RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16345
(121 letters)
>gnl|CDD|213180 cd03213, ABCG_EPDR, Eye pigment and drug resistance transporter
subfamily G of the ATP-binding cassette superfamily.
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 = 119 bits (301), Expect = 2e-35
Identities = 49/106 (46%), Positives = 66/106 (62%), Gaps = 9/106 (8%)
Query: 19 PLELVFSGLSVTLD------KRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVK 72
+ L F L+VT+ + +LK+VSG KPGEL A+MGPSG GK+TLLN LAGR
Sbjct: 1 GVTLSFRNLTVTVKSSPSKSGKQLLKNVSGKAKPGELTAIMGPSGAGKSTLLNALAGRRT 60
Query: 73 L--DSGVIRLNKERLNKR-WKRKICYVLQQDIFFPELTLRQTLEVS 115
SG + +N L+KR +++ I YV Q DI P LT+R+TL +
Sbjct: 61 GLGVSGEVLINGRPLDKRSFRKIIGYVPQDDILHPTLTVRETLMFA 106
>gnl|CDD|224054 COG1131, CcmA, ABC-type multidrug transport system, ATPase
component [Defense mechanisms].
Length = 293
Score = 98.1 bits (245), Expect = 5e-26
Identities = 36/85 (42%), Positives = 51/85 (60%), Gaps = 3/85 (3%)
Query: 32 DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRW-- 89
+ L VS V+PGE+ ++GP+G GKTTLL LAG +K SG I + + K
Sbjct: 16 GDKTALDGVSFEVEPGEIFGLLGPNGAGKTTLLKILAGLLKPTSGEILVLGYDVVKEPAK 75
Query: 90 -KRKICYVLQQDIFFPELTLRQTLE 113
+R+I YV Q+ +PELT+R+ LE
Sbjct: 76 VRRRIGYVPQEPSLYPELTVRENLE 100
>gnl|CDD|213199 cd03232, ABCG_PDR_domain2, Second domain of the pleiotropic drug
resistance-like (PDR) subfamily G of ATP-binding
cassette transporters. The pleiotropic drug resistance
(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 = 95.4 bits (238), Expect = 7e-26
Identities = 46/105 (43%), Positives = 62/105 (59%), Gaps = 10/105 (9%)
Query: 19 PLELVFSGLSVTLD----KRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLD 74
L + L+ T+ KR +L ++SG VKPG L A+MG SG GKTTLL+ LAGR
Sbjct: 1 GSVLTWKNLNYTVPVKGGKRQLLNNISGYVKPGTLTALMGESGAGKTTLLDVLAGRK--T 58
Query: 75 SGVIR----LNKERLNKRWKRKICYVLQQDIFFPELTLRQTLEVS 115
+GVI +N L+K ++R YV QQD+ P LT+R+ L S
Sbjct: 59 AGVITGEILINGRPLDKNFQRSTGYVEQQDVHSPNLTVREALRFS 103
>gnl|CDD|233207 TIGR00955, 3a01204, The Eye Pigment Precursor Transporter (EPP)
Family protein. [Transport and binding proteins,
Other].
Length = 617
Score = 99.4 bits (248), Expect = 2e-25
Identities = 43/84 (51%), Positives = 53/84 (63%), Gaps = 4/84 (4%)
Query: 36 ILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLD---SGVIRLNKERLNKRWKRK 92
+LK+VSGV KPGELLAVMG SG GKTTL+N LA R SG + LN ++ + R
Sbjct: 40 LLKNVSGVAKPGELLAVMGSSGAGKTTLMNALAFRSPKGVKGSGSVLLNGMPIDAKEMRA 99
Query: 93 IC-YVLQQDIFFPELTLRQTLEVS 115
I YV Q D+F P LT+R+ L
Sbjct: 100 ISAYVQQDDLFIPTLTVREHLMFQ 123
>gnl|CDD|213226 cd03259, ABC_Carb_Solutes_like, ATP-binding cassette domain of the
carbohydrate and solute transporters-like. 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 = 94.5 bits (236), Expect = 2e-25
Identities = 39/93 (41%), Positives = 52/93 (55%), Gaps = 2/93 (2%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
L GLS T L D+S V+PGE LA++GPSGCGKTTLL +AG + DSG I ++
Sbjct: 1 LELKGLSKTYGSVRALDDLSLTVEPGEFLALLGPSGCGKTTLLRLIAGLERPDSGEILID 60
Query: 82 KERLNKR--WKRKICYVLQQDIFFPELTLRQTL 112
+ +R I V Q FP LT+ + +
Sbjct: 61 GRDVTGVPPERRNIGMVFQDYALFPHLTVAENI 93
>gnl|CDD|233208 TIGR00956, 3a01205, Pleiotropic Drug Resistance (PDR) Family
protein. [Transport and binding proteins, Other].
Length = 1394
Score = 98.3 bits (245), Expect = 4e-25
Identities = 49/105 (46%), Positives = 60/105 (57%), Gaps = 17/105 (16%)
Query: 32 DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVI----RL-NKERLN 86
+KR IL +V G VKPG L A+MG SG GKTTLLN LA RV +GVI RL N L+
Sbjct: 774 EKRVILNNVDGWVKPGTLTALMGASGAGKTTLLNVLAERV--TTGVITGGDRLVNGRPLD 831
Query: 87 KRWKRKICYVLQQDIFFPELT----------LRQTLEVSIADEDE 121
++R I YV QQD+ P T LRQ VS +++ E
Sbjct: 832 SSFQRSIGYVQQQDLHLPTSTVRESLRFSAYLRQPKSVSKSEKME 876
Score = 74.4 bits (183), Expect = 1e-16
Identities = 33/109 (30%), Positives = 51/109 (46%), Gaps = 9/109 (8%)
Query: 18 RPLELVFSGL--SVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRV---- 71
+ L F L ILK + G++KPGEL V+G G G +TLL +A
Sbjct: 56 KILTRGFRKLKKFRDTKTFDILKPMDGLIKPGELTVVLGRPGSGCSTLLKTIASNTDGFH 115
Query: 72 KLDSGVIRLN---KERLNKRWKRKICYVLQQDIFFPELTLRQTLEVSIA 117
GVI + E + K ++ + Y + D+ FP LT+ +TL+ +
Sbjct: 116 IGVEGVITYDGITPEEIKKHYRGDVVYNAETDVHFPHLTVGETLDFAAR 164
>gnl|CDD|213197 cd03230, ABC_DR_subfamily_A, ATP-binding cassette domain of the
drug resistance transporter and related proteins,
subfamily A. This family of ATP-binding proteins
belongs to a multi-subunit 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. Eukaryotic
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 = 90.9 bits (227), Expect = 2e-24
Identities = 33/97 (34%), Positives = 57/97 (58%), Gaps = 3/97 (3%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
+ LS K+ L D+S V+ GE+ ++GP+G GKTTL+ + G +K DSG I++
Sbjct: 1 IEVRNLSKRYGKKTALDDISLTVEKGEIYGLLGPNGAGKTTLIKIILGLLKPDSGEIKVL 60
Query: 82 KERLNKRW---KRKICYVLQQDIFFPELTLRQTLEVS 115
+ + K KR+I Y+ ++ + LT+R+ L++S
Sbjct: 61 GKDIKKEPEEVKRRIGYLPEEPSLYENLTVRENLKLS 97
>gnl|CDD|226361 COG3842, PotA, ABC-type spermidine/putrescine transport systems,
ATPase components [Amino acid transport and metabolism].
Length = 352
Score = 92.0 bits (229), Expect = 2e-23
Identities = 33/91 (36%), Positives = 48/91 (52%), Gaps = 2/91 (2%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
L +S + + D+S +K GE + ++GPSGCGKTTLL +AG + SG I L+
Sbjct: 6 LEIRNVSKSFGDFTAVDDISLDIKKGEFVTLLGPSGCGKTTLLRMIAGFEQPSSGEILLD 65
Query: 82 KERLNKR--WKRKICYVLQQDIFFPELTLRQ 110
E + KR I V Q FP +T+ +
Sbjct: 66 GEDITDVPPEKRPIGMVFQSYALFPHMTVEE 96
>gnl|CDD|213201 cd03234, ABCG_White, White pigment protein homolog of ABCG
transporter subfamily. 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 = 88.5 bits (220), Expect = 6e-23
Identities = 37/101 (36%), Positives = 54/101 (53%), Gaps = 4/101 (3%)
Query: 16 SHRPLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRV---K 72
P V IL DVS V+ G+++A++G SG GKTTLL+ ++GRV
Sbjct: 2 RVLPWWDVGLKAKNWNKYARILNDVSLHVESGQVMAILGSSGSGKTTLLDAISGRVEGGG 61
Query: 73 LDSGVIRLNKERLNK-RWKRKICYVLQQDIFFPELTLRQTL 112
SG I N + ++++ + YV Q DI P LT+R+TL
Sbjct: 62 TTSGQILFNGQPRKPDQFQKCVAYVRQDDILLPGLTVRETL 102
>gnl|CDD|213200 cd03233, ABCG_PDR_domain1, First domain of the pleiotropic drug
resistance-like subfamily G of ATP-binding cassette
transporters. The pleiotropic drug resistance (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 = 85.8 bits (213), Expect = 4e-22
Identities = 38/93 (40%), Positives = 57/93 (61%), Gaps = 6/93 (6%)
Query: 30 TLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLD---SGVIRLN---KE 83
K PILKD SGVVKPGE++ V+G G G +TLL LA R + + G I N +
Sbjct: 16 GRSKIPILKDFSGVVKPGEMVLVLGRPGSGCSTLLKALANRTEGNVSVEGDIHYNGIPYK 75
Query: 84 RLNKRWKRKICYVLQQDIFFPELTLRQTLEVSI 116
+++ +I YV ++D+ FP LT+R+TL+ ++
Sbjct: 76 EFAEKYPGEIIYVSEEDVHFPTLTVRETLDFAL 108
>gnl|CDD|215634 PLN03211, PLN03211, ABC transporter G-25; Provisional.
Length = 659
Score = 86.1 bits (213), Expect = 8e-21
Identities = 40/90 (44%), Positives = 60/90 (66%), Gaps = 2/90 (2%)
Query: 25 SGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDS--GVIRLNK 82
S + + +R IL V+G+ PGE+LAV+GPSG GK+TLLN LAGR++ ++ G I N
Sbjct: 72 SDETRQIQERTILNGVTGMASPGEILAVLGPSGSGKSTLLNALAGRIQGNNFTGTILANN 131
Query: 83 ERLNKRWKRKICYVLQQDIFFPELTLRQTL 112
+ K+ ++ +V Q DI +P LT+R+TL
Sbjct: 132 RKPTKQILKRTGFVTQDDILYPHLTVRETL 161
>gnl|CDD|213202 cd03235, ABC_Metallic_Cations, ATP-binding cassette domain 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 = 82.6 bits (205), Expect = 9e-21
Identities = 38/84 (45%), Positives = 51/84 (60%), Gaps = 4/84 (4%)
Query: 24 FSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKE 83
L+V+ P+L+DVS VKPGE LA++GP+G GK+TLL + G +K SG IR+ +
Sbjct: 2 VEDLTVSYGGHPVLEDVSFEVKPGEFLAIVGPNGAGKSTLLKAILGLLKPTSGSIRVFGK 61
Query: 84 RLNKRWKRKICYVLQQDIF---FP 104
L K KR I YV Q+ FP
Sbjct: 62 PLEKERKR-IGYVPQRRSIDRDFP 84
>gnl|CDD|213181 cd03214, ABC_Iron-Siderophores_B12_Hemin, ATP-binding component
of iron-siderophores, vitamin B12 and hemin
transporters and related proteins. 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 = 81.3 bits (202), Expect = 2e-20
Identities = 33/78 (42%), Positives = 46/78 (58%), Gaps = 4/78 (5%)
Query: 25 SGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKER 84
LSV R +L D+S ++ GE++ ++GP+G GK+TLL LAG +K SG I L+ +
Sbjct: 3 ENLSVGYGGRTVLDDLSLSIEAGEIVGILGPNGAGKSTLLKTLAGLLKPSSGEILLDGKD 62
Query: 85 LN----KRWKRKICYVLQ 98
L K RKI YV Q
Sbjct: 63 LASLSPKELARKIAYVPQ 80
>gnl|CDD|224041 COG1116, TauB, ABC-type nitrate/sulfonate/bicarbonate transport
system, ATPase component [Inorganic ion transport and
metabolism].
Length = 248
Score = 82.6 bits (205), Expect = 2e-20
Identities = 33/89 (37%), Positives = 50/89 (56%), Gaps = 1/89 (1%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
L G+S + +L+D++ V+ GE +A++GPSGCGK+TLL +AG K SG + L+
Sbjct: 4 LEIEGVSKSFGGVEVLEDINLSVEKGEFVAILGPSGCGKSTLLRLIAGLEKPTSGEVLLD 63
Query: 82 KERLNKRWKRKICYVLQQDIFFPELTLRQ 110
+ I YV Q+D P LT+
Sbjct: 64 GRPVTGP-GPDIGYVFQEDALLPWLTVLD 91
>gnl|CDD|224045 COG1120, FepC, ABC-type cobalamin/Fe3+-siderophores transport
systems, ATPase components [Inorganic ion transport and
metabolism / Coenzyme metabolism].
Length = 258
Score = 82.2 bits (204), Expect = 3e-20
Identities = 33/90 (36%), Positives = 48/90 (53%), Gaps = 4/90 (4%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
L LS +PIL D+S + GE+ ++GP+G GK+TLL CLAG +K SG + L+
Sbjct: 3 LEVENLSFGYGGKPILDDLSFSIPKGEITGILGPNGSGKSTLLKCLAGLLKPKSGEVLLD 62
Query: 82 KERLN----KRWKRKICYVLQQDIFFPELT 107
+ + K +K+ YV Q LT
Sbjct: 63 GKDIASLSPKELAKKLAYVPQSPSAPFGLT 92
>gnl|CDD|224059 COG1136, SalX, ABC-type antimicrobial peptide transport system,
ATPase component [Defense mechanisms].
Length = 226
Score = 81.0 bits (201), Expect = 4e-20
Identities = 35/92 (38%), Positives = 53/92 (57%), Gaps = 10/92 (10%)
Query: 32 DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN---------K 82
+K LKDV+ ++ GE +A++GPSG GK+TLLN L G K SG + +N K
Sbjct: 16 EKVEALKDVNLEIEAGEFVAIVGPSGSGKSTLLNLLGGLDKPTSGEVLINGKDLTKLSEK 75
Query: 83 ERLNKRWKRKICYVLQQDIFFPELTLRQTLEV 114
E R ++KI +V Q P+LT+ + +E+
Sbjct: 76 ELAKLR-RKKIGFVFQNFNLLPDLTVLENVEL 106
>gnl|CDD|213179 cd00267, ABC_ATPase, 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 = 79.2 bits (196), Expect = 5e-20
Identities = 30/79 (37%), Positives = 46/79 (58%), Gaps = 4/79 (5%)
Query: 24 FSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKE 83
LS R L +VS +K GE++A++GP+G GK+TLL +AG +K SG I ++ +
Sbjct: 2 IENLSFRYGGRTALDNVSLTLKAGEIVALVGPNGSGKSTLLRAIAGLLKPTSGEILIDGK 61
Query: 84 RLNK----RWKRKICYVLQ 98
+ K +R+I YV Q
Sbjct: 62 DIAKLPLEELRRRIGYVPQ 80
>gnl|CDD|226359 COG3839, MalK, ABC-type sugar transport systems, ATPase components
[Carbohydrate transport and metabolism].
Length = 338
Score = 82.3 bits (204), Expect = 7e-20
Identities = 30/92 (32%), Positives = 49/92 (53%), Gaps = 2/92 (2%)
Query: 21 ELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRL 80
EL + + +LKDV+ ++ GE + ++GPSGCGK+TLL +AG + SG I +
Sbjct: 3 ELELKNVRKSFGSFEVLKDVNLDIEDGEFVVLLGPSGCGKSTLLRMIAGLEEPTSGEILI 62
Query: 81 NKERLNKR--WKRKICYVLQQDIFFPELTLRQ 110
+ + KR I V Q +P +T+ +
Sbjct: 63 DGRDVTDLPPEKRGIAMVFQNYALYPHMTVYE 94
>gnl|CDD|213196 cd03229, ABC_Class3, ATP-binding cassette domain of the binding
protein-dependent transport systems. 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 = 78.0 bits (193), Expect = 2e-19
Identities = 35/95 (36%), Positives = 54/95 (56%), Gaps = 6/95 (6%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
L +S ++ +L DVS ++ GE++A++GPSG GK+TLL C+AG + DSG I ++
Sbjct: 1 LELKNVSKRYGQKTVLNDVSLNIEAGEIVALLGPSGSGKSTLLRCIAGLEEPDSGSILID 60
Query: 82 KERLN------KRWKRKICYVLQQDIFFPELTLRQ 110
E L +R+I V Q FP LT+ +
Sbjct: 61 GEDLTDLEDELPPLRRRIGMVFQDFALFPHLTVLE 95
>gnl|CDD|213260 cd03293, ABC_NrtD_SsuB_transporters, ATP-binding cassette domain of
the nitrate and sulfonate 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 = 77.5 bits (192), Expect = 9e-19
Identities = 30/76 (39%), Positives = 44/76 (57%), Gaps = 1/76 (1%)
Query: 35 PILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKRKIC 94
L+D+S V+ GE +A++GPSGCGK+TLL +AG + SG + ++ E +
Sbjct: 18 TALEDISLSVEEGEFVALVGPSGCGKSTLLRIIAGLERPTSGEVLVDGEPVTGP-GPDRG 76
Query: 95 YVLQQDIFFPELTLRQ 110
YV QQD P LT+
Sbjct: 77 YVFQQDALLPWLTVLD 92
>gnl|CDD|234033 TIGR02857, CydD, thiol reductant ABC exporter, CydD subunit. The
gene pair cydCD encodes an ABC-family transporter in
which each gene contains an N-terminal membrane-spanning
domain (pfam00664) and a C-terminal ATP-binding domain
(pfam00005). In E. coli these genes were discovered as
mutants which caused the terminal heme-copper oxidase
complex cytochrome bd to fail to assemble. Recent work
has shown that the transporter is involved in export of
redox-active thiol compounds such as cysteine and
glutathione. The linkage to assembly of the cytochrome
bd complex is further supported by the conserved operon
structure found outside the gammaproteobacteria
(cydABCD) containing both the transporter and oxidase
genes components. The genes used as the seed members for
this model are all either found in the
gammproteobacterial context or the CydABCD context. All
members of this family scoring above trusted at the time
of its creation were from genomes which encode a
cytochrome bd complex. Unfortunately, the gene symbol
nomenclature adopted based on this operon in B. subtilis
assigns cydC to the third gene in the operon where this
gene is actually homologous to the E. coli cydD gene. We
have chosen to name all homologs in this family in
accordance with the precedence of publication of the E.
coli name, CydD.
Length = 529
Score = 80.0 bits (198), Expect = 9e-19
Identities = 39/102 (38%), Positives = 52/102 (50%), Gaps = 5/102 (4%)
Query: 8 LPPEKYPLSHRPLELVFSGLSVTL-DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNC 66
L + + L FSG+SV +RP L+ VS V PGE +A++GPSG GK+TLLN
Sbjct: 308 LAGKAPVTAAPAPSLEFSGVSVAYPGRRPALRPVSFTVPPGERVALVGPSGAGKSTLLNL 367
Query: 67 LAGRVKLDSGVIRLNKERLN----KRWKRKICYVLQQDIFFP 104
L G V G I +N L W+ +I +V Q F
Sbjct: 368 LLGFVDPTEGSIAVNGVPLADADADSWRDQIAWVPQHPFLFA 409
>gnl|CDD|223487 COG0410, LivF, ABC-type branched-chain amino acid transport
systems, ATPase component [Amino acid transport and
metabolism].
Length = 237
Score = 77.5 bits (192), Expect = 1e-18
Identities = 34/98 (34%), Positives = 51/98 (52%), Gaps = 5/98 (5%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
L LS K L+ VS V+ GE++A++G +G GKTTLL + G V+ SG I +
Sbjct: 4 LEVENLSAGYGKIQALRGVSLEVERGEIVALLGRNGAGKTTLLKTIMGLVRPRSGRIIFD 63
Query: 82 KERLN-----KRWKRKICYVLQQDIFFPELTLRQTLEV 114
E + +R + I YV + FP LT+ + L +
Sbjct: 64 GEDITGLPPHERARLGIAYVPEGRRIFPRLTVEENLLL 101
>gnl|CDD|224046 COG1121, ZnuC, ABC-type Mn/Zn transport systems, ATPase component
[Inorganic ion transport and metabolism].
Length = 254
Score = 75.3 bits (186), Expect = 1e-17
Identities = 33/98 (33%), Positives = 57/98 (58%), Gaps = 5/98 (5%)
Query: 19 PLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVI 78
+ L+V+ RP+L+D+S V+ GE+ A++GP+G GK+TLL + G +K SG I
Sbjct: 2 MPMIEVENLTVSYGNRPVLEDISLSVEKGEITALIGPNGAGKSTLLKAILGLLKPSSGEI 61
Query: 79 RLN-KERLNKRWKRKICYVLQQDIF---FPELTLRQTL 112
++ K +R + +I YV Q+ FP +T++ +
Sbjct: 62 KIFGKPVRKRRKRLRIGYVPQKSSVDRSFP-ITVKDVV 98
>gnl|CDD|213195 cd03228, ABCC_MRP_Like, ATP-binding cassette domain of multidrug
resistance protein-like transporters. The MRP
(Multidrug 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, 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 = 171
Score = 73.6 bits (182), Expect = 1e-17
Identities = 34/93 (36%), Positives = 49/93 (52%), Gaps = 5/93 (5%)
Query: 22 LVFSGLSVTLD--KRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIR 79
+ F +S + +P+LKDVS +KPGE +A++GPSG GK+TLL L SG I
Sbjct: 1 IEFKNVSFSYPGRPKPVLKDVSLTIKPGEKVAIVGPSGSGKSTLLKLLLRLYDPTSGEIL 60
Query: 80 LNK---ERLNKRWKRKICYVLQQDIFFPELTLR 109
++ L+ RK + QD F T+R
Sbjct: 61 IDGVDLRDLDLESLRKNIAYVPQDPFLFSGTIR 93
>gnl|CDD|213192 cd03225, ABC_cobalt_CbiO_domain1, First domain of the ATP-binding
cassette component of cobalt transport system. 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 = 74.4 bits (184), Expect = 1e-17
Identities = 31/103 (30%), Positives = 50/103 (48%), Gaps = 13/103 (12%)
Query: 23 VFSGLSVTLDK--RPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRL 80
LS + RP L D+S +K GE + ++GP+G GK+TLL L G + SG + +
Sbjct: 1 ELKNLSFSYPDGARPALDDISLTIKKGEFVLIVGPNGSGKSTLLRLLNGLLGPTSGEVLV 60
Query: 81 NKERLN----KRWKRKICYVLQQDIFFPELTLRQTLEVSIADE 119
+ + L K +RK+ V Q P+ Q ++ +E
Sbjct: 61 DGKDLTKLSLKELRRKVGLVFQ----NPD---DQFFGPTVEEE 96
>gnl|CDD|213228 cd03261, ABC_Org_Solvent_Resistant, 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 = 74.5 bits (184), Expect = 2e-17
Identities = 31/94 (32%), Positives = 53/94 (56%), Gaps = 7/94 (7%)
Query: 24 FSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKE 83
GL+ + R +LK V V+ GE+LA++GPSG GK+TLL + G ++ DSG + ++ E
Sbjct: 3 LRGLTKSFGGRTVLKGVDLDVRRGEILAIIGPSGSGKSTLLRLIVGLLRPDSGEVLIDGE 62
Query: 84 RLNK-------RWKRKICYVLQQDIFFPELTLRQ 110
++ R +R++ + Q F LT+ +
Sbjct: 63 DISGLSEAELYRLRRRMGMLFQSGALFDSLTVFE 96
>gnl|CDD|224050 COG1125, OpuBA, ABC-type proline/glycine betaine transport systems,
ATPase components [Amino acid transport and metabolism].
Length = 309
Score = 75.0 bits (185), Expect = 2e-17
Identities = 31/91 (34%), Positives = 50/91 (54%), Gaps = 4/91 (4%)
Query: 24 FSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKE 83
F +S + + DV+ ++ GE L ++GPSG GKTT L + ++ SG I ++ E
Sbjct: 4 FENVSKRYGNKKAVDDVNLTIEEGEFLVLIGPSGSGKTTTLKMINRLIEPTSGEILIDGE 63
Query: 84 RLNK----RWKRKICYVLQQDIFFPELTLRQ 110
++ +RKI YV+QQ FP LT+ +
Sbjct: 64 DISDLDPVELRRKIGYVIQQIGLFPHLTVAE 94
>gnl|CDD|227320 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 = 75.8 bits (187), Expect = 2e-17
Identities = 33/121 (27%), Positives = 50/121 (41%), Gaps = 11/121 (9%)
Query: 2 VSNIPSLPPEK----YPLSHRPLELVFSGLSVTLD--KRPILKDVSGVVKPGELLAVMGP 55
+++I PE + L +S T + LK+ + + GE +A++G
Sbjct: 313 LNDILDQKPEVTFPDEQTATTGQALELRNVSFTYPGQQTKALKNFNLTLAQGEKVAILGR 372
Query: 56 SGCGKTTLLNCLAGRVKLDSGVIRLN----KERLNKRWKRKICYVLQQDIFFPELTLRQT 111
SG GK+TLL LAG G I LN + + I + Q+ F TLR
Sbjct: 373 SGSGKSTLLQLLAGAWDPQQGSITLNGVEIASLDEQALRETISVLTQRVHLFSG-TLRDN 431
Query: 112 L 112
L
Sbjct: 432 L 432
>gnl|CDD|213222 cd03255, ABC_MJ0796_LolCDE_FtsE, ATP-binding cassette domain of the
transporters involved in export of lipoprotein and
macrolide, and cell division protein. 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 lipoproteins 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 catalyzes the release of lipoproteins from the
cytoplasmic membrane prior to their targeting to the
outer membrane.
Length = 218
Score = 73.7 bits (182), Expect = 3e-17
Identities = 37/106 (34%), Positives = 54/106 (50%), Gaps = 14/106 (13%)
Query: 22 LVFSGLSVTLD----KRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGV 77
+ LS T K LK VS ++ GE +A++GPSG GK+TLLN L G + SG
Sbjct: 1 IELKNLSKTYGGGGEKVQALKGVSLSIEKGEFVAIVGPSGSGKSTLLNILGGLDRPTSGE 60
Query: 78 IRLN---------KERLNKRWKRKICYVLQQDIFFPELTLRQTLEV 114
+R++ KE R +R I +V Q P+LT + +E+
Sbjct: 61 VRVDGTDISKLSEKELAAFR-RRHIGFVFQSFNLLPDLTALENVEL 105
>gnl|CDD|213191 cd03224, ABC_TM1139_LivF_branched, ATP-binding cassette domain of
branched-chain amino acid transporter. 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 = 72.1 bits (178), Expect = 1e-16
Identities = 35/100 (35%), Positives = 52/100 (52%), Gaps = 7/100 (7%)
Query: 20 LELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIR 79
LE+ L+ K IL VS V GE++A++G +G GKTTLL + G + SG IR
Sbjct: 1 LEV--ENLNAGYGKSQILFGVSLTVPEGEIVALLGRNGAGKTTLLKTIMGLLPPRSGSIR 58
Query: 80 LNKERLN-----KRWKRKICYVLQQDIFFPELTLRQTLEV 114
+ + +R + I YV + FPELT+ + L +
Sbjct: 59 FDGRDITGLPPHERARAGIGYVPEGRRIFPELTVEENLLL 98
>gnl|CDD|226905 COG4525, TauB, ABC-type taurine transport system, ATPase component
[Inorganic ion transport and metabolism].
Length = 259
Score = 72.5 bits (178), Expect = 1e-16
Identities = 37/98 (37%), Positives = 53/98 (54%), Gaps = 3/98 (3%)
Query: 22 LVFSGLSVTLDKRP--ILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIR 79
L S LS++ + +P L+DVS + GEL+ V+GPSGCGKTTLLN +AG V G I+
Sbjct: 4 LNVSHLSLSYEGKPRSALEDVSLTIASGELVVVLGPSGCGKTTLLNLIAGFVTPSRGSIQ 63
Query: 80 LNKERLNKRWKRKICYVLQQDIFFPELTLRQTLEVSIA 117
LN R+ + V Q + P L + + +
Sbjct: 64 LNGRRIEGPGAER-GVVFQNEALLPWLNVIDNVAFGLQ 100
>gnl|CDD|213230 cd03263, ABC_subfamily_A, ATP-binding cassette domain of the lipid
transporters, 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 = 71.8 bits (177), Expect = 2e-16
Identities = 28/85 (32%), Positives = 44/85 (51%), Gaps = 3/85 (3%)
Query: 32 DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLN---KR 88
+P + D+S V GE+ ++G +G GKTT L L G ++ SG +N + K
Sbjct: 13 GTKPAVDDLSLNVYKGEIFGLLGHNGAGKTTTLKMLTGELRPTSGTAYINGYSIRTDRKA 72
Query: 89 WKRKICYVLQQDIFFPELTLRQTLE 113
++ + Y Q D F ELT+R+ L
Sbjct: 73 ARQSLGYCPQFDALFDELTVREHLR 97
>gnl|CDD|224043 COG1118, CysA, ABC-type sulfate/molybdate transport systems, ATPase
component [Inorganic ion transport and metabolism].
Length = 345
Score = 72.8 bits (179), Expect = 2e-16
Identities = 34/96 (35%), Positives = 50/96 (52%), Gaps = 5/96 (5%)
Query: 20 LELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIR 79
+ + + + L D+S +K GEL+A++GPSG GK+TLL +AG D+G IR
Sbjct: 1 MSIRINNVKKRFGAFGALDDISLDIKSGELVALLGPSGAGKSTLLRIIAGLETPDAGRIR 60
Query: 80 LNKERL----NKR-WKRKICYVLQQDIFFPELTLRQ 110
LN L N RK+ +V Q FP +T+
Sbjct: 61 LNGRVLFDVSNLAVRDRKVGFVFQHYALFPHMTVAD 96
>gnl|CDD|213213 cd03246, ABCC_Protease_Secretion, ATP-binding cassette domain of
PrtD, subfamily C. 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 = 69.6 bits (171), Expect = 5e-16
Identities = 28/89 (31%), Positives = 48/89 (53%), Gaps = 6/89 (6%)
Query: 22 LVFSGLSVTL--DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIR 79
L +S + P+L++VS ++PGE LA++GPSG GK+TL + G ++ SG +R
Sbjct: 1 LEVENVSFRYPGAEPPVLRNVSFSIEPGESLAIIGPSGSGKSTLARLILGLLRPTSGRVR 60
Query: 80 LNKERLNK----RWKRKICYVLQQDIFFP 104
L+ +++ + Y+ Q D F
Sbjct: 61 LDGADISQWDPNELGDHVGYLPQDDELFS 89
>gnl|CDD|213186 cd03219, ABC_Mj1267_LivG_branched, ATP-binding cassette component
of branched chain amino acids transport system. 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 = 70.2 bits (173), Expect = 8e-16
Identities = 29/83 (34%), Positives = 47/83 (56%), Gaps = 5/83 (6%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERL-----NKRWKR 91
L DVS V+PGE+ ++GP+G GKTTL N ++G ++ SG + + E + ++ +
Sbjct: 16 LDDVSFSVRPGEIHGLIGPNGAGKTTLFNLISGFLRPTSGSVLFDGEDITGLPPHEIARL 75
Query: 92 KICYVLQQDIFFPELTLRQTLEV 114
I Q FPELT+ + + V
Sbjct: 76 GIGRTFQIPRLFPELTVLENVMV 98
>gnl|CDD|213188 cd03221, ABCF_EF-3, ATP-binding cassette domain of elongation
factor 3, subfamily F. 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 = 67.9 bits (167), Expect = 1e-15
Identities = 24/77 (31%), Positives = 40/77 (51%), Gaps = 7/77 (9%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
+ LS T + +LKD+S + PG+ + ++G +G GK+TLL +AG ++ D G++
Sbjct: 1 IELENLSKTYGGKLLLKDISLTINPGDRIGLVGRNGAGKSTLLKLIAGELEPDEGIVTWG 60
Query: 82 KERLNKRWKRKICYVLQ 98
KI Y Q
Sbjct: 61 S-------TVKIGYFEQ 70
>gnl|CDD|213267 cd03300, ABC_PotA_N, ATP-binding cassette domain of the polyamine
transporter. 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 = 69.6 bits (171), Expect = 1e-15
Identities = 32/88 (36%), Positives = 42/88 (47%), Gaps = 2/88 (2%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
+ +S L VS +K GE ++GPSGCGKTTLL +AG SG I L+
Sbjct: 1 IELENVSKFYGGFVALDGVSLDIKEGEFFTLLGPSGCGKTTLLRLIAGFETPTSGEILLD 60
Query: 82 KERLNK--RWKRKICYVLQQDIFFPELT 107
+ + KR + V Q FP LT
Sbjct: 61 GKDITNLPPHKRPVNTVFQNYALFPHLT 88
>gnl|CDD|225183 COG2274, SunT, ABC-type bacteriocin/lantibiotic exporters, contain
an N-terminal double-glycine peptidase domain [Defense
mechanisms].
Length = 709
Score = 70.7 bits (174), Expect = 2e-15
Identities = 37/114 (32%), Positives = 55/114 (48%), Gaps = 12/114 (10%)
Query: 2 VSNIPSLPPE------KYPLSHRPLELVFSGLSVTL--DKRPILKDVSGVVKPGELLAVM 53
+ +I PPE L E+ F +S D P+L+D+S + PGE +A++
Sbjct: 446 LGDILDTPPEQEGDKTLIHLPKLQGEIEFENVSFRYGPDDPPVLEDLSLEIPPGEKVAIV 505
Query: 54 GPSGCGKTTLLNCLAGRVKLDSGVIRLN---KERLNKRW-KRKICYVLQQDIFF 103
G SG GK+TLL L G K G I L+ ++ +R++ YVLQ F
Sbjct: 506 GRSGSGKSTLLKLLLGLYKPQQGRILLDGVDLNDIDLASLRRQVGYVLQDPFLF 559
>gnl|CDD|183056 PRK11248, tauB, taurine transporter ATP-binding subunit;
Provisional.
Length = 255
Score = 69.0 bits (169), Expect = 2e-15
Identities = 29/65 (44%), Positives = 40/65 (61%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
L S L +P L+D++ ++ GELL V+GPSGCGKTTLLN +AG V G I L+
Sbjct: 2 LQISHLYADYGGKPALEDINLTLESGELLVVLGPSGCGKTTLLNLIAGFVPYQHGSITLD 61
Query: 82 KERLN 86
+ +
Sbjct: 62 GKPVE 66
>gnl|CDD|234199 TIGR03410, urea_trans_UrtE, urea ABC transporter, ATP-binding
protein UrtE. Members of this protein family are ABC
transporter ATP-binding subunits associated with urea
transport and metabolism. This protein is found in a
conserved five-gene transport operon typically found
adjacent to urease genes. It was shown in Cyanobacteria
that disruption leads to the loss of high-affinity urea
transport activity [Transport and binding proteins,
Amino acids, peptides and amines].
Length = 230
Score = 68.3 bits (168), Expect = 3e-15
Identities = 36/85 (42%), Positives = 49/85 (57%), Gaps = 7/85 (8%)
Query: 36 ILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNK-----RWK 90
IL+ VS V GE+ V+G +G GKTTLL L G + + SG IRL+ E + K R +
Sbjct: 15 ILRGVSLEVPKGEVTCVLGRNGVGKTTLLKTLMGLLPVKSGSIRLDGEDITKLPPHERAR 74
Query: 91 RKICYVLQ-QDIFFPELTLRQTLEV 114
I YV Q ++I FP LT+ + L
Sbjct: 75 AGIAYVPQGREI-FPRLTVEENLLT 98
>gnl|CDD|226164 COG3638, COG3638, ABC-type phosphate/phosphonate transport system,
ATPase component [Inorganic ion transport and
metabolism].
Length = 258
Score = 68.4 bits (168), Expect = 5e-15
Identities = 33/96 (34%), Positives = 46/96 (47%), Gaps = 12/96 (12%)
Query: 24 FSGLSVT-LDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNK 82
LS T LKDV+ + GE++A++GPSG GK+TLL L G V SG I N
Sbjct: 6 VKNLSKTYPGGHQALKDVNLEINQGEMVAIIGPSGAGKSTLLRSLNGLVDPTSGEILFNG 65
Query: 83 ERLNK-------RWKRKICYVLQQDIFFPELTLRQT 111
++ K + +R I + QQ L R +
Sbjct: 66 VQITKLKGKELRKLRRDIGMIFQQ----FNLVPRLS 97
>gnl|CDD|224051 COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase
component [Amino acid transport and metabolism].
Length = 240
Score = 67.9 bits (167), Expect = 5e-15
Identities = 34/89 (38%), Positives = 51/89 (57%), Gaps = 5/89 (5%)
Query: 24 FSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKE 83
LS + + +LK +S V+ GE++ ++GPSG GK+TLL CL G + DSG I ++ E
Sbjct: 5 IKNLSKSFGDKEVLKGISLSVEKGEVVVIIGPSGSGKSTLLRCLNGLEEPDSGSITVDGE 64
Query: 84 RLN-----KRWKRKICYVLQQDIFFPELT 107
+ + +RK+ V QQ FP LT
Sbjct: 65 DVGDKKDILKLRRKVGMVFQQFNLFPHLT 93
>gnl|CDD|237422 PRK13548, hmuV, hemin importer ATP-binding subunit; Provisional.
Length = 258
Score = 67.9 bits (167), Expect = 6e-15
Identities = 29/57 (50%), Positives = 41/57 (71%)
Query: 25 SGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
LSV L R +L DVS ++PGE++A++GP+G GK+TLL L+G + DSG +RLN
Sbjct: 6 RNLSVRLGGRTLLDDVSLTLRPGEVVAILGPNGAGKSTLLRALSGELSPDSGEVRLN 62
>gnl|CDD|213229 cd03262, ABC_HisP_GlnQ, ATP-binding cassette domain of the
histidine and glutamine transporters. HisP and GlnQ are
the ATP-binding components of the bacterial periplasmic
histidine and glutamine permeases, respectively.
Histidine permease is a multi-subunit 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 prokaryotic 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 = 67.2 bits (165), Expect = 6e-15
Identities = 31/88 (35%), Positives = 46/88 (52%), Gaps = 6/88 (6%)
Query: 26 GLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERL 85
L + +LK + VK GE++ ++GPSG GK+TLL C+ + DSG I ++ +L
Sbjct: 5 NLHKSFGDFHVLKGIDLTVKKGEVVVIIGPSGSGKSTLLRCINLLEEPDSGTIIIDGLKL 64
Query: 86 NKRWK------RKICYVLQQDIFFPELT 107
K +K+ V QQ FP LT
Sbjct: 65 TDDKKNINELRQKVGMVFQQFNLFPHLT 92
>gnl|CDD|213264 cd03297, ABC_ModC_molybdenum_transporter, ATP-binding cassette
domain of the molybdenum transport system. 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 = 66.9 bits (164), Expect = 8e-15
Identities = 31/76 (40%), Positives = 37/76 (48%), Gaps = 8/76 (10%)
Query: 46 PGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWK--------RKICYVL 97
E+ + G SG GK+TLL C+AG K D G I LN L K RKI V
Sbjct: 22 NEEVTGIFGASGAGKSTLLRCIAGLEKPDGGTIVLNGTVLFDSRKKINLPPQQRKIGLVF 81
Query: 98 QQDIFFPELTLRQTLE 113
QQ FP L +R+ L
Sbjct: 82 QQYALFPHLNVRENLA 97
>gnl|CDD|213223 cd03256, ABC_PhnC_transporter, ATP-binding cassette domain of the
binding protein-dependent 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 prokaryotic
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 = 67.2 bits (165), Expect = 1e-14
Identities = 33/86 (38%), Positives = 50/86 (58%), Gaps = 8/86 (9%)
Query: 22 LVFSGLSVTL-DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRL 80
+ LS T + + LKDVS + PGE +A++GPSG GK+TLL CL G V+ SG + +
Sbjct: 1 IEVENLSKTYPNGKKALKDVSLSINPGEFVALIGPSGAGKSTLLRCLNGLVEPTSGSVLI 60
Query: 81 NKERLNK-------RWKRKICYVLQQ 99
+ +NK + +R+I + QQ
Sbjct: 61 DGTDINKLKGKALRQLRRQIGMIFQQ 86
>gnl|CDD|213263 cd03296, ABC_CysA_sulfate_importer, ATP-binding cassette domain of
the sulfate transporter. 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 = 67.0 bits (164), Expect = 1e-14
Identities = 31/93 (33%), Positives = 45/93 (48%), Gaps = 2/93 (2%)
Query: 20 LELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIR 79
+ + +S L DVS + GEL+A++GPSG GKTTLL +AG + DSG I
Sbjct: 1 MSIEVRNVSKRFGDFVALDDVSLDIPSGELVALLGPSGSGKTTLLRLIAGLERPDSGTIL 60
Query: 80 LNKERLNKR--WKRKICYVLQQDIFFPELTLRQ 110
E +R + +V Q F +T+
Sbjct: 61 FGGEDATDVPVQERNVGFVFQHYALFRHMTVFD 93
>gnl|CDD|236523 PRK09452, potA, putrescine/spermidine ABC transporter ATPase
protein; Reviewed.
Length = 375
Score = 68.1 bits (167), Expect = 1e-14
Identities = 29/89 (32%), Positives = 48/89 (53%), Gaps = 2/89 (2%)
Query: 24 FSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKE 83
G+S + D + ++ ++ + GE L ++GPSGCGKTT+L +AG DSG I L+ +
Sbjct: 17 LRGISKSFDGKEVISNLDLTINNGEFLTLLGPSGCGKTTVLRLIAGFETPDSGRIMLDGQ 76
Query: 84 RLNK--RWKRKICYVLQQDIFFPELTLRQ 110
+ R + V Q FP +T+ +
Sbjct: 77 DITHVPAENRHVNTVFQSYALFPHMTVFE 105
>gnl|CDD|215599 PLN03140, PLN03140, ABC transporter G family member; Provisional.
Length = 1470
Score = 68.3 bits (167), Expect = 1e-14
Identities = 44/117 (37%), Positives = 64/117 (54%), Gaps = 9/117 (7%)
Query: 5 IPSLPPEKYPLSHRPLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLL 64
+P+LP ++ L ++ L+ K ILKD SG++KP + ++GP GKTTLL
Sbjct: 150 LPTLPNAARNIAESALGMLGINLAKK-TKLTILKDASGIIKPSRMTLLLGPPSSGKTTLL 208
Query: 65 NCLAGRVKLD-----SGVIRLNKERLNKRWKRKI-CYVLQQDIFFPELTLRQTLEVS 115
LAG KLD SG I N RLN+ RK Y+ Q D+ +T+++TL+ S
Sbjct: 209 LALAG--KLDPSLKVSGEITYNGYRLNEFVPRKTSAYISQNDVHVGVMTVKETLDFS 263
Score = 60.2 bits (146), Expect = 9e-12
Identities = 35/87 (40%), Positives = 54/87 (62%), Gaps = 3/87 (3%)
Query: 29 VTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVK--LDSGVIRLNK-ERL 85
VT D+ +L++V+G +PG L A+MG SG GKTTL++ LAGR G IR++ +
Sbjct: 888 VTEDRLQLLREVTGAFRPGVLTALMGVSGAGKTTLMDVLAGRKTGGYIEGDIRISGFPKK 947
Query: 86 NKRWKRKICYVLQQDIFFPELTLRQTL 112
+ + R Y Q DI P++T+R++L
Sbjct: 948 QETFARISGYCEQNDIHSPQVTVRESL 974
>gnl|CDD|224060 COG1137, YhbG, ABC-type (unclassified) transport system, ATPase
component [General function prediction only].
Length = 243
Score = 66.5 bits (163), Expect = 2e-14
Identities = 34/96 (35%), Positives = 54/96 (56%), Gaps = 5/96 (5%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
LV L+ + KR ++ DVS V GE++ ++GP+G GKTT + G V+ DSG I L+
Sbjct: 5 LVAENLAKSYKKRKVVNDVSLEVNSGEIVGLLGPNGAGKTTTFYMIVGLVRPDSGKILLD 64
Query: 82 KER-----LNKRWKRKICYVLQQDIFFPELTLRQTL 112
E ++KR + I Y+ Q+ F +LT+ +
Sbjct: 65 DEDITKLPMHKRARLGIGYLPQEASIFRKLTVEDNI 100
>gnl|CDD|227321 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 = 67.7 bits (166), Expect = 2e-14
Identities = 32/91 (35%), Positives = 51/91 (56%), Gaps = 5/91 (5%)
Query: 19 PLELVFSGLSVTL-DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGV 77
P+E+ LS D +P L D++ +K G+L A++G SG GK+TLLN L G + G
Sbjct: 318 PIEISLENLSFRYPDGKPALSDLNLTIKAGQLTALVGASGAGKSTLLNLLLGFLAPTQGE 377
Query: 78 IRLN-KERLN---KRWKRKICYVLQQDIFFP 104
IR+N + + + W+++I +V Q F
Sbjct: 378 IRVNGIDLRDLSPEAWRKQISWVSQNPYLFA 408
>gnl|CDD|226620 COG4136, COG4136, ABC-type uncharacterized transport system, ATPase
component [General function prediction only].
Length = 213
Score = 65.6 bits (160), Expect = 3e-14
Identities = 32/101 (31%), Positives = 58/101 (57%), Gaps = 5/101 (4%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLD---SGVI 78
L +S+ L +L +V+ + GE++ +MGPSGCGK+TLL+ + G + +G +
Sbjct: 3 LCLKNVSLRLPGSCLLANVNFTIAKGEIVTLMGPSGCGKSTLLSWMIGALAGQFSCTGEL 62
Query: 79 RLNKERLNK--RWKRKICYVLQQDIFFPELTLRQTLEVSIA 117
LN++RL+ +R+I + Q + FP L++ Q L ++
Sbjct: 63 WLNEQRLDMLPAAQRQIGILFQDALLFPHLSVGQNLLFALP 103
>gnl|CDD|130041 TIGR00968, 3a0106s01, sulfate ABC transporter, ATP-binding protein.
[Transport and binding proteins, Anions].
Length = 237
Score = 66.0 bits (161), Expect = 3e-14
Identities = 36/79 (45%), Positives = 49/79 (62%), Gaps = 4/79 (5%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKE---RLNKRWKRKI 93
L DV+ V G L+A++GPSG GK+TLL +AG + DSG IRLN + R++ R RKI
Sbjct: 16 LDDVNLEVPTGSLVALLGPSGSGKSTLLRIIAGLEQPDSGRIRLNGQDATRVHAR-DRKI 74
Query: 94 CYVLQQDIFFPELTLRQTL 112
+V Q F LT+R +
Sbjct: 75 GFVFQHYALFKHLTVRDNI 93
>gnl|CDD|237894 PRK15064, PRK15064, ABC transporter ATP-binding protein;
Provisional.
Length = 530
Score = 66.8 bits (164), Expect = 4e-14
Identities = 24/63 (38%), Positives = 39/63 (61%), Gaps = 1/63 (1%)
Query: 17 HRPLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSG 76
HR L L+ D P+ K+++ +++ GE LA++G +G GKTTLL L G ++ DSG
Sbjct: 316 HR-NALEVENLTKGFDNGPLFKNLNLLLEAGERLAIIGENGVGKTTLLRTLVGELEPDSG 374
Query: 77 VIR 79
++
Sbjct: 375 TVK 377
Score = 28.3 bits (64), Expect = 1.0
Identities = 18/50 (36%), Positives = 27/50 (54%), Gaps = 10/50 (20%)
Query: 54 GPSGCGKTTLLNCLAGRVKLDSGVIRLNK-ERLNKRWKRKICYVLQQDIF 102
G +GCGK+T + L G ++ +G + L+ ERL K L+QD F
Sbjct: 34 GANGCGKSTFMKILGGDLEPSAGNVSLDPNERLGK---------LRQDQF 74
>gnl|CDD|224052 COG1127, Ttg2A, ABC-type transport system involved in resistance to
organic solvents, ATPase component [Secondary
metabolites biosynthesis, transport, and catabolism].
Length = 263
Score = 65.7 bits (161), Expect = 5e-14
Identities = 28/93 (30%), Positives = 46/93 (49%), Gaps = 7/93 (7%)
Query: 24 FSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN-- 81
G++ + R IL V V GE+LA++G SG GK+TLL + G ++ D G I ++
Sbjct: 11 VRGVTKSFGDRVILDGVDLDVPRGEILAILGGSGSGKSTLLRLILGLLRPDKGEILIDGE 70
Query: 82 -----KERLNKRWKRKICYVLQQDIFFPELTLR 109
E ++++ + QQ F LT+
Sbjct: 71 DIPQLSEEELYEIRKRMGVLFQQGALFSSLTVF 103
>gnl|CDD|213268 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 = 65.0 bits (159), Expect = 5e-14
Identities = 28/106 (26%), Positives = 47/106 (44%), Gaps = 6/106 (5%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
+ ++ L D++ + GE + ++GPSGCGKTT L +AG + SG I +
Sbjct: 1 VELENVTKRFGNVTALDDLNLDIADGEFVVLLGPSGCGKTTTLRMIAGLEEPTSGRIYIG 60
Query: 82 KERLNKR--WKRKICYVLQQDIFFPELTLRQT----LEVSIADEDE 121
+ R I V Q +P +T+ L++ +DE
Sbjct: 61 GRDVTDLPPKDRDIAMVFQNYALYPHMTVYDNIAFGLKLRKVPKDE 106
>gnl|CDD|213221 cd03254, ABCC_Glucan_exporter_like, ATP-binding cassette domain of
glucan transporter and related proteins, subfamily C.
