RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy860
(178 letters)
>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 = 93.0 bits (232), Expect = 6e-24
Identities = 32/89 (35%), Positives = 53/89 (59%), Gaps = 3/89 (3%)
Query: 71 LMTNIMHLFQYLSGIGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLG 130
+ T+ Q +GYCPQF+ + + LT +E L ++ L+G+P + ++ + +LG
Sbjct: 66 IRTDRKAARQS---LGYCPQFDALFDELTVREHLRFYARLKGLPKSEIKEEVELLLRVLG 122
Query: 131 LTEYRHRVSGRYSGGNKRKLSTAMALIGD 159
LT+ ++ + SGG KRKLS A+ALIG
Sbjct: 123 LTDKANKRARTLSGGMKRKLSLAIALIGG 151
Score = 45.6 bits (109), Expect = 2e-06
Identities = 15/46 (32%), Positives = 29/46 (63%)
Query: 10 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLG 55
+GYCPQF+ + + LT +E L ++ L+G+P + ++ + +LG
Sbjct: 77 LGYCPQFDALFDELTVREHLRFYARLKGLPKSEIKEEVELLLRVLG 122
>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 = 86.6 bits (214), Expect = 3e-20
Identities = 51/129 (39%), Positives = 72/129 (55%), Gaps = 7/129 (5%)
Query: 30 ECFSALRGIPGVKSGPIIDYWIDLLGSAIRFSPFQAAQNSLLMTNIMHLFQYLSGIGYCP 89
ECF G+ GV + L G S ++TNI + Q +GYCP
Sbjct: 1966 ECF----GLLGVNGAGKTTTFKMLTGDTTVTSGDATVAGKSILTNISDVHQ---NMGYCP 2018
Query: 90 QFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSGGNKRK 149
QF+ I++ LT +E L ++ LRG+P + + ++ I LGL+ Y R++G YSGGNKRK
Sbjct: 2019 QFDAIDDLLTGREHLYLYARLRGVPAEEIEKVANWSIQSLGLSLYADRLAGTYSGGNKRK 2078
Query: 150 LSTAMALIG 158
LSTA+ALIG
Sbjct: 2079 LSTAIALIG 2087
Score = 45.0 bits (106), Expect = 7e-06
Identities = 25/75 (33%), Positives = 42/75 (56%)
Query: 85 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSG 144
+G CPQ N + HLT E + ++ L+G ++ ++ ++ GL R+ + SG
Sbjct: 1005 LGMCPQHNILFHHLTVAEHILFYAQLKGRSWEEAQLEMEAMLEDTGLHHKRNEEAQDLSG 1064
Query: 145 GNKRKLSTAMALIGD 159
G +RKLS A+A +GD
Sbjct: 1065 GMQRKLSVAIAFVGD 1079
Score = 43.5 bits (102), Expect = 3e-05
Identities = 18/46 (39%), Positives = 30/46 (65%)
Query: 10 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLG 55
+GYCPQF+ I++ LT +E L ++ LRG+P + + ++ I LG
Sbjct: 2014 MGYCPQFDAIDDLLTGREHLYLYARLRGVPAEEIEKVANWSIQSLG 2059
Score = 27.3 bits (60), Expect = 5.3
Identities = 11/28 (39%), Positives = 17/28 (60%)
Query: 10 IGYCPQFNGINEHLTAQEMLECFSALRG 37
+G CPQ N + HLT E + ++ L+G
Sbjct: 1005 LGMCPQHNILFHHLTVAEHILFYAQLKG 1032
>gnl|CDD|224054 COG1131, CcmA, ABC-type multidrug transport system, ATPase
component [Defense mechanisms].
Length = 293
Score = 77.0 bits (190), Expect = 3e-17
Identities = 27/75 (36%), Positives = 43/75 (57%)
Query: 85 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSG 144
IGY PQ + LT +E LE F+ L G+ ++ I+ ++L GL + ++ SG
Sbjct: 80 IGYVPQEPSLYPELTVRENLEFFARLYGLSKEEAEERIEELLELFGLEDKANKKVRTLSG 139
Query: 145 GNKRKLSTAMALIGD 159
G K++LS A+AL+ D
Sbjct: 140 GMKQRLSIALALLHD 154
Score = 41.5 bits (98), Expect = 7e-05
Identities = 16/46 (34%), Positives = 25/46 (54%)
Query: 10 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLG 55
IGY PQ + LT +E LE F+ L G+ ++ I+ ++L G
Sbjct: 80 IGYVPQEPSLYPELTVRENLEFFARLYGLSKEEAEERIEELLELFG 125
>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 = 65.7 bits (161), Expect = 1e-13
Identities = 26/75 (34%), Positives = 43/75 (57%)
Query: 85 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSG 144
IGY PQ G+ + T +E L+ + L+GIP + +D ++L+ L + + G SG
Sbjct: 74 IGYLPQEFGVYPNFTVREFLDYIAWLKGIPSKEVKARVDEVLELVNLGDRAKKKIGSLSG 133
Query: 145 GNKRKLSTAMALIGD 159
G +R++ A AL+GD
Sbjct: 134 GMRRRVGIAQALVGD 148
Score = 36.4 bits (85), Expect = 0.003
Identities = 15/46 (32%), Positives = 26/46 (56%)
Query: 10 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLG 55
IGY PQ G+ + T +E L+ + L+GIP + +D ++L+
Sbjct: 74 IGYLPQEFGVYPNFTVREFLDYIAWLKGIPSKEVKARVDEVLELVN 119
>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 = 62.4 bits (152), Expect = 3e-12
Identities = 26/73 (35%), Positives = 39/73 (53%)
Query: 85 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSG 144
IG Q +++ LT E L + L G+PG + ID +D +GL E R+ YSG
Sbjct: 75 IGIVFQDLSVDDELTGWENLYIHARLYGVPGAERRERIDELLDFVGLLEAADRLVKTYSG 134
Query: 145 GNKRKLSTAMALI 157
G +R+L A +L+
Sbjct: 135 GMRRRLEIARSLV 147
Score = 30.4 bits (69), Expect = 0.36
Identities = 15/46 (32%), Positives = 23/46 (50%)
Query: 10 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLG 55
IG Q +++ LT E L + L G+PG + ID +D +G
Sbjct: 75 IGIVFQDLSVDDELTGWENLYIHARLYGVPGAERRERIDELLDFVG 120
>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 = 56.2 bits (136), Expect = 7e-10
Identities = 28/77 (36%), Positives = 41/77 (53%)
Query: 85 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSG 144
IG PQ+ ++E LT +E LE L G+P ++ + ++L L E R G YSG
Sbjct: 68 IGIVPQYASVDEDLTGRENLEMMGRLYGLPKDEAEERAEELLELFELGEAADRPVGTYSG 127
Query: 145 GNKRKLSTAMALIGDRD 161
G +R+L A +LI D
Sbjct: 128 GMRRRLDIAASLIHQPD 144
Score = 27.4 bits (61), Expect = 4.1
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 10 IGYCPQFNGINEHLTAQEMLECFSALRGIPG 40
IG PQ+ ++E LT +E LE L G+P
Sbjct: 68 IGIVPQYASVDEDLTGRENLEMMGRLYGLPK 98
>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 = 47.7 bits (114), Expect = 4e-07
Identities = 25/81 (30%), Positives = 43/81 (53%)
Query: 79 FQYLSGIGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRV 138
+ +G+ G+ + LTA+E LE F+ L G+ G + ++ D LG+ E R
Sbjct: 74 AEARRRLGFVSDSTGLYDRLTARENLEYFAGLYGLKGDELTARLEELADRLGMEELLDRR 133
Query: 139 SGRYSGGNKRKLSTAMALIGD 159
G +S G ++K++ A AL+ D
Sbjct: 134 VGGFSTGMRQKVAIARALVHD 154
Score = 30.0 bits (68), Expect = 0.44
Identities = 15/52 (28%), Positives = 26/52 (50%)
Query: 4 FQYLSGIGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLG 55
+ +G+ G+ + LTA+E LE F+ L G+ G + ++ D LG
Sbjct: 74 AEARRRLGFVSDSTGLYDRLTARENLEYFAGLYGLKGDELTARLEELADRLG 125
>gnl|CDD|226927 COG4555, NatA, ABC-type Na+ transport system, ATPase component
[Energy production and conversion / Inorganic ion
transport and metabolism].
