with domain V of Thermus aquaticus MutS,
which contains a Walker A motif, and is structurally
similar to the ATPase domain of ABC transporters.
Length = 234
Score = 26.4 bits (59), Expect = 7.3
Identities = 10/25 (40%), Positives = 15/25 (60%), Gaps = 6/25 (24%)
Query: 28 IVILGPSGAGKST------LLSLMA 46
++I GP+ GKST L+ +MA
Sbjct: 45 LLITGPNMGGKSTYLRQVALIVIMA 69
>gnl|CDD|36180 KOG0962, KOG0962, KOG0962, DNA repair protein RAD50, ABC-type
ATPase/SMC superfamily [Replication, recombination and
repair].
Length = 1294
Score = 26.4 bits (58), Expect = 7.7
Identities = 23/79 (29%), Positives = 37/79 (46%), Gaps = 11/79 (13%)
Query: 131 SGGQRQ------RVALARCLIRQKPILLLDEPFAVFDPALRHEILGLLKQVCDERQ---- 180
S GQ+ R+ALA +L LDEP D + L ++ +ER+
Sbjct: 1185 SAGQKVLASLIIRLALAETFGSNCGVLALDEPTTNLDRENIESLAKALSRIIEERRRQRN 1244
Query: 181 LTLLMISHNLEDSMQIATR 199
L++I+H+ ED +Q+ R
Sbjct: 1245 FQLIVITHD-EDFVQLLGR 1262
>gnl|CDD|32636 COG2805, PilT, Tfp pilus assembly protein, pilus retraction ATPase
PilT [Cell motility and secretion / Intracellular
trafficking and secretion].
Length = 353
Score = 26.4 bits (58), Expect = 7.8
Identities = 10/18 (55%), Positives = 15/18 (83%)
Query: 28 IVILGPSGAGKSTLLSLM 45
I++ GP+G+GKST L+ M
Sbjct: 128 ILVTGPTGSGKSTTLAAM 145
>gnl|CDD|38288 KOG3078, KOG3078, KOG3078, Adenylate kinase [Nucleotide transport
and metabolism].
Length = 235
Score = 26.1 bits (57), Expect = 7.9
Identities = 11/30 (36%), Positives = 14/30 (46%)
Query: 17 QFDFQVNKAERIVILGPSGAGKSTLLSLMA 46
FD K R V+LG G+GK T +
Sbjct: 7 GFDEDEKKGVRAVLLGAPGSGKGTQAPRLT 36
>gnl|CDD|36637 KOG1423, KOG1423, KOG1423, Ras-like GTPase ERA [Cell cycle
control, cell division, chromosome partitioning, Signal
transduction mechanisms].
Length = 379
Score = 26.1 bits (57), Expect = 8.0
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 27 RIVILGPSGAGKSTLLSLMAGFK 49
+ ++G GKSTL + M G K
Sbjct: 74 YVAVIGAPNVGKSTLTNQMIGQK 96
>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 = 26.1 bits (58), Expect = 8.0
Identities = 9/16 (56%), Positives = 14/16 (87%)
Query: 27 RIVILGPSGAGKSTLL 42
+I+++G SG GKS+LL
Sbjct: 2 KILLIGDSGVGKSSLL 17
>gnl|CDD|35295 KOG0072, KOG0072, KOG0072, GTP-binding ADP-ribosylation
factor-like protein ARL1 [Intracellular trafficking,
secretion, and vesicular transport].
Length = 182
Score = 26.1 bits (57), Expect = 8.2
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 20 FQVNKAERIVILGPSGAGKSTLL 42
+ RI+ILG GAGK+T+L
Sbjct: 13 QGPEREMRILILGLDGAGKTTIL 35
>gnl|CDD|133356 cd04156, ARLTS1, ARLTS1 subfamily. ARLTS1 (Arf-like tumor
suppressor gene 1), also known as Arl11, is a member of
the Arf family of small GTPases that is believed to
play a major role in apoptotic signaling. ARLTS1 is
widely expressed and functions as a tumor suppressor
gene in several human cancers. ARLTS1 is a
low-penetrance suppressor that accounts for a small
percentage of familial melanoma or familial chronic
lymphocytic leukemia (CLL). ARLTS1 inactivation seems
to occur most frequently through biallelic
down-regulation by hypermethylation of the promoter.
In breast cancer, ARLTS1 alterations were typically a
combination of a hypomorphic polymorphism plus loss of
heterozygosity. In a case of thyroid adenoma, ARLTS1
alterations were polymorphism plus promoter
hypermethylation. The nonsense polymorphism Trp149Stop
occurs with significantly greater frequency in familial
cancer cases than in sporadic cancer cases, and the
Cys148Arg polymorphism is associated with an increase
in high-risk familial breast cancer.
Length = 160
Score = 26.2 bits (58), Expect = 8.3
Identities = 9/16 (56%), Positives = 13/16 (81%)
Query: 27 RIVILGPSGAGKSTLL 42
++++LG AGKSTLL
Sbjct: 1 QVLLLGLDSAGKSTLL 16
>gnl|CDD|32985 COG3172, NadR, Predicted ATPase/kinase involved in NAD metabolism
[Coenzyme metabolism].