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 virulence
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 = 64.9 bits (159), Expect = 6e-14
Identities = 28/76 (36%), Positives = 43/76 (56%), Gaps = 4/76 (5%)
Query: 33 KRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN----KERLNKR 88
K+P+LKD++ +KPGE +A++GP+G GKTTL+N L G I ++ ++ K
Sbjct: 15 KKPVLKDINFSIKPGETVAIVGPTGAGKTTLINLLMRFYDPQKGQILIDGIDIRDISRKS 74
Query: 89 WKRKICYVLQQDIFFP 104
+ I VLQ F
Sbjct: 75 LRSMIGVVLQDTFLFS 90
>gnl|CDD|213224 cd03257, ABC_NikE_OppD_transporters, ATP-binding cassette domain
of nickel/oligopeptides specific 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 = 64.8 bits (159), Expect = 6e-14
Identities = 30/88 (34%), Positives = 41/88 (46%), Gaps = 11/88 (12%)
Query: 22 LVFSGLSVTLDKR----PILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGV 77
L LSV+ L DVS +K GE L ++G SG GK+TL + G +K SG
Sbjct: 2 LEVKNLSVSFPTGGGSVKALDDVSFSIKKGETLGLVGESGSGKSTLARAILGLLKPTSGS 61
Query: 78 IRLN-------KERLNKRWKRKICYVLQ 98
I + RL K +++I V Q
Sbjct: 62 IIFDGKDLLKLSRRLRKIRRKEIQMVFQ 89
>gnl|CDD|213185 cd03218, ABC_YhbG, ATP-binding cassette component of YhbG transport
system. 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 = 64.5 bits (158), Expect = 9e-14
Identities = 34/96 (35%), Positives = 53/96 (55%), Gaps = 5/96 (5%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
L LS KR ++ VS VK GE++ ++GP+G GKTT + G VK DSG I L+
Sbjct: 1 LRAENLSKRYGKRKVVNGVSLSVKQGEIVGLLGPNGAGKTTTFYMIVGLVKPDSGKILLD 60
Query: 82 KERL-----NKRWKRKICYVLQQDIFFPELTLRQTL 112
+ + +KR + I Y+ Q+ F +LT+ + +
Sbjct: 61 GQDITKLPMHKRARLGIGYLPQEASIFRKLTVEENI 96
>gnl|CDD|224049 COG1124, DppF, ABC-type dipeptide/oligopeptide/nickel transport
system, ATPase component [Amino acid transport and
metabolism / Inorganic ion transport and metabolism].
Length = 252
Score = 63.8 bits (156), Expect = 2e-13
Identities = 32/103 (31%), Positives = 49/103 (47%), Gaps = 13/103 (12%)
Query: 26 GLSVTLDKR----PILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
LS+ L +VS ++ GE L ++G SG GK+TL LAG K SG I L+
Sbjct: 8 NLSIVYGGGKFAFHALNNVSLEIERGETLGIVGESGSGKSTLARLLAGLEKPSSGSILLD 67
Query: 82 -KERLNKRWKRKICYVLQ---QDIFFPELTL--RQTLEVSIAD 118
K K+ + +Q QD P +L R+T+ +++
Sbjct: 68 GKPLAPKKRAKAFYRPVQMVFQD---PYSSLNPRRTVGRILSE 107
>gnl|CDD|233665 TIGR01978, sufC, FeS assembly ATPase SufC. SufC is part of the
SUF system, shown in E. coli to consist of six proteins
and believed to act in Fe-S cluster formation during
oxidative stress. SufC forms a complex with SufB and
SufD. SufC belongs to the ATP-binding cassette
transporter family (pfam00005) but is no longer thought
to be part of a transporter. The complex is reported as
cytosolic (PMID:12554644) or associated with the
membrane (PMID:11943156). The SUF system also includes
a cysteine desulfurase (SufS, enhanced by SufE) and a
probable iron-sulfur cluster assembly scaffold protein,
SufA [Biosynthesis of cofactors, prosthetic groups, and
carriers, Other].
Length = 243
Score = 63.4 bits (155), Expect = 3e-13
Identities = 25/63 (39%), Positives = 39/63 (61%), Gaps = 2/63 (3%)
Query: 27 LSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGR--VKLDSGVIRLNKER 84
L V+++ + ILK V+ VK GE+ A+MGP+G GK+TL +AG ++ SG I +
Sbjct: 6 LHVSVEDKEILKGVNLTVKKGEIHAIMGPNGSGKSTLSKTIAGHPSYEVTSGTILFKGQD 65
Query: 85 LNK 87
L +
Sbjct: 66 LLE 68
>gnl|CDD|234152 TIGR03265, PhnT2, putative 2-aminoethylphosphonate ABC transporter,
ATP-binding protein. This ABC transporter ATP-binding
protein is found in a number of genomes in operon-like
contexts strongly suggesting a substrate specificity for
2-aminoethylphosphonate (2-AEP). The characterized
PhnSTUV system is absent in the genomes in which this
system is found. These genomes encode systems for the
catabolism of 2-AEP, making the need for a
2-AEP-specific transporter likely [Transport and binding
proteins, Amino acids, peptides and amines].
Length = 353
Score = 63.9 bits (156), Expect = 3e-13
Identities = 33/75 (44%), Positives = 41/75 (54%), Gaps = 4/75 (5%)
Query: 36 ILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKE---RLNKRWKRK 92
LKD+S VK GE + ++GPSGCGKTTLL +AG + +G I RL + KR
Sbjct: 19 ALKDISLSVKKGEFVCLLGPSGCGKTTLLRIIAGLERQTAGTIYQGGRDITRLPPQ-KRD 77
Query: 93 ICYVLQQDIFFPELT 107
V Q FP LT
Sbjct: 78 YGIVFQSYALFPNLT 92
>gnl|CDD|131368 TIGR02315, ABC_phnC, phosphonate ABC transporter, ATP-binding
protein. Phosphonates are a class of
phosphorus-containing organic compound with a stable
direct C-P bond rather than a C-O-P linkage. A number
of bacterial species have operons, typically about 14
genes in size, with genes for ATP-dependent transport
of phosphonates, degradation, and regulation of the
expression of the system. Members of this protein
family are the ATP-binding cassette component of
tripartite ABC transporters of phosphonates [Transport
and binding proteins, Anions].
Length = 243
Score = 63.1 bits (154), Expect = 3e-13
Identities = 29/87 (33%), Positives = 47/87 (54%), Gaps = 10/87 (11%)
Query: 22 LVFSGLSVTL-DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVI-- 78
L LS + + LK+++ + PGE +A++GPSG GK+TLL C+ V+ SG I
Sbjct: 2 LEVENLSKVYPNGKQALKNINLNINPGEFVAIIGPSGAGKSTLLRCINRLVEPSSGSILL 61
Query: 79 ------RLNKERLNKRWKRKICYVLQQ 99
+L ++L K +R+I + Q
Sbjct: 62 EGTDITKLRGKKLRK-LRRRIGMIFQH 87
>gnl|CDD|233305 TIGR01189, ccmA, heme ABC exporter, ATP-binding protein CcmA. This
model describes the cyt c biogenesis protein encoded by
ccmA in bacteria. An exception is, an arabidopsis
protein. Quite likely this is encoded by an organelle.
Bacterial c-type cytocromes are located on the
periplasmic side of the cytoplasmic membrane. Several
gene products encoded in a locus designated as 'ccm' are
implicated in the transport and assembly of the
functional cytochrome C. This cluster includes genes:
ccmA;B;C;D;E;F;G and H. The posttranslational pathway
includes the transport of heme moiety, the secretion of
the apoprotein and the covalent attachment of the heme
with the apoprotein. The proteins ccmA and B represent
an ABC transporter; ccmC and D participate in heme
transfer to ccmE, which function as a periplasmic heme
chaperone. The presence of ccmF, G and H is suggested to
be obligatory for the final functional assembly of
cytochrome c [Protein fate, Protein and peptide
secretion and trafficking, Transport and binding
proteins, Other].
Length = 198
Score = 62.4 bits (152), Expect = 4e-13
Identities = 32/90 (35%), Positives = 48/90 (53%), Gaps = 3/90 (3%)
Query: 26 GLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERL 85
L+ + +R + + +S + GE L V GP+G GKTTLL LAG ++ DSG +R N L
Sbjct: 5 NLACSRGERMLFEGLSFTLNAGEALQVTGPNGIGKTTLLRILAGLLRPDSGEVRWNGTAL 64
Query: 86 NKR---WKRKICYVLQQDIFFPELTLRQTL 112
++ R I Y+ PEL+ + L
Sbjct: 65 AEQRDEPHRNILYLGHLPGLKPELSALENL 94
>gnl|CDD|213193 cd03226, ABC_cobalt_CbiO_domain2, Second domain of the ATP-binding
cassette component of cobalt transport system. 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 = 62.3 bits (152), Expect = 4e-13
Identities = 30/84 (35%), Positives = 44/84 (52%), Gaps = 6/84 (7%)
Query: 36 ILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKRKICY 95
IL D+S + GE++A+ G +G GKTTL LAG +K SG I LN + + + +RK
Sbjct: 15 ILDDLSLDLYAGEIIALTGKNGAGKTTLAKILAGLIKESSGSILLNGKPIKAKERRKSIG 74
Query: 96 VLQQDIFFPELTLRQTLEVSIADE 119
+ QD Q S+ +E
Sbjct: 75 YVMQD------VDYQLFTDSVREE 92
>gnl|CDD|132302 TIGR03258, PhnT, 2-aminoethylphosphonate ABC transport system,
ATP-binding component PhnT. This ATP-binding component
of an ABC transport system is found in Salmonella and
Burkholderia lineages in the vicinity of enzymes for the
breakdown of 2-aminoethylphosphonate.
Length = 362
Score = 63.5 bits (154), Expect = 5e-13
Identities = 33/91 (36%), Positives = 46/91 (50%), Gaps = 4/91 (4%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLD--SGVIR 79
+ L V +L D+S ++ GELLA++G SGCGKTTLL +AG VK +G I
Sbjct: 6 IRIDHLRVAYGANTVLDDLSLEIEAGELLALIGKSGCGKTTLLRAIAGFVKAAGLTGRIA 65
Query: 80 LNKERLNKR--WKRKICYVLQQDIFFPELTL 108
+ L KR + + Q FP L +
Sbjct: 66 IADRDLTHAPPHKRGLALLFQNYALFPHLKV 96
>gnl|CDD|213262 cd03295, ABC_OpuCA_Osmoprotection, ATP-binding cassette domain of
the osmoprotectant transporter. 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 = 61.9 bits (151), Expect = 1e-12
Identities = 25/83 (30%), Positives = 46/83 (55%), Gaps = 4/83 (4%)
Query: 32 DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNK---- 87
+ + +++ + GE L ++GPSG GKTT + + ++ SG I ++ E + +
Sbjct: 12 GGKKAVNNLNLEIAKGEFLVLIGPSGSGKTTTMKMINRLIEPTSGEIFIDGEDIREQDPV 71
Query: 88 RWKRKICYVLQQDIFFPELTLRQ 110
+RKI YV+QQ FP +T+ +
Sbjct: 72 ELRRKIGYVIQQIGLFPHMTVEE 94
>gnl|CDD|224048 COG1123, COG1123, ATPase components of various ABC-type transport
systems, contain duplicated ATPase [General function
prediction only].
Length = 539
Score = 62.6 bits (153), Expect = 1e-12
Identities = 27/85 (31%), Positives = 42/85 (49%), Gaps = 8/85 (9%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERL-----NKRWKR 91
+ DVS ++ GE L ++G SG GK+TL LAG + SG I + + L R R
Sbjct: 307 VDDVSFDLREGETLGLVGESGSGKSTLARILAGLLPPSSGSIIFDGQDLDLTGGELRRLR 366
Query: 92 KICYVLQQDIFF---PELTLRQTLE 113
+ ++ QD + P +T+ L
Sbjct: 367 RRIQMVFQDPYSSLNPRMTVGDILA 391
Score = 58.4 bits (142), Expect = 4e-11
Identities = 30/98 (30%), Positives = 48/98 (48%), Gaps = 17/98 (17%)
Query: 17 HRPLELVFSGLSVTL----DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL----- 67
PL L L+V + P ++DVS V+PGE+L ++G SG GK+TL L
Sbjct: 2 MSPL-LEVENLTVEFATDGGRVPAVRDVSFEVEPGEILGIVGESGSGKSTLALALMGLLP 60
Query: 68 ------AGRVKLDSG-VIRLNKERLNKRWKRKICYVLQ 98
+G V LD ++ L++ + K ++I + Q
Sbjct: 61 EGGRITSGEVILDGRDLLGLSEREMRKLRGKRIAMIFQ 98
>gnl|CDD|223488 COG0411, LivG, ABC-type branched-chain amino acid transport
systems, ATPase component [Amino acid transport and
metabolism].
Length = 250
Score = 61.4 bits (150), Expect = 1e-12
Identities = 32/99 (32%), Positives = 47/99 (47%), Gaps = 12/99 (12%)
Query: 15 LSHRPLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLD 74
L R L F GL+ + DVS V+PGE++ ++GP+G GKTTL N + G K
Sbjct: 5 LEVRGLSKRFGGLTA-------VNDVSLEVRPGEIVGLIGPNGAGKTTLFNLITGFYKPS 57
Query: 75 SGVIRLNKERL-----NKRWKRKICYVLQQDIFFPELTL 108
SG + + ++ + I Q FP LT+
Sbjct: 58 SGTVIFRGRDITGLPPHRIARLGIARTFQITRLFPGLTV 96
>gnl|CDD|131197 TIGR02142, modC_ABC, molybdenum ABC transporter, ATP-binding
protein. This model represents the ATP-binding cassette
(ABC) protein of the three subunit molybdate ABC
transporter. The three proteins of this complex are
homologous to proteins of the sulfate ABC transporter.
Molybdenum may be used in nitrogenases of
nitrogen-fixing bacteria and in molybdopterin cofactors.
In some cases, molybdate may be transported by a sulfate
transporter rather than by a specific molybdate
transporter [Transport and binding proteins, Anions].
Length = 354
Score = 61.3 bits (149), Expect = 3e-12
Identities = 30/83 (36%), Positives = 40/83 (48%), Gaps = 8/83 (9%)
Query: 39 DVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLN---KRW-----K 90
D + + A+ G SG GKTTL+ +AG + D G I LN L K K
Sbjct: 15 DADFTLPGQGVTAIFGRSGSGKTTLIRLIAGLTRPDEGEIVLNGRTLFDSRKGIFLPPEK 74
Query: 91 RKICYVLQQDIFFPELTLRQTLE 113
R+I YV Q+ FP L++R L
Sbjct: 75 RRIGYVFQEARLFPHLSVRGNLR 97
>gnl|CDD|213235 cd03268, ABC_BcrA_bacitracin_resist, ATP-binding cassette domain of
the bacitracin-resistance transporter. 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 multi-enzyme 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 = 59.9 bits (146), Expect = 4e-12
Identities = 32/93 (34%), Positives = 53/93 (56%), Gaps = 2/93 (2%)
Query: 25 SGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKER 84
+ L+ T K+ +L D+S VK GE+ +GP+G GKTT + + G +K DSG I + +
Sbjct: 4 NDLTKTYGKKRVLDDISLHVKKGEIYGFLGPNGAGKTTTMKIILGLIKPDSGEITFDGKS 63
Query: 85 LNKRWK--RKICYVLQQDIFFPELTLRQTLEVS 115
K + R+I +++ F+P LT R+ L +
Sbjct: 64 YQKNIEALRRIGALIEAPGFYPNLTARENLRLL 96
>gnl|CDD|188353 TIGR03608, L_ocin_972_ABC, putative bacteriocin export ABC
transporter, lactococcin 972 group. A gene pair with a
fairly wide distribution consists of a polypeptide
related to the lactococcin 972 (see TIGR01653) and
multiple-membrane-spanning putative immunity protein
(see TIGR01654). This model represents a small clade
within the ABC transporters that regularly are found
adjacent to these bacteriocin system gene pairs and are
likely serve as export proteins [Cellular processes,
Toxin production and resistance, Transport and binding
proteins, Unknown substrate].
Length = 206
Score = 59.6 bits (145), Expect = 5e-12
Identities = 28/97 (28%), Positives = 48/97 (49%), Gaps = 8/97 (8%)
Query: 26 GLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN---K 82
+S + IL D++ ++ G++ A++G SG GK+TLLN + K DSG + LN
Sbjct: 3 NISKKFGDKVILDDLNLTIEKGKMYAIIGESGSGKSTLLNIIGLLEKFDSGQVYLNGQET 62
Query: 83 ERLNKRWKR-----KICYVLQQDIFFPELTLRQTLEV 114
LN + K+ Y+ Q T+ + L++
Sbjct: 63 PPLNSKKASKFRREKLGYLFQNFALIENETVEENLDL 99
>gnl|CDD|226647 COG4181, COG4181, Predicted ABC-type transport system involved in
lysophospholipase L1 biosynthesis, ATPase component
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 228
Score = 59.3 bits (144), Expect = 7e-12
Identities = 28/53 (52%), Positives = 35/53 (66%)
Query: 35 PILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNK 87
ILK V VVK GE +A++GPSG GK+TLL LAG SG +RL + L+K
Sbjct: 24 SILKGVELVVKRGETVAIVGPSGSGKSTLLAVLAGLDDPSSGEVRLLGQPLHK 76
>gnl|CDD|223562 COG0488, Uup, ATPase components of ABC transporters with duplicated
ATPase domains [General function prediction only].
Length = 530
Score = 60.3 bits (147), Expect = 8e-12
Identities = 31/100 (31%), Positives = 51/100 (51%), Gaps = 7/100 (7%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
+ LS+ RP+L++VS + PGE + ++G +G GK+TLL LAG ++ DSG +
Sbjct: 4 ITLENLSLAYGDRPLLENVSLTLNPGERIGLVGRNGAGKSTLLKILAGELEPDSGEVTRP 63
Query: 82 KERLNKRWKRKICYVLQQDIFFPELTLRQTLEVSIADEDE 121
K R + Y+ Q+ PE T+ + + E
Sbjct: 64 K---GLR----VGYLSQEPPLDPEKTVLDYVIEGFGELRE 96
Score = 59.2 bits (144), Expect = 2e-11
Identities = 35/108 (32%), Positives = 54/108 (50%), Gaps = 11/108 (10%)
Query: 8 LPPEKYPLSHRPLELVFSGLSVTLDK-RPILKDVSGVVKPGELLAVMGPSGCGKTTLLNC 66
PP L LE +S D R +LKD+S + G+ +A++GP+G GK+TLL
Sbjct: 310 FPPPGKRLGKLVLEFE--NVSKGYDGGRLLLKDLSFRIDRGDRIAIVGPNGAGKSTLLKL 367
Query: 67 LAGRVKLDSGVIRLNKERLNKRWKRKICYVLQ-QDIFFPELTLRQTLE 113
LAG + SG +++ + KI Y Q +D P+ T+ + L
Sbjct: 368 LAGELGPLSGTVKVGE-------TVKIGYFDQHRDELDPDKTVLEELS 408
>gnl|CDD|224047 COG1122, CbiO, ABC-type cobalt transport system, ATPase component
[Inorganic ion transport and metabolism].
Length = 235
Score = 59.2 bits (144), Expect = 8e-12
Identities = 29/104 (27%), Positives = 50/104 (48%), Gaps = 13/104 (12%)
Query: 22 LVFSGLSVTL-DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRL 80
+ LS ++ LKDVS ++ GE + ++GP+G GK+TLL L G +K SG + +
Sbjct: 4 IEAENLSFRYPGRKAALKDVSLEIEKGERVLLIGPNGSGKSTLLKLLNGLLKPTSGEVLV 63
Query: 81 NKERLN-----KRWKRKICYVLQQDIFFPELTLRQTLEVSIADE 119
+ + ++K+ V Q P+ Q ++ DE
Sbjct: 64 DGLDTSSEKSLLELRQKVGLVFQ----NPD---DQLFGPTVEDE 100
>gnl|CDD|213217 cd03250, ABCC_MRP_domain1, ATP-binding cassette domain 1 of
multidrug resistance-associated protein, subfamily C.
This subfamily is also known as MRP (multidrug
resistance-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-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 = 58.6 bits (143), Expect = 1e-11
Identities = 23/65 (35%), Positives = 36/65 (55%), Gaps = 9/65 (13%)
Query: 35 PILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKRKIC 94
LKD++ V GEL+A++GP G GK++LL+ L G ++ SG + + I
Sbjct: 19 FTLKDINLEVPKGELVAIVGPVGSGKSSLLSALLGELEKLSGSVSVPG---------SIA 69
Query: 95 YVLQQ 99
YV Q+
Sbjct: 70 YVSQE 74
>gnl|CDD|182716 PRK10771, thiQ, thiamine transporter ATP-binding subunit;
Provisional.
Length = 232
Score = 58.8 bits (143), Expect = 1e-11
Identities = 26/71 (36%), Positives = 42/71 (59%), Gaps = 2/71 (2%)
Query: 44 VKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKE--RLNKRWKRKICYVLQQDI 101
V+ GE +A++GPSG GK+TLLN +AG + SG + LN + +R + + Q++
Sbjct: 22 VERGERVAILGPSGAGKSTLLNLIAGFLTPASGSLTLNGQDHTTTPPSRRPVSMLFQENN 81
Query: 102 FFPELTLRQTL 112
F LT+ Q +
Sbjct: 82 LFSHLTVAQNI 92
>gnl|CDD|213227 cd03260, ABC_PstB_phosphate_transporter, ATP-binding cassette
domain of the phosphate transport system. 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. PstA 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 = 58.3 bits (142), Expect = 2e-11
Identities = 24/63 (38%), Positives = 34/63 (53%), Gaps = 5/63 (7%)
Query: 24 FSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKL-----DSGVI 78
L+V + LKD+S + GE+ A++GPSGCGK+TLL L L D G +
Sbjct: 3 LRDLNVYYGDKHALKDISLDIPKGEITALIGPSGCGKSTLLRLLNRLNDLIPGAPDEGEV 62
Query: 79 RLN 81
L+
Sbjct: 63 LLD 65
>gnl|CDD|213218 cd03251, ABCC_MsbA, ATP-binding cassette domain of the bacterial
lipid flippase and related proteins, subfamily C. 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 = 58.4 bits (142), Expect = 2e-11
Identities = 28/82 (34%), Positives = 43/82 (52%), Gaps = 16/82 (19%)
Query: 32 DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL-------AGRVKLDSGVIR---LN 81
D P+L+D+S + GE +A++GPSG GK+TL+N + +GR+ +D +R L
Sbjct: 13 DGPPVLRDISLDIPAGETVALVGPSGSGKSTLVNLIPRFYDVDSGRILIDGHDVRDYTLA 72
Query: 82 KERLNKRWKRKICYVLQQDIFF 103
R R+I V Q F
Sbjct: 73 SLR------RQIGLVSQDVFLF 88
>gnl|CDD|234200 TIGR03411, urea_trans_UrtD, urea ABC transporter, ATP-binding
protein UrtD. Members of this protein family are ABC
transporter ATP-binding subunits associated with urea
transport and metabolism. This protein is found in a
conserved five-gene transport operon typically found
adjacent to urease genes. It was shown in Cyanobacteria
that disruption leads to the loss of high-affinity urea
transport activity [Transport and binding proteins,
Amino acids, peptides and amines].
Length = 242
Score = 58.3 bits (142), Expect = 2e-11
Identities = 32/99 (32%), Positives = 51/99 (51%), Gaps = 5/99 (5%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
L GLSV+ D L D+S V PGEL ++GP+G GKTT+++ + G+ + D G +
Sbjct: 3 LYLEGLSVSFDGFKALNDLSLYVDPGELRVIIGPNGAGKTTMMDVITGKTRPDEGSVLFG 62
Query: 82 KERLNKRWKRKI-----CYVLQQDIFFPELTLRQTLEVS 115
L + +I Q+ F LT+ + LE++
Sbjct: 63 GTDLTGLPEHQIARAGIGRKFQKPTVFENLTVFENLELA 101
>gnl|CDD|224044 COG1119, ModF, ABC-type molybdenum transport system, ATPase
component/photorepair protein PhrA [Inorganic ion
transport and metabolism].
Length = 257
Score = 58.5 bits (142), Expect = 2e-11
Identities = 35/110 (31%), Positives = 55/110 (50%), Gaps = 9/110 (8%)
Query: 9 PPEKYPLSHRPLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLA 68
P +++P+ + +SV + + IL D+S V PGE A++GP+G GKTTLL+ L
Sbjct: 19 PKKRHPIEINEPLIELKNVSVRRNGKKILGDLSWQVNPGEHWAIVGPNGAGKTTLLSLLT 78
Query: 69 GRVKLDSGVIRLNKERLNKR---W--KRKICYV---LQQDIFFPELTLRQ 110
G SG + L R K + +++I V L + F T+R
Sbjct: 79 GEHPPSSGDVTLLGRRFGKGETIFELRKRIGLVSSELHER-FRVRETVRD 127
>gnl|CDD|213184 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 multi-protein
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 = 57.5 bits (140), Expect = 2e-11
Identities = 23/64 (35%), Positives = 36/64 (56%), Gaps = 2/64 (3%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAG--RVKLDSGVIR 79
L L V++ + ILK V+ +K GE+ A+MGP+G GK+TL + G + ++ G I
Sbjct: 1 LEIKDLHVSVGGKEILKGVNLTIKKGEVHALMGPNGSGKSTLAKTIMGHPKYEVTEGEIL 60
Query: 80 LNKE 83
E
Sbjct: 61 FKGE 64
>gnl|CDD|183226 PRK11607, potG, putrescine transporter ATP-binding subunit;
Provisional.
Length = 377
Score = 58.7 bits (142), Expect = 2e-11
Identities = 36/106 (33%), Positives = 56/106 (52%), Gaps = 3/106 (2%)
Query: 9 PPEKYPLSHRPLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLA 68
P K + PL L L+ + D + + DVS + GE+ A++G SGCGK+TLL LA
Sbjct: 8 PQAKTRKALTPL-LEIRNLTKSFDGQHAVDDVSLTIYKGEIFALLGASGCGKSTLLRMLA 66
Query: 69 GRVKLDSGVIRLNKERLNK--RWKRKICYVLQQDIFFPELTLRQTL 112
G + +G I L+ L+ ++R I + Q FP +T+ Q +
Sbjct: 67 GFEQPTAGQIMLDGVDLSHVPPYQRPINMMFQSYALFPHMTVEQNI 112
>gnl|CDD|213266 cd03299, ABC_ModC_like, ATP-binding cassette domain similar to the
molybdate transporter. Archaeal 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 = 57.7 bits (140), Expect = 3e-11
Identities = 31/79 (39%), Positives = 46/79 (58%), Gaps = 2/79 (2%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLN--KRWKRKIC 94
LK+VS V+ G+ ++GP+G GK+ LL +AG +K DSG I LN + + KR I
Sbjct: 15 LKNVSLEVERGDYFVILGPTGSGKSVLLETIAGFIKPDSGKILLNGKDITNLPPEKRDIS 74
Query: 95 YVLQQDIFFPELTLRQTLE 113
YV Q FP +T+ + +
Sbjct: 75 YVPQNYALFPHMTVYKNIA 93
>gnl|CDD|226970 COG4619, COG4619, ABC-type uncharacterized transport system, ATPase
component [General function prediction only].
Length = 223
Score = 57.6 bits (139), Expect = 3e-11
Identities = 24/76 (31%), Positives = 42/76 (55%), Gaps = 4/76 (5%)
Query: 34 RPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLN----KRW 89
IL ++S V+ GE +A+ GPSGCGK+TLL +A + SG + E ++ + +
Sbjct: 16 AKILNNISLSVRAGEFIAITGPSGCGKSTLLKIVASLISPTSGTLLFEGEDVSTLKPEAY 75
Query: 90 KRKICYVLQQDIFFPE 105
++++ Y Q F +
Sbjct: 76 RQQVSYCAQTPALFGD 91
>gnl|CDD|213214 cd03247, ABCC_cytochrome_bd, ATP-binding cassette domain of CydCD,
subfamily C. 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 subtilis, 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 = 56.6 bits (137), Expect = 4e-11
Identities = 29/80 (36%), Positives = 44/80 (55%), Gaps = 2/80 (2%)
Query: 35 PILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWK--RK 92
+LK++S +K GE +A++G SG GK+TLL L G +K G I L+ ++ K
Sbjct: 16 QVLKNLSLELKQGEKIALLGRSGSGKSTLLQLLTGDLKPQQGEITLDGVPVSDLEKALSS 75
Query: 93 ICYVLQQDIFFPELTLRQTL 112
+ VL Q + + TLR L
Sbjct: 76 LISVLNQRPYLFDTTLRNNL 95
>gnl|CDD|234357 TIGR03797, NHLM_micro_ABC2, NHLM bacteriocin system ABC
transporter, ATP-binding protein. Members of this
protein family are ABC transporter ATP-binding subunits,
part of a three-gene putative bacteriocin transport
operon. The other subunits include another ATP-binding
subunit (TIGR03796), which has an N-terminal leader
sequence cleavage domain, and an HlyD homolog
(TIGR03794). In a number of genomes, members of protein
families related to nitrile hydratase alpha subunit or
to nif11 have undergone paralogous family expansions,
with members possessing a putative bacteriocin cleavage
region ending with a classic Gly-Gly motif. Those sets
of putative bacteriocins, members of this protein family
and its partners TIGR03794 and TIGR03796, and
cyclodehydratase/docking scaffold fusion proteins of
thiazole/oxazole biosynthesis frequently show correlated
species distribution and co-clustering within many of
those genomes [Transport and binding proteins, Amino
acids, peptides and amines, Cellular processes,
Biosynthesis of natural products].
Length = 686
Score = 58.0 bits (141), Expect = 4e-11
Identities = 28/81 (34%), Positives = 42/81 (51%), Gaps = 12/81 (14%)
Query: 32 DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVI--------RLNKE 83
D IL DVS ++PGE +A++GPSG GK+TLL L G +SG + L+ +
Sbjct: 464 DGPLILDDVSLQIEPGEFVAIVGPSGSGKSTLLRLLLGFETPESGSVFYDGQDLAGLDVQ 523
Query: 84 RLNKRWKRKICYVLQQDIFFP 104
+ +R++ VLQ
Sbjct: 524 AV----RRQLGVVLQNGRLMS 540
>gnl|CDD|213216 cd03249, ABC_MTABC3_MDL1_MDL2, ATP-binding cassette domain of a
mitochondrial protein MTABC3 and related proteins.
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 = 57.5 bits (140), Expect = 4e-11
Identities = 33/92 (35%), Positives = 49/92 (53%), Gaps = 15/92 (16%)
Query: 23 VFSGLSVTLDKRP---ILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL-------AGRVK 72
F +S RP ILK +S + PG+ +A++G SGCGK+T+++ L +G +
Sbjct: 2 EFKNVSFRYPSRPDVPILKGLSLTIPPGKTVALVGSSGCGKSTVVSLLERFYDPTSGEIL 61
Query: 73 LDSGVIRLNKERLNKRWKR-KICYVLQQDIFF 103
LD IR LN RW R +I V Q+ + F
Sbjct: 62 LDGVDIR----DLNLRWLRSQIGLVSQEPVLF 89
>gnl|CDD|224026 COG1101, PhnK, ABC-type uncharacterized transport system, ATPase
component [General function prediction only].
Length = 263
Score = 57.3 bits (139), Expect = 4e-11
Identities = 30/97 (30%), Positives = 52/97 (53%), Gaps = 8/97 (8%)
Query: 28 SVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNK 87
T ++ L +S + G+ + V+G +G GK+TLLN +AG +K SG I ++ + K
Sbjct: 13 KGTPLEKRALNGLSLEIAEGDFVTVIGSNGAGKSTLLNAIAGDLKPTSGQILIDGVDVTK 72
Query: 88 R--WKR-KICYVLQQDIF---FPELTLRQTLEVSIAD 118
+ KR + + QD PELT+ + L ++A+
Sbjct: 73 KSVAKRANLLARVFQDPLAGTAPELTIEENL--ALAE 107
>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and
permease components [Defense mechanisms].
Length = 567
Score = 57.8 bits (140), Expect = 5e-11
Identities = 31/103 (30%), Positives = 52/103 (50%), Gaps = 5/103 (4%)
Query: 6 PSLPPEKYPLSHRPLELVFSGLSVTLD-KRPILKDVSGVVKPGELLAVMGPSGCGKTTLL 64
P + PL + F +S + K+P+LKD+S ++PGE +A++GPSG GK+TL+
Sbjct: 313 PEVEDPPDPLKDTIGSIEFENVSFSYPGKKPVLKDISFSIEPGEKVAIVGPSGSGKSTLI 372
Query: 65 NCLAGRVKLDSGVIRLNKERLN----KRWKRKICYVLQQDIFF 103
L SG I ++ + +++I V Q + F
Sbjct: 373 KLLLRLYDPTSGEILIDGIDIRDISLDSLRKRIGIVSQDPLLF 415
>gnl|CDD|132027 TIGR02982, heterocyst_DevA, ABC exporter ATP-binding subunit, DevA
family. Members of this protein family are found mostly
in the Cyanobacteria, but also in the Planctomycetes.
Cyanobacterial examples are involved in heterocyst
formation, by which some fraction of members of the
colony undergo a developmental change and become capable
of nitrogen fixation. The DevBCA proteins are thought
export of either heterocyst-specific glycolipids or an
enzyme essential for formation of the laminated layer
found in heterocysts.
Length = 220
Score = 56.9 bits (138), Expect = 5e-11
Identities = 28/93 (30%), Positives = 49/93 (52%), Gaps = 11/93 (11%)
Query: 33 KRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRL---------NKE 83
++ +L D++ + PGE++ + GPSG GKTTLL + G + G +++ KE
Sbjct: 17 RKQVLFDINLEINPGEIVILTGPSGSGKTTLLTLIGGLRSVQEGSLKVLGQELYGASEKE 76
Query: 84 RLNKRWKRKICYVLQQDIFFPELTLRQTLEVSI 116
+ R R I Y+ Q LT RQ +++++
Sbjct: 77 LVQLR--RNIGYIFQAHNLLGFLTARQNVQMAL 107
>gnl|CDD|237421 PRK13539, PRK13539, cytochrome c biogenesis protein CcmA;
Provisional.
Length = 207
Score = 56.8 bits (138), Expect = 5e-11
Identities = 27/90 (30%), Positives = 46/90 (51%), Gaps = 1/90 (1%)
Query: 25 SGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKER 84
L+ R + +S + GE L + GP+G GKTTLL +AG + +G I+L+
Sbjct: 6 EDLACVRGGRVLFSGLSFTLAAGEALVLTGPNGSGKTTLLRLIAGLLPPAAGTIKLDGGD 65
Query: 85 LNKRWKRKIC-YVLQQDIFFPELTLRQTLE 113
++ + C Y+ ++ P LT+ + LE
Sbjct: 66 IDDPDVAEACHYLGHRNAMKPALTVAENLE 95
>gnl|CDD|226631 COG4152, COG4152, ABC-type uncharacterized transport system, ATPase
component [General function prediction only].
Length = 300
Score = 57.4 bits (139), Expect = 6e-11
Identities = 25/91 (27%), Positives = 49/91 (53%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
L G++ + + + ++S V PGE+ ++GP+G GKTT + G ++ G I N
Sbjct: 3 LEIEGVTKSFGDKKAVDNISFEVPPGEIFGLLGPNGAGKTTTFRMILGLLEPTEGEITWN 62
Query: 82 KERLNKRWKRKICYVLQQDIFFPELTLRQTL 112
L++ K +I Y+ ++ +P++T+ L
Sbjct: 63 GGPLSQEIKNRIGYLPEERGLYPKMTVEDQL 93
>gnl|CDD|226617 COG4133, CcmA, ABC-type transport system involved in cytochrome c
biogenesis, ATPase component [Posttranslational
modification, protein turnover, chaperones].
Length = 209
Score = 56.5 bits (137), Expect = 6e-11
Identities = 29/90 (32%), Positives = 46/90 (51%), Gaps = 3/90 (3%)
Query: 26 GLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERL 85
LS +R + D+S + GE L + GP+G GKTTLL LAG ++ D+G + E +
Sbjct: 7 NLSCERGERTLFSDLSFTLNAGEALQITGPNGAGKTTLLRILAGLLRPDAGEVYWQGEPI 66
Query: 86 N---KRWKRKICYVLQQDIFFPELTLRQTL 112
+ + + + Y+ Q ELT + L
Sbjct: 67 QNVRESYHQALLYLGHQPGIKTELTALENL 96
>gnl|CDD|226969 COG4618, ArpD, ABC-type protease/lipase transport system, ATPase
and permease components [General function prediction
only].
Length = 580
Score = 57.7 bits (140), Expect = 6e-11
Identities = 31/74 (41%), Positives = 44/74 (59%), Gaps = 7/74 (9%)
Query: 33 KRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKRK 92
K+PILK +S ++ GE L ++GPSG GK+TL L G SG +RL+ L ++W R+
Sbjct: 348 KKPILKGISFALQAGEALGIIGPSGSGKSTLARLLVGIWPPTSGSVRLDGADL-RQWDRE 406
Query: 93 -----ICYVLQQDI 101
I Y L QD+
Sbjct: 407 QLGRHIGY-LPQDV 419
>gnl|CDD|183280 PRK11701, phnK, phosphonate C-P lyase system protein PhnK;
Provisional.
Length = 258
Score = 57.2 bits (139), Expect = 6e-11
Identities = 27/61 (44%), Positives = 37/61 (60%), Gaps = 1/61 (1%)
Query: 19 PLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVI 78
PL L GL+ R +DVS + PGE+L ++G SG GKTTLLN L+ R+ D+G +
Sbjct: 5 PL-LSVRGLTKLYGPRKGCRDVSFDLYPGEVLGIVGESGSGKTTLLNALSARLAPDAGEV 63
Query: 79 R 79
Sbjct: 64 H 64
>gnl|CDD|226628 COG4148, ModC, ABC-type molybdate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 352
Score = 57.0 bits (138), Expect = 1e-10
Identities = 29/70 (41%), Positives = 36/70 (51%), Gaps = 8/70 (11%)
Query: 51 AVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLN--------KRWKRKICYVLQQDIF 102
A+ GPSG GKT+L+N +AG + D G I LN L KR+I YV Q
Sbjct: 28 ALFGPSGSGKTSLINMIAGLTRPDEGRIELNGRVLVDAEKGIFLPPEKRRIGYVFQDARL 87
Query: 103 FPELTLRQTL 112
FP T+R L
Sbjct: 88 FPHYTVRGNL 97
>gnl|CDD|213183 cd03216, ABC_Carb_Monos_I, First domain of the ATP-binding
cassette component of monosaccharide transport system.
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 = 55.1 bits (134), Expect = 1e-10
Identities = 20/52 (38%), Positives = 33/52 (63%)
Query: 35 PILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLN 86
L VS V+ GE+ A++G +G GK+TL+ L+G K DSG I ++ + ++
Sbjct: 14 KALDGVSLSVRRGEVHALLGENGAGKSTLMKILSGLYKPDSGEILVDGKEVS 65
>gnl|CDD|200134 TIGR01842, type_I_sec_PrtD, type I secretion system ABC
transporter, PrtD family. Type I protein secretion is a
system in some Gram-negative bacteria to export proteins
(often proteases) across both inner and outer membranes
to the extracellular medium. This is one of three
proteins of the type I secretion apparatus. Targeted
proteins are not cleaved at the N-terminus, but rather
carry signals located toward the extreme C-terminus to
direct type I secretion [Protein fate, Protein and
peptide secretion and trafficking].
Length = 544
Score = 57.0 bits (138), Expect = 1e-10
Identities = 29/74 (39%), Positives = 43/74 (58%), Gaps = 7/74 (9%)
Query: 33 KRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKRK 92
K+P L+ +S ++ GE LA++GPSG GK+TL + G SG +RL+ L +W R+
Sbjct: 330 KKPTLRGISFSLQAGEALAIIGPSGSGKSTLARLIVGIWPPTSGSVRLDGADLK-QWDRE 388
Query: 93 -----ICYVLQQDI 101
I Y L QD+
Sbjct: 389 TFGKHIGY-LPQDV 401
>gnl|CDD|183133 PRK11432, fbpC, ferric transporter ATP-binding subunit;
Provisional.
Length = 351
Score = 56.3 bits (136), Expect = 2e-10
Identities = 28/89 (31%), Positives = 49/89 (55%), Gaps = 2/89 (2%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
+V ++ ++ +++ +K G ++ ++GPSGCGKTT+L +AG K G I ++
Sbjct: 7 VVLKNITKRFGSNTVIDNLNLTIKQGTMVTLLGPSGCGKTTVLRLVAGLEKPTEGQIFID 66
Query: 82 KERLNKR--WKRKICYVLQQDIFFPELTL 108
E + R +R IC V Q FP ++L
Sbjct: 67 GEDVTHRSIQQRDICMVFQSYALFPHMSL 95
>gnl|CDD|223473 COG0396, sufC, Cysteine desulfurase activator ATPase
[Posttranslational modification, protein turnover,
chaperones].
Length = 251
Score = 55.7 bits (135), Expect = 2e-10
Identities = 22/54 (40%), Positives = 32/54 (59%), Gaps = 2/54 (3%)
Query: 32 DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGR--VKLDSGVIRLNKE 83
K+ ILK V+ VK GE+ A+MGP+G GK+TL + G ++ G I + E
Sbjct: 15 GKKEILKGVNLTVKEGEVHAIMGPNGSGKSTLAYTIMGHPKYEVTEGEILFDGE 68
>gnl|CDD|227019 COG4674, COG4674, Uncharacterized ABC-type transport system, ATPase
component [General function prediction only].
Length = 249
Score = 55.4 bits (134), Expect = 2e-10
Identities = 31/96 (32%), Positives = 50/96 (52%), Gaps = 6/96 (6%)
Query: 26 GLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSG------VIR 79
G+SV+ L D+S V PGEL ++GP+G GKTTL++ + G+ + G
Sbjct: 10 GVSVSFGGFKALNDLSFSVDPGELRVLIGPNGAGKTTLMDVITGKTRPQEGEVLFDGDTD 69
Query: 80 LNKERLNKRWKRKICYVLQQDIFFPELTLRQTLEVS 115
L K ++ + I Q+ F LT+R+ LE++
Sbjct: 70 LTKLPEHRIARAGIGRKFQKPTVFENLTVRENLELA 105
>gnl|CDD|184129 PRK13543, PRK13543, cytochrome c biogenesis protein CcmA;
Provisional.
Length = 214
Score = 55.2 bits (133), Expect = 2e-10
Identities = 25/68 (36%), Positives = 38/68 (55%)
Query: 14 PLSHRPLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKL 73
PL P L L+ + ++ P+ + V GE L V G +G GKTTLL LAG + +
Sbjct: 4 PLHTAPPLLAAHALAFSRNEEPVFGPLDFHVDAGEALLVQGDNGAGKTTLLRVLAGLLHV 63
Query: 74 DSGVIRLN 81
+SG I+++
Sbjct: 64 ESGQIQID 71
>gnl|CDD|226929 COG4559, COG4559, ABC-type hemin transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 259
Score = 55.4 bits (134), Expect = 3e-10
Identities = 29/62 (46%), Positives = 41/62 (66%)
Query: 25 SGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKER 84
LS +L R +L VS ++PGE+LA++GP+G GK+TLL L+G + DSG + LN
Sbjct: 5 ENLSYSLAGRRLLDGVSLDLRPGEVLAILGPNGAGKSTLLKALSGELSPDSGEVTLNGVP 64
Query: 85 LN 86
LN
Sbjct: 65 LN 66
>gnl|CDD|130254 TIGR01186, proV, glycine betaine/L-proline transport ATP binding
subunit. This model describes 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
transporter is the obligatory coupling of ATP hydrolysis
to substrate translocation. The minimal configuration of
bacterial ABC transport system: an ATPase or ATP binding
subunit; An integral membrane protein; a hydrophilic
polypetpide, which likely functions as substrate binding
protein. Functionally, this transport system is involved
in osmoregulation. Under conditions of stress, the
organism recruits these transport system to accumulate
glycine betaine and other solutes which offer
osmo-protection. It has been demonstrated that glycine
betaine uptake is accompanied by symport with sodium
ions. The locus has been named variously as proU or
opuA. A gene library from L.lactis functionally
complements an E.coli proU mutant. The comlementing
locus is similar to a opuA locus in B.sutlis. This
clarifies the differences in nomenclature [Transport and
binding proteins, Amino acids, peptides and amines].
Length = 363
Score = 55.6 bits (134), Expect = 3e-10
Identities = 25/85 (29%), Positives = 41/85 (48%), Gaps = 8/85 (9%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCL-------AGRVKLDSGVI-RLNKERLNKR 88
+ D + GE+ +MG SG GK+T + L AG++ +D I + + L +
Sbjct: 9 VNDADLAIAKGEIFVIMGLSGSGKSTTVRMLNRLIEPTAGQIFIDGENIMKQSPVELREV 68
Query: 89 WKRKICYVLQQDIFFPELTLRQTLE 113
++KI V QQ FP +T+ Q
Sbjct: 69 RRKKIGMVFQQFALFPHMTILQNTS 93
>gnl|CDD|226592 COG4107, PhnK, ABC-type phosphonate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 258
Score = 54.8 bits (132), Expect = 4e-10
Identities = 28/64 (43%), Positives = 40/64 (62%), Gaps = 1/64 (1%)
Query: 15 LSHRPLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLD 74
+ +PL L SGLS +DVS + PGE+L ++G SG GKTTLL C++GR+ D
Sbjct: 1 MMDKPL-LSVSGLSKLYGPGKGCRDVSFDLYPGEVLGIVGESGSGKTTLLKCISGRLTPD 59
Query: 75 SGVI 78
+G +
Sbjct: 60 AGTV 63
>gnl|CDD|236997 PRK11831, PRK11831, putative ABC transporter ATP-binding protein
YrbF; Provisional.
Length = 269
Score = 54.8 bits (132), Expect = 5e-10
Identities = 25/58 (43%), Positives = 35/58 (60%)
Query: 26 GLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKE 83
G+S T R I ++S V G++ A+MGPSG GKTTLL + G++ D G I + E
Sbjct: 12 GVSFTRGNRCIFDNISLTVPRGKITAIMGPSGIGKTTLLRLIGGQIAPDHGEILFDGE 69
>gnl|CDD|236865 PRK11160, PRK11160, cysteine/glutathione ABC transporter
membrane/ATP-binding component; Reviewed.
Length = 574
Score = 54.8 bits (133), Expect = 6e-10
Identities = 33/120 (27%), Positives = 53/120 (44%), Gaps = 22/120 (18%)
Query: 2 VSNIPSLPPE-KYPLSHRP----LELVFSGLSVTLDKR--PILKDVSGVVKPGELLAVMG 54
++ I PE +P + + L + +S T + P+LK +S +K GE +A++G
Sbjct: 314 INEITEQKPEVTFPTTSTAAADQVSLTLNNVSFTYPDQPQPVLKGLSLQIKAGEKVALLG 373
Query: 55 PSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKRKICYVLQQDIFFPELTLRQTLEV 114
+GCGK+TLL L G I LN + + + E LRQ + V
Sbjct: 374 RTGCGKSTLLQLLTRAWDPQQGEILLNGQPIAD---------------YSEAALRQAISV 418
>gnl|CDD|188394 TIGR03864, PQQ_ABC_ATP, ABC transporter, ATP-binding subunit,
PQQ-dependent alcohol dehydrogenase system. Members of
this protein family are the ATP-binding subunit of an
ABC transporter system that is associated with PQQ
biosynthesis and PQQ-dependent alcohol dehydrogenases.
While this family shows homology to several efflux ABC
transporter subunits, the presence of a periplasmic
substrate-binding protein and association with systems
for catabolism of alcohols suggests a role in import
rather than detoxification [Transport and binding
proteins, Carbohydrates, organic alcohols, and acids].
Length = 236
Score = 54.2 bits (131), Expect = 6e-10
Identities = 31/94 (32%), Positives = 46/94 (48%), Gaps = 3/94 (3%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
L +GLS R L DVS V+PG +A++GP+G GK+TL + L G I +
Sbjct: 2 LEVAGLSFRYGARRALDDVSFTVRPGRFVALLGPNGAGKSTLFSLLTRLYVAQEGQISVA 61
Query: 82 KERLN---KRWKRKICYVLQQDIFFPELTLRQTL 112
L + ++ V QQ +L++RQ L
Sbjct: 62 GHDLRRAPRAALARLGVVFQQPTLDLDLSVRQNL 95
>gnl|CDD|234189 TIGR03375, type_I_sec_LssB, type I secretion system ATPase, LssB
family. Type I protein secretion is a system in some
Gram-negative bacteria to export proteins (often
proteases) across both inner and outer membranes to the
extracellular medium. This is one of three proteins of
the type I secretion apparatus. Targeted proteins are
not cleaved at the N-terminus, but rather carry signals
located toward the extreme C-terminus to direct type I
secretion. This model is related to models TIGR01842 and
TIGR01846, and to bacteriocin ABC transporters that
cleave their substrates during export [Protein fate,
Protein and peptide secretion and trafficking, Cellular
processes, Pathogenesis].