Length = 245
Score = 47.8 bits (114), Expect = 5e-07
Identities = 26/76 (34%), Positives = 37/76 (48%)
Query: 84 GIGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYS 143
IG G+ LTA+E L+ F+ L G+ + I L L EY R G +S
Sbjct: 76 KIGVLFGERGLYARLTARENLKYFARLNGLSRKEIKARIAELSKRLQLLEYLDRRVGEFS 135
Query: 144 GGNKRKLSTAMALIGD 159
G K+K++ A AL+ D
Sbjct: 136 TGMKQKVAIARALVHD 151
>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 = 43.9 bits (104), Expect = 4e-06
Identities = 19/94 (20%), Positives = 35/94 (37%), Gaps = 12/94 (12%)
Query: 72 MTNIMHLFQYLSGIGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPI---IDYWIDL 128
T + IG Q + LT +E L G++ + ++
Sbjct: 25 GTGLSSRKLLRKRIGVVFQDPQLFPELTVRENL--------FFGLRDKEADARAEEALER 76
Query: 129 LGLTEYRHRVSGR-YSGGNKRKLSTAMALIGDRD 161
+GL ++ R SGG K++++ A AL+
Sbjct: 77 VGLPDFLDREPVGTLSGGQKQRVAIARALLKKPK 110
Score = 25.7 bits (57), Expect = 8.1
Identities = 6/27 (22%), Positives = 8/27 (29%)
Query: 1 MHLFQYLSGIGYCPQFNGINEHLTAQE 27
IG Q + LT +E
Sbjct: 29 SSRKLLRKRIGVVFQDPQLFPELTVRE 55
>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 = 44.6 bits (106), Expect = 5e-06
Identities = 22/75 (29%), Positives = 40/75 (53%)
Query: 85 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSG 144
IGY P+ G+ + + L + L+G+ ++ ID W++ L L+EY ++ S
Sbjct: 72 IGYLPEERGLYPKMKVIDQLVYLAQLKGLKKEEARRRIDEWLERLELSEYANKRVEELSK 131
Query: 145 GNKRKLSTAMALIGD 159
GN++K+ A+I D
Sbjct: 132 GNQQKVQFIAAVIHD 146
Score = 28.4 bits (64), Expect = 1.5
Identities = 12/46 (26%), Positives = 23/46 (50%)
Query: 10 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLG 55
IGY P+ G+ + + L + L+G+ ++ ID W++ L
Sbjct: 72 IGYLPEERGLYPKMKVIDQLVYLAQLKGLKKEEARRRIDEWLERLE 117
>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 = 44.8 bits (107), Expect = 5e-06
Identities = 21/74 (28%), Positives = 35/74 (47%)
Query: 84 GIGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYS 143
GIGY PQ I LT +E + +RG+ + ++ ++ +T R + S
Sbjct: 76 GIGYLPQEASIFRKLTVEENILAVLEIRGLSKKEREEKLEELLEEFHITHLRKSKASSLS 135
Query: 144 GGNKRKLSTAMALI 157
GG +R++ A AL
Sbjct: 136 GGERRRVEIARALA 149
>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 = 44.5 bits (106), Expect = 6e-06
Identities = 24/69 (34%), Positives = 38/69 (55%), Gaps = 4/69 (5%)
Query: 93 GINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSGGNKRKLST 152
G +LTA+E L + L GI K ID +D++GL + + +S G K++L
Sbjct: 82 GFYPNLTARENLRLLARLLGIR--KK--RIDEVLDVVGLKDSAKKKVKGFSLGMKQRLGI 137
Query: 153 AMALIGDRD 161
A+AL+G+ D
Sbjct: 138 ALALLGNPD 146
>gnl|CDD|226631 COG4152, COG4152, ABC-type uncharacterized transport system, ATPase
component [General function prediction only].
