RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12072
(76 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 = 66.8 bits (164), Expect = 1e-15
Identities = 23/42 (54%), Positives = 32/42 (76%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNEK 61
K +LK+VSG+ + GEL+AI+GPSGAGKS+LLN ++G
Sbjct: 22 KQLLKNVSGKAKPGELTAIMGPSGAGKSTLLNALAGRRTGLG 63
>gnl|CDD|237422 PRK13548, hmuV, hemin importer ATP-binding subunit; Provisional.
Length = 258
Score = 62.5 bits (153), Expect = 1e-13
Identities = 21/37 (56%), Positives = 27/37 (72%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGY 56
+T+L VS R GE+ AILGP+GAGKS+LL +SG
Sbjct: 15 RTLLDDVSLTLRPGEVVAILGPNGAGKSTLLRALSGE 51
>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 = 61.5 bits (150), Expect = 3e-13
Identities = 18/43 (41%), Positives = 26/43 (60%)
Query: 13 FNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+ IL VS +G++ AILG SG+GK++LL+ ISG
Sbjct: 13 AKNWNKYARILNDVSLHVESGQVMAILGSSGSGKTTLLDAISG 55
>gnl|CDD|233207 TIGR00955, 3a01204, The Eye Pigment Precursor Transporter (EPP)
Family protein. [Transport and binding proteins,
Other].
Length = 617
Score = 60.4 bits (147), Expect = 1e-12
Identities = 18/37 (48%), Positives = 28/37 (75%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGY 56
K +LK+VSG + GEL A++G SGAGK++L+N ++
Sbjct: 38 KHLLKNVSGVAKPGELLAVMGSSGAGKTTLMNALAFR 74
>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 = 54.7 bits (133), Expect = 4e-11
Identities = 19/44 (43%), Positives = 27/44 (61%)
Query: 18 PAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNEK 61
+T+L +S AGE+ ILGP+GAGKS+LL ++G K
Sbjct: 10 GGRTVLDDLSLSIEAGEIVGILGPNGAGKSTLLKTLAGLLKPSS 53
>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 = 53.8 bits (130), Expect = 8e-11
Identities = 19/50 (38%), Positives = 32/50 (64%), Gaps = 3/50 (6%)
Query: 6 HVTMVTFFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+ ++F +T L +VS +AGE+ A++GP+G+GKS+LL I+G
Sbjct: 1 EIENLSF---RYGGRTALDNVSLTLKAGEIVALVGPNGSGKSTLLRAIAG 47
>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 = 54.0 bits (131), Expect = 1e-10
Identities = 19/46 (41%), Positives = 27/46 (58%)
Query: 13 FNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
+ LK VS GE AI+GPSG+GKS+LLN++ G ++
Sbjct: 10 YGGGGEKVQALKGVSLSIEKGEFVAIVGPSGSGKSTLLNILGGLDR 55
>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 = 54.0 bits (131), Expect = 1e-10
Identities = 20/53 (37%), Positives = 31/53 (58%), Gaps = 2/53 (3%)
Query: 6 HVTMVTFFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
+V+ + A T L+ +S GE A++GPSG GKS+LL +I+G E+
Sbjct: 5 NVSKT--YGGGGGAVTALEDISLSVEEGEFVALVGPSGCGKSTLLRIIAGLER 55
>gnl|CDD|224059 COG1136, SalX, ABC-type antimicrobial peptide transport system,
ATPase component [Defense mechanisms].
Length = 226
Score = 54.1 bits (131), Expect = 2e-10
Identities = 20/39 (51%), Positives = 27/39 (69%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
LK V+ AGE AI+GPSG+GKS+LLN++ G +K
Sbjct: 18 VEALKDVNLEIEAGEFVAIVGPSGSGKSTLLNLLGGLDK 56
>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 = 52.8 bits (128), Expect = 2e-10
Identities = 20/44 (45%), Positives = 28/44 (63%)
Query: 13 FNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGY 56
F+ P K +LK VS + GE AI+GPSG+GKS+LL ++
Sbjct: 8 FSYPGRPKPVLKDVSLTIKPGEKVAIVGPSGSGKSTLLKLLLRL 51
>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 = 53.8 bits (130), Expect = 3e-10
Identities = 18/34 (52%), Positives = 25/34 (73%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISGY 56
L+ VS GE A++GPSGAGKS+LLN++ G+
Sbjct: 338 LRPVSFTVPPGERVALVGPSGAGKSTLLNLLLGF 371
>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 = 52.9 bits (128), Expect = 3e-10
Identities = 17/39 (43%), Positives = 24/39 (61%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
L +S GE A+LGPSG GK++LL +I+G E+
Sbjct: 13 VRALDDLSLTVEPGEFLALLGPSGCGKTTLLRLIAGLER 51
>gnl|CDD|226929 COG4559, COG4559, ABC-type hemin transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 259
Score = 53.5 bits (129), Expect = 3e-10
Identities = 20/37 (54%), Positives = 26/37 (70%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGY 56
+ +L VS R GE+ AILGP+GAGKS+LL +SG
Sbjct: 14 RRLLDGVSLDLRPGEVLAILGPNGAGKSTLLKALSGE 50
>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 = 52.2 bits (126), Expect = 4e-10
Identities = 19/44 (43%), Positives = 26/44 (59%)
Query: 12 FFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
F P +L++VS GE AI+GPSG+GKS+L +I G
Sbjct: 7 SFRYPGAEPPVLRNVSFSIEPGESLAIIGPSGSGKSTLARLILG 50
>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 = 52.5 bits (127), Expect = 4e-10
Identities = 16/43 (37%), Positives = 26/43 (60%)
Query: 16 PSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
P A+ L +S + GE I+GP+G+GKS+LL +++G
Sbjct: 10 PDGARPALDDISLTIKKGEFVLIVGPNGSGKSTLLRLLNGLLG 52
>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 = 52.2 bits (126), Expect = 5e-10
Identities = 22/39 (56%), Positives = 29/39 (74%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
KT+L VS AGE+ A+LGPSG+GKS+LL I+G E+
Sbjct: 13 KTVLNDVSLNIEAGEIVALLGPSGSGKSTLLRCIAGLEE 51
>gnl|CDD|182716 PRK10771, thiQ, thiamine transporter ATP-binding subunit;
Provisional.
Length = 232
Score = 52.3 bits (126), Expect = 6e-10
Identities = 20/32 (62%), Positives = 24/32 (75%), Gaps = 4/32 (12%)
Query: 29 RF----RAGELSAILGPSGAGKSSLLNVISGY 56
RF GE AILGPSGAGKS+LLN+I+G+
Sbjct: 17 RFDLTVERGERVAILGPSGAGKSTLLNLIAGF 48
>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 = 51.7 bits (125), Expect = 9e-10
Identities = 19/48 (39%), Positives = 28/48 (58%), Gaps = 2/48 (4%)
Query: 10 VTFFNEPSPAKT--ILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+F + +T LK ++ GEL AI+GP G+GKSSLL+ + G
Sbjct: 6 ASFTWDSGEQETSFTLKDINLEVPKGELVAIVGPVGSGKSSLLSALLG 53
>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 = 51.8 bits (125), Expect = 1e-09
Identities = 19/36 (52%), Positives = 24/36 (66%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
K LK VS GE A++GPSGAGKS+LL ++G
Sbjct: 14 KKALKDVSLSINPGEFVALIGPSGAGKSTLLRCLNG 49
>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 = 51.7 bits (125), Expect = 1e-09
Identities = 17/36 (47%), Positives = 26/36 (72%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
L VS R GE+ ++GP+GAGK++L N+ISG+ +
Sbjct: 16 LDDVSFSVRPGEIHGLIGPNGAGKTTLFNLISGFLR 51
>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 = 52.3 bits (126), Expect = 1e-09
Identities = 17/36 (47%), Positives = 27/36 (75%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
K L ++ +AG+L+A++G SGAGKS+LLN++ G
Sbjct: 334 KPALSDLNLTIKAGQLTALVGASGAGKSTLLNLLLG 369
>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 = 51.9 bits (125), Expect = 2e-09
Identities = 24/53 (45%), Positives = 32/53 (60%), Gaps = 3/53 (5%)
Query: 10 VTF-FNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNEK 61
VTF + P IL VS + GE AI+GPSG+GKS+LL ++ G+E E
Sbjct: 457 VTFRYRPDGPL--ILDDVSLQIEPGEFVAIVGPSGSGKSTLLRLLLGFETPES 507
>gnl|CDD|224041 COG1116, TauB, ABC-type nitrate/sulfonate/bicarbonate transport
system, ATPase component [Inorganic ion transport and
metabolism].
Length = 248
Score = 51.4 bits (124), Expect = 2e-09
Identities = 19/38 (50%), Positives = 26/38 (68%)
Query: 21 TILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
+L+ ++ GE AILGPSG GKS+LL +I+G EK
Sbjct: 17 EVLEDINLSVEKGEFVAILGPSGCGKSTLLRLIAGLEK 54
>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 = 50.7 bits (122), Expect = 2e-09
Identities = 16/40 (40%), Positives = 29/40 (72%)
Query: 16 PSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+ +L ++SG + G L+A++G SGAGK++LL+V++G
Sbjct: 16 KGGKRQLLNNISGYVKPGTLTALMGESGAGKTTLLDVLAG 55
>gnl|CDD|226360 COG3840, ThiQ, ABC-type thiamine transport system, ATPase
component [Coenzyme metabolism].
Length = 231
Score = 50.8 bits (122), Expect = 2e-09
Identities = 20/29 (68%), Positives = 25/29 (86%)
Query: 29 RFRAGELSAILGPSGAGKSSLLNVISGYE 57
AGE+ AILGPSGAGKS+LLN+I+G+E
Sbjct: 21 TVPAGEIVAILGPSGAGKSTLLNLIAGFE 49
>gnl|CDD|224054 COG1131, CcmA, ABC-type multidrug transport system, ATPase
component [Defense mechanisms].
Length = 293
Score = 51.2 bits (123), Expect = 2e-09
Identities = 17/36 (47%), Positives = 25/36 (69%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
KT L VS GE+ +LGP+GAGK++LL +++G
Sbjct: 18 KTALDGVSFEVEPGEIFGLLGPNGAGKTTLLKILAG 53
>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 = 50.7 bits (122), Expect = 3e-09
Identities = 17/47 (36%), Positives = 25/47 (53%)
Query: 13 FNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKN 59
+ A L +VS GE I+G SG+GKS+L +++G EK
Sbjct: 13 YGGGKFAFHALNNVSLEIERGETLGIVGESGSGKSTLARLLAGLEKP 59
>gnl|CDD|224045 COG1120, FepC, ABC-type cobalamin/Fe3+-siderophores transport
systems, ATPase components [Inorganic ion transport and
metabolism / Coenzyme metabolism].
Length = 258
Score = 50.6 bits (122), Expect = 3e-09
Identities = 17/37 (45%), Positives = 25/37 (67%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGY 56
K IL +S GE++ ILGP+G+GKS+LL ++G
Sbjct: 15 KPILDDLSFSIPKGEITGILGPNGSGKSTLLKCLAGL 51
>gnl|CDD|226359 COG3839, MalK, ABC-type sugar transport systems, ATPase
components [Carbohydrate transport and metabolism].
Length = 338
Score = 50.7 bits (122), Expect = 3e-09
Identities = 18/41 (43%), Positives = 26/41 (63%)
Query: 18 PAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
+ +LK V+ GE +LGPSG GKS+LL +I+G E+
Sbjct: 14 GSFEVLKDVNLDIEDGEFVVLLGPSGCGKSTLLRMIAGLEE 54
>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 = 50.2 bits (121), Expect = 3e-09
Identities = 20/36 (55%), Positives = 27/36 (75%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+T+LK V R GE+ AI+GPSG+GKS+LL +I G
Sbjct: 13 RTVLKGVDLDVRRGEILAIIGPSGSGKSTLLRLIVG 48
>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 = 49.8 bits (120), Expect = 5e-09
Identities = 19/41 (46%), Positives = 28/41 (68%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNE 60
K ILK V+ + GE+ A++GP+G+GKS+L I G+ K E
Sbjct: 13 KEILKGVNLTIKKGEVHALMGPNGSGKSTLAKTIMGHPKYE 53
>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 = 50.0 bits (120), Expect = 5e-09
Identities = 19/40 (47%), Positives = 26/40 (65%)
Query: 16 PSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
P K L+ +S +AGE AI+GPSG+GKS+L +I G
Sbjct: 327 PGGKKPTLRGISFSLQAGEALAIIGPSGSGKSTLARLIVG 366
>gnl|CDD|223473 COG0396, sufC, Cysteine desulfurase activator ATPase
[Posttranslational modification, protein turnover,
chaperones].
Length = 251
Score = 49.9 bits (120), Expect = 6e-09
Identities = 20/41 (48%), Positives = 28/41 (68%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNE 60
K ILK V+ + GE+ AI+GP+G+GKS+L I G+ K E
Sbjct: 17 KEILKGVNLTVKEGEVHAIMGPNGSGKSTLAYTIMGHPKYE 57
>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 = 49.6 bits (119), Expect = 6e-09
Identities = 19/36 (52%), Positives = 27/36 (75%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
L VS +GEL A+LGPSG+GK++LL +I+G E+
Sbjct: 18 LDDVSLDIPSGELVALLGPSGSGKTTLLRLIAGLER 53
>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 = 49.5 bits (119), Expect = 7e-09
Identities = 18/36 (50%), Positives = 24/36 (66%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+L+ VS + GE AI+GP+GAGKS+LL I G
Sbjct: 12 HPVLEDVSFEVKPGEFLAIVGPNGAGKSTLLKAILG 47
>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 = 49.6 bits (119), Expect = 7e-09
Identities = 19/41 (46%), Positives = 28/41 (68%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNE 60
K ILK V+ + GE+ AI+GP+G+GKS+L I+G+ E
Sbjct: 13 KEILKGVNLTVKKGEIHAIMGPNGSGKSTLSKTIAGHPSYE 53
>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 = 49.5 bits (119), Expect = 1e-08
Identities = 22/54 (40%), Positives = 32/54 (59%), Gaps = 6/54 (11%)
Query: 10 VTFF--NEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG-YEKNE 60
V+F + +PA L +VS R GE AI+G G+GKS+LL ++ G Y+ E
Sbjct: 469 VSFAYPGQETPA---LDNVSLTIRPGEKVAIIGRIGSGKSTLLKLLLGLYQPTE 519
>gnl|CDD|236870 PRK11174, PRK11174, cysteine/glutathione ABC transporter
membrane/ATP-binding component; Reviewed.
Length = 588
Score = 49.5 bits (119), Expect = 1e-08
Identities = 17/37 (45%), Positives = 26/37 (70%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGY 56
KT+ ++ AG+ A++GPSGAGK+SLLN + G+
Sbjct: 363 KTLAGPLNFTLPAGQRIALVGPSGAGKTSLLNALLGF 399
>gnl|CDD|226164 COG3638, COG3638, ABC-type phosphate/phosphonate transport
system, ATPase component [Inorganic ion transport and
metabolism].
Length = 258
Score = 48.8 bits (117), Expect = 1e-08
Identities = 24/62 (38%), Positives = 30/62 (48%), Gaps = 7/62 (11%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVI-------SGYEKNEKEEEKKKKKKEK 72
LK V+ GE+ AI+GPSGAGKS+LL + SG + K K KE
Sbjct: 17 HQALKDVNLEINQGEMVAIIGPSGAGKSTLLRSLNGLVDPTSGEILFNGVQITKLKGKEL 76
Query: 73 EK 74
K
Sbjct: 77 RK 78
>gnl|CDD|224043 COG1118, CysA, ABC-type sulfate/molybdate transport systems,
ATPase component [Inorganic ion transport and
metabolism].
Length = 345
Score = 48.9 bits (117), Expect = 1e-08
Identities = 21/41 (51%), Positives = 28/41 (68%)
Query: 18 PAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
A L +S ++GEL A+LGPSGAGKS+LL +I+G E
Sbjct: 13 GAFGALDDISLDIKSGELVALLGPSGAGKSTLLRIIAGLET 53
>gnl|CDD|226361 COG3842, PotA, ABC-type spermidine/putrescine transport systems,
ATPase components [Amino acid transport and
metabolism].
Length = 352
Score = 49.2 bits (118), Expect = 1e-08
Identities = 16/40 (40%), Positives = 26/40 (65%)
Query: 19 AKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
T + +S + GE +LGPSG GK++LL +I+G+E+
Sbjct: 17 DFTAVDDISLDIKKGEFVTLLGPSGCGKTTLLRMIAGFEQ 56
>gnl|CDD|215634 PLN03211, PLN03211, ABC transporter G-25; Provisional.
Length = 659
Score = 48.7 bits (116), Expect = 2e-08
Identities = 20/36 (55%), Positives = 28/36 (77%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+TIL V+G GE+ A+LGPSG+GKS+LLN ++G
Sbjct: 81 RTILNGVTGMASPGEILAVLGPSGSGKSTLLNALAG 116
>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 = 48.3 bits (115), Expect = 2e-08
Identities = 18/28 (64%), Positives = 26/28 (92%)
Query: 30 FRAGELSAILGPSGAGKSSLLNVISGYE 57
F GE++AI+GPSG+GKS+LLN+I+G+E
Sbjct: 21 FAQGEITAIVGPSGSGKSTLLNLIAGFE 48
>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 = 47.8 bits (115), Expect = 2e-08
Identities = 17/39 (43%), Positives = 25/39 (64%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
KT L +S GE+ +LGP+GAGK++L+ +I G K
Sbjct: 13 KTALDDISLTVEKGEIYGLLGPNGAGKTTLIKIILGLLK 51
>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 = 48.5 bits (116), Expect = 2e-08
Identities = 18/38 (47%), Positives = 26/38 (68%)
Query: 21 TILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
T LK +S + GE +LGPSG GK++LL +I+G E+
Sbjct: 18 TALKDISLSVKKGEFVCLLGPSGCGKTTLLRIIAGLER 55
>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 = 48.0 bits (115), Expect = 2e-08
Identities = 16/37 (43%), Positives = 21/37 (56%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
L VS R GE + GPSGAGK++LL ++ G
Sbjct: 17 ALHDVSLHIRKGEFLFLTGPSGAGKTTLLKLLYGALT 53
>gnl|CDD|224044 COG1119, ModF, ABC-type molybdenum transport system, ATPase
component/photorepair protein PhrA [Inorganic ion
transport and metabolism].
Length = 257
Score = 48.1 bits (115), Expect = 3e-08
Identities = 17/38 (44%), Positives = 27/38 (71%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYE 57
K IL +S + GE AI+GP+GAGK++LL++++G
Sbjct: 44 KKILGDLSWQVNPGEHWAIVGPNGAGKTTLLSLLTGEH 81
>gnl|CDD|233208 TIGR00956, 3a01205, Pleiotropic Drug Resistance (PDR) Family
protein. [Transport and binding proteins, Other].
Length = 1394
Score = 47.8 bits (114), Expect = 4e-08
Identities = 17/34 (50%), Positives = 26/34 (76%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
IL +V G + G L+A++G SGAGK++LLNV++
Sbjct: 778 ILNNVDGWVKPGTLTALMGASGAGKTTLLNVLAE 811
Score = 47.4 bits (113), Expect = 6e-08
Identities = 15/39 (38%), Positives = 23/39 (58%)
Query: 17 SPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+ ILK + G + GEL+ +LG G+G S+LL I+
Sbjct: 71 TKTFDILKPMDGLIKPGELTVVLGRPGSGCSTLLKTIAS 109
>gnl|CDD|226969 COG4618, ArpD, ABC-type protease/lipase transport system, ATPase
and permease components [General function prediction
only].
Length = 580
Score = 47.7 bits (114), Expect = 5e-08
Identities = 19/40 (47%), Positives = 26/40 (65%)
Query: 16 PSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
P K ILK +S +AGE I+GPSG+GKS+L ++ G
Sbjct: 345 PGQKKPILKGISFALQAGEALGIIGPSGSGKSTLARLLVG 384
>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 = 47.2 bits (113), Expect = 5e-08
Identities = 19/46 (41%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 10 VTFFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
V+F L +VS RAGE AI+G G+GKS+LL +++G
Sbjct: 8 VSFSYPNQEIPA-LDNVSLTIRAGEKVAIIGRVGSGKSTLLKLLAG 52
>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 = 46.3 bits (111), Expect = 6e-08
Identities = 18/41 (43%), Positives = 25/41 (60%)
Query: 18 PAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
L VS R GE+ A+LG +GAGKS+L+ ++SG K
Sbjct: 11 GGVKALDGVSLSVRRGEVHALLGENGAGKSTLMKILSGLYK 51
>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 = 46.9 bits (112), Expect = 6e-08
Identities = 16/37 (43%), Positives = 24/37 (64%)
Query: 19 AKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
A+ L VS R G A+LGP+GAGKS+L ++++
Sbjct: 13 ARRALDDVSFTVRPGRFVALLGPNGAGKSTLFSLLTR 49
>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 = 46.6 bits (111), Expect = 7e-08
Identities = 19/37 (51%), Positives = 27/37 (72%)
Query: 21 TILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYE 57
+ILK V + GE AI+GPSG+GKS+LL V++G +
Sbjct: 24 SILKGVELVVKRGETVAIVGPSGSGKSTLLAVLAGLD 60
>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 = 46.9 bits (112), Expect = 7e-08
Identities = 18/44 (40%), Positives = 25/44 (56%)
Query: 13 FNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGY 56
F P LK+ + GE AILG SG+GKS+LL +++G
Sbjct: 344 FTYPGQQTKALKNFNLTLAQGEKVAILGRSGSGKSTLLQLLAGA 387
>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 = 46.1 bits (110), Expect = 9e-08
Identities = 20/60 (33%), Positives = 32/60 (53%), Gaps = 3/60 (5%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNEKEE---EKKKKKKEKEKKK 76
K IL ++ G++ AI+G SG+GKS+LLN+I EK + + ++ KK
Sbjct: 11 KVILDDLNLTIEKGKMYAIIGESGSGKSTLLNIIGLLEKFDSGQVYLNGQETPPLNSKKA 70
>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 = 46.4 bits (111), Expect = 1e-07
Identities = 16/34 (47%), Positives = 24/34 (70%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVI 53
K LK +S GE++A++GPSG GKS+LL ++
Sbjct: 13 KHALKDISLDIPKGEITALIGPSGCGKSTLLRLL 46
>gnl|CDD|223488 COG0411, LivG, ABC-type branched-chain amino acid transport
systems, ATPase component [Amino acid transport and
metabolism].
Length = 250
Score = 46.0 bits (110), Expect = 1e-07
Identities = 17/38 (44%), Positives = 27/38 (71%)
Query: 21 TILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
T + VS R GE+ ++GP+GAGK++L N+I+G+ K
Sbjct: 18 TAVNDVSLEVRPGEIVGLIGPNGAGKTTLFNLITGFYK 55
>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 = 45.9 bits (110), Expect = 1e-07
Identities = 17/34 (50%), Positives = 22/34 (64%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
IL VS GE+ A+LG +GAGK++LL I G
Sbjct: 15 ILFGVSLTVPEGEIVALLGRNGAGKTTLLKTIMG 48
>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 = 45.7 bits (109), Expect = 1e-07
Identities = 20/61 (32%), Positives = 31/61 (50%), Gaps = 2/61 (3%)
Query: 18 PAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNEKEE--EKKKKKKEKEKK 75
IL +S AGE+ A+ G +GAGK++L +++G K K K KE++
Sbjct: 11 KGTEILDDLSLDLYAGEIIALTGKNGAGKTTLAKILAGLIKESSGSILLNGKPIKAKERR 70
Query: 76 K 76
K
Sbjct: 71 K 71
>gnl|CDD|183056 PRK11248, tauB, taurine transporter ATP-binding subunit;
Provisional.
Length = 255
Score = 45.8 bits (109), Expect = 2e-07
Identities = 17/39 (43%), Positives = 27/39 (69%)
Query: 18 PAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGY 56
K L+ ++ +GEL +LGPSG GK++LLN+I+G+
Sbjct: 12 GGKPALEDINLTLESGELLVVLGPSGCGKTTLLNLIAGF 50
>gnl|CDD|224046 COG1121, ZnuC, ABC-type Mn/Zn transport systems, ATPase component
[Inorganic ion transport and metabolism].
Length = 254
Score = 45.7 bits (109), Expect = 2e-07
Identities = 21/58 (36%), Positives = 35/58 (60%)
Query: 19 AKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNEKEEEKKKKKKEKEKKK 76
+ +L+ +S GE++A++GP+GAGKS+LL I G K E K K ++++K
Sbjct: 16 NRPVLEDISLSVEKGEITALIGPNGAGKSTLLKAILGLLKPSSGEIKIFGKPVRKRRK 73
>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 = 45.7 bits (109), Expect = 2e-07
Identities = 17/39 (43%), Positives = 24/39 (61%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
L VS + GE +LGPSG GK++LL +I+G+E
Sbjct: 13 FVALDGVSLDIKEGEFFTLLGPSGCGKTTLLRLIAGFET 51
>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 = 45.8 bits (109), Expect = 2e-07
Identities = 18/37 (48%), Positives = 24/37 (64%)
Query: 19 AKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
K LK+++ GE AI+GPSGAGKS+LL I+
Sbjct: 14 GKQALKNINLNINPGEFVAIIGPSGAGKSTLLRCINR 50
>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 = 45.2 bits (107), Expect = 2e-07
Identities = 17/26 (65%), Positives = 23/26 (88%)
Query: 32 AGELSAILGPSGAGKSSLLNVISGYE 57
GE+ AI+GPSGAGKS+LLN+I+G+
Sbjct: 23 DGEIVAIMGPSGAGKSTLLNLIAGFI 48
>gnl|CDD|226646 COG4178, COG4178, ABC-type uncharacterized transport system,
permease and ATPase components [General function
prediction only].
Length = 604
Score = 45.8 bits (109), Expect = 2e-07
Identities = 18/55 (32%), Positives = 26/55 (47%), Gaps = 3/55 (5%)
Query: 4 QTHVTMVTFFN---EPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+T N +T+L ++ R GE I G SGAGK+SLL ++G
Sbjct: 387 DNADHGITLENLSLRTPDGQTLLSELNFEVRPGERLLITGESGAGKTSLLRALAG 441
>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 = 45.8 bits (108), Expect = 2e-07
Identities = 19/40 (47%), Positives = 27/40 (67%)
Query: 19 AKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
A T+L +S AGEL A++G SG GK++LL I+G+ K
Sbjct: 17 ANTVLDDLSLEIEAGELLALIGKSGCGKTTLLRAIAGFVK 56
>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 = 45.3 bits (108), Expect = 2e-07
Identities = 20/45 (44%), Positives = 27/45 (60%)
Query: 19 AKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNEKEE 63
+ IL V GE+ AILG SG+GKS+LL +I G + +K E
Sbjct: 20 DRVILDGVDLDVPRGEILAILGGSGSGKSTLLRLILGLLRPDKGE 64
>gnl|CDD|223487 COG0410, LivF, ABC-type branched-chain amino acid transport
systems, ATPase component [Amino acid transport and
metabolism].
Length = 237
Score = 45.2 bits (108), Expect = 3e-07
Identities = 16/35 (45%), Positives = 22/35 (62%)
Query: 21 TILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
L+ VS GE+ A+LG +GAGK++LL I G
Sbjct: 17 QALRGVSLEVERGEIVALLGRNGAGKTTLLKTIMG 51
>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 = 45.2 bits (107), Expect = 3e-07
Identities = 14/36 (38%), Positives = 24/36 (66%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+ I+ V G L+ +LGP+G+GKS+LL +++G
Sbjct: 14 RLIVDGVDVTAPPGSLTGLLGPNGSGKSTLLRLLAG 49
>gnl|CDD|224058 COG1135, AbcC, ABC-type metal ion transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 339
Score = 45.3 bits (108), Expect = 3e-07
Identities = 20/49 (40%), Positives = 27/49 (55%)
Query: 10 VTFFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
TF + T L VS GE+ I+G SGAGKS+LL +I+ E+
Sbjct: 9 KTFGQTGTGTVTALDDVSLEIPKGEIFGIIGYSGAGKSTLLRLINLLER 57
>gnl|CDD|215599 PLN03140, PLN03140, ABC transporter G family member; Provisional.