Length = 694
Score = 54.5 bits (132), Expect = 8e-10
Identities = 39/125 (31%), Positives = 57/125 (45%), Gaps = 15/125 (12%)
Query: 9 PPEKYPLSHRPL--ELVFSGLSVTL--DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLL 64
P L L E+ F +S + P L +VS ++PGE +A++G G GK+TLL
Sbjct: 449 PEGTRFLHRPRLQGEIEFRNVSFAYPGQETPALDNVSLTIRPGEKVAIIGRIGSGKSTLL 508
Query: 65 NCLAGRVKLDSGVIRLNKERLNKR------WKRKICYVLQQDIFFPELTLRQ--TLEVSI 116
L G + G + L + ++ R +R I YV QD TLR L
Sbjct: 509 KLLLGLYQPTEGSVLL--DGVDIRQIDPADLRRNIGYV-PQDPRLFYGTLRDNIALGAPY 565
Query: 117 ADEDE 121
AD++E
Sbjct: 566 ADDEE 570
>gnl|CDD|213231 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 = 53.7 bits (130), Expect = 8e-10
Identities = 31/95 (32%), Positives = 52/95 (54%), Gaps = 4/95 (4%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
L L+ K+ L VS + PG + ++GP+G GKTTL+ LA SG IR++
Sbjct: 1 LQLENLTKRYGKKRALDGVSLTLGPG-MYGLLGPNGAGKTTLMRILATLTPPSSGTIRID 59
Query: 82 KERLNKRWK---RKICYVLQQDIFFPELTLRQTLE 113
+ + K+ + R+I Y+ Q+ +P T+R+ L+
Sbjct: 60 GQDVLKQPQKLRRRIGYLPQEFGVYPNFTVREFLD 94
>gnl|CDD|130234 TIGR01166, cbiO, cobalt transport protein ATP-binding subunit.
This model describes the ATP binding subunit of the
multisubunit cobalt transporter in bacteria and its
equivalents in archaea. The model is restricted to ATP
subunit that is a part of the cobalt transporter, which
belongs to the ABC transporter superfamily (ATP Binding
Cassette). The model excludes ATP binding subunit that
are associated with other transporters belonging to ABC
transporter superfamily. This superfamily includes two
groups, one which catalyze the uptake of small
molecules, including ions from the external milieu and
the other group which is engaged in the efflux of small
molecular weight compounds and ions from within the
cell. Energy derived from the hydrolysis of ATP drive
the both the process of uptake and efflux [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 190
Score = 53.2 bits (128), Expect = 1e-09
Identities = 22/78 (28%), Positives = 42/78 (53%), Gaps = 9/78 (11%)
Query: 36 ILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLN------KRW 89
+LK ++ + GE+LA++G +G GK+TLL L G ++ SG + ++ E L+
Sbjct: 7 VLKGLNFAAERGEVLALLGANGAGKSTLLLHLNGLLRPQSGAVLIDGEPLDYSRKGLLER 66
Query: 90 KRKICYVLQ---QDIFFP 104
++++ V Q +F
Sbjct: 67 RQRVGLVFQDPDDQLFAA 84
>gnl|CDD|236554 PRK09536, btuD, corrinoid ABC transporter ATPase; Reviewed.
Length = 402
Score = 54.1 bits (130), Expect = 1e-09
Identities = 27/93 (29%), Positives = 44/93 (47%), Gaps = 4/93 (4%)
Query: 25 SGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKE- 83
S LSV +L V V+ G L+ ++GP+G GKTTLL + G + +G + + +
Sbjct: 7 SDLSVEFGDTTVLDGVDLSVREGSLVGLVGPNGAGKTTLLRAINGTLTPTAGTVLVAGDD 66
Query: 84 ---RLNKRWKRKICYVLQQDIFFPELTLRQTLE 113
+ R++ V Q E +RQ +E
Sbjct: 67 VEALSARAASRRVASVPQDTSLSFEFDVRQVVE 99
>gnl|CDD|130344 TIGR01277, thiQ, thiamine ABC transporter, ATP-binding protein.
This model describes the energy-transducing ATPase
subunit ThiQ of the ThiBPQ thiamine (and thiamine
pyrophosphate) ABC transporter in several
Proteobacteria. This protein is found so far only in
Proteobacteria, and is found in complete genomes only if
the ThiB and ThiP subunits are also found [Transport and
binding proteins, Other].
Length = 213
Score = 52.9 bits (127), Expect = 1e-09
Identities = 28/75 (37%), Positives = 48/75 (64%), Gaps = 2/75 (2%)
Query: 44 VKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKR--WKRKICYVLQQDI 101
V GE++A+MGPSG GK+TLLN +AG ++ SG I++N + ++R + + Q++
Sbjct: 21 VADGEIVAIMGPSGAGKSTLLNLIAGFIEPASGSIKVNDQSHTGLAPYQRPVSMLFQENN 80
Query: 102 FFPELTLRQTLEVSI 116
F LT+RQ + + +
Sbjct: 81 LFAHLTVRQNIGLGL 95
>gnl|CDD|182893 PRK11000, PRK11000, maltose/maltodextrin transporter ATP-binding
protein; Provisional.
Length = 369
Score = 53.9 bits (130), Expect = 1e-09
Identities = 30/90 (33%), Positives = 48/90 (53%), Gaps = 9/90 (10%)
Query: 28 SVTL-------DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRL 80
SVTL I KD++ + GE + +GPSGCGK+TLL +AG + SG + +
Sbjct: 3 SVTLRNVTKAYGDVVISKDINLDIHEGEFVVFVGPSGCGKSTLLRMIAGLEDITSGDLFI 62
Query: 81 NKERLNKR--WKRKICYVLQQDIFFPELTL 108
++R+N +R + V Q +P L++
Sbjct: 63 GEKRMNDVPPAERGVGMVFQSYALYPHLSV 92
>gnl|CDD|224042 COG1117, PstB, ABC-type phosphate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 253
Score = 53.3 bits (129), Expect = 1e-09
Identities = 17/44 (38%), Positives = 28/44 (63%)
Query: 24 FSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL 67
L++ + LKD++ + ++ A++GPSGCGK+TLL CL
Sbjct: 10 VRDLNLYYGDKHALKDINLDIPKNKVTALIGPSGCGKSTLLRCL 53
>gnl|CDD|182778 PRK10851, PRK10851, sulfate/thiosulfate transporter subunit;
Provisional.
Length = 353
Score = 53.5 bits (129), Expect = 1e-09
Identities = 30/86 (34%), Positives = 48/86 (55%), Gaps = 4/86 (4%)
Query: 25 SGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKE- 83
+ + + + +L D+S + G+++A++GPSG GKTTLL +AG SG IR +
Sbjct: 6 ANIKKSFGRTQVLNDISLDIPSGQMVALLGPSGSGKTTLLRIIAGLEHQTSGHIRFHGTD 65
Query: 84 --RLNKRWKRKICYVLQQDIFFPELT 107
RL+ R RK+ +V Q F +T
Sbjct: 66 VSRLHAR-DRKVGFVFQHYALFRHMT 90
>gnl|CDD|188208 TIGR02323, CP_lyasePhnK, phosphonate C-P lyase system protein
PhnK. Members of this family are the PhnK protein of
C-P lyase systems for utilization of phosphonates.
These systems resemble phosphonatase-based systems in
having a three component ABC transporter, where
TIGR01097 is the permease, TIGR01098 is the
phosphonates binding protein, and TIGR02315 is the
ATP-binding cassette (ABC) protein. They differ,
however, in having, typically, ten or more additional
genes, many of which are believed to form a
membrane-associated complex. This protein (PhnK) and
the adjacent-encoded PhnL resemble transporter
ATP-binding proteins but are suggested, based on
mutatgenesis studies, to be part of this complex rather
than part of a transporter per se [Central intermediary
metabolism, Phosphorus compounds].
Length = 253
Score = 53.3 bits (128), Expect = 2e-09
Identities = 27/58 (46%), Positives = 35/58 (60%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIR 79
L SGLS + +DVS + PGE+L ++G SG GK+TLL CLAGR+ D G
Sbjct: 4 LQVSGLSKSYGGGKGCRDVSFDLYPGEVLGIVGESGSGKSTLLGCLAGRLAPDHGTAT 61
>gnl|CDD|225438 COG2884, FtsE, Predicted ATPase involved in cell division [Cell
division and chromosome partitioning].
Length = 223
Score = 53.0 bits (128), Expect = 2e-09
Identities = 24/66 (36%), Positives = 38/66 (57%)
Query: 34 RPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKRKI 93
R L+DVS + GE + + GPSG GK+TLL + G + G I +N L++ R+I
Sbjct: 15 REALRDVSFHIPKGEFVFLTGPSGAGKSTLLKLIYGEERPTRGKILVNGHDLSRLKGREI 74
Query: 94 CYVLQQ 99
++ +Q
Sbjct: 75 PFLRRQ 80
>gnl|CDD|226360 COG3840, ThiQ, ABC-type thiamine transport system, ATPase component
[Coenzyme metabolism].
Length = 231
Score = 53.1 bits (128), Expect = 2e-09
Identities = 26/71 (36%), Positives = 40/71 (56%), Gaps = 2/71 (2%)
Query: 44 VKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKR--WKRKICYVLQQDI 101
V GE++A++GPSG GK+TLLN +AG SG I +N +R + + Q++
Sbjct: 22 VPAGEIVAILGPSGAGKSTLLNLIAGFETPASGEILINGVDHTASPPAERPVSMLFQENN 81
Query: 102 FFPELTLRQTL 112
F LT+ Q +
Sbjct: 82 LFAHLTVAQNI 92
>gnl|CDD|131377 TIGR02324, CP_lyasePhnL, phosphonate C-P lyase system protein PhnL.
Members of this family are the PhnL protein of C-P
lyase systems for utilization of phosphonates. These
systems resemble phosphonatase-based systems in having a
three component ABC transporter, where TIGR01097 is the
permease, TIGR01098 is the phosphonates binding protein,
and TIGR02315 is the ATP-binding cassette (ABC) protein.
They differ, however, in having, typically, ten or more
additional genes, many of which are believed to form a
membrane-associated C-P lysase complex. This protein
(PhnL) and the adjacent-encoded PhnK (TIGR02323)
resemble transporter ATP-binding proteins but are
suggested, based on mutatgenesis studies, to be part of
this C-P lyase complex rather than part of a transporter
per se.
Length = 224
Score = 52.8 bits (127), Expect = 2e-09
Identities = 28/73 (38%), Positives = 40/73 (54%), Gaps = 4/73 (5%)
Query: 33 KRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKE----RLNKR 88
+ P+LK+VS V GE +A+ GPSG GK+TLL L DSG I + E L +
Sbjct: 20 RLPVLKNVSLTVNAGECVALSGPSGAGKSTLLKSLYANYLPDSGRILVRHEGAWVDLAQA 79
Query: 89 WKRKICYVLQQDI 101
R++ V ++ I
Sbjct: 80 SPREVLEVRRKTI 92
>gnl|CDD|184125 PRK13538, PRK13538, cytochrome c biogenesis protein CcmA;
Provisional.
Length = 204
Score = 52.5 bits (127), Expect = 2e-09
Identities = 24/66 (36%), Positives = 35/66 (53%), Gaps = 13/66 (19%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
++FSGLS TL GEL+ + GP+G GKT+LL LAG + D+G +
Sbjct: 15 ILFSGLSFTL-------------NAGELVQIEGPNGAGKTSLLRILAGLARPDAGEVLWQ 61
Query: 82 KERLNK 87
E + +
Sbjct: 62 GEPIRR 67
>gnl|CDD|131721 TIGR02673, FtsE, cell division ATP-binding protein FtsE. This
model describes FtsE, a member of the ABC transporter
ATP-binding protein family. This protein, and its
permease partner FtsX, localize to the division site. In
a number of species, the ftsEX gene pair is located next
to FtsY, the signal recognition particle-docking protein
[Cellular processes, Cell division].
Length = 214
Score = 52.6 bits (127), Expect = 2e-09
Identities = 36/99 (36%), Positives = 47/99 (47%), Gaps = 11/99 (11%)
Query: 34 RPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKE---RLNKR-- 88
L DVS ++ GE L + GPSG GKTTLL L G + G +R+ E RL R
Sbjct: 15 VAALHDVSLHIRKGEFLFLTGPSGAGKTTLLKLLYGALTPSRGQVRIAGEDVNRLRGRQL 74
Query: 89 --WKRKICYVLQQDIFFPELTLRQ----TLEVSIADEDE 121
+R+I V Q P+ T+ + LEV E E
Sbjct: 75 PLLRRRIGVVFQDFRLLPDRTVYENVALPLEVRGKKERE 113
>gnl|CDD|182036 PRK09700, PRK09700, D-allose transporter ATP-binding protein;
Provisional.
Length = 510
Score = 53.2 bits (128), Expect = 2e-09
Identities = 35/103 (33%), Positives = 54/103 (52%), Gaps = 8/103 (7%)
Query: 21 ELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRL 80
E VF +VT R ++D+S V GE+L G G G+T L+NCL G K G IRL
Sbjct: 263 ETVFEVRNVTSRDRKKVRDISFSVCRGEILGFAGLVGSGRTELMNCLFGVDKRAGGEIRL 322
Query: 81 NKERLNKR-----WKRKICYVLQ---QDIFFPELTLRQTLEVS 115
N + ++ R K+ + Y+ + + FFP ++ Q + +S
Sbjct: 323 NGKDISPRSPLDAVKKGMAYITESRRDNGFFPNFSIAQNMAIS 365
Score = 42.5 bits (100), Expect = 1e-05
Identities = 28/78 (35%), Positives = 42/78 (53%), Gaps = 1/78 (1%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKRKICYV 96
LK V+ V PGE+ A++G +G GK+TL+ L+G + G I +N NK K+
Sbjct: 21 LKSVNLTVYPGEIHALLGENGAGKSTLMKVLSGIHEPTKGTITINNINYNK-LDHKLAAQ 79
Query: 97 LQQDIFFPELTLRQTLEV 114
L I + EL++ L V
Sbjct: 80 LGIGIIYQELSVIDELTV 97
>gnl|CDD|234041 TIGR02868, CydC, thiol reductant ABC exporter, CydC subunit. The
gene pair cydCD encodes an ABC-family transporter in
which each gene contains an N-terminal membrane-spanning
domain (pfam00664) and a C-terminal ATP-binding domain
(pfam00005). In E. coli these genes were discovered as
mutants which caused the terminal heme-copper oxidase
complex cytochrome bd to fail to assemble. Recent work
has shown that the transporter is involved in export of
redox-active thiol compounds such as cysteine and
glutathione. The linkage to assembly of the cytochrome
bd complex is further supported by the conserved operon
structure found outside the gammaproteobacteria
(cydABCD) containing both the transporter and oxidase
genes components. The genes used as the seed members for
this model are all either found in the
gammproteobacterial context or the CydABCD context. All
members of this family scoring above trusted at the time
of its creation were from genomes which encode a
cytochrome bd complex.
Length = 530
Score = 53.1 bits (128), Expect = 2e-09
Identities = 32/105 (30%), Positives = 52/105 (49%), Gaps = 6/105 (5%)
Query: 22 LVFSGLSVTL-DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRL 80
L LS P+L VS + PGE +A++GPSG GK+TLL LAG + G + L
Sbjct: 335 LELRDLSAGYPGAPPVLDGVSLDLPPGERVAILGPSGSGKSTLLATLAGLLDPLQGEVTL 394
Query: 81 NKERLNK----RWKRKICYVLQQDIFFPELTLRQTLEVSIADEDE 121
+ ++ +R++ Q F + T+R+ L ++ D +
Sbjct: 395 DGVPVSSLDQDEVRRRVSVCAQDAHLF-DTTVRENLRLARPDATD 438
>gnl|CDD|184214 PRK13657, PRK13657, cyclic beta-1,2-glucan ABC transporter;
Provisional.
Length = 588
Score = 53.0 bits (128), Expect = 3e-09
Identities = 28/79 (35%), Positives = 43/79 (54%), Gaps = 12/79 (15%)
Query: 33 KRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL-------AGRVKLDSGVIR-LNKER 84
R ++DVS KPG+ +A++GP+G GK+TL+N L +GR+ +D IR + +
Sbjct: 347 SRQGVEDVSFEAKPGQTVAIVGPTGAGKSTLINLLQRVFDPQSGRILIDGTDIRTVTRAS 406
Query: 85 LNKRWKRKICYVLQQDIFF 103
L +R I V Q F
Sbjct: 407 L----RRNIAVVFQDAGLF 421
>gnl|CDD|226967 COG4608, AppF, ABC-type oligopeptide transport system, ATPase
component [Amino acid transport and metabolism].
Length = 268
Score = 52.6 bits (127), Expect = 3e-09
Identities = 20/58 (34%), Positives = 30/58 (51%)
Query: 36 ILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKRKI 93
+ VS +K GE L ++G SGCGK+TL + G + SG I + + K K +
Sbjct: 28 AVDGVSFSIKEGETLGLVGESGCGKSTLGRLILGLEEPTSGEILFEGKDITKLSKEER 85
>gnl|CDD|224053 COG1129, MglA, ABC-type sugar transport system, ATPase component
[Carbohydrate transport and metabolism].
Length = 500
Score = 52.9 bits (128), Expect = 3e-09
Identities = 20/52 (38%), Positives = 32/52 (61%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKR 88
L VS V+PGE+ A++G +G GK+TL+ L+G DSG I ++ + +
Sbjct: 24 LDGVSLTVRPGEVHALLGENGAGKSTLMKILSGVYPPDSGEILIDGKPVAFS 75
Score = 41.0 bits (97), Expect = 4e-05
Identities = 22/63 (34%), Positives = 31/63 (49%), Gaps = 1/63 (1%)
Query: 27 LSVT-LDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERL 85
L V L ++DVS V+ GE+L + G G G+T L L G SG I L+ + +
Sbjct: 264 LEVRNLSGGGKVRDVSFTVRAGEILGIAGLVGAGRTELARALFGARPASSGEILLDGKPV 323
Query: 86 NKR 88
R
Sbjct: 324 RIR 326
>gnl|CDD|130252 TIGR01184, ntrCD, nitrate transport ATP-binding subunits C and D.
This model describes the ATP binding subunits of nitrate
transport in bacteria and archaea. This protein belongs
to the ATP-binding cassette (ABC) superfamily. It is
thought that the two subunits encoded by ntrC and ntrD
form the binding surface for interaction with ATP. This
model is restricted in identifying ATP binding subunit
associated with the nitrate transport. Nitrate
assimilation is aided by other proteins derived from the
operon which among others include products of ntrA - a
regulatory protein; ntrB - a hydropbobic transmembrane
permease and narB - a reductase [Transport and binding
proteins, Anions, Transport and binding proteins,
Other].
Length = 230
Score = 52.1 bits (125), Expect = 3e-09
Identities = 25/80 (31%), Positives = 49/80 (61%), Gaps = 1/80 (1%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKRKICYV 96
LK V+ ++ GE ++++G SGCGK+TLLN ++G + SG + L +++ + ++ V
Sbjct: 1 LKGVNLTIQQGEFISLIGHSGCGKSTLLNLISGLAQPTSGGVILEGKQITEPGPDRMV-V 59
Query: 97 LQQDIFFPELTLRQTLEVSI 116
Q P LT+R+ + +++
Sbjct: 60 FQNYSLLPWLTVRENIALAV 79
>gnl|CDD|213220 cd03253, ABCC_ATM1_transporter, ATP-binding cassette domain of
iron-sulfur clusters transporter, subfamily C. 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 = 52.2 bits (126), Expect = 3e-09
Identities = 28/80 (35%), Positives = 43/80 (53%), Gaps = 12/80 (15%)
Query: 32 DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL-------AGRVKLDSGVIR-LNKE 83
RP+LKDVS + G+ +A++GPSG GK+T+L L +G + +D IR + +
Sbjct: 12 PGRPVLKDVSFTIPAGKKVAIVGPSGSGKSTILRLLFRFYDVSSGSILIDGQDIREVTLD 71
Query: 84 RLNKRWKRKICYVLQQDIFF 103
L +R I V Q + F
Sbjct: 72 SL----RRAIGVVPQDTVLF 87
>gnl|CDD|213187 cd03220, ABC_KpsT_Wzt, ATP-binding cassette component of
polysaccharide transport system. 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 influenza) and a
cytoplasmic membrane protein MPA2.
Length = 224
Score = 52.1 bits (126), Expect = 3e-09
Identities = 30/104 (28%), Positives = 44/104 (42%), Gaps = 14/104 (13%)
Query: 12 KYPLSHRPLELVFSGLSVTL----DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL 67
YP + + + LKDVS V GE + ++G +G GK+TLL L
Sbjct: 9 SYPTYKGGSSSLKKLGILGRKGEVGEFWALKDVSFEVPRGERIGLIGRNGAGKSTLLRLL 68
Query: 68 AGRVKLDSGVIRLNKERLNKRWKRKICYVLQQDIFF-PELTLRQ 110
AG DSG + + ++ +L F PELT R+
Sbjct: 69 AGIYPPDSGTVTVR---------GRVSSLLGLGGGFNPELTGRE 103
>gnl|CDD|213261 cd03294, ABC_Pro_Gly_Betaine, ATP-binding cassette domain of the
osmoprotectant proline/glycine betaine uptake system.
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 = 52.3 bits (126), Expect = 4e-09
Identities = 25/79 (31%), Positives = 41/79 (51%), Gaps = 8/79 (10%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSG--------VIRLNKERLNKR 88
+ DVS V+ GE+ +MG SG GK+TLL C+ ++ SG + ++++ L +
Sbjct: 40 VNDVSLDVREGEIFVIMGLSGSGKSTLLRCINRLIEPTSGKVLIDGQDIAAMSRKELREL 99
Query: 89 WKRKICYVLQQDIFFPELT 107
++KI V Q P T
Sbjct: 100 RRKKISMVFQSFALLPHRT 118
>gnl|CDD|213232 cd03265, ABC_DrrA, Daunorubicin/doxorubicin resistance ATP-binding
protein. 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 = 51.6 bits (124), Expect = 5e-09
Identities = 26/81 (32%), Positives = 41/81 (50%), Gaps = 3/81 (3%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSG---VIRLNKERLNKRWKRKI 93
++ VS V+ GE+ ++GP+G GKTT + L +K SG V + R + +R+I
Sbjct: 16 VRGVSFRVRRGEIFGLLGPNGAGKTTTIKMLTTLLKPTSGRATVAGHDVVREPREVRRRI 75
Query: 94 CYVLQQDIFFPELTLRQTLEV 114
V Q ELT + L +
Sbjct: 76 GIVFQDLSVDDELTGWENLYI 96
>gnl|CDD|224057 COG1134, TagH, ABC-type polysaccharide/polyol phosphate transport
system, ATPase component [Carbohydrate transport and
metabolism / Cell envelope biogenesis, outer membrane].
Length = 249
Score = 51.5 bits (124), Expect = 7e-09
Identities = 25/79 (31%), Positives = 42/79 (53%), Gaps = 10/79 (12%)
Query: 35 PILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKRKIC 94
LKD+S + GE + ++G +G GK+TLL +AG K SG +++ K+
Sbjct: 41 WALKDISFEIYKGERVGIIGHNGAGKSTLLKLIAGIYKPTSGKVKVTG---------KVA 91
Query: 95 YVLQQDI-FFPELTLRQTL 112
+++ F PELT R+ +
Sbjct: 92 PLIELGAGFDPELTGRENI 110
>gnl|CDD|183044 PRK11231, fecE, iron-dicitrate transporter ATP-binding subunit;
Provisional.
Length = 255
Score = 51.6 bits (124), Expect = 7e-09
Identities = 24/77 (31%), Positives = 44/77 (57%), Gaps = 4/77 (5%)
Query: 27 LSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLN 86
L+V + IL D+S + G++ A++GP+GCGK+TLL C A + SG + L + ++
Sbjct: 8 LTVGYGTKRILNDLSLSLPTGKITALIGPNGCGKSTLLKCFARLLTPQSGTVFLGDKPIS 67
Query: 87 ----KRWKRKICYVLQQ 99
++ R++ + Q
Sbjct: 68 MLSSRQLARRLALLPQH 84
>gnl|CDD|163585 TIGR03873, F420-0_ABC_ATP, proposed F420-0 ABC transporter,
ATP-binding protein. This small clade of ABC-type
transporter ATP-binding protein components is found as
a three gene cassette along with a periplasmic
substrate-binding protein (TIGR03868) and a permease
(TIGR03869). The organisms containing this cassette are
all Actinobacteria and all contain numerous genes
requiring the coenzyme F420. This model was defined
based on five such organisms, four of which are lacking
all F420 biosynthetic capability save the final
side-chain polyglutamate attachment step (via the gene
cofE: TIGR01916). In Jonesia denitrificans DSM 20603
and marine actinobacterium PHSC20C1 this cassette is in
an apparent operon with the cofE gene and, in PHSC20C1,
also with a F420-dependent glucose-6-phosphate
dehydrogenase (TIGR03554). Based on these observations
we propose that this ATP-binding protein is a component
of an F420-0 (that is, F420 lacking only the
polyglutamate tail) transporter.
Length = 256
Score = 51.4 bits (123), Expect = 9e-09
Identities = 24/65 (36%), Positives = 35/65 (53%)
Query: 21 ELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRL 80
L S +S + R I+ V PG L ++GP+G GK+TLL LAG ++ D+G + L
Sbjct: 1 GLRLSRVSWSAGGRLIVDGVDVTAPPGSLTGLLGPNGSGKSTLLRLLAGALRPDAGTVDL 60
Query: 81 NKERL 85
L
Sbjct: 61 AGVDL 65
>gnl|CDD|213190 cd03223, ABCD_peroxisomal_ALDP, ATP-binding cassette domain of
peroxisomal transporter, subfamily D. 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 = 50.2 bits (121), Expect = 9e-09
Identities = 31/92 (33%), Positives = 47/92 (51%), Gaps = 9/92 (9%)
Query: 22 LVFSGLSVTL-DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRL 80
+ LS+ D R +LKD+S +KPG+ L + GPSG GK++L LAG SG
Sbjct: 1 IELENLSLATPDGRVLLKDLSFEIKPGDRLLITGPSGTGKSSLFRALAGLWPWGSG---- 56
Query: 81 NKERLNKRWKRKICYVLQQDIFFPELTLRQTL 112
R+ + ++ Q+ + P TLR+ L
Sbjct: 57 ---RIGMPEGEDLLFLPQRP-YLPLGTLREQL 84
>gnl|CDD|181965 PRK09580, sufC, cysteine desulfurase ATPase component; Reviewed.
Length = 248
Score = 50.6 bits (121), Expect = 1e-08
Identities = 22/49 (44%), Positives = 34/49 (69%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGR 70
L L V+++ + IL+ ++ V+PGE+ A+MGP+G GK+TL LAGR
Sbjct: 2 LSIKDLHVSVEDKAILRGLNLEVRPGEVHAIMGPNGSGKSTLSATLAGR 50
>gnl|CDD|213212 cd03245, ABCC_bacteriocin_exporters, ATP-binding cassette domain
of bacteriocin exporters, subfamily C. 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 = 50.3 bits (121), Expect = 2e-08
Identities = 21/50 (42%), Positives = 31/50 (62%)
Query: 32 DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
+ P L +VS ++ GE +A++G G GK+TLL LAG K SG + L+
Sbjct: 15 QEIPALDNVSLTIRAGEKVAIIGRVGSGKSTLLKLLAGLYKPTSGSVLLD 64
>gnl|CDD|213233 cd03266, ABC_NatA_sodium_exporter, ATP-binding cassette domain of
the Na+ transporter. 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. subtilis, NatAB is inducible by agents
such as ethanol and protonophores, which lower the
proton-motive force across the membrane. The closest
sequence similarity to NatA is exhibited by DrrA of the
two-component daunorubicin- and doxorubicin-efflux
system. Hence, the functional NatAB is presumably
assembled with two copies of a single ATP-binding
protein and a single integral membrane protein.
Length = 218
Score = 50.1 bits (120), Expect = 2e-08
Identities = 28/80 (35%), Positives = 45/80 (56%), Gaps = 3/80 (3%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKR---WKRKI 93
+ VS VKPGE+ ++GP+G GKTT L LAG ++ D+G ++ + K +R++
Sbjct: 21 VDGVSFTVKPGEVTGLLGPNGAGKTTTLRMLAGLLEPDAGFATVDGFDVVKEPAEARRRL 80
Query: 94 CYVLQQDIFFPELTLRQTLE 113
+V + LT R+ LE
Sbjct: 81 GFVSDSTGLYDRLTARENLE 100
>gnl|CDD|213259 cd03292, ABC_FtsE_transporter, ATP-binding cassette domain of the
cell division 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 = 50.1 bits (120), Expect = 2e-08
Identities = 23/80 (28%), Positives = 36/80 (45%), Gaps = 7/80 (8%)
Query: 35 PILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKRKIC 94
L ++ + GE + ++GPSG GK+TLL + SG IR+N + ++ R I
Sbjct: 15 AALDGINISISAGEFVFLVGPSGAGKSTLLKLIYKEELPTSGTIRVNGQDVSDLRGRAIP 74
Query: 95 Y-------VLQQDIFFPELT 107
Y V Q P+
Sbjct: 75 YLRRKIGVVFQDFRLLPDRN 94
>gnl|CDD|236861 PRK11147, PRK11147, ABC transporter ATPase component; Reviewed.
Length = 635
Score = 50.3 bits (121), Expect = 2e-08
Identities = 24/60 (40%), Positives = 41/60 (68%), Gaps = 2/60 (3%)
Query: 22 LVF--SGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIR 79
+VF ++ +D + ++KD S V+ G+ +A++GP+GCGKTTLL + G+++ DSG I
Sbjct: 318 IVFEMENVNYQIDGKQLVKDFSAQVQRGDKIALIGPNGCGKTTLLKLMLGQLQADSGRIH 377
Score = 36.5 bits (85), Expect = 0.001
Identities = 21/66 (31%), Positives = 34/66 (51%), Gaps = 8/66 (12%)
Query: 35 PILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKRKIC 94
P+L + ++ E + ++G +G GK+TL+ L G V LD G I ++ + R
Sbjct: 17 PLLDNAELHIEDNERVCLVGRNGAGKSTLMKILNGEVLLDDGRIIYEQDLIVAR------ 70
Query: 95 YVLQQD 100
LQQD
Sbjct: 71 --LQQD 74
>gnl|CDD|162242 TIGR01187, potA, spermidine/putrescine ABC transporter ATP-binding
subunit. This model describes spermidine/putrescine ABC
transporter, 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
transporter is the obligatory coupling of ATP hydrolysis
to substrate translocation. The minimal configuration of
bacterial ABC transport system: an ATPase or ATP binding
subunit; An integral membrane protein; a hydrophilic
polypetpide, which likely functions as substrate binding
protein. Polyamines like spermidine and putrescine play
vital role in cell proliferation, differentiation, and
ion homeostasis. The concentration of polyamines within
the cell are regulated by biosynthesis, degradation and
transport (uptake and efflux included) [Transport and
binding proteins, Amino acids, peptides and amines].
Length = 325
Score = 50.2 bits (120), Expect = 2e-08
Identities = 27/61 (44%), Positives = 35/61 (57%), Gaps = 2/61 (3%)
Query: 52 VMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKR--WKRKICYVLQQDIFFPELTLR 109
++GPSGCGKTTLL LAG + DSG I L+ E + R I V Q FP +T+
Sbjct: 1 LLGPSGCGKTTLLRLLAGFEQPDSGSIMLDGEDVTNVPPHLRHINMVFQSYALFPHMTVE 60
Query: 110 Q 110
+
Sbjct: 61 E 61
>gnl|CDD|131258 TIGR02203, MsbA_lipidA, lipid A export permease/ATP-binding protein
MsbA. This family consists of a single polypeptide
chain transporter in the ATP-binding cassette (ABC)
transporter family, MsbA, which exports lipid A. It may
also act in multidrug resistance. Lipid A, a part of
lipopolysaccharide, is found in the outer leaflet of the
outer membrane of most Gram-negative bacteria. Members
of this family are restricted to the Proteobacteria
(although lipid A is more broadly distributed) and often
are clustered with lipid A biosynthesis genes [Cell
envelope, Biosynthesis and degradation of surface
polysaccharides and lipopolysaccharides, Transport and
binding proteins, Other].
Length = 571
Score = 50.5 bits (121), Expect = 2e-08
Identities = 23/60 (38%), Positives = 36/60 (60%), Gaps = 2/60 (3%)
Query: 24 FSGLSVTL--DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
F ++ RP L +S V++PGE +A++G SG GK+TL+N + + DSG I L+
Sbjct: 333 FRNVTFRYPGRDRPALDSISLVIEPGETVALVGRSGSGKSTLVNLIPRFYEPDSGQILLD 392
>gnl|CDD|213236 cd03269, ABC_putative_ATPase, ATP-binding cassette domain of an
uncharacterized transporter. This subgroup is related
to the subfamily A transporters 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
integral membranes. 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 = 49.6 bits (119), Expect = 2e-08
Identities = 23/83 (27%), Positives = 42/83 (50%), Gaps = 12/83 (14%)
Query: 36 ILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKRKICY 95
L D+S V+ GE+ ++GP+G GKTT + + G + DSG + + + L+ + +I Y
Sbjct: 15 ALDDISFSVEKGEIFGLLGPNGAGKTTTIRMILGIILPDSGEVLFDGKPLDIAARNRIGY 74
Query: 96 ------------VLQQDIFFPEL 106
V+ Q ++ +L
Sbjct: 75 LPEERGLYPKMKVIDQLVYLAQL 97
>gnl|CDD|226643 COG4175, ProV, ABC-type proline/glycine betaine transport system,
ATPase component [Amino acid transport and metabolism].
Length = 386
Score = 50.1 bits (120), Expect = 2e-08
Identities = 27/97 (27%), Positives = 44/97 (45%), Gaps = 12/97 (12%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSG--------VIRLNKERLNKR 88
+ D S V+ GE+ +MG SG GK+TL+ L ++ G + +L+ L +
Sbjct: 44 VNDASLDVEEGEIFVIMGLSGSGKSTLVRLLNRLIEPTRGEILVDGKDIAKLSAAELREL 103
Query: 89 WKRKICYVLQQDIFFPELTLRQT----LEVSIADEDE 121
++KI V Q P T+ + LEV + E
Sbjct: 104 RRKKISMVFQSFALLPHRTVLENVAFGLEVQGVPKAE 140
>gnl|CDD|227118 COG4778, PhnL, ABC-type phosphonate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 235
Score = 49.7 bits (119), Expect = 2e-08
Identities = 26/73 (35%), Positives = 37/73 (50%), Gaps = 7/73 (9%)
Query: 18 RPLELVFSGL--SVTLDKR-----PILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGR 70
P L S + + TL ++ P+L++VS V GE + + GPSG GK+TLL L
Sbjct: 1 MPTPLNVSNVSKTFTLHQQGGVRLPVLRNVSLSVNAGECVVLHGPSGSGKSTLLRSLYAN 60
Query: 71 VKLDSGVIRLNKE 83
D G I + E
Sbjct: 61 YLPDEGQILVRHE 73
>gnl|CDD|236947 PRK11650, ugpC, glycerol-3-phosphate transporter ATP-binding
subunit; Provisional.
Length = 356
Score = 49.8 bits (120), Expect = 3e-08
Identities = 27/83 (32%), Positives = 46/83 (55%), Gaps = 2/83 (2%)
Query: 33 KRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKR--WK 90
K ++K + V GE + ++GPSGCGK+TLL +AG ++ SG I + +N+
Sbjct: 16 KTQVIKGIDLDVADGEFIVLVGPSGCGKSTLLRMVAGLERITSGEIWIGGRVVNELEPAD 75
Query: 91 RKICYVLQQDIFFPELTLRQTLE 113
R I V Q +P +++R+ +
Sbjct: 76 RDIAMVFQNYALYPHMSVRENMA 98
>gnl|CDD|237420 PRK13537, PRK13537, nodulation ABC transporter NodI; Provisional.
Length = 306
Score = 50.2 bits (120), Expect = 3e-08
Identities = 32/104 (30%), Positives = 52/104 (50%), Gaps = 5/104 (4%)
Query: 14 PLSHRPLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKL 73
P+S P++ F + + ++ +S V+ GE ++GP+G GKTT L L G
Sbjct: 2 PMSVAPID--FRNVEKRYGDKLVVDGLSFHVQRGECFGLLGPNGAGKTTTLRMLLGLTHP 59
Query: 74 DSGVIRLNKERLNKRWKR---KICYVLQQDIFFPELTLRQTLEV 114
D+G I L E + R + ++ V Q D P+ T+R+ L V
Sbjct: 60 DAGSISLCGEPVPSRARHARQRVGVVPQFDNLDPDFTVRENLLV 103
>gnl|CDD|182817 PRK10895, PRK10895, lipopolysaccharide ABC transporter ATP-binding
protein; Provisional.
Length = 241
Score = 49.9 bits (119), Expect = 3e-08
Identities = 31/96 (32%), Positives = 50/96 (52%), Gaps = 5/96 (5%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
L L+ R +++DVS V GE++ ++GP+G GKTT + G V D+G I ++
Sbjct: 4 LTAKNLAKAYKGRRVVEDVSLTVNSGEIVGLLGPNGAGKTTTFYMVVGIVPRDAGNIIID 63
Query: 82 KER-----LNKRWKRKICYVLQQDIFFPELTLRQTL 112
E L+ R +R I Y+ Q+ F L++ L
Sbjct: 64 DEDISLLPLHARARRGIGYLPQEASIFRRLSVYDNL 99
>gnl|CDD|213225 cd03258, ABC_MetN_methionine_transporter, ATP-binding cassette
domain of 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 = 49.5 bits (119), Expect = 3e-08
Identities = 26/76 (34%), Positives = 37/76 (48%), Gaps = 11/76 (14%)
Query: 33 KRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRL---------NKE 83
K LKDVS V GE+ ++G SG GK+TL+ C+ G + SG + + KE
Sbjct: 17 KVTALKDVSLSVPKGEIFGIIGRSGAGKSTLIRCINGLERPTSGSVLVDGTDLTLLSGKE 76
Query: 84 RLNKRWKRKICYVLQQ 99
R R+I + Q
Sbjct: 77 LRKAR--RRIGMIFQH 90
>gnl|CDD|183063 PRK11264, PRK11264, putative amino-acid ABC transporter ATP-binding
protein YecC; Provisional.
Length = 250
Score = 49.4 bits (118), Expect = 3e-08
Identities = 27/84 (32%), Positives = 46/84 (54%), Gaps = 12/84 (14%)
Query: 36 ILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRL------------NKE 83
+L + VKPGE++A++GPSG GKTTLL C+ + ++G IR+ ++
Sbjct: 18 VLHGIDLEVKPGEVVAIIGPSGSGKTTLLRCINLLEQPEAGTIRVGDITIDTARSLSQQK 77
Query: 84 RLNKRWKRKICYVLQQDIFFPELT 107
L ++ ++ + +V Q FP T
Sbjct: 78 GLIRQLRQHVGFVFQNFNLFPHRT 101
>gnl|CDD|213198 cd03231, ABC_CcmA_heme_exporter, Cytochrome c biogenesis
ATP-binding export protein. 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 chaperon 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 = 49.0 bits (117), Expect = 3e-08
Identities = 32/98 (32%), Positives = 43/98 (43%), Gaps = 16/98 (16%)
Query: 18 RPLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGV 77
R +FSGLS TL GE L V GP+G GKTTLL LAG +G
Sbjct: 10 RDGRALFSGLSFTLAA-------------GEALQVTGPNGSGKTTLLRILAGLSPPLAGR 56
Query: 78 IRLNKERLNKR---WKRKICYVLQQDIFFPELTLRQTL 112
+ LN L+ + R + Y+ L++ + L
Sbjct: 57 VLLNGGPLDFQRDSIARGLLYLGHAPGIKTTLSVLENL 94
>gnl|CDD|185336 PRK15439, PRK15439, autoinducer 2 ABC transporter ATP-binding
protein LsrA; Provisional.
Length = 510
Score = 49.7 bits (119), Expect = 3e-08
Identities = 24/81 (29%), Positives = 43/81 (53%), Gaps = 5/81 (6%)
Query: 35 PILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERL-----NKRW 89
+LK + + GE+ A++G +G GK+TL+ +AG V DSG + + K
Sbjct: 25 EVLKGIDFTLHAGEVHALLGGNGAGKSTLMKIIAGIVPPDSGTLEIGGNPCARLTPAKAH 84
Query: 90 KRKICYVLQQDIFFPELTLRQ 110
+ I V Q+ + FP L++++
Sbjct: 85 QLGIYLVPQEPLLFPNLSVKE 105
Score = 33.5 bits (77), Expect = 0.016
Identities = 17/51 (33%), Positives = 26/51 (50%)
Query: 38 KDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKR 88
+++S V+ GE+L + G G G+T L L G G I LN + +N
Sbjct: 280 RNISLEVRAGEILGLAGVVGAGRTELAETLYGLRPARGGRIMLNGKEINAL 330
>gnl|CDD|182331 PRK10247, PRK10247, putative ABC transporter ATP-binding protein
YbbL; Provisional.
Length = 225
Score = 49.3 bits (118), Expect = 4e-08
Identities = 22/79 (27%), Positives = 40/79 (50%), Gaps = 4/79 (5%)
Query: 31 LDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLN---- 86
IL ++S ++ GE + GPSGCGK+TLL +A + SG + E ++
Sbjct: 17 AGDAKILNNISFSLRAGEFKLITGPSGCGKSTLLKIVASLISPTSGTLLFEGEDISTLKP 76
Query: 87 KRWKRKICYVLQQDIFFPE 105
+ +++++ Y Q F +
Sbjct: 77 EIYRQQVSYCAQTPTLFGD 95
>gnl|CDD|226364 COG3845, COG3845, ABC-type uncharacterized transport systems,
ATPase components [General function prediction only].
Length = 501
Score = 49.5 bits (119), Expect = 4e-08
Identities = 28/76 (36%), Positives = 41/76 (53%), Gaps = 5/76 (6%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN--KERLNKRW---KR 91
DVS VK GE+ A++G +G GK+TL+ L G + DSG IR++ + R+ +
Sbjct: 20 NDDVSLSVKKGEIHALLGENGAGKSTLMKILFGLYQPDSGEIRVDGKEVRIKSPRDAIRL 79
Query: 92 KICYVLQQDIFFPELT 107
I V Q + P LT
Sbjct: 80 GIGMVHQHFMLVPTLT 95
Score = 39.8 bits (94), Expect = 9e-05
Identities = 23/69 (33%), Positives = 36/69 (52%), Gaps = 1/69 (1%)
Query: 22 LVFSGLSVTL-DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRL 80
L LSV +KDVS V+ GE++ + G +G G++ L+ ++G K SG I L
Sbjct: 258 LEVEDLSVKDRRGVTAVKDVSFEVRAGEIVGIAGVAGNGQSELVEAISGLRKPASGRILL 317
Query: 81 NKERLNKRW 89
N + + R
Sbjct: 318 NGKDVLGRL 326
>gnl|CDD|184195 PRK13635, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 279
Score = 49.2 bits (118), Expect = 5e-08
Identities = 24/71 (33%), Positives = 38/71 (53%), Gaps = 4/71 (5%)
Query: 32 DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKR--W 89
LKDVS V GE +A++G +G GK+TL L G + ++G I + L++ W
Sbjct: 18 AATYALKDVSFSVYEGEWVAIVGHNGSGKSTLAKLLNGLLLPEAGTITVGGMVLSEETVW 77
Query: 90 --KRKICYVLQ 98
+R++ V Q
Sbjct: 78 DVRRQVGMVFQ 88
>gnl|CDD|224058 COG1135, AbcC, ABC-type metal ion transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 339
Score = 49.2 bits (118), Expect = 5e-08
Identities = 22/73 (30%), Positives = 37/73 (50%), Gaps = 9/73 (12%)
Query: 35 PILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL-------AGRVKLDSGVI-RLNKERLN 86
L DVS + GE+ ++G SG GK+TLL + +G V +D + L++ L
Sbjct: 20 TALDDVSLEIPKGEIFGIIGYSGAGKSTLLRLINLLERPTSGSVFVDGQDLTALSEAELR 79
Query: 87 KRWKRKICYVLQQ 99
+ ++KI + Q
Sbjct: 80 QL-RQKIGMIFQH 91
>gnl|CDD|184127 PRK13540, PRK13540, cytochrome c biogenesis protein CcmA;
Provisional.
Length = 200
Score = 48.4 bits (115), Expect = 6e-08
Identities = 26/80 (32%), Positives = 47/80 (58%), Gaps = 3/80 (3%)
Query: 34 RPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNK---RWK 90
+P+L+ +S + G LL + G +G GKTTLL +AG + + G I ++ + K ++
Sbjct: 14 QPLLQQISFHLPAGGLLHLKGSNGAGKTTLLKLIAGLLNPEKGEILFERQSIKKDLCTYQ 73
Query: 91 RKICYVLQQDIFFPELTLRQ 110
+++C+V + P LTLR+
Sbjct: 74 KQLCFVGHRSGINPYLTLRE 93
>gnl|CDD|223521 COG0444, DppD, ABC-type dipeptide/oligopeptide/nickel transport
system, ATPase component [Amino acid transport and
metabolism / Inorganic ion transport and metabolism].
Length = 316
Score = 48.7 bits (117), Expect = 7e-08
Identities = 21/78 (26%), Positives = 36/78 (46%), Gaps = 15/78 (19%)
Query: 35 PILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL------------AGRVKLD-SGVIRLN 81
+ VS +K GE+L ++G SG GK+ L + G + D ++ L+
Sbjct: 19 KAVDGVSFELKKGEILGIVGESGSGKSVLAKAIMGLLPKPNARIVGGEILFDGKDLLSLS 78
Query: 82 KERLNK-RWKRKICYVLQ 98
++ L K R K +I + Q
Sbjct: 79 EKELRKIRGK-EIAMIFQ 95
>gnl|CDD|181939 PRK09544, znuC, high-affinity zinc transporter ATPase; Reviewed.
Length = 251
Score = 48.6 bits (116), Expect = 7e-08
Identities = 30/73 (41%), Positives = 46/73 (63%), Gaps = 7/73 (9%)
Query: 27 LSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLN 86
+SV+ +R +L DVS +KPG++L ++GP+G GK+TL+ + G V D GVI+ N
Sbjct: 10 VSVSFGQRRVLSDVSLELKPGKILTLLGPNGAGKSTLVRVVLGLVAPDEGVIKRNG---- 65
Query: 87 KRWKRKICYVLQQ 99
K +I YV Q+
Sbjct: 66 ---KLRIGYVPQK 75
>gnl|CDD|183080 PRK11300, livG, leucine/isoleucine/valine transporter ATP-binding
subunit; Provisional.
Length = 255
Score = 48.4 bits (116), Expect = 7e-08
Identities = 19/49 (38%), Positives = 30/49 (61%), Gaps = 3/49 (6%)
Query: 40 VSGV---VKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERL 85
V+ V V+ E+++++GP+G GKTT+ NCL G K G I L + +
Sbjct: 21 VNNVNLEVREQEIVSLIGPNGAGKTTVFNCLTGFYKPTGGTILLRGQHI 69
>gnl|CDD|163452 TIGR03740, galliderm_ABC, gallidermin-class lantibiotic protection
ABC transporter, ATP-binding subunit. Model TIGR03731
represents the family of all lantibiotics related to
gallidermin, including epidermin, mutatin, and nisin.
This protein family describes the ATP-binding subunit of
a gallidermin/epidermin class lantibiotic protection
transporter. It is largely restricted to
gallidermin-family lantibiotic biosynthesis and export
cassettes, but also occurs in orphan transporter
cassettes in species that lack candidate lantibiotic
precursor and synthetase genes.
Length = 223
Score = 48.2 bits (115), Expect = 7e-08
Identities = 25/93 (26%), Positives = 46/93 (49%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
L LS K+ + ++S V + ++GP+G GK+TLL + G ++ SG I +
Sbjct: 1 LETKNLSKRFGKQTAVNNISLTVPKNSVYGLLGPNGAGKSTLLKMITGILRPTSGEIIFD 60
Query: 82 KERLNKRWKRKICYVLQQDIFFPELTLRQTLEV 114
++ KI +++ + LT R+ L+V
Sbjct: 61 GHPWTRKDLHKIGSLIESPPLYENLTARENLKV 93
>gnl|CDD|213219 cd03252, ABCC_Hemolysin, ATP-binding cassette domain of hemolysin
B, subfamily C. 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 = 48.3 bits (115), Expect = 8e-08
Identities = 23/76 (30%), Positives = 44/76 (57%), Gaps = 4/76 (5%)
Query: 32 DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERL---NKR 88
D IL ++S +KPGE++ ++G SG GK+TL + ++G + ++ L +
Sbjct: 13 DGPVILDNISLRIKPGEVVGIVGRSGSGKSTLTKLIQRFYVPENGRVLVDGHDLALADPA 72
Query: 89 W-KRKICYVLQQDIFF 103
W +R++ VLQ+++ F
Sbjct: 73 WLRRQVGVVLQENVLF 88
>gnl|CDD|214372 CHL00131, ycf16, sulfate ABC transporter protein; Validated.