Length = 300
Score = 41.2 bits (97), Expect = 1e-04
Identities = 18/73 (24%), Positives = 38/73 (52%)
Query: 85 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSG 144
IGY P+ G+ +T ++ L+ + L+G+P + + W++ L + + + S
Sbjct: 74 IGYLPEERGLYPKMTVEDQLKYLAELKGMPKAEIQKKLQAWLERLEIVGKKTKKIKELSK 133
Query: 145 GNKRKLSTAMALI 157
GN++K+ A+I
Sbjct: 134 GNQQKIQFISAVI 146
Score = 27.3 bits (61), Expect = 4.4
Identities = 12/46 (26%), Positives = 25/46 (54%)
Query: 10 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLG 55
IGY P+ G+ +T ++ L+ + L+G+P + + W++ L
Sbjct: 74 IGYLPEERGLYPKMTVEDQLKYLAELKGMPKAEIQKKLQAWLERLE 119
>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 = 40.1 bits (94), Expect = 2e-04
Identities = 22/75 (29%), Positives = 41/75 (54%)
Query: 85 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSG 144
IGY P+ N + + +E L+ + + G+ G ++ I+L+GL +H+ G+ S
Sbjct: 77 IGYLPEHNPLYLDMYVREYLQFIAGIYGMKGQLLKQRVEEMIELVGLRPEQHKKIGQLSK 136
Query: 145 GNKRKLSTAMALIGD 159
G ++++ A ALI D
Sbjct: 137 GYRQRVGLAQALIHD 151
Score = 26.7 bits (59), Expect = 8.2
Identities = 12/46 (26%), Positives = 24/46 (52%)
Query: 10 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLG 55
IGY P+ N + + +E L+ + + G+ G ++ I+L+G
Sbjct: 77 IGYLPEHNPLYLDMYVREYLQFIAGIYGMKGQLLKQRVEEMIELVG 122
>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 = 39.4 bits (93), Expect = 3e-04
Identities = 27/79 (34%), Positives = 37/79 (46%), Gaps = 6/79 (7%)
Query: 83 SGIGYCPQFNGINEHLTAQEMLEC-FSALRGIPGVKSGPIIDYWIDLLG-LTEYRHRVSG 140
+GI Y PQ I LT +E L +AL +S I D +L L E R G
Sbjct: 75 AGIAYVPQGREIFPRLTVEENLLTGLAALPR----RSRKIPDEIYELFPVLKEMLGRRGG 130
Query: 141 RYSGGNKRKLSTAMALIGD 159
SGG +++L+ A AL+
Sbjct: 131 DLSGGQQQQLAIARALVTR 149
>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 = 39.2 bits (92), Expect = 4e-04
Identities = 19/76 (25%), Positives = 37/76 (48%)
Query: 82 LSGIGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGR 141
L+ +G Q ++ L+ ++ L +AL G+ ++ I + LGL E
Sbjct: 73 LARLGVVFQQPTLDLDLSVRQNLRYHAALHGLSRAEARARIAELLARLGLAERADDKVRE 132
Query: 142 YSGGNKRKLSTAMALI 157
+GG++R++ A AL+
Sbjct: 133 LNGGHRRRVEIARALL 148
>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 = 39.3 bits (93), Expect = 4e-04
Identities = 12/38 (31%), Positives = 20/38 (52%)
Query: 122 IDYWIDLLGLTEYRHRVSGRYSGGNKRKLSTAMALIGD 159
+ ++ +GL + R +G S G +R+L A AL D
Sbjct: 124 AEELLERVGLADLADRPAGELSYGQQRRLEIARALATD 161
>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 = 38.5 bits (91), Expect = 5e-04
Identities = 18/75 (24%), Positives = 27/75 (36%), Gaps = 36/75 (48%)
Query: 85 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSG 144
IGY P+ + E+LT +E L + SG
Sbjct: 75 IGYLPEEPSLYENLTVRENL------------------------------------KLSG 98
Query: 145 GNKRKLSTAMALIGD 159
G K++L+ A AL+ D
Sbjct: 99 GMKQRLALAQALLHD 113
Score = 28.5 bits (65), Expect = 1.2
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 10 IGYCPQFNGINEHLTAQEMLE 30
IGY P+ + E+LT +E L+
Sbjct: 75 IGYLPEEPSLYENLTVRENLK 95
>gnl|CDD|224045 COG1120, FepC, ABC-type cobalamin/Fe3+-siderophores transport
systems, ATPase components [Inorganic ion transport and
metabolism / Coenzyme metabolism].
Length = 258
Score = 38.3 bits (90), Expect = 0.001
Identities = 21/79 (26%), Positives = 34/79 (43%), Gaps = 4/79 (5%)
Query: 85 IGYCPQFNGINEHLTAQEMLE----CFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSG 140
+ Y PQ LT E++ L G P + I++ ++LLGL R
Sbjct: 78 LAYVPQSPSAPFGLTVYELVLLGRYPHLGLFGRPSKEDEEIVEEALELLGLEHLADRPVD 137
Query: 141 RYSGGNKRKLSTAMALIGD 159
SGG ++++ A AL +
Sbjct: 138 ELSGGERQRVLIARALAQE 156
>gnl|CDD|223488 COG0411, LivG, ABC-type branched-chain amino acid transport
systems, ATPase component [Amino acid transport and
metabolism].
Length = 250
Score = 37.9 bits (89), Expect = 0.001
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 125 WIDLLGLTEYRHRVSGRYSGGNKRKLSTAMAL 156
++ +GL E R +G S G +R+L A AL
Sbjct: 133 LLEFVGLGELADRPAGNLSYGQQRRLEIARAL 164
>gnl|CDD|237419 PRK13536, PRK13536, nodulation factor exporter subunit NodI;
Provisional.
Length = 340
Score = 37.5 bits (87), Expect = 0.002
Identities = 26/78 (33%), Positives = 40/78 (51%), Gaps = 2/78 (2%)
Query: 83 SGIGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGL-TEYRHRVSGR 141
+ IG PQF+ ++ T +E L F G+ + +I ++ L ++ RVS
Sbjct: 114 ARIGVVPQFDNLDLEFTVRENLLVFGRYFGMSTREIEAVIPSLLEFARLESKADARVS-D 172
Query: 142 YSGGNKRKLSTAMALIGD 159
SGG KR+L+ A ALI D
Sbjct: 173 LSGGMKRRLTLARALIND 190
>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 = 36.9 bits (86), Expect = 0.002
Identities = 24/88 (27%), Positives = 39/88 (44%), Gaps = 8/88 (9%)
Query: 77 HLFQYLSGIGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPII-----DYWIDLLGL 131
FQ + Y Q + + LT +E L ++A+ +P S I D + L L
Sbjct: 77 DQFQKC--VAYVRQDDILLPGLTVRETLT-YTAILRLPRKSSDAIRKKRVEDVLLRDLAL 133
Query: 132 TEYRHRVSGRYSGGNKRKLSTAMALIGD 159
T + SGG +R++S A+ L+ D
Sbjct: 134 TRIGGNLVKGISGGERRRVSIAVQLLWD 161
>gnl|CDD|237420 PRK13537, PRK13537, nodulation ABC transporter NodI; Provisional.
Length = 306
Score = 36.7 bits (85), Expect = 0.004
Identities = 22/77 (28%), Positives = 36/77 (46%)
Query: 85 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSG 144
+G PQF+ ++ T +E L F G+ + ++ ++ L G SG
Sbjct: 82 VGVVPQFDNLDPDFTVRENLLVFGRYFGLSAAAARALVPPLLEFAKLENKADAKVGELSG 141
Query: 145 GNKRKLSTAMALIGDRD 161
G KR+L+ A AL+ D D
Sbjct: 142 GMKRRLTLARALVNDPD 158
>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 = 36.2 bits (84), Expect = 0.005
Identities = 20/62 (32%), Positives = 38/62 (61%), Gaps = 4/62 (6%)
Query: 96 EHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSGGNKRKLSTAMA 155
E+LTA+E L+ + L G+P + ID ++++ LT + + ++S G K++L A+A
Sbjct: 83 ENLTARENLKVHTTLLGLPDSR----IDEVLNIVDLTNTGKKKAKQFSLGMKQRLGIAIA 138
Query: 156 LI 157
L+
Sbjct: 139 LL 140
>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 = 35.9 bits (84), Expect = 0.005
Identities = 23/77 (29%), Positives = 35/77 (45%), Gaps = 3/77 (3%)
Query: 84 GIGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLL-GLTEYRHRVSGRY 142
GIGY P+ I LT +E L K ++ +L L E R +++G
Sbjct: 76 GIGYVPEGRRIFPELTVEENLL--LGAYARRRAKRKARLERVYELFPRLKERRKQLAGTL 133
Query: 143 SGGNKRKLSTAMALIGD 159
SGG ++ L+ A AL+
Sbjct: 134 SGGEQQMLAIARALMSR 150
>gnl|CDD|224050 COG1125, OpuBA, ABC-type proline/glycine betaine transport systems,
ATPase components [Amino acid transport and metabolism].