Length = 1470
Score = 45.2 bits (107), Expect = 4e-07
Identities = 17/34 (50%), Positives = 29/34 (85%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+L+ V+G FR G L+A++G SGAGK++L++V++G
Sbjct: 895 LLREVTGAFRPGVLTALMGVSGAGKTTLMDVLAG 928
Score = 34.8 bits (80), Expect = 0.001
Identities = 14/35 (40%), Positives = 23/35 (65%)
Query: 21 TILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
TILK SG + ++ +LGP +GK++LL ++G
Sbjct: 179 TILKDASGIIKPSRMTLLLGPPSSGKTTLLLALAG 213
>gnl|CDD|224048 COG1123, COG1123, ATPase components of various ABC-type transport
systems, contain duplicated ATPase [General function
prediction only].
Length = 539
Score = 44.9 bits (107), Expect = 4e-07
Identities = 14/49 (28%), Positives = 22/49 (44%)
Query: 12 FFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNE 60
F + VS R GE ++G SG+GKS+L +++G
Sbjct: 296 LFVRERGEVKAVDDVSFDLREGETLGLVGESGSGKSTLARILAGLLPPS 344
Score = 43.7 bits (104), Expect = 1e-06
Identities = 15/51 (29%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 10 VTFFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNE 60
V F + ++ VS GE+ I+G SG+GKS+L + G
Sbjct: 13 VEFATDGGR-VPAVRDVSFEVEPGEILGIVGESGSGKSTLALALMGLLPEG 62
>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 = 44.2 bits (105), Expect = 4e-07
Identities = 18/43 (41%), Positives = 30/43 (69%)
Query: 13 FNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
F+ P + +LK++S + GE A+LG SG+GKS+LL +++G
Sbjct: 8 FSYPEQEQQVLKNLSLELKQGEKIALLGRSGSGKSTLLQLLTG 50
>gnl|CDD|237421 PRK13539, PRK13539, cytochrome c biogenesis protein CcmA;
Provisional.
Length = 207
Score = 44.5 bits (106), Expect = 4e-07
Identities = 13/36 (36%), Positives = 23/36 (63%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+ + +S AGE + GP+G+GK++LL +I+G
Sbjct: 15 RVLFSGLSFTLAAGEALVLTGPNGSGKTTLLRLIAG 50
>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 = 44.4 bits (106), Expect = 5e-07
Identities = 15/36 (41%), Positives = 22/36 (61%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
LK VS GE ++G +GAGKS+LL +++G
Sbjct: 35 FWALKDVSFEVPRGERIGLIGRNGAGKSTLLRLLAG 70
>gnl|CDD|236689 PRK10419, nikE, nickel transporter ATP-binding protein NikE;
Provisional.
Length = 268
Score = 44.3 bits (105), Expect = 5e-07
Identities = 17/42 (40%), Positives = 26/42 (61%)
Query: 17 SPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
+T+L +VS ++GE A+LG SG GKS+L ++ G E
Sbjct: 22 HQHQTVLNNVSLSLKSGETVALLGRSGCGKSTLARLLVGLES 63
>gnl|CDD|225183 COG2274, SunT, ABC-type bacteriocin/lantibiotic exporters, contain
an N-terminal double-glycine peptidase domain [Defense
mechanisms].
Length = 709
Score = 44.1 bits (105), Expect = 6e-07
Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 5/60 (8%)
Query: 2 SLQTHVTM--VTF-FNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
LQ + V+F + P +L+ +S GE AI+G SG+GKS+LL ++ G K
Sbjct: 467 KLQGEIEFENVSFRYGPDDPP--VLEDLSLEIPPGEKVAIVGRSGSGKSTLLKLLLGLYK 524
>gnl|CDD|236523 PRK09452, potA, putrescine/spermidine ABC transporter ATPase
protein; Reviewed.
Length = 375
Score = 43.8 bits (104), Expect = 8e-07
Identities = 14/38 (36%), Positives = 25/38 (65%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYE 57
K ++ ++ GE +LGPSG GK+++L +I+G+E
Sbjct: 27 KEVISNLDLTINNGEFLTLLGPSGCGKTTVLRLIAGFE 64
>gnl|CDD|224053 COG1129, MglA, ABC-type sugar transport system, ATPase component
[Carbohydrate transport and metabolism].
Length = 500
Score = 44.0 bits (105), Expect = 8e-07
Identities = 17/38 (44%), Positives = 24/38 (63%)
Query: 18 PAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
L VS R GE+ A+LG +GAGKS+L+ ++SG
Sbjct: 19 GGVKALDGVSLTVRPGEVHALLGENGAGKSTLMKILSG 56
Score = 24.8 bits (55), Expect = 5.2
Identities = 13/41 (31%), Positives = 19/41 (46%)
Query: 18 PAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
++ VS RAGE+ I G GAG++ L + G
Sbjct: 270 SGGGKVRDVSFTVRAGEILGIAGLVGAGRTELARALFGARP 310
>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 = 43.9 bits (104), Expect = 8e-07
Identities = 19/38 (50%), Positives = 24/38 (63%)
Query: 18 PAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
A +L VS GE AILGPSG+GKS+LL ++G
Sbjct: 346 GAPPVLDGVSLDLPPGERVAILGPSGSGKSTLLATLAG 383
>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and
permease components [Defense mechanisms].
Length = 567
Score = 44.0 bits (104), Expect = 9e-07
Identities = 16/39 (41%), Positives = 24/39 (61%)
Query: 18 PAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGY 56
K +LK +S GE AI+GPSG+GKS+L+ ++
Sbjct: 340 GKKPVLKDISFSIEPGEKVAIVGPSGSGKSTLIKLLLRL 378
>gnl|CDD|235150 PRK03695, PRK03695, vitamin B12-transporter ATPase; Provisional.
Length = 248
Score = 43.8 bits (104), Expect = 1e-06
Identities = 16/33 (48%), Positives = 24/33 (72%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
L +S RAGE+ ++GP+GAGKS+LL ++G
Sbjct: 12 LGPLSAEVRAGEILHLVGPNGAGKSTLLARMAG 44
>gnl|CDD|184132 PRK13547, hmuV, hemin importer ATP-binding subunit; Provisional.
Length = 272
Score = 43.7 bits (103), Expect = 1e-06
Identities = 16/37 (43%), Positives = 26/37 (70%)
Query: 19 AKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+ IL+ +S R G ++A+LG +GAGKS+LL ++G
Sbjct: 13 HRAILRDLSLRIEPGRVTALLGRNGAGKSTLLKALAG 49
>gnl|CDD|226905 COG4525, TauB, ABC-type taurine transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 259
Score = 43.6 bits (103), Expect = 1e-06
Identities = 18/35 (51%), Positives = 26/35 (74%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGY 56
L+ VS +GEL +LGPSG GK++LLN+I+G+
Sbjct: 20 ALEDVSLTIASGELVVVLGPSGCGKTTLLNLIAGF 54
>gnl|CDD|226963 COG4604, CeuD, ABC-type enterochelin transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 252
Score = 43.4 bits (103), Expect = 1e-06
Identities = 16/35 (45%), Positives = 26/35 (74%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
K +L VS G +++I+GP+GAGKS+LL+++S
Sbjct: 14 KVVLDDVSLDIPKGGITSIIGPNGAGKSTLLSMMS 48
>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 = 43.0 bits (102), Expect = 1e-06
Identities = 15/39 (38%), Positives = 23/39 (58%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
T L ++ GE +LGPSG GK++ L +I+G E+
Sbjct: 13 VTALDDLNLDIADGEFVVLLGPSGCGKTTTLRMIAGLEE 51
>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 = 42.9 bits (102), Expect = 2e-06
Identities = 12/40 (30%), Positives = 22/40 (55%)
Query: 16 PSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
K + +S GE+ +LG +GAGK++ L +++G
Sbjct: 11 KKGTKPAVDDLSLNVYKGEIFGLLGHNGAGKTTTLKMLTG 50
>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 = 42.8 bits (102), Expect = 2e-06
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 32 AGELSAILGPSGAGKSSLLNVISG 55
G+ S ++G SG GKS+LLN +
Sbjct: 84 KGKTSVLVGQSGVGKSTLLNALLP 107
>gnl|CDD|224051 COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase
component [Amino acid transport and metabolism].
Length = 240
Score = 42.9 bits (102), Expect = 2e-06
Identities = 18/39 (46%), Positives = 27/39 (69%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
K +LK +S GE+ I+GPSG+GKS+LL ++G E+
Sbjct: 15 KEVLKGISLSVEKGEVVVIIGPSGSGKSTLLRCLNGLEE 53
>gnl|CDD|130041 TIGR00968, 3a0106s01, sulfate ABC transporter, ATP-binding
protein. [Transport and binding proteins, Anions].
Length = 237
Score = 42.9 bits (101), Expect = 2e-06
Identities = 18/38 (47%), Positives = 25/38 (65%)
Query: 21 TILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
L V+ G L A+LGPSG+GKS+LL +I+G E+
Sbjct: 14 QALDDVNLEVPTGSLVALLGPSGSGKSTLLRIIAGLEQ 51
>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 = 42.6 bits (101), Expect = 2e-06
Identities = 13/38 (34%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 18 PAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
K L VS G + +LGP+GAGK++L+ +++
Sbjct: 11 GKKRALDGVSLTLGPG-MYGLLGPNGAGKTTLMRILAT 47
>gnl|CDD|182778 PRK10851, PRK10851, sulfate/thiosulfate transporter subunit;
Provisional.
Length = 353
Score = 42.8 bits (101), Expect = 2e-06
Identities = 16/36 (44%), Positives = 27/36 (75%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYE 57
+L +S +G++ A+LGPSG+GK++LL +I+G E
Sbjct: 17 VLNDISLDIPSGQMVALLGPSGSGKTTLLRIIAGLE 52
>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 = 42.8 bits (101), Expect = 2e-06
Identities = 17/42 (40%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 13 FNEPS-PAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVI 53
F P+ P + L ++ R GE A++GPSGAGKS+L ++
Sbjct: 345 FAYPARPDQPALDGLNLTVRPGETVALVGPSGAGKSTLFQLL 386
>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 = 42.5 bits (100), Expect = 3e-06
Identities = 17/44 (38%), Positives = 29/44 (65%)
Query: 10 VTFFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVI 53
VTF P +L+ VS GE++A++GPSG+GKS+++ ++
Sbjct: 17 VTFAYPTRPDTLVLQDVSFTLHPGEVTALVGPSGSGKSTVVALL 60
>gnl|CDD|182331 PRK10247, PRK10247, putative ABC transporter ATP-binding protein
YbbL; Provisional.
Length = 225
Score = 42.4 bits (100), Expect = 3e-06
Identities = 17/36 (47%), Positives = 23/36 (63%)
Query: 19 AKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
IL ++S RAGE I GPSG GKS+LL +++
Sbjct: 19 DAKILNNISFSLRAGEFKLITGPSGCGKSTLLKIVA 54
>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 = 42.2 bits (100), Expect = 3e-06
Identities = 18/43 (41%), Positives = 27/43 (62%)
Query: 12 FFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
F P +L+ +S AGE A++GPSG+GKS+L+N+I
Sbjct: 7 TFRYPGDGPPVLRDISLDIPAGETVALVGPSGSGKSTLVNLIP 49
>gnl|CDD|182528 PRK10535, PRK10535, macrolide transporter ATP-binding /permease
protein; Provisional.
Length = 648
Score = 42.4 bits (100), Expect = 3e-06
Identities = 16/32 (50%), Positives = 25/32 (78%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLLNVI 53
+LK +S AGE+ AI+G SG+GKS+L+N++
Sbjct: 23 VLKGISLDIYAGEMVAIVGASGSGKSTLMNIL 54
>gnl|CDD|226364 COG3845, COG3845, ABC-type uncharacterized transport systems,
ATPase components [General function prediction only].
Length = 501
Score = 42.5 bits (101), Expect = 3e-06
Identities = 14/36 (38%), Positives = 23/36 (63%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
VS + GE+ A+LG +GAGKS+L+ ++ G +
Sbjct: 20 NDDVSLSVKKGEIHALLGENGAGKSTLMKILFGLYQ 55
Score = 33.3 bits (77), Expect = 0.005
Identities = 17/36 (47%), Positives = 22/36 (61%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
+K VS RAGE+ I G +G G+S L+ ISG K
Sbjct: 274 VKDVSFEVRAGEIVGIAGVAGNGQSELVEAISGLRK 309
>gnl|CDD|223562 COG0488, Uup, ATPase components of ABC transporters with duplicated
ATPase domains [General function prediction only].
Length = 530
Score = 42.6 bits (101), Expect = 3e-06
Identities = 17/36 (47%), Positives = 27/36 (75%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+ +LK +S R G+ AI+GP+GAGKS+LL +++G
Sbjct: 335 RLLLKDLSFRIDRGDRIAIVGPNGAGKSTLLKLLAG 370
Score = 41.5 bits (98), Expect = 7e-06
Identities = 15/46 (32%), Positives = 28/46 (60%)
Query: 18 PAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNEKEE 63
+ +L++VS GE ++G +GAGKS+LL +++G + + E
Sbjct: 14 GDRPLLENVSLTLNPGERIGLVGRNGAGKSTLLKILAGELEPDSGE 59
>gnl|CDD|226617 COG4133, CcmA, ABC-type transport system involved in cytochrome c
biogenesis, ATPase component [Posttranslational
modification, protein turnover, chaperones].
Length = 209
Score = 42.3 bits (100), Expect = 3e-06
Identities = 15/35 (42%), Positives = 23/35 (65%)
Query: 21 TILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
T+ +S AGE I GP+GAGK++LL +++G
Sbjct: 16 TLFSDLSFTLNAGEALQITGPNGAGKTTLLRILAG 50
>gnl|CDD|185336 PRK15439, PRK15439, autoinducer 2 ABC transporter ATP-binding
protein LsrA; Provisional.
Length = 510
Score = 42.3 bits (100), Expect = 3e-06
Identities = 16/36 (44%), Positives = 25/36 (69%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYE 57
+LK + AGE+ A+LG +GAGKS+L+ +I+G
Sbjct: 26 VLKGIDFTLHAGEVHALLGGNGAGKSTLMKIIAGIV 61
>gnl|CDD|224026 COG1101, PhnK, ABC-type uncharacterized transport system, ATPase
component [General function prediction only].
Length = 263
Score = 41.9 bits (99), Expect = 3e-06
Identities = 18/47 (38%), Positives = 25/47 (53%)
Query: 10 VTFFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGY 56
TFF K L +S G+ ++G +GAGKS+LLN I+G
Sbjct: 9 KTFFKGTPLEKRALNGLSLEIAEGDFVTVIGSNGAGKSTLLNAIAGD 55
>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 = 41.7 bits (99), Expect = 4e-06
Identities = 16/39 (41%), Positives = 25/39 (64%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
+LK + + GE+ I+GPSG+GKS+LL I+ E+
Sbjct: 13 FHVLKGIDLTVKKGEVVVIIGPSGSGKSTLLRCINLLEE 51
>gnl|CDD|224047 COG1122, CbiO, ABC-type cobalt transport system, ATPase component
[Inorganic ion transport and metabolism].
Length = 235
Score = 41.9 bits (99), Expect = 4e-06
Identities = 16/38 (42%), Positives = 24/38 (63%)
Query: 18 PAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
K LK VS GE ++GP+G+GKS+LL +++G
Sbjct: 15 GRKAALKDVSLEIEKGERVLLIGPNGSGKSTLLKLLNG 52
>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 = 42.1 bits (99), Expect = 4e-06
Identities = 17/36 (47%), Positives = 25/36 (69%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
LK V+ + GE +++G SG GKS+LLN+ISG +
Sbjct: 1 LKGVNLTIQQGEFISLIGHSGCGKSTLLNLISGLAQ 36
>gnl|CDD|227019 COG4674, COG4674, Uncharacterized ABC-type transport system,
ATPase component [General function prediction only].
Length = 249
Score = 41.9 bits (99), Expect = 4e-06
Identities = 21/53 (39%), Positives = 30/53 (56%), Gaps = 15/53 (28%)
Query: 18 PAKTILK----SVS-GRFRA----------GELSAILGPSGAGKSSLLNVISG 55
IL SVS G F+A GEL ++GP+GAGK++L++VI+G
Sbjct: 1 MNPIILYLDGVSVSFGGFKALNDLSFSVDPGELRVLIGPNGAGKTTLMDVITG 53
>gnl|CDD|236554 PRK09536, btuD, corrinoid ABC transporter ATPase; Reviewed.
Length = 402
Score = 41.8 bits (98), Expect = 4e-06
Identities = 16/35 (45%), Positives = 23/35 (65%)
Query: 21 TILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
T+L V R G L ++GP+GAGK++LL I+G
Sbjct: 17 TVLDGVDLSVREGSLVGLVGPNGAGKTTLLRAING 51
>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 = 41.7 bits (99), Expect = 5e-06
Identities = 15/38 (39%), Positives = 20/38 (52%)
Query: 21 TILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
L VS + GE ++G SG+GKS+L I G K
Sbjct: 19 KALDDVSFSIKKGETLGLVGESGSGKSTLARAILGLLK 56
>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 = 41.5 bits (98), Expect = 5e-06
Identities = 15/26 (57%), Positives = 19/26 (73%)
Query: 33 GELSAILGPSGAGKSSLLNVISGYEK 58
E++ I G SGAGKS+LL I+G EK
Sbjct: 23 EEVTGIFGASGAGKSTLLRCIAGLEK 48
>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 = 41.4 bits (98), Expect = 5e-06
Identities = 14/39 (35%), Positives = 24/39 (61%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
+ ++ VS + GE+ +LGP+GAGK++ +I G K
Sbjct: 13 RKVVNGVSLSVKQGEIVGLLGPNGAGKTTTFYMIVGLVK 51
>gnl|CDD|224042 COG1117, PstB, ABC-type phosphate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 253
Score = 41.8 bits (99), Expect = 5e-06
Identities = 13/34 (38%), Positives = 22/34 (64%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVI 53
K LK ++ +++A++GPSG GKS+LL +
Sbjct: 20 KHALKDINLDIPKNKVTALIGPSGCGKSTLLRCL 53
>gnl|CDD|182993 PRK11144, modC, molybdate transporter ATP-binding protein;
Provisional.
Length = 352
Score = 41.8 bits (99), Expect = 5e-06
Identities = 14/20 (70%), Positives = 17/20 (85%)
Query: 36 SAILGPSGAGKSSLLNVISG 55
+AI G SGAGK+SL+N ISG
Sbjct: 27 TAIFGRSGAGKTSLINAISG 46
>gnl|CDD|182852 PRK10938, PRK10938, putative molybdenum transport ATP-binding
protein ModF; Provisional.
Length = 490
Score = 41.5 bits (98), Expect = 6e-06
Identities = 17/36 (47%), Positives = 27/36 (75%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+ IL ++S + GE I+GP+GAGKS+LL++I+G
Sbjct: 273 RPILHNLSWQVNPGEHWQIVGPNGAGKSTLLSLITG 308
Score = 28.1 bits (63), Expect = 0.32
Identities = 10/25 (40%), Positives = 17/25 (68%)
Query: 31 RAGELSAILGPSGAGKSSLLNVISG 55
AG+ A +G +G+GKS+L ++G
Sbjct: 27 NAGDSWAFVGANGSGKSALARALAG 51
>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 = 41.0 bits (97), Expect = 6e-06
Identities = 16/50 (32%), Positives = 27/50 (54%), Gaps = 5/50 (10%)
Query: 6 HVTMVTFFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
++++ T + +LK +S + G+ I GPSG GKSSL ++G
Sbjct: 5 NLSLAT-----PDGRVLLKDLSFEIKPGDRLLITGPSGTGKSSLFRALAG 49
>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 = 41.4 bits (98), Expect = 6e-06
Identities = 16/42 (38%), Positives = 29/42 (69%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNEK 61
K +LK ++ + GE AI+GP+GAGK++L+N++ + +K
Sbjct: 16 KPVLKDINFSIKPGETVAIVGPTGAGKTTLINLLMRFYDPQK 57
>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 = 41.4 bits (98), Expect = 6e-06
Identities = 17/33 (51%), Positives = 24/33 (72%)
Query: 18 PAKTILKSVSGRFRAGELSAILGPSGAGKSSLL 50
P + +LK VS AG+ AI+GPSG+GKS++L
Sbjct: 12 PGRPVLKDVSFTIPAGKKVAIVGPSGSGKSTIL 44
>gnl|CDD|236865 PRK11160, PRK11160, cysteine/glutathione ABC transporter
membrane/ATP-binding component; Reviewed.
Length = 574
Score = 41.3 bits (98), Expect = 7e-06
Identities = 18/44 (40%), Positives = 30/44 (68%), Gaps = 3/44 (6%)
Query: 11 TFFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
T+ ++P P LK +S + +AGE A+LG +G GKS+LL +++
Sbjct: 347 TYPDQPQPV---LKGLSLQIKAGEKVALLGRTGCGKSTLLQLLT 387
>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 = 41.0 bits (97), Expect = 7e-06
Identities = 20/46 (43%), Positives = 27/46 (58%)
Query: 13 FNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
F + T LK VS GE+ I+G SGAGKS+L+ I+G E+
Sbjct: 11 FGDTGGKVTALKDVSLSVPKGEIFGIIGRSGAGKSTLIRCINGLER 56
>gnl|CDD|183280 PRK11701, phnK, phosphonate C-P lyase system protein PhnK;
Provisional.
Length = 258
Score = 41.1 bits (97), Expect = 8e-06
Identities = 14/30 (46%), Positives = 20/30 (66%)
Query: 26 VSGRFRAGELSAILGPSGAGKSSLLNVISG 55
VS GE+ I+G SG+GK++LLN +S
Sbjct: 25 VSFDLYPGEVLGIVGESGSGKTTLLNALSA 54
>gnl|CDD|182732 PRK10789, PRK10789, putative multidrug transporter
membrane\ATP-binding components; Provisional.
Length = 569
Score = 41.2 bits (97), Expect = 8e-06
Identities = 15/41 (36%), Positives = 26/41 (63%)
Query: 13 FNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVI 53
F P L++V+ + G++ I GP+G+GKS+LL++I
Sbjct: 321 FTYPQTDHPALENVNFTLKPGQMLGICGPTGSGKSTLLSLI 361
>gnl|CDD|183044 PRK11231, fecE, iron-dicitrate transporter ATP-binding subunit;
Provisional.
Length = 255
Score = 41.2 bits (97), Expect = 9e-06
Identities = 14/36 (38%), Positives = 23/36 (63%)
Query: 19 AKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
K IL +S G+++A++GP+G GKS+LL +
Sbjct: 14 TKRILNDLSLSLPTGKITALIGPNGCGKSTLLKCFA 49
>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 = 41.0 bits (97), Expect = 9e-06
Identities = 15/33 (45%), Positives = 24/33 (72%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
L +S GEL I+GP+GAGK+++++VI+G
Sbjct: 18 LNDLSLYVDPGELRVIIGPNGAGKTTMMDVITG 50
>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 = 40.1 bits (95), Expect = 9e-06
Identities = 15/42 (35%), Positives = 27/42 (64%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNEK 61
K +LK +S G+ ++G +GAGKS+LL +I+G + ++
Sbjct: 13 KLLLKDISLTINPGDRIGLVGRNGAGKSTLLKLIAGELEPDE 54
>gnl|CDD|226628 COG4148, ModC, ABC-type molybdate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 352
Score = 40.8 bits (96), Expect = 9e-06
Identities = 12/27 (44%), Positives = 23/27 (85%)
Query: 35 LSAILGPSGAGKSSLLNVISGYEKNEK 61
++A+ GPSG+GK+SL+N+I+G + ++
Sbjct: 26 ITALFGPSGSGKTSLINMIAGLTRPDE 52
>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 = 40.7 bits (96), Expect = 1e-05
Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGY-EKNEKEE 63
ILK SG + GE+ +LG G+G S+LL ++ E N E
Sbjct: 20 IPILKDFSGVVKPGEMVLVLGRPGSGCSTLLKALANRTEGNVSVE 64
>gnl|CDD|225438 COG2884, FtsE, Predicted ATPase involved in cell division [Cell
division and chromosome partitioning].
Length = 223
Score = 40.7 bits (96), Expect = 1e-05
Identities = 18/39 (46%), Positives = 24/39 (61%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
+ L+ VS GE + GPSGAGKS+LL +I G E+
Sbjct: 15 REALRDVSFHIPKGEFVFLTGPSGAGKSTLLKLIYGEER 53
>gnl|CDD|214372 CHL00131, ycf16, sulfate ABC transporter protein; Validated.
Length = 252
Score = 40.8 bits (96), Expect = 1e-05
Identities = 17/37 (45%), Positives = 26/37 (70%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGY 56
ILK ++ GE+ AI+GP+G+GKS+L VI+G+
Sbjct: 20 NEILKGLNLSINKGEIHAIMGPNGSGKSTLSKVIAGH 56
>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 = 40.9 bits (96), Expect = 1e-05
Identities = 19/48 (39%), Positives = 28/48 (58%), Gaps = 4/48 (8%)
Query: 6 HVTMVTFFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVI 53
+VT F P + L S+S GE A++G SG+GKS+L+N+I
Sbjct: 335 NVT----FRYPGRDRPALDSISLVIEPGETVALVGRSGSGKSTLVNLI 378
>gnl|CDD|236947 PRK11650, ugpC, glycerol-3-phosphate transporter ATP-binding
subunit; Provisional.
Length = 356
Score = 40.6 bits (96), Expect = 1e-05
Identities = 16/41 (39%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 18 PAKT-ILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYE 57
KT ++K + GE ++GPSG GKS+LL +++G E
Sbjct: 14 DGKTQVIKGIDLDVADGEFIVLVGPSGCGKSTLLRMVAGLE 54
>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 = 40.0 bits (94), Expect = 1e-05
Identities = 12/37 (32%), Positives = 23/37 (62%)
Query: 19 AKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+ + + +S AGE + GP+G GK++LL +++G
Sbjct: 12 ERMLFEGLSFTLNAGEALQVTGPNGIGKTTLLRILAG 48
>gnl|CDD|217416 pfam03193, DUF258, Protein of unknown function, DUF258.
Length = 161
Score = 39.8 bits (94), Expect = 2e-05
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 32 AGELSAILGPSGAGKSSLLNVISG 55
G+ S + G SG GKS+LLN +
Sbjct: 34 KGKTSVLAGQSGVGKSTLLNALLP 57
>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 = 39.8 bits (94), Expect = 2e-05
Identities = 16/42 (38%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 13 FNEPS-PAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVI 53
F PS P ILK +S G+ A++G SG GKS++++++
Sbjct: 8 FRYPSRPDVPILKGLSLTIPPGKTVALVGSSGCGKSTVVSLL 49
>gnl|CDD|184125 PRK13538, PRK13538, cytochrome c biogenesis protein CcmA;
Provisional.
Length = 204
Score = 39.4 bits (93), Expect = 2e-05
Identities = 15/27 (55%), Positives = 20/27 (74%)
Query: 29 RFRAGELSAILGPSGAGKSSLLNVISG 55
AGEL I GP+GAGK+SLL +++G
Sbjct: 23 TLNAGELVQIEGPNGAGKTSLLRILAG 49
>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 = 39.5 bits (93), Expect = 3e-05
Identities = 17/39 (43%), Positives = 23/39 (58%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
LK +S GE I+G +GAGKS+LL +I+G K
Sbjct: 40 FWALKDISFEIYKGERVGIIGHNGAGKSTLLKLIAGIYK 78
>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 = 39.5 bits (93), Expect = 3e-05
Identities = 19/42 (45%), Positives = 27/42 (64%)
Query: 18 PAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKN 59
P K ILK +S F G +LG +GAGKS+LL +++G +K
Sbjct: 16 PKKEILKDISLSFFPGAKIGVLGLNGAGKSTLLRIMAGVDKE 57
Score = 32.2 bits (74), Expect = 0.012
Identities = 11/21 (52%), Positives = 18/21 (85%)
Query: 38 ILGPSGAGKSSLLNVISGYEK 58
++GP+GAGKS+L +I+G E+
Sbjct: 353 VIGPNGAGKSTLFRMITGQEQ 373
>gnl|CDD|183055 PRK11247, ssuB, aliphatic sulfonates transport ATP-binding
subunit; Provisional.