Length = 252
Score = 48.5 bits (116), Expect = 8e-08
Identities = 17/43 (39%), Positives = 29/43 (67%)
Query: 27 LSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAG 69
L ++++ ILK ++ + GE+ A+MGP+G GK+TL +AG
Sbjct: 13 LHASVNENEILKGLNLSINKGEIHAIMGPNGSGKSTLSKVIAG 55
>gnl|CDD|182993 PRK11144, modC, molybdate transporter ATP-binding protein;
Provisional.
Length = 352
Score = 48.7 bits (117), Expect = 8e-08
Identities = 26/78 (33%), Positives = 35/78 (44%), Gaps = 8/78 (10%)
Query: 51 AVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKR--------WKRKICYVLQQDIF 102
A+ G SG GKT+L+N ++G + G I LN L KR+I YV Q
Sbjct: 28 AIFGRSGAGKTSLINAISGLTRPQKGRIVLNGRVLFDAEKGICLPPEKRRIGYVFQDARL 87
Query: 103 FPELTLRQTLEVSIADED 120
FP +R L +A
Sbjct: 88 FPHYKVRGNLRYGMAKSM 105
>gnl|CDD|163431 TIGR03719, ABC_ABC_ChvD, ATP-binding cassette protein, ChvD family.
Members of this protein family have two copies of the
ABC transporter ATP-binding cassette, but are found
outside the common ABC transporter operon structure that
features integral membrane permease proteins and
substrate-binding proteins encoded next to the
ATP-binding cassette (ABC domain) protein. The member
protein ChvD from Agrobacterium tumefaciens was
identified as both a candidate to interact with VirB8,
based on yeast two-hybrid analysis, and as an apparent
regulator of VirG. The general function of this protein
family is unknown.
Length = 552
Score = 48.4 bits (116), Expect = 9e-08
Identities = 19/57 (33%), Positives = 34/57 (59%)
Query: 24 FSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRL 80
LS + ++ D+S + PG ++ V+GP+G GK+TL + G+ + DSG I++
Sbjct: 325 AENLSKGFGDKLLIDDLSFKLPPGGIVGVIGPNGAGKSTLFRMITGQEQPDSGTIKI 381
Score = 42.6 bits (101), Expect = 1e-05
Identities = 29/86 (33%), Positives = 45/86 (52%), Gaps = 7/86 (8%)
Query: 33 KRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKRK 92
K+ ILKD+S PG + V+G +G GK+TLL +AG K +G R K
Sbjct: 17 KKEILKDISLSFFPGAKIGVLGLNGAGKSTLLRIMAGVDKEFNGEARPAP-------GIK 69
Query: 93 ICYVLQQDIFFPELTLRQTLEVSIAD 118
+ Y+ Q+ P T+R+ +E +A+
Sbjct: 70 VGYLPQEPQLDPTKTVRENVEEGVAE 95
>gnl|CDD|213182 cd03215, ABC_Carb_Monos_II, Second domain of the ATP-binding
cassette component of monosaccharide transport system.
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 = 47.4 bits (114), Expect = 9e-08
Identities = 23/76 (30%), Positives = 35/76 (46%), Gaps = 6/76 (7%)
Query: 27 LSVT-LDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERL 85
L V L + ++DVS V+ GE++ + G G G+T L L G SG I L+ + +
Sbjct: 5 LEVRGLSVKGAVRDVSFEVRAGEIVGIAGLVGNGQTELAEALFGLRPPASGEITLDGKPV 64
Query: 86 N-----KRWKRKICYV 96
+ I YV
Sbjct: 65 TRRSPRDAIRAGIAYV 80
>gnl|CDD|131259 TIGR02204, MsbA_rel, ABC transporter, permease/ATP-binding protein.
This protein is related to a Proteobacterial ATP
transporter that exports lipid A and to eukaryotic
P-glycoproteins.
Length = 576
Score = 48.5 bits (116), Expect = 1e-07
Identities = 21/53 (39%), Positives = 32/53 (60%), Gaps = 7/53 (13%)
Query: 34 RPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL-------AGRVKLDSGVIR 79
+P L ++ V+PGE +A++GPSG GK+TL L +GR+ LD +R
Sbjct: 353 QPALDGLNLTVRPGETVALVGPSGAGKSTLFQLLLRFYDPQSGRILLDGVDLR 405
>gnl|CDD|182732 PRK10789, PRK10789, putative multidrug transporter
membrane\ATP-binding components; Provisional.
Length = 569
Score = 48.2 bits (115), Expect = 1e-07
Identities = 25/75 (33%), Positives = 42/75 (56%), Gaps = 6/75 (8%)
Query: 34 RPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIR-----LNKERLNKR 88
P L++V+ +KPG++L + GP+G GK+TLL+ + + G IR L K +L+
Sbjct: 328 HPALENVNFTLKPGQMLGICGPTGSGKSTLLSLIQRHFDVSEGDIRFHDIPLTKLQLDS- 386
Query: 89 WKRKICYVLQQDIFF 103
W+ ++ V Q F
Sbjct: 387 WRSRLAVVSQTPFLF 401
>gnl|CDD|213234 cd03267, ABC_NatA_like, ATP-binding cassette domain of an
uncharacterized transporter similar in sequence to NatA.
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 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
proton-motive force across the membrane. The closest
sequence similarity to NatA is exhibited by DrrA of the
two-component daunorubicin- and doxorubicin-efflux
system. Hence, the functional NatAB is presumably
assembled with two copies of the single ATP-binding
protein and the single integral membrane protein.
Length = 236
Score = 47.3 bits (113), Expect = 2e-07
Identities = 22/69 (31%), Positives = 39/69 (56%), Gaps = 3/69 (4%)
Query: 35 PILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKRKIC 94
LK +S ++ GE++ +GP+G GKTT L L+G ++ SG +R+ WKR+
Sbjct: 35 EALKGISFTIEKGEIVGFIGPNGAGKTTTLKILSGLLQPTSGEVRVAGLV---PWKRRKK 91
Query: 95 YVLQQDIFF 103
++ + + F
Sbjct: 92 FLRRIGVVF 100
>gnl|CDD|184132 PRK13547, hmuV, hemin importer ATP-binding subunit; Provisional.
Length = 272
Score = 47.1 bits (112), Expect = 2e-07
Identities = 20/43 (46%), Positives = 29/43 (67%)
Query: 27 LSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAG 69
L V R IL+D+S ++PG + A++G +G GK+TLL LAG
Sbjct: 7 LHVARRHRAILRDLSLRIEPGRVTALLGRNGAGKSTLLKALAG 49
>gnl|CDD|226963 COG4604, CeuD, ABC-type enterochelin transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 252
Score = 46.9 bits (112), Expect = 3e-07
Identities = 26/88 (29%), Positives = 50/88 (56%), Gaps = 4/88 (4%)
Query: 27 LSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERL- 85
+S + + +L DVS + G + +++GP+G GK+TLL+ ++ +K DSG I ++ L
Sbjct: 7 VSKSYGTKVVLDDVSLDIPKGGITSIIGPNGAGKSTLLSMMSRLLKKDSGEITIDGLELT 66
Query: 86 ---NKRWKRKICYVLQQDIFFPELTLRQ 110
+K +K+ + Q++ LT+R
Sbjct: 67 STPSKELAKKLSILKQENHINSRLTVRD 94
>gnl|CDD|182528 PRK10535, PRK10535, macrolide transporter ATP-binding /permease
protein; Provisional.
Length = 648
Score = 47.0 bits (112), Expect = 3e-07
Identities = 27/87 (31%), Positives = 44/87 (50%), Gaps = 8/87 (9%)
Query: 36 ILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIR--------LNKERLNK 87
+LK +S + GE++A++G SG GK+TL+N L K SG R L+ + L +
Sbjct: 23 VLKGISLDIYAGEMVAIVGASGSGKSTLMNILGCLDKPTSGTYRVAGQDVATLDADALAQ 82
Query: 88 RWKRKICYVLQQDIFFPELTLRQTLEV 114
+ ++ Q+ LT Q +EV
Sbjct: 83 LRREHFGFIFQRYHLLSHLTAAQNVEV 109
>gnl|CDD|227590 COG5265, ATM1, ABC-type transport system involved in Fe-S cluster
assembly, permease and ATPase components
[Posttranslational modification, protein turnover,
chaperones].
Length = 497
Score = 47.0 bits (112), Expect = 3e-07
Identities = 27/85 (31%), Positives = 44/85 (51%), Gaps = 4/85 (4%)
Query: 2 VSNIPSLPPEKYPLSHRPLELVFSGLSVTLDK-RPILKDVSGVVKPGELLAVMGPSGCGK 60
VS+ P PP R + F +S D RPIL +S + G+ +A++G SG GK
Sbjct: 246 VSDAPDAPPLW---PVRLGAVAFINVSFAYDPRRPILNGISFTIPLGKTVAIVGESGAGK 302
Query: 61 TTLLNCLAGRVKLDSGVIRLNKERL 85
+T+L L ++SG I ++ + +
Sbjct: 303 STILRLLFRFYDVNSGSITIDGQDI 327
>gnl|CDD|163508 TIGR03796, NHLM_micro_ABC1, NHLM bacteriocin system ABC
transporter, peptidase/ATP-binding protein. This
protein describes a multidomain ABC transporter subunit
that is one of three protein families associated with
some regularity with a distinctive family of putative
bacteriocins. It includes a bacteriocin-processing
peptidase domain at the N-terminus. Model TIGR03793
describes a conserved propeptide region for this
bacteriocin family, unusual because it shows obvious
homology a region of the enzyme nitrile hydratase up to
the classic Gly-Gly cleavage motif. This family is
therefore predicted to be a subunit of a bacteriocin
processing and export system characteristic to this
system that we designate NHLM, Nitrile Hydratase Leader
Microcin [Transport and binding proteins, Amino acids,
peptides and amines, Cellular processes, Biosynthesis of
natural products].
Length = 710
Score = 46.9 bits (112), Expect = 3e-07
Identities = 27/93 (29%), Positives = 49/93 (52%), Gaps = 6/93 (6%)
Query: 34 RPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKRKI 93
P++++ S ++PG+ +A++G SG GK+T+ +AG + SG I + + + +
Sbjct: 492 PPLIENFSLTLQPGQRVALVGGSGSGKSTIAKLVAGLYQPWSGEILFDGIPREEIPREVL 551
Query: 94 CYVL---QQDIFFPELTLRQTLEV---SIADED 120
+ QDIF E T+R L + +I D D
Sbjct: 552 ANSVAMVDQDIFLFEGTVRDNLTLWDPTIPDAD 584
>gnl|CDD|181906 PRK09493, glnQ, glutamine ABC transporter ATP-binding protein;
Reviewed.
Length = 240
Score = 46.6 bits (111), Expect = 3e-07
Identities = 27/90 (30%), Positives = 48/90 (53%), Gaps = 6/90 (6%)
Query: 24 FSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGV-----I 78
F +S +L ++ + GE++ ++GPSG GK+TLL C+ ++ SG +
Sbjct: 4 FKNVSKHFGPTQVLHNIDLNIDQGEVVVIIGPSGSGKSTLLRCINKLEEITSGDLIVDGL 63
Query: 79 RLNKERLNKRWKRKIC-YVLQQDIFFPELT 107
++N ++++R R+ V QQ FP LT
Sbjct: 64 KVNDPKVDERLIRQEAGMVFQQFYLFPHLT 93
>gnl|CDD|213258 cd03291, ABCC_CFTR1, ATP-binding cassette domain of the cystic
fibrosis transmembrane regulator, subfamily C. 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 = 46.8 bits (111), Expect = 4e-07
Identities = 22/58 (37%), Positives = 36/58 (62%), Gaps = 2/58 (3%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIR 79
L FS L L P+LK+++ ++ GE+LA+ G +G GKT+LL + G ++ G I+
Sbjct: 40 LFFSNLC--LVGAPVLKNINLKIEKGEMLAITGSTGSGKTSLLMLILGELEPSEGKIK 95
>gnl|CDD|213265 cd03298, ABC_ThiQ_thiamine_transporter, ATP-binding cassette domain
of the thiamine transport 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 = 46.3 bits (110), Expect = 4e-07
Identities = 24/69 (34%), Positives = 37/69 (53%), Gaps = 2/69 (2%)
Query: 44 VKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKR--WKRKICYVLQQDI 101
GE+ A++GPSG GK+TLLN +AG SG + +N + R + + Q++
Sbjct: 21 FAQGEITAIVGPSGSGKSTLLNLIAGFETPQSGRVLINGVDVTAAPPADRPVSMLFQENN 80
Query: 102 FFPELTLRQ 110
F LT+ Q
Sbjct: 81 LFAHLTVEQ 89
>gnl|CDD|188099 TIGR00972, 3a0107s01c2, phosphate ABC transporter, ATP-binding
protein. This model represents the ATP-binding protein
of a family of ABC transporters for inorganic phosphate.
In the model species Escherichia coli, a constitutive
transporter for inorganic phosphate, with low affinity,
is also present. The high affinity transporter that
includes this polypeptide is induced when extracellular
phosphate concentrations are low. The proteins most
similar to the members of this family but not included
appear to be amino acid transporters [Transport and
binding proteins, Anions].
Length = 247
Score = 46.5 bits (111), Expect = 4e-07
Identities = 22/76 (28%), Positives = 40/76 (52%), Gaps = 11/76 (14%)
Query: 27 LSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLN 86
L++ ++ LK+++ + ++ A++GPSGCGK+TLL L R+N
Sbjct: 7 LNLFYGEKEALKNINLDIPKNQVTALIGPSGCGKSTLLRSLN----------RMNDLVPG 56
Query: 87 KRWKRKICYVLQQDIF 102
R + K+ + QDI+
Sbjct: 57 VRIEGKVLF-DGQDIY 71
>gnl|CDD|226927 COG4555, NatA, ABC-type Na+ transport system, ATPase component
[Energy production and conversion / Inorganic ion
transport and metabolism].
Length = 245
Score = 46.3 bits (110), Expect = 5e-07
Identities = 24/79 (30%), Positives = 42/79 (53%), Gaps = 3/79 (3%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKR---WKRKI 93
++DVS + GE+ ++G +G GKTTLL +A + DSG + ++ + +RKI
Sbjct: 18 VRDVSFEAEEGEITGLLGENGAGKTTLLRMIATLLIPDSGKVTIDGVDTVRDPSFVRRKI 77
Query: 94 CYVLQQDIFFPELTLRQTL 112
+ + + LT R+ L
Sbjct: 78 GVLFGERGLYARLTARENL 96
>gnl|CDD|226646 COG4178, COG4178, ABC-type uncharacterized transport system,
permease and ATPase components [General function
prediction only].
Length = 604
Score = 46.1 bits (110), Expect = 7e-07
Identities = 20/47 (42%), Positives = 29/47 (61%), Gaps = 1/47 (2%)
Query: 24 FSGLSVTL-DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAG 69
LS+ D + +L +++ V+PGE L + G SG GKT+LL LAG
Sbjct: 395 LENLSLRTPDGQTLLSELNFEVRPGERLLITGESGAGKTSLLRALAG 441
>gnl|CDD|213211 cd03244, ABCC_MRP_domain2, ATP-binding cassette domain 2 of
multidrug resistance-associated protein. The ABC
subfamily C is also known as MRP (multidrug
resistance-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 = 45.6 bits (109), Expect = 8e-07
Identities = 27/82 (32%), Positives = 47/82 (57%), Gaps = 5/82 (6%)
Query: 35 PILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNK----RWK 90
P+LK++S +KPGE + ++G +G GK++LL L V+L SG I ++ ++K +
Sbjct: 18 PVLKNISFSIKPGEKVGIVGRTGSGKSSLLLALFRLVELSSGSILIDGVDISKIGLHDLR 77
Query: 91 RKICYVLQQDIFFPELTLRQTL 112
+I + Q + F T+R L
Sbjct: 78 SRISIIPQDPVLF-SGTIRSNL 98
>gnl|CDD|182569 PRK10584, PRK10584, putative ABC transporter ATP-binding protein
YbbA; Provisional.
Length = 228
Score = 45.5 bits (108), Expect = 8e-07
Identities = 30/90 (33%), Positives = 46/90 (51%), Gaps = 14/90 (15%)
Query: 36 ILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSG-----------VIRLNKER 84
IL V VVK GE +A++G SG GK+TLL LAG LD G + ++++E
Sbjct: 25 ILTGVELVVKRGETIALIGESGSGKSTLLAILAG---LDDGSSGEVSLVGQPLHQMDEEA 81
Query: 85 LNKRWKRKICYVLQQDIFFPELTLRQTLEV 114
K + + +V Q + P L + +E+
Sbjct: 82 RAKLRAKHVGFVFQSFMLIPTLNALENVEL 111
>gnl|CDD|213215 cd03248, ABCC_TAP, ATP-binding cassette domain of the Transporter
Associated with Antigen Processing, subfamily C. TAP
(Transporter Associated with Antigen Processing) 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 = 45.5 bits (108), Expect = 8e-07
Identities = 29/90 (32%), Positives = 46/90 (51%), Gaps = 13/90 (14%)
Query: 24 FSGLSVTLDKRP---ILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL-------AGRVKL 73
F ++ RP +L+DVS + PGE+ A++GPSG GK+T++ L G+V L
Sbjct: 14 FQNVTFAYPTRPDTLVLQDVSFTLHPGEVTALVGPSGSGKSTVVALLENFYQPQGGQVLL 73
Query: 74 DSGVIRLNKERLNKRWKRKICYVLQQDIFF 103
D I + +K K+ V Q+ + F
Sbjct: 74 DGKPISQYE---HKYLHSKVSLVGQEPVLF 100
>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular
activities. AAA - ATPases associated with a variety of
cellular activities. This profile/alignment only
detects a fraction of this vast family. The poorly
conserved N-terminal helix is missing from the
alignment.
Length = 148
Score = 44.7 bits (105), Expect = 9e-07
Identities = 17/53 (32%), Positives = 30/53 (56%), Gaps = 1/53 (1%)
Query: 46 PGELLAVMGPSGCGKTTLLNCLAGRVKLDS-GVIRLNKERLNKRWKRKICYVL 97
PGE++ ++GP G GKTTL LA + GVI ++ E + + ++ ++
Sbjct: 1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLII 53
>gnl|CDD|236729 PRK10636, PRK10636, putative ABC transporter ATP-binding protein;
Provisional.
Length = 638
Score = 45.9 bits (109), Expect = 9e-07
Identities = 19/55 (34%), Positives = 32/55 (58%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSG 76
+VFS L + R +L + + + PG+ + ++G +GCGK+TLL L + D G
Sbjct: 2 IVFSSLQIRRGVRVLLDNATATINPGQKVGLVGKNGCGKSTLLALLKNEISADGG 56
Score = 34.8 bits (80), Expect = 0.006
Identities = 26/73 (35%), Positives = 36/73 (49%), Gaps = 4/73 (5%)
Query: 10 PEKYPLSHRPLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAG 69
PE P PL L +S R IL + + PG + ++G +G GK+TL+ LAG
Sbjct: 305 PESLP---NPL-LKMEKVSAGYGDRIILDSIKLNLVPGSRIGLLGRNGAGKSTLIKLLAG 360
Query: 70 RVKLDSGVIRLNK 82
+ SG I L K
Sbjct: 361 ELAPVSGEIGLAK 373
>gnl|CDD|183077 PRK11288, araG, L-arabinose transporter ATP-binding protein;
Provisional.
Length = 501
Score = 45.7 bits (109), Expect = 1e-06
Identities = 22/60 (36%), Positives = 35/60 (58%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
L F G+ T L D+S + G++ A+MG +G GK+TLL L+G + D+G I ++
Sbjct: 5 LSFDGIGKTFPGVKALDDISFDCRAGQVHALMGENGAGKSTLLKILSGNYQPDAGSILID 64
Score = 28.7 bits (65), Expect = 0.70
Identities = 13/49 (26%), Positives = 28/49 (57%)
Query: 40 VSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKR 88
+S V+ GE++ + G G G++ L+ L G + +G + L+ + ++ R
Sbjct: 272 ISFSVRAGEIVGLFGLVGAGRSELMKLLYGATRRTAGQVYLDGKPIDIR 320
>gnl|CDD|236870 PRK11174, PRK11174, cysteine/glutathione ABC transporter
membrane/ATP-binding component; Reviewed.
Length = 588
Score = 45.6 bits (109), Expect = 1e-06
Identities = 32/118 (27%), Positives = 59/118 (50%), Gaps = 10/118 (8%)
Query: 11 EKYPLSHRPLELVFSGLSV-TLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAG 69
EK S+ P+ + L + + D + + ++ + G+ +A++GPSG GKT+LLN L G
Sbjct: 339 EKELASNDPVTIEAEDLEILSPDGKTLAGPLNFTLPAGQRIALVGPSGAGKTSLLNALLG 398
Query: 70 RVKLDSGVIRLNKERLN----KRWKRKICYVLQQDIFFPELTLRQTL---EVSIADED 120
+ G +++N L + W++ + +V Q+ P TLR + +DE
Sbjct: 399 FLPY-QGSLKINGIELRELDPESWRKHLSWV-GQNPQLPHGTLRDNVLLGNPDASDEQ 454
>gnl|CDD|184585 PRK14239, PRK14239, phosphate transporter ATP-binding protein;
Provisional.
Length = 252
Score = 45.2 bits (107), Expect = 1e-06
Identities = 21/46 (45%), Positives = 28/46 (60%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL 67
L S LSV +K+ L VS P E+ A++GPSG GK+TLL +
Sbjct: 6 LQVSDLSVYYNKKKALNSVSLDFYPNEITALIGPSGSGKSTLLRSI 51
>gnl|CDD|183244 PRK11629, lolD, lipoprotein transporter ATP-binding subunit;
Provisional.
Length = 233
Score = 44.8 bits (106), Expect = 2e-06
Identities = 20/52 (38%), Positives = 33/52 (63%)
Query: 36 ILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNK 87
+L +VS + GE++A++G SG GK+TLL+ L G SG + N + ++K
Sbjct: 24 VLHNVSFSIGEGEMMAIVGSSGSGKSTLLHLLGGLDTPTSGDVIFNGQPMSK 75
>gnl|CDD|163483 TIGR03771, anch_rpt_ABC, anchored repeat-type ABC transporter,
ATP-binding subunit. This protein family is the
ATP-binding cassette subunit of binding
protein-dependent ABC transporter complex that strictly
co-occurs with TIGR03769. TIGRFAMs model TIGR03769
describes a protein domain that occurs singly or as one
of up to three repeats in proteins of a number of
Actinobacteria, including Propionibacterium acnes
KPA171202. The TIGR03769 domain occurs both in an
adjacent gene for the substrate-binding protein and in
additional (often nearby) proteins, often with
LPXTG-like sortase recognition signals. Homologous
ATP-binding subunits outside the scope of this family
include manganese transporter MntA in Synechocystis sp.
PCC 6803 and chelated iron transporter subunits. The
function of this transporter complex is unknown
[Transport and binding proteins, Unknown substrate].
Length = 223
Score = 44.8 bits (106), Expect = 2e-06
Identities = 23/59 (38%), Positives = 32/59 (54%), Gaps = 1/59 (1%)
Query: 44 VKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKRKICYVLQQDIF 102
GELL ++GP+G GKTTLL + G + G +++ K W R I YV Q+ F
Sbjct: 3 ADKGELLGLLGPNGAGKTTLLRAILGLIPPAKGTVKVAGASPGKGW-RHIGYVPQRHEF 60
>gnl|CDD|131266 TIGR02211, LolD_lipo_ex, lipoprotein releasing system,
ATP-binding protein. This model represents LolD, a
member of the ABC transporter family (pfam00005). LolD
is involved in localization of lipoproteins in some
bacteria. It works with a transmembrane protein LolC,
which in some species is a paralogous pair LolC and
LolE. Depending on whether the residue immediately
following the new, modified N-terminal Cys residue, the
nascent lipoprotein may be carried further by LolA and
LolB to the outer membrane, or remain at the inner
membrane. The top scoring proteins excluded by this
model include homologs from the archaeal genus
Methanosarcina [Protein fate, Protein and peptide
secretion and trafficking].
Length = 221
Score = 44.6 bits (106), Expect = 2e-06
Identities = 22/52 (42%), Positives = 33/52 (63%)
Query: 36 ILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNK 87
+LK VS + GE++A++G SG GK+TLL+ L G SG + N + L+K
Sbjct: 20 VLKGVSLSIGKGEIVAIVGSSGSGKSTLLHLLGGLDNPTSGEVLFNGQSLSK 71
>gnl|CDD|130261 TIGR01193, bacteriocin_ABC, ABC-type bacteriocin transporter. This
model describes ABC-type bacteriocin transporter. The
amino terminal domain (pfam03412) processes the
N-terminal leader peptide from the bacteriocin while
C-terminal domains resemble ABC transporter membrane
protein and ATP-binding cassette domain. In general,
bacteriocins are agents which are responsible for
killing or inhibiting the closely related species or
even different strains of the same species. Bacteriocins
are usually encoded by bacterial plasmids. Bacteriocins
are named after the species and hence in literature one
encounters various names e.g., leucocin from Leuconostic
geldium; pedicocin from Pedicoccus acidilactici; sakacin
from Lactobacillus sake etc [Protein fate, Protein and
peptide secretion and trafficking, Protein fate, Protein
modification and repair, Transport and binding proteins,
Other].
Length = 708
Score = 44.7 bits (106), Expect = 2e-06
Identities = 24/74 (32%), Positives = 34/74 (45%), Gaps = 4/74 (5%)
Query: 34 RPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNK----RW 89
IL D+S +K ++G SG GK+TL L G + SG I LN L
Sbjct: 487 SNILSDISLTIKMNSKTTIVGMSGSGKSTLAKLLVGFFQARSGEILLNGFSLKDIDRHTL 546
Query: 90 KRKICYVLQQDIFF 103
++ I Y+ Q+ F
Sbjct: 547 RQFINYLPQEPYIF 560
>gnl|CDD|233596 TIGR01846, type_I_sec_HlyB, type I secretion system ABC
transporter, HlyB family. Type I protein secretion is a
system in some Gram-negative bacteria to export proteins
(often proteases) across both inner and outer membranes
to the extracellular medium. This is one of three
proteins of the type I secretion apparatus. Targeted
proteins are not cleaved at the N-terminus, but rather
carry signals located toward the extreme C-terminus to
direct type I secretion [Protein fate, Protein and
peptide secretion and trafficking].
Length = 694
Score = 44.3 bits (105), Expect = 3e-06
Identities = 24/80 (30%), Positives = 44/80 (55%), Gaps = 12/80 (15%)
Query: 32 DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLA-------GRVKLDSGVIRLNKER 84
D +L +++ +KPGE + ++GPSG GK+TL L G+V +D ++
Sbjct: 468 DSPEVLSNLNLDIKPGEFIGIVGPSGSGKSTLTKLLQRLYTPQHGQVLVDG----VDLAI 523
Query: 85 LNKRW-KRKICYVLQQDIFF 103
+ W +R++ VLQ+++ F
Sbjct: 524 ADPAWLRRQMGVVLQENVLF 543
>gnl|CDD|184586 PRK14240, PRK14240, phosphate transporter ATP-binding protein;
Provisional.
Length = 250
Score = 43.9 bits (104), Expect = 3e-06
Identities = 26/80 (32%), Positives = 39/80 (48%), Gaps = 13/80 (16%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCL------------AGRVKLDSGVIRLNKER 84
LK ++ ++ ++ A++GPSGCGK+T L L G V LD I +
Sbjct: 19 LKKINLDIEENQVTALIGPSGCGKSTFLRTLNRMNDLIPSVKIEGEVLLDGQDIYKSDID 78
Query: 85 LNKRWKRKICYVLQQDIFFP 104
+N+ KR + V QQ FP
Sbjct: 79 VNQLRKR-VGMVFQQPNPFP 97
>gnl|CDD|235150 PRK03695, PRK03695, vitamin B12-transporter ATPase; Provisional.
Length = 248
Score = 43.8 bits (104), Expect = 3e-06
Identities = 18/41 (43%), Positives = 27/41 (65%), Gaps = 2/41 (4%)
Query: 29 VTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAG 69
V + R L +S V+ GE+L ++GP+G GK+TLL +AG
Sbjct: 6 VAVSTR--LGPLSAEVRAGEILHLVGPNGAGKSTLLARMAG 44
>gnl|CDD|172734 PRK14246, PRK14246, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 257
Score = 43.9 bits (103), Expect = 3e-06
Identities = 27/94 (28%), Positives = 52/94 (55%), Gaps = 10/94 (10%)
Query: 25 SGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLA-------GRVKLDSGV 77
S L + ++ + ILKD++ + + +MGPSG GK+TLL L ++K+D V
Sbjct: 14 SRLYLYINDKAILKDITIKIPNNSIFGIMGPSGSGKSTLLKVLNRLIEIYDSKIKVDGKV 73
Query: 78 IRLNKE--RLNK-RWKRKICYVLQQDIFFPELTL 108
+ K+ +++ + ++++ V QQ FP L++
Sbjct: 74 LYFGKDIFQIDAIKLRKEVGMVFQQPNPFPHLSI 107
>gnl|CDD|183055 PRK11247, ssuB, aliphatic sulfonates transport ATP-binding
subunit; Provisional.
Length = 257
Score = 43.9 bits (104), Expect = 4e-06
Identities = 20/55 (36%), Positives = 32/55 (58%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSG 76
L+ + +S +R +L + + G+ +AV+G SGCGK+TLL LAG +G
Sbjct: 13 LLLNAVSKRYGERTVLNQLDLHIPAGQFVAVVGRSGCGKSTLLRLLAGLETPSAG 67
>gnl|CDD|237419 PRK13536, PRK13536, nodulation factor exporter subunit NodI;
Provisional.
Length = 340
Score = 44.1 bits (104), Expect = 4e-06
Identities = 28/104 (26%), Positives = 50/104 (48%), Gaps = 3/104 (2%)
Query: 14 PLSHRPLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKL 73
P S + + +G+S + + ++ +S V GE ++GP+G GK+T+ + G
Sbjct: 34 PGSMSTVAIDLAGVSKSYGDKAVVNGLSFTVASGECFGLLGPNGAGKSTIARMILGMTSP 93
Query: 74 DSGVIRLNKERLNKR---WKRKICYVLQQDIFFPELTLRQTLEV 114
D+G I + + R + +I V Q D E T+R+ L V
Sbjct: 94 DAGKITVLGVPVPARARLARARIGVVPQFDNLDLEFTVRENLLV 137
>gnl|CDD|237454 PRK13634, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 290
Score = 43.9 bits (104), Expect = 4e-06
Identities = 29/90 (32%), Positives = 47/90 (52%), Gaps = 13/90 (14%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERL-----NKRWK- 90
L DV+ + G +A++G +G GK+TLL L G ++ SG + + + + NK+ K
Sbjct: 23 LYDVNVSIPSGSYVAIIGHTGSGKSTLLQHLNGLLQPTSGTVTIGERVITAGKKNKKLKP 82
Query: 91 --RKICYVLQQDIFFPELTL-RQTLEVSIA 117
+K+ V Q FPE L +T+E I
Sbjct: 83 LRKKVGIVFQ----FPEHQLFEETVEKDIC 108
>gnl|CDD|184582 PRK14236, PRK14236, phosphate transporter ATP-binding protein;
Provisional.
Length = 272
Score = 43.5 bits (103), Expect = 4e-06
Identities = 19/59 (32%), Positives = 28/59 (47%)
Query: 9 PPEKYPLSHRPLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL 67
+ LS L L++ + L D+S + + A +GPSGCGK+TLL C
Sbjct: 13 LLDVLNLSDEQTALEVRNLNLFYGDKQALFDISMRIPKNRVTAFIGPSGCGKSTLLRCF 71
>gnl|CDD|226952 COG4586, COG4586, ABC-type uncharacterized transport system,
ATPase component [General function prediction only].
Length = 325
Score = 43.5 bits (103), Expect = 4e-06
Identities = 16/47 (34%), Positives = 28/47 (59%)
Query: 35 PILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
++D+S + GE++ +G +G GK+T L L G + SG +R+N
Sbjct: 38 EAVQDISFEIPKGEIVGFLGANGAGKSTTLKMLTGLLLPTSGKVRVN 84
>gnl|CDD|184593 PRK14258, PRK14258, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 261
Score = 43.5 bits (102), Expect = 5e-06
Identities = 29/89 (32%), Positives = 46/89 (51%), Gaps = 11/89 (12%)
Query: 27 LSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNC------LAGRVKLDSGVIRL 80
LS D + IL+ VS + ++ A++GPSGCGK+T L C L V+++ V
Sbjct: 13 LSFYYDTQKILEGVSMEIYQSKVTAIIGPSGCGKSTFLKCLNRMNELESEVRVEGRVEFF 72
Query: 81 NK----ERLN-KRWKRKICYVLQQDIFFP 104
N+ R+N R +R++ V + FP
Sbjct: 73 NQNIYERRVNLNRLRRQVSMVHPKPNLFP 101
>gnl|CDD|225265 COG2401, COG2401, ABC-type ATPase fused to a predicted
acetyltransferase domain [General function prediction
only].
Length = 593
Score = 43.7 bits (103), Expect = 5e-06
Identities = 18/39 (46%), Positives = 29/39 (74%)
Query: 34 RPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVK 72
R +L++++ +KPG+++AV+G SG GKTTLL + G K
Sbjct: 396 RYVLRNLNLEIKPGDVVAVVGQSGAGKTTLLRMILGAQK 434
>gnl|CDD|233335 TIGR01271, CFTR_protein, cystic fibrosis transmembrane conductor
regulator (CFTR). The model describes the cystis
fibrosis transmembrane conductor regulator (CFTR) in
eukaryotes. The principal role of this protein is
chloride ion conductance. The protein is predicted to
consist of 12 transmembrane domains. Mutations or
lesions in the genetic loci have been linked to the
aetiology of asthma, bronchiectasis, chronic obstructive
pulmonary disease etc. Disease-causing mutations have
been studied by 36Cl efflux assays in vitro cell
cultures and electrophysiology, all of which point to
the impairment of chloride channel stability and not the
biosynthetic processing per se [Transport and binding
proteins, Anions].
Length = 1490
Score = 43.7 bits (103), Expect = 5e-06
Identities = 23/58 (39%), Positives = 36/58 (62%), Gaps = 2/58 (3%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIR 79
L FS S L P+LK++S ++ G+LLAV G +G GK++LL + G ++ G I+
Sbjct: 429 LFFSNFS--LYVTPVLKNISFKLEKGQLLAVAGSTGSGKSSLLMMIMGELEPSEGKIK 484
Score = 41.8 bits (98), Expect = 3e-05
Identities = 28/90 (31%), Positives = 47/90 (52%), Gaps = 10/90 (11%)
Query: 30 TLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL------AGRVKLDSGVIRLNKE 83
T R +L+D+S V+ G+ + ++G +G GK+TLL+ L G +++D + N
Sbjct: 1228 TEAGRAVLQDLSFSVEGGQRVGLLGRTGSGKSTLLSALLRLLSTEGEIQIDG--VSWNSV 1285
Query: 84 RLNKRWKRKICYVLQQDIFFPELTLRQTLE 113
L W RK V+ Q +F T R+ L+
Sbjct: 1286 TLQT-W-RKAFGVIPQKVFIFSGTFRKNLD 1313
>gnl|CDD|215650 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 as in human CFTR, or
belong in different polypeptide chains.
Length = 119
Score = 41.9 bits (99), Expect = 6e-06
Identities = 20/57 (35%), Positives = 30/57 (52%), Gaps = 5/57 (8%)
Query: 61 TTLLNCLAGRVKLDSGVIRLNKERLN-----KRWKRKICYVLQQDIFFPELTLRQTL 112
+TLL + G ++ SG I L+ E K +++I V Q FPELT+R+ L
Sbjct: 1 STLLKLITGLLQPTSGTILLDGEDGTGLSSRKLLRKRIGVVFQDPQLFPELTVRENL 57
>gnl|CDD|236689 PRK10419, nikE, nickel transporter ATP-binding protein NikE;
Provisional.
Length = 268
Score = 43.1 bits (102), Expect = 6e-06
Identities = 24/63 (38%), Positives = 33/63 (52%)
Query: 25 SGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKER 84
GLS + +L +VS +K GE +A++G SGCGK+TL L G G + E
Sbjct: 16 GGLSGKHQHQTVLNNVSLSLKSGETVALLGRSGCGKSTLARLLVGLESPSQGNVSWRGEP 75
Query: 85 LNK 87
L K
Sbjct: 76 LAK 78
>gnl|CDD|184209 PRK13650, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 279
Score = 43.2 bits (102), Expect = 7e-06
Identities = 24/71 (33%), Positives = 41/71 (57%), Gaps = 4/71 (5%)
Query: 32 DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKR--W 89
++ L DVS VK GE L+++G +G GK+T + + G ++ +SG I ++ + L + W
Sbjct: 18 QEKYTLNDVSFHVKQGEWLSIIGHNGSGKSTTVRLIDGLLEAESGQIIIDGDLLTEENVW 77
Query: 90 --KRKICYVLQ 98
+ KI V Q
Sbjct: 78 DIRHKIGMVFQ 88
>gnl|CDD|233209 TIGR00958, 3a01208, Conjugate Transporter-2 (CT2) Family protein.
[Transport and binding proteins, Other].
Length = 711
Score = 43.2 bits (102), Expect = 7e-06
Identities = 27/83 (32%), Positives = 43/83 (51%), Gaps = 17/83 (20%)
Query: 6 PSLPPEKYPLSHRPLELV----FSGLSVTLDKRP---ILKDVSGVVKPGELLAVMGPSGC 58
P++P + PL L F +S + RP +LK ++ + PGE++A++GPSG
Sbjct: 462 PNIPL---TGTLAPLNLEGLIEFQDVSFSYPNRPDVPVLKGLTFTLHPGEVVALVGPSGS 518
Query: 59 GKTTLLNCL-------AGRVKLD 74
GK+T+ L G+V LD
Sbjct: 519 GKSTVAALLQNLYQPTGGQVLLD 541
>gnl|CDD|236992 PRK11819, PRK11819, putative ABC transporter ATP-binding protein;
Reviewed.
Length = 556
Score = 42.8 bits (102), Expect = 8e-06
Identities = 19/57 (33%), Positives = 35/57 (61%)
Query: 24 FSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRL 80
LS + R ++ D+S + PG ++ ++GP+G GK+TL + G+ + DSG I++
Sbjct: 327 AENLSKSFGDRLLIDDLSFSLPPGGIVGIIGPNGAGKSTLFKMITGQEQPDSGTIKI 383
Score = 40.5 bits (96), Expect = 6e-05
Identities = 30/86 (34%), Positives = 45/86 (52%), Gaps = 7/86 (8%)
Query: 33 KRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKRK 92
K+ ILKD+S PG + V+G +G GK+TLL +AG K G R K
Sbjct: 19 KKQILKDISLSFFPGAKIGVLGLNGAGKSTLLRIMAGVDKEFEGEARPAPG-------IK 71
Query: 93 ICYVLQQDIFFPELTLRQTLEVSIAD 118
+ Y+ Q+ PE T+R+ +E +A+
Sbjct: 72 VGYLPQEPQLDPEKTVRENVEEGVAE 97
>gnl|CDD|131816 TIGR02769, nickel_nikE, nickel import ATP-binding protein NikE.
This family represents the NikE subunit of a
multisubunit nickel import ABC transporter complex.
Nickel, once imported, may be used in urease and in
certain classes of hydrogenase and superoxide dismutase
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 265
Score = 42.5 bits (100), Expect = 1e-05
Identities = 26/87 (29%), Positives = 43/87 (49%), Gaps = 9/87 (10%)
Query: 35 PILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLN-------K 87
P+L +VS ++ GE + ++G SGCGK+TL L G K G + + L +
Sbjct: 25 PVLTNVSLSIEEGETVGLLGRSGCGKSTLARLLLGLEKPAQGTVSFRGQDLYQLDRKQRR 84
Query: 88 RWKRKICYVLQQDI--FFPELTLRQTL 112
++R + V Q P +T+RQ +
Sbjct: 85 AFRRDVQLVFQDSPSAVNPRMTVRQII 111
>gnl|CDD|240327 PTZ00243, PTZ00243, ABC transporter; Provisional.
Length = 1560
Score = 42.8 bits (101), Expect = 1e-05
Identities = 25/70 (35%), Positives = 38/70 (54%), Gaps = 11/70 (15%)
Query: 31 LDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRW- 89
L+ + +L+DVS V G+L V+G +G GK+TLL L + ++ G + W
Sbjct: 670 LEPKVLLRDVSVSVPRGKLTVVLGATGSGKSTLLQSLLSQFEISEGRV----------WA 719
Query: 90 KRKICYVLQQ 99
+R I YV QQ
Sbjct: 720 ERSIAYVPQQ 729
Score = 35.1 bits (81), Expect = 0.005
Identities = 26/80 (32%), Positives = 40/80 (50%), Gaps = 6/80 (7%)
Query: 6 PSLPPEKYPLSHRPLELVFSGLSVTLDKRP----ILKDVSGVVKPGELLAVMGPSGCGKT 61
P+ P P + LVF G V + R +L+ VS + P E + ++G +G GK+
Sbjct: 1293 PASPTSAAPHPVQAGSLVFEG--VQMRYREGLPLVLRGVSFRIAPREKVGIVGRTGSGKS 1350
Query: 62 TLLNCLAGRVKLDSGVIRLN 81
TLL V++ G IR+N
Sbjct: 1351 TLLLTFMRMVEVCGGEIRVN 1370
>gnl|CDD|130260 TIGR01192, chvA, glucan exporter ATP-binding protein. This model
describes glucan exporter ATP binding protein in
bacteria. It belongs to the larger ABC transporter
superfamily with the characteristic ATP binding motif.
The In general, this protein is in some ways implicated
in osmoregulation and suggested to participate in the
export of glucan from the cytoplasm to periplasm. The
cyclic beta-1,2-glucan in the bactrerial periplasmic
space is suggested to confer the property of high
osmolority. It has also been demonstrated that mutants
in this loci have lost functions of virulence and
motility. It is unclear as to how virulence and
osmoadaptaion are related [Transport and binding
proteins, Carbohydrates, organic alcohols, and acids].
Length = 585
Score = 42.6 bits (100), Expect = 1e-05
Identities = 22/66 (33%), Positives = 35/66 (53%), Gaps = 4/66 (6%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLN----KRWKRK 92
+ DVS K G+ +A++GP+G GKTTL+N L G I ++ +N + ++
Sbjct: 351 VFDVSFEAKAGQTVAIVGPTGAGKTTLINLLQRVYDPTVGQILIDGIDINTVTRESLRKS 410
Query: 93 ICYVLQ 98
I V Q
Sbjct: 411 IATVFQ 416
>gnl|CDD|184037 PRK13409, PRK13409, putative ATPase RIL; Provisional.
Length = 590
Score = 42.5 bits (101), Expect = 1e-05
Identities = 16/38 (42%), Positives = 24/38 (63%)
Query: 41 SGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVI 78
G + GE++ ++GP+G GKTT LAG +K D G +
Sbjct: 359 GGEIYEGEVIGIVGPNGIGKTTFAKLLAGVLKPDEGEV 396
Score = 35.2 bits (82), Expect = 0.005
Identities = 11/30 (36%), Positives = 20/30 (66%)
Query: 43 VVKPGELLAVMGPSGCGKTTLLNCLAGRVK 72
+ K G++ ++GP+G GKTT + L+G +
Sbjct: 95 IPKEGKVTGILGPNGIGKTTAVKILSGELI 124
>gnl|CDD|234988 PRK01889, PRK01889, GTPase RsgA; Reviewed.
Length = 356
Score = 42.2 bits (100), Expect = 1e-05
Identities = 15/43 (34%), Positives = 26/43 (60%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIR 79
L ++ + G+ +A++G SG GK+TL+N L G +G +R
Sbjct: 185 LDVLAAWLSGGKTVALLGSSGVGKSTLVNALLGEEVQKTGAVR 227
>gnl|CDD|237452 PRK13632, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 271
Score = 41.5 bits (98), Expect = 2e-05
Identities = 21/66 (31%), Positives = 38/66 (57%)
Query: 28 SVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNK 87
S + LK+VS + GE +A++G +G GK+T+ L G +K SG I+++ ++K
Sbjct: 16 SYPNSENNALKNVSFEINEGEYVAILGHNGSGKSTISKILTGLLKPQSGEIKIDGITISK 75
Query: 88 RWKRKI 93
++I
Sbjct: 76 ENLKEI 81
>gnl|CDD|182880 PRK10982, PRK10982, galactose/methyl galaxtoside transporter
ATP-binding protein; Provisional.
Length = 491
Score = 41.6 bits (98), Expect = 3e-05
Identities = 20/50 (40%), Positives = 31/50 (62%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLN 86
L +V+ V+P + A+MG +G GK+TLL CL G + DSG I + ++
Sbjct: 14 LDNVNLKVRPHSIHALMGENGAGKSTLLKCLFGIYQKDSGSILFQGKEID 63
Score = 36.2 bits (84), Expect = 0.002
Identities = 21/79 (26%), Positives = 44/79 (55%), Gaps = 3/79 (3%)
Query: 10 PEKYPLSHRPLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAG 69
P+K ++P E++ ++T ++P ++DVS + GE+L + G G +T ++ L G
Sbjct: 240 PDK---ENKPGEVILEVRNLTSLRQPSIRDVSFDLHKGEILGIAGLVGAKRTDIVETLFG 296
Query: 70 RVKLDSGVIRLNKERLNKR 88
+ +G I L+ +++N
Sbjct: 297 IREKSAGTITLHGKKINNH 315
>gnl|CDD|226622 COG4138, BtuD, ABC-type cobalamin transport system, ATPase
component [Coenzyme metabolism].
Length = 248
Score = 41.4 bits (97), Expect = 3e-05
Identities = 22/53 (41%), Positives = 31/53 (58%), Gaps = 3/53 (5%)
Query: 28 SVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRL 80
V R L +SG V+ GE+L ++GP+G GK+TLL +AG SG I+
Sbjct: 8 DVAESTR--LGPLSGEVRAGEILHLVGPNGAGKSTLLARMAGMTSG-SGSIQF 57
>gnl|CDD|226961 COG4598, HisP, ABC-type histidine transport system, ATPase
component [Amino acid transport and metabolism].
Length = 256
Score = 41.3 bits (97), Expect = 3e-05
Identities = 19/51 (37%), Positives = 31/51 (60%)
Query: 36 ILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLN 86
+LK VS G++++++G SG GK+T L C+ K +G IR+N E +
Sbjct: 21 VLKGVSLQANAGDVISIIGSSGSGKSTFLRCINFLEKPSAGSIRVNGEEIR 71
>gnl|CDD|182852 PRK10938, PRK10938, putative molybdenum transport ATP-binding
protein ModF; Provisional.
Length = 490
Score = 41.2 bits (97), Expect = 4e-05
Identities = 19/41 (46%), Positives = 29/41 (70%)
Query: 29 VTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAG 69
V+ + RPIL ++S V PGE ++GP+G GK+TLL+ + G
Sbjct: 268 VSYNDRPILHNLSWQVNPGEHWQIVGPNGAGKSTLLSLITG 308
Score = 32.3 bits (74), Expect = 0.047
Identities = 20/60 (33%), Positives = 30/60 (50%), Gaps = 12/60 (20%)
Query: 44 VKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSG--------VIRLNKERLNKR----WKR 91
+ G+ A +G +G GK+ L LAG + L SG + RL+ E+L K W+R
Sbjct: 26 LNAGDSWAFVGANGSGKSALARALAGELPLLSGERQSQFSHITRLSFEQLQKLVSDEWQR 85
>gnl|CDD|182182 PRK09984, PRK09984, phosphonate/organophosphate ester transporter
subunit; Provisional.
Length = 262
Score = 40.8 bits (95), Expect = 4e-05
Identities = 19/49 (38%), Positives = 30/49 (61%)
Query: 27 LSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDS 75
L+ T ++ L V + GE++A++GPSG GK+TLL L+G + D
Sbjct: 10 LAKTFNQHQALHAVDLNIHHGEMVALLGPSGSGKSTLLRHLSGLITGDK 58
>gnl|CDD|130355 TIGR01288, nodI, ATP-binding ABC transporter family nodulation
protein NodI. This protein is required for normal
nodulation by nitrogen-fixing root nodule bacteria such
as Mesorhizobium loti. It is a member of the family of
ABC transporter ATP binding proteins and works with NodJ
to export a nodulation signal molecule. This model does
not recognize the highly divergent NodI from
Azorhizobium caulinodans [Cellular processes, Other,
Transport and binding proteins, Other].
Length = 303
Score = 41.1 bits (96), Expect = 4e-05
Identities = 29/99 (29%), Positives = 49/99 (49%), Gaps = 3/99 (3%)
Query: 19 PLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVI 78
+ + G+S + + ++ D+S + GE ++GP+G GK+T+ L G + D G I
Sbjct: 2 NVAIDLVGVSKSYGDKVVVNDLSFTIARGECFGLLGPNGAGKSTIARMLLGMISPDRGKI 61
Query: 79 RLNKERLNKR---WKRKICYVLQQDIFFPELTLRQTLEV 114
+ E + R + I V Q D PE T+R+ L V
Sbjct: 62 TVLGEPVPSRARLARVAIGVVPQFDNLDPEFTVRENLLV 100
>gnl|CDD|217416 pfam03193, DUF258, Protein of unknown function, DUF258.
Length = 161
Score = 40.2 bits (95), Expect = 4e-05
Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 3/41 (7%)
Query: 47 GELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNK 87
G+ + G SG GK+TLLN L + L +G I E+L +
Sbjct: 35 GKTSVLAGQSGVGKSTLLNALLPELDLRTGEIS---EKLGR 72
>gnl|CDD|185016 PRK15056, PRK15056, manganese/iron transporter ATP-binding protein;
Provisional.