Length = 309
Score = 35.7 bits (83), Expect = 0.006
Identities = 26/77 (33%), Positives = 36/77 (46%), Gaps = 2/77 (2%)
Query: 85 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGL--TEYRHRVSGRY 142
IGY Q G+ HLT E + L G + D +DL+GL +EY R
Sbjct: 77 IGYVIQQIGLFPHLTVAENIATVPKLLGWDKERIKKRADELLDLVGLDPSEYADRYPHEL 136
Query: 143 SGGNKRKLSTAMALIGD 159
SGG ++++ A AL D
Sbjct: 137 SGGQQQRVGVARALAAD 153
>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 = 35.6 bits (83), Expect = 0.007
Identities = 20/83 (24%), Positives = 39/83 (46%), Gaps = 6/83 (7%)
Query: 85 IGYCPQFNGINEH--LTAQE--MLECFSALRGIPGVKSG--PIIDYWIDLLGLTEYRHRV 138
IGY PQ I+ ++ ++ ++ + + +D ++ +GL+E R
Sbjct: 70 IGYVPQRRSIDRDFPISVRDVVLMGLYGHKGLFRRLSKADKAKVDEALERVGLSELADRQ 129
Query: 139 SGRYSGGNKRKLSTAMALIGDRD 161
G SGG ++++ A AL+ D D
Sbjct: 130 IGELSGGQQQRVLLARALVQDPD 152
>gnl|CDD|224041 COG1116, TauB, ABC-type nitrate/sulfonate/bicarbonate transport
system, ATPase component [Inorganic ion transport and
metabolism].
Length = 248
Score = 35.2 bits (82), Expect = 0.009
Identities = 18/77 (23%), Positives = 35/77 (45%)
Query: 85 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSG 144
IGY Q + + LT + + LRG ++ ++L+GL + + + SG
Sbjct: 74 IGYVFQEDALLPWLTVLDNVALGLELRGKSKAEARERAKELLELVGLAGFEDKYPHQLSG 133
Query: 145 GNKRKLSTAMALIGDRD 161
G +++++ A AL
Sbjct: 134 GMRQRVAIARALATRPK 150
>gnl|CDD|226643 COG4175, ProV, ABC-type proline/glycine betaine transport system,
ATPase component [Amino acid transport and metabolism].
Length = 386
Score = 35.4 bits (82), Expect = 0.010
Identities = 16/61 (26%), Positives = 28/61 (45%)
Query: 110 LRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSGGNKRKLSTAMALIGDRDDGFQKLPF 169
++G+P + ++L+GL Y + SGG ++++ A AL D D F
Sbjct: 133 VQGVPKAEREERALEALELVGLEGYADKYPNELSGGMQQRVGLARALANDPDILLMDEAF 192
Query: 170 S 170
S
Sbjct: 193 S 193
>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 = 35.2 bits (81), Expect = 0.012
Identities = 24/87 (27%), Positives = 36/87 (41%)
Query: 85 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSG 144
IG Q + H+T + L G P + + L+GL EY HR SG
Sbjct: 73 IGMVFQQFALFPHMTILQNTSLGPELLGWPEQERKEKALELLKLVGLEEYEHRYPDELSG 132
Query: 145 GNKRKLSTAMALIGDRDDGFQKLPFSS 171
G ++++ A AL + D FS+
Sbjct: 133 GMQQRVGLARALAAEPDILLMDEAFSA 159
>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 = 34.9 bits (80), Expect = 0.015
Identities = 23/77 (29%), Positives = 34/77 (44%)
Query: 83 SGIGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRY 142
IG PQF+ ++ T +E L F G+ + +I ++ L
Sbjct: 77 VAIGVVPQFDNLDPEFTVRENLLVFGRYFGMSTREIEAVIPSLLEFARLESKADVRVALL 136
Query: 143 SGGNKRKLSTAMALIGD 159
SGG KR+L+ A ALI D
Sbjct: 137 SGGMKRRLTLARALIND 153
>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 = 34.4 bits (79), Expect = 0.017
Identities = 16/49 (32%), Positives = 27/49 (55%)
Query: 108 SALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSGGNKRKLSTAMAL 156
L + + I++ I L+GLTE + G+ SGG K++++ A AL
Sbjct: 81 RVLPDLSKSERRAIVEEHIALVGLTEAADKRPGQLSGGMKQRVAIARAL 129
>gnl|CDD|224060 COG1137, YhbG, ABC-type (unclassified) transport system, ATPase
component [General function prediction only].
Length = 243
Score = 33.7 bits (78), Expect = 0.027
Identities = 21/75 (28%), Positives = 34/75 (45%), Gaps = 2/75 (2%)
Query: 84 GIGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSG--PIIDYWIDLLGLTEYRHRVSGR 141
GIGY PQ I LT ++ + +R K+ +D ++ +T R +
Sbjct: 80 GIGYLPQEASIFRKLTVEDNIMAVLEIREKDLKKAERKEELDALLEEFHITHLRDSKAYS 139
Query: 142 YSGGNKRKLSTAMAL 156
SGG +R++ A AL
Sbjct: 140 LSGGERRRVEIARAL 154
>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 = 33.3 bits (77), Expect = 0.035
Identities = 20/74 (27%), Positives = 32/74 (43%), Gaps = 31/74 (41%)
Query: 85 IGYCPQFNGINEHLTAQEMLECFSA-LRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYS 143
IGY PQ + ++ LT +E L F+A LRG+ S
Sbjct: 84 IGYVPQDDILHPTLTVRETLM-FAAKLRGL-----------------------------S 113
Query: 144 GGNKRKLSTAMALI 157
GG ++++S A+ L+
Sbjct: 114 GGERKRVSIALELV 127
Score = 32.5 bits (75), Expect = 0.063
Identities = 15/32 (46%), Positives = 21/32 (65%), Gaps = 2/32 (6%)
Query: 10 IGYCPQFNGINEHLTAQEMLECFSA-LRGIPG 40
IGY PQ + ++ LT +E L F+A LRG+ G
Sbjct: 84 IGYVPQDDILHPTLTVRETLM-FAAKLRGLSG 114
>gnl|CDD|223487 COG0410, LivF, ABC-type branched-chain amino acid transport
systems, ATPase component [Amino acid transport and
metabolism].