Length = 257
Score = 39.7 bits (93), Expect = 3e-05
Identities = 15/39 (38%), Positives = 25/39 (64%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
+T+L + AG+ A++G SG GKS+LL +++G E
Sbjct: 25 RTVLNQLDLHIPAGQFVAVVGRSGCGKSTLLRLLAGLET 63
>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 = 39.3 bits (92), Expect = 3e-05
Identities = 18/32 (56%), Positives = 23/32 (71%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLLNVI 53
+LK+VS AGE A+ GPSGAGKS+LL +
Sbjct: 23 VLKNVSLTVNAGECVALSGPSGAGKSTLLKSL 54
>gnl|CDD|236863 PRK11153, metN, DL-methionine transporter ATP-binding subunit;
Provisional.
Length = 343
Score = 39.4 bits (93), Expect = 3e-05
Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 6/56 (10%)
Query: 9 MVTF------FNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
M+ F + L +VS AGE+ ++G SGAGKS+L+ I+ E+
Sbjct: 1 MIELKNISKVFPQGGRTIHALNNVSLHIPAGEIFGVIGASGAGKSTLIRCINLLER 56
>gnl|CDD|226622 COG4138, BtuD, ABC-type cobalamin transport system, ATPase
component [Coenzyme metabolism].
Length = 248
Score = 39.4 bits (92), Expect = 3e-05
Identities = 18/35 (51%), Positives = 26/35 (74%)
Query: 21 TILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
T L +SG RAGE+ ++GP+GAGKS+LL ++G
Sbjct: 13 TRLGPLSGEVRAGEILHLVGPNGAGKSTLLARMAG 47
>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 = 39.3 bits (92), Expect = 3e-05
Identities = 18/47 (38%), Positives = 28/47 (59%)
Query: 12 FFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
+ E +LK VS GE+ AI+G SG+GKS+LL+++ G +
Sbjct: 10 RYQEGKLDTRVLKGVSLSIGKGEIVAIVGSSGSGKSTLLHLLGGLDN 56
>gnl|CDD|181906 PRK09493, glnQ, glutamine ABC transporter ATP-binding protein;
Reviewed.
Length = 240
Score = 39.3 bits (92), Expect = 3e-05
Identities = 15/38 (39%), Positives = 24/38 (63%)
Query: 21 TILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
+L ++ GE+ I+GPSG+GKS+LL I+ E+
Sbjct: 15 QVLHNIDLNIDQGEVVVIIGPSGSGKSTLLRCINKLEE 52
>gnl|CDD|236992 PRK11819, PRK11819, putative ABC transporter ATP-binding protein;
Reviewed.
Length = 556
Score = 39.3 bits (93), Expect = 3e-05
Identities = 19/42 (45%), Positives = 27/42 (64%)
Query: 18 PAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKN 59
P K ILK +S F G +LG +GAGKS+LL +++G +K
Sbjct: 18 PKKQILKDISLSFFPGAKIGVLGLNGAGKSTLLRIMAGVDKE 59
Score = 32.0 bits (74), Expect = 0.012
Identities = 12/21 (57%), Positives = 18/21 (85%)
Query: 38 ILGPSGAGKSSLLNVISGYEK 58
I+GP+GAGKS+L +I+G E+
Sbjct: 355 IIGPNGAGKSTLFKMITGQEQ 375
>gnl|CDD|183077 PRK11288, araG, L-arabinose transporter ATP-binding protein;
Provisional.
Length = 501
Score = 39.5 bits (93), Expect = 3e-05
Identities = 16/33 (48%), Positives = 25/33 (75%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
L +S RAG++ A++G +GAGKS+LL ++SG
Sbjct: 20 LDDISFDCRAGQVHALMGENGAGKSTLLKILSG 52
Score = 28.0 bits (63), Expect = 0.36
Identities = 12/33 (36%), Positives = 20/33 (60%)
Query: 26 VSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
+S RAGE+ + G GAG+S L+ ++ G +
Sbjct: 272 ISFSVRAGEIVGLFGLVGAGRSELMKLLYGATR 304
>gnl|CDD|181965 PRK09580, sufC, cysteine desulfurase ATPase component; Reviewed.
Length = 248
Score = 39.4 bits (92), Expect = 3e-05
Identities = 18/41 (43%), Positives = 28/41 (68%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNE 60
K IL+ ++ R GE+ AI+GP+G+GKS+L ++G E E
Sbjct: 14 KAILRGLNLEVRPGEVHAIMGPNGSGKSTLSATLAGREDYE 54
>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 = 39.0 bits (91), Expect = 4e-05
Identities = 12/36 (33%), Positives = 23/36 (63%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+ + +S AGE + GP+G+GK++LL +++G
Sbjct: 13 RALFSGLSFTLAAGEALQVTGPNGSGKTTLLRILAG 48
>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 = 39.3 bits (92), Expect = 4e-05
Identities = 15/38 (39%), Positives = 23/38 (60%)
Query: 16 PSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVI 53
P + IL +S G+ AI+G SGAGKS++L ++
Sbjct: 272 YDPRRPILNGISFTIPLGKTVAIVGESGAGKSTILRLL 309
>gnl|CDD|182182 PRK09984, PRK09984, phosphonate/organophosphate ester transporter
subunit; Provisional.
Length = 262
Score = 38.8 bits (90), Expect = 5e-05
Identities = 18/42 (42%), Positives = 25/42 (59%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNEKEEE 64
L +V GE+ A+LGPSG+GKS+LL +SG +K
Sbjct: 20 LHAVDLNIHHGEMVALLGPSGSGKSTLLRHLSGLITGDKSAG 61
>gnl|CDD|226970 COG4619, COG4619, ABC-type uncharacterized transport system,
ATPase component [General function prediction only].
Length = 223
Score = 38.7 bits (90), Expect = 5e-05
Identities = 18/33 (54%), Positives = 24/33 (72%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
IL ++S RAGE AI GPSG GKS+LL +++
Sbjct: 18 ILNNISLSVRAGEFIAITGPSGCGKSTLLKIVA 50
>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 = 38.6 bits (90), Expect = 5e-05
Identities = 18/54 (33%), Positives = 24/54 (44%)
Query: 5 THVTMVTFFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
TH +L +VS GE +LG SG GKS+L ++ G EK
Sbjct: 9 THTYRTGGLFGAKQRAPVLTNVSLSIEEGETVGLLGRSGCGKSTLARLLLGLEK 62
>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 = 38.8 bits (91), Expect = 5e-05
Identities = 15/39 (38%), Positives = 25/39 (64%), Gaps = 4/39 (10%)
Query: 12 FFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLL 50
F+ E K LK+++ +++A++GPSG GKS+LL
Sbjct: 10 FYGE----KEALKNINLDIPKNQVTALIGPSGCGKSTLL 44
>gnl|CDD|226592 COG4107, PhnK, ABC-type phosphonate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 258
Score = 38.6 bits (90), Expect = 6e-05
Identities = 15/30 (50%), Positives = 20/30 (66%)
Query: 26 VSGRFRAGELSAILGPSGAGKSSLLNVISG 55
VS GE+ I+G SG+GK++LL ISG
Sbjct: 25 VSFDLYPGEVLGIVGESGSGKTTLLKCISG 54
>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 = 38.5 bits (90), Expect = 6e-05
Identities = 16/36 (44%), Positives = 22/36 (61%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
L ++ AGE ++GPSGAGKS+LL +I E
Sbjct: 17 LDGINISISAGEFVFLVGPSGAGKSTLLKLIYKEEL 52
>gnl|CDD|226620 COG4136, COG4136, ABC-type uncharacterized transport system,
ATPase component [General function prediction only].
Length = 213
Score = 38.7 bits (90), Expect = 6e-05
Identities = 15/39 (38%), Positives = 24/39 (61%)
Query: 18 PAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGY 56
P +L +V+ GE+ ++GPSG GKS+LL+ + G
Sbjct: 13 PGSCLLANVNFTIAKGEIVTLMGPSGCGKSTLLSWMIGA 51
>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 = 38.6 bits (90), Expect = 6e-05
Identities = 10/27 (37%), Positives = 19/27 (70%)
Query: 32 AGELSAILGPSGAGKSSLLNVISGYEK 58
++AI G SG+GK++L+ +I+G +
Sbjct: 22 GQGVTAIFGRSGSGKTTLIRLIAGLTR 48
>gnl|CDD|237648 PRK14250, PRK14250, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 241
Score = 38.3 bits (89), Expect = 8e-05
Identities = 18/35 (51%), Positives = 26/35 (74%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
K ILK +S +F G + I+GPSGAGKS+L+ +I+
Sbjct: 16 KEILKDISVKFEGGAIYTIVGPSGAGKSTLIKLIN 50
>gnl|CDD|224084 COG1162, COG1162, Predicted GTPases [General function prediction
only].
Length = 301
Score = 38.4 bits (90), Expect = 8e-05
Identities = 11/24 (45%), Positives = 18/24 (75%)
Query: 32 AGELSAILGPSGAGKSSLLNVISG 55
AG+++ +LG SG GKS+L+N +
Sbjct: 163 AGKITVLLGQSGVGKSTLINALLP 186
>gnl|CDD|184214 PRK13657, PRK13657, cyclic beta-1,2-glucan ABC transporter;
Provisional.
Length = 588
Score = 38.0 bits (89), Expect = 1e-04
Identities = 16/43 (37%), Positives = 27/43 (62%), Gaps = 4/43 (9%)
Query: 10 VTF-FNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLN 51
V+F ++ ++ VS + G+ AI+GP+GAGKS+L+N
Sbjct: 340 VSFSYDNSRQG---VEDVSFEAKPGQTVAIVGPTGAGKSTLIN 379
>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 = 38.0 bits (89), Expect = 1e-04
Identities = 15/39 (38%), Positives = 24/39 (61%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
K +L +S + GE+ LGP+GAGK++ + +I G K
Sbjct: 13 KRVLDDISLHVKKGEIYGFLGPNGAGKTTTMKIILGLIK 51
>gnl|CDD|183226 PRK11607, potG, putrescine transporter ATP-binding subunit;
Provisional.
Length = 377
Score = 37.9 bits (88), Expect = 1e-04
Identities = 14/25 (56%), Positives = 21/25 (84%)
Query: 33 GELSAILGPSGAGKSSLLNVISGYE 57
GE+ A+LG SG GKS+LL +++G+E
Sbjct: 45 GEIFALLGASGCGKSTLLRMLAGFE 69
>gnl|CDD|183244 PRK11629, lolD, lipoprotein transporter ATP-binding subunit;
Provisional.
Length = 233
Score = 37.9 bits (88), Expect = 1e-04
Identities = 16/34 (47%), Positives = 25/34 (73%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+L +VS GE+ AI+G SG+GKS+LL+++ G
Sbjct: 24 VLHNVSFSIGEGEMMAIVGSSGSGKSTLLHLLGG 57
>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 = 37.9 bits (89), Expect = 1e-04
Identities = 14/35 (40%), Positives = 22/35 (62%)
Query: 21 TILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
IL+ VS GE++ +LG +G GK++LL + G
Sbjct: 14 HILRGVSLEVPKGEVTCVLGRNGVGKTTLLKTLMG 48
>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 = 37.4 bits (87), Expect = 1e-04
Identities = 15/34 (44%), Positives = 24/34 (70%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+LK ++ GE+ A+LG +GAGKS+LL ++G
Sbjct: 7 VLKGLNFAAERGEVLALLGANGAGKSTLLLHLNG 40
>gnl|CDD|181939 PRK09544, znuC, high-affinity zinc transporter ATPase; Reviewed.
Length = 251
Score = 37.8 bits (88), Expect = 1e-04
Identities = 15/36 (41%), Positives = 25/36 (69%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+ +L VS + G++ +LGP+GAGKS+L+ V+ G
Sbjct: 17 RRVLSDVSLELKPGKILTLLGPNGAGKSTLVRVVLG 52
>gnl|CDD|206727 cd04164, trmE, trmE is a tRNA modification GTPase. TrmE (MnmE,
ThdF, MSS1) is a 3-domain protein found in bacteria and
eukaryotes. It controls modification of the uridine at
the wobble position (U34) of tRNAs that read codons
ending with A or G in the mixed codon family boxes.
TrmE contains a GTPase domain that forms a canonical
Ras-like fold. It functions a molecular switch GTPase,
and apparently uses a conformational change associated
with GTP hydrolysis to promote the tRNA modification
reaction, in which the conserved cysteine in the
C-terminal domain is thought to function as a catalytic
residue. In bacteria that are able to survive in
extremely low pH conditions, TrmE regulates
glutamate-dependent acid resistance.
Length = 159
Score = 37.1 bits (87), Expect = 1e-04
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 37 AILGPSGAGKSSLLNVISGYEK 58
I G GKSSLLN ++G ++
Sbjct: 7 VIAGKPNVGKSSLLNALAGRDR 28
>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 = 37.3 bits (87), Expect = 1e-04
Identities = 14/37 (37%), Positives = 22/37 (59%)
Query: 19 AKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
T L +S GE+ +LGP+GAGK++ + +I G
Sbjct: 12 RVTALDDISFSVEKGEIFGLLGPNGAGKTTTIRMILG 48
>gnl|CDD|184585 PRK14239, PRK14239, phosphate transporter ATP-binding protein;
Provisional.
Length = 252
Score = 37.4 bits (87), Expect = 2e-04
Identities = 18/34 (52%), Positives = 24/34 (70%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVI 53
K L SVS F E++A++GPSG+GKS+LL I
Sbjct: 18 KKALNSVSLDFYPNEITALIGPSGSGKSTLLRSI 51
>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 = 37.6 bits (87), Expect = 2e-04
Identities = 20/45 (44%), Positives = 30/45 (66%), Gaps = 1/45 (2%)
Query: 12 FFNEPSPAKT-ILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
FF+ S T +LK++S + G+L A+ G +G+GKSSLL +I G
Sbjct: 430 FFSNFSLYVTPVLKNISFKLEKGQLLAVAGSTGSGKSSLLMMIMG 474
Score = 28.3 bits (63), Expect = 0.35
Identities = 11/37 (29%), Positives = 22/37 (59%)
Query: 17 SPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVI 53
+ +L+ +S G+ +LG +G+GKS+LL+ +
Sbjct: 1229 EAGRAVLQDLSFSVEGGQRVGLLGRTGSGKSTLLSAL 1265
>gnl|CDD|233209 TIGR00958, 3a01208, Conjugate Transporter-2 (CT2) Family protein.
[Transport and binding proteins, Other].
Length = 711
Score = 37.4 bits (87), Expect = 2e-04
Identities = 15/37 (40%), Positives = 25/37 (67%), Gaps = 1/37 (2%)
Query: 13 FNEPS-PAKTILKSVSGRFRAGELSAILGPSGAGKSS 48
F+ P+ P +LK ++ GE+ A++GPSG+GKS+
Sbjct: 486 FSYPNRPDVPVLKGLTFTLHPGEVVALVGPSGSGKST 522
>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 = 37.3 bits (87), Expect = 2e-04
Identities = 14/43 (32%), Positives = 26/43 (60%)
Query: 13 FNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
F + + VS + GE++ +LGP+GAGK++ L +++G
Sbjct: 11 FRDVKKTVQAVDGVSFTVKPGEVTGLLGPNGAGKTTTLRMLAG 53
>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 = 37.3 bits (87), Expect = 2e-04
Identities = 15/44 (34%), Positives = 26/44 (59%)
Query: 12 FFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
++ S K +L ++ GE+ + GPSG+GK++LL +I G
Sbjct: 10 YYGHGSLRKQVLFDINLEINPGEIVILTGPSGSGKTTLLTLIGG 53
>gnl|CDD|224060 COG1137, YhbG, ABC-type (unclassified) transport system, ATPase
component [General function prediction only].
Length = 243
Score = 37.2 bits (87), Expect = 2e-04
Identities = 13/36 (36%), Positives = 23/36 (63%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+ ++ VS +GE+ +LGP+GAGK++ +I G
Sbjct: 17 RKVVNDVSLEVNSGEIVGLLGPNGAGKTTTFYMIVG 52
>gnl|CDD|182829 PRK10908, PRK10908, cell division protein FtsE; Provisional.
Length = 222
Score = 37.2 bits (86), Expect = 2e-04
Identities = 17/36 (47%), Positives = 25/36 (69%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
L+ V+ R GE++ + G SGAGKS+LL +I G E+
Sbjct: 18 LQGVTFHMRPGEMAFLTGHSGAGKSTLLKLICGIER 53
>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 = 37.5 bits (87), Expect = 2e-04
Identities = 15/35 (42%), Positives = 24/35 (68%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGY 56
IL ++S R + GE+ I+G SG+GKS+L +I +
Sbjct: 17 ILDNISLRIKPGEVVGIVGRSGSGKSTLTKLIQRF 51
>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 = 37.1 bits (87), Expect = 2e-04
Identities = 14/34 (41%), Positives = 22/34 (64%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVI 53
+LK++S + GE I+G +G+GKSSLL +
Sbjct: 17 PPVLKNISFSIKPGEKVGIVGRTGSGKSSLLLAL 50
>gnl|CDD|182980 PRK11124, artP, arginine transporter ATP-binding subunit;
Provisional.
Length = 242
Score = 37.3 bits (87), Expect = 2e-04
Identities = 15/22 (68%), Positives = 17/22 (77%)
Query: 32 AGELSAILGPSGAGKSSLLNVI 53
GE +LGPSGAGKSSLL V+
Sbjct: 27 QGETLVLLGPSGAGKSSLLRVL 48
>gnl|CDD|226961 COG4598, HisP, ABC-type histidine transport system, ATPase
component [Amino acid transport and metabolism].
Length = 256
Score = 37.0 bits (86), Expect = 2e-04
Identities = 17/37 (45%), Positives = 26/37 (70%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
+LK VS + AG++ +I+G SG+GKS+ L I+ EK
Sbjct: 21 VLKGVSLQANAGDVISIIGSSGSGKSTFLRCINFLEK 57
>gnl|CDD|234631 PRK00098, PRK00098, GTPase RsgA; Reviewed.
Length = 298
Score = 37.1 bits (87), Expect = 2e-04
Identities = 11/24 (45%), Positives = 18/24 (75%)
Query: 32 AGELSAILGPSGAGKSSLLNVISG 55
AG+++ + G SG GKS+LLN ++
Sbjct: 163 AGKVTVLAGQSGVGKSTLLNALAP 186
>gnl|CDD|182036 PRK09700, PRK09700, D-allose transporter ATP-binding protein;
Provisional.
Length = 510
Score = 37.1 bits (86), Expect = 2e-04
Identities = 18/33 (54%), Positives = 25/33 (75%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
LKSV+ GE+ A+LG +GAGKS+L+ V+SG
Sbjct: 21 LKSVNLTVYPGEIHALLGENGAGKSTLMKVLSG 53
Score = 24.7 bits (54), Expect = 5.4
Identities = 10/35 (28%), Positives = 19/35 (54%)
Query: 24 KSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
+ +S GE+ G G+G++ L+N + G +K
Sbjct: 280 RDISFSVCRGEILGFAGLVGSGRTELMNCLFGVDK 314
>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 = 36.9 bits (86), Expect = 3e-04
Identities = 15/44 (34%), Positives = 23/44 (52%)
Query: 12 FFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
F LK +S GE+ +GP+GAGK++ L ++SG
Sbjct: 26 LFKRKYREVEALKGISFTIEKGEIVGFIGPNGAGKTTTLKILSG 69
>gnl|CDD|183063 PRK11264, PRK11264, putative amino-acid ABC transporter
ATP-binding protein YecC; Provisional.
Length = 250
Score = 36.7 bits (85), Expect = 3e-04
Identities = 17/41 (41%), Positives = 28/41 (68%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNE 60
+T+L + + GE+ AI+GPSG+GK++LL I+ E+ E
Sbjct: 16 QTVLHGIDLEVKPGEVVAIIGPSGSGKTTLLRCINLLEQPE 56
>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 = 36.8 bits (85), Expect = 3e-04
Identities = 14/28 (50%), Positives = 23/28 (82%)
Query: 26 VSGRFRAGELSAILGPSGAGKSSLLNVI 53
VS +AG+ AI+GP+GAGK++L+N++
Sbjct: 354 VSFEAKAGQTVAIVGPTGAGKTTLINLL 381
>gnl|CDD|182561 PRK10575, PRK10575, iron-hydroxamate transporter ATP-binding
subunit; Provisional.
Length = 265
Score = 36.7 bits (85), Expect = 3e-04
Identities = 19/57 (33%), Positives = 34/57 (59%), Gaps = 4/57 (7%)
Query: 1 MSLQTHVTMVTF-FNEPS---PAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVI 53
M T+ + TF S P +T+L +S F AG+++ ++G +G+GKS+LL ++
Sbjct: 1 MQEYTNHSDTTFALRNVSFRVPGRTLLHPLSLTFPAGKVTGLIGHNGSGKSTLLKML 57
>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 = 36.7 bits (85), Expect = 3e-04
Identities = 19/46 (41%), Positives = 29/46 (63%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNEKEEEK 65
K +LK++S GE+ ILG SGAGKS L++V+ G ++ E +
Sbjct: 13 KEVLKNISFTIEEGEVLGILGRSGAGKSVLMHVLRGMDQYEPTSGR 58
Score = 27.8 bits (62), Expect = 0.45
Identities = 14/31 (45%), Positives = 22/31 (70%)
Query: 25 SVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+VS + GE+ I+G SGAGK++L +I+G
Sbjct: 302 NVSLEVKEGEIFGIVGTSGAGKTTLSKIIAG 332
>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 = 36.3 bits (84), Expect = 4e-04
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 37 AILGPSGAGKSSLLNVISGYEKNEKEEE 64
++G G GKSSLLN + G E E +
Sbjct: 1 VVVGRGGVGKSSLLNALLGGEVGEVSDV 28
>gnl|CDD|224050 COG1125, OpuBA, ABC-type proline/glycine betaine transport
systems, ATPase components [Amino acid transport and
metabolism].
Length = 309
Score = 36.5 bits (85), Expect = 4e-04
Identities = 12/36 (33%), Positives = 21/36 (58%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
K + V+ GE ++GPSG+GK++ L +I+
Sbjct: 14 KKAVDDVNLTIEEGEFLVLIGPSGSGKTTTLKMINR 49
>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 = 36.3 bits (84), Expect = 4e-04
Identities = 14/30 (46%), Positives = 20/30 (66%)
Query: 26 VSGRFRAGELSAILGPSGAGKSSLLNVISG 55
VS GE+ I+G SG+GKS+LL ++G
Sbjct: 22 VSFDLYPGEVLGIVGESGSGKSTLLGCLAG 51
>gnl|CDD|182692 PRK10744, pstB, phosphate transporter ATP-binding protein;
Provisional.
Length = 260
Score = 36.1 bits (84), Expect = 4e-04
Identities = 12/30 (40%), Positives = 20/30 (66%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNV 52
LK+++ +++A +GPSG GKS+LL
Sbjct: 29 LKNINLDIAKNQVTAFIGPSGCGKSTLLRT 58
>gnl|CDD|236997 PRK11831, PRK11831, putative ABC transporter ATP-binding protein
YrbF; Provisional.
Length = 269
Score = 36.3 bits (84), Expect = 4e-04
Identities = 15/36 (41%), Positives = 25/36 (69%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+ I ++S G+++AI+GPSG GK++LL +I G
Sbjct: 20 RCIFDNISLTVPRGKITAIMGPSGIGKTTLLRLIGG 55
>gnl|CDD|237894 PRK15064, PRK15064, ABC transporter ATP-binding protein;
Provisional.
Length = 530
Score = 36.4 bits (85), Expect = 4e-04
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+ K+++ AGE AI+G +G GK++LL + G
Sbjct: 332 GPLFKNLNLLLEAGERLAIIGENGVGKTTLLRTLVG 367
>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 = 35.7 bits (83), Expect = 4e-04
Identities = 12/37 (32%), Positives = 18/37 (48%), Gaps = 3/37 (8%)
Query: 14 NEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLL 50
P P + ++K G G L+ + G G GKS+L
Sbjct: 17 APPPPLRWLVK---GLLPRGGLTLLAGAPGTGKSTLA 50
>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 = 35.8 bits (83), Expect = 5e-04
Identities = 13/33 (39%), Positives = 24/33 (72%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
++ VS R R GE+ +LGP+GAGK++ + +++
Sbjct: 16 VRGVSFRVRRGEIFGLLGPNGAGKTTTIKMLTT 48
>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 = 36.1 bits (84), Expect = 5e-04
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLN 51
LK++ G L+ + G SG+GKSSL+N
Sbjct: 11 LKNIDVDIPLGVLTCVTGVSGSGKSSLIN 39
>gnl|CDD|225265 COG2401, COG2401, ABC-type ATPase fused to a predicted
acetyltransferase domain [General function prediction
only].
Length = 593
Score = 36.0 bits (83), Expect = 6e-04
Identities = 17/53 (32%), Positives = 34/53 (64%)
Query: 21 TILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNEKEEEKKKKKKEKE 73
+L++++ + G++ A++G SGAGK++LL +I G +K EE+ + + E
Sbjct: 397 YVLRNLNLEIKPGDVVAVVGQSGAGKTTLLRMILGAQKGRGEEKYRPDSGKVE 449
>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 = 35.4 bits (82), Expect = 6e-04
Identities = 11/21 (52%), Positives = 15/21 (71%)
Query: 37 AILGPSGAGKSSLLNVISGYE 57
++G +GAGKSSL N + G E
Sbjct: 1 GLMGKTGAGKSSLCNALFGTE 21
>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 = 35.8 bits (83), Expect = 6e-04
Identities = 18/39 (46%), Positives = 25/39 (64%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNEK 61
LK+VS G+ ILGP+G+GKS LL I+G+ K +
Sbjct: 15 LKNVSLEVERGDYFVILGPTGSGKSVLLETIAGFIKPDS 53
>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 = 35.6 bits (82), Expect = 7e-04
Identities = 17/46 (36%), Positives = 28/46 (60%)
Query: 10 VTFFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+ F N +LK+++ + GE+ AI G +G+GK+SLL +I G
Sbjct: 40 LFFSNLCLVGAPVLKNINLKIEKGEMLAITGSTGSGKTSLLMLILG 85
>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 = 35.8 bits (83), Expect = 7e-04
Identities = 12/29 (41%), Positives = 19/29 (65%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLN 51
LK+++ G + I G SG+GKS+L+N
Sbjct: 624 LKNITVSIPLGLFTCITGVSGSGKSTLIN 652
Score = 27.3 bits (61), Expect = 0.70
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSL 49
LK++ +L I G SG+GKSSL
Sbjct: 12 LKNIDVEIPRDKLVVITGLSGSGKSSL 38
>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 = 35.6 bits (82), Expect = 7e-04
Identities = 14/24 (58%), Positives = 18/24 (75%)
Query: 32 AGELSAILGPSGAGKSSLLNVISG 55
GEL +LGP+GAGK++LL I G
Sbjct: 5 KGELLGLLGPNGAGKTTLLRAILG 28
>gnl|CDD|235392 PRK05291, trmE, tRNA modification GTPase TrmE; Reviewed.
Length = 449
Score = 35.9 bits (84), Expect = 7e-04
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 6/46 (13%)
Query: 19 AKTILKSVSGRFRAGELS------AILGPSGAGKSSLLNVISGYEK 58
L+++ R GE+ I G GKSSLLN + G E+
Sbjct: 195 LIAELEALLASARQGEILREGLKVVIAGRPNVGKSSLLNALLGEER 240
>gnl|CDD|224166 COG1245, COG1245, Predicted ATPase, RNase L inhibitor (RLI) homolog
[General function prediction only].
Length = 591
Score = 35.7 bits (83), Expect = 7e-04
Identities = 17/46 (36%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK-NEKEEEKKK 67
L+ G GE+ ILGP+G GK++ + +++G K +E EE K
Sbjct: 357 LEVEEGEIYDGEVIGILGPNGIGKTTFVKLLAGVIKPDEGSEEDLK 402
Score = 30.7 bits (70), Expect = 0.044
Identities = 12/25 (48%), Positives = 19/25 (76%)
Query: 31 RAGELSAILGPSGAGKSSLLNVISG 55
R G++ ILGP+G GKS+ L +++G
Sbjct: 98 RPGKVVGILGPNGIGKSTALKILAG 122
>gnl|CDD|183080 PRK11300, livG, leucine/isoleucine/valine transporter ATP-binding
subunit; Provisional.