Length = 272
Score = 40.6 bits (95), Expect = 5e-05
Identities = 29/90 (32%), Positives = 47/90 (52%), Gaps = 5/90 (5%)
Query: 22 LVFSGLSVTL-DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRL 80
+V + ++VT + L+D S V G + A++G +G GK+TL L G V+L SG I +
Sbjct: 7 IVVNDVTVTWRNGHTALRDASFTVPGGSIAALVGVNGSGKSTLFKALMGFVRLASGKISI 66
Query: 81 NKERLNKRWKRK-ICYVLQQ---DIFFPEL 106
+ + ++ + YV Q D FP L
Sbjct: 67 LGQPTRQALQKNLVAYVPQSEEVDWSFPVL 96
>gnl|CDD|172741 PRK14253, PRK14253, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 249
Score = 40.6 bits (95), Expect = 5e-05
Identities = 18/41 (43%), Positives = 26/41 (63%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGV 77
LK ++ + ++ A++GPSGCGK+TLL CL L GV
Sbjct: 19 LKSINLPIPARQVTALIGPSGCGKSTLLRCLNRMNDLIEGV 59
>gnl|CDD|182733 PRK10790, PRK10790, putative multidrug transporter
membrane\ATP-binding components; Provisional.
Length = 592
Score = 40.9 bits (96), Expect = 5e-05
Identities = 25/86 (29%), Positives = 42/86 (48%), Gaps = 9/86 (10%)
Query: 32 DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNK---ERLNKR 88
D +L++++ V +A++G +G GK+TL + L G L G IRL+ L+
Sbjct: 352 DDNLVLQNINLSVPSRGFVALVGHTGSGKSTLASLLMGYYPLTEGEIRLDGRPLSSLSHS 411
Query: 89 WKRKICYVLQQD------IFFPELTL 108
R+ ++QQD F +TL
Sbjct: 412 VLRQGVAMVQQDPVVLADTFLANVTL 437
>gnl|CDD|132561 TIGR03522, GldA_ABC_ATP, gliding motility-associated ABC
transporter ATP-binding subunit GldA. Members of this
protein family are exclusive to the Bacteroidetes phylum
(previously Cytophaga-Flavobacteria-Bacteroides). GldA
is an ABC transporter ATP-binding protein (pfam00005)
linked to a type of rapid surface gliding motility found
in certain Bacteroidetes, such as Flavobacterium
johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA
abolish the gliding phenotype. Gliding motility appears
closely linked to chitin utilization in the model
species Flavobacterium johnsoniae. Bacteroidetes with
members of this protein family appear to have all of the
genes associated with gliding motility.
Length = 301
Score = 40.5 bits (95), Expect = 5e-05
Identities = 23/99 (23%), Positives = 51/99 (51%), Gaps = 3/99 (3%)
Query: 20 LELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIR 79
+ + S L+ + L +VS + G ++ +GP+G GK+T + + G + DSG ++
Sbjct: 1 MSIRVSSLTKLYGTQNALDEVSFEAQKGRIVGFLGPNGAGKSTTMKIITGYLPPDSGSVQ 60
Query: 80 LNKERL---NKRWKRKICYVLQQDIFFPELTLRQTLEVS 115
+ E + K +R I Y+ + + + ++ +R+ L+
Sbjct: 61 VCGEDVLQNPKEVQRNIGYLPEHNPLYLDMYVREYLQFI 99
>gnl|CDD|172749 PRK14261, PRK14261, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 253
Score = 40.2 bits (94), Expect = 6e-05
Identities = 27/91 (29%), Positives = 42/91 (46%), Gaps = 11/91 (12%)
Query: 26 GLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGV-----IRL 80
L++ ++ L D++ + + A++GPSGCGK+TLL C L G I
Sbjct: 11 NLNLWYGEKHALYDITISIPKNRVTALIGPSGCGKSTLLRCFNRMNDLIPGCRITGDILY 70
Query: 81 NKERLNKRW------KRKICYVLQQDIFFPE 105
N E + +RKI V Q+ FP+
Sbjct: 71 NGENIMDSGADVVALRRKIGMVFQRPNPFPK 101
>gnl|CDD|226968 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 = 40.6 bits (95), Expect = 7e-05
Identities = 16/40 (40%), Positives = 25/40 (62%)
Query: 44 VKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKE 83
+K GEL+ ++G +G GK+TL L G + SG I L+ +
Sbjct: 346 IKRGELVFLIGGNGSGKSTLAMLLTGLYQPQSGEILLDGK 385
>gnl|CDD|237645 PRK14235, PRK14235, phosphate transporter ATP-binding protein;
Provisional.
Length = 267
Score = 39.7 bits (93), Expect = 9e-05
Identities = 18/45 (40%), Positives = 25/45 (55%), Gaps = 6/45 (13%)
Query: 23 VFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL 67
VF G +K+ + DV + + A +GPSGCGK+T L CL
Sbjct: 27 VFYG-----EKQAL-FDVDLDIPEKTVTAFIGPSGCGKSTFLRCL 65
>gnl|CDD|236688 PRK10418, nikD, nickel transporter ATP-binding protein NikD;
Provisional.
Length = 254
Score = 39.3 bits (92), Expect = 1e-04
Identities = 18/64 (28%), Positives = 34/64 (53%), Gaps = 3/64 (4%)
Query: 18 RPLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGV 77
P ++ +++ +P++ VS ++ G +LA++G SG GK+ L C A L +GV
Sbjct: 1 MPQQIELRNIALQAA-QPLVHGVSLTLQRGRVLALVGGSGSGKS--LTCAAALGILPAGV 57
Query: 78 IRLN 81
+
Sbjct: 58 RQTA 61
>gnl|CDD|132050 TIGR03005, ectoine_ehuA, ectoine/hydroxyectoine ABC transporter,
ATP-binding protein. Members of this family are the
ATP-binding protein of a conserved four gene ABC
transporter operon found next to ectoine unilization
operons and ectoine biosynthesis operons. Ectoine is a
compatible solute that protects enzymes from high
osmolarity. It is released by some species in response
to hypoosmotic shock, and it is taken up by a number of
bacteria as a compatible solute or for consumption.
This family shows strong sequence similiarity to a
number of amino acid ABC transporter ATP-binding
proteins.
Length = 252
Score = 39.4 bits (92), Expect = 1e-04
Identities = 19/50 (38%), Positives = 31/50 (62%)
Query: 36 ILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERL 85
+L ++ V GE +A++GPSG GK+T+L L +D G I++ E+L
Sbjct: 15 VLDGLNFSVAAGEKVALIGPSGSGKSTILRILMTLEPIDEGQIQVEGEQL 64
>gnl|CDD|206747 cd01854, YjeQ_EngC, Ribosomal interacting GTPase YjeQ/EngC, a
circularly permuted subfamily of the Ras GTPases. YjeQ
(YloQ in Bacillus subtilis) is a ribosomal small
subunit-dependent GTPase; hence also known as RsgA. YjeQ
is a late-stage ribosomal biogenesis factor involved in
the 30S subunit maturation, and it 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.
Length = 211
Score = 39.3 bits (93), Expect = 1e-04
Identities = 16/41 (39%), Positives = 24/41 (58%), Gaps = 3/41 (7%)
Query: 47 GELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNK 87
G+ ++G SG GK+TLLN L + L +G I E+L +
Sbjct: 85 GKTSVLVGQSGVGKSTLLNALLPELVLATGEIS---EKLGR 122
>gnl|CDD|182342 PRK10261, PRK10261, glutathione transporter ATP-binding protein;
Provisional.
Length = 623
Score = 39.5 bits (92), Expect = 1e-04
Identities = 25/78 (32%), Positives = 39/78 (50%), Gaps = 9/78 (11%)
Query: 46 PGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLN-------KRWKRKICYVLQ 98
PGE L+++G SG GK+T L V+ G I N +R++ + +R I ++ Q
Sbjct: 349 PGETLSLVGESGSGKSTTGRALLRLVESQGGEIIFNGQRIDTLSPGKLQALRRDIQFIFQ 408
Query: 99 QDIFFPELTLRQTLEVSI 116
+ L RQT+ SI
Sbjct: 409 DP--YASLDPRQTVGDSI 424
Score = 29.1 bits (65), Expect = 0.59
Identities = 18/76 (23%), Positives = 39/76 (51%), Gaps = 4/76 (5%)
Query: 22 LVFSGLSVTLDKR----PILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGV 77
L L++ + ++++S ++ GE LA++G SG GK+ L ++ G+
Sbjct: 13 LAVENLNIAFMQEQQKIAAVRNLSFSLQRGETLAIVGESGSGKSVTALALMRLLEQAGGL 72
Query: 78 IRLNKERLNKRWKRKI 93
++ +K L +R ++ I
Sbjct: 73 VQCDKMLLRRRSRQVI 88
>gnl|CDD|130256 TIGR01188, drrA, daunorubicin resistance ABC transporter
ATP-binding subunit. This model describes daunorubicin
resistance ABC transporter, ATP binding subunit in
bacteria and archaea. This model is restricted in its
scope to preferentially recognize the ATP binding
subunit associated with effux of the drug, daunorubicin.
This transport system belong to the larger ATP-Binding
Cassette (ABC) transporter superfamily. The
characteristic feature of these transporter is the
obligatory coupling of ATP hydrolysis to substrate
translocation. The minimal configuration of bacterial
ABC transport system: an ATPase or ATP binding subunit;
An integral membrane protein; a hydrophilic polypetpide,
which likely functions as substrate binding protein. In
eukaryotes proteins of similar function include p-gyco
proteins, multidrug resistance protein etc [Transport
and binding proteins, Other].
Length = 302
Score = 39.3 bits (92), Expect = 2e-04
Identities = 25/86 (29%), Positives = 41/86 (47%), Gaps = 3/86 (3%)
Query: 32 DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKE---RLNKR 88
+ V+ V+ GE+ +GP+G GKTT + L ++ SG R+ R ++
Sbjct: 4 GDFKAVDGVNFKVREGEVFGFLGPNGAGKTTTIRMLTTLLRPTSGTARVAGYDVVREPRK 63
Query: 89 WKRKICYVLQQDIFFPELTLRQTLEV 114
+R I V Q +LT R+ LE+
Sbjct: 64 VRRSIGIVPQYASVDEDLTGRENLEM 89
>gnl|CDD|131817 TIGR02770, nickel_nikD, nickel import ATP-binding protein NikD.
This family represents the NikD subunit of a
multisubunit nickel import ABC transporter complex.
Nickel, once imported, may be used in urease and in
certain classes of hydrogenase and superoxide dismutase.
NikD and NikE are homologous [Transport and binding
proteins, Cations and iron carrying compounds].
Length = 230
Score = 38.9 bits (91), Expect = 2e-04
Identities = 24/80 (30%), Positives = 38/80 (47%), Gaps = 8/80 (10%)
Query: 39 DVSGVVKPGELLAVMGPSGCGKTT----LLNCLAGRVKLDSGVIRLNKERLN--KRWKRK 92
D++ +K GE+LA++G SG GK+ +L L + SG I L+ L R
Sbjct: 4 DLNLSLKRGEVLALVGESGSGKSLTCLAILGLLPPGLTQTSGEILLDGRPLLPLSIRGRH 63
Query: 93 ICYVLQ--QDIFFPELTLRQ 110
I ++Q + F P T+
Sbjct: 64 IATIMQNPRTAFNPLFTMGN 83
>gnl|CDD|184594 PRK14264, PRK14264, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 305
Score = 39.0 bits (91), Expect = 2e-04
Identities = 20/51 (39%), Positives = 26/51 (50%), Gaps = 12/51 (23%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCL------------AGRVKLDS 75
LK VS + + A++GPSGCGK+T L CL G V+LD
Sbjct: 61 LKGVSMDIPEKSVTALIGPSGCGKSTFLRCLNRMNDRIKAARIDGSVELDG 111
>gnl|CDD|172733 PRK14245, PRK14245, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 250
Score = 38.8 bits (90), Expect = 2e-04
Identities = 21/81 (25%), Positives = 39/81 (48%), Gaps = 13/81 (16%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNC------------LAGRVKLDSGVIRLNKER 84
LK +S ++ ++A +GPSGCGK+T L L G +++D I +
Sbjct: 19 LKGISMEIEEKSVVAFIGPSGCGKSTFLRLFNRMNDLIPATRLEGEIRIDGRNIYDKGVQ 78
Query: 85 LNKRWKRKICYVLQQDIFFPE 105
++ ++ + V Q+ FP+
Sbjct: 79 VD-ELRKNVGMVFQRPNPFPK 98
>gnl|CDD|185037 PRK15079, PRK15079, oligopeptide ABC transporter ATP-binding
protein OppF; Provisional.
Length = 331
Score = 38.9 bits (91), Expect = 2e-04
Identities = 25/63 (39%), Positives = 32/63 (50%), Gaps = 7/63 (11%)
Query: 37 LKDVSGV---VKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSG-VIRLNKERL---NKRW 89
LK V GV + GE L V+G SGCGK+T + G VK G V L K+ L + W
Sbjct: 34 LKAVDGVTLRLYEGETLGVVGESGCGKSTFARAIIGLVKATDGEVAWLGKDLLGMKDDEW 93
Query: 90 KRK 92
+
Sbjct: 94 RAV 96
>gnl|CDD|182221 PRK10070, PRK10070, glycine betaine transporter ATP-binding
subunit; Provisional.
Length = 400
Score = 38.9 bits (90), Expect = 2e-04
Identities = 29/105 (27%), Positives = 52/105 (49%), Gaps = 13/105 (12%)
Query: 17 HRPLELVFSGLS--VTLDKRPI---LKDVSGVVKPGELLAVMGPSGCGKTTLLNCL---- 67
R + + GLS L+K + +KD S ++ GE+ +MG SG GK+T++ L
Sbjct: 19 QRAFKYIEQGLSKEQILEKTGLSLGVKDASLAIEEGEIFVIMGLSGSGKSTMVRLLNRLI 78
Query: 68 ---AGRVKLDS-GVIRLNKERLNKRWKRKICYVLQQDIFFPELTL 108
G+V +D + +++ L + ++KI V Q P +T+
Sbjct: 79 EPTRGQVLIDGVDIAKISDAELREVRRKKIAMVFQSFALMPHMTV 123
>gnl|CDD|172739 PRK14251, PRK14251, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 251
Score = 38.9 bits (90), Expect = 2e-04
Identities = 24/69 (34%), Positives = 35/69 (50%), Gaps = 13/69 (18%)
Query: 48 ELLAVMGPSGCGKTTLLNCL------------AGRVKLDSGVIRLNKERLNKRWKRKICY 95
EL A++GPSGCGK+T L CL G +K + I +K L + ++++
Sbjct: 31 ELTALIGPSGCGKSTFLRCLNRMNDDIENIKITGEIKFEGQNIYGSKMDLVE-LRKEVGM 89
Query: 96 VLQQDIFFP 104
V QQ FP
Sbjct: 90 VFQQPTPFP 98
>gnl|CDD|172732 PRK14244, PRK14244, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 251
Score = 38.7 bits (90), Expect = 2e-04
Identities = 16/41 (39%), Positives = 25/41 (60%)
Query: 26 GLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNC 66
L++ + IL D++ + E+ A +GPSGCGK+T L C
Sbjct: 10 NLNLWYGSKQILFDINLDIYKREVTAFIGPSGCGKSTFLRC 50
>gnl|CDD|213204 cd03237, ABC_RNaseL_inhibitor_domain2, The ATP-binding cassette
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 = 38.5 bits (90), Expect = 2e-04
Identities = 15/35 (42%), Positives = 23/35 (65%)
Query: 42 GVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSG 76
G + E++ ++GP+G GKTT + LAG +K D G
Sbjct: 20 GSISESEVIGILGPNGIGKTTFIKMLAGVLKPDEG 54
>gnl|CDD|224166 COG1245, COG1245, Predicted ATPase, RNase L inhibitor (RLI) homolog
[General function prediction only].
Length = 591
Score = 38.8 bits (91), Expect = 2e-04
Identities = 16/36 (44%), Positives = 24/36 (66%)
Query: 41 SGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSG 76
G + GE++ ++GP+G GKTT + LAG +K D G
Sbjct: 361 EGEIYDGEVIGILGPNGIGKTTFVKLLAGVIKPDEG 396
Score = 37.7 bits (88), Expect = 5e-04
Identities = 13/30 (43%), Positives = 22/30 (73%)
Query: 43 VVKPGELLAVMGPSGCGKTTLLNCLAGRVK 72
+PG+++ ++GP+G GK+T L LAG +K
Sbjct: 96 TPRPGKVVGILGPNGIGKSTALKILAGELK 125
>gnl|CDD|237648 PRK14250, PRK14250, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 241
Score = 38.3 bits (89), Expect = 3e-04
Identities = 29/97 (29%), Positives = 49/97 (50%), Gaps = 5/97 (5%)
Query: 21 ELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRL 80
E+ F +S + + ILKD+S + G + ++GPSG GK+TL+ + + G I +
Sbjct: 3 EIEFKEVSYSSFGKEILKDISVKFEGGAIYTIVGPSGAGKSTLIKLINRLIDPTEGSILI 62
Query: 81 NKERLNK----RWKRKICYVLQQDIFFPELTLRQTLE 113
+ + +RKI V QQ F E T++ +E
Sbjct: 63 DGVDIKTIDVIDLRRKIGMVFQQPHLF-EGTVKDNIE 98
>gnl|CDD|224084 COG1162, COG1162, Predicted GTPases [General function prediction
only].
Length = 301
Score = 38.4 bits (90), Expect = 3e-04
Identities = 13/39 (33%), Positives = 21/39 (53%)
Query: 46 PGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKER 84
G++ ++G SG GK+TL+N L + +G I R
Sbjct: 163 AGKITVLLGQSGVGKSTLINALLPELNQKTGEISEKLGR 201
>gnl|CDD|183231 PRK11614, livF, leucine/isoleucine/valine transporter ATP-binding
subunit; Provisional.
Length = 237
Score = 38.3 bits (89), Expect = 3e-04
Identities = 22/57 (38%), Positives = 31/57 (54%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVI 78
L F +S K L +VS + GE++ ++G +G GKTTLL L G + SG I
Sbjct: 6 LSFDKVSAHYGKIQALHEVSLHINQGEIVTLIGANGAGKTTLLGTLCGDPRATSGRI 62
>gnl|CDD|172743 PRK14255, PRK14255, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 252
Score = 38.0 bits (88), Expect = 3e-04
Identities = 15/35 (42%), Positives = 20/35 (57%)
Query: 33 KRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL 67
K LK + E+ A++GPSGCGK+T L L
Sbjct: 17 KFEALKGIDLDFNQNEITALIGPSGCGKSTYLRTL 51
>gnl|CDD|182592 PRK10619, PRK10619, histidine/lysine/arginine/ornithine
transporter subunit; Provisional.
Length = 257
Score = 38.0 bits (88), Expect = 3e-04
Identities = 23/65 (35%), Positives = 36/65 (55%), Gaps = 5/65 (7%)
Query: 27 LSVT-LDKR----PILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
L+V L KR +LK VS G++++++G SG GK+T L C+ K G I +N
Sbjct: 6 LNVIDLHKRYGEHEVLKGVSLQANAGDVISIIGSSGSGKSTFLRCINFLEKPSEGSIVVN 65
Query: 82 KERLN 86
+ +N
Sbjct: 66 GQTIN 70
>gnl|CDD|213269 cd03369, ABCC_NFT1, ATP-binding cassette domain 2 of NFT1,
subfamily C. Domain 2 of NFT1 (New full-length MRP-type
transporter 1). NFT1 belongs to the MRP (multidrug
resistance-associated protein) family of ABC
transporters. 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-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 = 37.8 bits (88), Expect = 4e-04
Identities = 28/100 (28%), Positives = 49/100 (49%), Gaps = 7/100 (7%)
Query: 21 ELVFSGLSVTL--DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVI 78
E+ LSV D P+LK+VS VK GE + ++G +G GK+TL+ L ++ + G I
Sbjct: 6 EIEVENLSVRYAPDLPPVLKNVSFKVKAGEKIGIVGRTGAGKSTLILALFRFLEAEEGKI 65
Query: 79 RLNKERLNK----RWKRKICYVLQQDIFFPELTLRQTLEV 114
++ ++ + + + Q F T+R L+
Sbjct: 66 EIDGIDISTIPLEDLRSSLTIIPQDPTLFSG-TIRSNLDP 104
>gnl|CDD|172730 PRK14242, PRK14242, phosphate transporter ATP-binding protein;
Provisional.
Length = 253
Score = 37.8 bits (88), Expect = 4e-04
Identities = 19/49 (38%), Positives = 28/49 (57%)
Query: 19 PLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL 67
P ++ GLS L D+S + ++ A++GPSGCGK+T L CL
Sbjct: 4 PPKMEARGLSFFYGDFQALHDISLEFEQNQVTALIGPSGCGKSTFLRCL 52
>gnl|CDD|182336 PRK10253, PRK10253, iron-enterobactin transporter ATP-binding
protein; Provisional.
Length = 265
Score = 38.0 bits (88), Expect = 4e-04
Identities = 26/92 (28%), Positives = 46/92 (50%), Gaps = 9/92 (9%)
Query: 27 LSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERL- 85
L++ K + ++++ + G A++GP+GCGK+TLL L+ + G + L+ E +
Sbjct: 13 LTLGYGKYTVAENLTVEIPDGHFTAIIGPNGCGKSTLLRTLSRLMTPAHGHVWLDGEHIQ 72
Query: 86 ---NKRWKRKICYVLQQ-----DIFFPELTLR 109
+K R+I + Q DI EL R
Sbjct: 73 HYASKEVARRIGLLAQNATTPGDITVQELVAR 104
>gnl|CDD|237802 PRK14723, flhF, flagellar biosynthesis regulator FlhF; Provisional.
Length = 767
Score = 38.2 bits (89), Expect = 4e-04
Identities = 19/53 (35%), Positives = 29/53 (54%), Gaps = 5/53 (9%)
Query: 33 KRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERL 85
P+L+D ++ G +LA++GP+G GKTT LA R V R ++L
Sbjct: 171 HLPVLRDEDALLAQGGVLALVGPTGVGKTTTTAKLAARC-----VAREGADQL 218
>gnl|CDD|182692 PRK10744, pstB, phosphate transporter ATP-binding protein;
Provisional.
Length = 260
Score = 37.7 bits (88), Expect = 5e-04
Identities = 23/80 (28%), Positives = 37/80 (46%), Gaps = 13/80 (16%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCL------------AGRVKLDSGVIRLNKER 84
LK+++ + ++ A +GPSGCGK+TLL G + LD I K+
Sbjct: 29 LKNINLDIAKNQVTAFIGPSGCGKSTLLRTFNRMYELYPEQRAEGEILLDGENILTPKQD 88
Query: 85 LNKRWKRKICYVLQQDIFFP 104
+ + K+ V Q+ FP
Sbjct: 89 IA-LLRAKVGMVFQKPTPFP 107
>gnl|CDD|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed.
Length = 413
Score = 37.8 bits (89), Expect = 5e-04
Identities = 30/110 (27%), Positives = 41/110 (37%), Gaps = 41/110 (37%)
Query: 34 RP-ILKDVSG---VVKPGELLAVM------------GPSGCGKTTLLNCLAGRVKLD--- 74
RP L +V G ++ PG+ L M GP G GKTTL +AG
Sbjct: 7 RPKTLDEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGATDAPFEA 66
Query: 75 -----SGV--IR--LNKERLNKRWKRKICYVL-----------QQDIFFP 104
SGV +R + + R + R+ +L QQD P
Sbjct: 67 LSAVTSGVKDLREVIEEARQRRSAGRRT--ILFIDEIHRFNKAQQDALLP 114
>gnl|CDD|236755 PRK10762, PRK10762, D-ribose transporter ATP binding protein;
Provisional.
Length = 501
Score = 38.1 bits (89), Expect = 5e-04
Identities = 21/54 (38%), Positives = 32/54 (59%), Gaps = 4/54 (7%)
Query: 35 PILKDVSGV---VKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIR-LNKER 84
P +K +SG V PG ++A++G +G GK+T++ L G D+G I L KE
Sbjct: 15 PGVKALSGAALNVYPGRVMALVGENGAGKSTMMKVLTGIYTRDAGSILYLGKEV 68
Score = 37.3 bits (87), Expect = 8e-04
Identities = 24/81 (29%), Positives = 38/81 (46%), Gaps = 8/81 (9%)
Query: 11 EKYP---LSHRPLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL 67
++YP + + L LS P + DVS ++ GE+L V G G G+T L+ L
Sbjct: 244 DQYPRLDKAPGEVRLKVDNLS-----GPGVNDVSFTLRKGEILGVSGLMGAGRTELMKVL 298
Query: 68 AGRVKLDSGVIRLNKERLNKR 88
G + SG + L+ + R
Sbjct: 299 YGALPRTSGYVTLDGHEVVTR 319
>gnl|CDD|240339 PTZ00265, PTZ00265, multidrug resistance protein (mdr1);
Provisional.
Length = 1466
Score = 38.1 bits (88), Expect = 5e-04
Identities = 24/73 (32%), Positives = 36/73 (49%), Gaps = 5/73 (6%)
Query: 36 ILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN-----KERLNKRWK 90
I KD++ + G+ A +G SGCGK+T+L + G I +N K+ K W+
Sbjct: 400 IYKDLNFTLTEGKTYAFVGESGCGKSTILKLIERLYDPTEGDIIINDSHNLKDINLKWWR 459
Query: 91 RKICYVLQQDIFF 103
KI V Q + F
Sbjct: 460 SKIGVVSQDPLLF 472
Score = 28.1 bits (62), Expect = 1.3
Identities = 11/33 (33%), Positives = 21/33 (63%)
Query: 35 PILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL 67
PI KD++ + A++G +G GK+T+++ L
Sbjct: 1182 PIYKDLTFSCDSKKTTAIVGETGSGKSTVMSLL 1214
>gnl|CDD|236898 PRK11308, dppF, dipeptide transporter ATP-binding subunit;
Provisional.
Length = 327
Score = 37.6 bits (88), Expect = 5e-04
Identities = 15/27 (55%), Positives = 20/27 (74%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTL 63
L VS ++ G+ LAV+G SGCGK+TL
Sbjct: 31 LDGVSFTLERGKTLAVVGESGCGKSTL 57
>gnl|CDD|215595 PLN03130, PLN03130, ABC transporter C family member; Provisional.
Length = 1622
Score = 37.8 bits (88), Expect = 5e-04
Identities = 16/44 (36%), Positives = 28/44 (63%)
Query: 35 PILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVI 78
P+L +S + P E + ++G +G GK+++LN L V+L+ G I
Sbjct: 1253 PVLHGLSFEISPSEKVGIVGRTGAGKSSMLNALFRIVELERGRI 1296
Score = 32.8 bits (75), Expect = 0.033
Identities = 18/49 (36%), Positives = 30/49 (61%), Gaps = 3/49 (6%)
Query: 34 RPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSG---VIR 79
RP L +++ V G L+A++G +G GKT+L++ + G + S VIR
Sbjct: 630 RPTLSNINLDVPVGSLVAIVGSTGEGKTSLISAMLGELPPRSDASVVIR 678
>gnl|CDD|226637 COG4167, SapF, ABC-type antimicrobial peptide transport system,
ATPase component [Defense mechanisms].
Length = 267
Score = 37.5 bits (87), Expect = 5e-04
Identities = 20/49 (40%), Positives = 31/49 (63%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERL 85
+K VS ++ G+ LA++G +G GK+TL LAG ++ SG I +N L
Sbjct: 29 VKPVSFTLREGQTLAIIGENGSGKSTLAKMLAGMIEPTSGEILINDHPL 77
>gnl|CDD|215640 PLN03232, PLN03232, ABC transporter C family member; Provisional.
Length = 1495
Score = 38.0 bits (88), Expect = 5e-04
Identities = 29/91 (31%), Positives = 42/91 (46%), Gaps = 11/91 (12%)
Query: 2 VSNIPSLPPE-------KYPLSHRPLELVFSGLSVTLDKRP----ILKDVSGVVKPGELL 50
V N LP E P+S P V L RP +L +S V P E +
Sbjct: 1206 VGNYIDLPSEATAIIENNRPVSGWPSRGSIKFEDVHLRYRPGLPPVLHGLSFFVSPSEKV 1265
Query: 51 AVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
V+G +G GK+++LN L V+L+ G I ++
Sbjct: 1266 GVVGRTGAGKSSMLNALFRIVELEKGRIMID 1296
Score = 30.7 bits (69), Expect = 0.18
Identities = 13/38 (34%), Positives = 26/38 (68%)
Query: 34 RPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRV 71
+P L D++ + G L+A++G +G GKT+L++ + G +
Sbjct: 630 KPTLSDINLEIPVGSLVAIVGGTGEGKTSLISAMLGEL 667
>gnl|CDD|237651 PRK14266, PRK14266, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 250
Score = 37.2 bits (86), Expect = 6e-04
Identities = 16/41 (39%), Positives = 25/41 (60%)
Query: 27 LSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL 67
L+ D ILK+V+ + + A++GPSGCGK+T + L
Sbjct: 9 LNTYFDDAHILKNVNLDIPKNSVTALIGPSGCGKSTFIRTL 49
>gnl|CDD|184588 PRK14243, PRK14243, phosphate transporter ATP-binding protein;
Provisional.
Length = 264
Score = 37.5 bits (87), Expect = 6e-04
Identities = 15/40 (37%), Positives = 24/40 (60%)
Query: 27 LSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNC 66
L+V +K+V + ++ A +GPSGCGK+T+L C
Sbjct: 16 LNVYYGSFLAVKNVWLDIPKNQITAFIGPSGCGKSTILRC 55
>gnl|CDD|188098 TIGR00957, MRP_assoc_pro, multi drug resistance-associated protein
(MRP). This model describes multi drug
resistance-associated protein (MRP) in eukaryotes. The
multidrug resistance-associated protein is an integral
membrane protein that causes multidrug resistance when
overexpressed in mammalian cells. It belongs to ABC
transporter superfamily. The protein topology and
function was experimentally demonstrated by epitope
tagging and immunofluorescence. Insertion of tags in the
critical regions associated with drug efflux, abrogated
its function. The C-terminal domain seem to highly
conserved [Transport and binding proteins, Other].
Length = 1522
Score = 37.6 bits (87), Expect = 7e-04
Identities = 21/68 (30%), Positives = 33/68 (48%), Gaps = 9/68 (13%)
Query: 32 DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKR 91
D P L ++ + G L+AV+G GCGK++LL+ L + G + + K
Sbjct: 649 DLPPTLNGITFSIPEGALVAVVGQVGCGKSSLLSALLAEMDKVEGHVHM---------KG 699
Query: 92 KICYVLQQ 99
+ YV QQ
Sbjct: 700 SVAYVPQQ 707
Score = 31.8 bits (72), Expect = 0.065
Identities = 28/120 (23%), Positives = 53/120 (44%), Gaps = 8/120 (6%)
Query: 7 SLPPEKYPLSHRPLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNC 66
+ PP +P R +E L D +L+ ++ + GE + ++G +G GK++L
Sbjct: 1273 TAPPSGWPPRGR-VEFRNYCLRYREDLDLVLRHINVTIHGGEKVGIVGRTGAGKSSLTLG 1331
Query: 67 LAGRVKLDSGVIRLNKERLNK----RWKRKICYVLQQDIFFPELTLRQTLE--VSIADED 120
L + G I ++ + K + KI + Q + F +LR L+ +DE+
Sbjct: 1332 LFRINESAEGEIIIDGLNIAKIGLHDLRFKITIIPQDPVLFSG-SLRMNLDPFSQYSDEE 1390
>gnl|CDD|184210 PRK13651, PRK13651, cobalt transporter ATP-binding subunit;
Provisional.
Length = 305
Score = 37.4 bits (87), Expect = 7e-04
Identities = 20/62 (32%), Positives = 32/62 (51%), Gaps = 2/62 (3%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIR--LNKERLNKRWKRKIC 94
L +VS + GE +A++G +G GKTT + L + D+G I E+ K+ K K
Sbjct: 23 LDNVSVEINQGEFIAIIGQTGSGKTTFIEHLNALLLPDTGTIEWIFKDEKNKKKTKEKEK 82
Query: 95 YV 96
+
Sbjct: 83 VL 84
>gnl|CDD|172760 PRK14272, PRK14272, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 252
Score = 37.3 bits (86), Expect = 7e-04
Identities = 17/49 (34%), Positives = 29/49 (59%)
Query: 19 PLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL 67
L L +++ + +K+V+ V+ G + A++GPSGCGKTT L +
Sbjct: 2 TLLLSAQDVNIYYGDKQAVKNVNLDVQRGTVNALIGPSGCGKTTFLRAI 50
>gnl|CDD|185067 PRK15112, PRK15112, antimicrobial peptide ABC system ATP-binding
protein SapF; Provisional.
Length = 267
Score = 37.1 bits (86), Expect = 7e-04
Identities = 17/49 (34%), Positives = 31/49 (63%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERL 85
+K +S ++ G+ LA++G +G GK+TL LAG ++ SG + ++ L
Sbjct: 29 VKPLSFTLREGQTLAIIGENGSGKSTLAKMLAGMIEPTSGELLIDDHPL 77
>gnl|CDD|172740 PRK14252, PRK14252, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 265
Score = 37.3 bits (86), Expect = 8e-04
Identities = 14/31 (45%), Positives = 23/31 (74%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCL 67
LK+++ +V ++ A++GPSGCGK+T L C
Sbjct: 32 LKNINMMVHEKQVTALIGPSGCGKSTFLRCF 62
>gnl|CDD|172747 PRK14259, PRK14259, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 269
Score = 37.1 bits (86), Expect = 8e-04
Identities = 28/82 (34%), Positives = 42/82 (51%), Gaps = 15/82 (18%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLL-----------NC-LAGRVKLDSGVIRLNKER 84
+K+V + G++ A++GPSGCGK+T+L C L GRV D L R
Sbjct: 29 VKNVFCDIPRGKVTALIGPSGCGKSTVLRSLNRMNDLIEGCSLKGRVLFDG--TDLYDPR 86
Query: 85 LNK-RWKRKICYVLQQDIFFPE 105
++ +R+I V QQ FP+
Sbjct: 87 VDPVEVRRRIGMVFQQPNPFPK 108
>gnl|CDD|184196 PRK13636, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 283
Score = 37.1 bits (86), Expect = 8e-04
Identities = 21/65 (32%), Positives = 38/65 (58%), Gaps = 2/65 (3%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKRKICYV 96
LK ++ +K GE+ A++G +G GK+TL L G +K SG I + + ++ + RK
Sbjct: 22 LKGININIKKGEVTAILGGNGAGKSTLFQNLNGILKPSSGRILFDGKPID--YSRKGLMK 79
Query: 97 LQQDI 101
L++ +
Sbjct: 80 LRESV 84
>gnl|CDD|213189 cd03222, ABC_RNaseL_inhibitor, ATP-binding cassette domain 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 more
than 48%. The high degree of evolutionary conservation
suggests that RLI performs a central role in archaeal
and eukaryotic physiology.
Length = 177
Score = 36.8 bits (85), Expect = 8e-04
Identities = 16/43 (37%), Positives = 26/43 (60%)
Query: 42 GVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKER 84
GVVK GE++ ++GP+G GKTT + LAG++ + +
Sbjct: 20 GVVKEGEVIGIVGPNGTGKTTAVKILAGQLIPNGDNDEWDGIT 62
>gnl|CDD|188317 TIGR03415, ABC_choXWV_ATP, choline ABC transporter, ATP-binding
protein. Members of this protein family are the
ATP-binding subunit of a three-protein transporter. This
family belongs, more broadly, to the family of proline
and glycine-betaine transporters, but members have been
identified by direct characterization and by
bioinformatic means as choline transporters. Many
species have several closely-related members of this
family, probably with variable abilities to act
additionally on related quaternary amines [Transport and
binding proteins, Amino acids, peptides and amines].
Length = 382
Score = 37.1 bits (86), Expect = 8e-04
Identities = 22/84 (26%), Positives = 36/84 (42%), Gaps = 12/84 (14%)
Query: 39 DVSGVVKPGELLAVMGPSGCGKTTLLNCLAG---------RVKLDSGVI---RLNKERLN 86
+ S ++ GE+ +MG SG GK+TLL + G VK G + + L
Sbjct: 42 NASLDIEEGEICVLMGLSGSGKSTLLRAVNGLNPVSRGSVLVKDGDGSVDVANCDAATLR 101
Query: 87 KRWKRKICYVLQQDIFFPELTLRQ 110
+ ++ V QQ P T+ +
Sbjct: 102 RLRTHRVSMVFQQFALLPWRTVEE 125
>gnl|CDD|172744 PRK14256, PRK14256, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 252
Score = 36.9 bits (85), Expect = 9e-04
Identities = 26/94 (27%), Positives = 45/94 (47%), Gaps = 13/94 (13%)
Query: 27 LSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL------------AGRVKLD 74
L+V K +KDVS + A++GPSGCGK+T+L + G++ LD
Sbjct: 10 LNVHFGKNHAVKDVSMDFPENSVTAIIGPSGCGKSTVLRSINRMHDLVPSARVTGKILLD 69
Query: 75 SGVIRLNKERLNKRWKRKICYVLQQDIFFPELTL 108
I ++ +R++ V Q+ FP +++
Sbjct: 70 DTDI-YDRGVDPVSIRRRVGMVFQKPNPFPAMSI 102
>gnl|CDD|184199 PRK13639, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 275
Score = 37.0 bits (86), Expect = 0.001
Identities = 17/49 (34%), Positives = 30/49 (61%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERL 85
LK ++ + GE++A++GP+G GK+TL G +K SG + + E +
Sbjct: 18 LKGINFKAEKGEMVALLGPNGAGKSTLFLHFNGILKPTSGEVLIKGEPI 66
>gnl|CDD|226641 COG4172, COG4172, ABC-type uncharacterized transport system,
duplicated ATPase component [General function prediction
only].
Length = 534
Score = 36.9 bits (86), Expect = 0.001
Identities = 27/92 (29%), Positives = 41/92 (44%), Gaps = 8/92 (8%)
Query: 15 LSHRPLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKT----TLLNCLAGR 70
LS R L + F T +K +S ++ GE LA++G SG GK+ ++L L
Sbjct: 7 LSIRNLSVAFHQEGGT---VEAVKGISFDIEAGETLALVGESGSGKSVTALSILGLLPSP 63
Query: 71 VKLD-SGVIRLNKERLNKRWKRKICYVLQQDI 101
SG I + E L +R++ V I
Sbjct: 64 AAAHPSGSILFDGEDLLAASERQLRGVRGNKI 95
Score = 36.1 bits (84), Expect = 0.002
Identities = 15/50 (30%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLN 86
+ +S ++ G+ L ++G SG GK+TL L R+ G IR + + ++
Sbjct: 303 VDGISLTLRRGQTLGLVGESGSGKSTLGLALL-RLIPSQGEIRFDGQDID 351
>gnl|CDD|132313 TIGR03269, met_CoM_red_A2, methyl coenzyme M reductase system,
component A2. The enzyme that catalyzes the final step
in methanogenesis, methyl coenzyme M reductase,
contains alpha, beta, and gamma chains. In older
literature, the complex of alpha, beta, and gamma
chains was termed component C, while this single chain
protein was termed methyl coenzyme M reductase system
component A2 [Energy metabolism, Methanogenesis].
Length = 520
Score = 37.1 bits (86), Expect = 0.001
Identities = 16/43 (37%), Positives = 29/43 (67%)
Query: 27 LSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAG 69
L+ D + +LK++S ++ GE+L ++G SG GK+ L++ L G
Sbjct: 6 LTKKFDGKEVLKNISFTIEEGEVLGILGRSGAGKSVLMHVLRG 48
Score = 35.9 bits (83), Expect = 0.002
Identities = 32/100 (32%), Positives = 47/100 (47%), Gaps = 14/100 (14%)
Query: 34 RPILKDVSGV---VKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSG--VIRLNKE----- 83
R ++K V V VK GE+ ++G SG GKTTL +AG ++ SG +R+ E
Sbjct: 294 RGVVKAVDNVSLEVKEGEIFGIVGTSGAGKTTLSKIIAGVLEPTSGEVNVRVGDEWVDMT 353
Query: 84 ----RLNKRWKRKICYVLQQDIFFPELTLRQTLEVSIADE 119
R KR I + Q+ +P T+ L +I E
Sbjct: 354 KPGPDGRGRAKRYIGILHQEYDLYPHRTVLDNLTEAIGLE 393
>gnl|CDD|237455 PRK13637, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 287
Score = 36.9 bits (86), Expect = 0.001
Identities = 26/88 (29%), Positives = 48/88 (54%), Gaps = 11/88 (12%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN-----KERLN-KRWK 90
L +V+ ++ GE + ++G +G GK+TL+ L G +K SG I ++ +++ +
Sbjct: 23 LDNVNIEIEDGEFVGLIGHTGSGKSTLIQHLNGLLKPTSGKIIIDGVDITDKKVKLSDIR 82
Query: 91 RKICYVLQQDIFFPELTL-RQTLEVSIA 117
+K+ V Q +PE L +T+E IA
Sbjct: 83 KKVGLVFQ----YPEYQLFEETIEKDIA 106
>gnl|CDD|172756 PRK14268, PRK14268, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 258
Score = 36.9 bits (85), Expect = 0.001
Identities = 15/31 (48%), Positives = 22/31 (70%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCL 67
LK+VS + + A++GPSGCGK+T + CL
Sbjct: 28 LKNVSMQIPKNSVTALIGPSGCGKSTFIRCL 58
>gnl|CDD|237649 PRK14254, PRK14254, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 285
Score = 36.7 bits (85), Expect = 0.001
Identities = 15/31 (48%), Positives = 22/31 (70%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCL 67
L DVS + ++ A++GPSGCGK+T L C+
Sbjct: 55 LDDVSMDIPENQVTAMIGPSGCGKSTFLRCI 85
>gnl|CDD|226635 COG4161, ArtP, ABC-type arginine transport system, ATPase component
[Amino acid transport and metabolism].
Length = 242
Score = 36.7 bits (85), Expect = 0.001
Identities = 25/86 (29%), Positives = 42/86 (48%), Gaps = 10/86 (11%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCL-------AGRVKLDSGVIRLNKERLNK-- 87
L D++ GE L ++GPSG GK++LL L +G + + +K +K
Sbjct: 18 LFDITLDCPEGETLVLLGPSGAGKSSLLRVLNLLEMPRSGTLNIAGNHFDFSKTPSDKAI 77
Query: 88 -RWKRKICYVLQQDIFFPELTLRQTL 112
+R + V QQ +P LT+++ L
Sbjct: 78 RDLRRNVGMVFQQYNLWPHLTVQENL 103
>gnl|CDD|184590 PRK14249, PRK14249, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 251
Score = 36.6 bits (84), Expect = 0.001
Identities = 28/93 (30%), Positives = 47/93 (50%), Gaps = 15/93 (16%)
Query: 26 GLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNC------------LAGRVKL 73
G++ K +LK+++ ++ A++GPSGCGK+TLL L G V L
Sbjct: 9 GVNFFYHKHQVLKNINMDFPERQITAIIGPSGCGKSTLLRALNRMNDIVSGARLEGAVLL 68
Query: 74 DS-GVIRLNKERLNKRWKRKICYVLQQDIFFPE 105
D+ + N + +N R +++ V QQ FP+
Sbjct: 69 DNENIYSPNLDVVNLR--KRVGMVFQQPNPFPK 99
>gnl|CDD|237646 PRK14237, PRK14237, phosphate transporter ATP-binding protein;
Provisional.
Length = 267
Score = 36.6 bits (85), Expect = 0.001
Identities = 15/49 (30%), Positives = 25/49 (51%)
Query: 19 PLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL 67
+ L L V K+ +K + + ++ A++GPSG GK+T L L
Sbjct: 18 EIALSTKDLHVYYGKKEAIKGIDMQFEKNKITALIGPSGSGKSTYLRSL 66
>gnl|CDD|184596 PRK14267, PRK14267, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 253
Score = 36.7 bits (85), Expect = 0.001
Identities = 27/101 (26%), Positives = 45/101 (44%), Gaps = 11/101 (10%)
Query: 27 LSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLD-----SGVIRLN 81
L V ++K V + + A+MGPSGCGK+TLL ++L+ G +RL
Sbjct: 10 LRVYYGSNHVIKGVDLKIPQNGVFALMGPSGCGKSTLLRTFNRLLELNEEARVEGEVRLF 69
Query: 82 KERLNK------RWKRKICYVLQQDIFFPELTLRQTLEVSI 116
+ +R++ V Q FP LT+ + + +
Sbjct: 70 GRNIYSPDVDPIEVRREVGMVFQYPNPFPHLTIYDNVAIGV 110
>gnl|CDD|184597 PRK14270, PRK14270, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 251
Score = 36.5 bits (84), Expect = 0.001
Identities = 14/31 (45%), Positives = 22/31 (70%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCL 67
L D++ + ++ A++GPSGCGK+T L CL
Sbjct: 20 LNDINLPIYENKITALIGPSGCGKSTFLRCL 50
>gnl|CDD|182980 PRK11124, artP, arginine transporter ATP-binding subunit;
Provisional.
Length = 242
Score = 36.5 bits (85), Expect = 0.001
Identities = 25/87 (28%), Positives = 40/87 (45%), Gaps = 10/87 (11%)
Query: 36 ILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLN--------- 86
L D++ GE L ++GPSG GK++LL L SG + + +
Sbjct: 17 ALFDITLDCPQGETLVLLGPSGAGKSSLLRVLNLLEMPRSGTLNIAGNHFDFSKTPSDKA 76
Query: 87 -KRWKRKICYVLQQDIFFPELTLRQTL 112
+ +R + V QQ +P LT++Q L
Sbjct: 77 IRELRRNVGMVFQQYNLWPHLTVQQNL 103
>gnl|CDD|222165 pfam13481, AAA_25, AAA domain. This AAA domain is found in a
wide variety of presumed DNA repair proteins.
Length = 154
Score = 36.1 bits (84), Expect = 0.001
Identities = 16/52 (30%), Positives = 20/52 (38%), Gaps = 2/52 (3%)
Query: 20 LELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRV 71
L L L V G++ G L + G G GK+TL LA V
Sbjct: 8 LPSSAEDLDAPPPPLRWL--VKGLLPRGGLTLLAGAPGTGKSTLALDLAAAV 57
>gnl|CDD|236863 PRK11153, metN, DL-methionine transporter ATP-binding subunit;
Provisional.
Length = 343
Score = 36.3 bits (85), Expect = 0.001
Identities = 20/51 (39%), Positives = 29/51 (56%), Gaps = 9/51 (17%)
Query: 33 KRPI--LKDVSGVVKPGELLAVMGPSGCGKTTLLNCL-------AGRVKLD 74
R I L +VS + GE+ V+G SG GK+TL+ C+ +GRV +D
Sbjct: 15 GRTIHALNNVSLHIPAGEIFGVIGASGAGKSTLIRCINLLERPTSGRVLVD 65
>gnl|CDD|237650 PRK14265, PRK14265, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 274
Score = 36.1 bits (83), Expect = 0.002
Identities = 15/31 (48%), Positives = 21/31 (67%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCL 67
L DV + +++A +GPSGCGK+TLL C
Sbjct: 36 LVDVHLKIPAKKIIAFIGPSGCGKSTLLRCF 66
>gnl|CDD|184587 PRK14241, PRK14241, phosphate transporter ATP-binding protein;
Provisional.
Length = 258
Score = 36.2 bits (84), Expect = 0.002
Identities = 15/43 (34%), Positives = 26/43 (60%)
Query: 25 SGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL 67
L++ ++DV+ ++P + A +GPSGCGK+T+L L
Sbjct: 8 KDLNIYYGSFHAVEDVNLNIEPRSVTAFIGPSGCGKSTVLRTL 50
>gnl|CDD|213203 cd03236, ABC_RNaseL_inhibitor_domain1, The ATP-binding cassette
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 = 36.2 bits (84), Expect = 0.002
Identities = 14/30 (46%), Positives = 23/30 (76%)
Query: 43 VVKPGELLAVMGPSGCGKTTLLNCLAGRVK 72
V + G++L ++GP+G GK+T L LAG++K
Sbjct: 22 VPREGQVLGLVGPNGIGKSTALKILAGKLK 51
>gnl|CDD|172762 PRK14274, PRK14274, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 259
Score = 36.0 bits (83), Expect = 0.002
Identities = 14/41 (34%), Positives = 26/41 (63%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGV 77
LK+++ + E+ A++GPSGCGK+T + L +++ V
Sbjct: 28 LKNINLSIPENEVTAIIGPSGCGKSTFIKTLNLMIQMVPNV 68
>gnl|CDD|213256 cd03289, ABCC_CFTR2, ATP-binding cassette domain 2 of
CFTR,subfamily C. 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 = 36.0 bits (83), Expect = 0.002
Identities = 25/84 (29%), Positives = 45/84 (53%), Gaps = 10/84 (11%)
Query: 36 ILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL------AGRVKLDSGVIRLNKERLNKRW 89
+L+++S + PG+ + ++G +G GK+TLL+ G +++D + N L K W
Sbjct: 19 VLENISFSISPGQRVGLLGRTGSGKSTLLSAFLRLLNTEGDIQIDG--VSWNSVPLQK-W 75
Query: 90 KRKICYVLQQDIFFPELTLRQTLE 113
RK V+ Q +F T R+ L+
Sbjct: 76 -RKAFGVIPQKVFIFSGTFRKNLD 98
>gnl|CDD|182561 PRK10575, PRK10575, iron-hydroxamate transporter ATP-binding
subunit; Provisional.