Length = 237
Score = 33.2 bits (77), Expect = 0.038
Identities = 33/129 (25%), Positives = 48/129 (37%), Gaps = 25/129 (19%)
Query: 34 ALRGIPGVKSGPIIDYWIDLLGSAI-RFSPFQAAQNSLLMTNIMHLFQYLSGIGYCPQFN 92
+ G+ +SG II G I P + L GI Y P+
Sbjct: 48 TIMGLVRPRSGRII-----FDGEDITGLPPHE----------RARL-----GIAYVPEGR 87
Query: 93 GINEHLTAQEMLEC-FSALRGIPGVKSGPIIDYWIDLL-GLTEYRHRVSGRYSGGNKRKL 150
I LT +E L A R + Y +L L E R++ +G SGG ++ L
Sbjct: 88 RIFPRLTVEENLLLGAYARRDKEAQERDLEEVY--ELFPRLKERRNQRAGTLSGGEQQML 145
Query: 151 STAMALIGD 159
+ A AL+
Sbjct: 146 AIARALMSR 154
>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 = 33.2 bits (77), Expect = 0.043
Identities = 14/49 (28%), Positives = 25/49 (51%)
Query: 111 RGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSGGNKRKLSTAMALIGD 159
G+P + ++ ++L+GL R R SGG K++++ A L D
Sbjct: 104 LGLPEEEIEERVEEALELVGLEGLRDRSPFTLSGGQKQRVAIAGVLAMD 152
>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 = 31.8 bits (73), Expect = 0.12
Identities = 25/87 (28%), Positives = 38/87 (43%), Gaps = 12/87 (13%)
Query: 83 SGIGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSG----------PIIDYWIDLLGLT 132
+GIG Q + E+LT E LE AL V + I+ ++ +GL
Sbjct: 77 AGIGRKFQKPTVFENLTVFENLEL--ALPRDKSVFASLFFRLSAEEKDRIEEVLETIGLA 134
Query: 133 EYRHRVSGRYSGGNKRKLSTAMALIGD 159
+ R++G S G K+ L M L+ D
Sbjct: 135 DEADRLAGLLSHGQKQWLEIGMLLMQD 161
>gnl|CDD|185016 PRK15056, PRK15056, manganese/iron transporter ATP-binding protein;
Provisional.
Length = 272
Score = 31.8 bits (72), Expect = 0.13
Identities = 14/58 (24%), Positives = 25/58 (43%)
Query: 113 IPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSGGNKRKLSTAMALIGDRDDGFQKLPFS 170
+ I+ + + + E+RHR G SGG K+++ A A+ PF+
Sbjct: 114 RAKKRDRQIVTAALARVDMVEFRHRQIGELSGGQKKRVFLARAIAQQGQVILLDEPFT 171
>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 = 31.9 bits (73), Expect = 0.13
Identities = 24/79 (30%), Positives = 35/79 (44%), Gaps = 2/79 (2%)
Query: 85 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGL--TEYRHRVSGRY 142
IGY Q G+ H+T +E + L P K D + L+GL E+ R
Sbjct: 77 IGYVIQQIGLFPHMTVEENIALVPKLLKWPKEKIRERADELLALVGLDPAEFADRYPHEL 136
Query: 143 SGGNKRKLSTAMALIGDRD 161
SGG ++++ A AL D
Sbjct: 137 SGGQQQRVGVARALAADPP 155
>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 = 31.5 bits (72), Expect = 0.15
Identities = 16/74 (21%), Positives = 33/74 (44%)
Query: 84 GIGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYS 143
I Y PQ + H+T + + R + + + ++LG+ +R S
Sbjct: 72 DISYVPQNYALFPHMTVYKNIAYGLKKRKVDKKEIERKVLEIAEMLGIDHLLNRKPETLS 131
Query: 144 GGNKRKLSTAMALI 157
GG +++++ A AL+
Sbjct: 132 GGEQQRVAIARALV 145
>gnl|CDD|226905 COG4525, TauB, ABC-type taurine transport system, ATPase component
[Inorganic ion transport and metabolism].
Length = 259
Score = 31.6 bits (72), Expect = 0.15
Identities = 18/74 (24%), Positives = 31/74 (41%)
Query: 98 LTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSGGNKRKLSTAMALI 157
L + + LRGI + I + L+GL H+ + SGG ++++ A AL
Sbjct: 89 LNVIDNVAFGLQLRGIEKAQRREIAHQMLALVGLEGAEHKYIWQLSGGMRQRVGIARALA 148
Query: 158 GDRDDGFQKLPFSS 171
+ PF +
Sbjct: 149 VEPQLLLLDEPFGA 162
>gnl|CDD|224046 COG1121, ZnuC, ABC-type Mn/Zn transport systems, ATPase component
[Inorganic ion transport and metabolism].
Length = 254
Score = 31.4 bits (72), Expect = 0.19
Identities = 20/83 (24%), Positives = 38/83 (45%), Gaps = 6/83 (7%)
Query: 85 IGYCPQFNGINEH--LTAQEMLECF----SALRGIPGVKSGPIIDYWIDLLGLTEYRHRV 138
IGY PQ + ++ +T ++++ K +D ++ +G+ + R R
Sbjct: 77 IGYVPQKSSVDRSFPITVKDVVLLGRYGKKGWFRRLNKKDKEKVDEALERVGMEDLRDRQ 136
Query: 139 SGRYSGGNKRKLSTAMALIGDRD 161
G SGG K+++ A AL + D
Sbjct: 137 IGELSGGQKQRVLLARALAQNPD 159
>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 = 30.5 bits (70), Expect = 0.34
Identities = 14/52 (26%), Positives = 31/52 (59%)
Query: 110 LRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSGGNKRKLSTAMALIGDRD 161
L+G+P ++ + ++L+GL+ + + + SGG +++++ A AL D D
Sbjct: 100 LQGVPKAEARERAEELLELVGLSGFENAYPHQLSGGMRQRVALARALAVDPD 151
>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 = 30.0 bits (68), Expect = 0.49
Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 8/77 (10%)
Query: 84 GIGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPI---IDYWIDLLGLTEYRHRVSG 140
IG Q + HL +E L G+ ++ +D +DLLGL +R
Sbjct: 76 KIGLVFQQYALFPHLNVRENLAF-----GLKRKRNREDRISVDELLDLLGLDHLLNRYPA 130
Query: 141 RYSGGNKRKLSTAMALI 157
+ SGG K++++ A AL
Sbjct: 131 QLSGGEKQRVALARALA 147
>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 = 29.8 bits (67), Expect = 0.57
Identities = 18/80 (22%), Positives = 31/80 (38%), Gaps = 6/80 (7%)
Query: 81 YLSGIGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSG 140
G+ Y GI L+ E L + A V+ + +GL + R
Sbjct: 71 IARGLLYLGHAPGIKTTLSVLENLRFWHADHSDEQVEEA------LARVGLNGFEDRPVA 124
Query: 141 RYSGGNKRKLSTAMALIGDR 160
+ S G +R+++ A L+ R
Sbjct: 125 QLSAGQQRRVALARLLLSGR 144
>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 = 30.0 bits (67), Expect = 0.61
Identities = 14/85 (16%), Positives = 36/85 (42%)
Query: 73 TNIMHLFQYLSGIGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLT 132
++ H + G+ Q + HL ++ + + +P + + L+GL
Sbjct: 69 RDLTHAPPHKRGLALLFQNYALFPHLKVEDNVAFGLRAQKMPKADIAERVADALKLVGLG 128
Query: 133 EYRHRVSGRYSGGNKRKLSTAMALI 157
+ + + SGG +++++ A A+
Sbjct: 129 DAAAHLPAQLSGGMQQRIAIARAIA 153
>gnl|CDD|227019 COG4674, COG4674, Uncharacterized ABC-type transport system, ATPase
component [General function prediction only].