Length = 255
Score = 35.7 bits (83), Expect = 7e-04
Identities = 12/34 (35%), Positives = 25/34 (73%)
Query: 25 SVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
+V+ R E+ +++GP+GAGK+++ N ++G+ K
Sbjct: 23 NVNLEVREQEIVSLIGPNGAGKTTVFNCLTGFYK 56
>gnl|CDD|184582 PRK14236, PRK14236, phosphate transporter ATP-binding protein;
Provisional.
Length = 272
Score = 35.4 bits (82), Expect = 8e-04
Identities = 14/32 (43%), Positives = 19/32 (59%)
Query: 19 AKTILKSVSGRFRAGELSAILGPSGAGKSSLL 50
K L +S R ++A +GPSG GKS+LL
Sbjct: 37 DKQALFDISMRIPKNRVTAFIGPSGCGKSTLL 68
>gnl|CDD|226927 COG4555, NatA, ABC-type Na+ transport system, ATPase component
[Energy production and conversion / Inorganic ion
transport and metabolism].
Length = 245
Score = 35.1 bits (81), Expect = 0.001
Identities = 13/33 (39%), Positives = 23/33 (69%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
++ VS GE++ +LG +GAGK++LL +I+
Sbjct: 18 VRDVSFEAEEGEITGLLGENGAGKTTLLRMIAT 50
>gnl|CDD|234734 PRK00349, uvrA, excinuclease ABC subunit A; Reviewed.
Length = 943
Score = 35.0 bits (82), Expect = 0.001
Identities = 12/29 (41%), Positives = 19/29 (65%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLN 51
LK+V G+ + + G SG+GKS+L+N
Sbjct: 625 LKNVDVEIPLGKFTCVTGVSGSGKSTLIN 653
Score = 25.0 bits (56), Expect = 4.1
Identities = 8/12 (66%), Positives = 9/12 (75%)
Query: 38 ILGPSGAGKSSL 49
G SG+GKSSL
Sbjct: 31 FTGLSGSGKSSL 42
>gnl|CDD|234988 PRK01889, PRK01889, GTPase RsgA; Reviewed.
Length = 356
Score = 34.9 bits (81), Expect = 0.001
Identities = 12/23 (52%), Positives = 17/23 (73%)
Query: 33 GELSAILGPSGAGKSSLLNVISG 55
G+ A+LG SG GKS+L+N + G
Sbjct: 195 GKTVALLGSSGVGKSTLVNALLG 217
>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 = 34.5 bits (80), Expect = 0.001
Identities = 11/19 (57%), Positives = 12/19 (63%)
Query: 37 AILGPSGAGKSSLLNVISG 55
AI G GKSSLLN + G
Sbjct: 1 AIFGRPNVGKSSLLNALLG 19
>gnl|CDD|182893 PRK11000, PRK11000, maltose/maltodextrin transporter ATP-binding
protein; Provisional.
Length = 369
Score = 35.0 bits (81), Expect = 0.001
Identities = 14/25 (56%), Positives = 18/25 (72%)
Query: 33 GELSAILGPSGAGKSSLLNVISGYE 57
GE +GPSG GKS+LL +I+G E
Sbjct: 29 GEFVVFVGPSGCGKSTLLRMIAGLE 53
>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 = 34.7 bits (80), Expect = 0.001
Identities = 15/34 (44%), Positives = 22/34 (64%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISGY 56
L VS + G + LGP+GAGKS+ + +I+GY
Sbjct: 18 LDEVSFEAQKGRIVGFLGPNGAGKSTTMKIITGY 51
>gnl|CDD|223561 COG0486, ThdF, Predicted GTPase [General function prediction only].
Length = 454
Score = 34.8 bits (81), Expect = 0.002
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 37 AILGPSGAGKSSLLNVISGYEK 58
I+G GKSSLLN + G ++
Sbjct: 221 VIIGRPNVGKSSLLNALLGRDR 242
>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 = 34.7 bits (80), Expect = 0.002
Identities = 14/36 (38%), Positives = 24/36 (66%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+T + ++S + +LGP+GAGKS+LL +I+G
Sbjct: 13 QTAVNNISLTVPKNSVYGLLGPNGAGKSTLLKMITG 48
>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 = 34.6 bits (80), Expect = 0.002
Identities = 10/42 (23%), Positives = 22/42 (52%), Gaps = 3/42 (7%)
Query: 12 FFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVI 53
+ A + +++ GE ++GPSG+GK++ + +I
Sbjct: 9 RYGGGKKA---VNNLNLEIAKGEFLVLIGPSGSGKTTTMKMI 47
>gnl|CDD|226635 COG4161, ArtP, ABC-type arginine transport system, ATPase
component [Amino acid transport and metabolism].
Length = 242
Score = 34.4 bits (79), Expect = 0.002
Identities = 15/23 (65%), Positives = 18/23 (78%)
Query: 32 AGELSAILGPSGAGKSSLLNVIS 54
GE +LGPSGAGKSSLL V++
Sbjct: 27 EGETLVLLGPSGAGKSSLLRVLN 49
>gnl|CDD|182336 PRK10253, PRK10253, iron-enterobactin transporter ATP-binding
protein; Provisional.
Length = 265
Score = 34.6 bits (79), Expect = 0.002
Identities = 13/35 (37%), Positives = 23/35 (65%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
T+ ++++ G +AI+GP+G GKS+LL +S
Sbjct: 20 YTVAENLTVEIPDGHFTAIIGPNGCGKSTLLRTLS 54
>gnl|CDD|184199 PRK13639, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 275
Score = 34.3 bits (79), Expect = 0.002
Identities = 21/54 (38%), Positives = 30/54 (55%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNEKEEEKKKKKKEKEKKK 76
LK ++ + GE+ A+LGP+GAGKS+L +G K E K + K KK
Sbjct: 18 LKGINFKAEKGEMVALLGPNGAGKSTLFLHFNGILKPTSGEVLIKGEPIKYDKK 71
>gnl|CDD|184134 PRK13549, PRK13549, xylose transporter ATP-binding subunit;
Provisional.
Length = 506
Score = 34.1 bits (79), Expect = 0.002
Identities = 17/33 (51%), Positives = 26/33 (78%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
L +VS + RAGE+ ++ G +GAGKS+L+ V+SG
Sbjct: 21 LDNVSLKVRAGEIVSLCGENGAGKSTLMKVLSG 53
>gnl|CDD|237457 PRK13647, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 274
Score = 33.9 bits (78), Expect = 0.002
Identities = 15/28 (53%), Positives = 20/28 (71%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLL 50
LK +S G +A+LGP+GAGKS+LL
Sbjct: 21 LKGLSLSIPEGSKTALLGPNGAGKSTLL 48
>gnl|CDD|227118 COG4778, PhnL, ABC-type phosphonate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 235
Score = 33.9 bits (78), Expect = 0.003
Identities = 15/29 (51%), Positives = 21/29 (72%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLL 50
+L++VS AGE + GPSG+GKS+LL
Sbjct: 26 VLRNVSLSVNAGECVVLHGPSGSGKSTLL 54
>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 = 33.9 bits (78), Expect = 0.003
Identities = 11/33 (33%), Positives = 22/33 (66%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+ V+ + R GE+ LGP+GAGK++ + +++
Sbjct: 9 VDGVNFKVREGEVFGFLGPNGAGKTTTIRMLTT 41
>gnl|CDD|182592 PRK10619, PRK10619, histidine/lysine/arginine/ornithine
transporter subunit; Provisional.
Length = 257
Score = 34.2 bits (78), Expect = 0.003
Identities = 17/37 (45%), Positives = 26/37 (70%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
+LK VS + AG++ +I+G SG+GKS+ L I+ EK
Sbjct: 20 VLKGVSLQANAGDVISIIGSSGSGKSTFLRCINFLEK 56
>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 = 33.8 bits (78), Expect = 0.003
Identities = 18/48 (37%), Positives = 25/48 (52%), Gaps = 10/48 (20%)
Query: 14 NEPSPAKTILKSVSGR-----FRAGELS-----AILGPSGAGKSSLLN 51
N PA T+LK+ SG F + I GP+G+GK++LLN
Sbjct: 405 NPWGPALTLLKTQSGTPFYFNFHVRDAKVLGHTLIFGPTGSGKTTLLN 452
>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 = 34.0 bits (78), Expect = 0.003
Identities = 13/35 (37%), Positives = 20/35 (57%)
Query: 21 TILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
L + R GE + G +GAGKS+L+ ++SG
Sbjct: 15 KALDGIDLEVRPGECVGLCGENGAGKSTLMKILSG 49
>gnl|CDD|223256 COG0178, UvrA, Excinuclease ATPase subunit [DNA replication,
recombination, and repair].
Length = 935
Score = 33.7 bits (78), Expect = 0.003
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLN 51
LK++ G + + G SG+GKS+L+N
Sbjct: 617 LKNIDVEIPLGVFTCVTGVSGSGKSTLIN 645
Score = 32.9 bits (76), Expect = 0.007
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSL 49
LK++ +L I G SG+GKSSL
Sbjct: 16 LKNIDLEIPRNKLVVITGLSGSGKSSL 42
>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 = 33.0 bits (76), Expect = 0.003
Identities = 8/22 (36%), Positives = 15/22 (68%)
Query: 37 AILGPSGAGKSSLLNVISGYEK 58
A++G GKS+L+N ++G +
Sbjct: 3 ALVGRPNVGKSTLINALTGAKV 24
>gnl|CDD|226637 COG4167, SapF, ABC-type antimicrobial peptide transport system,
ATPase component [Defense mechanisms].
Length = 267
Score = 33.6 bits (77), Expect = 0.004
Identities = 14/33 (42%), Positives = 23/33 (69%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+K VS R G+ AI+G +G+GKS+L +++G
Sbjct: 29 VKPVSFTLREGQTLAIIGENGSGKSTLAKMLAG 61
>gnl|CDD|240327 PTZ00243, PTZ00243, ABC transporter; Provisional.
Length = 1560
Score = 33.6 bits (77), Expect = 0.004
Identities = 17/44 (38%), Positives = 30/44 (68%), Gaps = 1/44 (2%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLL-NVISGYEKNEKE 62
K +L+ VS G+L+ +LG +G+GKS+LL +++S +E +E
Sbjct: 673 KVLLRDVSVSVPRGKLTVVLGATGSGKSTLLQSLLSQFEISEGR 716
Score = 29.4 bits (66), Expect = 0.14
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLL 50
+L+ VS R E I+G +G+GKS+LL
Sbjct: 1325 VLRGVSFRIAPREKVGIVGRTGSGKSTLL 1353
>gnl|CDD|184590 PRK14249, PRK14249, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 251
Score = 33.5 bits (76), Expect = 0.004
Identities = 14/33 (42%), Positives = 25/33 (75%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
+LK+++ F +++AI+GPSG GKS+LL ++
Sbjct: 19 VLKNINMDFPERQITAIIGPSGCGKSTLLRALN 51
>gnl|CDD|183133 PRK11432, fbpC, ferric transporter ATP-binding subunit;
Provisional.
Length = 351
Score = 33.5 bits (77), Expect = 0.004
Identities = 16/50 (32%), Positives = 29/50 (58%), Gaps = 13/50 (26%)
Query: 22 ILKSVSGRF-------------RAGELSAILGPSGAGKSSLLNVISGYEK 58
+LK+++ RF + G + +LGPSG GK+++L +++G EK
Sbjct: 8 VLKNITKRFGSNTVIDNLNLTIKQGTMVTLLGPSGCGKTTVLRLVAGLEK 57
>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 = 33.2 bits (76), Expect = 0.005
Identities = 15/41 (36%), Positives = 25/41 (60%), Gaps = 3/41 (7%)
Query: 10 VTF-FNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSL 49
+ F + SP +L +++ + GE I+GPSG+GKS+L
Sbjct: 461 IRFRYAPDSPE--VLSNLNLDIKPGEFIGIVGPSGSGKSTL 499
>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 = 33.3 bits (77), Expect = 0.005
Identities = 17/46 (36%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 10 VTFFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
V+F + K + VS + GE+ I+G SG+GKS L I G
Sbjct: 9 VSFPTDAGVVK-AVDGVSFELKKGEILGIVGESGSGKSVLAKAIMG 53
>gnl|CDD|237420 PRK13537, PRK13537, nodulation ABC transporter NodI; Provisional.
Length = 306
Score = 33.2 bits (76), Expect = 0.006
Identities = 13/36 (36%), Positives = 23/36 (63%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
K ++ +S + GE +LGP+GAGK++ L ++ G
Sbjct: 20 KLVVDGLSFHVQRGECFGLLGPNGAGKTTTLRMLLG 55
>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 = 32.9 bits (75), Expect = 0.006
Identities = 14/31 (45%), Positives = 18/31 (58%), Gaps = 2/31 (6%)
Query: 23 LKSVSGRFRAGELSAIL--GPSGAGKSSLLN 51
L R R+G ++L GPSG GK+SLL
Sbjct: 12 LLDALRRARSGGPPSVLLTGPSGTGKTSLLR 42
>gnl|CDD|172760 PRK14272, PRK14272, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 252
Score = 33.1 bits (75), Expect = 0.006
Identities = 13/35 (37%), Positives = 24/35 (68%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
K +K+V+ + G ++A++GPSG GK++ L I+
Sbjct: 17 KQAVKNVNLDVQRGTVNALIGPSGCGKTTFLRAIN 51
>gnl|CDD|237419 PRK13536, PRK13536, nodulation factor exporter subunit NodI;
Provisional.
Length = 340
Score = 32.9 bits (75), Expect = 0.006
Identities = 14/36 (38%), Positives = 23/36 (63%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
K ++ +S +GE +LGP+GAGKS++ +I G
Sbjct: 54 KAVVNGLSFTVASGECFGLLGPNGAGKSTIARMILG 89
>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 = 32.8 bits (75), Expect = 0.006
Identities = 10/17 (58%), Positives = 15/17 (88%)
Query: 37 AILGPSGAGKSSLLNVI 53
I+GPSG+GKS+LL ++
Sbjct: 5 LIVGPSGSGKSTLLKLL 21
>gnl|CDD|184586 PRK14240, PRK14240, phosphate transporter ATP-binding protein;
Provisional.
Length = 250
Score = 32.7 bits (75), Expect = 0.007
Identities = 11/28 (39%), Positives = 19/28 (67%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLL 50
LK ++ +++A++GPSG GKS+ L
Sbjct: 19 LKKINLDIEENQVTALIGPSGCGKSTFL 46
>gnl|CDD|226952 COG4586, COG4586, ABC-type uncharacterized transport system,
ATPase component [General function prediction only].
Length = 325
Score = 32.7 bits (75), Expect = 0.008
Identities = 12/32 (37%), Positives = 20/32 (62%)
Query: 24 KSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+ +S GE+ LG +GAGKS+ L +++G
Sbjct: 41 QDISFEIPKGEIVGFLGANGAGKSTTLKMLTG 72
>gnl|CDD|185067 PRK15112, PRK15112, antimicrobial peptide ABC system ATP-binding
protein SapF; Provisional.
Length = 267
Score = 32.5 bits (74), Expect = 0.008
Identities = 13/33 (39%), Positives = 23/33 (69%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+K +S R G+ AI+G +G+GKS+L +++G
Sbjct: 29 VKPLSFTLREGQTLAIIGENGSGKSTLAKMLAG 61
>gnl|CDD|226641 COG4172, COG4172, ABC-type uncharacterized transport system,
duplicated ATPase component [General function
prediction only].
Length = 534
Score = 32.6 bits (75), Expect = 0.009
Identities = 13/35 (37%), Positives = 20/35 (57%)
Query: 13 FNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKS 47
F++ +K +S AGE A++G SG+GKS
Sbjct: 16 FHQEGGTVEAVKGISFDIEAGETLALVGESGSGKS 50
Score = 30.3 bits (69), Expect = 0.060
Identities = 10/27 (37%), Positives = 17/27 (62%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSL 49
+ +S R G+ ++G SG+GKS+L
Sbjct: 303 VDGISLTLRRGQTLGLVGESGSGKSTL 329
>gnl|CDD|172744 PRK14256, PRK14256, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 252
Score = 32.3 bits (73), Expect = 0.010
Identities = 15/32 (46%), Positives = 22/32 (68%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
+K VS F ++AI+GPSG GKS++L I+
Sbjct: 20 VKDVSMDFPENSVTAIIGPSGCGKSTVLRSIN 51
>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 = 0.010
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 33 GELSAILGPSGAGKSSLL 50
G L ++GPSGAGK +LL
Sbjct: 1 GRLIYVVGPSGAGKDTLL 18
>gnl|CDD|184127 PRK13540, PRK13540, cytochrome c biogenesis protein CcmA;
Provisional.
Length = 200
Score = 32.2 bits (73), Expect = 0.011
Identities = 17/42 (40%), Positives = 26/42 (61%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNEKEE 63
+L+ +S AG L + G +GAGK++LL +I+G EK E
Sbjct: 16 LLQQISFHLPAGGLLHLKGSNGAGKTTLLKLIAGLLNPEKGE 57
>gnl|CDD|226232 COG3709, COG3709, Uncharacterized component of phosphonate
metabolism [Inorganic ion transport and metabolism].
Length = 192
Score = 32.3 bits (74), Expect = 0.011
Identities = 12/18 (66%), Positives = 15/18 (83%)
Query: 33 GELSAILGPSGAGKSSLL 50
G L A++GPSGAGK +LL
Sbjct: 5 GRLIAVVGPSGAGKDTLL 22
>gnl|CDD|184195 PRK13635, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 279
Score = 32.3 bits (74), Expect = 0.012
Identities = 18/44 (40%), Positives = 25/44 (56%)
Query: 12 FFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
F P A LK VS GE AI+G +G+GKS+L +++G
Sbjct: 12 SFRYPDAATYALKDVSFSVYEGEWVAIVGHNGSGKSTLAKLLNG 55
>gnl|CDD|172743 PRK14255, PRK14255, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 252
Score = 32.3 bits (73), Expect = 0.012
Identities = 13/32 (40%), Positives = 21/32 (65%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
LK + F E++A++GPSG GKS+ L ++
Sbjct: 21 LKGIDLDFNQNEITALIGPSGCGKSTYLRTLN 52
>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 = 32.0 bits (73), Expect = 0.012
Identities = 14/49 (28%), Positives = 20/49 (40%), Gaps = 6/49 (12%)
Query: 7 VTMVTFFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
V M + N+ + I +S G SG GKSSL+N +
Sbjct: 100 VLMTSSKNQDGLKELIEA------LQNRISVFAGQSGVGKSSLINALDP 142
>gnl|CDD|172759 PRK14271, PRK14271, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 276
Score = 32.0 bits (72), Expect = 0.012
Identities = 13/36 (36%), Positives = 25/36 (69%)
Query: 19 AKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
KT+L VS F A +++++GP+G+GK++ L ++
Sbjct: 33 GKTVLDQVSMGFPARAVTSLMGPTGSGKTTFLRTLN 68
>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 = 31.8 bits (72), Expect = 0.013
Identities = 10/36 (27%), Positives = 21/36 (58%)
Query: 28 GRFRAGELSAILGPSGAGKSSLLNVISGYEKNEKEE 63
G + GE+ I+GP+G GK++ + +++G +
Sbjct: 20 GVVKEGEVIGIVGPNGTGKTTAVKILAGQLIPNGDN 55
>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 = 32.1 bits (73), Expect = 0.014
Identities = 11/23 (47%), Positives = 18/23 (78%)
Query: 33 GELSAILGPSGAGKSSLLNVISG 55
GE+ ++G SG+GKS+LL ++G
Sbjct: 50 GEICVLMGLSGSGKSTLLRAVNG 72
>gnl|CDD|182817 PRK10895, PRK10895, lipopolysaccharide ABC transporter
ATP-binding protein; Provisional.
Length = 241
Score = 31.8 bits (72), Expect = 0.015
Identities = 12/36 (33%), Positives = 24/36 (66%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+ +++ VS +GE+ +LGP+GAGK++ ++ G
Sbjct: 16 RRVVEDVSLTVNSGEIVGLLGPNGAGKTTTFYMVVG 51
>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 = 32.1 bits (73), Expect = 0.015
Identities = 15/37 (40%), Positives = 25/37 (67%)
Query: 21 TILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYE 57
T+L ++ AGE A++GPSG+GKS++L ++ E
Sbjct: 14 TVLDGLNFSVAAGEKVALIGPSGSGKSTILRILMTLE 50
>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 = 32.1 bits (73), Expect = 0.015
Identities = 11/21 (52%), Positives = 19/21 (90%)
Query: 38 ILGPSGAGKSSLLNVISGYEK 58
+LGPSG GK++LL +++G+E+
Sbjct: 1 LLGPSGCGKTTLLRLLAGFEQ 21
>gnl|CDD|182880 PRK10982, PRK10982, galactose/methyl galaxtoside transporter
ATP-binding protein; Provisional.
Length = 491
Score = 32.0 bits (73), Expect = 0.015
Identities = 16/46 (34%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 18 PAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG-YEKNEKE 62
P L +V+ + R + A++G +GAGKS+LL + G Y+K+
Sbjct: 9 PGVKALDNVNLKVRPHSIHALMGENGAGKSTLLKCLFGIYQKDSGS 54
>gnl|CDD|237040 PRK12289, PRK12289, GTPase RsgA; Reviewed.
Length = 352
Score = 31.9 bits (73), Expect = 0.016
Identities = 10/20 (50%), Positives = 15/20 (75%)
Query: 32 AGELSAILGPSGAGKSSLLN 51
+++ + GPSG GKSSL+N
Sbjct: 171 RNKITVVAGPSGVGKSSLIN 190
>gnl|CDD|184037 PRK13409, PRK13409, putative ATPase RIL; Provisional.
Length = 590
Score = 31.7 bits (73), Expect = 0.018
Identities = 10/25 (40%), Positives = 20/25 (80%)
Query: 31 RAGELSAILGPSGAGKSSLLNVISG 55
+ G+++ ILGP+G GK++ + ++SG
Sbjct: 97 KEGKVTGILGPNGIGKTTAVKILSG 121
Score = 29.4 bits (67), Expect = 0.11
Identities = 12/36 (33%), Positives = 21/36 (58%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
L+ G GE+ I+GP+G GK++ +++G K
Sbjct: 355 LEVEGGEIYEGEVIGIVGPNGIGKTTFAKLLAGVLK 390
>gnl|CDD|172734 PRK14246, PRK14246, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 257
Score = 31.6 bits (71), Expect = 0.019
Identities = 15/35 (42%), Positives = 24/35 (68%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
K ILK ++ + + I+GPSG+GKS+LL V++
Sbjct: 23 KAILKDITIKIPNNSIFGIMGPSGSGKSTLLKVLN 57
>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 = 31.8 bits (72), Expect = 0.019
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
K ++ +S GE +LGP+GAGKS++ ++ G
Sbjct: 17 KVVVNDLSFTIARGECFGLLGPNGAGKSTIARMLLG 52
>gnl|CDD|172749 PRK14261, PRK14261, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 253
Score = 31.7 bits (72), Expect = 0.019
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLL 50
K L ++ ++A++GPSG GKS+LL
Sbjct: 19 KHALYDITISIPKNRVTALIGPSGCGKSTLL 49
>gnl|CDD|182569 PRK10584, PRK10584, putative ABC transporter ATP-binding protein
YbbA; Provisional.
Length = 228
Score = 31.7 bits (72), Expect = 0.019
Identities = 15/35 (42%), Positives = 24/35 (68%)
Query: 21 TILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+IL V + GE A++G SG+GKS+LL +++G
Sbjct: 24 SILTGVELVVKRGETIALIGESGSGKSTLLAILAG 58
>gnl|CDD|172750 PRK14262, PRK14262, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 250
Score = 31.4 bits (71), Expect = 0.020
Identities = 14/35 (40%), Positives = 25/35 (71%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
K +K+V+ + +++AI+GPSG GK++LL I+
Sbjct: 16 KKAVKNVTMKIFKNQITAIIGPSGCGKTTLLRSIN 50
>gnl|CDD|224025 COG1100, COG1100, GTPase SAR1 and related small G proteins
[General function prediction only].
Length = 219
Score = 31.5 bits (71), Expect = 0.020
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 37 AILGPSGAGKSSLLNVISGYEKNEK 61
+LG G GK++LLN + G E E
Sbjct: 9 VVLGDGGVGKTTLLNRLVGDEFPEG 33
>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 = 31.6 bits (72), Expect = 0.022
Identities = 12/42 (28%), Positives = 24/42 (57%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNEKEEE 64
L+ G E+ ILGP+G GK++ + +++G K ++ +
Sbjct: 15 LEVEGGSISESEVIGILGPNGIGKTTFIKMLAGVLKPDEGDI 56
>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 = 31.2 bits (70), Expect = 0.022
Identities = 9/24 (37%), Positives = 16/24 (66%)
Query: 33 GELSAILGPSGAGKSSLLNVISGY 56
GE+ I+GP G+GK++L ++
Sbjct: 2 GEVILIVGPPGSGKTTLARALARE 25
>gnl|CDD|237917 PRK15134, PRK15134, microcin C ABC transporter ATP-binding protein
YejF; Provisional.
Length = 529
Score = 31.6 bits (72), Expect = 0.022
Identities = 14/39 (35%), Positives = 24/39 (61%), Gaps = 4/39 (10%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSS----LLNVIS 54
++K++S R GE ++G SG+GKS+ LL +I+
Sbjct: 299 NVVVKNISFTLRPGETLGLVGESGSGKSTTGLALLRLIN 337
Score = 28.5 bits (64), Expect = 0.29
Identities = 13/28 (46%), Positives = 20/28 (71%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKS 47
+T++ VS + AGE A++G SG+GKS
Sbjct: 22 RTVVNDVSLQIEAGETLALVGESGSGKS 49
>gnl|CDD|182330 PRK10246, PRK10246, exonuclease subunit SbcC; Provisional.
Length = 1047
Score = 31.3 bits (71), Expect = 0.023
Identities = 13/24 (54%), Positives = 18/24 (75%)
Query: 30 FRAGELSAILGPSGAGKSSLLNVI 53
F + L AI GP+GAGK++LL+ I
Sbjct: 27 FASNGLFAITGPTGAGKTTLLDAI 50
>gnl|CDD|237645 PRK14235, PRK14235, phosphate transporter ATP-binding protein;
Provisional.
Length = 267
Score = 31.2 bits (71), Expect = 0.024
Identities = 12/35 (34%), Positives = 17/35 (48%)
Query: 19 AKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVI 53
K L V ++A +GPSG GKS+ L +
Sbjct: 31 EKQALFDVDLDIPEKTVTAFIGPSGCGKSTFLRCL 65
>gnl|CDD|172741 PRK14253, PRK14253, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 249
Score = 31.4 bits (71), Expect = 0.026
Identities = 14/28 (50%), Positives = 22/28 (78%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLL 50
LKS++ A +++A++GPSG GKS+LL
Sbjct: 19 LKSINLPIPARQVTALIGPSGCGKSTLL 46
>gnl|CDD|184129 PRK13543, PRK13543, cytochrome c biogenesis protein CcmA;
Provisional.
Length = 214
Score = 31.4 bits (71), Expect = 0.026
Identities = 12/27 (44%), Positives = 18/27 (66%)
Query: 29 RFRAGELSAILGPSGAGKSSLLNVISG 55
AGE + G +GAGK++LL V++G
Sbjct: 33 HVDAGEALLVQGDNGAGKTTLLRVLAG 59
>gnl|CDD|172739 PRK14251, PRK14251, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 251
Score = 31.2 bits (70), Expect = 0.028
Identities = 14/32 (43%), Positives = 21/32 (65%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
L +S F EL+A++GPSG GKS+ L ++
Sbjct: 20 LHGISLDFEEKELTALIGPSGCGKSTFLRCLN 51
>gnl|CDD|234806 PRK00635, PRK00635, excinuclease ABC subunit A; Provisional.