Length = 187
Score = 26.1 bits (57), Expect = 8.5
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 25 AERIVILGPSGAGKSTLLSLMA 46
+ + ILG +GKSTL++ +A
Sbjct: 8 VKTVAILGGESSGKSTLVNKLA 29
>gnl|CDD|31805 COG1618, COG1618, Predicted nucleotide kinase [Nucleotide
transport and metabolism].
Length = 179
Score = 26.0 bits (57), Expect = 8.5
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 27 RIVILGPSGAGKSTLLSLMAG 47
+I I G G GK+TL+ +A
Sbjct: 7 KIFITGRPGVGKTTLVLKIAE 27
>gnl|CDD|31546 COG1355, COG1355, Predicted dioxygenase [General function
prediction only].
Length = 279
Score = 26.0 bits (57), Expect = 9.0
Identities = 7/24 (29%), Positives = 14/24 (58%)
Query: 23 NKAERIVILGPSGAGKSTLLSLMA 46
+ + +VILGP+ G + +S+
Sbjct: 73 GEPDTVVILGPNHTGLGSPVSVSP 96
>gnl|CDD|133292 cd01892, Miro2, Miro2 subfamily. Miro (mitochondrial Rho)
proteins have tandem GTP-binding domains separated by a
linker region containing putative calcium-binding EF
hand motifs. Genes encoding Miro-like proteins were
found in several eukaryotic organisms. This CD
represents the putative GTPase domain in the C terminus
of Miro proteins. These atypical Rho GTPases have
roles in mitochondrial homeostasis and apoptosis. Most
Rho proteins contain a lipid modification site at the
C-terminus; however, Miro is one of few Rho subfamilies
that lack this feature.
Length = 169
Score = 26.0 bits (58), Expect = 9.1
Identities = 9/18 (50%), Positives = 11/18 (61%)
Query: 30 ILGPSGAGKSTLLSLMAG 47
+LG G+GKS LL G
Sbjct: 9 VLGAKGSGKSALLRAFLG 26
>gnl|CDD|73290 cd01983, Fer4_NifH, The Fer4_NifH superfamily contains a variety
of proteins which share a common ATP-binding domain.
Functionally, proteins in this superfamily use the
energy from hydrolysis of NTP to transfer electron or
ion..
Length = 99
Score = 25.8 bits (56), Expect = 9.6
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 28 IVILGPSGAGKSTLLSLMA 46
IV+ G G GK+TL + +A
Sbjct: 2 IVVTGKGGVGKTTLAANLA 20
>gnl|CDD|37960 KOG2749, KOG2749, KOG2749, mRNA cleavage and polyadenylation factor
IA/II complex, subunit CLP1 [RNA processing and
modification].
Length = 415
Score = 26.0 bits (57), Expect = 9.8
Identities = 10/37 (27%), Positives = 23/37 (62%)
Query: 12 DNLKMQFDFQVNKAERIVILGPSGAGKSTLLSLMAGF 48
+ +MQ + + + R++++GP+ GKSTL ++ +
Sbjct: 90 EKRRMQAEEESSYGPRVMVVGPTDVGKSTLCRILLNY 126
>gnl|CDD|133349 cd04149, Arf6, Arf6 subfamily. Arf6 (ADP ribosylation factor 6)
proteins localize to the plasma membrane, where they
perform a wide variety of functions. In its active,
GTP-bound form, Arf6 is involved in cell spreading,
Rac-induced formation of plasma membrane ruffles, cell
migration, wound healing, and Fc-mediated phagocytosis.
Arf6 appears to change the actin structure at the
plasma membrane by activating Rac, a Rho family protein
involved in membrane ruffling. Arf6 is required for
and enhances Rac formation of ruffles. Arf6 can
regulate dendritic branching in hippocampal neurons,
and in yeast it localizes to the growing bud, where it
plays a role in polarized growth and bud site
selection. In leukocytes, Arf6 is required for
chemokine-stimulated migration across endothelial
cells. Arf6 also plays a role in down-regulation of
beta2-adrenergic receptors and luteinizing hormone
receptors by facilitating the release of sequestered
arrestin to allow endocytosis. Arf6 is believed to
function at multiple sites on the plasma membrane
through interaction with a specific set of GEFs, GAPs,
and effectors. Arf6 has been implicated in breast
cancer and melanoma cell invasion, and in actin
remodelling at the invasion site of Chlamydia
infection.
Length = 168
Score = 25.9 bits (57), Expect = 10.0
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 23 NKAERIVILGPSGAGKSTLL 42
NK RI++LG AGK+T+L
Sbjct: 7 NKEMRILMLGLDAAGKTTIL 26
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
0.325 0.141 0.420
Gapped
Lambda K H
0.267 0.0626 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 2,929,326
Number of extensions: 154202
Number of successful extensions: 1349
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1111
Number of HSP's successfully gapped: 380
Length of query: 234
Length of database: 6,263,737
Length adjustment: 91
Effective length of query: 143
Effective length of database: 4,297,318
Effective search space: 614516474
Effective search space used: 614516474
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 56 (25.6 bits)