Length = 249
Score = 29.6 bits (67), Expect = 0.68
Identities = 25/84 (29%), Positives = 37/84 (44%), Gaps = 8/84 (9%)
Query: 84 GIGYCPQFNGINEHLTAQEMLE--------CFSALRGIPGVKSGPIIDYWIDLLGLTEYR 135
GIG Q + E+LT +E LE F++L + ID + +GL + R
Sbjct: 82 GIGRKFQKPTVFENLTVRENLELALNRDKSVFASLFARLRAEERRRIDELLATIGLGDER 141
Query: 136 HRVSGRYSGGNKRKLSTAMALIGD 159
R++ S G K+ L M L D
Sbjct: 142 DRLAALLSHGQKQWLEIGMLLAQD 165
>gnl|CDD|145131 pfam01806, Paramyxo_P, Paramyxovirinae P phosphoprotein C-terminal
region. The subfamily Paramyxovirinae of the family
Paramyxoviridae now contains as main genera the
Rubulaviruses, avulaviruses, respiroviruses,
Henipavirus-es and morbilliviruses. Protein P is the
best characterized, structurally of the replicative
complex of N, P and L proteins and consists of two
functionally distinct moieties, an N-terminal PNT, and a
C-terminal PCT. The P protein is an essential part of
the viral RNA polymerase complex formed from the P and L
proteins. P protein plays a crucial role in the enzyme
by positioning L onto the N/RNA template through an
interaction with the C-terminal domain of N. Without P,
L is not functional.The C-terminal part of P (PCT) is
only functional as an oligomer and forms with L the
polymerase complex. PNT is poorly conserved and
unstructured in solution while PCT contains the
oligomerisation domain (PMD) that folds as a
homotetrameric coiled coil (40) containing the L binding
region and a C-terminal partially folded domain, PX
(residues 474 to 568), identified as the nucleocapsid
binding site. Interestingly, PX is also expressed as an
independent polypeptide in infected cells. PX has a
C-subdomain (residues 516 to 568) that consists of three
{alpha}-helices arranged in an antiparallel
triple-helical bundle linked to an unfolded flexible
N-subdomain (residues 474 to 515).
Length = 248
Score = 29.6 bits (66), Expect = 0.82
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 59 RFSPFQAAQNSLLMTNIMHL 78
RFS +Q QNSL+M+N+ L
Sbjct: 91 RFSEYQKEQNSLIMSNLSTL 110
>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 = 28.9 bits (66), Expect = 0.87
Identities = 11/34 (32%), Positives = 18/34 (52%)
Query: 126 IDLLGLTEYRHRVSGRYSGGNKRKLSTAMALIGD 159
++LLGL R SGG ++++ A AL +
Sbjct: 82 LELLGLAHLADRPFNELSGGERQRVLLARALAQE 115
>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 = 29.3 bits (66), Expect = 0.89
Identities = 9/29 (31%), Positives = 17/29 (58%)
Query: 128 LLGLTEYRHRVSGRYSGGNKRKLSTAMAL 156
+G + R R + SGG K++++ A A+
Sbjct: 114 AVGASGLRERPTHCLSGGEKKRVAIAGAV 142
>gnl|CDD|172200 PRK13652, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 277
Score = 29.4 bits (66), Expect = 0.91
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 128 LLGLTEYRHRVSGRYSGGNKRKLSTA 153
+LGL E R RV SGG K++++ A
Sbjct: 124 MLGLEELRDRVPHHLSGGEKKRVAIA 149
>gnl|CDD|226963 COG4604, CeuD, ABC-type enterochelin transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 252
Score = 28.8 bits (65), Expect = 1.3
Identities = 22/74 (29%), Positives = 34/74 (45%), Gaps = 2/74 (2%)
Query: 90 QFNGINEHLTAQEMLEC--FSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSGGNK 147
Q N IN LT ++++ F +G + II+ I+ L L + R SGG +
Sbjct: 82 QENHINSRLTVRDLVGFGRFPYSQGRLTKEDRRIINEAIEYLHLEDLSDRYLDELSGGQR 141
Query: 148 RKLSTAMALIGDRD 161
++ AM L D D
Sbjct: 142 QRAFIAMVLAQDTD 155
>gnl|CDD|224047 COG1122, CbiO, ABC-type cobalt transport system, ATPase component
[Inorganic ion transport and metabolism].
Length = 235
Score = 28.8 bits (65), Expect = 1.4
Identities = 18/95 (18%), Positives = 32/95 (33%), Gaps = 25/95 (26%)
Query: 63 FQAAQNSLLMTNIMHLFQYLSGIGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPII 122
FQ + L + + + N L +E+ E +
Sbjct: 85 FQNPDDQLFGPTV------EDEVAFGL----ENLGLPREEIEE---------------RV 119
Query: 123 DYWIDLLGLTEYRHRVSGRYSGGNKRKLSTAMALI 157
++L+GL E R SGG K++++ A L
Sbjct: 120 AEALELVGLEELLDRPPFNLSGGQKQRVAIAGVLA 154
>gnl|CDD|215599 PLN03140, PLN03140, ABC transporter G family member; Provisional.
Length = 1470
Score = 28.7 bits (64), Expect = 1.9
Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 5/49 (10%)
Query: 115 GVKSGPIIDYWIDLLGLTEYRHRVSGR-----YSGGNKRKLSTAMALIG 158
GVKS I DY + +LGL + + G SGG K++++T ++G
Sbjct: 305 GVKSSLITDYTLKILGLDICKDTIVGDEMIRGISGGQKKRVTTGEMIVG 353
>gnl|CDD|183080 PRK11300, livG, leucine/isoleucine/valine transporter ATP-binding
subunit; Provisional.