Length = 1809
Score = 31.0 bits (70), Expect = 0.032
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLN 51
LK ++ G L+ + G SG+GKSSL+N
Sbjct: 611 LKDLTISLPLGRLTVVTGVSGSGKSSLIN 639
Score = 29.8 bits (67), Expect = 0.085
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 8/48 (16%)
Query: 2 SLQTHVTMVTFFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSL 49
SL ++ +T N LK++S F E+ + G SG+GKSSL
Sbjct: 3 SLPVRLSGITVRN--------LKNISIEFCPREIVLLTGVSGSGKSSL 42
Score = 25.9 bits (57), Expect = 2.2
Identities = 11/16 (68%), Positives = 13/16 (81%)
Query: 35 LSAILGPSGAGKSSLL 50
L AI G SG+GK+SLL
Sbjct: 1518 LVAISGVSGSGKTSLL 1533
>gnl|CDD|172730 PRK14242, PRK14242, phosphate transporter ATP-binding protein;
Provisional.
Length = 253
Score = 30.9 bits (70), Expect = 0.032
Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 3/50 (6%)
Query: 1 MSLQTHVTMVTFFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLL 50
+ ++FF A L +S F +++A++GPSG GKS+ L
Sbjct: 3 SPPKMEARGLSFFYGDFQA---LHDISLEFEQNQVTALIGPSGCGKSTFL 49
>gnl|CDD|236648 PRK10078, PRK10078, ribose 1,5-bisphosphokinase; Provisional.
Length = 186
Score = 30.9 bits (70), Expect = 0.032
Identities = 11/21 (52%), Positives = 16/21 (76%)
Query: 33 GELSAILGPSGAGKSSLLNVI 53
G+L ++GPSG+GK SLL +
Sbjct: 2 GKLIWLMGPSGSGKDSLLAAL 22
>gnl|CDD|183231 PRK11614, livF, leucine/isoleucine/valine transporter ATP-binding
subunit; Provisional.
Length = 237
Score = 31.0 bits (70), Expect = 0.034
Identities = 13/33 (39%), Positives = 20/33 (60%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
L VS GE+ ++G +GAGK++LL + G
Sbjct: 21 LHEVSLHINQGEIVTLIGANGAGKTTLLGTLCG 53
>gnl|CDD|215595 PLN03130, PLN03130, ABC transporter C family member; Provisional.
Length = 1622
Score = 30.9 bits (70), Expect = 0.035
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLLNVI 53
+L +S E I+G +GAGKSS+LN +
Sbjct: 1254 VLHGLSFEISPSEKVGIVGRTGAGKSSMLNAL 1285
Score = 27.4 bits (61), Expect = 0.68
Identities = 11/24 (45%), Positives = 17/24 (70%)
Query: 32 AGELSAILGPSGAGKSSLLNVISG 55
G L AI+G +G GK+SL++ + G
Sbjct: 642 VGSLVAIVGSTGEGKTSLISAMLG 665
>gnl|CDD|184196 PRK13636, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 283
Score = 31.0 bits (70), Expect = 0.035
Identities = 16/36 (44%), Positives = 25/36 (69%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
LK ++ + GE++AILG +GAGKS+L ++G K
Sbjct: 22 LKGININIKKGEVTAILGGNGAGKSTLFQNLNGILK 57
>gnl|CDD|172762 PRK14274, PRK14274, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 259
Score = 30.6 bits (69), Expect = 0.036
Identities = 12/32 (37%), Positives = 22/32 (68%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
LK+++ E++AI+GPSG GKS+ + ++
Sbjct: 28 LKNINLSIPENEVTAIIGPSGCGKSTFIKTLN 59
>gnl|CDD|226967 COG4608, AppF, ABC-type oligopeptide transport system, ATPase
component [Amino acid transport and metabolism].
Length = 268
Score = 30.6 bits (70), Expect = 0.036
Identities = 18/62 (29%), Positives = 31/62 (50%), Gaps = 7/62 (11%)
Query: 21 TILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKN-------EKEEEKKKKKKEKE 73
+ VS + GE ++G SG GKS+L +I G E+ E ++ K K+E+
Sbjct: 27 KAVDGVSFSIKEGETLGLVGESGCGKSTLGRLILGLEEPTSGEILFEGKDITKLSKEERR 86
Query: 74 KK 75
++
Sbjct: 87 ER 88
>gnl|CDD|172735 PRK14247, PRK14247, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 250
Score = 30.7 bits (69), Expect = 0.037
Identities = 13/33 (39%), Positives = 22/33 (66%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
+L V+ ++A++GPSG+GKS+LL V +
Sbjct: 18 VLDGVNLEIPDNTITALMGPSGSGKSTLLRVFN 50
>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 = 30.8 bits (70), Expect = 0.039
Identities = 15/28 (53%), Positives = 22/28 (78%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSL 49
+LK+VS + +AGE I+G +GAGKS+L
Sbjct: 23 VLKNVSFKVKAGEKIGIVGRTGAGKSTL 50
>gnl|CDD|234274 TIGR03594, GTPase_EngA, ribosome-associated GTPase EngA. EngA
(YfgK, Der) is a ribosome-associated essential GTPase
with a duplication of its GTP-binding domain. It is
broadly to universally distributed among bacteria. It
appears to function in ribosome biogenesis or stability
[Protein synthesis, Other].
Length = 429
Score = 30.9 bits (71), Expect = 0.039
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 37 AILGPSGAGKSSLLNVISGYE 57
AI+G GKS+L+N + G E
Sbjct: 176 AIIGRPNVGKSTLVNALLGEE 196
>gnl|CDD|182342 PRK10261, PRK10261, glutathione transporter ATP-binding protein;
Provisional.
Length = 623
Score = 30.6 bits (69), Expect = 0.040
Identities = 12/35 (34%), Positives = 20/35 (57%)
Query: 13 FNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKS 47
F + ++++S + GE AI+G SG+GKS
Sbjct: 22 FMQEQQKIAAVRNLSFSLQRGETLAIVGESGSGKS 56
>gnl|CDD|213242 cd03275, ABC_SMC1_euk, ATP-binding cassette domain of eukaryotic
SMC1 proteins. The structural maintenance of
chromosomes (SMC) proteins are large (approximately 110
to 170 kDa), and each is arranged into five
recognizable domains. Amino-acid sequence homology of
SMC proteins between species is largely confined to the
amino- and carboxy-terminal globular domains. The
amino-terminal domain contains a 'Walker A'
nucleotide-binding domain (GxxGxGKS/T, in the
single-letter amino-acid code), which by mutational
studies has been shown to be essential in several
proteins. The carboxy-terminal domain contains a
sequence (the DA-box) that resembles a 'Walker B'
motif, and a motif with homology to the signature
sequence of the ATP-binding cassette (ABC) family of
ATPases. The sequence homology within the
carboxy-terminal domain is relatively high within the
SMC1-SMC4 group, whereas SMC5 and SMC6 show some
divergence in both of these sequences. In eukaryotic
cells, the proteins are found as heterodimers of SMC1
paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6
(formerly known as Rad18).
Length = 247
Score = 30.6 bits (70), Expect = 0.041
Identities = 15/34 (44%), Positives = 22/34 (64%), Gaps = 3/34 (8%)
Query: 24 KSVSGRFRAGEL---SAILGPSGAGKSSLLNVIS 54
KS GR G + I+GP+G+GKS+L++ IS
Sbjct: 10 KSYKGRHVIGPFDRFTCIIGPNGSGKSNLMDAIS 43
>gnl|CDD|205733 pfam13555, AAA_29, P-loop containing region of AAA domain.
Length = 60
Score = 29.1 bits (66), Expect = 0.043
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 37 AILGPSGAGKSSLLNVIS 54
+ GPSG+GKS+L++ I
Sbjct: 25 LLTGPSGSGKSTLIDAIQ 42
>gnl|CDD|237649 PRK14254, PRK14254, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 285
Score = 30.5 bits (69), Expect = 0.043
Identities = 13/32 (40%), Positives = 20/32 (62%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
L VS +++A++GPSG GKS+ L I+
Sbjct: 55 LDDVSMDIPENQVTAMIGPSGCGKSTFLRCIN 86
>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 = 30.4 bits (69), Expect = 0.047
Identities = 12/25 (48%), Positives = 18/25 (72%)
Query: 30 FRAGELSAILGPSGAGKSSLLNVIS 54
F G L+ I GP+G+GKS++L+ I
Sbjct: 18 FGEGSLTIITGPNGSGKSTILDAIG 42
>gnl|CDD|184210 PRK13651, PRK13651, cobalt transporter ATP-binding subunit;
Provisional.
Length = 305
Score = 30.4 bits (69), Expect = 0.049
Identities = 27/71 (38%), Positives = 37/71 (52%), Gaps = 9/71 (12%)
Query: 13 FNEPSPAK-TILKSVSGRFRAGELSAILGPSGAGKSS--------LLNVISGYEKNEKEE 63
FN+ P + L +VS GE AI+G +G+GK++ LL E K+E
Sbjct: 12 FNKKLPTELKALDNVSVEINQGEFIAIIGQTGSGKTTFIEHLNALLLPDTGTIEWIFKDE 71
Query: 64 EKKKKKKEKEK 74
+ KKK KEKEK
Sbjct: 72 KNKKKTKEKEK 82
>gnl|CDD|185037 PRK15079, PRK15079, oligopeptide ABC transporter ATP-binding
protein OppF; Provisional.
Length = 331
Score = 30.4 bits (69), Expect = 0.049
Identities = 18/42 (42%), Positives = 22/42 (52%), Gaps = 4/42 (9%)
Query: 17 SPAKTILKSVSG---RFRAGELSAILGPSGAGKSSLLNVISG 55
P KT LK+V G R GE ++G SG GKS+ I G
Sbjct: 29 QPPKT-LKAVDGVTLRLYEGETLGVVGESGCGKSTFARAIIG 69
>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 = 0.050
Identities = 11/21 (52%), Positives = 16/21 (76%)
Query: 34 ELSAILGPSGAGKSSLLNVIS 54
L I GP+GAGKS++L+ I+
Sbjct: 29 GLFLICGPTGAGKSTILDAIT 49
>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 = 30.1 bits (69), Expect = 0.052
Identities = 12/33 (36%), Positives = 18/33 (54%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
++ VS RAGE+ I G G G++ L + G
Sbjct: 16 VRDVSFEVRAGEIVGIAGLVGNGQTELAEALFG 48
>gnl|CDD|183016 PRK11176, PRK11176, lipid transporter ATP-binding/permease protein;
Provisional.
Length = 582
Score = 30.4 bits (69), Expect = 0.054
Identities = 15/49 (30%), Positives = 30/49 (61%), Gaps = 9/49 (18%)
Query: 10 VTFF----NEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
VTF P+ L++++ + AG+ A++G SG+GKS++ N+++
Sbjct: 347 VTFTYPGKEVPA-----LRNINFKIPAGKTVALVGRSGSGKSTIANLLT 390
>gnl|CDD|226643 COG4175, ProV, ABC-type proline/glycine betaine transport system,
ATPase component [Amino acid transport and metabolism].
Length = 386
Score = 30.4 bits (69), Expect = 0.055
Identities = 11/33 (33%), Positives = 20/33 (60%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+ S GE+ I+G SG+GKS+L+ +++
Sbjct: 44 VNDASLDVEEGEIFVIMGLSGSGKSTLVRLLNR 76
>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 = 30.0 bits (68), Expect = 0.058
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 37 AILGPSGAGKSSLLNVISGYEKNEKEE 63
A+ G SGAGKSS +N + G E+
Sbjct: 5 AVTGESGAGKSSFINALRGIGHEEEGA 31
>gnl|CDD|184594 PRK14264, PRK14264, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 305
Score = 30.2 bits (68), Expect = 0.061
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLL 50
LK VS ++A++GPSG GKS+ L
Sbjct: 61 LKGVSMDIPEKSVTALIGPSGCGKSTFL 88
>gnl|CDD|225982 COG3451, VirB4, Type IV secretory pathway, VirB4 components
[Intracellular trafficking and secretion].
Length = 796
Score = 30.4 bits (69), Expect = 0.062
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 37 AILGPSGAGKSSLLNVI 53
I+GP+GAGK+ LL+ +
Sbjct: 440 LIIGPTGAGKTVLLSFL 456
>gnl|CDD|184593 PRK14258, PRK14258, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 261
Score = 30.0 bits (67), Expect = 0.062
Identities = 18/51 (35%), Positives = 30/51 (58%), Gaps = 2/51 (3%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNEKEEEKKKKKK 70
+ IL+ VS +++AI+GPSG GKS+ L ++ NE E E + + +
Sbjct: 20 QKILEGVSMEIYQSKVTAIIGPSGCGKSTFLKCLN--RMNELESEVRVEGR 68
>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 = 30.2 bits (68), Expect = 0.064
Identities = 14/38 (36%), Positives = 24/38 (63%)
Query: 21 TILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
L +VS AG++ ++G SGAGKS+L+ ++ E+
Sbjct: 19 QALNNVSLHVPAGQIYGVIGASGAGKSTLIRCVNLLER 56
>gnl|CDD|237646 PRK14237, PRK14237, phosphate transporter ATP-binding protein;
Provisional.
Length = 267
Score = 30.1 bits (68), Expect = 0.068
Identities = 11/28 (39%), Positives = 21/28 (75%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLL 50
+K + +F +++A++GPSG+GKS+ L
Sbjct: 36 IKGIDMQFEKNKITALIGPSGSGKSTYL 63
>gnl|CDD|237453 PRK13633, PRK13633, cobalt transporter ATP-binding subunit;
Provisional.
Length = 280
Score = 30.1 bits (68), Expect = 0.069
Identities = 15/36 (41%), Positives = 21/36 (58%)
Query: 14 NEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSL 49
NE S K L V+ + GE ILG +G+GKS++
Sbjct: 17 NEESTEKLALDDVNLEVKKGEFLVILGRNGSGKSTI 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 = 29.9 bits (68), Expect = 0.071
Identities = 7/14 (50%), Positives = 12/14 (85%)
Query: 37 AILGPSGAGKSSLL 50
A++G SG+GK++L
Sbjct: 3 ALVGHSGSGKTTLA 16
>gnl|CDD|237536 PRK13873, PRK13873, conjugal transfer ATPase TrbE; Provisional.
Length = 811
Score = 29.9 bits (68), Expect = 0.071
Identities = 9/16 (56%), Positives = 14/16 (87%)
Query: 38 ILGPSGAGKSSLLNVI 53
++GP+GAGKS LL ++
Sbjct: 446 VVGPTGAGKSVLLALM 461
>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 = 30.0 bits (68), Expect = 0.073
Identities = 7/14 (50%), Positives = 12/14 (85%)
Query: 38 ILGPSGAGKSSLLN 51
++GP G+GK++LL
Sbjct: 116 VIGPPGSGKTTLLQ 129
>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 = 30.1 bits (68), Expect = 0.077
Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 3/50 (6%)
Query: 9 MVTFFNEP--SPAKTIL-KSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+ F N P +P +L +S+S +G I GP+G GKSSL ++
Sbjct: 451 GIKFENIPLVTPNGDVLIESLSFEVPSGNNLLICGPNGCGKSSLFRILGE 500
>gnl|CDD|236861 PRK11147, PRK11147, ABC transporter ATPase component; Reviewed.
Length = 635
Score = 29.9 bits (68), Expect = 0.077
Identities = 9/24 (37%), Positives = 17/24 (70%)
Query: 32 AGELSAILGPSGAGKSSLLNVISG 55
E ++G +GAGKS+L+ +++G
Sbjct: 28 DNERVCLVGRNGAGKSTLMKILNG 51
Score = 29.1 bits (66), Expect = 0.17
Identities = 13/38 (34%), Positives = 25/38 (65%)
Query: 18 PAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
K ++K S + + G+ A++GP+G GK++LL ++ G
Sbjct: 330 DGKQLVKDFSAQVQRGDKIALIGPNGCGKTTLLKLMLG 367
>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 = 29.9 bits (68), Expect = 0.077
Identities = 13/27 (48%), Positives = 16/27 (59%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSL 49
LK+V +L I G SG+GKSSL
Sbjct: 11 LKNVDVDIPRNKLVVITGVSGSGKSSL 37
>gnl|CDD|222194 pfam13521, AAA_28, AAA domain.
Length = 162
Score = 29.8 bits (68), Expect = 0.081
Identities = 8/23 (34%), Positives = 12/23 (52%), Gaps = 2/23 (8%)
Query: 37 AILGPSGAGKSSLLNVIS--GYE 57
I G GK++LL ++ GY
Sbjct: 3 VITGGPSTGKTTLLEALAARGYP 25
>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 = 29.7 bits (67), Expect = 0.083
Identities = 12/35 (34%), Positives = 21/35 (60%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGY 56
IL +S + + I+G SG+GKS+L ++ G+
Sbjct: 489 ILSDISLTIKMNSKTTIVGMSGSGKSTLAKLLVGF 523
>gnl|CDD|237651 PRK14266, PRK14266, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 250
Score = 29.9 bits (67), Expect = 0.084
Identities = 14/44 (31%), Positives = 27/44 (61%), Gaps = 4/44 (9%)
Query: 11 TFFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
T+F++ ILK+V+ ++A++GPSG GKS+ + ++
Sbjct: 11 TYFDDAH----ILKNVNLDIPKNSVTALIGPSGCGKSTFIRTLN 50
>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 = 29.6 bits (66), Expect = 0.085
Identities = 15/33 (45%), Positives = 21/33 (63%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
L +++ R G+L+ I+G G GKSSLL I G
Sbjct: 17 LSNINIRIPTGQLTMIVGQVGCGKSSLLLAILG 49
>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 = 29.5 bits (67), Expect = 0.089
Identities = 15/33 (45%), Positives = 21/33 (63%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+ VS R GE+ I+G SG+GKS+LL I+
Sbjct: 40 VNDVSLDVREGEIFVIMGLSGSGKSTLLRCINR 72
>gnl|CDD|226631 COG4152, COG4152, ABC-type uncharacterized transport system,
ATPase component [General function prediction only].
Length = 300
Score = 29.6 bits (67), Expect = 0.094
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
K + ++S GE+ +LGP+GAGK++ +I G
Sbjct: 15 KKAVDNISFEVPPGEIFGLLGPNGAGKTTTFRMILG 50
>gnl|CDD|172756 PRK14268, PRK14268, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 258
Score = 29.6 bits (66), Expect = 0.095
Identities = 22/65 (33%), Positives = 33/65 (50%), Gaps = 4/65 (6%)
Query: 4 QTHVTMVTFFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSL---LNVISGYEKNE 60
Q + V N K LK+VS + ++A++GPSG GKS+ LN ++ KN
Sbjct: 10 QPQIK-VENLNLWYGEKQALKNVSMQIPKNSVTALIGPSGCGKSTFIRCLNRMNDLIKNC 68
Query: 61 KEEEK 65
+ E K
Sbjct: 69 RIEGK 73
>gnl|CDD|234340 TIGR03744, traC_PFL_4706, conjugative transfer ATPase, PFL_4706
family. Members of this protein family are predicted
ATP-binding proteins apparently associated with DNA
conjugal transfer. Members are found both in plasmids
and in bacterial chromosomal regions that appear to
derive from integrative elements such as conjugative
transposons. More distant homologs, outside the scope of
this family, include type IV secretion/conjugal transfer
proteins such as TraC, VirB4 and TrsE. The granularity
of this protein family definition is chosen so as to
represent one distinctive clade and act as a marker
through which to define and recognize the class of
mobile element it serves [Mobile and extrachromosomal
element functions, Plasmid functions].
Length = 893
Score = 29.6 bits (67), Expect = 0.096
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 38 ILGPSGAGKSSLLN 51
ILGP+GAGKS+ L
Sbjct: 480 ILGPTGAGKSATLT 493
>gnl|CDD|235825 PRK06547, PRK06547, hypothetical protein; Provisional.
Length = 172
Score = 29.3 bits (66), Expect = 0.100
Identities = 9/31 (29%), Positives = 18/31 (58%), Gaps = 2/31 (6%)
Query: 21 TILKSVSGRFRAGELSAIL--GPSGAGKSSL 49
++ ++ R G + +L G SG+GK++L
Sbjct: 1 MLVALIAARLCGGGMITVLIDGRSGSGKTTL 31
>gnl|CDD|215558 PLN03073, PLN03073, ABC transporter F family; Provisional.
Length = 718
Score = 29.8 bits (67), Expect = 0.10
Identities = 11/19 (57%), Positives = 17/19 (89%)
Query: 37 AILGPSGAGKSSLLNVISG 55
A++GP+G GKS++L +ISG
Sbjct: 539 AMVGPNGIGKSTILKLISG 557
>gnl|CDD|222036 pfam13304, AAA_21, AAA domain.
Length = 256
Score = 29.3 bits (65), Expect = 0.12
Identities = 11/41 (26%), Positives = 19/41 (46%)
Query: 35 LSAILGPSGAGKSSLLNVISGYEKNEKEEEKKKKKKEKEKK 75
L+ I+GP+G+GKS+LL ++ + K
Sbjct: 1 LNVIIGPNGSGKSNLLKALALLLLLLSLGLTLDRGLNVGIK 41
>gnl|CDD|237452 PRK13632, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 271
Score = 29.2 bits (66), Expect = 0.13
Identities = 17/43 (39%), Positives = 27/43 (62%)
Query: 13 FNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
F+ P+ LK+VS GE AILG +G+GKS++ +++G
Sbjct: 15 FSYPNSENNALKNVSFEINEGEYVAILGHNGSGKSTISKILTG 57
>gnl|CDD|237455 PRK13637, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 287
Score = 29.2 bits (66), Expect = 0.14
Identities = 17/57 (29%), Positives = 33/57 (57%), Gaps = 4/57 (7%)
Query: 1 MSLQTHVTMVTF-FNEPSP-AKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
MS++ + +T + E +P K L +V+ GE ++G +G+GKS+L+ ++G
Sbjct: 1 MSIK--IENLTHIYMEGTPFEKKALDNVNIEIEDGEFVGLIGHTGSGKSTLIQHLNG 55
>gnl|CDD|236688 PRK10418, nikD, nickel transporter ATP-binding protein NikD;
Provisional.
Length = 254
Score = 29.3 bits (66), Expect = 0.14
Identities = 11/31 (35%), Positives = 19/31 (61%)
Query: 17 SPAKTILKSVSGRFRAGELSAILGPSGAGKS 47
A+ ++ VS + G + A++G SG+GKS
Sbjct: 13 QAAQPLVHGVSLTLQRGRVLALVGGSGSGKS 43
>gnl|CDD|172747 PRK14259, PRK14259, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 269
Score = 29.0 bits (65), Expect = 0.14
Identities = 12/31 (38%), Positives = 22/31 (70%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVI 53
+K+V G+++A++GPSG GKS++L +
Sbjct: 29 VKNVFCDIPRGKVTALIGPSGCGKSTVLRSL 59
>gnl|CDD|182906 PRK11022, dppD, dipeptide transporter ATP-binding subunit;
Provisional.
Length = 326
Score = 28.9 bits (65), Expect = 0.15
Identities = 22/76 (28%), Positives = 36/76 (47%), Gaps = 10/76 (13%)
Query: 10 VTFFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGY---------EKNE 60
V F +E +P + + +S + GE+ I+G SG+GKS I G EK E
Sbjct: 11 VHFGDESAPFRAV-DRISYSVKQGEVVGIVGESGSGKSVSSLAIMGLIDYPGRVMAEKLE 69
Query: 61 KEEEKKKKKKEKEKKK 76
+ ++ EKE++
Sbjct: 70 FNGQDLQRISEKERRN 85
>gnl|CDD|237454 PRK13634, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 290
Score = 29.2 bits (66), Expect = 0.15
Identities = 18/59 (30%), Positives = 28/59 (47%), Gaps = 6/59 (10%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNEK------EEEKKKKKKEKEKK 75
L V+ +G AI+G +G+GKS+LL ++G + E KK K+ K
Sbjct: 23 LYDVNVSIPSGSYVAIIGHTGSGKSTLLQHLNGLLQPTSGTVTIGERVITAGKKNKKLK 81
>gnl|CDD|213244 cd03277, ABC_SMC5_euk, ATP-binding cassette domain of eukaryotic
SMC5 proteins. The structural maintenance of
chromosomes (SMC) proteins are large (approximately 110
to 170 kDa), and each is arranged into five
recognizable domains. Amino-acid sequence homology of
SMC proteins between species is largely confined to the
amino- and carboxy-terminal globular domains. The
amino-terminal domain contains a 'Walker A'
nucleotide-binding domain (GxxGxGKS/T, in the
single-letter amino-acid code), which by mutational
studies has been shown to be essential in several
proteins. The carboxy-terminal domain contains a
sequence (the DA-box) that resembles a 'Walker B'
motif, and a motif with homology to the signature
sequence of the ATP-binding cassette (ABC) family of
ATPases. The sequence homology within the
carboxy-terminal domain is relatively high within the
SMC1-SMC4 group, whereas SMC5 and SMC6 show some
divergence in both of these sequences. In eukaryotic
cells, the proteins are found as heterodimers of SMC1
paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6
(formerly known as Rad18).
Length = 213
Score = 29.1 bits (66), Expect = 0.15
Identities = 13/25 (52%), Positives = 19/25 (76%), Gaps = 1/25 (4%)
Query: 30 FRAGE-LSAILGPSGAGKSSLLNVI 53
FR G L+ I+GP+G+GKSS++ I
Sbjct: 19 FRPGPSLNMIIGPNGSGKSSIVCAI 43
>gnl|CDD|184588 PRK14243, PRK14243, phosphate transporter ATP-binding protein;
Provisional.
Length = 264
Score = 29.0 bits (65), Expect = 0.16
Identities = 11/28 (39%), Positives = 19/28 (67%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLL 50
+K+V +++A +GPSG GKS++L
Sbjct: 26 VKNVWLDIPKNQITAFIGPSGCGKSTIL 53
>gnl|CDD|179525 PRK03003, PRK03003, GTP-binding protein Der; Reviewed.
Length = 472
Score = 28.8 bits (65), Expect = 0.17
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 37 AILGPSGAGKSSLLNVISGYEK 58
A++G GKSSLLN ++G E+
Sbjct: 215 ALVGKPNVGKSSLLNKLAGEER 236
>gnl|CDD|219868 pfam08496, Peptidase_S49_N, Peptidase family S49 N-terminal.
This domain is found to the N-terminus of bacterial
signal peptidases of the S49 family (pfam01343).
Length = 154
Score = 28.6 bits (65), Expect = 0.17
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 56 YEKNEKEEEKKKKKKEKEKKK 76
+EK EK+ EK K K EK+K K
Sbjct: 71 WEKAEKKAEKAKAKAEKKKAK 91
Score = 26.0 bits (58), Expect = 2.0
Identities = 9/16 (56%), Positives = 10/16 (62%)
Query: 61 KEEEKKKKKKEKEKKK 76
K EK +KK EK K K
Sbjct: 69 KAWEKAEKKAEKAKAK 84
>gnl|CDD|184200 PRK13640, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 282
Score = 28.6 bits (64), Expect = 0.19
Identities = 14/43 (32%), Positives = 24/43 (55%)
Query: 13 FNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
F P K L +S G +A++G +G+GKS++ +I+G
Sbjct: 13 FTYPDSKKPALNDISFSIPRGSWTALIGHNGSGKSTISKLING 55
>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 = 28.6 bits (64), Expect = 0.19
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 38 ILGPSGAGKSSLLNVISGYEKNE 60
+LG GAGK+SLL+ +S E
Sbjct: 4 VLGLDGAGKTSLLHSLSSERSLE 26
>gnl|CDD|237652 PRK14275, PRK14275, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 286
Score = 28.7 bits (64), Expect = 0.20
Identities = 13/32 (40%), Positives = 21/32 (65%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
+K V+ + ++AI+GPSG GKS+ L I+
Sbjct: 55 VKKVNADILSKYVTAIIGPSGCGKSTFLRAIN 86
>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 = 28.8 bits (64), Expect = 0.20
Identities = 12/33 (36%), Positives = 18/33 (54%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
L ++ G L A++G G GKSSLL+ +
Sbjct: 654 LNGITFSIPEGALVAVVGQVGCGKSSLLSALLA 686
Score = 28.8 bits (64), Expect = 0.25
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSL 49
+L+ ++ GE I+G +GAGKSSL
Sbjct: 1301 VLRHINVTIHGGEKVGIVGRTGAGKSSL 1328
>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 = 28.8 bits (65), Expect = 0.20
Identities = 9/23 (39%), Positives = 18/23 (78%)
Query: 33 GELSAILGPSGAGKSSLLNVISG 55
G+ A++G SG+GKS++ +++G
Sbjct: 505 GQRVALVGGSGSGKSTIAKLVAG 527
>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 = 28.5 bits (64), Expect = 0.21
Identities = 10/25 (40%), Positives = 19/25 (76%)
Query: 31 RAGELSAILGPSGAGKSSLLNVISG 55
R G++ ++GP+G GKS+ L +++G
Sbjct: 24 REGQVLGLVGPNGIGKSTALKILAG 48
>gnl|CDD|236978 PRK11778, PRK11778, putative inner membrane peptidase;
Provisional.