Length = 265
Score = 35.5 bits (82), Expect = 0.002
Identities = 23/78 (29%), Positives = 39/78 (50%), Gaps = 4/78 (5%)
Query: 26 GLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERL 85
+S + R +L +S G++ ++G +G GK+TLL L G I L+ + L
Sbjct: 16 NVSFRVPGRTLLHPLSLTFPAGKVTGLIGHNGSGKSTLLKMLGRHQPPSEGEILLDAQPL 75
Query: 86 ----NKRWKRKICYVLQQ 99
+K + RK+ Y+ QQ
Sbjct: 76 ESWSSKAFARKVAYLPQQ 93
>gnl|CDD|151168 pfam10662, PduV-EutP, Ethanolamine utilisation - propanediol
utilisation. Members of this family function in
ethanolamine and propanediol degradation pathways,
however the exact roles of these proteins is poorly
understood.
Length = 143
Score = 34.5 bits (80), Expect = 0.004
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 52 VMGPSGCGKTTLLNCLAG 69
++G SGCGKTTL L G
Sbjct: 6 LIGRSGCGKTTLTQALNG 23
>gnl|CDD|206669 cd01882, BMS1, Bms1, an essential GTPase, promotes assembly of
preribosomal RNA processing complexes. 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 = 231
Score = 35.0 bits (81), Expect = 0.004
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 39 DVSGVVKPGELLAVMGPSGCGKTTLLNCL 67
D + P ++ V+GP G GK+TL+ L
Sbjct: 31 DRTPEEPPPLVVVVVGPPGVGKSTLIRSL 59
>gnl|CDD|172735 PRK14247, PRK14247, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 250
Score = 35.3 bits (81), Expect = 0.004
Identities = 16/52 (30%), Positives = 27/52 (51%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKL 73
+ L V+ + +L V+ + + A+MGPSG GK+TLL ++L
Sbjct: 4 IEIRDLKVSFGQVEVLDGVNLEIPDNTITALMGPSGSGKSTLLRVFNRLIEL 55
>gnl|CDD|223272 COG0194, Gmk, Guanylate kinase [Nucleotide transport and
metabolism].
Length = 191
Score = 34.8 bits (81), Expect = 0.004
Identities = 13/30 (43%), Positives = 18/30 (60%)
Query: 44 VKPGELLAVMGPSGCGKTTLLNCLAGRVKL 73
+ G L+ + GPSG GK+TL+ L KL
Sbjct: 1 MSKGLLIVLSGPSGVGKSTLVKALLEDDKL 30
>gnl|CDD|172750 PRK14262, PRK14262, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 250
Score = 34.9 bits (80), Expect = 0.004
Identities = 15/41 (36%), Positives = 25/41 (60%)
Query: 24 FSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLL 64
S ++ +K+V+ + ++ A++GPSGCGKTTLL
Sbjct: 6 IENFSAYYGEKKAVKNVTMKIFKNQITAIIGPSGCGKTTLL 46
>gnl|CDD|226232 COG3709, COG3709, Uncharacterized component of phosphonate
metabolism [Inorganic ion transport and metabolism].
Length = 192
Score = 34.7 bits (80), Expect = 0.005
Identities = 14/32 (43%), Positives = 19/32 (59%)
Query: 46 PGELLAVMGPSGCGKTTLLNCLAGRVKLDSGV 77
G L+AV+GPSG GK TLL+ R+ +
Sbjct: 4 MGRLIAVVGPSGAGKDTLLDAARARLAGRPRL 35
>gnl|CDD|238900 cd01919, PEPCK, Phosphoenolpyruvate carboxykinase (PEPCK), a
critical gluconeogenic enzyme, catalyzes the first
committed step in the diversion of tricarboxylic acid
cycle intermediates toward gluconeogenesis. It catalyzes
the reversible decarboxylation and phosphorylation of
oxaloacetate to yield phosphoenolpyruvate and carbon
dioxide, using a nucleotide molecule (ATP or GTP) for
the phosphoryl transfer, and has a strict requirement
for divalent metal ions for activity. PEPCK's separate
into two phylogenetic groups based on their nucleotide
substrate specificity (the ATP-, and GTP-dependent
groups).
Length = 515
Score = 34.9 bits (80), Expect = 0.005
Identities = 20/93 (21%), Positives = 32/93 (34%), Gaps = 17/93 (18%)
Query: 43 VVKPGELLAVMGPSGCGKTTL-----LNCLAG--RVKLDSGVIRLNKE--------RLNK 87
V G++L G SG GKTTL + D GV N E L+
Sbjct: 213 VGTNGDVLVFFGLSGTGKTTLSMDPKRELIGDDEHWWKDDGVF--NPEGGCYAKAIGLSV 270
Query: 88 RWKRKICYVLQQDIFFPELTLRQTLEVSIADED 120
+ + I ++++ F + + D
Sbjct: 271 KTEPNIYKAIRKNAIFENVAETSDGGIDFEDIS 303
>gnl|CDD|131580 TIGR02528, EutP, ethanolamine utilization protein, EutP. This
protein is found within operons which code for
polyhedral organelles containing the enzyme
ethanolamine ammonia lyase. The function of this gene
is unknown, although the presence of an N-terminal
GxxGxGK motif implies a GTP-binding site [Energy
metabolism, Amino acids and amines].
Length = 142
Score = 34.3 bits (79), Expect = 0.005
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 50 LAVMGPSGCGKTTLLNCLAG 69
+ +G GCGKTTL L G
Sbjct: 3 IMFIGSVGCGKTTLTQALQG 22
>gnl|CDD|130262 TIGR01194, cyc_pep_trnsptr, cyclic peptide transporter. This model
describes cyclic peptide transporter in bacteria.
Bacteria have elaborate pathways for the production of
toxins and secondary metabolites. Many such compounds,
including syringomycin and pyoverdine are synthesized on
non-ribosomal templates consisting of a multienzyme
complex. On several occasions the proteins of the
complex and transporter protein are present on the same
operon. Often times these compounds cross the biological
membrane by specific transporters. Syringomycin is an
amphipathic, cylclic lipodepsipeptide when inserted into
host causes formation of channels, permeable to variety
of cations. On the other hand, pyoverdine is a cyclic
octa-peptidyl dihydroxyquinoline, which is efficient in
sequestering iron for uptake [Transport and binding
proteins, Amino acids, peptides and amines, Transport
and binding proteins, Other].
Length = 555
Score = 34.9 bits (80), Expect = 0.006
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 47 GELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKE 83
G+++ ++G +GCGK+TL G G I L+
Sbjct: 368 GDIVFIVGENGCGKSTLAKLFCGLYIPQEGEILLDGA 404
>gnl|CDD|184584 PRK14238, PRK14238, phosphate transporter ATP-binding protein;
Provisional.
Length = 271
Score = 34.4 bits (79), Expect = 0.006
Identities = 16/41 (39%), Positives = 26/41 (63%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGV 77
LK+++ + E+ A++GPSGCGK+T + L V+L V
Sbjct: 40 LKNINLDIHENEVTAIIGPSGCGKSTYIKTLNRMVELVPSV 80
>gnl|CDD|234631 PRK00098, PRK00098, GTPase RsgA; Reviewed.
Length = 298
Score = 34.4 bits (80), Expect = 0.006
Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 8/45 (17%)
Query: 34 RPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVI 78
+P+L V+ G SG GK+TLLN LA ++L +G I
Sbjct: 159 KPLLAGKVTVL--------AGQSGVGKSTLLNALAPDLELKTGEI 195
>gnl|CDD|238026 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 = 33.7 bits (78), Expect = 0.007
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 49 LLAVMGPSGCGKTTLLNCL 67
L+ + GPSG GK+TLL L
Sbjct: 1 LIVLSGPSGVGKSTLLKRL 19
>gnl|CDD|184203 PRK13643, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 288
Score = 34.3 bits (78), Expect = 0.007
Identities = 25/80 (31%), Positives = 40/80 (50%), Gaps = 12/80 (15%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRL--------NKERLNKR 88
L D+ VK G A++G +G GK+TLL L G ++ G + + +K++ K
Sbjct: 22 LFDIDLEVKKGSYTALIGHTGSGKSTLLQHLNGLLQPTEGKVTVGDIVVSSTSKQKEIKP 81
Query: 89 WKRKICYVLQQDIFFPELTL 108
++K+ V Q FPE L
Sbjct: 82 VRKKVGVVFQ----FPESQL 97
>gnl|CDD|184202 PRK13642, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 277
Score = 34.3 bits (78), Expect = 0.007
Identities = 20/66 (30%), Positives = 34/66 (51%), Gaps = 4/66 (6%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKR--W--KRK 92
L VS + GE ++++G +G GK+T + G + G ++++ E L W +RK
Sbjct: 23 LNGVSFSITKGEWVSIIGQNGSGKSTTARLIDGLFEEFEGKVKIDGELLTAENVWNLRRK 82
Query: 93 ICYVLQ 98
I V Q
Sbjct: 83 IGMVFQ 88
>gnl|CDD|238550 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 = 34.2 bits (79), Expect = 0.008
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 52 VMGPSGCGKTTLLNCLAGRVKLDSGVI 78
+ G +G GKTTLLN L + D +I
Sbjct: 30 ISGGTGSGKTTLLNALLAFIPPDERII 56
>gnl|CDD|184205 PRK13646, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 286
Score = 34.4 bits (79), Expect = 0.008
Identities = 20/80 (25%), Positives = 41/80 (51%), Gaps = 12/80 (15%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN--------KERLNKR 88
+ DV+ + G+ A++G +G GK+TL+ + +K +G + ++ K++ +
Sbjct: 23 IHDVNTEFEQGKYYAIVGQTGSGKSTLIQNINALLKPTTGTVTVDDITITHKTKDKYIRP 82
Query: 89 WKRKICYVLQQDIFFPELTL 108
+++I V Q FPE L
Sbjct: 83 VRKRIGMVFQ----FPESQL 98
>gnl|CDD|237456 PRK13641, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 287
Score = 34.0 bits (78), Expect = 0.009
Identities = 22/80 (27%), Positives = 39/80 (48%), Gaps = 12/80 (15%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLN--------KR 88
L ++S ++ G +A++G +G GK+TL+ +K SG I + + K+
Sbjct: 23 LDNISFELEEGSFVALVGHTGSGKSTLMQHFNALLKPSSGTITIAGYHITPETGNKNLKK 82
Query: 89 WKRKICYVLQQDIFFPELTL 108
++K+ V Q FPE L
Sbjct: 83 LRKKVSLVFQ----FPEAQL 98
>gnl|CDD|206648 cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like superfamily of
small guanosine triphosphatases (GTPases). 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 regulates 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 = 161
Score = 33.6 bits (77), Expect = 0.009
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 51 AVMGPSGCGKTTLLNCLAGR 70
V+G G GK++LLN L G
Sbjct: 1 VVVGRGGVGKSSLLNALLGG 20
>gnl|CDD|183016 PRK11176, PRK11176, lipid transporter ATP-binding/permease protein;
Provisional.
Length = 582
Score = 34.2 bits (79), Expect = 0.009
Identities = 16/47 (34%), Positives = 29/47 (61%)
Query: 35 PILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
P L++++ + G+ +A++G SG GK+T+ N L +D G I L+
Sbjct: 357 PALRNINFKIPAGKTVALVGRSGSGKSTIANLLTRFYDIDEGEILLD 403
>gnl|CDD|224337 COG1419, FlhF, Flagellar GTP-binding protein [Cell motility and
secretion].
Length = 407
Score = 34.2 bits (79), Expect = 0.009
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 41 SGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSG 76
+ +V+ ++A++GP+G GKTT L LA R +
Sbjct: 197 NLIVEQKRVIALVGPTGVGKTTTLAKLAARYVMLKK 232
>gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of
cellular Activities) superfamily represents an ancient
group of ATPases belonging to the ASCE (for additional
strand, catalytic E) division of the P-loop NTPase
fold. The ASCE division also includes ABC, RecA-like,
VirD4-like, PilT-like, and SF1/2 helicases. Members of
the AAA+ ATPases function as molecular chaperons,
ATPase subunits of proteases, helicases, or
nucleic-acid stimulated ATPases. The AAA+ proteins
contain several distinct features in addition to the
conserved alpha-beta-alpha core domain structure and
the Walker A and B motifs of the P-loop NTPases.
Length = 151
Score = 33.7 bits (77), Expect = 0.010
Identities = 12/42 (28%), Positives = 16/42 (38%), Gaps = 1/42 (2%)
Query: 54 GPSGCGKTTLLNCLAGRVKLDSG-VIRLNKERLNKRWKRKIC 94
GP G GKTTL +A + + LN L +
Sbjct: 26 GPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAEL 67
>gnl|CDD|221970 pfam13191, AAA_16, AAA ATPase domain. This family of domains
contain a P-loop motif that is characteristic of the
AAA superfamily.
Length = 154
Score = 33.7 bits (77), Expect = 0.010
Identities = 11/34 (32%), Positives = 17/34 (50%)
Query: 46 PGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIR 79
+ + GPSG GKT+LL L + + +G
Sbjct: 23 GPPSVLLTGPSGTGKTSLLRELLEGLLVAAGKCD 56
>gnl|CDD|182330 PRK10246, PRK10246, exonuclease subunit SbcC; Provisional.
Length = 1047
Score = 34.0 bits (78), Expect = 0.013
Identities = 14/22 (63%), Positives = 17/22 (77%), Gaps = 2/22 (9%)
Query: 49 LLAVMGPSGCGKTTLLN--CLA 68
L A+ GP+G GKTTLL+ CLA
Sbjct: 32 LFAITGPTGAGKTTLLDAICLA 53
>gnl|CDD|173185 PRK14722, flhF, flagellar biosynthesis regulator FlhF; Provisional.
Length = 374
Score = 33.9 bits (77), Expect = 0.013
Identities = 18/53 (33%), Positives = 28/53 (52%)
Query: 28 SVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRL 80
SV P+L +++ G + A+MGP+G GKTT LA R + G ++
Sbjct: 118 SVLAANLPVLDSEDALMERGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKV 170
>gnl|CDD|234719 PRK00300, gmk, guanylate kinase; Provisional.
Length = 205
Score = 33.5 bits (78), Expect = 0.013
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 45 KPGELLAVMGPSGCGKTTLLNCL 67
+ G L+ + GPSG GK+TL+ L
Sbjct: 3 RRGLLIVLSGPSGAGKSTLVKAL 25
>gnl|CDD|172757 PRK14269, PRK14269, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 246
Score = 33.5 bits (76), Expect = 0.014
Identities = 14/43 (32%), Positives = 27/43 (62%)
Query: 25 SGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL 67
+ L++ K+ L D++ ++ ++ A++G SGCGK+T L C
Sbjct: 6 TNLNLFYGKKQALFDINMQIEQNKITALIGASGCGKSTFLRCF 48
>gnl|CDD|238542 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 = 33.5 bits (77), Expect = 0.014
Identities = 13/49 (26%), Positives = 22/49 (44%), Gaps = 7/49 (14%)
Query: 16 SHRPLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLL 64
E V+ P+L ++ ++ GEL+ + +G GKTT L
Sbjct: 6 EALSNEEVWWPF-------PVLNKLTKGLRKGELIILTAGTGVGKTTFL 47
>gnl|CDD|131367 TIGR02314, ABC_MetN, D-methionine ABC transporter, ATP-binding
protein. Members of this family are the ATP-binding
protein of the D-methionine ABC transporter complex.
Known members belong to the Proteobacteria.
Length = 343
Score = 33.7 bits (77), Expect = 0.014
Identities = 14/31 (45%), Positives = 21/31 (67%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCL 67
L +VS V G++ V+G SG GK+TL+ C+
Sbjct: 21 LNNVSLHVPAGQIYGVIGASGAGKSTLIRCV 51
>gnl|CDD|184198 PRK13638, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 271
Score = 33.4 bits (76), Expect = 0.015
Identities = 24/94 (25%), Positives = 45/94 (47%), Gaps = 9/94 (9%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
L S L P+LK ++ + ++G +GCGK+TL L+G ++ G +
Sbjct: 2 LATSDLWFRYQDEPVLKGLNLDFSLSPVTGLVGANGCGKSTLFMNLSGLLRPQKGAVLWQ 61
Query: 82 KERLN--KR----WKRKICYVLQ---QDIFFPEL 106
+ L+ KR ++++ V Q Q IF+ ++
Sbjct: 62 GKPLDYSKRGLLALRQQVATVFQDPEQQIFYTDI 95
>gnl|CDD|182829 PRK10908, PRK10908, cell division protein FtsE; Provisional.
Length = 222
Score = 33.3 bits (76), Expect = 0.018
Identities = 20/69 (28%), Positives = 38/69 (55%)
Query: 31 LDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWK 90
L R L+ V+ ++PGE+ + G SG GK+TLL + G + +G I + + +
Sbjct: 12 LGGRQALQGVTFHMRPGEMAFLTGHSGAGKSTLLKLICGIERPSAGKIWFSGHDITRLKN 71
Query: 91 RKICYVLQQ 99
R++ ++ +Q
Sbjct: 72 REVPFLRRQ 80
>gnl|CDD|184130 PRK13545, tagH, teichoic acids export protein ATP-binding
subunit; Provisional.
Length = 549
Score = 33.3 bits (76), Expect = 0.018
Identities = 15/42 (35%), Positives = 26/42 (61%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVI 78
L ++S V GE++ ++G +G GK+TL N +AG + G +
Sbjct: 40 LNNISFEVPEGEIVGIIGLNGSGKSTLSNLIAGVTMPNKGTV 81
>gnl|CDD|172748 PRK14260, PRK14260, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 259
Score = 33.1 bits (75), Expect = 0.018
Identities = 23/68 (33%), Positives = 36/68 (52%), Gaps = 11/68 (16%)
Query: 48 ELLAVMGPSGCGKTTLLNC------LAGRVKLDSGVIRLNKE----RLN-KRWKRKICYV 96
++ A++GPSGCGK+T + L G VK++ V + R+N R +R+I V
Sbjct: 34 KVTAIIGPSGCGKSTFIKTLNRISELEGPVKVEGVVDFFGQNIYDPRININRLRRQIGMV 93
Query: 97 LQQDIFFP 104
Q+ FP
Sbjct: 94 FQRPNPFP 101
>gnl|CDD|213255 cd03288, ABCC_SUR2, ATP-binding cassette domain 2 of the
sulfonylurea receptor SUR. 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 = 33.0 bits (75), Expect = 0.021
Identities = 24/92 (26%), Positives = 47/92 (51%), Gaps = 12/92 (13%)
Query: 21 ELVFSGLSVTLDK--RPILKDVSGVVKPGELLAVMGPSGCGKTTL-------LNCLAGRV 71
E+ L V + +P+LK V +KPG+ + + G +G GK++L ++ G++
Sbjct: 19 EIKIHDLCVRYENNLKPVLKHVKAYIKPGQKVGICGRTGSGKSSLSLAFFRMVDIFDGKI 78
Query: 72 KLDSGVIRLNKERLNKRWKRKICYVLQQDIFF 103
+D I ++K L+ + ++ +LQ I F
Sbjct: 79 VIDG--IDISKLPLHT-LRSRLSIILQDPILF 107
>gnl|CDD|184134 PRK13549, PRK13549, xylose transporter ATP-binding subunit;
Provisional.
Length = 506
Score = 33.0 bits (76), Expect = 0.025
Identities = 14/33 (42%), Positives = 24/33 (72%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAG 69
L +VS V+ GE++++ G +G GK+TL+ L+G
Sbjct: 21 LDNVSLKVRAGEIVSLCGENGAGKSTLMKVLSG 53
Score = 32.2 bits (74), Expect = 0.039
Identities = 14/37 (37%), Positives = 21/37 (56%)
Query: 33 KRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAG 69
+ DVS ++ GE+L + G G G+T L+ CL G
Sbjct: 274 HIKRVDDVSFSLRRGEILGIAGLVGAGRTELVQCLFG 310
>gnl|CDD|237647 PRK14248, PRK14248, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 268
Score = 32.6 bits (74), Expect = 0.027
Identities = 14/38 (36%), Positives = 25/38 (65%)
Query: 27 LSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLL 64
LS+ ++ + D+S ++ + A++GPSGCGK+T L
Sbjct: 27 LSIYYGEKRAVNDISMDIEKHAVTALIGPSGCGKSTFL 64
>gnl|CDD|227519 COG5192, BMS1, GTP-binding protein required for 40S ribosome
biogenesis [Translation, ribosomal structure and
biogenesis].
Length = 1077
Score = 33.2 bits (75), Expect = 0.027
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 46 PGELLAVMGPSGCGKTTLLNCLAGR 70
P ++AV+GP G GK+TL+ L R
Sbjct: 68 PPFIVAVVGPPGTGKSTLIRSLVRR 92
>gnl|CDD|172200 PRK13652, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 277
Score = 32.9 bits (75), Expect = 0.027
Identities = 17/60 (28%), Positives = 32/60 (53%)
Query: 34 RPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKRKI 93
+ L +++ + +AV+GP+G GK+TL G +K SG + + E + K R++
Sbjct: 17 KEALNNINFIAPRNSRIAVIGPNGAGKSTLFRHFNGILKPTSGSVLIRGEPITKENIREV 76
>gnl|CDD|237457 PRK13647, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 274
Score = 32.8 bits (75), Expect = 0.028
Identities = 23/69 (33%), Positives = 36/69 (52%), Gaps = 7/69 (10%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIR-----LNKERLNKRWKR 91
LK +S + G A++GP+G GK+TLL L G G ++ +N E N++W R
Sbjct: 21 LKGLSLSIPEGSKTALLGPNGAGKSTLLLHLNGIYLPQRGRVKVMGREVNAE--NEKWVR 78
Query: 92 KICYVLQQD 100
++ QD
Sbjct: 79 SKVGLVFQD 87
>gnl|CDD|106587 PRK13644, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 274
Score = 32.7 bits (74), Expect = 0.030
Identities = 16/45 (35%), Positives = 28/45 (62%)
Query: 32 DKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSG 76
D P L++++ V+K GE + ++G +G GK+TL L G ++ G
Sbjct: 13 DGTPALENINLVIKKGEYIGIIGKNGSGKSTLALHLNGLLRPQKG 57
>gnl|CDD|215558 PLN03073, PLN03073, ABC transporter F family; Provisional.
Length = 718
Score = 32.9 bits (75), Expect = 0.030
Identities = 15/37 (40%), Positives = 26/37 (70%), Gaps = 1/37 (2%)
Query: 50 LAVMGPSGCGKTTLLNCLAGRVKLDSG-VIRLNKERL 85
+A++GP+G GK+T+L ++G ++ SG V R K R+
Sbjct: 538 IAMVGPNGIGKSTILKLISGELQPSSGTVFRSAKVRM 574
>gnl|CDD|129690 TIGR00602, rad24, checkpoint protein rad24. All proteins in this
family for which functions are known are involved in DNA
damage tolerance (likely cell cycle checkpoints).This
family is based on the phylogenomic analysis of JA Eisen
(1999, Ph.D. Thesis, Stanford University) [DNA
metabolism, DNA replication, recombination, and repair].
Length = 637
Score = 32.6 bits (74), Expect = 0.032
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 44 VKPGELLAVMGPSGCGKTTLLNCLA 68
P +L + GPSGCGK+T + L+
Sbjct: 107 NAPKRILLITGPSGCGKSTTIKILS 131
>gnl|CDD|206679 cd01892, Miro2, Mitochondrial Rho family 2 (Miro2), C-terminal.
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 = 180
Score = 32.2 bits (74), Expect = 0.034
Identities = 11/33 (33%), Positives = 14/33 (42%)
Query: 52 VMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKER 84
V+G G GK+ LL GR + K R
Sbjct: 9 VLGAKGSGKSALLQAFLGRSFSQNAYSPTIKPR 41
>gnl|CDD|233821 TIGR02322, phosphon_PhnN, phosphonate metabolism
protein/1,5-bisphosphokinase (PRPP-forming) PhnN.
Members of this family resemble PhnN of phosphonate
utilization operons, where different such operons
confer the ability to use somewhat different profiles
of C-P bond-containing compounds (see PMID:15231805),
including phosphites as well as phosphonates. PhnN in
E. coli shows considerable homology to guanylate
kinases (EC 2.7.4.8), and has actually been shown to
act as a ribose 1,5-bisphosphokinase (PRPP forming).
This suggests an analogous kinase reaction for
phosphonate metabolism, converting
5-phosphoalpha-1-(methylphosphono)ribose to
methylphosphono-PRPP [Central intermediary metabolism,
Phosphorus compounds].
Length = 179
Score = 32.3 bits (74), Expect = 0.035
Identities = 15/31 (48%), Positives = 19/31 (61%)
Query: 47 GELLAVMGPSGCGKTTLLNCLAGRVKLDSGV 77
G L+ V+GPSG GK TLL+ R+ D V
Sbjct: 1 GRLIYVVGPSGAGKDTLLDYARARLAGDPRV 31
>gnl|CDD|180975 PRK07429, PRK07429, phosphoribulokinase; Provisional.
Length = 327
Score = 32.3 bits (74), Expect = 0.043
Identities = 14/20 (70%), Positives = 14/20 (70%)
Query: 49 LLAVMGPSGCGKTTLLNCLA 68
LL V G SGCGKTT L LA
Sbjct: 10 LLGVAGDSGCGKTTFLRGLA 29
>gnl|CDD|225165 COG2256, MGS1, ATPase related to the helicase subunit of the
Holliday junction resolvase [DNA replication,
recombination, and repair].
Length = 436
Score = 32.2 bits (74), Expect = 0.044
Identities = 20/72 (27%), Positives = 26/72 (36%), Gaps = 21/72 (29%)
Query: 54 GPSGCGKTTLLNCLAGRVKLD--------SGVIRLNK-----ERLNKRWKRKICYV---- 96
GP G GKTTL +AG SGV L + + +R I ++
Sbjct: 55 GPPGTGKTTLARLIAGTTNAAFEALSAVTSGVKDLREIIEEARKNRLLGRRTILFLDEIH 114
Query: 97 ----LQQDIFFP 104
QQD P
Sbjct: 115 RFNKAQQDALLP 126
>gnl|CDD|237917 PRK15134, PRK15134, microcin C ABC transporter ATP-binding protein
YejF; Provisional.
Length = 529
Score = 32.4 bits (74), Expect = 0.045
Identities = 14/33 (42%), Positives = 24/33 (72%)
Query: 30 TLDKRPILKDVSGVVKPGELLAVMGPSGCGKTT 62
T+D ++K++S ++PGE L ++G SG GK+T
Sbjct: 295 TVDHNVVVKNISFTLRPGETLGLVGESGSGKST 327
Score = 29.3 bits (66), Expect = 0.40
Identities = 29/79 (36%), Positives = 41/79 (51%), Gaps = 10/79 (12%)
Query: 16 SHRPLELVFSGLSVTLDK----RPILKDVSGVVKPGELLAVMGPSGCGKT-TLLNCL--- 67
+PL L LSV + R ++ DVS ++ GE LA++G SG GK+ T L+ L
Sbjct: 1 MTQPL-LAIENLSVAFRQQQTVRTVVNDVSLQIEAGETLALVGESGSGKSVTALSILRLL 59
Query: 68 -AGRVKLDSGVIRLNKERL 85
+ V SG IR + E L
Sbjct: 60 PSPPVVYPSGDIRFHGESL 78
>gnl|CDD|172745 PRK14257, PRK14257, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 329
Score = 32.0 bits (72), Expect = 0.047
Identities = 14/32 (43%), Positives = 22/32 (68%)
Query: 36 ILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL 67
+L D++ +K ++ A +GPSGCGK+T L L
Sbjct: 97 VLHDLNLDIKRNKVTAFIGPSGCGKSTFLRNL 128
>gnl|CDD|130324 TIGR01257, rim_protein, retinal-specific rim ABC transporter. This
model describes the photoreceptor protein (rim protein)
in eukaryotes. It is the member of ABC transporter
superfamily. Rim protein is a membrane glycoprotein which
is localized in the photoreceptor outer segment discs.
Mutation/s in its genetic loci is implicated in the
recessive Stargardt's disease [Transport and binding
proteins, Other].
Length = 2272
Score = 32.3 bits (73), Expect = 0.049
Identities = 14/33 (42%), Positives = 19/33 (57%)
Query: 44 VKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSG 76
V+PGE ++G +G GKTT L G + SG
Sbjct: 1962 VRPGECFGLLGVNGAGKTTTFKMLTGDTTVTSG 1994
Score = 27.3 bits (60), Expect = 2.4
Identities = 19/80 (23%), Positives = 38/80 (47%), Gaps = 3/80 (3%)
Query: 34 RPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRW---K 90
RP + ++ ++ A +G +G GKTT L+ L G + SG + + + + +
Sbjct: 943 RPAVDRLNITFYENQITAFLGHNGAGKTTTLSILTGLLPPTSGTVLVGGKDIETNLDAVR 1002
Query: 91 RKICYVLQQDIFFPELTLRQ 110
+ + Q +I F LT+ +
Sbjct: 1003 QSLGMCPQHNILFHHLTVAE 1022
>gnl|CDD|227254 COG4917, EutP, Ethanolamine utilization protein [Amino acid
transport and metabolism].
Length = 148
Score = 31.8 bits (72), Expect = 0.049
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 50 LAVMGPSGCGKTTLLNCLAG 69
+A +G GCGKTTL L G
Sbjct: 4 IAFVGQVGCGKTTLFQSLYG 23
>gnl|CDD|233918 TIGR02546, III_secr_ATP, type III secretion apparatus
H+-transporting two-sector ATPase. [Protein fate,
Protein and peptide secretion and trafficking, Cellular
processes, Pathogenesis].
Length = 422
Score = 31.9 bits (73), Expect = 0.056
Identities = 14/38 (36%), Positives = 20/38 (52%)
Query: 47 GELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKER 84
G+ + + +G GK+TLL +A D VI L ER
Sbjct: 145 GQRIGIFAGAGVGKSTLLGMIARGASADVNVIALIGER 182
>gnl|CDD|131681 TIGR02633, xylG, D-xylose ABC transporter, ATP-binding protein.
Several bacterial species have enzymes xylose isomerase
and xylulokinase enzymes for xylose utilization.
Members of this protein family are the ATP-binding
cassette (ABC) subunit of the known or predicted
high-affinity xylose ABC transporter for xylose import.
These genes, which closely resemble other sugar
transport ABC transporter genes, typically are encoded
near xylose utilization enzymes and regulatory
proteins. Note that this form of the transporter
contains two copies of the ABC transporter domain
(pfam00005) [Transport and binding proteins,
Carbohydrates, organic alcohols, and acids].
Length = 500
Score = 32.1 bits (73), Expect = 0.056
Identities = 17/48 (35%), Positives = 27/48 (56%), Gaps = 9/48 (18%)
Query: 31 LDKRPILKDVSGV---------VKPGELLAVMGPSGCGKTTLLNCLAG 69
L+ + I+K GV V+PGE + + G +G GK+TL+ L+G
Sbjct: 2 LEMKGIVKTFGGVKALDGIDLEVRPGECVGLCGENGAGKSTLMKILSG 49
Score = 32.1 bits (73), Expect = 0.057
Identities = 15/37 (40%), Positives = 21/37 (56%)
Query: 33 KRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAG 69
R + DVS ++ GE+L V G G G+T L+ L G
Sbjct: 272 HRKRVDDVSFSLRRGEILGVAGLVGAGRTELVQALFG 308
>gnl|CDD|237453 PRK13633, PRK13633, cobalt transporter ATP-binding subunit;
Provisional.
Length = 280
Score = 31.6 bits (72), Expect = 0.057
Identities = 13/30 (43%), Positives = 20/30 (66%)
Query: 34 RPILKDVSGVVKPGELLAVMGPSGCGKTTL 63
+ L DV+ VK GE L ++G +G GK+T+
Sbjct: 23 KLALDDVNLEVKKGEFLVILGRNGSGKSTI 52
>gnl|CDD|206733 cd04170, EF-G_bact, Elongation factor G (EF-G) family.
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 = 0.060
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 9/37 (24%)
Query: 50 LAVMGPSGCGKTTLLNCL---------AGRVKLDSGV 77
+A++G SG GKTTL L GRV+ + V
Sbjct: 2 IALVGHSGSGKTTLAEALLYATGAIDRLGRVEDGNTV 38
>gnl|CDD|222194 pfam13521, AAA_28, AAA domain.
Length = 162
Score = 31.4 bits (72), Expect = 0.061
Identities = 10/20 (50%), Positives = 11/20 (55%)
Query: 51 AVMGPSGCGKTTLLNCLAGR 70
+ G GKTTLL LA R
Sbjct: 3 VITGGPSTGKTTLLEALAAR 22
>gnl|CDD|180696 PRK06793, fliI, flagellum-specific ATP synthase; Validated.
Length = 432
Score = 31.9 bits (72), Expect = 0.061
Identities = 23/79 (29%), Positives = 36/79 (45%), Gaps = 3/79 (3%)
Query: 8 LPPEKYPLSHRPLELVFSGLSVTLDKRPILKDVSGV--VKPGELLAVMGPSGCGKTTLLN 65
+P +K L P+ F +T +K + + + G+ + + SG GK+TLL
Sbjct: 116 IPLQKIKLDAPPIH-AFEREEITDVFETGIKSIDSMLTIGIGQKIGIFAGSGVGKSTLLG 174
Query: 66 CLAGRVKLDSGVIRLNKER 84
+A K D VI L ER
Sbjct: 175 MIAKNAKADINVISLVGER 193
>gnl|CDD|224025 COG1100, COG1100, GTPase SAR1 and related small G proteins
[General function prediction only].
Length = 219
Score = 31.5 bits (71), Expect = 0.065
Identities = 12/20 (60%), Positives = 14/20 (70%)
Query: 50 LAVMGPSGCGKTTLLNCLAG 69
+ V+G G GKTTLLN L G
Sbjct: 8 IVVLGDGGVGKTTLLNRLVG 27
>gnl|CDD|184200 PRK13640, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 282
Score = 31.7 bits (72), Expect = 0.068
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 33 KRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAG 69
K+P L D+S + G A++G +G GK+T+ + G
Sbjct: 19 KKPALNDISFSIPRGSWTALIGHNGSGKSTISKLING 55
>gnl|CDD|238978 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 = 30.9 bits (71), Expect = 0.085
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 3/34 (8%)
Query: 51 AVMGPSGCGKTTLLNCLAGR---VKLDSGVIRLN 81
A+ GP+G GK+T+ LA + LD+G IR
Sbjct: 3 AIDGPAGSGKSTVAKLLAKKLGLPYLDTGGIRTE 36
>gnl|CDD|184128 PRK13541, PRK13541, cytochrome c biogenesis protein CcmA;
Provisional.
Length = 195
Score = 31.0 bits (70), Expect = 0.087
Identities = 23/91 (25%), Positives = 42/91 (46%), Gaps = 1/91 (1%)
Query: 22 LVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
L L ++++ + D+S P + + G +GCGK++LL +AG ++ SG I
Sbjct: 2 LSLHQLQFNIEQKNLF-DLSITFLPSAITYIKGANGCGKSSLLRMIAGIMQPSSGNIYYK 60
Query: 82 KERLNKRWKRKICYVLQQDIFFPELTLRQTL 112
+N K Y+ E+T+ + L
Sbjct: 61 NCNINNIAKPYCTYIGHNLGLKLEMTVFENL 91
>gnl|CDD|233206 TIGR00954, 3a01203, Peroxysomal Fatty Acyl CoA Transporter (FAT)
Family protei. [Transport and binding proteins,
Carbohydrates, organic alcohols, and acids].
Length = 659
Score = 31.3 bits (71), Expect = 0.091
Identities = 23/66 (34%), Positives = 31/66 (46%), Gaps = 11/66 (16%)
Query: 44 VKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKRKICYVLQQDIFF 103
V G L + GP+GCGK++L L + G RL K K K+ YV Q+
Sbjct: 475 VPSGNNLLICGPNGCGKSSLFRILGELWPVYGG-------RLTKPAKGKLFYVPQR---- 523
Query: 104 PELTLR 109
P +TL
Sbjct: 524 PYMTLG 529
>gnl|CDD|184208 PRK13649, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 280
Score = 31.3 bits (71), Expect = 0.095
Identities = 27/82 (32%), Positives = 41/82 (50%), Gaps = 16/82 (19%)
Query: 34 RPILKDVSGVVKPGELLAVMGPSGCGKTT---LLNCL----AGRVKLDSGVIR---LNKE 83
L DV+ ++ G A +G +G GK+T LLN L G V++D +I NK+
Sbjct: 20 GRALFDVNLTIEDGSYTAFIGHTGSGKSTIMQLLNGLHVPTQGSVRVDDTLITSTSKNKD 79
Query: 84 RLNKRWKRKICYVLQQDIFFPE 105
K+ ++K+ V Q FPE
Sbjct: 80 I--KQIRKKVGLVFQ----FPE 95
>gnl|CDD|233062 TIGR00630, uvra, excinuclease ABC, A subunit. This family is a
member of the ABC transporter superfamily of proteins of
which all members for which functions are known except
the UvrA proteins are involved in the transport of
material through membranes. UvrA orthologs are involved
in the recognition of DNA damage as a step in nucleotide
excision repair. This family is based on the
phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
Stanford University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 925
Score = 31.1 bits (71), Expect = 0.10
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLN 65
LK+++ + G + G SG GK+TL+N
Sbjct: 624 LKNITVSIPLGLFTCITGVSGSGKSTLIN 652
Score = 26.1 bits (58), Expect = 6.7
Identities = 9/27 (33%), Positives = 17/27 (62%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTL 63
LK++ + +L+ + G SG GK++L
Sbjct: 12 LKNIDVEIPRDKLVVITGLSGSGKSSL 38
>gnl|CDD|221803 pfam12846, AAA_10, AAA-like domain. This family of domains
contain a P-loop motif that is characteristic of the
AAA superfamily. Many of the proteins in this family
are conjugative transfer proteins.
Length = 316
Score = 31.2 bits (71), Expect = 0.10
Identities = 12/22 (54%), Positives = 17/22 (77%)
Query: 50 LAVMGPSGCGKTTLLNCLAGRV 71
+ ++GPSG GK+TLL LA R+
Sbjct: 4 MLIVGPSGSGKSTLLKLLALRL 25
>gnl|CDD|238979 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 = 30.7 bits (70), Expect = 0.12
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 49 LLAVMGPSGCGKTT 62
++ VMG SG GK+T
Sbjct: 1 IIVVMGVSGSGKST 14
>gnl|CDD|184131 PRK13546, PRK13546, teichoic acids export protein ATP-binding
subunit; Provisional.
Length = 264
Score = 30.9 bits (70), Expect = 0.12
Identities = 15/47 (31%), Positives = 26/47 (55%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKE 83
L D+S G+++ ++G +G GK+TL N + G + G + N E
Sbjct: 40 LDDISLKAYEGDVIGLVGINGSGKSTLSNIIGGSLSPTVGKVDRNGE 86
>gnl|CDD|234175 TIGR03348, VI_IcmF, type VI secretion protein IcmF. Members of
this protein family are IcmF homologs and tend to be
associated with type VI secretion systems [Cellular
processes, Pathogenesis].
Length = 1169
Score = 30.8 bits (70), Expect = 0.13
Identities = 10/14 (71%), Positives = 11/14 (78%)
Query: 52 VMGPSGCGKTTLLN 65
V+GP G GKTTLL
Sbjct: 116 VIGPPGSGKTTLLQ 129
>gnl|CDD|235666 PRK06002, fliI, flagellum-specific ATP synthase; Validated.
Length = 450
Score = 30.7 bits (70), Expect = 0.13
Identities = 16/38 (42%), Positives = 21/38 (55%)
Query: 47 GELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKER 84
G+ + + SG GK+TLL LA D+ VI L ER
Sbjct: 165 GQRIGIFAGSGVGKSTLLAMLARADAFDTVVIALVGER 202
>gnl|CDD|172761 PRK14273, PRK14273, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 254
Score = 30.8 bits (69), Expect = 0.14
Identities = 21/61 (34%), Positives = 31/61 (50%), Gaps = 11/61 (18%)
Query: 49 LLAVMGPSGCGKTTLL------NCLAGRVKLDSGVIRLNKERLNKRW-----KRKICYVL 97
+ A++GPSGCGK+T L N L +K++ VI K + + +RKI V
Sbjct: 35 ITALIGPSGCGKSTFLRTLNRMNDLVEGIKIEGNVIYEGKNIYSNNFDILELRRKIGMVF 94
Query: 98 Q 98
Q
Sbjct: 95 Q 95
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 29.9 bits (68), Expect = 0.14
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 49 LLAVMGPSGCGKTTLLNCLA 68
+ + G SG GKTTLL LA
Sbjct: 6 IGVLTGESGSGKTTLLRRLA 25
>gnl|CDD|213246 cd03279, ABC_sbcCD, ATP-binding cassette domain of 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 = 30.3 bits (69), Expect = 0.15
Identities = 15/47 (31%), Positives = 26/47 (55%), Gaps = 3/47 (6%)
Query: 18 RPLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLL 64
+PL+L +++ I D +G+ G L + GP+G GK+T+L
Sbjct: 2 KPLKLELKNFGPFREEQVI--DFTGLDNNG-LFLICGPTGAGKSTIL 45
>gnl|CDD|184207 PRK13648, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 269
Score = 30.5 bits (69), Expect = 0.16
Identities = 18/57 (31%), Positives = 31/57 (54%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKRKI 93
LKDVS + G+ +++G +G GK+T+ + G K+ SG I N + + K+
Sbjct: 25 LKDVSFNIPKGQWTSIVGHNGSGKSTIAKLMIGIEKVKSGEIFYNNQAITDDNFEKL 81
>gnl|CDD|235825 PRK06547, PRK06547, hypothetical protein; Provisional.
Length = 172
Score = 30.1 bits (68), Expect = 0.17
Identities = 12/27 (44%), Positives = 14/27 (51%), Gaps = 2/27 (7%)
Query: 54 GPSGCGKTTLLNCLAGRVKLDSGVIRL 80
G SG GKTTL LA R ++ L
Sbjct: 22 GRSGSGKTTLAGALAAR--TGFQLVHL 46
>gnl|CDD|213257 cd03290, ABCC_SUR1_N, ATP-binding cassette domain of the
sulfonylurea receptor, subfamily C. 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 = 30.4 bits (68), Expect = 0.17
Identities = 12/47 (25%), Positives = 26/47 (55%)
Query: 35 PILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
L +++ + G+L ++G GCGK++LL + G ++ G + +
Sbjct: 15 ATLSNINIRIPTGQLTMIVGQVGCGKSSLLLAILGEMQTLEGKVHWS 61
>gnl|CDD|172751 PRK14263, PRK14263, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 261
Score = 30.4 bits (68), Expect = 0.17
Identities = 12/31 (38%), Positives = 20/31 (64%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCL 67
++D ++ E+ +GPSGCGK+T+L L
Sbjct: 24 VRDSHVPIRKNEITGFIGPSGCGKSTVLRSL 54
>gnl|CDD|237652 PRK14275, PRK14275, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 286
Score = 30.2 bits (68), Expect = 0.18
Identities = 29/111 (26%), Positives = 53/111 (47%), Gaps = 14/111 (12%)
Query: 8 LPPEKYPLSH--RPLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLN 65
LPPE+ +S +P +V S+ + +K V+ + + A++GPSGCGK+T L
Sbjct: 25 LPPERKKVSGGGKP-HVVAKNFSIYYGEFEAVKKVNADILSKYVTAIIGPSGCGKSTFLR 83
Query: 66 CLAGRVKL-----DSGVIRLNKERLNKRW------KRKICYVLQQDIFFPE 105
+ L +G + + E + ++ ++KI V Q+ FP+
Sbjct: 84 AINRMNDLIPSCHTTGALMFDGEDIYGKFTDEVLLRKKIGMVFQKPNPFPK 134
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 30.3 bits (69), Expect = 0.19
Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 45 KPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
KP + L + GP G GKT+L + LA + VI LN
Sbjct: 37 KPKKALLLYGPPGVGKTSLAHALANDYGWE--VIELN 71
>gnl|CDD|235871 PRK06835, PRK06835, DNA replication protein DnaC; Validated.
Length = 329
Score = 30.3 bits (69), Expect = 0.20
Identities = 17/36 (47%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 45 KPGELLAVMGPSGCGKTTLLNCLAGRVKLDSG--VI 78
K E L G +G GKT L NC+A + LD G VI
Sbjct: 181 KNNENLLFYGNTGTGKTFLSNCIAKEL-LDRGKSVI 215
>gnl|CDD|227297 COG4962, CpaF, Flp pilus assembly protein, ATPase CpaF
[Intracellular trafficking and secretion].
Length = 355
Score = 30.4 bits (69), Expect = 0.20
Identities = 23/78 (29%), Positives = 36/78 (46%), Gaps = 3/78 (3%)
Query: 1 VVSNIPSLPPEKYPLSHRPLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGK 60
V + P+L K+P L + ++ L+ G+ +L + G +G GK
Sbjct: 130 VAIDGPTLSIRKFPKIKLTLLDLIIFGTMIRRAAKFLRRAVGIRC--NIL-ISGGTGSGK 186
Query: 61 TTLLNCLAGRVKLDSGVI 78
TTLLN L+G + D VI
Sbjct: 187 TTLLNALSGFIDSDERVI 204
>gnl|CDD|206649 cd01850, CDC_Septin, CDC/Septin GTPase family. 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 = 275
Score = 29.8 bits (68), Expect = 0.23
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 52 VMGPSGCGKTTLLNCL 67
V+G SG GK+T +N L
Sbjct: 9 VVGESGLGKSTFINTL 24
>gnl|CDD|236648 PRK10078, PRK10078, ribose 1,5-bisphosphokinase; Provisional.
Length = 186
Score = 29.7 bits (67), Expect = 0.24
Identities = 12/22 (54%), Positives = 16/22 (72%)
Query: 46 PGELLAVMGPSGCGKTTLLNCL 67
G+L+ +MGPSG GK +LL L
Sbjct: 1 MGKLIWLMGPSGSGKDSLLAAL 22
>gnl|CDD|237090 PRK12402, PRK12402, replication factor C small subunit 2;
Reviewed.
Length = 337
Score = 30.0 bits (68), Expect = 0.25
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 50 LAVMGPSGCGKTTLLNCLAGRV 71
L V GP G GKT + LA +
Sbjct: 39 LLVQGPPGSGKTAAVRALAREL 60
>gnl|CDD|225982 COG3451, VirB4, Type IV secretory pathway, VirB4 components
[Intracellular trafficking and secretion].
Length = 796
Score = 30.0 bits (68), Expect = 0.27
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 51 AVMGPSGCGKTTLLNCLA 68
++GP+G GKT LL+ L
Sbjct: 440 LIIGPTGAGKTVLLSFLL 457
>gnl|CDD|226415 COG3899, COG3899, Predicted ATPase [General function prediction
only].
Length = 849
Score = 30.1 bits (68), Expect = 0.28
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 47 GELLAVMGPSGCGKTTLLNCLAGRVK 72
GE++ V G SG GK+ L+N + +
Sbjct: 24 GEVVLVAGESGIGKSALVNEVHKPIT 49
>gnl|CDD|222036 pfam13304, AAA_21, AAA domain.
Length = 256
Score = 29.7 bits (66), Expect = 0.29
Identities = 13/38 (34%), Positives = 21/38 (55%)
Query: 49 LLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLN 86
L ++GP+G GK+ LL LA + L S + L++
Sbjct: 1 LNVIIGPNGSGKSNLLKALALLLLLLSLGLTLDRGLNV 38
>gnl|CDD|217429 pfam03215, Rad17, Rad17 cell cycle checkpoint protein.
Length = 490
Score = 30.0 bits (67), Expect = 0.30
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLA 68
LK V +L + GPSGCGK+T + L+
Sbjct: 35 LKAVFLESNKQLILLLTGPSGCGKSTTVKVLS 66
>gnl|CDD|213238 cd03271, ABC_UvrA_II, ATP-binding cassette domain II of 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 = 261
Score = 29.5 bits (67), Expect = 0.30
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLN 65
LK++ + G L V G SG GK++L+N
Sbjct: 11 LKNIDVDIPLGVLTCVTGVSGSGKSSLIN 39
>gnl|CDD|238977 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 = 28.1 bits (63), Expect = 0.31
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 49 LLAVMGPSGCGKTTLLNCLA 68
++A+ G SG GK+T+ LA
Sbjct: 1 IIAITGGSGSGKSTVAKKLA 20
>gnl|CDD|233193 TIGR00929, VirB4_CagE, type IV secretion/conjugal transfer ATPase,
VirB4 family. Type IV secretion systems are found in
Gram-negative pathogens. They export proteins, DNA, or
complexes in different systems and are related to
plasmid conjugation systems. This model represents
related ATPases that include VirB4 in Agrobacterium
tumefaciens (DNA export) CagE in Helicobacter pylori
(protein export) and plasmid TraB (conjugation).
Length = 785
Score = 30.0 bits (68), Expect = 0.32
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 51 AVMGPSGCGKTTLLNCLA 68
+ GP+G GKTTLLN L
Sbjct: 438 LIFGPTGSGKTTLLNFLL 455
>gnl|CDD|206650 cd01851, GBP, Guanylate-binding protein (GBP) family (N-terminal
domain). Guanylate-binding protein (GBP), N-terminal
domain. Guanylate-binding proteins (GBPs) define a
group of proteins that are synthesized after activation
of the cell by interferons. The biochemical properties
of GBPs are clearly different from those of Ras-like
and heterotrimeric GTP-binding proteins. They bind
guanine nucleotides with low affinity (micromolar
range), are stable in their absence and have a high
turnover GTPase. In addition to binding GDP/GTP, they
have the unique ability to bind GMP with equal affinity
and hydrolyze GTP not only to GDP, but also to GMP.