Length = 255
Score = 28.4 bits (64), Expect = 2.0
Identities = 10/34 (29%), Positives = 21/34 (61%)
Query: 124 YWIDLLGLTEYRHRVSGRYSGGNKRKLSTAMALI 157
W++ +GL E+ +R +G + G +R+L A ++
Sbjct: 136 TWLERVGLLEHANRQAGNLAYGQQRRLEIARCMV 169
>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 = 28.0 bits (63), Expect = 2.1
Identities = 13/30 (43%), Positives = 18/30 (60%), Gaps = 2/30 (6%)
Query: 10 IGYCPQFNGINEHLTAQEMLECFSA-LRGI 38
GY Q + + +LT +E L FSA LRG+
Sbjct: 81 TGYVEQQDVHSPNLTVREALR-FSALLRGL 109
Score = 28.0 bits (63), Expect = 2.1
Identities = 13/30 (43%), Positives = 18/30 (60%), Gaps = 2/30 (6%)
Query: 85 IGYCPQFNGINEHLTAQEMLECFSA-LRGI 113
GY Q + + +LT +E L FSA LRG+
Sbjct: 81 TGYVEQQDVHSPNLTVREALR-FSALLRGL 109
>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 = 28.0 bits (63), Expect = 2.2
Identities = 13/38 (34%), Positives = 21/38 (55%), Gaps = 2/38 (5%)
Query: 126 IDLLGLTEYRHRVSGR--YSGGNKRKLSTAMALIGDRD 161
I L L E R R+ SGG +++++ A AL+ + D
Sbjct: 63 IAKLPLEELRRRIGYVPQLSGGQRQRVALARALLLNPD 100
>gnl|CDD|226628 COG4148, ModC, ABC-type molybdate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 352
Score = 28.1 bits (63), Expect = 2.4
Identities = 14/50 (28%), Positives = 23/50 (46%)
Query: 122 IDYWIDLLGLTEYRHRVSGRYSGGNKRKLSTAMALIGDRDDGFQKLPFSS 171
D + LLG+ R G SGG K++++ AL+ + P +S
Sbjct: 109 FDQLVALLGIEHLLDRYPGTLSGGEKQRVAIGRALLTAPELLLMDEPLAS 158
>gnl|CDD|237917 PRK15134, PRK15134, microcin C ABC transporter ATP-binding protein
YejF; Provisional.
Length = 529
Score = 28.1 bits (63), Expect = 2.8
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 133 EYRHRVSGRYSGGNKRKLSTAMALI 157
E RHR +SGG +++++ A ALI
Sbjct: 417 ETRHRYPAEFSGGQRQRIAIARALI 441
>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 = 27.5 bits (62), Expect = 3.0
Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 6/77 (7%)
Query: 84 GIGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYW---IDLLGLTEYRHRVSG 140
IG Q + HLT E + F L+ + GV I ++L+GL +R
Sbjct: 73 NIGMVFQDYALFPHLTVAENI-AF-GLK-LRGVPKAEIRARVRELLELVGLEGLLNRYPH 129
Query: 141 RYSGGNKRKLSTAMALI 157
SGG +++++ A AL
Sbjct: 130 ELSGGQQQRVALARALA 146
>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 = 27.2 bits (61), Expect = 4.3
Identities = 11/32 (34%), Positives = 21/32 (65%)
Query: 126 IDLLGLTEYRHRVSGRYSGGNKRKLSTAMALI 157
+DL+ L Y +R + SGG +++++ A AL+
Sbjct: 115 LDLVQLEGYANRKPSQLSGGQQQRVAIARALV 146
>gnl|CDD|233208 TIGR00956, 3a01205, Pleiotropic Drug Resistance (PDR) Family
protein. [Transport and binding proteins, Other].
Length = 1394
Score = 27.8 bits (62), Expect = 4.4
Identities = 19/62 (30%), Positives = 24/62 (38%), Gaps = 9/62 (14%)
Query: 85 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPI------IDYWIDLLGLTEYRHRV 138
IGY Q + T +E L FSA P KS ++ I LL + Y V
Sbjct: 838 IGYVQQQDLHLPTSTVRESLR-FSAYLRQP--KSVSKSEKMEYVEEVIKLLEMESYADAV 894
Query: 139 SG 140
G
Sbjct: 895 VG 896
>gnl|CDD|224058 COG1135, AbcC, ABC-type metal ion transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 339
Score = 27.2 bits (61), Expect = 4.5
Identities = 11/32 (34%), Positives = 21/32 (65%)
Query: 125 WIDLLGLTEYRHRVSGRYSGGNKRKLSTAMAL 156
++L+GL++ R + SGG K++++ A AL
Sbjct: 125 LLELVGLSDKADRYPAQLSGGQKQRVAIARAL 156
>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 = 27.3 bits (61), Expect = 4.5
Identities = 11/36 (30%), Positives = 21/36 (58%)
Query: 122 IDYWIDLLGLTEYRHRVSGRYSGGNKRKLSTAMALI 157
+ +DL+GL + G+ SGG +++++ A AL
Sbjct: 115 VAELLDLVGLPGSERKYPGQLSGGQQQRVALARALA 150
>gnl|CDD|164955 PHA02560, FI, major tail sheath protein; Provisional.
Length = 388
Score = 27.4 bits (61), Expect = 4.8
Identities = 12/49 (24%), Positives = 20/49 (40%), Gaps = 3/49 (6%)
Query: 15 QFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGSAIRFSPF 63
++ GI L AQ +L + G PG+ + + L A + F
Sbjct: 109 KYTGIKALLAAQNVLGVKPRILGAPGLDTQAVAV---ALAAMAQKLRAF 154
>gnl|CDD|224048 COG1123, COG1123, ATPase components of various ABC-type transport
systems, contain duplicated ATPase [General function
prediction only].
Length = 539
Score = 27.2 bits (61), Expect = 5.1
Identities = 17/72 (23%), Positives = 35/72 (48%), Gaps = 2/72 (2%)
Query: 90 QFNGINEHLTAQEML-ECFSALRGIPGVKSGPIIDYWIDLLGL-TEYRHRVSGRYSGGNK 147
++ +N +T ++L E G G + + ++L+GL E+ R SGG +
Sbjct: 376 PYSSLNPRMTVGDILAEPLRIHGGGSGAERRARVAELLELVGLPPEFLDRYPHELSGGQR 435
Query: 148 RKLSTAMALIGD 159
++++ A AL +
Sbjct: 436 QRVAIARALALE 447
>gnl|CDD|237421 PRK13539, PRK13539, cytochrome c biogenesis protein CcmA;
Provisional.