Length = 330
Score = 28.6 bits (65), Expect = 0.22
Identities = 8/21 (38%), Positives = 14/21 (66%)
Query: 56 YEKNEKEEEKKKKKKEKEKKK 76
+ K +K++EK++ K K K K
Sbjct: 69 WHKAQKKKEKQEAKAAKAKSK 89
Score = 27.1 bits (61), Expect = 0.81
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 57 EKNEKEEEKKKKKKEKEKKK 76
+K K K +KKKEK++ K
Sbjct: 63 KKELKAWHKAQKKKEKQEAK 82
>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 = 27.7 bits (62), Expect = 0.23
Identities = 8/18 (44%), Positives = 13/18 (72%)
Query: 37 AILGPSGAGKSSLLNVIS 54
AI G SG+GKS++ ++
Sbjct: 3 AITGGSGSGKSTVAKKLA 20
>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 = 28.4 bits (64), Expect = 0.23
Identities = 9/31 (29%), Positives = 14/31 (45%), Gaps = 1/31 (3%)
Query: 20 KTILKSVSGRF-RAGELSAILGPSGAGKSSL 49
+ I + + E +LGP G GK+ L
Sbjct: 33 RLIAELAGLDWIEQAENLLLLGPPGVGKTHL 63
>gnl|CDD|182733 PRK10790, PRK10790, putative multidrug transporter
membrane\ATP-binding components; Provisional.
Length = 592
Score = 28.5 bits (64), Expect = 0.24
Identities = 9/20 (45%), Positives = 17/20 (85%)
Query: 37 AILGPSGAGKSSLLNVISGY 56
A++G +G+GKS+L +++ GY
Sbjct: 371 ALVGHTGSGKSTLASLLMGY 390
>gnl|CDD|236755 PRK10762, PRK10762, D-ribose transporter ATP binding protein;
Provisional.
Length = 501
Score = 28.4 bits (64), Expect = 0.24
Identities = 10/24 (41%), Positives = 19/24 (79%)
Query: 32 AGELSAILGPSGAGKSSLLNVISG 55
G + A++G +GAGKS+++ V++G
Sbjct: 29 PGRVMALVGENGAGKSTMMKVLTG 52
Score = 24.6 bits (54), Expect = 6.8
Identities = 12/33 (36%), Positives = 19/33 (57%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+ VS R GE+ + G GAG++ L+ V+ G
Sbjct: 268 VNDVSFTLRKGEILGVSGLMGAGRTELMKVLYG 300
>gnl|CDD|236729 PRK10636, PRK10636, putative ABC transporter ATP-binding protein;
Provisional.
Length = 638
Score = 28.6 bits (64), Expect = 0.27
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+ IL S+ G +LG +GAGKS+L+ +++G
Sbjct: 325 RIILDSIKLNLVPGSRIGLLGRNGAGKSTLIKLLAG 360
>gnl|CDD|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed.
Length = 413
Score = 28.5 bits (65), Expect = 0.27
Identities = 14/29 (48%), Positives = 18/29 (62%), Gaps = 2/29 (6%)
Query: 30 FRAGEL-SAIL-GPSGAGKSSLLNVISGY 56
AG L S IL GP G GK++L +I+G
Sbjct: 31 IEAGRLSSMILWGPPGTGKTTLARIIAGA 59
>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 = 27.9 bits (63), Expect = 0.27
Identities = 9/14 (64%), Positives = 11/14 (78%)
Query: 38 ILGPSGAGKSSLLN 51
+ GPSG GKS+LL
Sbjct: 4 LSGPSGVGKSTLLK 17
>gnl|CDD|184209 PRK13650, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 279
Score = 28.2 bits (63), Expect = 0.28
Identities = 19/55 (34%), Positives = 29/55 (52%)
Query: 1 MSLQTHVTMVTFFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
MS V +TF + K L VS + GE +I+G +G+GKS+ + +I G
Sbjct: 1 MSNIIEVKNLTFKYKEDQEKYTLNDVSFHVKQGEWLSIIGHNGSGKSTTVRLIDG 55
>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 = 28.3 bits (63), Expect = 0.29
Identities = 11/31 (35%), Positives = 21/31 (67%)
Query: 21 TILKSVSGRFRAGELSAILGPSGAGKSSLLN 51
+L+++S G+ +LG +G+GKS+LL+
Sbjct: 18 AVLENISFSISPGQRVGLLGRTGSGKSTLLS 48
>gnl|CDD|184207 PRK13648, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 269
Score = 28.2 bits (63), Expect = 0.29
Identities = 17/46 (36%), Positives = 27/46 (58%)
Query: 13 FNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
F S A LK VS G+ ++I+G +G+GKS++ ++ G EK
Sbjct: 15 FQYQSDASFTLKDVSFNIPKGQWTSIVGHNGSGKSTIAKLMIGIEK 60
>gnl|CDD|221983 pfam13207, AAA_17, AAA domain.
Length = 114
Score = 28.0 bits (62), Expect = 0.29
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 37 AILGPSGAGKSSLLNVIS 54
I GP G+GKS+L ++
Sbjct: 3 LITGPPGSGKSTLAKKLA 20
>gnl|CDD|234395 TIGR03918, GTP_HydF, [FeFe] hydrogenase H-cluster maturation
GTPase HydF. This model describes the family of the
[Fe] hydrogenase maturation protein HypF as
characterized in Chlamydomonas reinhardtii and found,
in an operon with radical SAM proteins HydE and HydG,
in numerous bacteria. It has GTPase activity, can bind
an 4Fe-4S cluster, and is essential for hydrogenase
activity [Protein fate, Protein modification and
repair].
Length = 391
Score = 28.2 bits (64), Expect = 0.30
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 37 AILGPSGAGKSSLLNVISG 55
I G AGKSSL+N ++G
Sbjct: 10 GIFGRRNAGKSSLINALTG 28
>gnl|CDD|234624 PRK00089, era, GTPase Era; Reviewed.
Length = 292
Score = 28.1 bits (64), Expect = 0.30
Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 30 FRAGELSAILGPSGAGKSSLLNVISGY 56
F++G AI+G GKS+LLN + G
Sbjct: 3 FKSG-FVAIVGRPNVGKSTLLNALVGQ 28
>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional.
Length = 434
Score = 28.4 bits (64), Expect = 0.30
Identities = 11/20 (55%), Positives = 12/20 (60%)
Query: 57 EKNEKEEEKKKKKKEKEKKK 76
EK EKE+EK K KK K
Sbjct: 401 EKKEKEKEKPKVKKRHRDTK 420
Score = 26.1 bits (58), Expect = 1.8
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 61 KEEEKKKKKKEKEKKK 76
K EKK+K+KEK K K
Sbjct: 398 KRAEKKEKEKEKPKVK 413
Score = 26.1 bits (58), Expect = 2.0
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 58 KNEKEEEKKKKKKEKEKKK 76
K + +KK+KEKEK K
Sbjct: 393 KKVLAKRAEKKEKEKEKPK 411
Score = 26.1 bits (58), Expect = 2.1
Identities = 9/19 (47%), Positives = 14/19 (73%)
Query: 58 KNEKEEEKKKKKKEKEKKK 76
++K K+ +KKEKEK+K
Sbjct: 391 PSKKVLAKRAEKKEKEKEK 409
Score = 25.7 bits (57), Expect = 2.6
Identities = 7/19 (36%), Positives = 15/19 (78%)
Query: 58 KNEKEEEKKKKKKEKEKKK 76
+ EK+E++K+K K K++ +
Sbjct: 399 RAEKKEKEKEKPKVKKRHR 417
Score = 25.3 bits (56), Expect = 3.1
Identities = 7/19 (36%), Positives = 12/19 (63%)
Query: 58 KNEKEEEKKKKKKEKEKKK 76
+KE+EK+K K +K +
Sbjct: 400 AEKKEKEKEKPKVKKRHRD 418
>gnl|CDD|206682 cd01895, EngA2, EngA2 GTPase contains the second domain of EngA.
This EngA2 subfamily CD represents the second GTPase
domain of EngA and its orthologs, which are composed of
two adjacent GTPase domains. 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. Although
the exact function of these proteins has not been
elucidated, studies have revealed that the E. coli EngA
homolog, Der, and Neisseria gonorrhoeae EngA are
essential for cell viability. A recent report suggests
that E. coli Der functions in ribosome assembly and
stability.
Length = 174
Score = 28.2 bits (64), Expect = 0.31
Identities = 12/21 (57%), Positives = 14/21 (66%)
Query: 37 AILGPSGAGKSSLLNVISGYE 57
AI+G GKSSLLN + G E
Sbjct: 6 AIIGRPNVGKSSLLNALLGEE 26
>gnl|CDD|225165 COG2256, MGS1, ATPase related to the helicase subunit of the
Holliday junction resolvase [DNA replication,
recombination, and repair].
Length = 436
Score = 28.4 bits (64), Expect = 0.31
Identities = 11/22 (50%), Positives = 15/22 (68%), Gaps = 1/22 (4%)
Query: 36 SAIL-GPSGAGKSSLLNVISGY 56
S IL GP G GK++L +I+G
Sbjct: 50 SMILWGPPGTGKTTLARLIAGT 71
>gnl|CDD|234579 PRK00023, cmk, cytidylate kinase; Provisional.
Length = 225
Score = 28.2 bits (64), Expect = 0.31
Identities = 7/13 (53%), Positives = 11/13 (84%)
Query: 37 AILGPSGAGKSSL 49
AI GP+G+GK ++
Sbjct: 8 AIDGPAGSGKGTV 20
>gnl|CDD|234628 PRK00093, PRK00093, GTP-binding protein Der; Reviewed.
Length = 435
Score = 28.1 bits (64), Expect = 0.32
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 37 AILGPSGAGKSSLLNVISGYE 57
AI+G GKSSL+N + G E
Sbjct: 177 AIIGRPNVGKSSLINALLGEE 197
>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 = 0.33
Identities = 13/52 (25%), Positives = 22/52 (42%), Gaps = 1/52 (1%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNEKEEEKKKKKKEKEK 74
L+++ L + G SG+GKS+L+N Y + K + K
Sbjct: 11 LQNLDVSIPLNVLVVVTGVSGSGKSTLVNEG-LYASGKARLISFLPKFSRNK 61
>gnl|CDD|234719 PRK00300, gmk, guanylate kinase; Provisional.
Length = 205
Score = 28.1 bits (64), Expect = 0.33
Identities = 9/12 (75%), Positives = 11/12 (91%)
Query: 40 GPSGAGKSSLLN 51
GPSGAGKS+L+
Sbjct: 12 GPSGAGKSTLVK 23
>gnl|CDD|206655 cd01862, Rab7, Rab GTPase family 7 (Rab7). Rab7 subfamily. Rab7
is a small Rab GTPase that regulates vesicular traffic
from early to late endosomal stages of the endocytic
pathway. The yeast Ypt7 and mammalian Rab7 are both
involved in transport to the vacuole/lysosome, whereas
Ypt7 is also required for homotypic vacuole fusion.
Mammalian Rab7 is an essential participant in the
autophagic pathway for sequestration and targeting of
cytoplasmic components to the lytic compartment.
Mammalian Rab7 is also proposed to function as a tumor
suppressor. GTPase activating proteins (GAPs) interact
with GTP-bound Rab and accelerate the hydrolysis of GTP
to GDP. Guanine nucleotide exchange factors (GEFs)
interact with GDP-bound Rabs to promote the formation
of the GTP-bound state. Rabs are further regulated by
guanine nucleotide dissociation inhibitors (GDIs),
which facilitate Rab recycling by masking C-terminal
lipid binding and promoting cytosolic localization.
Most Rab GTPases contain a lipid modification site at
the C-terminus, with sequence motifs CC, CXC, or CCX.
Lipid binding is essential for membrane attachment, a
key feature of most Rab proteins. Due to the presence
of truncated sequences in this CD, the lipid
modification site is not available for annotation.
Length = 172
Score = 28.0 bits (63), Expect = 0.34
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 38 ILGPSGAGKSSLLN 51
ILG SG GK+SL+N
Sbjct: 5 ILGDSGVGKTSLMN 18
>gnl|CDD|221937 pfam13148, DUF3987, Protein of unknown function (DUF3987). A
family of uncharacterized proteins found by clustering
human gut metagenomic sequences.
Length = 379
Score = 28.0 bits (63), Expect = 0.35
Identities = 14/52 (26%), Positives = 22/52 (42%), Gaps = 12/52 (23%)
Query: 37 AILGPSGAGKSSLLNV------------ISGYEKNEKEEEKKKKKKEKEKKK 76
++ SG KS++ + YE+ KE E +K+ E EKK
Sbjct: 43 LVVAESGERKSAVDKLAMKPLEEIEEELREEYEEELKEYEAEKEIWEAEKKG 94
>gnl|CDD|238545 cd01125, repA, Hexameric Replicative Helicase RepA. RepA is
encoded by a plasmid, which is found in most Gram
negative bacteria. RepA is a 5'-3' DNA helicase which
can utilize ATP, GTP and CTP to a lesser extent.
Length = 239
Score = 28.1 bits (63), Expect = 0.35
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 33 GELSAILGPSGAGKSSLL 50
G +SA++ P G GKSSLL
Sbjct: 1 GYVSALVAPGGTGKSSLL 18
>gnl|CDD|237525 PRK13830, PRK13830, conjugal transfer protein TrbE; Provisional.
Length = 818
Score = 28.3 bits (63), Expect = 0.35
Identities = 10/17 (58%), Positives = 15/17 (88%)
Query: 38 ILGPSGAGKSSLLNVIS 54
I GP+G+GKS+LL +I+
Sbjct: 461 IFGPTGSGKSTLLALIA 477
>gnl|CDD|223360 COG0283, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 222
Score = 27.9 bits (63), Expect = 0.36
Identities = 8/13 (61%), Positives = 12/13 (92%)
Query: 37 AILGPSGAGKSSL 49
AI GP+G+GKS++
Sbjct: 8 AIDGPAGSGKSTV 20
>gnl|CDD|236442 PRK09270, PRK09270, nucleoside triphosphate hydrolase
domain-containing protein; Reviewed.
Length = 229
Score = 28.0 bits (63), Expect = 0.37
Identities = 10/23 (43%), Positives = 12/23 (52%), Gaps = 4/23 (17%)
Query: 27 SGRFRAGELSAILGPSGAGKSSL 49
R + I GP GAGKS+L
Sbjct: 31 QRRT----IVGIAGPPGAGKSTL 49
>gnl|CDD|237039 PRK12288, PRK12288, GTPase RsgA; Reviewed.
Length = 347
Score = 27.9 bits (63), Expect = 0.39
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 32 AGELSAILGPSGAGKSSLLN 51
G +S +G SG GKSSL+N
Sbjct: 204 TGRISIFVGQSGVGKSSLIN 223
>gnl|CDD|185049 PRK15093, PRK15093, antimicrobial peptide ABC transporter
ATP-binding protein; Provisional.
Length = 330
Score = 27.8 bits (62), Expect = 0.40
Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 1/50 (2%)
Query: 10 VTFFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKN 59
+ F K + VS GE+ ++G SG+GKS + I G K+
Sbjct: 11 IEFKTSDGWVKAV-DRVSMTLTEGEIRGLVGESGSGKSLIAKAICGVTKD 59
>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 = 27.8 bits (62), Expect = 0.41
Identities = 11/35 (31%), Positives = 22/35 (62%)
Query: 29 RFRAGELSAILGPSGAGKSSLLNVISGYEKNEKEE 63
+ GEL ++G +G+GKS+L +++G + + E
Sbjct: 345 TIKRGELVFLIGGNGSGKSTLAMLLTGLYQPQSGE 379
>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 = 27.9 bits (62), Expect = 0.41
Identities = 9/32 (28%), Positives = 18/32 (56%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
+ GE+ I+G SG+GKS+ + +++
Sbjct: 9 VNDADLAIAKGEIFVIMGLSGSGKSTTVRMLN 40
>gnl|CDD|219519 pfam07693, KAP_NTPase, KAP family P-loop domain. The KAP (after
Kidins220/ARMS and PifA) family of predicted NTPases
are sporadically distributed across a wide phylogenetic
range in bacteria and in animals. Many of the
prokaryotic KAP NTPases are encoded in plasmids and
tend to undergo disruption to form pseudogenes. A
unique feature of all eukaryotic and certain bacterial
KAP NTPases is the presence of two or four
transmembrane helices inserted into the P-loop NTPase
domain. These transmembrane helices anchor KAP NTPases
in the membrane such that the P-loop domain is located
on the intracellular side.
Length = 301
Score = 27.7 bits (62), Expect = 0.42
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 37 AILGPSGAGKSSLLNVISGYEKNEKEE 63
+ G G+GK+S LN++ K EE
Sbjct: 24 GLYGAWGSGKTSFLNLLEDELKEFPEE 50
>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 = 27.7 bits (61), Expect = 0.47
Identities = 10/26 (38%), Positives = 20/26 (76%)
Query: 30 FRAGELSAILGPSGAGKSSLLNVISG 55
F +++A LG +GAGK++ L++++G
Sbjct: 953 FYENQITAFLGHNGAGKTTTLSILTG 978
Score = 25.7 bits (56), Expect = 2.3
Identities = 10/25 (40%), Positives = 17/25 (68%)
Query: 31 RAGELSAILGPSGAGKSSLLNVISG 55
R GE +LG +GAGK++ +++G
Sbjct: 1963 RPGECFGLLGVNGAGKTTTFKMLTG 1987
>gnl|CDD|213241 cd03274, ABC_SMC4_euk, ATP-binding cassette domain of eukaryotic
SMC4 proteins. The structural maintenance of
chromosomes (SMC) proteins are large (approximately 110
to 170 kDa), and each is arranged into five
recognizable domains. Amino-acid sequence homology of
SMC proteins between species is largely confined to the
amino- and carboxy-terminal globular domains. The
amino-terminal domain contains a 'Walker A'
nucleotide-binding domain (GxxGxGKS/T, in the
single-letter amino-acid code), which by mutational
studies has been shown to be essential in several
proteins. The carboxy-terminal domain contains a
sequence (the DA-box) that resembles a 'Walker B'
motif, and a motif with homology to the signature
sequence of the ATP-binding cassette (ABC) family of
ATPases. The sequence homology within the
carboxy-terminal domain is relatively high within the
SMC1-SMC4 group, whereas SMC5 and SMC6 show some
divergence in both of these sequences. In eukaryotic
cells, the proteins are found as heterodimers of SMC1
paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6
(formerly known as Rad18).
Length = 212
Score = 27.6 bits (62), Expect = 0.47
Identities = 16/34 (47%), Positives = 20/34 (58%), Gaps = 7/34 (20%)
Query: 24 KSVSGRFRAGEL----SAILGPSGAGKSSLLNVI 53
KS +G G SAI+GP+G+GKS NVI
Sbjct: 12 KSYAGEQVIGPFHKSFSAIVGPNGSGKS---NVI 42
>gnl|CDD|237647 PRK14248, PRK14248, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 268
Score = 27.6 bits (61), Expect = 0.47
Identities = 12/35 (34%), Positives = 20/35 (57%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
K + +S ++A++GPSG GKS+ L I+
Sbjct: 34 KRAVNDISMDIEKHAVTALIGPSGCGKSTFLRSIN 68
>gnl|CDD|185016 PRK15056, PRK15056, manganese/iron transporter ATP-binding
protein; Provisional.
Length = 272
Score = 27.5 bits (61), Expect = 0.47
Identities = 12/36 (33%), Positives = 22/36 (61%)
Query: 21 TILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGY 56
T L+ S G ++A++G +G+GKS+L + G+
Sbjct: 21 TALRDASFTVPGGSIAALVGVNGSGKSTLFKALMGF 56
>gnl|CDD|225913 COG3378, COG3378, Phage associated DNA primase [General function
prediction only].
Length = 517
Score = 27.8 bits (62), Expect = 0.48
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
I S++GR +L + GP G GKS+ +++IS
Sbjct: 219 IGASLTGRVSEQKLFWLYGPGGNGKSTFVDLISN 252
>gnl|CDD|184128 PRK13541, PRK13541, cytochrome c biogenesis protein CcmA;
Provisional.
Length = 195
Score = 27.5 bits (61), Expect = 0.48
Identities = 14/36 (38%), Positives = 21/36 (58%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
+ L +S F ++ I G +G GKSSLL +I+G
Sbjct: 13 QKNLFDLSITFLPSAITYIKGANGCGKSSLLRMIAG 48
>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 = 27.6 bits (62), Expect = 0.49
Identities = 8/19 (42%), Positives = 14/19 (73%)
Query: 38 ILGPSGAGKSSLLNVISGY 56
I G +G+GK++LLN + +
Sbjct: 30 ISGGTGSGKTTLLNALLAF 48
>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 = 27.6 bits (61), Expect = 0.49
Identities = 13/30 (43%), Positives = 18/30 (60%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSL 49
K +LK V + G+ I G +G+GKSSL
Sbjct: 34 KPVLKHVKAYIKPGQKVGICGRTGSGKSSL 63
>gnl|CDD|206726 cd04163, Era, E. coli Ras-like protein (Era) is a multifunctional
GTPase. Era (E. coli Ras-like protein) is a
multifunctional GTPase found in all bacteria except
some eubacteria. It binds to the 16S ribosomal RNA
(rRNA) of the 30S subunit and appears to play a role in
the assembly of the 30S subunit, possibly by
chaperoning the 16S rRNA. It also contacts several
assembly elements of the 30S subunit. Era couples cell
growth with cytokinesis and plays a role in cell
division and energy metabolism. Homologs have also been
found in eukaryotes. Era contains two domains: the
N-terminal GTPase domain and a C-terminal domain KH
domain that is critical for RNA binding. Both domains
are important for Era function. Era is functionally
able to compensate for deletion of RbfA, a cold-shock
adaptation protein that is required for efficient
processing of the 16S rRNA.
Length = 168
Score = 27.4 bits (62), Expect = 0.50
Identities = 12/26 (46%), Positives = 17/26 (65%), Gaps = 1/26 (3%)
Query: 30 FRAGELSAILGPSGAGKSSLLNVISG 55
F++G AI+G GKS+LLN + G
Sbjct: 1 FKSG-FVAIIGRPNVGKSTLLNALVG 25
>gnl|CDD|223637 COG0563, Adk, Adenylate kinase and related kinases [Nucleotide
transport and metabolism].
Length = 178
Score = 27.6 bits (62), Expect = 0.50
Identities = 10/13 (76%), Positives = 11/13 (84%)
Query: 37 AILGPSGAGKSSL 49
ILGP GAGKS+L
Sbjct: 4 LILGPPGAGKSTL 16
>gnl|CDD|180911 PRK07261, PRK07261, topology modulation protein; Provisional.
Length = 171
Score = 27.4 bits (61), Expect = 0.51
Identities = 10/20 (50%), Positives = 15/20 (75%)
Query: 37 AILGPSGAGKSSLLNVISGY 56
AI+G SG+GKS+L +S +
Sbjct: 4 AIIGYSGSGKSTLARKLSQH 23
>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 = 27.5 bits (62), Expect = 0.51
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 38 ILGPSGAGKSSLLN 51
I GPSGAGKS+L+
Sbjct: 5 ISGPSGAGKSTLVK 18
>gnl|CDD|172418 PRK13898, PRK13898, type IV secretion system ATPase VirB4;
Provisional.
Length = 800
Score = 27.8 bits (62), Expect = 0.51
Identities = 9/16 (56%), Positives = 14/16 (87%)
Query: 36 SAILGPSGAGKSSLLN 51
+ I+GP+GAGK+ L+N
Sbjct: 449 TLIIGPTGAGKTVLMN 464
>gnl|CDD|235450 PRK05416, PRK05416, glmZ(sRNA)-inactivating NTPase; Provisional.
Length = 288
Score = 27.4 bits (62), Expect = 0.52
Identities = 10/20 (50%), Positives = 11/20 (55%), Gaps = 2/20 (10%)
Query: 40 GPSGAGKSSLLNVI--SGYE 57
G SGAGKS L + GY
Sbjct: 13 GLSGAGKSVALRALEDLGYY 32
>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 = 27.2 bits (61), Expect = 0.55
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 38 ILGPSGAGKSSLLN 51
+LG G+GKS+LL
Sbjct: 9 VLGAKGSGKSALLQ 22
>gnl|CDD|172200 PRK13652, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 277
Score = 27.5 bits (61), Expect = 0.58
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 37 AILGPSGAGKSSLLNVISG 55
A++GP+GAGKS+L +G
Sbjct: 34 AVIGPNGAGKSTLFRHFNG 52
>gnl|CDD|238899 cd01918, HprK_C, HprK/P, the bifunctional histidine-containing
protein kinase/phosphatase, controls the
phosphorylation state of the phosphocarrier protein HPr
and regulates the utilization of carbon sources by
gram-positive bacteria. It catalyzes both the
ATP-dependent phosphorylation of Ser-46 of HPr and its
dephosphorylation by phosphorolysis. The latter
reaction uses inorganic phosphate as substrate and
produces pyrophosphate. Phosphoenolpyruvate
carboxykinase (PEPCK) and the C-terminal catalytic
domain of HprK/P are structurally similar with
conserved active site residues suggesting these two
phosphotransferases have related functions. The HprK/P
N-terminal domain is structurally similar to the
N-terminal domains of the MurE and MurF amino acid
ligases.
Length = 149
Score = 27.2 bits (61), Expect = 0.60
Identities = 9/12 (75%), Positives = 9/12 (75%)
Query: 38 ILGPSGAGKSSL 49
I GPSG GKS L
Sbjct: 19 ITGPSGIGKSEL 30
>gnl|CDD|172740 PRK14252, PRK14252, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 265
Score = 27.3 bits (60), Expect = 0.61
Identities = 11/28 (39%), Positives = 20/28 (71%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLL 50
LK+++ +++A++GPSG GKS+ L
Sbjct: 32 LKNINMMVHEKQVTALIGPSGCGKSTFL 59
>gnl|CDD|213206 cd03239, ABC_SMC_head, The SMC head domain belongs to the
ATP-binding cassette superfamily. The structural
maintenance of chromosomes (SMC) proteins are essential
for successful chromosome transmission during
replication and segregation of the genome in all
organisms. SMCs are generally present as single
proteins in bacteria, and as at least six distinct
proteins in eukaryotes. The proteins range in size from
approximately 110 to 170 kDa, and each has five
distinct domains: amino- and carboxy-terminal globular
domains, which contain sequences characteristic of
ATPases, two coiled-coil regions separating the
terminal domains , and a central flexible hinge. SMC
proteins function together with other proteins in a
range of chromosomal transactions, including chromosome
condensation, sister-chromatid cohesion, recombination,
DNA repair, and epigenetic silencing of gene
expression.
Length = 178
Score = 27.3 bits (61), Expect = 0.62
Identities = 11/44 (25%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 35 LSAILGPSGAGKSSLLNVIS---GYEKNEKEEEKKKKKKEKEKK 75
+AI+GP+G+GKS++++ I G + + K
Sbjct: 24 FNAIVGPNGSGKSNIVDAICFVLGGKAAKLRRGSLLFLAGGGVK 67
>gnl|CDD|237451 PRK13631, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 320
Score = 27.1 bits (60), Expect = 0.69
Identities = 15/51 (29%), Positives = 28/51 (54%), Gaps = 1/51 (1%)
Query: 12 FFNEPSPAK-TILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNEK 61
F+E + L ++S F ++ I+G SG+GKS+L+ +G K++
Sbjct: 30 VFDEKQENELVALNNISYTFEKNKIYFIIGNSGSGKSTLVTHFNGLIKSKY 80
>gnl|CDD|222258 pfam13604, AAA_30, AAA 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. There is a Walker A and
Walker B.