Furthermore, two unique regions around the base and the
phosphate-binding areas, the guanine and the phosphate
caps, respectively, give the nucleotide-binding site a
unique appearance not found in the canonical
GTP-binding proteins. The phosphate cap, which
constitutes the region analogous to switch I,
completely shields the phosphate-binding site from
solvent such that a potential GTPase-activating protein
(GAP) cannot approach.
Length = 224
Score = 29.2 bits (66), Expect = 0.35
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 50 LAVMGPSGCGKTTLLNCLAGR 70
++V G GK+ LLN L G
Sbjct: 10 VSVFGSQSSGKSFLLNHLFGT 30
>gnl|CDD|163293 TIGR03498, FliI_clade3, flagellar protein export ATPase FliI.
Members of this protein family are the FliI protein of
bacterial flagellum systems. This protein acts to drive
protein export for flagellar biosynthesis. The most
closely related family is the YscN family of bacterial
type III secretion systems. This model represents one
(of three) segment of the FliI family tree. These have
been modeled separately in order to exclude the type III
secretion ATPases more effectively.
Length = 418
Score = 29.6 bits (67), Expect = 0.36
Identities = 17/38 (44%), Positives = 21/38 (55%)
Query: 47 GELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKER 84
G+ L + SG GK+TLL+ LA D VI L ER
Sbjct: 140 GQRLGIFAGSGVGKSTLLSMLARNTDADVVVIALVGER 177
>gnl|CDD|237040 PRK12289, PRK12289, GTPase RsgA; Reviewed.
Length = 352
Score = 29.6 bits (67), Expect = 0.37
Identities = 12/22 (54%), Positives = 16/22 (72%)
Query: 52 VMGPSGCGKTTLLNCLAGRVKL 73
V GPSG GK++L+N L V+L
Sbjct: 177 VAGPSGVGKSSLINRLIPDVEL 198
>gnl|CDD|238984 cd02026, PRK, Phosphoribulokinase (PRK) is an enzyme involved in
the Benson-Calvin cycle in chloroplasts or
photosynthetic prokaryotes. This enzyme catalyzes the
phosphorylation of D-ribulose 5-phosphate to form
D-ribulose 1, 5-biphosphate, using ATP and NADPH
produced by the primary reactions of photosynthesis.
Length = 273
Score = 29.2 bits (66), Expect = 0.37
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 49 LLAVMGPSGCGKTTLLNCLA 68
++ V G SGCGK+T L L
Sbjct: 1 IIGVAGDSGCGKSTFLRRLT 20
>gnl|CDD|216791 pfam01926, MMR_HSR1, 50S ribosome-binding GTPase. The
full-length GTPase protein is required for the complete
activity of the protein of interacting with the 50S
ribosome and binding of both adenine and guanine
nucleotides, with a preference for guanine nucleotide.
Length = 117
Score = 28.8 bits (65), Expect = 0.39
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 51 AVMGPSGCGKTTLLNCLAGR 70
A++G GK+TL+N L G
Sbjct: 3 ALVGRPNVGKSTLINALTGA 22
>gnl|CDD|211826 TIGR03497, FliI_clade2, flagellar protein export ATPase FliI.
Members of this protein family are the FliI protein of
bacterial flagellum systems. This protein acts to drive
protein export for flagellar biosynthesis. The most
closely related family is the YscN family of bacterial
type III secretion systems. This model represents one
(of three) segment of the FliI family tree. These have
been modeled separately in order to exclude the type III
secretion ATPases more effectively [Cellular processes,
Chemotaxis and motility].
Length = 413
Score = 29.6 bits (67), Expect = 0.40
Identities = 26/89 (29%), Positives = 37/89 (41%), Gaps = 19/89 (21%)
Query: 6 PSLPPEKYPLSHRPLELVFSGLSVTLDKRPILKDVSGV----------VKPGELLAVMGP 55
P + E YPL + P + KRP ++D + G+ + +
Sbjct: 95 PIIGEEPYPLDNPPPNPL---------KRPRIRDPLETGIKAIDGLLTIGKGQRVGIFAG 145
Query: 56 SGCGKTTLLNCLAGRVKLDSGVIRLNKER 84
SG GK+TLL +A K D VI L ER
Sbjct: 146 SGVGKSTLLGMIARNAKADINVIALIGER 174
>gnl|CDD|200328 TIGR03819, heli_sec_ATPase, helicase/secretion neighborhood ATPase.
Members of this protein family comprise a distinct
clade of putative ATPase associated with an integral
membrane complex likely to act in pilus formation,
secretion, or conjugal transfer. The association of most
members with a nearby gene for a DEAH-box helicase
suggests a role in conjugal transfer.
Length = 340
Score = 29.2 bits (66), Expect = 0.41
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 52 VMGPSGCGKTTLLNCLAGRV 71
V G +G GKTTLL+ L V
Sbjct: 183 VSGGTGSGKTTLLSALLALV 202
>gnl|CDD|224079 COG1157, FliI, Flagellar biosynthesis/type III secretory pathway
ATPase [Cell motility and secretion / Intracellular
trafficking and secretion].
Length = 441
Score = 29.5 bits (67), Expect = 0.43
Identities = 15/38 (39%), Positives = 21/38 (55%)
Query: 47 GELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKER 84
G+ + + SG GK+TLL +A + D VI L ER
Sbjct: 163 GQRIGIFAGSGVGKSTLLGMIARNTEADVNVIALIGER 200
>gnl|CDD|235244 PRK04182, PRK04182, cytidylate kinase; Provisional.
Length = 180
Score = 29.0 bits (66), Expect = 0.44
Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 5/41 (12%)
Query: 49 LLAVMGPSGCGKTTLLNCLAGRVKLD---SGVI--RLNKER 84
++ + GP G GKTT+ LA ++ L +G I L KER
Sbjct: 2 IITISGPPGSGKTTVARLLAEKLGLKHVSAGEIFRELAKER 42
>gnl|CDD|235570 PRK05703, flhF, flagellar biosynthesis regulator FlhF; Validated.
Length = 424
Score = 29.1 bits (66), Expect = 0.45
Identities = 20/61 (32%), Positives = 29/61 (47%), Gaps = 4/61 (6%)
Query: 10 PEKYPLSHRPLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAG 69
E P R L + + I V ++K G ++A++GP+G GKTT L LA
Sbjct: 188 LEHMPPRERTAWRYL--LELLANM--IPVRVEDILKQGGVVALVGPTGVGKTTTLAKLAA 243
Query: 70 R 70
R
Sbjct: 244 R 244
>gnl|CDD|238835 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 = 29.2 bits (66), Expect = 0.47
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 49 LLAVMGPSGCGKTTLLNCLAGRVK 72
+ G G GKTTL+ LA R++
Sbjct: 2 FIVFEGIDGAGKTTLIELLAERLE 25
>gnl|CDD|182120 PRK09862, PRK09862, putative ATP-dependent protease; Provisional.
Length = 506
Score = 29.2 bits (65), Expect = 0.47
Identities = 17/55 (30%), Positives = 29/55 (52%), Gaps = 9/55 (16%)
Query: 47 GELLAVMGPSGCGKTTLLNCLAGRV-------KLDSGVI--RLNKERLNKRWKRK 92
G L ++GP G GKT L + + G + L+S I +N E + K+W+++
Sbjct: 210 GHNLLLIGPPGTGKTMLASRINGLLPDLSNEEALESAAILSLVNAESVQKQWRQR 264
>gnl|CDD|235904 PRK06995, flhF, flagellar biosynthesis regulator FlhF; Validated.
Length = 484
Score = 29.2 bits (66), Expect = 0.48
Identities = 12/20 (60%), Positives = 14/20 (70%)
Query: 51 AVMGPSGCGKTTLLNCLAGR 70
A+MGP+G GKTT LA R
Sbjct: 260 ALMGPTGVGKTTTTAKLAAR 279
>gnl|CDD|222160 pfam13476, AAA_23, AAA domain.
Length = 204
Score = 29.1 bits (65), Expect = 0.49
Identities = 8/14 (57%), Positives = 12/14 (85%)
Query: 54 GPSGCGKTTLLNCL 67
GP+G GKTT+L+ +
Sbjct: 26 GPNGSGKTTILDAI 39
>gnl|CDD|236546 PRK09518, PRK09518, bifunctional cytidylate kinase/GTPase Der;
Reviewed.
Length = 712
Score = 29.4 bits (66), Expect = 0.50
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 45 KPGELLAVMGPSGCGKTTLLNCLAGR 70
K ++A++G GK+TL+N + GR
Sbjct: 273 KAVGVVAIVGRPNVGKSTLVNRILGR 298
>gnl|CDD|233355 TIGR01313, therm_gnt_kin, carbohydrate kinase, thermoresistant
glucokinase family. This model represents a subfamily
of proteins that includes thermoresistant and
thermosensitve isozymes of gluconate kinase
(gluconokinase) in E. coli and other related proteins;
members of this family are often named by similarity to
the thermostable isozyme. These proteins show homology
to shikimate kinases and adenylate kinases but not to
gluconate kinases from the FGGY family of carbohydrate
kinases.
Length = 163
Score = 28.9 bits (65), Expect = 0.52
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 52 VMGPSGCGKTTLLNCLAGRVKL 73
+MG +G GK+T+ + LA R+
Sbjct: 3 LMGVAGSGKSTIASALAHRLGA 24
>gnl|CDD|213788 TIGR03263, guanyl_kin, guanylate kinase. Members of this family
are the enzyme guanylate kinase, also called GMP
kinase. This enzyme transfers a phosphate from ATP to
GMP, yielding ADP and GDP [Purines, pyrimidines,
nucleosides, and nucleotides, Nucleotide and nucleoside
interconversions].
Length = 179
Score = 28.6 bits (65), Expect = 0.53
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 49 LLAVMGPSGCGKTTLLNCL 67
L+ + GPSG GK+TL+ L
Sbjct: 2 LIVISGPSGAGKSTLVKAL 20
>gnl|CDD|206665 cd01876, YihA_EngB, YihA (EngB) GTPase family. The YihA (EngB)
subfamily of GTPases is typified by the E. coli YihA,
an essential protein involved in cell division control.
YihA and its orthologs are small proteins that
typically contain less than 200 amino acid residues and
consists of the GTPase domain only (some of the
eukaryotic homologs contain an N-terminal extension of
about 120 residues that might be involved in organellar
targeting). Homologs of yihA are found in most
Gram-positive and Gram-negative pathogenic bacteria,
with the exception of Mycobacterium tuberculosis. The
broad-spectrum nature of YihA and its essentiality for
cell viability in bacteria make it an attractive
antibacterial target.
Length = 170
Score = 28.6 bits (65), Expect = 0.53
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 51 AVMGPSGCGKTTLLNCLAGRVKL 73
A G S GK++L+N L R KL
Sbjct: 3 AFAGRSNVGKSSLINALTNRKKL 25
>gnl|CDD|227341 COG5008, PilU, Tfp pilus assembly protein, ATPase PilU [Cell
motility and secretion / Intracellular trafficking and
secretion].
Length = 375
Score = 29.0 bits (65), Expect = 0.60
Identities = 11/39 (28%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 31 LDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAG 69
L +LKD+ + L+ ++G +G GK+T + + G
Sbjct: 113 LKLPEVLKDL--ALAKRGLVIIVGATGSGKSTTMAAMIG 149
>gnl|CDD|232857 TIGR00176, mobB, molybdopterin-guanine dinucleotide biosynthesis
protein MobB. This molybdenum cofactor biosynthesis
enzyme is similar to the urease accessory protein UreG
and to the hydrogenase accessory protein HypB, both GTP
hydrolases involved in loading nickel into the
metallocenters of their respective target enzymes
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Molybdopterin].
Length = 155
Score = 28.5 bits (64), Expect = 0.62
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 49 LLAVMGPSGCGKTTLLNCLAGRVK 72
+L ++GP GKTTL+ L +K
Sbjct: 1 VLQIVGPKNSGKTTLIERLVKALK 24
>gnl|CDD|227832 COG5545, COG5545, Predicted P-loop ATPase and inactivated
derivatives [General function prediction only].
Length = 517
Score = 28.8 bits (64), Expect = 0.63
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 4/49 (8%)
Query: 25 SGLSVTLDKRPILKDVSGVVKPG----ELLAVMGPSGCGKTTLLNCLAG 69
S L+ K ++ V+ V+ PG +L + GP G K+T L+ L G
Sbjct: 176 STLARQASKCFMVGAVARVLWPGAKVDFMLVLEGPQGSHKSTFLSELFG 224
>gnl|CDD|201420 pfam00735, Septin, Septin. Members of this family include CDC3,
CDC10, CDC11 and CDC12/Septin. Members of this family
bind GTP. As regards the septins, these are
polypeptides of 30-65kDa with three characteristic
GTPase motifs (G-1, G-3 and G-4) that are similar to
those of the Ras family. The G-4 motif is strictly
conserved with a unique septin consensus of AKAD. Most
septins are thought to have at least one coiled-coil
region, which in some cases is necessary for
intermolecular interactions that allow septins to
polymerise to form rod-shaped complexes. In turn, these
are arranged into tandem arrays to form filaments. They
are multifunctional proteins, with roles in
cytokinesis, sporulation, germ cell development,
exocytosis and apoptosis.
Length = 280
Score = 28.8 bits (65), Expect = 0.63
Identities = 15/38 (39%), Positives = 20/38 (52%)
Query: 50 LAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNK 87
L V+G SG GKTTL+N L + I E++ K
Sbjct: 7 LMVVGESGLGKTTLINTLFLTDLIPERGIPGPSEKIKK 44
>gnl|CDD|180660 PRK06696, PRK06696, uridine kinase; Validated.
Length = 223
Score = 28.8 bits (65), Expect = 0.65
Identities = 13/31 (41%), Positives = 17/31 (54%), Gaps = 3/31 (9%)
Query: 51 AVMGPSGCGKTTLLNCLAGRVKLDSG--VIR 79
A+ G + GKTT + LA +K G VIR
Sbjct: 26 AIDGITASGKTTFADELAEEIK-KRGRPVIR 55
>gnl|CDD|221983 pfam13207, AAA_17, AAA domain.
Length = 114
Score = 28.0 bits (62), Expect = 0.68
Identities = 7/17 (41%), Positives = 11/17 (64%)
Query: 49 LLAVMGPSGCGKTTLLN 65
++ + GP G GK+TL
Sbjct: 1 IILITGPPGSGKSTLAK 17
>gnl|CDD|213194 cd03227, ABC_Class2, ATP-binding cassette domain of
non-transporter proteins. ABC-type Class 2 contains
systems involved in cellular processes other than
transport. These families are characterized 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 = 28.5 bits (64), Expect = 0.68
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 46 PGELLAVMGPSGCGKTTLLNCLA 68
G L + GP+G GK+T+L+ +
Sbjct: 20 EGSLTIITGPNGSGKSTILDAIG 42
>gnl|CDD|169656 PRK09099, PRK09099, type III secretion system ATPase; Provisional.
Length = 441
Score = 28.6 bits (64), Expect = 0.69
Identities = 14/38 (36%), Positives = 21/38 (55%)
Query: 47 GELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKER 84
G+ + + P+G GK+TL+ A + D VI L ER
Sbjct: 163 GQRMGIFAPAGVGKSTLMGMFARGTQCDVNVIALIGER 200
>gnl|CDD|222307 pfam13671, AAA_33, AAA domain. This family of domains contain
only a P-loop motif, that is characteristic of the AAA
superfamily. Many of the proteins in this family are
just short fragments so there is no Walker B motif.
Length = 143
Score = 28.4 bits (64), Expect = 0.71
Identities = 12/42 (28%), Positives = 20/42 (47%), Gaps = 4/42 (9%)
Query: 49 LLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWK 90
L+ ++G G GK+T L G + L+ + L KR +
Sbjct: 1 LILMVGLPGSGKSTFARRLLRE----LGAVVLSSDTLRKRLR 38
>gnl|CDD|238418 cd00820, PEPCK_HprK, Phosphoenolpyruvate carboxykinase (PEPCK), a
critical gluconeogenic enzyme, catalyzes the first
committed step in the diversion of tricarboxylic acid
cycle intermediates toward gluconeogenesis. It
catalyzes the reversible decarboxylation and
phosphorylation of oxaloacetate to yield
phosphoenolpyruvate and carbon dioxide, using a
nucleotide molecule (ATP or GTP) for the phosphoryl
transfer, and has a strict requirement for divalent
metal ions for activity. PEPCK's separate into two
phylogenetic groups based on their nucleotide substrate
specificity (the ATP-, and GTP-dependent
groups).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 HPr and its
dephosphorylation by phosphorolysis. PEPCK and the
C-terminal catalytic domain of HprK/P are structurally
similar with conserved active site residues suggesting
that these two phosphotransferases have related
functions.
Length = 107
Score = 28.0 bits (62), Expect = 0.71
Identities = 10/28 (35%), Positives = 12/28 (42%)
Query: 43 VVKPGELLAVMGPSGCGKTTLLNCLAGR 70
V + + G SG GKT L L R
Sbjct: 11 DVYGKVGVLITGDSGIGKTELALELIKR 38
>gnl|CDD|225804 COG3265, GntK, Gluconate kinase [Carbohydrate transport and
metabolism].
Length = 161
Score = 28.0 bits (63), Expect = 0.77
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 53 MGPSGCGKTTLLNCLAGR 70
MG SG GK+T+ + LA R
Sbjct: 1 MGVSGSGKSTVGSALAER 18
>gnl|CDD|234806 PRK00635, PRK00635, excinuclease ABC subunit A; Provisional.
Length = 1809
Score = 28.6 bits (64), Expect = 0.81
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLN 65
LKD++ + G L V G SG GK++L+N
Sbjct: 611 LKDLTISLPLGRLTVVTGVSGSGKSSLIN 639
>gnl|CDD|213205 cd03238, ABC_UvrA, ATP-binding cassette domain of 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 = 28.1 bits (63), Expect = 0.84
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLN 65
L+++ + L+ V G SG GK+TL+N
Sbjct: 11 LQNLDVSIPLNVLVVVTGVSGSGKSTLVN 39
>gnl|CDD|237182 PRK12727, PRK12727, flagellar biosynthesis regulator FlhF;
Provisional.
Length = 559
Score = 28.4 bits (63), Expect = 0.84
Identities = 12/24 (50%), Positives = 18/24 (75%)
Query: 47 GELLAVMGPSGCGKTTLLNCLAGR 70
G ++A++GP+G GKTT + LA R
Sbjct: 350 GGVIALVGPTGAGKTTTIAKLAQR 373
>gnl|CDD|236707 PRK10522, PRK10522, multidrug transporter membrane
component/ATP-binding component; Provisional.
Length = 547
Score = 28.4 bits (64), Expect = 0.85
Identities = 17/47 (36%), Positives = 28/47 (59%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKE 83
+ ++ +K GELL ++G +G GK+TL L G + SG I L+ +
Sbjct: 339 VGPINLTIKRGELLFLIGGNGSGKSTLAMLLTGLYQPQSGEILLDGK 385
>gnl|CDD|216186 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 = 27.6 bits (62), Expect = 0.85
Identities = 10/15 (66%), Positives = 11/15 (73%)
Query: 54 GPSGCGKTTLLNCLA 68
GP GCGK+TL LA
Sbjct: 5 GPPGCGKSTLAKYLA 19
>gnl|CDD|234232 TIGR03499, FlhF, flagellar biosynthetic protein FlhF. [Cellular
processes, Chemotaxis and motility].
Length = 283
Score = 28.5 bits (64), Expect = 0.85
Identities = 15/30 (50%), Positives = 21/30 (70%)
Query: 47 GELLAVMGPSGCGKTTLLNCLAGRVKLDSG 76
G ++A++GP+G GKTT L LA R L+ G
Sbjct: 195 GGVIALVGPTGVGKTTTLAKLAARFVLEHG 224
>gnl|CDD|232848 TIGR00157, TIGR00157, ribosome small subunit-dependent GTPase A.
Members of this protein were designated YjeQ and are now
designated RsgA (ribosome small subunit-dependent GTPase
A). The strongest motif in the alignment of these
proteins is GXSGVGKS[ST], a classic P-loop for
nucleotide binding. This protein has been shown to
cleave GTP and remain bound to GDP. A role as a
regulator of translation has been suggested. The Aquifex
aeolicus ortholog is split into consecutive open reading
frames. Consequently, this model was build in fragment
mode (-f option) [Protein synthesis, Translation
factors].
Length = 245
Score = 28.1 bits (63), Expect = 0.88
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 53 MGPSGCGKTTLLNCLAGRVKL 73
G SG GK++L+N L VK
Sbjct: 126 AGQSGVGKSSLINALDPSVKQ 146
>gnl|CDD|234734 PRK00349, uvrA, excinuclease ABC subunit A; Reviewed.
Length = 943
Score = 28.5 bits (65), Expect = 0.88
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLN 65
LK+V + G+ V G SG GK+TL+N
Sbjct: 625 LKNVDVEIPLGKFTCVTGVSGSGKSTLIN 653
>gnl|CDD|223401 COG0324, MiaA, tRNA delta(2)-isopentenylpyrophosphate transferase
[Translation, ribosomal structure and biogenesis].
Length = 308
Score = 28.4 bits (64), Expect = 0.89
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 5/32 (15%)
Query: 49 LLAVMGPSGCGKTTLLNCLAGR-----VKLDS 75
L+ + GP+ GKT L LA R + LDS
Sbjct: 5 LIVIAGPTASGKTALAIALAKRLGGEIISLDS 36
>gnl|CDD|237727 PRK14489, PRK14489, putative bifunctional molybdopterin-guanine
dinucleotide biosynthesis protein MobA/MobB;
Provisional.
Length = 366
Score = 28.2 bits (63), Expect = 0.93
Identities = 12/16 (75%), Positives = 13/16 (81%)
Query: 49 LLAVMGPSGCGKTTLL 64
LL V+G SG GKTTLL
Sbjct: 207 LLGVVGYSGTGKTTLL 222
>gnl|CDD|237525 PRK13830, PRK13830, conjugal transfer protein TrbE; Provisional.
Length = 818
Score = 28.7 bits (64), Expect = 0.93
Identities = 26/77 (33%), Positives = 36/77 (46%), Gaps = 18/77 (23%)
Query: 1 VVSNIPSLPPEKYPLSHRPLELVFSG-----LSVTLDKRPILKDVSGVVKPGELLAVMGP 55
V S P P YP + PL V SG L++ +D DV G L + GP
Sbjct: 418 VWSGSPVAPCPFYPPNSPPLMQVASGSTPFRLNLHVD------DV------GHTL-IFGP 464
Query: 56 SGCGKTTLLNCLAGRVK 72
+G GK+TLL +A + +
Sbjct: 465 TGSGKSTLLALIAAQFR 481
>gnl|CDD|234003 TIGR02768, TraA_Ti, Ti-type conjugative transfer relaxase TraA.
This protein contains domains distinctive of a single
strand exonuclease (N-terminus, MobA/MobL, pfam03389) as
well as a helicase domain (central region, homologous to
the corresponding region of the F-type relaxase TraI,
TIGR02760). This protein likely fills the same role as
TraI(F), nicking (at the oriT site) and unwinding the
coiled plasmid prior to conjugative transfer.
Length = 744
Score = 28.6 bits (64), Expect = 0.95
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 43 VVKPGELLAVMGPSGCGKTTLL 64
V G++ V+G +G GK+T+L
Sbjct: 364 VTGSGDIAVVVGRAGTGKSTML 385
>gnl|CDD|238836 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 = 28.0 bits (63), Expect = 0.95
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 50 LAVMGPSGCGKTTLLNCLA 68
+ V G G GK+TL LA
Sbjct: 2 IVVEGNIGAGKSTLAKELA 20
>gnl|CDD|181092 PRK07721, fliI, flagellum-specific ATP synthase; Validated.
Length = 438
Score = 28.1 bits (63), Expect = 0.99
Identities = 15/41 (36%), Positives = 21/41 (51%)
Query: 44 VKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKER 84
V G+ + + SG GK+TL+ +A D VI L ER
Sbjct: 155 VGKGQRVGIFAGSGVGKSTLMGMIARNTSADLNVIALIGER 195
>gnl|CDD|173184 PRK14721, flhF, flagellar biosynthesis regulator FlhF; Provisional.
Length = 420
Score = 28.4 bits (63), Expect = 1.0
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 43 VVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSG 76
+++ G + A++GP+G GKTT LA R + G
Sbjct: 187 IIEQGGVYALIGPTGVGKTTTTAKLAARAVIRHG 220
>gnl|CDD|236351 PRK08927, fliI, flagellum-specific ATP synthase; Validated.
Length = 442
Score = 28.4 bits (64), Expect = 1.0
Identities = 15/38 (39%), Positives = 20/38 (52%)
Query: 47 GELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKER 84
G+ + + SG GK+ LL+ LA D VI L ER
Sbjct: 158 GQRMGIFAGSGVGKSVLLSMLARNADADVSVIGLIGER 195
>gnl|CDD|198358 cd07781, FGGY_RBK, Ribulokinases; belongs to the FGGY family of
carbohydrate kinases. This subgroup is predominantly
composed of bacterial ribulokinases (RBK) which catalyze
the MgATP-dependent phosphorylation of L(or D)-ribulose
to produce L(or D)-ribulose 5-phosphate and ADP. RBK
also phosphorylates a variety of other sugar substrates
including ribitol and arabitol. The reason why L-RBK can
phosphorylate so many different substrates is not yet
clear. The presence of Mg2+ is required for catalytic
activity. This group belongs to the FGGY family of
carbohydrate kinases, the monomers of which contain two
large domains, which are separated by a deep cleft that
forms the active site. This model includes both the
N-terminal domain, which adopts a ribonuclease H-like
fold, and the structurally related C-terminal domain.
Length = 498
Score = 28.4 bits (64), Expect = 1.1
Identities = 7/15 (46%), Positives = 10/15 (66%)
Query: 44 VKPGELLAVMGPSGC 58
+PG L+ V+G S C
Sbjct: 281 AEPGTLVKVIGTSTC 295
>gnl|CDD|238556 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 = 28.0 bits (63), Expect = 1.1
Identities = 16/38 (42%), Positives = 20/38 (52%)
Query: 47 GELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKER 84
G+ L + SG GK+TLL +A D VI L ER
Sbjct: 69 GQRLGIFAGSGVGKSTLLGMIARGTTADVNVIALIGER 106
>gnl|CDD|185364 PRK15467, PRK15467, ethanolamine utilization protein EutP;
Provisional.
Length = 158
Score = 27.6 bits (61), Expect = 1.1
Identities = 12/24 (50%), Positives = 14/24 (58%)
Query: 50 LAVMGPSGCGKTTLLNCLAGRVKL 73
+A +G G GKTTL N L G L
Sbjct: 4 IAFVGAVGAGKTTLFNALQGNYTL 27
>gnl|CDD|184204 PRK13645, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 289
Score = 28.0 bits (62), Expect = 1.2
Identities = 27/91 (29%), Positives = 43/91 (47%), Gaps = 14/91 (15%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVI---------RLNKERLNK 87
L + S K ++ V+G +G GK+T++ G + ++G L K + K
Sbjct: 27 LNNTSLTFKKNKVTCVIGTTGSGKSTMIQLTNGLIISETGQTIVGDYAIPANLKKIKEVK 86
Query: 88 RWKRKICYVLQQDIFFPELTLRQ-TLEVSIA 117
R +++I V Q FPE L Q T+E IA
Sbjct: 87 RLRKEIGLVFQ----FPEYQLFQETIEKDIA 113
>gnl|CDD|232886 TIGR00231, small_GTP, small GTP-binding protein domain. Proteins
with a small GTP-binding domain recognized by this
model include Ras, RhoA, Rab11, translation elongation
factor G, translation initiation factor IF-2,
tetratcycline resistance protein TetM, CDC42, Era,
ADP-ribosylation factors, tdhF, and many others. In
some proteins the domain occurs more than once.This
model recognizes a large number of small GTP-binding
proteins and related domains in larger proteins. Note
that the alpha chains of heterotrimeric G proteins are
larger proteins in which the NKXD motif is separated
from the GxxxxGK[ST] motif (P-loop) by a long insert
and are not easily detected by this model [Unknown
function, General].
Length = 162
Score = 27.7 bits (62), Expect = 1.2
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 50 LAVMGPSGCGKTTLLNCLAGR 70
+ ++G GK+TLLN L G
Sbjct: 4 IVIVGDPNVGKSTLLNRLLGN 24
>gnl|CDD|236090 PRK07764, PRK07764, DNA polymerase III subunits gamma and tau;
Validated.
Length = 824
Score = 28.0 bits (63), Expect = 1.2
Identities = 11/20 (55%), Positives = 12/20 (60%), Gaps = 7/20 (35%)
Query: 54 GPSGCGKTT----L---LNC 66
GP GCGKT+ L LNC
Sbjct: 44 GPRGCGKTSSARILARSLNC 63
>gnl|CDD|237451 PRK13631, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 320
Score = 27.9 bits (62), Expect = 1.3
Identities = 25/102 (24%), Positives = 43/102 (42%), Gaps = 25/102 (24%)
Query: 36 ILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRL--------------- 80
L ++S + ++ ++G SG GK+TL+ G +K G I++
Sbjct: 41 ALNNISYTFEKNKIYFIIGNSGSGKSTLVTHFNGLIKSKYGTIQVGDIYIGDKKNNHELI 100
Query: 81 -----NKERLNKRWKRKICYVLQQDIFFPELTL-RQTLEVSI 116
K + K +R++ V Q FPE L + T+E I
Sbjct: 101 TNPYSKKIKNFKELRRRVSMVFQ----FPEYQLFKDTIEKDI 138
>gnl|CDD|233847 TIGR02397, dnaX_nterm, DNA polymerase III, subunit gamma and tau.
This model represents the well-conserved first ~ 365
amino acids of the translation of the dnaX gene. The
full-length product of the dnaX gene in the model
bacterium E. coli is the DNA polymerase III tau
subunit. A translational frameshift leads to early
termination and a truncated protein subunit gamma,
about 1/3 shorter than tau and present in roughly equal
amounts. This frameshift mechanism is not necessarily
universal for species with DNA polymerase III but
appears conserved in the exterme thermophile Thermus
thermophilis [DNA metabolism, DNA replication,
recombination, and repair].
Length = 355
Score = 27.9 bits (63), Expect = 1.3
Identities = 10/23 (43%), Positives = 12/23 (52%), Gaps = 7/23 (30%)
Query: 54 GPSGCGKTTL-------LNCLAG 69
GP G GKT++ LNC G
Sbjct: 43 GPRGTGKTSIARIFAKALNCQNG 65
>gnl|CDD|226986 COG4639, COG4639, Predicted kinase [General function prediction
only].
Length = 168
Score = 27.4 bits (61), Expect = 1.4
Identities = 13/38 (34%), Positives = 19/38 (50%), Gaps = 4/38 (10%)
Query: 49 LLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLN 86
L+ + G SG GK+T A L + V+ L+ RL
Sbjct: 4 LVVLRGASGSGKST----FAKENFLQNYVLSLDDLRLL 37
>gnl|CDD|223637 COG0563, Adk, Adenylate kinase and related kinases [Nucleotide
transport and metabolism].
Length = 178
Score = 27.6 bits (62), Expect = 1.4
Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 4/56 (7%)
Query: 50 LAVMGPSGCGKTTLLNCLAGR---VKLDSGVI-RLNKERLNKRWKRKICYVLQQDI 101
+ ++GP G GK+TL LA + LD+G I R + + Y+ + ++
Sbjct: 3 ILILGPPGAGKSTLAKKLAKKLGLPHLDTGDILRAAIAERTELGEEIKKYIDKGEL 58
>gnl|CDD|226054 COG3523, IcmF, Type VI protein secretion system component VasK
[Intracellular trafficking, secretion, and vesicular
transport].
Length = 1188
Score = 27.8 bits (62), Expect = 1.4
Identities = 9/14 (64%), Positives = 10/14 (71%)
Query: 52 VMGPSGCGKTTLLN 65
V+GP G GKTT L
Sbjct: 130 VIGPPGSGKTTALL 143
>gnl|CDD|102061 PRK05922, PRK05922, type III secretion system ATPase; Validated.
Length = 434
Score = 27.9 bits (62), Expect = 1.4
Identities = 23/79 (29%), Positives = 37/79 (46%), Gaps = 11/79 (13%)
Query: 7 SLPPEKYPLSHRPLELVF-SGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLN 65
S PP P+S +P++ +F +G+ D + G+ + V G GK++LL+
Sbjct: 126 SSPPS--PMSRQPIQEIFPTGIKAI--------DAFLTLGKGQRIGVFSEPGSGKSSLLS 175
Query: 66 CLAGRVKLDSGVIRLNKER 84
+A K VI L ER
Sbjct: 176 TIAKGSKSTINVIALIGER 194
>gnl|CDD|216619 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 = 27.6 bits (62), Expect = 1.5
Identities = 9/20 (45%), Positives = 11/20 (55%)
Query: 46 PGELLAVMGPSGCGKTTLLN 65
++ V GP CGKT LL
Sbjct: 19 TYPIIVVYGPRRCGKTALLR 38
>gnl|CDD|218528 pfam05272, VirE, Virulence-associated protein E. This family
contains several bacterial virulence-associated protein
E like proteins. These proteins contain a P-loop motif.
Length = 198
Score = 27.7 bits (62), Expect = 1.5
Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 4/34 (11%)
Query: 40 VSGVVKPG----ELLAVMGPSGCGKTTLLNCLAG 69
V+ V +PG +L + G G GK+T L L G
Sbjct: 41 VARVYEPGCKFDHVLILQGAQGSGKSTFLKKLGG 74
>gnl|CDD|237186 PRK12740, PRK12740, elongation factor G; Reviewed.
Length = 668
Score = 27.8 bits (63), Expect = 1.5
Identities = 8/12 (66%), Positives = 9/12 (75%)
Query: 53 MGPSGCGKTTLL 64
+G SG GKTTL
Sbjct: 1 VGHSGAGKTTLT 12
>gnl|CDD|225713 COG3172, NadR, Predicted ATPase/kinase involved in NAD metabolism
[Coenzyme metabolism].
Length = 187
Score = 27.4 bits (61), Expect = 1.5
Identities = 11/29 (37%), Positives = 18/29 (62%), Gaps = 2/29 (6%)
Query: 44 VKPG--ELLAVMGPSGCGKTTLLNCLAGR 70
V+P + +A++G GK+TL+N LA
Sbjct: 3 VRPFFVKTVAILGGESSGKSTLVNKLANI 31
>gnl|CDD|215649 pfam00004, AAA, ATPase family associated with various cellular
activities (AAA). AAA family proteins often perform
chaperone-like functions that assist in the assembly,
operation, or disassembly of protein complexes.
Length = 131
Score = 27.2 bits (61), Expect = 1.5
Identities = 10/28 (35%), Positives = 14/28 (50%), Gaps = 2/28 (7%)
Query: 54 GPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
GP G GKTTL +A + I ++
Sbjct: 5 GPPGTGKTTLAKAVAKELGAP--FIEIS 30
>gnl|CDD|176187 cd05284, arabinose_DH_like, D-arabinose dehydrogenase. This group
contains arabinose dehydrogenase (AraDH) and related
alcohol dehydrogenases. AraDH is a member of the medium
chain dehydrogenase/reductase family and catalyzes the
NAD(P)-dependent oxidation of D-arabinose and other
pentoses, the initial step in the metabolism of
d-arabinose into 2-oxoglutarate. Like the alcohol
dehydrogenases, AraDH binds a zinc in the catalytic
cleft as well as a distal structural zinc. AraDH forms
homotetramers as a dimer of dimers. AraDH replaces a
conserved catalytic His with replace with Arg, compared
to the canonical ADH site. NAD(P)(H)-dependent
oxidoreductases are the major enzymes in the
interconversion of alcohols and aldehydes, or ketones.
Alcohol dehydrogenase in the liver converts ethanol and
NAD+ to acetaldehyde and NADH, while in yeast and some
other microorganisms ADH catalyzes the conversion
acetaldehyde to ethanol in alcoholic fermentation. ADH
is a member of the medium chain alcohol dehydrogenase
family (MDR), which has a NAD(P)(H)-binding domain in a
Rossmann fold of a beta-alpha form. The NAD(H)-binding
region is comprised of 2 structurally similar halves,
each of which contacts a mononucleotide. A GxGxxG motif
after the first mononucleotide contact half allows the
close contact of the coenzyme with the ADH backbone.
The N-terminal catalytic domain has a distant homology
to GroES. These proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and have 2 tightly bound zinc atoms per
subunit, a catalytic zinc at the active site and a
structural zinc in a lobe of the catalytic domain.
NAD(H) binding occurs in the cleft between the catalytic
and coenzyme-binding domains at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding. In human ADH
catalysis, the zinc ion helps coordinate the alcohol,
followed by deprotonation of a histidine, the ribose of
NAD, a serine, then the alcohol, which allows the
transfer of a hydride to NAD+, creating NADH and a
zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 340
Score = 27.5 bits (62), Expect = 1.5
Identities = 12/32 (37%), Positives = 15/32 (46%), Gaps = 3/32 (9%)
Query: 39 DVSGVVKPGELLAVMGPSGCGKTTLLNCLAGR 70
V G+ K G+ + V P GCG T C G
Sbjct: 75 GVDGL-KEGDPVVVHPPWGCG--TCRYCRRGE 103
>gnl|CDD|131688 TIGR02640, gas_vesic_GvpN, gas vesicle protein GvpN. Members of
this family are the GvpN protein associated with the
production of gas vesicles produced in some prokaryotes
to give cells buoyancy. This family belongs to a larger
family of ATPases (pfam07728) [Cellular processes,
Other].
Length = 262
Score = 27.4 bits (61), Expect = 1.6
Identities = 15/38 (39%), Positives = 22/38 (57%), Gaps = 2/38 (5%)
Query: 44 VKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLN 81
+K G + + GP+G GKTTL +A K D V+ +N
Sbjct: 18 LKSGYPVHLRGPAGTGKTTLAMHVAR--KRDRPVMLIN 53
>gnl|CDD|217026 pfam02423, OCD_Mu_crystall, Ornithine cyclodeaminase/mu-crystallin
family. This family contains the bacterial Ornithine
cyclodeaminase enzyme EC:4.3.1.12, which catalyzes the
deamination of ornithine to proline. This family also
contains mu-Crystallin the major component of the eye
lens in several Australian marsupials, mRNA for this
protein has also been found in human retina.
Length = 313
Score = 27.7 bits (62), Expect = 1.6
Identities = 17/37 (45%), Positives = 19/37 (51%), Gaps = 3/37 (8%)
Query: 29 VTLDKR-PILKDVSGVVKPGELLAVMGPSGCGKTTLL 64
VT DK PILK VKPG + +G GKT L
Sbjct: 200 VTPDKEFPILKA--EWVKPGVHINAVGADCPGKTELD 234
>gnl|CDD|220695 pfam10328, 7TM_GPCR_Srx, Serpentine type 7TM GPCR chemoreceptor
Srx. Chemoreception is mediated in Caenorhabditis
elegans by members of the seven-transmembrane
G-protein-coupled receptor class (7TM GPCRs) of proteins
which are of the serpentine type. Srx is part of the Srg
superfamily of chemoreceptors. Chemoperception is one of
the central senses of soil nematodes like C. elegans
which are otherwise 'blind' and 'deaf'.
Length = 275
Score = 27.5 bits (62), Expect = 1.6
Identities = 12/47 (25%), Positives = 24/47 (51%), Gaps = 4/47 (8%)
Query: 61 TTLLNCL-AGRVKLDSGVIRLNKERLNKRWKRKICYVLQ---QDIFF 103
T ++N + +++ S L+ E KR K++I + Q QD+ +
Sbjct: 173 TNIINVITFIKLRKFSKKSSLSSEESKKRRKKEINFFKQTVIQDLLY 219
>gnl|CDD|215692 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 = 27.1 bits (61), Expect = 1.7
Identities = 7/16 (43%), Positives = 11/16 (68%)
Query: 50 LAVMGPSGCGKTTLLN 65
L ++G G GK++LL
Sbjct: 2 LVLVGDGGVGKSSLLI 17
>gnl|CDD|206743 cd11383, YfjP, YfjP GTPase. The Era (E. coli Ras-like
protein)-like YfjP subfamily includes several
uncharacterized bacterial GTPases that are similar to
Era. They 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. Era is
characterized by a distinct derivative of the KH domain
(the pseudo-KH domain) which is located C-terminal to
the GTPase domain.
Length = 140
Score = 27.3 bits (61), Expect = 1.7
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 51 AVMGPSGCGKTTLLNCLAG 69
+MG +G GK++L N L G
Sbjct: 1 GLMGKTGAGKSSLCNALFG 19
>gnl|CDD|223645 COG0572, Udk, Uridine kinase [Nucleotide transport and
metabolism].
Length = 218
Score = 27.2 bits (61), Expect = 1.7
Identities = 9/30 (30%), Positives = 19/30 (63%)
Query: 49 LLAVMGPSGCGKTTLLNCLAGRVKLDSGVI 78
++ + G SG GKTT+ L+ ++ ++ V+
Sbjct: 10 IIGIAGGSGSGKTTVAKELSEQLGVEKVVV 39
>gnl|CDD|129705 TIGR00618, sbcc, exonuclease SbcC. All proteins in this family
for which functions are known are part of an
exonuclease complex with sbcD homologs. This complex is
involved in the initiation of recombination to regulate
the levels of palindromic sequences in DNA. This family
is based on the phylogenomic analysis of JA Eisen
(1999, Ph.D. Thesis, Stanford University) [DNA
metabolism, DNA replication, recombination, and
repair].
Length = 1042
Score = 27.6 bits (61), Expect = 1.7
Identities = 19/69 (27%), Positives = 27/69 (39%), Gaps = 13/69 (18%)
Query: 18 RPLELVFSGLSVTLDKRPILKDVSGV--VKPGELLAVMGPSGCGKTTLLN--CLA--GRV 71
+PL L K + G + + G +G GKTTLL+ A G++
Sbjct: 2 KPLRLTLKNFGS-------YKGTHTIDFTALGPIFLICGKTGAGKTTLLDAITYALYGKL 54
Query: 72 KLDSGVIRL 80
S VIR
Sbjct: 55 PRRSEVIRS 63
>gnl|CDD|226372 COG3854, SpoIIIAA, ncharacterized protein conserved in bacteria
[Function unknown].
Length = 308
Score = 27.5 bits (61), Expect = 1.8
Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 2/34 (5%)
Query: 35 PILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLA 68
P++KD+ L+ +GP GKTTLL +A
Sbjct: 127 PLIKDLYQNGWLNTLI--IGPPQVGKTTLLRDIA 158
>gnl|CDD|178596 PLN03025, PLN03025, replication factor C subunit; Provisional.
Length = 319
Score = 27.4 bits (61), Expect = 1.9
Identities = 9/15 (60%), Positives = 10/15 (66%)
Query: 54 GPSGCGKTTLLNCLA 68
GP G GKTT + LA
Sbjct: 41 GPPGTGKTTSILALA 55
>gnl|CDD|238687 cd01393, recA_like, RecA is a bacterial enzyme which has roles
in homologous recombination, DNA repair, and the
induction of the SOS response. RecA couples ATP
hydrolysis to DNA strand exchange. While prokaryotes
have a single RecA protein, eukaryotes have multiple
RecA homologs such as Rad51, DMC1 and Rad55/57.
Archaea have the RecA-like homologs radA and radB.
Length = 226
Score = 27.2 bits (61), Expect = 1.9
Identities = 8/15 (53%), Positives = 8/15 (53%)
Query: 54 GPSGCGKTTLLNCLA 68
G G GKT L LA
Sbjct: 26 GEFGSGKTQLCLQLA 40
>gnl|CDD|215920 pfam00437, T2SE, 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 = 273
Score = 27.2 bits (61), Expect = 1.9
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 52 VMGPSGCGKTTLLNCLAGRV 71
V G +G GKTTLL L +
Sbjct: 134 VSGGTGSGKTTLLYALLNEI 153
>gnl|CDD|217025 pfam02421, FeoB_N, Ferrous iron transport protein B. Escherichia
coli has an iron(II) transport system (feo) which may
make an important contribution to the iron supply of
the cell under anaerobic conditions. FeoB has been
identified as part of this transport system. FeoB is a
large 700-800 amino acid integral membrane protein. The
N terminus contains a P-loop motif suggesting that iron
transport may be ATP dependent.
Length = 190
Score = 27.1 bits (61), Expect = 1.9
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 51 AVMGPSGCGKTTLLNCLAG 69
A++G GKTTL N L G
Sbjct: 4 ALVGNPNVGKTTLFNALTG 22
>gnl|CDD|213207 cd03240, ABC_Rad50, ATP-binding cassette domain of 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 = 27.2 bits (61), Expect = 2.0
Identities = 7/14 (50%), Positives = 10/14 (71%)
Query: 54 GPSGCGKTTLLNCL 67
G +G GKTT++ L
Sbjct: 29 GQNGAGKTTIIEAL 42
>gnl|CDD|234579 PRK00023, cmk, cytidylate kinase; Provisional.
Length = 225
Score = 27.0 bits (61), Expect = 2.0
Identities = 12/31 (38%), Positives = 19/31 (61%), Gaps = 3/31 (9%)
Query: 51 AVMGPSGCGKTTLLNCLAGRVK---LDSGVI 78
A+ GP+G GK T+ LA ++ LD+G +
Sbjct: 8 AIDGPAGSGKGTVAKILAKKLGFHYLDTGAM 38
>gnl|CDD|227171 COG4834, COG4834, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 334
Score = 27.2 bits (60), Expect = 2.0
Identities = 15/47 (31%), Positives = 19/47 (40%), Gaps = 5/47 (10%)
Query: 66 CLAGRVKLDSGVIRLNKERLNKRWKRKICYVLQQDIFFPELTLRQTL 112
L GRV L R + K + YVLQ +I E L T+
Sbjct: 221 LLPGRVMNY-----LVSTRSDNSDKTILHYVLQNNIAKAERGLDLTV 262
>gnl|CDD|235422 PRK05342, clpX, ATP-dependent protease ATP-binding subunit ClpX;
Provisional.
Length = 412
Score = 27.4 bits (62), Expect = 2.1
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 53 MGPSGCGKTTLLNCLA 68
+GP+G GKT L LA
Sbjct: 114 IGPTGSGKTLLAQTLA 129
>gnl|CDD|237354 PRK13341, PRK13341, recombination factor protein RarA/unknown
domain fusion protein; Reviewed.
Length = 725
Score = 27.3 bits (61), Expect = 2.1
Identities = 26/74 (35%), Positives = 30/74 (40%), Gaps = 24/74 (32%)
Query: 54 GPSGCGKTTL--------------LNC-LAGRVKLDSGVIRLNKERLNKRWKRKICYV-- 96
GP G GKTTL LN LAG VK + KERL + KR I ++
Sbjct: 59 GPPGVGKTTLARIIANHTRAHFSSLNAVLAG-VKDLRAEVDRAKERLERHGKRTILFIDE 117
Query: 97 ------LQQDIFFP 104
QQD P
Sbjct: 118 VHRFNKAQQDALLP 131
>gnl|CDD|233448 TIGR01526, nadR_NMN_Atrans, nicotinamide-nucleotide
adenylyltransferase, NadR type. The NadR protein of E.
coli and closely related bacteria is both enzyme and
regulatory protein. The first 60 or so amino acids,
N-terminal to the region covered by this model, is a
DNA-binding helix-turn-helix domain (pfam01381)
responsible for repressing the nadAB genes of NAD de
novo biosynthesis. The NadR homologs in Mycobacterium
tuberculosis, Haemophilus influenzae, and others appear
to lack the repressor domain. NadR has recently been
shown to act as an enzyme of the salvage pathway of NAD
biosynthesis, nicotinamide-nucleotide
adenylyltransferase; members of this family are presumed
to share this activity. E. coli NadR has also been found
to regulate the import of its substrate, nicotinamide
ribonucleotide, but it is not known if the other members
of this model share that activity.
Length = 325
Score = 27.1 bits (60), Expect = 2.1
Identities = 11/28 (39%), Positives = 18/28 (64%), Gaps = 2/28 (7%)
Query: 43 VVKP--GELLAVMGPSGCGKTTLLNCLA 68
V+P + +A++G GK+TL+N LA
Sbjct: 156 EVRPFFVKTVAILGGESTGKSTLVNKLA 183
>gnl|CDD|172418 PRK13898, PRK13898, type IV secretion system ATPase VirB4;
Provisional.
Length = 800
Score = 27.4 bits (61), Expect = 2.1
Identities = 9/17 (52%), Positives = 13/17 (76%)
Query: 51 AVMGPSGCGKTTLLNCL 67
++GP+G GKT L+N L
Sbjct: 450 LIIGPTGAGKTVLMNFL 466
>gnl|CDD|234401 TIGR03925, T7SS_EccC_b, type VII secretion protein EccCb. This
model represents the C-terminal domain or EccCb subunit
of the type VII secretion protein EccC as found in the
Actinobacteria. Type VII secretion is defined more
broadly as including secretion systems for ESAT-6-like
proteins in the Firmicutes as well as in the
Actinobacteria, but this family does not show close
homologs in the Firmicutes [Protein fate, Protein and
peptide secretion and trafficking].