Length = 207
Score = 26.8 bits (60), Expect = 5.2
Identities = 20/69 (28%), Positives = 31/69 (44%), Gaps = 4/69 (5%)
Query: 92 NGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSGGNKRKLS 151
N + LT E LE ++A G I ++ +GL H G S G KR+++
Sbjct: 82 NAMKPALTVAENLEFWAAFLG----GEELDIAAALEAVGLAPLAHLPFGYLSAGQKRRVA 137
Query: 152 TAMALIGDR 160
A L+ +R
Sbjct: 138 LARLLVSNR 146
>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 = 26.9 bits (60), Expect = 5.3
Identities = 18/74 (24%), Positives = 34/74 (45%), Gaps = 4/74 (5%)
Query: 80 QYLSGIGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVS 139
+ I Y G+ L+A E L ++A+ G + I+ + +GLT + +
Sbjct: 70 EPHRNILYLGHLPGLKPELSALENLHFWAAIHG----GAQRTIEDALAAVGLTGFEDLPA 125
Query: 140 GRYSGGNKRKLSTA 153
+ S G +R+L+ A
Sbjct: 126 AQLSAGQQRRLALA 139
>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 = 27.0 bits (60), Expect = 5.6
Identities = 16/62 (25%), Positives = 32/62 (51%)
Query: 110 LRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSGGNKRKLSTAMALIGDRDDGFQKLPF 169
++G+P + +D ++L+GL ++ R G SGG ++++ A A + PF
Sbjct: 133 MQGMPKAERRKRVDEQLELVGLAQWADRKPGELSGGMQQRVGLARAFATEAPILLMDEPF 192
Query: 170 SS 171
S+
Sbjct: 193 SA 194
>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 = 26.7 bits (59), Expect = 5.7
Identities = 14/43 (32%), Positives = 21/43 (48%)
Query: 114 PGVKSGPIIDYWIDLLGLTEYRHRVSGRYSGGNKRKLSTAMAL 156
P V + + +GLTE R G SGG ++++ A AL
Sbjct: 86 PCVADFAAVRDALRRVGLTELADRPVGELSGGQRQRVLVARAL 128
>gnl|CDD|237648 PRK14250, PRK14250, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 241
Score = 26.7 bits (59), Expect = 6.5
Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 5/59 (8%)
Query: 99 TAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLT-EYRHRVSGRYSGGNKRKLSTAMAL 156
T ++ +E L+G V ++Y++ ++GL EY R SGG +++S A L
Sbjct: 92 TVKDNIEYGPMLKGEKNVD----VEYYLSIVGLNKEYATRDVKNLSGGEAQRVSIARTL 146
>gnl|CDD|143378 cd07873, STKc_PCTAIRE1, Catalytic domain of the Serine/Threonine
Kinase, PCTAIRE-1 kinase. Serine/Threonine Kinases
(STKs), PCTAIRE-1 subfamily, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The PCTAIRE-1 subfamily is part of a larger superfamily
that includes the catalytic domains of other protein
STKs, protein tyrosine kinases, RIO kinases,
aminoglycoside phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. PCTAIRE-1 shares sequence
similarity with Cyclin-Dependent Kinases (CDKs), which
belong to a large family of STKs that are regulated by
their cognate cyclins. Together, CDKs and cyclins are
involved in the control of cell-cycle progression,
transcription, and neuronal function. PCTAIRE-1 is
expressed ubiquitously and is localized in the
cytoplasm. Its kinase activity is cell cycle dependent
and peaks at the S and G2 phases. PCTAIRE-1 is highly
expressed in the brain and may play a role in regulating
neurite outgrowth. It can also associate with Trap
(Tudor repeat associator with PCTAIRE-2), a
physiological partner of PCTAIRE-2; with p11, a small
dimeric protein with similarity to S100; and with 14-3-3
proteins, mediators of phosphorylation-dependent
interactions in many different proteins.
Length = 301
Score = 26.9 bits (59), Expect = 6.6
Identities = 26/88 (29%), Positives = 40/88 (45%), Gaps = 17/88 (19%)
Query: 68 NSLLMTNI-MHLFQYLSGIGYCPQFNGINEHLTAQEML-----ECFSALRGIPGVKSGP- 120
NS+ M N+ + LFQ L G+ YC + ++ L Q +L E A G+ KS P
Sbjct: 99 NSINMHNVKLFLFQLLRGLNYCHRRKVLHRDLKPQNLLINERGELKLADFGLARAKSIPT 158
Query: 121 ------IIDYWID----LLGLTEYRHRV 138
++ W LLG T+Y ++
Sbjct: 159 KTYSNEVVTLWYRPPDILLGSTDYSTQI 186
>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 = 26.4 bits (58), Expect = 7.9
Identities = 20/86 (23%), Positives = 38/86 (44%), Gaps = 8/86 (9%)
Query: 90 QFNGINEHLTAQEMLECFSALRGIPGVKSGPI----IDYWIDLLGLTEYRHRVSGRYSGG 145
Q N + HLT ++ + L PG+K + +G+ +Y R+ + SGG
Sbjct: 77 QENNLFAHLTVRQNI----GLGLHPGLKLNAEQQEKVVDAAQQVGIADYLDRLPEQLSGG 132
Query: 146 NKRKLSTAMALIGDRDDGFQKLPFSS 171
+++++ A L+ PFS+
Sbjct: 133 QRQRVALARCLVRPNPILLLDEPFSA 158
>gnl|CDD|184209 PRK13650, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 279
Score = 26.6 bits (59), Expect = 7.9
Identities = 13/46 (28%), Positives = 29/46 (63%)
Query: 111 RGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSGGNKRKLSTAMAL 156
+GIP + ++ ++L+G+ +++ R R SGG K++++ A A+
Sbjct: 110 KGIPHEEMKERVNEALELVGMQDFKEREPARLSGGQKQRVAIAGAV 155
>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 = 26.6 bits (59), Expect = 8.0
Identities = 13/32 (40%), Positives = 21/32 (65%)
Query: 126 IDLLGLTEYRHRVSGRYSGGNKRKLSTAMALI 157
I+LLG+ R+ GR SGG K++++ AL+
Sbjct: 116 IELLGIGHLLGRLPGRLSGGEKQRVAIGRALL 147
>gnl|CDD|188897 cd09498, SAM_caskin1,2_repeat2, SAM domain of caskin protein repeat
2. SAM (sterile alpha motif) domain repeat 2 of
caskin1,2 proteins is a protein-protein interaction
domain. Caskin has two tandem SAM domains. Caskin
protein is known to interact with membrane-associated
guanylate kinase CASK, and may play a role in neural
development, synaptic protein targeting, and regulation
of gene expression.
Length = 71
Score = 24.9 bits (55), Expect = 9.0
Identities = 7/23 (30%), Positives = 13/23 (56%), Gaps = 1/23 (4%)
Query: 112 GIPGVKSGPIIDYWIDLLGLTEY 134
+P +++ W+ LLGL +Y
Sbjct: 1 WLPDYPPNDLLE-WLSLLGLPQY 22
>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 = 26.3 bits (58), Expect = 9.2
Identities = 22/86 (25%), Positives = 40/86 (46%), Gaps = 8/86 (9%)
Query: 90 QFNGINEHLTAQEMLECFSALRGIPGVKSGPI----IDYWIDLLGLTEYRHRVSGRYSGG 145
Q N + HLT ++ + L PG+K I+ + +GL R+ G SGG
Sbjct: 77 QENNLFAHLTVEQNV----GLGLSPGLKLTAEDRQAIEVALARVGLAGLEKRLPGELSGG 132
Query: 146 NKRKLSTAMALIGDRDDGFQKLPFSS 171
+++++ A L+ D+ PF++
Sbjct: 133 ERQRVALARVLVRDKPVLLLDEPFAA 158
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
0.324 0.141 0.440
Gapped
Lambda K H
0.267 0.0559 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,190,915
Number of extensions: 844880
Number of successful extensions: 782
Number of sequences better than 10.0: 1
Number of HSP's gapped: 764
Number of HSP's successfully gapped: 102
Length of query: 178
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 87
Effective length of database: 6,901,388
Effective search space: 600420756
Effective search space used: 600420756
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 56 (25.7 bits)