Length = 195
Score = 27.1 bits (61), Expect = 0.70
Identities = 6/19 (31%), Positives = 12/19 (63%)
Query: 35 LSAILGPSGAGKSSLLNVI 53
++ + GP+G GK++ L
Sbjct: 20 VAVVQGPAGTGKTTSLKAA 38
>gnl|CDD|184130 PRK13545, tagH, teichoic acids export protein ATP-binding
subunit; Provisional.
Length = 549
Score = 27.2 bits (60), Expect = 0.71
Identities = 14/33 (42%), Positives = 23/33 (69%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
L ++S GE+ I+G +G+GKS+L N+I+G
Sbjct: 40 LNNISFEVPEGEIVGIIGLNGSGKSTLSNLIAG 72
>gnl|CDD|215640 PLN03232, PLN03232, ABC transporter C family member; Provisional.
Length = 1495
Score = 27.2 bits (60), Expect = 0.77
Identities = 13/36 (36%), Positives = 21/36 (58%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
K L ++ G L AI+G +G GK+SL++ + G
Sbjct: 630 KPTLSDINLEIPVGSLVAIVGGTGEGKTSLISAMLG 665
Score = 26.1 bits (57), Expect = 1.8
Identities = 10/20 (50%), Positives = 15/20 (75%)
Query: 34 ELSAILGPSGAGKSSLLNVI 53
E ++G +GAGKSS+LN +
Sbjct: 1263 EKVGVVGRTGAGKSSMLNAL 1282
>gnl|CDD|206666 cd01878, HflX, HflX GTPase family. HflX subfamily. A distinct
conserved domain with a glycine-rich segment N-terminal
of the GTPase domain characterizes the HflX subfamily.
The E. coli HflX has been implicated in the control of
the lambda cII repressor proteolysis, but the actual
biological functions of these GTPases remain unclear.
HflX is widespread, but not universally represented in
all three superkingdoms.
Length = 204
Score = 27.0 bits (61), Expect = 0.78
Identities = 9/26 (34%), Positives = 17/26 (65%), Gaps = 3/26 (11%)
Query: 37 AILGPSGAGKSSLLNVISG---YEKN 59
A++G + AGKS+L N ++G ++
Sbjct: 45 ALVGYTNAGKSTLFNALTGADVLAED 70
>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 = 27.0 bits (60), Expect = 0.83
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 37 AILGPSGAGKSSLLNVISGYEKNEKE 62
I+G GKS+LLN + G + + E
Sbjct: 5 VIVGDPNVGKSTLLNRLLGNKISITE 30
>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 = 26.8 bits (60), Expect = 0.83
Identities = 8/25 (32%), Positives = 17/25 (68%), Gaps = 1/25 (4%)
Query: 30 FRAGELSAILGPSGAGKSSLLNVIS 54
F + L+ I+G +GAGK++++ +
Sbjct: 20 FFSP-LTLIVGQNGAGKTTIIEALK 43
>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 = 26.6 bits (60), Expect = 0.85
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 38 ILGPSGAGKSSLLN 51
++G SG GK+SLL
Sbjct: 5 LIGDSGVGKTSLLL 18
>gnl|CDD|172748 PRK14260, PRK14260, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 259
Score = 26.9 bits (59), Expect = 0.86
Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 6/60 (10%)
Query: 7 VTMVTFFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSS---LLNVISGYEKNEKEE 63
V ++F+ S A ++ +S +++AI+GPSG GKS+ LN IS E K E
Sbjct: 10 VKDLSFYYNTSKA---IEGISMDIYRNKVTAIIGPSGCGKSTFIKTLNRISELEGPVKVE 66
>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 = 26.7 bits (60), Expect = 0.87
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 37 AILGPSGAGKSSLLNVI 53
A G S GKSSL+N +
Sbjct: 3 AFAGRSNVGKSSLINAL 19
>gnl|CDD|184205 PRK13646, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 286
Score = 27.1 bits (60), Expect = 0.88
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEK 58
+ V+ F G+ AI+G +G+GKS+L+ I+ K
Sbjct: 23 IHDVNTEFEQGKYYAIVGQTGSGKSTLIQNINALLK 58
>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 = 26.8 bits (59), Expect = 0.88
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 29 RFRAGELSAILGPSGAGKSSLLNVISG 55
R G++ I+G +G GKS+L + G
Sbjct: 364 RIAQGDIVFIVGENGCGKSTLAKLFCG 390
>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 = 27.0 bits (60), Expect = 0.88
Identities = 9/32 (28%), Positives = 16/32 (50%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
L ++ R GEL + +G GK++ L +
Sbjct: 20 LNKLTKGLRKGELIILTAGTGVGKTTFLREYA 51
>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 = 26.7 bits (60), Expect = 0.88
Identities = 8/13 (61%), Positives = 12/13 (92%)
Query: 37 AILGPSGAGKSSL 49
AI GP+G+GKS++
Sbjct: 3 AIDGPAGSGKSTV 15
>gnl|CDD|206685 cd01898, Obg, Obg GTPase. The Obg nucleotide binding protein
subfamily has been implicated in stress response,
chromosome partitioning, replication initiation,
mycelium development, and sporulation. Obg proteins are
among a large group of GTP binding proteins conserved
from bacteria to humans. The E. coli homolog, ObgE is
believed to function in ribosomal biogenesis. Members
of the subfamily contain two equally and highly
conserved domains, a C-terminal GTP binding domain and
an N-terminal glycine-rich domain.
Length = 170
Score = 26.6 bits (60), Expect = 0.89
Identities = 8/11 (72%), Positives = 10/11 (90%)
Query: 44 AGKSSLLNVIS 54
AGKS+LL+ IS
Sbjct: 11 AGKSTLLSAIS 21
>gnl|CDD|173172 PRK14709, PRK14709, hypothetical protein; Provisional.
Length = 469
Score = 27.0 bits (60), Expect = 0.90
Identities = 12/31 (38%), Positives = 17/31 (54%)
Query: 25 SVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
++G R L + G G GKS LNV++G
Sbjct: 197 CLTGDTREHALVFVFGGGGNGKSVFLNVLAG 227
>gnl|CDD|184584 PRK14238, PRK14238, phosphate transporter ATP-binding protein;
Provisional.
Length = 271
Score = 26.7 bits (59), Expect = 0.92
Identities = 12/28 (42%), Positives = 20/28 (71%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLL 50
LK+++ E++AI+GPSG GKS+ +
Sbjct: 40 LKNINLDIHENEVTAIIGPSGCGKSTYI 67
>gnl|CDD|215874 pfam00350, Dynamin_N, Dynamin family.
Length = 168
Score = 26.8 bits (60), Expect = 0.94
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 37 AILGPSGAGKSSLLNVISG 55
A++G AGKSS+LN + G
Sbjct: 2 AVVGDQSAGKSSVLNALLG 20
>gnl|CDD|206724 cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl10) GTPases.
Arl10-like subfamily. Arl9/Arl10 was identified from a
human cancer-derived EST dataset. No functional
information about the subfamily is available at the
current time, but crystal structures of human Arl10b
and Arl10c have been solved.
Length = 159
Score = 26.5 bits (59), Expect = 0.94
Identities = 7/19 (36%), Positives = 14/19 (73%)
Query: 37 AILGPSGAGKSSLLNVISG 55
++G +GK++L+NVI+
Sbjct: 3 TLVGLQNSGKTTLVNVIAS 21
>gnl|CDD|223272 COG0194, Gmk, Guanylate kinase [Nucleotide transport and
metabolism].
Length = 191
Score = 26.7 bits (60), Expect = 0.95
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 33 GELSAILGPSGAGKSSLLN 51
G L + GPSG GKS+L+
Sbjct: 4 GLLIVLSGPSGVGKSTLVK 22
>gnl|CDD|237393 PRK13477, PRK13477, bifunctional pantoate ligase/cytidylate kinase;
Provisional.
Length = 512
Score = 26.8 bits (60), Expect = 0.97
Identities = 9/12 (75%), Positives = 11/12 (91%)
Query: 37 AILGPSGAGKSS 48
AI GP+GAGKS+
Sbjct: 288 AIDGPAGAGKST 299
>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 = 26.6 bits (59), Expect = 1.0
Identities = 10/13 (76%), Positives = 12/13 (92%)
Query: 37 AILGPSGAGKSSL 49
AI GPSGAGKS++
Sbjct: 6 AIDGPSGAGKSTV 18
>gnl|CDD|226639 COG4170, SapD, ABC-type antimicrobial peptide transport system,
ATPase component [Defense mechanisms].
Length = 330
Score = 26.7 bits (59), Expect = 1.1
Identities = 13/38 (34%), Positives = 20/38 (52%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKN 59
+ VS GE+ ++G SG+GKS + I G K+
Sbjct: 22 AVDRVSMTLNEGEIRGLVGESGSGKSLIAKAICGVNKD 59
>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3
subunit. This is a family of proteins which are
subunits of the eukaryotic translation initiation factor
3 (eIF3). In yeast it is called Hcr1. The Saccharomyces
cerevisiae protein eIF3j (HCR1) has been shown to be
required for processing of 20S pre-rRNA and binds to 18S
rRNA and eIF3 subunits Rpg1p and Prt1p.
Length = 242
Score = 26.5 bits (59), Expect = 1.1
Identities = 13/31 (41%), Positives = 17/31 (54%)
Query: 46 KSSLLNVISGYEKNEKEEEKKKKKKEKEKKK 76
S+L +I+ K EK + KKKK K K K
Sbjct: 184 SSTLNVLINEKLKAEKAAKGGKKKKGKAKAK 214
>gnl|CDD|184596 PRK14267, PRK14267, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 253
Score = 26.7 bits (59), Expect = 1.1
Identities = 10/14 (71%), Positives = 13/14 (92%)
Query: 37 AILGPSGAGKSSLL 50
A++GPSG GKS+LL
Sbjct: 34 ALMGPSGCGKSTLL 47
>gnl|CDD|235460 PRK05429, PRK05429, gamma-glutamyl kinase; Provisional.
Length = 372
Score = 26.6 bits (60), Expect = 1.1
Identities = 7/20 (35%), Positives = 11/20 (55%)
Query: 24 KSVSGRFRAGELSAILGPSG 43
+V G F G++ I+ P G
Sbjct: 306 TAVEGDFSRGDVVRIVDPDG 325
>gnl|CDD|226124 COG3596, COG3596, Predicted GTPase [General function prediction
only].
Length = 296
Score = 26.7 bits (59), Expect = 1.1
Identities = 9/16 (56%), Positives = 14/16 (87%)
Query: 38 ILGPSGAGKSSLLNVI 53
++G +GAGKSSL+N +
Sbjct: 44 LMGATGAGKSSLINAL 59
>gnl|CDD|145542 pfam02456, Adeno_IVa2, Adenovirus IVa2 protein. IVa2 protein can
interact with the adenoviral packaging signal and that
this interaction involves DNA sequences that have
previously been demonstrated to be required for
packaging. During the course of lytic infection, the
adenovirus major late promoter (MLP) is induced to high
levels after replication of viral DNA has started. IVa2
is a transcriptional activator of the major late
promoter.
Length = 370
Score = 26.6 bits (59), Expect = 1.1
Identities = 10/22 (45%), Positives = 15/22 (68%), Gaps = 1/22 (4%)
Query: 35 LSAILGPSGAGKSSLL-NVISG 55
+ + GP+G GKS LL N++S
Sbjct: 89 IGVVYGPTGCGKSQLLRNLLSC 110
>gnl|CDD|184491 PRK14079, recF, recombination protein F; Provisional.
Length = 349
Score = 26.7 bits (59), Expect = 1.2
Identities = 8/28 (28%), Positives = 15/28 (53%), Gaps = 1/28 (3%)
Query: 27 SGRFRAGE-LSAILGPSGAGKSSLLNVI 53
++A++G + AGK++LL I
Sbjct: 16 PPTLAFPPGVTAVVGENAAGKTNLLEAI 43
>gnl|CDD|162163 TIGR01027, proB, glutamate 5-kinase. Bacterial ProB proteins hit
the full length of this model, but the ProB-like domain
of delta 1-pyrroline-5-carboxylate synthetase does not
hit the C-terminal 100 residues of this model. The noise
cutoff is set low enough to hit delta
1-pyrroline-5-carboxylate synthetase and other partial
matches to this family [Amino acid biosynthesis,
Glutamate family].
Length = 363
Score = 26.5 bits (59), Expect = 1.2
Identities = 16/51 (31%), Positives = 21/51 (41%), Gaps = 3/51 (5%)
Query: 24 KSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNEKEEEKKKKKKEKEK 74
V G F GE+ IL P G + + Y +E E+ K K E E
Sbjct: 298 VGVEGNFSRGEVVEILNPEGQ---DIGRGLVNYSSDELEKIKGHKSSEIEA 345
>gnl|CDD|172733 PRK14245, PRK14245, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 250
Score = 26.5 bits (58), Expect = 1.2
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
LK +S + A +GPSG GKS+ L + +
Sbjct: 19 LKGISMEIEEKSVVAFIGPSGCGKSTFLRLFN 50
>gnl|CDD|236546 PRK09518, PRK09518, bifunctional cytidylate kinase/GTPase Der;
Reviewed.
Length = 712
Score = 26.7 bits (59), Expect = 1.2
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 37 AILGPSGAGKSSLLNVISGYEK 58
A++G GKSSLLN ++ E+
Sbjct: 454 ALVGRPNVGKSSLLNQLTHEER 475
Score = 25.9 bits (57), Expect = 2.4
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 37 AILGPSGAGKSSLLNVISGY 56
AI GP+G GKSS+ ++ Y
Sbjct: 5 AIDGPAGVGKSSVSRALAQY 24
>gnl|CDD|214810 smart00763, AAA_PrkA, PrkA AAA domain. This is a family of PrkA
bacterial and archaeal serine kinases approximately 630
residues long. This is the N-terminal AAA domain.
Length = 361
Score = 26.5 bits (59), Expect = 1.2
Identities = 13/30 (43%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 39 LGPSGAGKSSLLN-VISGYEKNEKEEEKKK 67
LGP G GKSSL+ + G E+ K +E +
Sbjct: 84 LGPVGGGKSSLVECLKRGLEEYSKTDEGRI 113
>gnl|CDD|237354 PRK13341, PRK13341, recombination factor protein RarA/unknown
domain fusion protein; Reviewed.
Length = 725
Score = 26.6 bits (59), Expect = 1.2
Identities = 11/28 (39%), Positives = 18/28 (64%), Gaps = 2/28 (7%)
Query: 31 RAGEL-SAIL-GPSGAGKSSLLNVISGY 56
+A + S IL GP G GK++L +I+ +
Sbjct: 48 KADRVGSLILYGPPGVGKTTLARIIANH 75
>gnl|CDD|236898 PRK11308, dppF, dipeptide transporter ATP-binding subunit;
Provisional.
Length = 327
Score = 26.5 bits (59), Expect = 1.2
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSL 49
L VS G+ A++G SG GKS+L
Sbjct: 31 LDGVSFTLERGKTLAVVGESGCGKSTL 57
>gnl|CDD|163495 TIGR03783, Bac_Flav_CT_G, Bacteroides conjugation system ATPase,
TraG family. Members of this family include the
predicted ATPase, TraG, encoded by transfer region genes
of conjugative transposons of Bacteroides, such as
CTnDOT, found on the main chromosome. Members also
include TraG homologs borne on plasmids in Bacteroides.
The protein family is related to the conjugative
transfer system ATPase VirB4 [Cellular processes, DNA
transformation].
Length = 829
Score = 26.7 bits (59), Expect = 1.2
Identities = 13/24 (54%), Positives = 15/24 (62%), Gaps = 2/24 (8%)
Query: 38 ILGPSGAGKSSLLN--VISGYEKN 59
ILGPSG+GKS N V YE+
Sbjct: 443 ILGPSGSGKSFFTNHLVRQYYEQG 466
>gnl|CDD|226415 COG3899, COG3899, Predicted ATPase [General function prediction
only].
Length = 849
Score = 26.6 bits (59), Expect = 1.2
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 32 AGELSAILGPSGAGKSSLLNVISG 55
GE+ + G SG GKS+L+N +
Sbjct: 23 RGEVVLVAGESGIGKSALVNEVHK 46
>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 = 26.3 bits (59), Expect = 1.3
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 37 AILGPSGAGKSSLLNVISG 55
A G S GKSSL+N ++
Sbjct: 22 AFAGRSNVGKSSLINALTN 40
>gnl|CDD|224081 COG1159, Era, GTPase [General function prediction only].
Length = 298
Score = 26.4 bits (59), Expect = 1.4
Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 30 FRAGELSAILGPSGAGKSSLLNVISGY 56
F++G AI+G GKS+LLN + G
Sbjct: 4 FKSG-FVAIIGRPNVGKSTLLNALVGQ 29
>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 = 26.0 bits (58), Expect = 1.4
Identities = 6/16 (37%), Positives = 11/16 (68%)
Query: 38 ILGPSGAGKSSLLNVI 53
+ G G+GK++LL +
Sbjct: 5 LTGFLGSGKTTLLEHL 20
>gnl|CDD|226459 COG3950, COG3950, Predicted ATP-binding protein involved in
virulence [General function prediction only].
Length = 440
Score = 26.4 bits (58), Expect = 1.4
Identities = 10/25 (40%), Positives = 18/25 (72%)
Query: 30 FRAGELSAILGPSGAGKSSLLNVIS 54
F E + I+GP+G+GK+++L+ I
Sbjct: 21 FGESETTIIVGPNGSGKTTVLDAIR 45
>gnl|CDD|226126 COG3598, RepA, RecA-family ATPase [DNA replication, recombination,
and repair].
Length = 402
Score = 26.4 bits (58), Expect = 1.4
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 26 VSGRFRAGELSAILGPSGAGKSSLL 50
+ FR G +S + G SG GK++LL
Sbjct: 82 IDEFFRKGYVSILYGDSGVGKTTLL 106
>gnl|CDD|234770 PRK00454, engB, GTP-binding protein YsxC; Reviewed.
Length = 196
Score = 26.2 bits (59), Expect = 1.4
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 37 AILGPSGAGKSSLLNVISG 55
A G S GKSSL+N ++
Sbjct: 28 AFAGRSNVGKSSLINALTN 46
>gnl|CDD|234125 TIGR03156, GTP_HflX, GTP-binding protein HflX. This protein family
is one of a number of homologous small, well-conserved
GTP-binding proteins with pleiotropic effects. Bacterial
members are designated HflX, following the naming
convention in Escherichia coli where HflX is encoded
immediately downstream of the RNA chaperone Hfq, and
immediately upstream of HflKC, a membrane-associated
protease pair with an important housekeeping function.
Over large numbers of other bacterial genomes, the
pairing with hfq is more significant than with hflK and
hlfC. The gene from Homo sapiens in this family has been
named PGPL (pseudoautosomal GTP-binding protein-like)
[Unknown function, General].
Length = 351
Score = 26.3 bits (59), Expect = 1.4
Identities = 10/26 (38%), Positives = 17/26 (65%), Gaps = 3/26 (11%)
Query: 37 AILGPSGAGKSSLLNVISG---YEKN 59
A++G + AGKS+L N ++G Y +
Sbjct: 193 ALVGYTNAGKSTLFNALTGADVYAAD 218
>gnl|CDD|181888 PRK09473, oppD, oligopeptide transporter ATP-binding component;
Provisional.
Length = 330
Score = 26.2 bits (58), Expect = 1.4
Identities = 11/17 (64%), Positives = 13/17 (76%)
Query: 31 RAGELSAILGPSGAGKS 47
RAGE I+G SG+GKS
Sbjct: 40 RAGETLGIVGESGSGKS 56
>gnl|CDD|172732 PRK14244, PRK14244, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 251
Score = 26.3 bits (58), Expect = 1.4
Identities = 13/32 (40%), Positives = 20/32 (62%)
Query: 19 AKTILKSVSGRFRAGELSAILGPSGAGKSSLL 50
+K IL ++ E++A +GPSG GKS+ L
Sbjct: 17 SKQILFDINLDIYKREVTAFIGPSGCGKSTFL 48
>gnl|CDD|215530 PLN02980, PLN02980, 2-oxoglutarate decarboxylase/ hydro-lyase/
magnesium ion binding / thiamin pyrophosphate binding.
Length = 1655
Score = 26.4 bits (58), Expect = 1.5
Identities = 18/51 (35%), Positives = 24/51 (47%), Gaps = 5/51 (9%)
Query: 18 PAKTILKSVSGRFRAGELSAILGPSGAG-KSSLLNVISGYEKNEKEEEKKK 67
P +I SV R G AIL SSLLN++ Y+K+E E+
Sbjct: 1031 PPSSIFPSV----RCGLEMAILNAIAVRHGSSLLNILDPYQKDENGSEQSH 1077
>gnl|CDD|233986 TIGR02729, Obg_CgtA, Obg family GTPase CgtA. This model describes
a univeral, mostly one-gene-per-genome GTP-binding
protein that associates with ribosomal subunits and
appears to play a role in ribosomal RNA maturation. This
GTPase, related to the nucleolar protein Obg, is
designated CgtA in bacteria. Mutations in this gene are
pleiotropic, but it appears that effects on cellular
functions such as chromosome partition may be secondary
to the effect on ribosome structure. Recent work done in
Vibrio cholerae shows an essential role in the stringent
response, in which RelA-dependent ability to synthesize
the alarmone ppGpp is required for deletion of this
GTPase to be lethal [Protein synthesis, Other].
Length = 329
Score = 26.2 bits (59), Expect = 1.5
Identities = 7/17 (41%), Positives = 13/17 (76%)
Query: 38 ILGPSGAGKSSLLNVIS 54
++G AGKS+L++ +S
Sbjct: 162 LVGLPNAGKSTLISAVS 178
>gnl|CDD|206738 cd08771, DLP_1, Dynamin_like protein family includes dynamins and
Mx proteins. The dynamin family of large
mechanochemical GTPases includes the classical dynamins
and dynamin-like proteins (DLPs) that are found
throughout the Eukarya. These proteins catalyze
membrane fission during clathrin-mediated endocytosis.
Dynamin consists of five domains; an N-terminal G
domain that binds and hydrolyzes GTP, a middle domain
(MD) involved in self-assembly and oligomerization, a
pleckstrin homology (PH) domain responsible for
interactions with the plasma membrane, GED, which is
also involved in self-assembly, and a proline arginine
rich domain (PRD) that interacts with SH3 domains on
accessory proteins. To date, three vertebrate dynamin
genes have been identified; dynamin 1, which is brain
specific, mediates uptake of synaptic vesicles in
presynaptic terminals; dynamin-2 is expressed
ubiquitously and similarly participates in membrane
fission; mutations in the MD, PH and GED domains of
dynamin 2 have been linked to human diseases such as
Charcot-Marie-Tooth peripheral neuropathy and rare
forms of centronuclear myopathy. Dynamin 3 participates
in megakaryocyte progenitor amplification, and is also
involved in cytoplasmic enlargement and the formation
of the demarcation membrane system. This family also
includes interferon-induced Mx proteins that inhibit a
wide range of viruses by blocking an early stage of the
replication cycle. Dynamin oligomerizes into helical
structures around the neck of budding vesicles in a GTP
hydrolysis-dependent manner.
Length = 278
Score = 26.1 bits (58), Expect = 1.5
Identities = 7/19 (36%), Positives = 12/19 (63%)
Query: 37 AILGPSGAGKSSLLNVISG 55
++G +GKSS+L + G
Sbjct: 7 VVVGDQSSGKSSVLEALVG 25
>gnl|CDD|215214 PLN02381, PLN02381, valyl-tRNA synthetase.
Length = 1066
Score = 26.4 bits (58), Expect = 1.5
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 57 EKNEKEEEKKKKKKEKEKKK 76
E+E E+KKKK+EK K+K
Sbjct: 12 ILTEEELERKKKKEEKAKEK 31
>gnl|CDD|129528 TIGR00436, era, GTP-binding protein Era. Era is an essential
GTPase in Escherichia coli and many other bacteria. It
plays a role in ribosome biogenesis. Few bacteria lack
this protein [Protein synthesis, Other].
Length = 270
Score = 26.2 bits (58), Expect = 1.5
Identities = 11/19 (57%), Positives = 13/19 (68%)
Query: 37 AILGPSGAGKSSLLNVISG 55
AILG GKS+LLN + G
Sbjct: 4 AILGRPNVGKSTLLNQLHG 22
>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 = 26.3 bits (59), Expect = 1.6
Identities = 8/14 (57%), Positives = 9/14 (64%)
Query: 37 AILGPSGAGKSSLL 50
I G SG GK+ LL
Sbjct: 19 GIFGGSGTGKTVLL 32
>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 = 26.1 bits (58), Expect = 1.7
Identities = 12/49 (24%), Positives = 21/49 (42%), Gaps = 11/49 (22%)
Query: 38 ILGPSGAGKSSLLNVISG-----------YEKNEKEEEKKKKKKEKEKK 75
+ GP GK++LL Y+ +E E+K + E+ K+
Sbjct: 25 VYGPRRCGKTALLREFLEELRELGYRVIYYDPLRREFEEKLDRFEEAKR 73
>gnl|CDD|237048 PRK12299, obgE, GTPase CgtA; Reviewed.
Length = 335
Score = 26.2 bits (59), Expect = 1.8
Identities = 7/17 (41%), Positives = 13/17 (76%)
Query: 38 ILGPSGAGKSSLLNVIS 54
++G AGKS+L++ +S
Sbjct: 163 LVGLPNAGKSTLISAVS 179
>gnl|CDD|217286 pfam02919, Topoisom_I_N, Eukaryotic DNA topoisomerase I, DNA
binding fragment. Topoisomerase I promotes the
relaxation of DNA superhelical tension by introducing a
transient single-stranded break in duplex DNA and are
vital for the processes of replication, transcription,
and recombination. This family may be more than one
structural domain.
Length = 215
Score = 26.0 bits (58), Expect = 1.8
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 58 KNEKEEEKKKKKKEKEKKK 76
K +EEKK K+EK+K +
Sbjct: 103 KAMSKEEKKAIKEEKDKLE 121
>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 = 25.9 bits (57), Expect = 1.8
Identities = 7/20 (35%), Positives = 15/20 (75%)
Query: 33 GELSAILGPSGAGKSSLLNV 52
G+++ ++G +G GKS++L
Sbjct: 368 GDIAVVVGRAGTGKSTMLKA 387
>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 = 26.0 bits (58), Expect = 1.9
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 37 AILGPSGAGKSSLLNVIS 54
+ G GAGKS+L ++
Sbjct: 3 VVEGNIGAGKSTLAKELA 20
>gnl|CDD|224082 COG1160, COG1160, Predicted GTPases [General function prediction
only].
Length = 444
Score = 26.0 bits (58), Expect = 1.9
Identities = 12/21 (57%), Positives = 14/21 (66%)
Query: 37 AILGPSGAGKSSLLNVISGYE 57
AI+G GKSSL+N I G E
Sbjct: 182 AIIGRPNVGKSSLINAILGEE 202
>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 = 26.1 bits (58), Expect = 1.9
Identities = 6/17 (35%), Positives = 11/17 (64%)
Query: 40 GPSGAGKSSLLNVISGY 56
G +G+GK++LL +
Sbjct: 136 GGTGSGKTTLLYALLNE 152
>gnl|CDD|237046 PRK12297, obgE, GTPase CgtA; Reviewed.
Length = 424
Score = 25.8 bits (58), Expect = 1.9
Identities = 8/14 (57%), Positives = 12/14 (85%), Gaps = 1/14 (7%)
Query: 41 PSGAGKSSLLNVIS 54
P+ GKS+LL+V+S
Sbjct: 167 PN-VGKSTLLSVVS 179
>gnl|CDD|129833 TIGR00750, lao, LAO/AO transport system ATPase. In E. coli,
mutation of this kinase blocks phosphorylation of two
transporter system periplasmic binding proteins and
consequently inhibits those transporters. This kinase
is also found in Gram-positive bacteria, archaea, and
the roundworm C. elegans. It may have a more general,
but still unknown function. Mutations have also been
found that do not phosphorylate the periplasmic binding
proteins, yet still allow transport. The ATPase
activity of this protein seems to be necessary, however
[Transport and binding proteins, Amino acids, peptides
and amines, Regulatory functions, Protein
interactions].