Length = 566
Score = 27.2 bits (61), Expect = 2.1
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 50 LAVMGPSGCGKTTLLNCLAGRV 71
L V G S GKTTLL +A +
Sbjct: 366 LLVFGDSESGKTTLLRAIARGI 387
>gnl|CDD|206646 cd00880, Era_like, E. coli Ras-like protein (Era)-like GTPase.
The Era (E. coli Ras-like protein)-like family includes
several distinct subfamilies (TrmE/ThdF, FeoB, YihA
(EngB), 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 = 161
Score = 26.8 bits (60), Expect = 2.1
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 51 AVMGPSGCGKTTLLNCLAGR 70
A+ G GK++LLN L G+
Sbjct: 1 AIFGRPNVGKSSLLNALLGQ 20
>gnl|CDD|236982 PRK11784, PRK11784, tRNA 2-selenouridine synthase; Provisional.
Length = 345
Score = 27.1 bits (61), Expect = 2.2
Identities = 10/28 (35%), Positives = 13/28 (46%)
Query: 43 VVKPGELLAVMGPSGCGKTTLLNCLAGR 70
L+ + G +G GKT LL LA
Sbjct: 137 APAQFPLVVLGGNTGSGKTELLQALANA 164
>gnl|CDD|213210 cd03243, ABC_MutS_homologs, ATP-binding cassette domain of MutS
homologs. 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 also possess 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 = 202
Score = 27.2 bits (61), Expect = 2.2
Identities = 12/38 (31%), Positives = 21/38 (55%), Gaps = 2/38 (5%)
Query: 27 LSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLL 64
L++T + + D+ + G LL + GP+ GK+T L
Sbjct: 11 LALTKGETFVPNDI--NLGSGRLLLITGPNMGGKSTYL 46
>gnl|CDD|206691 cd04105, SR_beta, Signal recognition particle receptor, beta
subunit (SR-beta), together with SR-alpha, forms the
heterodimeric signal recognition particle (SRP).
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 = 202
Score = 26.9 bits (60), Expect = 2.3
Identities = 8/14 (57%), Positives = 8/14 (57%)
Query: 54 GPSGCGKTTLLNCL 67
GPS GKT L L
Sbjct: 7 GPSDSGKTALFTKL 20
>gnl|CDD|235221 PRK04123, PRK04123, ribulokinase; Provisional.
Length = 548
Score = 27.1 bits (61), Expect = 2.3
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 44 VKPGELLAVMGPSGC 58
+PG L+ VMG S C
Sbjct: 284 AEPGTLVKVMGTSTC 298
>gnl|CDD|215874 pfam00350, Dynamin_N, Dynamin family.
Length = 168
Score = 26.8 bits (60), Expect = 2.4
Identities = 22/73 (30%), Positives = 32/73 (43%), Gaps = 9/73 (12%)
Query: 50 LAVMGPSGCGKTTLLNCLAGRVKLDSG---------VIRLNKERLNKRWKRKICYVLQQD 100
+AV+G GK+++LN L GR L G V+RL +E K+ Y
Sbjct: 1 IAVVGDQSAGKSSVLNALLGRDILPRGPGPTTRRPLVLRLGEEPGAIPGAVKVEYKDGLK 60
Query: 101 IFFPELTLRQTLE 113
F LR+ +E
Sbjct: 61 KFEDFSELREEIE 73
>gnl|CDD|172759 PRK14271, PRK14271, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 276
Score = 27.0 bits (59), Expect = 2.4
Identities = 14/41 (34%), Positives = 22/41 (53%)
Query: 27 LSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCL 67
L++ + +L VS + ++MGP+G GKTT L L
Sbjct: 27 LTLGFAGKTVLDQVSMGFPARAVTSLMGPTGSGKTTFLRTL 67
>gnl|CDD|206690 cd04104, p47_IIGP_like, p47 GTPase family includes IGTP,
TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. The p47
GTPase family consists of several highly homologous
proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI,
LRG-47, and IIGP1. They are found in higher eukaryotes
where they play a role in immune resistance against
intracellular pathogens. p47 proteins exist at low
resting levels in mouse cells, but are strongly induced
by Type II interferon (IFN-gamma). ITGP is critical for
resistance to Toxoplasma gondii infection and in
involved in inhibition of Coxsackievirus-B3-induced
apoptosis. TGTP was shown to limit vesicular stomatitis
virus (VSV) infection of fibroblasts in vitro. IRG-47
is involved in resistance to T. gondii infection.
LRG-47 has been implicated in resistance to T. gondii,
Listeria monocytogenes, Leishmania, and mycobacterial
infections. IIGP1 has been shown to localize to the ER
and to the Golgi membranes in IFN-induced cells and
inflamed tissues. In macrophages, IIGP1 interacts with
hook3, a microtubule binding protein that participates
in the organization of the cis-Golgi compartment.
Length = 197
Score = 26.9 bits (60), Expect = 2.4
Identities = 13/41 (31%), Positives = 22/41 (53%), Gaps = 7/41 (17%)
Query: 50 LAVMGPSGCGKTTLLNCLAGRVKLD------SGVIRLNKER 84
+AV G SG GK++ +N L G + + +GV+ +R
Sbjct: 4 IAVTGESGAGKSSFINALRG-IGHEEEGAAPTGVVETTMKR 43
>gnl|CDD|225398 COG2842, COG2842, Uncharacterized ATPase, putative transposase
[General function prediction only].
Length = 297
Score = 27.0 bits (60), Expect = 2.5
Identities = 11/33 (33%), Positives = 13/33 (39%)
Query: 33 KRPILKDVSGVVKPGELLAVMGPSGCGKTTLLN 65
R I K G L+ V G +G GKT
Sbjct: 80 VRRIFFRTRPASKTGSLVVVYGYAGLGKTQAAK 112
>gnl|CDD|223603 COG0529, CysC, Adenylylsulfate kinase and related kinases
[Inorganic ion transport and metabolism].
Length = 197
Score = 26.9 bits (60), Expect = 2.5
Identities = 22/70 (31%), Positives = 31/70 (44%), Gaps = 15/70 (21%)
Query: 23 VFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVK--------LD 74
V+ SVT +R LK G V + G SG GK+T+ N L ++ LD
Sbjct: 4 VWHPHSVTKQEREALKGQKGAV-----IWFTGLSGSGKSTIANALEEKLFAKGYHVYLLD 58
Query: 75 SGVIR--LNK 82
+R LN+
Sbjct: 59 GDNVRHGLNR 68
>gnl|CDD|239390 cd03116, MobB, Molybdenum is an essential trace element in the
form of molybdenum cofactor (Moco) which is associated
with the metabolism of nitrogen, carbon and sulfur by
redox active enzymes. In E. coli, the synthesis of Moco
involves genes from several loci: moa, mob, mod, moe
and mog. The mob locus contains mobA and mobB genes.
MobB catalyzes the attachment of the guanine
dinucleotide to molybdopterin.
Length = 159
Score = 26.8 bits (60), Expect = 2.6
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 49 LLAVMGPSGCGKTTLL 64
++ +G SG GKTTLL
Sbjct: 3 VIGFVGYSGSGKTTLL 18
>gnl|CDD|218719 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 = 26.5 bits (59), Expect = 2.8
Identities = 8/16 (50%), Positives = 11/16 (68%)
Query: 49 LLAVMGPSGCGKTTLL 64
+ + G +G GKTTLL
Sbjct: 2 TVILQGEAGSGKTTLL 17
>gnl|CDD|223203 COG0125, Tmk, Thymidylate kinase [Nucleotide transport and
metabolism].
Length = 208
Score = 26.9 bits (60), Expect = 2.8
Identities = 9/26 (34%), Positives = 13/26 (50%)
Query: 47 GELLAVMGPSGCGKTTLLNCLAGRVK 72
G + + G G GKTT L R++
Sbjct: 3 GMFIVIEGIDGAGKTTQAELLKERLE 28
>gnl|CDD|223256 COG0178, UvrA, Excinuclease ATPase subunit [DNA replication,
recombination, and repair].
Length = 935
Score = 27.2 bits (61), Expect = 2.8
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLN 65
LK++ + G V G SG GK+TL+N
Sbjct: 617 LKNIDVEIPLGVFTCVTGVSGSGKSTLIN 645
>gnl|CDD|234626 PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosphate
transferase; Reviewed.
Length = 307
Score = 26.6 bits (60), Expect = 2.9
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 49 LLAVMGPSGCGKTTLLNCLAGR 70
++ ++GP+ GKT L LA R
Sbjct: 6 VIVIVGPTASGKTALAIELAKR 27
>gnl|CDD|111185 pfam02263, GBP, Guanylate-binding protein, N-terminal domain.
Transcription of the anti-viral guanylate-binding
protein (GBP) is induced by interferon-gamma during
macrophage induction. This family contains GBP1 and
GPB2, both GTPases capable of binding GTP, GDP and GMP.
Length = 264
Score = 26.6 bits (59), Expect = 3.0
Identities = 15/46 (32%), Positives = 27/46 (58%), Gaps = 3/46 (6%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVK---LDSGVIR 79
L+ +S + +P ++A++G GK+ L+N LAG++ L S V
Sbjct: 11 LEILSAITQPVVVVAIVGLYRTGKSYLMNFLAGKLTGFSLGSTVES 56
>gnl|CDD|217066 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 = 178
Score = 26.4 bits (59), Expect = 3.1
Identities = 8/14 (57%), Positives = 9/14 (64%)
Query: 52 VMGPSGCGKTTLLN 65
+ G G GKTTLL
Sbjct: 5 LTGFLGSGKTTLLE 18
>gnl|CDD|223455 COG0378, HypB, Ni2+-binding GTPase involved in regulation of
expression and maturation of urease and hydrogenase
[Posttranslational modification, protein turnover,
chaperones / Transcription].
Length = 202
Score = 26.4 bits (59), Expect = 3.3
Identities = 12/36 (33%), Positives = 17/36 (47%), Gaps = 2/36 (5%)
Query: 45 KPGELLAVMGPSGCGKTTLLN--CLAGRVKLDSGVI 78
+P + V GP G GKT L+ A + + VI
Sbjct: 11 RPMLRIGVGGPPGSGKTALIEKTLRALKDEYKIAVI 46
>gnl|CDD|215651 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 = 26.7 bits (60), Expect = 3.3
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 50 LAVMGPSGCGKTTLL 64
+ + G SG GKT LL
Sbjct: 18 IGIFGGSGTGKTVLL 32
>gnl|CDD|236166 PRK08149, PRK08149, ATP synthase SpaL; Validated.
Length = 428
Score = 26.9 bits (60), Expect = 3.4
Identities = 15/38 (39%), Positives = 22/38 (57%)
Query: 47 GELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKER 84
G+ + + +GCGKT+L+N L + D VI L ER
Sbjct: 151 GQRMGIFASAGCGKTSLMNMLIEHSEADVFVIGLIGER 188
>gnl|CDD|221955 pfam13173, AAA_14, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily.
Length = 127
Score = 26.0 bits (58), Expect = 3.5
Identities = 9/42 (21%), Positives = 20/42 (47%), Gaps = 1/42 (2%)
Query: 47 GELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKR 88
+++ + GP GKTTLL + ++ ++ +N +
Sbjct: 2 NKIIVITGPRQVGKTTLLLQFLKELLSEN-ILYINLDDPRFL 42
>gnl|CDD|237358 PRK13351, PRK13351, elongation factor G; Reviewed.
Length = 687
Score = 26.8 bits (60), Expect = 3.5
Identities = 5/15 (33%), Positives = 8/15 (53%)
Query: 50 LAVMGPSGCGKTTLL 64
+ ++ GKTTL
Sbjct: 11 IGILAHIDAGKTTLT 25
>gnl|CDD|110677 pfam01695, IstB_IS21, 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 = 26.5 bits (59), Expect = 3.5
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 30 TLDKRPILKDVSGV-VKPGELLAVMGPSGCGKTTL 63
LD+R I + ++ E L ++GP G GKT L
Sbjct: 29 GLDRRLIAELAGLDWIEQAENLLLLGPPGVGKTHL 63
>gnl|CDD|185464 PTZ00128, PTZ00128, cytochrome c oxidase assembly protein-like;
Provisional.
Length = 232
Score = 26.6 bits (59), Expect = 3.6
Identities = 12/43 (27%), Positives = 22/43 (51%), Gaps = 5/43 (11%)
Query: 9 PPEKYPLSHRPLELVFSGLS---VTLDKRPILKDVSGVVKPGE 48
+KYP+ R +++ F + + + P+ K+V V PGE
Sbjct: 98 MKKKYPVPKRLIKIRFLADTGSTMPWEFEPLQKEV--EVLPGE 138
>gnl|CDD|233406 TIGR01420, pilT_fam, pilus retraction protein PilT. This model
represents the PilT subfamily of proteins related to
GspE, a protein involved in type II secretion (also
called the General Secretion Pathway). PilT is an
apparent cytosolic ATPase associated with type IV pilus
systems. It is not required for pilin biogenesis, but is
required for twitching motility and social gliding
behaviors, shown in some species, powered by pilus
retraction. Members of this family may be found in some
species that type IV pili but have related structures
for DNA uptake and natural transformation [Cell
envelope, Surface structures, Cellular processes,
Chemotaxis and motility].
Length = 343
Score = 26.5 bits (59), Expect = 3.7
Identities = 12/30 (40%), Positives = 21/30 (70%), Gaps = 2/30 (6%)
Query: 35 PILKDVSGVVKPGELLAVMGPSGCGKTTLL 64
P+L++++ +P L+ V GP+G GK+T L
Sbjct: 112 PVLRELA--ERPRGLILVTGPTGSGKSTTL 139
>gnl|CDD|237524 PRK13826, PRK13826, Dtr system oriT relaxase; Provisional.
Length = 1102
Score = 26.7 bits (59), Expect = 3.7
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 43 VVKPGELLAVMGPSGCGKTTLL 64
V P + AV+G +G GKTT++
Sbjct: 393 VAGPARIAAVVGRAGAGKTTMM 414
>gnl|CDD|206667 cd01879, FeoB, Ferrous iron transport protein B (FeoB) family.
Ferrous iron transport protein B (FeoB) subfamily. E.
coli has an iron(II) transport system, known as feo,
which may make an important contribution to the iron
supply of the cell under anaerobic conditions. FeoB has
been identified as part of this transport system. FeoB
is a large 700-800 amino acid integral membrane
protein. The N terminus contains a P-loop motif
suggesting that iron transport may be ATP dependent.
Length = 159
Score = 26.3 bits (59), Expect = 3.7
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 51 AVMGPSGCGKTTLLNCLAG 69
A++G GKTTL N L G
Sbjct: 1 ALVGNPNVGKTTLFNALTG 19
>gnl|CDD|237536 PRK13873, PRK13873, conjugal transfer ATPase TrbE; Provisional.
Length = 811
Score = 26.8 bits (60), Expect = 3.7
Identities = 9/17 (52%), Positives = 13/17 (76%)
Query: 52 VMGPSGCGKTTLLNCLA 68
V+GP+G GK+ LL +A
Sbjct: 446 VVGPTGAGKSVLLALMA 462
>gnl|CDD|224677 COG1763, MobB, Molybdopterin-guanine dinucleotide biosynthesis
protein [Coenzyme metabolism].
Length = 161
Score = 26.1 bits (58), Expect = 3.8
Identities = 7/16 (43%), Positives = 11/16 (68%)
Query: 49 LLAVMGPSGCGKTTLL 64
+L ++G GKTTL+
Sbjct: 4 ILGIVGYKNSGKTTLI 19
>gnl|CDD|206704 cd04132, Rho4_like, Ras homology family 4 (Rho4) of small
guanosine triphosphatases (GTPases)-like. Rho4 is a
GTPase that controls septum degradation by regulating
secretion of Eng1 or Agn1 during cytokinesis. Rho4 also
plays a role in cell morphogenesis. Rho4 regulates
septation and cell morphology by controlling the actin
cytoskeleton and cytoplasmic microtubules. The
localization of Rho4 is modulated by Rdi1, which may
function as a GDI, and by Rga9, which is believed to
function as a GAP. In S. pombe, both Rho4 deletion and
Rho4 overexpression result in a defective cell wall,
suggesting a role for Rho4 in maintaining cell wall
integrity. 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.
Length = 197
Score = 26.1 bits (58), Expect = 4.1
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 50 LAVMGPSGCGKTTLLN 65
+ V+G GCGKT LL
Sbjct: 6 IVVVGDGGCGKTCLLM 21
>gnl|CDD|233914 TIGR02538, type_IV_pilB, type IV-A pilus assembly ATPase PilB.
This model describes a protein of type IV pilus
biogenesis designated PilB in Pseudomonas aeruginosa but
PilF in Neisseria gonorrhoeae; the more common usage,
reflected here, is PilB. This protein is an ATPase
involved in protein export for pilin assembly and is
closely related to GspE (TIGR02533) of type II
secretion, also called the main terminal branch of the
general secretion pathway. Note that type IV pilus
systems are often divided into type IV-A and IV-B, with
the latter group including bundle-forming pilus,
mannose-sensitive hemagglutinin, etc. Members of this
family are found in type IV-A systems [Cell envelope,
Surface structures, Protein fate, Protein and peptide
secretion and trafficking].
Length = 564
Score = 26.5 bits (59), Expect = 4.1
Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 9/42 (21%)
Query: 45 KPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLN 86
KP ++ V GP+G GKT V L + + LN E +N
Sbjct: 314 KPQGMVLVTGPTGSGKT---------VSLYTALNILNTEEVN 346
>gnl|CDD|236750 PRK10751, PRK10751, molybdopterin-guanine dinucleotide
biosynthesis protein B; Provisional.
Length = 173
Score = 26.2 bits (58), Expect = 4.2
Identities = 11/16 (68%), Positives = 12/16 (75%)
Query: 49 LLAVMGPSGCGKTTLL 64
LLA+ SG GKTTLL
Sbjct: 8 LLAIAAWSGTGKTTLL 23
>gnl|CDD|226459 COG3950, COG3950, Predicted ATP-binding protein involved in
virulence [General function prediction only].
Length = 440
Score = 26.4 bits (58), Expect = 4.3
Identities = 15/47 (31%), Positives = 20/47 (42%), Gaps = 7/47 (14%)
Query: 46 PGELLAVMGPSGCGKTTLL----NCLAGRVKLDSGVIRLNKERLNKR 88
E ++GP+G GKTT+L N L K I L + L
Sbjct: 23 ESETTIIVGPNGSGKTTVLDAIRNALN---KFIDFFIYLRFKSLKIE 66
>gnl|CDD|235256 PRK04210, PRK04210, phosphoenolpyruvate carboxykinase; Provisional.
Length = 601
Score = 26.3 bits (59), Expect = 4.4
Identities = 7/9 (77%), Positives = 7/9 (77%)
Query: 55 PSGCGKTTL 63
PS CGKT L
Sbjct: 264 PSACGKTNL 272
>gnl|CDD|182670 PRK10715, flk, flagella biosynthesis regulator; Provisional.
Length = 335
Score = 26.2 bits (58), Expect = 4.4
Identities = 10/27 (37%), Positives = 12/27 (44%)
Query: 5 IPSLPPEKYPLSHRPLELVFSGLSVTL 31
I LP PL+ RP L + V L
Sbjct: 302 IAPLPDTLQPLAARPGLLALVLVIVIL 328
>gnl|CDD|218401 pfam05049, IIGP, Interferon-inducible GTPase (IIGP).
Interferon-inducible GTPase (IIGP) is thought to play a
role in in intracellular defence. IIGP is predominantly
associated with the Golgi apparatus and also localises
to the endoplasmic reticulum and exerts a distinct role
in IFN-induced intracellular membrane trafficking or
processing.
Length = 375
Score = 26.3 bits (58), Expect = 4.5
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 5/40 (12%)
Query: 50 LAVMGPSGCGKTTLLNCLAG-----RVKLDSGVIRLNKER 84
+AV G SG GK++ +N L G +GV+ +R
Sbjct: 38 IAVTGDSGNGKSSFINALRGIGHEEDGSAPTGVVETTMKR 77
>gnl|CDD|223447 COG0370, FeoB, Fe2+ transport system protein B [Inorganic ion
transport and metabolism].
Length = 653
Score = 26.5 bits (59), Expect = 4.5
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 50 LAVMGPSGCGKTTLLNCLAG 69
+A++G GKTTL N L G
Sbjct: 6 VALVGNPNVGKTTLFNALTG 25
>gnl|CDD|227352 COG5019, CDC3, Septin family protein [Cell division and
chromosome partitioning / Cytoskeleton].
Length = 373
Score = 26.1 bits (58), Expect = 4.6
Identities = 11/19 (57%), Positives = 13/19 (68%)
Query: 52 VMGPSGCGKTTLLNCLAGR 70
V+G SG GKTT +N L G
Sbjct: 28 VVGESGLGKTTFINTLFGT 46
>gnl|CDD|233237 TIGR01026, fliI_yscN, ATPase FliI/YscN family. This family of
ATPases demonstrates extensive homology with ATP
synthase F1, beta subunit. It is a mixture of members
with two different protein functions. The first group is
exemplified by Salmonella typhimurium FliI protein. It
is needed for flagellar assembly, its ATPase activity is
required for flagellation, and it may be involved in a
specialized protein export pathway that proceeds without
signal peptide cleavage. The second group of proteins
function in the export of virulence proteins;
exemplified by Yersinia sp. YscN protein an ATPase
involved in the type III secretory pathway for the
antihost Yops proteins [Energy metabolism, ATP-proton
motive force interconversion].
Length = 440
Score = 26.2 bits (58), Expect = 4.8
Identities = 18/62 (29%), Positives = 29/62 (46%), Gaps = 10/62 (16%)
Query: 33 KRPILKDVSGV-VKP---------GELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNK 82
KR ++++ V+ G+ + + SG GK+TLL +A + D VI L
Sbjct: 139 KRAPIREILSTGVRSIDGLLTVGKGQRIGIFAGSGVGKSTLLGMIARNTEADVNVIALIG 198
Query: 83 ER 84
ER
Sbjct: 199 ER 200
>gnl|CDD|225364 COG2805, PilT, Tfp pilus assembly protein, pilus retraction ATPase
PilT [Cell motility and secretion / Intracellular
trafficking and secretion].
Length = 353
Score = 26.1 bits (58), Expect = 4.8
Identities = 12/30 (40%), Positives = 20/30 (66%), Gaps = 2/30 (6%)
Query: 35 PILKDVSGVVKPGELLAVMGPSGCGKTTLL 64
PI+++++ P L+ V GP+G GK+T L
Sbjct: 115 PIVRELAE--SPRGLILVTGPTGSGKSTTL 142
>gnl|CDD|236570 PRK09563, rbgA, GTPase YlqF; Reviewed.
Length = 287
Score = 26.3 bits (59), Expect = 4.9
Identities = 14/42 (33%), Positives = 21/42 (50%), Gaps = 10/42 (23%)
Query: 52 VMGPSGCGKTTLLNCLAGRVKLDS----GV------IRLNKE 83
++G GK+TL+N LAG+ + GV I+L K
Sbjct: 126 IIGIPNVGKSTLINRLAGKKIAKTGNRPGVTKAQQWIKLGKG 167
>gnl|CDD|178008 PLN02382, PLN02382, probable sucrose-phosphatase.
Length = 413
Score = 26.1 bits (58), Expect = 4.9
Identities = 13/26 (50%), Positives = 18/26 (69%), Gaps = 2/26 (7%)
Query: 83 ERLNKRWKRKICYVLQQDIFFPELTL 108
E LNK+W R+I V+++ FPEL L
Sbjct: 96 EYLNKKWDREI--VVEETSKFPELKL 119
>gnl|CDD|234770 PRK00454, engB, GTP-binding protein YsxC; Reviewed.
Length = 196
Score = 25.8 bits (58), Expect = 4.9
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 51 AVMGPSGCGKTTLLNCLAGRVKL 73
A G S GK++L+N L R L
Sbjct: 28 AFAGRSNVGKSSLINALTNRKNL 50
>gnl|CDD|178207 PLN02597, PLN02597, phosphoenolpyruvate carboxykinase [ATP].
Length = 555
Score = 26.3 bits (58), Expect = 4.9
Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 2/43 (4%)
Query: 23 VFSGLSVTLDKRPILKDVSG--VVKPGELLAVMGPSGCGKTTL 63
+FS + + R IL SG + K G++ G SG GKTTL
Sbjct: 220 LFSLMHYLMPMRGILSLHSGCNMGKDGDVALFFGLSGTGKTTL 262
>gnl|CDD|235450 PRK05416, PRK05416, glmZ(sRNA)-inactivating NTPase; Provisional.
Length = 288
Score = 26.2 bits (59), Expect = 5.0
Identities = 9/20 (45%), Positives = 11/20 (55%)
Query: 48 ELLAVMGPSGCGKTTLLNCL 67
L+ V G SG GK+ L L
Sbjct: 7 RLVIVTGLSGAGKSVALRAL 26
>gnl|CDD|213237 cd03270, ABC_UvrA_I, ATP-binding cassette domain I of 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 = 226
Score = 26.1 bits (58), Expect = 5.2
Identities = 10/27 (37%), Positives = 17/27 (62%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTL 63
LK+V + +L+ + G SG GK++L
Sbjct: 11 LKNVDVDIPRNKLVVITGVSGSGKSSL 37
>gnl|CDD|201257 pfam00485, PRK, Phosphoribulokinase / Uridine kinase family. In
Arabidopsis the region carries two binding domains, a
phosphoribosylpyrophosphate-binding domain and, at the
very C-terminus, a uracil-binding domain.
Length = 197
Score = 25.8 bits (57), Expect = 5.2
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 49 LLAVMGPSGCGKTT 62
++ V G SG GKTT
Sbjct: 1 IIGVTGSSGAGKTT 14
>gnl|CDD|236406 PRK09197, PRK09197, fructose-bisphosphate aldolase; Provisional.
Length = 350
Score = 25.9 bits (58), Expect = 5.3
Identities = 14/36 (38%), Positives = 21/36 (58%), Gaps = 2/36 (5%)
Query: 11 EKYPLSHRPLELVFSGLSVTLDKRPILKDVS-GVVK 45
+K+ L +P + VF G S + + I + VS GVVK
Sbjct: 241 KKFGLPAKPFDFVFHGGSGSTLEE-IREAVSYGVVK 275
>gnl|CDD|223543 COG0467, RAD55, RecA-superfamily ATPases implicated in signal
transduction [Signal transduction mechanisms].
Length = 260
Score = 25.9 bits (57), Expect = 5.4
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 42 GVVKPGELLAVMGPSGCGKTTLL 64
G + G ++ + GP G GKT
Sbjct: 18 GGLPRGSVVLITGPPGTGKTIFA 40
>gnl|CDD|130301 TIGR01234, L-ribulokinase, L-ribulokinase. This enzyme catalyzes
the second step in arabinose catabolism. The most
closely related protein subfamily outside the scope of
this model includes ribitol kinase from E. coli [Energy
metabolism, Sugars].
Length = 536
Score = 26.0 bits (57), Expect = 5.6
Identities = 8/18 (44%), Positives = 13/18 (72%)
Query: 41 SGVVKPGELLAVMGPSGC 58
+G+ +PG L+ +MG S C
Sbjct: 278 AGIAQPGALVKIMGTSTC 295
>gnl|CDD|213835 TIGR03598, GTPase_YsxC, ribosome biogenesis GTP-binding protein
YsxC/EngB. Members of this protein family are a GTPase
associated with ribosome biogenesis, typified by YsxC
from Bacillus subutilis. The family is widely but not
universally distributed among bacteria. Members
commonly are called EngB based on homology to EngA, one
of several other GTPases of ribosome biogenesis.
Cutoffs as set find essentially all bacterial members,
but also identify large numbers of eukaryotic (probably
organellar) sequences. This protein is found in about
80 percent of bacterial genomes [Protein synthesis,
Other].
Length = 178
Score = 25.9 bits (58), Expect = 5.6
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 51 AVMGPSGCGKTTLLNCLAGRVKL 73
A G S GK++L+N L R KL
Sbjct: 22 AFAGRSNVGKSSLINALTNRKKL 44
>gnl|CDD|226426 COG3911, COG3911, Predicted ATPase [General function prediction
only].
Length = 183
Score = 26.0 bits (57), Expect = 5.6
Identities = 10/17 (58%), Positives = 10/17 (58%)
Query: 54 GPSGCGKTTLLNCLAGR 70
G G GKTTLL LA
Sbjct: 16 GGPGAGKTTLLAALARA 32
>gnl|CDD|236442 PRK09270, PRK09270, nucleoside triphosphate hydrolase
domain-containing protein; Reviewed.
Length = 229
Score = 26.0 bits (58), Expect = 5.7
Identities = 9/29 (31%), Positives = 16/29 (55%)
Query: 49 LLAVMGPSGCGKTTLLNCLAGRVKLDSGV 77
++ + GP G GK+TL L ++ D +
Sbjct: 35 IVGIAGPPGAGKSTLAEFLEALLQQDGEL 63
>gnl|CDD|129547 TIGR00455, apsK, adenylylsulfate kinase (apsK). This protein,
adenylylsulfate kinase, is often found as a fusion
protein with sulfate adenylyltransferase. Important
residue (active site in E.coli) is residue 100 of the
seed alignment [Central intermediary metabolism, Sulfur
metabolism].
Length = 184
Score = 25.9 bits (57), Expect = 5.7
Identities = 21/66 (31%), Positives = 33/66 (50%), Gaps = 15/66 (22%)
Query: 28 SVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTLLNCLAGRVK--------LDSGVIR 79
++T D+R L GVV + + G SG GK+T+ N L +++ LD +R
Sbjct: 4 AITKDERQALNGHRGVV-----IWLTGLSGSGKSTIANALEKKLESKGYRVYVLDGDNVR 58
Query: 80 --LNKE 83
LNK+
Sbjct: 59 HGLNKD 64
>gnl|CDD|226418 COG3903, COG3903, Predicted ATPase [General function prediction
only].
Length = 414
Score = 26.2 bits (58), Expect = 5.7
Identities = 12/50 (24%), Positives = 20/50 (40%), Gaps = 1/50 (2%)
Query: 37 LKDVSGVVKPGELLAVMGPSGCGKTTL-LNCLAGRVKLDSGVIRLNKERL 85
V ++ L+ + G G GKTTL L + GV ++ +
Sbjct: 4 EALVRDLLTALRLVTLTGAGGVGKTTLALQAAHAASEYADGVAFVDLAPI 53
>gnl|CDD|234619 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed.
Length = 328
Score = 25.9 bits (58), Expect = 5.8
Identities = 10/15 (66%), Positives = 11/15 (73%)
Query: 54 GPSGCGKTTLLNCLA 68
GP G GKTTL N +A
Sbjct: 58 GPPGLGKTTLANIIA 72
>gnl|CDD|133362 cd04162, Arl9_Arfrp2_like, Arf-like 9 (Arl9)/Arfrp2-like GTPase.
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 = 25.5 bits (56), Expect = 6.3
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 52 VMGPSGCGKTTLLNCLAGRVKLDSGV 77
V+G G GKT+LL+ L+ L+S V
Sbjct: 4 VLGLDGAGKTSLLHSLSSERSLESVV 29
>gnl|CDD|224027 COG1102, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 179
Score = 25.7 bits (57), Expect = 6.5
Identities = 8/18 (44%), Positives = 10/18 (55%)
Query: 51 AVMGPSGCGKTTLLNCLA 68
+ G G GKTT+ LA
Sbjct: 4 TISGLPGSGKTTVARELA 21
>gnl|CDD|213833 TIGR03596, GTPase_YlqF, ribosome biogenesis GTP-binding protein
YlqF. Members of this protein family are GTP-binding
proteins involved in ribosome biogenesis, including the
essential YlqF protein of Bacillus subtilis, which is an
essential protein. They are related to Era, EngA, and
other GTPases of ribosome biogenesis, but are circularly
permuted. This family is not universal, and is not
present in Escherichia coli, and so is not as well
studied as some other GTPases. This model is built for
bacterial members [Protein synthesis, Other].
Length = 276
Score = 25.9 bits (58), Expect = 6.5
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 52 VMGPSGCGKTTLLNCLAGRVKLDSG 76
++G GK+TL+N LAG+ G
Sbjct: 123 IVGIPNVGKSTLINRLAGKKVAKVG 147
>gnl|CDD|129128 TIGR00017, cmk, cytidylate kinase. This family consists of
cytidylate kinase, which catalyzes the phosphorylation
of cytidine 5-monophosphate (dCMP) to cytidine 5
-diphosphate (dCDP) in the presence of ATP or GTP. UMP
and dCMP can also act as acceptors [Purines,
pyrimidines, nucleosides, and nucleotides, Nucleotide
and nucleoside interconversions].
Length = 217
Score = 25.9 bits (57), Expect = 6.7
Identities = 13/32 (40%), Positives = 21/32 (65%), Gaps = 3/32 (9%)
Query: 50 LAVMGPSGCGKTTLLNCLAGRVK---LDSGVI 78
+A+ GPSG GK+T+ +A ++ LDSG +
Sbjct: 5 IAIDGPSGAGKSTVAKAVAEKLGYAYLDSGAM 36
>gnl|CDD|222163 pfam13479, AAA_24, AAA domain. This AAA domain is found in a
wide variety of presumed phage proteins.
Length = 201
Score = 25.7 bits (57), Expect = 6.7
Identities = 8/21 (38%), Positives = 11/21 (52%)
Query: 51 AVMGPSGCGKTTLLNCLAGRV 71
+ GP G GKT+L L +
Sbjct: 7 LIYGPPGIGKTSLAKTLPPKT 27
>gnl|CDD|75717 PRK06731, flhF, flagellar biosynthesis regulator FlhF; Validated.
Length = 270
Score = 25.9 bits (56), Expect = 6.7
Identities = 11/24 (45%), Positives = 17/24 (70%)
Query: 45 KPGELLAVMGPSGCGKTTLLNCLA 68
K + +A++GP+G GKTT L +A
Sbjct: 73 KEVQTIALIGPTGVGKTTTLAKMA 96
>gnl|CDD|238543 cd01123, Rad51_DMC1_radA, Rad51_DMC1_radA,B. This group of
recombinases includes the eukaryotic proteins RAD51,
RAD55/57 and the meiosis-specific protein DMC1, and the
archaeal proteins radA and radB. They are closely
related to the bacterial RecA group. Rad51 proteins
catalyze a similiar recombination reaction as RecA,
using ATP-dependent DNA binding activity and a
DNA-dependent ATPase. However, this reaction is less
efficient and requires accessory proteins such as
RAD55/57 .
Length = 235
Score = 25.6 bits (57), Expect = 6.7
Identities = 8/15 (53%), Positives = 9/15 (60%)
Query: 54 GPSGCGKTTLLNCLA 68
G G GKT L + LA
Sbjct: 26 GEFGSGKTQLCHQLA 40
>gnl|CDD|234132 TIGR03167, tRNA_sel_U_synt, tRNA 2-selenouridine synthase. The
Escherichia coli YbbB protein was shown to encode a
selenophosphate-dependent tRNA 2-selenouridine synthase,
essential for modification of some tRNAs to replace a
sulfur atom with selenium. This enzyme works with SelD,
the selenium donor protein, which also acts in
selenocysteine incorporation. Although the members of
this protein family show a fairly deep split, sequences
from both sides of the split are supported by
co-occurence with, and often proximity to, the selD gene
[Protein synthesis, tRNA and rRNA base modification].
Length = 311
Score = 25.6 bits (57), Expect = 6.8
Identities = 14/37 (37%), Positives = 21/37 (56%), Gaps = 5/37 (13%)
Query: 49 LLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERL 85
L+ + G +G GKT LL+ LA ++G L+ E L
Sbjct: 129 LIVLGGMTGSGKTELLHALA-----NAGAQVLDLEGL 160
>gnl|CDD|225586 COG3044, COG3044, Predicted ATPase of the ABC class [General
function prediction only].
Length = 554
Score = 26.0 bits (57), Expect = 6.8
Identities = 18/65 (27%), Positives = 27/65 (41%), Gaps = 15/65 (23%)
Query: 4 NIPSLPPEKYPLSHRPLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSGCGKTTL 63
+P PE P+ +EL P K+V G+ P + + G + GKTTL
Sbjct: 214 AVPFEAPESLPVE---IEL------------PNGKEVVGMGIPQGITLITGGNFHGKTTL 258
Query: 64 LNCLA 68
L +
Sbjct: 259 LTAIE 263
>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common
bacterial type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing
and segregating chromosomes for partition. SMC proteins
are found in bacteria, archaea, and eukaryotes. This
family represents the SMC protein of most bacteria. The
smc gene is often associated with scpB (TIGR00281) and
scpA genes, where scp stands for segregation and
condensation protein. SMC was shown (in Caulobacter
crescentus) to be induced early in S phase but present
and bound to DNA throughout the cell cycle [Cellular
processes, Cell division, DNA metabolism,
Chromosome-associated proteins].
Length = 1179
Score = 25.8 bits (57), Expect = 7.1
Identities = 6/16 (37%), Positives = 11/16 (68%)
Query: 46 PGELLAVMGPSGCGKT 61
+ ++GP+GCGK+
Sbjct: 22 DKGITGIVGPNGCGKS 37
>gnl|CDD|206640 cd00154, Rab, Ras-related in brain (Rab) family of small
guanosine triphosphatases (GTPases). 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 = 25.5 bits (57), Expect = 7.1
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 52 VMGPSGCGKTTLLN 65
++G SG GKT+LL
Sbjct: 5 LIGDSGVGKTSLLL 18
>gnl|CDD|234814 PRK00698, tmk, thymidylate kinase; Validated.
Length = 205
Score = 25.5 bits (57), Expect = 7.4
Identities = 6/15 (40%), Positives = 8/15 (53%)
Query: 54 GPSGCGKTTLLNCLA 68
G G GK+T + L
Sbjct: 10 GIDGAGKSTQIELLK 24
>gnl|CDD|238540 cd01120, RecA-like_NTPases, RecA-like NTPases. This family
includes the NTP binding domain of F1 and V1 H+ATPases,
DnaB and related helicases as well as bacterial RecA
and related eukaryotic and archaeal recombinases. This
group also includes bacterial conjugation proteins and
related DNA transfer proteins involved in type II and
type IV secretion.
Length = 165
Score = 25.5 bits (56), Expect = 7.4
Identities = 13/30 (43%), Positives = 17/30 (56%)
Query: 49 LLAVMGPSGCGKTTLLNCLAGRVKLDSGVI 78
L+ V GP+G GKTTL LA + G +
Sbjct: 1 LILVFGPTGSGKTTLALQLALNIATKGGKV 30
>gnl|CDD|235210 PRK04040, PRK04040, adenylate kinase; Provisional.
Length = 188
Score = 25.6 bits (57), Expect = 7.5
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 46 PGELLAVMGPSGCGKTTLLNCLAGRVKLD 74
+++ V G G GKTT+LN ++K D
Sbjct: 1 MMKVVVVTGVPGVGKTTVLNKALEKLKED 29
>gnl|CDD|235738 PRK06199, PRK06199, ornithine cyclodeaminase; Validated.
Length = 379
Score = 25.8 bits (57), Expect = 7.5
Identities = 19/78 (24%), Positives = 33/78 (42%), Gaps = 11/78 (14%)
Query: 44 VKPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKRKICYVLQQDIFF 103
K +++ ++GP GKT L +A +D+ I K R K +V + +
Sbjct: 152 RKDSKVVGLLGPGVMGKTILAAFMAVCPGIDTIKI---KGRGQKSLDSFATWVAET---Y 205
Query: 104 PELTLRQTLEVSIADEDE 121
P++T V + D E
Sbjct: 206 PQIT-----NVEVVDSIE 218
>gnl|CDD|238417 cd00819, PEPCK_GTP, Phosphoenolpyruvate carboxykinase (PEPCK), a
critical gluconeogenic enzyme, catalyzes the first
committed step in the diversion of tricarboxylic acid
cycle intermediates toward gluconeogenesis. It catalyzes
the reversible decarboxylation and phosphorylation of
oxaloacetate to yield phosphoenolpyruvate and carbon
dioxide, using a nucleotide molecule (GTP) for the
phosphoryl transfer, and has a strict requirement for
divalent metal ions for activity. PEPCK's separate into
two phylogenetic groups based on their nucleotide
substrate specificity, this model describes the
GTP-dependent group.
Length = 579
Score = 25.7 bits (57), Expect = 7.7
Identities = 7/9 (77%), Positives = 7/9 (77%)
Query: 55 PSGCGKTTL 63
PS CGKT L
Sbjct: 249 PSACGKTNL 257
>gnl|CDD|129694 TIGR00606, rad50, rad50. All proteins in this family for which
functions are known are involvedin recombination,
recombinational repair, and/or non-homologous end
joining.They are components of an exonuclease complex
with MRE11 homologs. This family is distantly related
to the SbcC family of bacterial proteins.This family is
based on the phylogenomic analysis of JA Eisen (1999,
Ph.D. Thesis, Stanford University).
Length = 1311
Score = 25.8 bits (56), Expect = 7.9
Identities = 9/16 (56%), Positives = 14/16 (87%)
Query: 52 VMGPSGCGKTTLLNCL 67
++GP+G GKTT++ CL
Sbjct: 33 LVGPNGAGKTTIIECL 48
>gnl|CDD|206703 cd04131, Rnd, Rho family GTPase subfamily Rnd includes Rnd1/Rho6,
Rnd2/Rho7, and Rnd3/RhoE/Rho8. The Rnd subfamily
contains Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8.
These novel Rho family proteins have substantial
structural differences compared to other Rho members,
including N- and C-terminal extensions relative to
other Rhos. Rnd3/RhoE is farnesylated at the C-terminal
prenylation site, unlike most other Rho proteins that
are geranylgeranylated. In addition, Rnd members are
unable to hydrolyze GTP and are resistant to GAP
activity. They are believed to exist only in the
GTP-bound conformation, and are antagonists of RhoA
activity. 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. Due to the presence of truncated sequences in
this CD, the lipid modification site is not available
for annotation.
Length = 176
Score = 25.5 bits (56), Expect = 8.0
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 50 LAVMGPSGCGKTTLLNCLA 68
+ ++G S CGKT LL A
Sbjct: 4 IVLVGDSQCGKTALLQVFA 22
>gnl|CDD|224586 COG1672, COG1672, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 359
Score = 25.5 bits (56), Expect = 8.2
Identities = 13/62 (20%), Positives = 23/62 (37%), Gaps = 3/62 (4%)
Query: 45 KPGELLAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERLNKRWKRKICYVLQQDIFFP 104
+P ++ + G GKT+LL ++ NKR+ Y+ + F
Sbjct: 21 EPPSIVFIYGRRRVGKTSLLKEFIKEKLGIYILVDFYINLRNKRFSS---YLDFIEALFE 77
Query: 105 EL 106
L
Sbjct: 78 YL 79
>gnl|CDD|215427 PLN02796, PLN02796, D-glycerate 3-kinase.
Length = 347
Score = 25.5 bits (56), Expect = 8.3
Identities = 9/13 (69%), Positives = 10/13 (76%)
Query: 55 PSGCGKTTLLNCL 67
P GCGKTTL+ L
Sbjct: 108 PQGCGKTTLVFAL 120
>gnl|CDD|235349 PRK05124, cysN, sulfate adenylyltransferase subunit 1; Provisional.
Length = 474
Score = 25.6 bits (57), Expect = 8.3
Identities = 17/40 (42%), Positives = 21/40 (52%), Gaps = 10/40 (25%)
Query: 18 RPLELVFSGLSVTLDKRPILKDVSGVVKPGELLAVMGPSG 57
RP L F G + TL SGVVK G+ + V+ PSG
Sbjct: 255 RP-NLDFRGYAGTL--------ASGVVKVGDRVKVL-PSG 284
>gnl|CDD|237480 PRK13721, PRK13721, conjugal transfer ATP-binding protein TraC;
Provisional.
Length = 844
Score = 25.8 bits (57), Expect = 8.4
Identities = 15/27 (55%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 50 LAVMGPSGCGKTTLLNCLAGRVKLDSG 76
+AV G SG GKT L+ L V LDSG
Sbjct: 452 MAVCGTSGAGKTGLIQPLIRSV-LDSG 477
>gnl|CDD|183360 PRK11889, flhF, flagellar biosynthesis regulator FlhF; Provisional.
Length = 436
Score = 25.4 bits (55), Expect = 8.6
Identities = 11/24 (45%), Positives = 17/24 (70%)
Query: 45 KPGELLAVMGPSGCGKTTLLNCLA 68
K + +A++GP+G GKTT L +A
Sbjct: 239 KEVQTIALIGPTGVGKTTTLAKMA 262
>gnl|CDD|206735 cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases. Rnd3/RhoE/Rho8
subfamily. Rnd3/RhoE/Rho8 is a member of the novel Rho
subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7.
Rnd3/RhoE is known to bind the serine-threonine kinase
ROCK I. Unphosphorylated Rnd3/RhoE associates primarily
with membranes, but ROCK I-phosphorylated Rnd3/RhoE
localizes in the cytosol. Phosphorylation of Rnd3/RhoE
correlates with its activity in disrupting RhoA-induced
stress fibers and inhibiting Ras-induced fibroblast
transformation. In cells that lack stress fibers, such
as macrophages and monocytes, Rnd3/RhoE induces a
redistribution of actin, causing morphological changes
in the cell. In addition, Rnd3/RhoE has been shown to
inhibit cell cycle progression in G1 phase at a point
upstream of the pRb family pocket protein checkpoint.
Rnd3/RhoE has also been shown to inhibit Ras- and
Raf-induced fibroblast transformation. In mammary
epithelial tumor cells, Rnd3/RhoE regulates the
assembly of the apical junction complex and tight
junction formation. Rnd3/RhoE is underexpressed in
prostate cancer cells both in vitro and in vivo;
re-expression of Rnd3/RhoE suppresses cell cycle
progression and increases apoptosis, suggesting it may
play a role in tumor suppression. 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. Due to the presence of
truncated sequences in this CD, the lipid modification
site is not available for annotation.
Length = 182
Score = 25.4 bits (55), Expect = 8.7
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 50 LAVMGPSGCGKTTLLNCLA 68
+ V+G S CGKT LL+ A
Sbjct: 8 IVVVGDSQCGKTALLHVFA 26
>gnl|CDD|237728 PRK14490, PRK14490, putative bifunctional molybdopterin-guanine
dinucleotide biosynthesis protein MobB/MobA;
Provisional.
Length = 369
Score = 25.4 bits (56), Expect = 8.8
Identities = 12/36 (33%), Positives = 17/36 (47%), Gaps = 10/36 (27%)
Query: 50 LAVMGPSGCGKTTLLNCLAGRVKLDSGVIRLNKERL 85
+A G SG GKTTL+ + ++R ER
Sbjct: 8 IAFCGYSGSGKTTLI----------TALVRRLSERF 33
>gnl|CDD|225806 COG3267, ExeA, Type II secretory pathway, component ExeA
(predicted ATPase) [Intracellular trafficking and
secretion].
Length = 269
Score = 25.5 bits (56), Expect = 9.0
Identities = 15/59 (25%), Positives = 22/59 (37%), Gaps = 4/59 (6%)
Query: 11 EKYPLSHRPLELVFSGLSVTLDKRPILKDVSGVVKPGE-LLAVMGPSGCGKTTLLNCLA 68
+ P S + + D L + + G+ +LAV G G GKT L L
Sbjct: 17 SRLPFSWDIQPGLDYWAA---DHNEALLMLHAAIADGQGILAVTGEVGSGKTVLRRALL 72
>gnl|CDD|222804 PHA00520, PHA00520, packaging NTPase P4.
Length = 330
Score = 25.2 bits (55), Expect = 9.5
Identities = 15/34 (44%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 49 LLAVMGPSGCGKTTLLNCLAGRV--KLDSGVIRL 80
+ V+G +G GKT LLN LA V VIR
Sbjct: 126 VEVVVGGTGSGKTPLLNALAPDVGGGDKYAVIRW 159
>gnl|CDD|225363 COG2804, PulE, Type II secretory pathway, ATPase PulE/Tfp pilus
assembly pathway, ATPase PilB [Cell motility and
secretion / Intracellular trafficking and secretion].
Length = 500
Score = 25.4 bits (56), Expect = 9.5
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 49 LLAVMGPSGCGKTTLL 64
L+ V GP+G GKTT L
Sbjct: 260 LILVTGPTGSGKTTTL 275
>gnl|CDD|224140 COG1219, ClpX, ATP-dependent protease Clp, ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 408
Score = 25.3 bits (56), Expect = 9.7
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 52 VMGPSGCGKTTLLNCLA 68
++GP+G GKT L LA
Sbjct: 102 LIGPTGSGKTLLAQTLA 118
>gnl|CDD|226102 COG3572, GshA, Gamma-glutamylcysteine synthetase [Coenzyme
metabolism].
Length = 456
Score = 25.5 bits (56), Expect = 9.7
Identities = 7/16 (43%), Positives = 12/16 (75%)
Query: 103 FPELTLRQTLEVSIAD 118
FP++ L++ LE+ AD
Sbjct: 311 FPDVRLKRFLEMRGAD 326
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.319 0.140 0.410
Gapped
Lambda K H
0.267 0.0534 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,228,953
Number of extensions: 539136
Number of successful extensions: 1610
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1549
Number of HSP's successfully gapped: 680
Length of query: 121
Length of database: 10,937,602
Length adjustment: 84
Effective length of query: 37
Effective length of database: 7,211,866
Effective search space: 266839042
Effective search space used: 266839042
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (24.6 bits)