Length = 300
Score = 25.9 bits (57), Expect = 1.9
Identities = 13/37 (35%), Positives = 16/37 (43%)
Query: 14 NEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLL 50
N AK +L + I G GAGKS+LL
Sbjct: 15 NRHPEAKELLDRIMPYTGNAHRVGITGTPGAGKSTLL 51
>gnl|CDD|182123 PRK09866, PRK09866, hypothetical protein; Provisional.
Length = 741
Score = 26.0 bits (57), Expect = 2.0
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 37 AILGPSGAGKSSLLNVISGYE 57
AI+G AGKS+ +N I G E
Sbjct: 73 AIVGTMKAGKSTTINAIVGTE 93
>gnl|CDD|197555 smart00175, RAB, Rab subfamily of small GTPases. Rab GTPases are
implicated in vesicle trafficking.
Length = 164
Score = 25.9 bits (58), Expect = 2.0
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 38 ILGPSGAGKSSLLN 51
++G SG GKSSLL+
Sbjct: 5 LIGDSGVGKSSLLS 18
>gnl|CDD|237045 PRK12296, obgE, GTPase CgtA; Reviewed.
Length = 500
Score = 26.0 bits (58), Expect = 2.0
Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 12/44 (27%)
Query: 15 EPSPAKTI---LKSVSGRFRAGELSAILG-PSGAGKSSLLNVIS 54
EP + + LKSV+ ++G PS AGKSSL++ +S
Sbjct: 145 EPGEERDLVLELKSVAD-------VGLVGFPS-AGKSSLISALS 180
>gnl|CDD|206660 cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-like includes
Rab11a, Rab11b, and Rab25. Rab11a, Rab11b, and Rab25
are closely related, evolutionary conserved Rab
proteins that are differentially expressed. Rab11a is
ubiquitously synthesized, Rab11b is enriched in brain
and heart and Rab25 is only found in epithelia.
Rab11/25 proteins seem to regulate recycling pathways
from endosomes to the plasma membrane and to the
trans-Golgi network. Furthermore, Rab11a is thought to
function in the histamine-induced fusion of
tubulovesicles containing H+, K+ ATPase with the plasma
membrane in gastric parietal cells and in
insulin-stimulated insertion of GLUT4 in the plasma
membrane of cardiomyocytes. Overexpression of Rab25 has
recently been observed in ovarian cancer and breast
cancer, and has been correlated with worsened outcomes
in both diseases. In addition, Rab25 overexpression has
also been observed in prostate cancer, transitional
cell carcinoma of the bladder, and invasive breast
tumor cells. GTPase activating proteins (GAPs) interact
with GTP-bound Rab and accelerate the hydrolysis of GTP
to GDP. Guanine nucleotide exchange factors (GEFs)
interact with GDP-bound Rabs to promote the formation
of the GTP-bound state. Rabs are further regulated by
guanine nucleotide dissociation inhibitors (GDIs),
which facilitate Rab recycling by masking C-terminal
lipid binding and promoting cytosolic localization.
Most Rab GTPases contain a lipid modification site at
the C-terminus, with sequence motifs CC, CXC, or CCX.
Lipid binding is essential for membrane attachment, a
key feature of most Rab proteins. Due to the presence
of truncated sequences in this CD, the lipid
modification site is not available for annotation.
Length = 165
Score = 25.6 bits (57), Expect = 2.0
Identities = 12/29 (41%), Positives = 18/29 (62%), Gaps = 3/29 (10%)
Query: 38 ILGPSGAGKSSLLNVISGYEKNEKEEEKK 66
++G SG GKS+LL S + +NE + K
Sbjct: 8 LIGDSGVGKSNLL---SRFTRNEFNLDSK 33
>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 = 25.7 bits (57), Expect = 2.0
Identities = 7/14 (50%), Positives = 11/14 (78%)
Query: 38 ILGPSGAGKSSLLN 51
+LGPS +GK++L
Sbjct: 5 LLGPSDSGKTALFT 18
>gnl|CDD|218745 pfam05783, DLIC, Dynein light intermediate chain (DLIC). This
family consists of several eukaryotic dynein light
intermediate chain proteins. The light intermediate
chains (LICs) of cytoplasmic dynein consist of multiple
isoforms, which undergo post-translational modification
to produce a large number of species. DLIC1 is known to
be involved in assembly, organisation, and function of
centrosomes and mitotic spindles when bound to
pericentrin. DLIC2 is a subunit of cytoplasmic dynein 2
that may play a role in maintaining Golgi organisation
by binding cytoplasmic dynein 2 to its Golgi-associated
cargo.
Length = 490
Score = 26.0 bits (57), Expect = 2.1
Identities = 16/45 (35%), Positives = 26/45 (57%), Gaps = 4/45 (8%)
Query: 21 TILKSVSGRFR----AGELSAILGPSGAGKSSLLNVISGYEKNEK 61
+IL VS R R +G+ +LG G+GK++L+ + G E +K
Sbjct: 29 SILSEVSTRSRSKLPSGKNVLVLGEDGSGKTTLIAKLQGVEHPKK 73
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 25.7 bits (57), Expect = 2.1
Identities = 10/22 (45%), Positives = 14/22 (63%), Gaps = 1/22 (4%)
Query: 31 RAGELSAIL-GPSGAGKSSLLN 51
R G +L G SG+GK++LL
Sbjct: 1 RRGAGIGVLTGESGSGKTTLLR 22
>gnl|CDD|237650 PRK14265, PRK14265, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 274
Score = 25.7 bits (56), Expect = 2.1
Identities = 10/17 (58%), Positives = 14/17 (82%)
Query: 34 ELSAILGPSGAGKSSLL 50
++ A +GPSG GKS+LL
Sbjct: 47 KIIAFIGPSGCGKSTLL 63
>gnl|CDD|150884 pfam10278, Med19, Mediator of RNA pol II transcription subunit 19.
Med19 represents a family of conserved proteins which
are members of the multi-protein co-activator Mediator
complex. Mediator is required for activation of RNA
polymerase II transcription by DNA binding
transactivators.
Length = 178
Score = 25.9 bits (57), Expect = 2.1
Identities = 13/20 (65%), Positives = 19/20 (95%)
Query: 57 EKNEKEEEKKKKKKEKEKKK 76
+K+E ++E+KKKKKEK+KKK
Sbjct: 147 KKHEDDKERKKKKKEKKKKK 166
Score = 24.0 bits (52), Expect = 9.8
Identities = 11/21 (52%), Positives = 19/21 (90%)
Query: 56 YEKNEKEEEKKKKKKEKEKKK 76
++K + E++K++KKK+KEKKK
Sbjct: 144 HKKKKHEDDKERKKKKKEKKK 164
>gnl|CDD|218203 pfam04670, Gtr1_RagA, Gtr1/RagA G protein conserved region. GTR1
was first identified in S. cerevisiae as a suppressor
of a mutation in RCC1. Biochemical analysis revealed
that Gtr1 is in fact a G protein of the Ras family. The
RagA/B proteins are the human homologues of Gtr1.
Included in this family is the human Rag C, a novel
protein that has been shown to interact with RagA/B.
Length = 230
Score = 25.6 bits (57), Expect = 2.2
Identities = 9/23 (39%), Positives = 15/23 (65%), Gaps = 1/23 (4%)
Query: 39 LGPSGAGKSSLLNVI-SGYEKNE 60
+G G+GKSS+ ++I S Y +
Sbjct: 5 MGLRGSGKSSMRSIIFSNYSPRD 27
>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 = 25.7 bits (57), Expect = 2.2
Identities = 6/16 (37%), Positives = 11/16 (68%)
Query: 35 LSAILGPSGAGKSSLL 50
+ G +G+GK++LL
Sbjct: 2 TVILQGEAGSGKTTLL 17
>gnl|CDD|237727 PRK14489, PRK14489, putative bifunctional molybdopterin-guanine
dinucleotide biosynthesis protein MobA/MobB;
Provisional.
Length = 366
Score = 25.9 bits (57), Expect = 2.2
Identities = 16/58 (27%), Positives = 24/58 (41%), Gaps = 19/58 (32%)
Query: 6 HVTMVT----FFNEPSPAKTILKSVSGRFRAGE---------LSAILGPSGAGKSSLL 50
+V + T FFN +P + RA L ++G SG GK++LL
Sbjct: 171 YVDLSTQKDAFFNVNTPEDL------EQLRAIPDGTTTGAPPLLGVVGYSGTGKTTLL 222
>gnl|CDD|184597 PRK14270, PRK14270, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 251
Score = 25.7 bits (56), Expect = 2.2
Identities = 11/31 (35%), Positives = 19/31 (61%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLL 50
K L ++ +++A++GPSG GKS+ L
Sbjct: 17 KQALNDINLPIYENKITALIGPSGCGKSTFL 47
>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 = 2.2
Identities = 8/14 (57%), Positives = 9/14 (64%)
Query: 37 AILGPSGAGKSSLL 50
I GP G GK+SL
Sbjct: 7 LIYGPPGIGKTSLA 20
>gnl|CDD|206713 cd04146, RERG_RasL11_like, Ras-related and Estrogen-Regulated
Growth inhibitor (RERG) and Ras-like 11 (RasL11)-like
families. RERG (Ras-related and Estrogen- Regulated
Growth inhibitor) and Ras-like 11 are members of a
novel subfamily of Ras that were identified based on
their behavior in breast and prostate tumors,
respectively. RERG expression was decreased or lost in
a significant fraction of primary human breast tumors
that lack estrogen receptor and are correlated with
poor clinical prognosis. Elevated RERG expression
correlated with favorable patient outcome in a breast
tumor subtype that is positive for estrogen receptor
expression. In contrast to most Ras proteins, RERG
overexpression inhibited the growth of breast tumor
cells in vitro and in vivo. RasL11 was found to be
ubiquitously expressed in human tissue, but
down-regulated in prostate tumors. Both RERG and RasL11
lack the C-terminal CaaX prenylation motif, where a =
an aliphatic amino acid and X = any amino acid, and are
localized primarily in the cytoplasm. Both are believed
to have tumor suppressor activity.
Length = 166
Score = 25.7 bits (57), Expect = 2.3
Identities = 14/43 (32%), Positives = 20/43 (46%), Gaps = 6/43 (13%)
Query: 37 AILGPSGAGKSSLL------NVISGYEKNEKEEEKKKKKKEKE 73
A+LG SG GKS+L I YE N + ++ + E
Sbjct: 3 AVLGASGVGKSALTVRFLTKRFIGEYEPNLESLYSRQVTIDGE 45
>gnl|CDD|223447 COG0370, FeoB, Fe2+ transport system protein B [Inorganic ion
transport and metabolism].
Length = 653
Score = 25.7 bits (57), Expect = 2.3
Identities = 7/19 (36%), Positives = 13/19 (68%)
Query: 37 AILGPSGAGKSSLLNVISG 55
A++G GK++L N ++G
Sbjct: 7 ALVGNPNVGKTTLFNALTG 25
>gnl|CDD|206652 cd01853, Toc34_like, Translocon at the Outer-envelope membrane of
Chloroplasts 34-like (Toc34-like). The Toc34-like
(Translocon at the Outer-envelope membrane of
Chloroplasts) family contains several Toc proteins,
including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125,
and Toc90. The Toc complex at the outer envelope
membrane of chloroplasts is a molecular machine of ~500
kDa that contains a single Toc159 protein, four Toc75
molecules, and four or five copies of Toc34. Toc64 and
Toc12 are associated with the translocon, but do not
appear to be part of the core complex. The Toc
translocon initiates the import of nuclear-encoded
preproteins from the cytosol into the organelle. Toc34
and Toc159 are both GTPases, while Toc75 is a
beta-barrel integral membrane protein. Toc159 is
equally distributed between a soluble cytoplasmic form
and a membrane-inserted form, suggesting that assembly
of the Toc complex is dynamic. Toc34 and Toc75 act
sequentially to mediate docking and insertion of Toc159
resulting in assembly of the functional translocon.
Length = 248
Score = 25.7 bits (57), Expect = 2.3
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 38 ILGPSGAGKSSLLNVISGYEKNE 60
+LG +G GKSS +N I G K
Sbjct: 36 VLGKTGVGKSSTINSIFGERKVS 58
>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 = 25.7 bits (57), Expect = 2.3
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 37 AILGPSGAGKSSLLNVISGYEKN 59
++ G +GKS LLN + G
Sbjct: 11 SVFGSQSSGKSFLLNHLFGTSDG 33
>gnl|CDD|184198 PRK13638, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 271
Score = 25.7 bits (56), Expect = 2.4
Identities = 12/40 (30%), Positives = 24/40 (60%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNEK 61
+LK ++ F ++ ++G +G GKS+L +SG + +K
Sbjct: 16 VLKGLNLDFSLSPVTGLVGANGCGKSTLFMNLSGLLRPQK 55
>gnl|CDD|225171 COG2262, HflX, GTPases [General function prediction only].
Length = 411
Score = 25.7 bits (57), Expect = 2.5
Identities = 10/27 (37%), Positives = 18/27 (66%), Gaps = 3/27 (11%)
Query: 37 AILGPSGAGKSSLLNVISG---YEKNE 60
A++G + AGKS+L N ++G Y ++
Sbjct: 196 ALVGYTNAGKSTLFNALTGADVYVADQ 222
>gnl|CDD|232980 TIGR00450, mnmE_trmE_thdF, tRNA modification GTPase TrmE. TrmE,
also called MnmE and previously designated ThdF
(thiophene and furan oxidation protein), is a GTPase
involved in tRNA modification to create
5-methylaminomethyl-2-thiouridine in the wobble position
of some tRNAs. This protein and GidA form an
alpha2/beta2 heterotetramer [Protein synthesis, tRNA and
rRNA base modification].
Length = 442
Score = 25.5 bits (56), Expect = 2.5
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 37 AILGPSGAGKSSLLNVISGYEK 58
AI+G GKSSLLN + ++
Sbjct: 207 AIVGSPNVGKSSLLNALLKQDR 228
>gnl|CDD|178945 PRK00247, PRK00247, putative inner membrane protein translocase
component YidC; Validated.
Length = 429
Score = 25.6 bits (56), Expect = 2.6
Identities = 7/19 (36%), Positives = 12/19 (63%)
Query: 58 KNEKEEEKKKKKKEKEKKK 76
EK E K +KK+ +K++
Sbjct: 337 TAEKNEAKARKKEIAQKRR 355
>gnl|CDD|214395 CHL00204, ycf1, Ycf1; Provisional.
Length = 1832
Score = 25.8 bits (57), Expect = 2.7
Identities = 9/20 (45%), Positives = 18/20 (90%)
Query: 57 EKNEKEEEKKKKKKEKEKKK 76
EK +K+++K+KKK+E+ K++
Sbjct: 743 EKTKKKKKKEKKKEEEYKRE 762
Score = 25.1 bits (55), Expect = 4.2
Identities = 9/25 (36%), Positives = 18/25 (72%)
Query: 52 VISGYEKNEKEEEKKKKKKEKEKKK 76
IS + + +++KKK+KK++E+ K
Sbjct: 736 KISDSVEEKTKKKKKKEKKKEEEYK 760
Score = 24.3 bits (53), Expect = 7.7
Identities = 12/32 (37%), Positives = 21/32 (65%)
Query: 45 GKSSLLNVISGYEKNEKEEEKKKKKKEKEKKK 76
GK + + E+ K+++KK+KKKE+E K+
Sbjct: 730 GKDAEFKISDSVEEKTKKKKKKEKKKEEEYKR 761
>gnl|CDD|184587 PRK14241, PRK14241, phosphate transporter ATP-binding protein;
Provisional.
Length = 258
Score = 25.5 bits (56), Expect = 2.8
Identities = 9/16 (56%), Positives = 14/16 (87%)
Query: 35 LSAILGPSGAGKSSLL 50
++A +GPSG GKS++L
Sbjct: 32 VTAFIGPSGCGKSTVL 47
>gnl|CDD|184375 PRK13891, PRK13891, conjugal transfer protein TrbE; Provisional.
Length = 852
Score = 25.5 bits (56), Expect = 2.8
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 38 ILGPSGAGKSSLLNVIS 54
+ GP+GAGKS+ L +I+
Sbjct: 493 MFGPTGAGKSTHLGIIA 509
>gnl|CDD|215774 pfam00183, HSP90, Hsp90 protein.
Length = 529
Score = 25.5 bits (56), Expect = 2.8
Identities = 12/20 (60%), Positives = 14/20 (70%)
Query: 57 EKNEKEEEKKKKKKEKEKKK 76
E+ EKEE+KKK KK KE
Sbjct: 63 EEEEKEEKKKKTKKVKETTT 82
>gnl|CDD|240402 PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Provisional.
Length = 651
Score = 25.4 bits (56), Expect = 2.8
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 57 EKNEKEEEKKKKKKEKEKKK 76
EK EKE K++K+ K KK+
Sbjct: 556 EKEEKEALKEQKRLRKLKKQ 575
Score = 24.6 bits (54), Expect = 6.3
Identities = 11/19 (57%), Positives = 15/19 (78%)
Query: 57 EKNEKEEEKKKKKKEKEKK 75
K +K+EEKKKK+ EK +K
Sbjct: 570 RKLKKQEEKKKKELEKLEK 588
>gnl|CDD|234608 PRK00064, recF, recombination protein F; Reviewed.
Length = 361
Score = 25.5 bits (57), Expect = 2.9
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 37 AILGPSGAGKSSLLNVIS 54
++G +G GK++LL I
Sbjct: 27 VLVGENGQGKTNLLEAIY 44
>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 = 25.3 bits (56), Expect = 2.9
Identities = 6/20 (30%), Positives = 12/20 (60%)
Query: 37 AILGPSGAGKSSLLNVISGY 56
G GAGK++L+ +++
Sbjct: 4 VFEGIDGAGKTTLIELLAER 23
>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 = 25.7 bits (56), Expect = 3.0
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 31 RAGELSAILGPSGAGKSSLLNVIS 54
G + I G +GAGK++LL+ I+
Sbjct: 24 ALGPIFLICGKTGAGKTTLLDAIT 47
>gnl|CDD|217503 pfam03344, Daxx, Daxx Family. The Daxx protein (also known as the
Fas-binding protein) is thought to play a role in
apoptosis, but precise role played by Daxx remains to be
determined. Daxx forms a complex with Axin.
Length = 715
Score = 25.6 bits (56), Expect = 3.1
Identities = 12/32 (37%), Positives = 24/32 (75%), Gaps = 2/32 (6%)
Query: 47 SSLLNVISGY--EKNEKEEEKKKKKKEKEKKK 76
S L VIS Y ++++ EEE+++K++E+E++
Sbjct: 382 SRLEEVISKYAMKQDDTEEEERRKRQERERQG 413
>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 = 25.3 bits (56), Expect = 3.2
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 40 GPSGAGKSSLLNVISGYE 57
G SG GK++L ++G E
Sbjct: 8 GRSGCGKTTLTQALNGEE 25
>gnl|CDD|223610 COG0536, Obg, Predicted GTPase [General function prediction only].
Length = 369
Score = 25.2 bits (56), Expect = 3.2
Identities = 7/11 (63%), Positives = 10/11 (90%)
Query: 44 AGKSSLLNVIS 54
AGKS+LL+ +S
Sbjct: 170 AGKSTLLSAVS 180
>gnl|CDD|206706 cd04134, Rho3, Ras homology family 3 (Rho3) of small guanosine
triphosphatases (GTPases). Rho3 is a member of the Rho
family found only in fungi. Rho3 is believed to
regulate cell polarity by interacting with the
diaphanous/formin family protein For3 to control both
the actin cytoskeleton and microtubules. Rho3 is also
believed to have a direct role in exocytosis that is
independent of its role in regulating actin polarity.
The function in exocytosis may be two-pronged: first,
in the transport of post-Golgi vesicles from the mother
cell to the bud, mediated by myosin (Myo2); second, in
the docking and fusion of vesicles to the plasma
membrane, mediated by an exocyst (Exo70) protein. 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 = 185
Score = 25.2 bits (55), Expect = 3.3
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 38 ILGPSGAGKSSLLNVIS 54
+LG GK+SLLNV +
Sbjct: 5 VLGDGACGKTSLLNVFT 21
>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 = 25.3 bits (56), Expect = 3.4
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 38 ILGPSGAGKSSLLNVI 53
I SG GKS+LL +I
Sbjct: 74 IFAGSGVGKSTLLGMI 89
>gnl|CDD|201353 pfam00625, Guanylate_kin, Guanylate kinase.
Length = 183
Score = 25.0 bits (55), Expect = 3.4
Identities = 7/16 (43%), Positives = 10/16 (62%)
Query: 38 ILGPSGAGKSSLLNVI 53
+ GPSG GKS + +
Sbjct: 7 LSGPSGVGKSHIKKAL 22
>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 = 25.1 bits (55), Expect = 3.5
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 37 AILGPSGAGKSSLLNVISGYEKNEKE 62
A+ G SG GKSS +N + G E
Sbjct: 39 AVTGDSGNGKSSFINALRGIGHEEDG 64
>gnl|CDD|172751 PRK14263, PRK14263, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 261
Score = 25.4 bits (55), Expect = 3.5
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 33 GELSAILGPSGAGKSSLL 50
E++ +GPSG GKS++L
Sbjct: 34 NEITGFIGPSGCGKSTVL 51
>gnl|CDD|237546 PRK13889, PRK13889, conjugal transfer relaxase TraA; Provisional.
Length = 988
Score = 25.4 bits (56), Expect = 3.7
Identities = 11/29 (37%), Positives = 17/29 (58%), Gaps = 6/29 (20%)
Query: 35 LSAILGPSGAGKSSLLNVI------SGYE 57
L ++G +G GKS++L V +GYE
Sbjct: 364 LGVVVGYAGTGKSAMLGVAREAWEAAGYE 392
>gnl|CDD|224260 COG1341, COG1341, Predicted GTPase or GTP-binding protein
[General function prediction only].
Length = 398
Score = 25.1 bits (55), Expect = 3.7
Identities = 6/17 (35%), Positives = 11/17 (64%)
Query: 37 AILGPSGAGKSSLLNVI 53
++GP +GKS+L +
Sbjct: 77 MVVGPVDSGKSTLTTYL 93
>gnl|CDD|234626 PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosphate
transferase; Reviewed.
Length = 307
Score = 25.1 bits (56), Expect = 3.8
Identities = 6/13 (46%), Positives = 11/13 (84%)
Query: 37 AILGPSGAGKSSL 49
I+GP+ +GK++L
Sbjct: 8 VIVGPTASGKTAL 20
>gnl|CDD|206697 cd04116, Rab9, Rab GTPase family 9 (Rab9). Rab9 is found in late
endosomes, together with mannose 6-phosphate receptors
(MPRs) and the tail-interacting protein of 47 kD
(TIP47). Rab9 is a key mediator of vesicular transport
from late endosomes to the trans-Golgi network (TGN) by
redirecting the MPRs. Rab9 has been identified as a key
component for the replication of several viruses,
including HIV1, Ebola, Marburg, and measles, making it
a potential target for inhibiting a variety of viruses.
GTPase activating proteins (GAPs) interact with
GTP-bound Rab and accelerate the hydrolysis of GTP to
GDP. Guanine nucleotide exchange factors (GEFs)
interact with GDP-bound Rabs to promote the formation
of the GTP-bound state. Rabs are further regulated by
guanine nucleotide dissociation inhibitors (GDIs),
which facilitate Rab recycling by masking C-terminal
lipid binding and promoting cytosolic localization.
Most Rab GTPases contain a lipid modification site at
the C-terminus, with sequence motifs CC, CXC, or CCX.
Lipid binding is essential for membrane attachment, a
key feature of most Rab proteins. Due to the presence
of truncated sequences in this CD, the lipid
modification site is not available for annotation.
Length = 170
Score = 24.8 bits (54), Expect = 4.1
Identities = 10/24 (41%), Positives = 15/24 (62%), Gaps = 2/24 (8%)
Query: 38 ILGPSGAGKSSLLN--VISGYEKN 59
+LG G GKSSL+N V + ++
Sbjct: 10 LLGDGGVGKSSLMNRYVTNKFDTQ 33
>gnl|CDD|206644 cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf-like (Arl)
small GTPases. Arf (ADP-ribosylation factor)/Arl
(Arf-like) small GTPases. Arf proteins are activators
of phospholipase D isoforms. Unlike Ras proteins they
lack cysteine residues at their C-termini and therefore
are unlikely to be prenylated. Arfs are N-terminally
myristoylated. Members of the Arf family are regulators
of vesicle formation in intracellular traffic that
interact reversibly with membranes of the secretory and
endocytic compartments in a GTP-dependent manner. They
depart from other small GTP-binding proteins by a
unique structural device, interswitch toggle, that
implements front-back communication from N-terminus to
the nucleotide binding site. Arf-like (Arl) proteins
are close relatives of the Arf, but only Arl1 has been
shown to function in membrane traffic like the Arf
proteins. Arl2 has an unrelated function in the folding
of native tubulin, and Arl4 may function in the
nucleus. Most other Arf family proteins are so far
relatively poorly characterized. Thus, despite their
significant sequence homologies, Arf family proteins
may regulate unrelated functions.
Length = 158
Score = 24.8 bits (55), Expect = 4.2
Identities = 8/20 (40%), Positives = 13/20 (65%)
Query: 38 ILGPSGAGKSSLLNVISGYE 57
+LG GAGK+++L + E
Sbjct: 4 MLGLDGAGKTTILYKLKLGE 23
>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 = 24.8 bits (54), Expect = 4.2
Identities = 7/16 (43%), Positives = 10/16 (62%)
Query: 38 ILGPSGAGKSSLLNVI 53
+ GP G GK++L I
Sbjct: 24 LYGPPGTGKTTLARAI 39
>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 = 25.0 bits (55), Expect = 4.2
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 31 RAGELSAILGPSGAGKS 47
+ GE+ A++G SG+GKS
Sbjct: 10 KRGEVLALVGESGSGKS 26
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 24.9 bits (55), Expect = 4.3
Identities = 15/45 (33%), Positives = 22/45 (48%)
Query: 32 AGELSAILGPSGAGKSSLLNVISGYEKNEKEEEKKKKKKEKEKKK 76
E+ + G A K V +K E+E+++KKKK KKK
Sbjct: 396 EEEIEFLTGSKKATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKK 440
>gnl|CDD|153288 cd07604, BAR_ASAPs, The Bin/Amphiphysin/Rvs (BAR) domain of ArfGAP
with SH3 domain, ANK repeat and PH domain containing
proteins. BAR domains are dimerization, lipid binding
and curvature sensing modules found in many different
proteins with diverse functions. This subfamily is
composed of ASAPs (ArfGAP with SH3 domain, ANK repeat
and PH domain containing proteins), which are Arf GTPase
activating proteins (GAPs) with similarity to ACAPs
(ArfGAP with Coiled-coil, ANK repeat and PH domain
containing proteins) in that they contain an N-terminal
BAR domain, followed by a Pleckstrin homology (PH)
domain, an Arf GAP domain, and ankyrin (ANK) repeats.
However, ASAPs contain an additional C-terminal SH3
domain. ASAPs function in regulating cell growth,
migration, and invasion. Vertebrates contain at least
three members, ASAP1, ASAP2, and ASAP3. ASAP1 and ASAP2
shows GTPase activating protein (GAP) activity towards
Arf1 and Arf5. They do not show GAP activity towards
Arf6, but is able to mediate Arf6 signaling by binding
stably to GTP-Arf6. ASAP3 is an Arf6-specific GAP. BAR
domains form dimers that bind to membranes, induce
membrane bending and curvature, and may also be involved
in protein-protein interactions. The BAR domain of ASAP1
mediates membrane bending, is essential for function,
and autoinhibits GAP activity by interacting with the PH
and/or Arf GAP domains.
Length = 215
Score = 25.1 bits (55), Expect = 4.3
Identities = 13/34 (38%), Positives = 19/34 (55%)
Query: 43 GAGKSSLLNVISGYEKNEKEEEKKKKKKEKEKKK 76
G K S ++ ++K K+ E K K EKEKK+
Sbjct: 100 GDLKGSKGDLKKPFDKAWKDYETKASKIEKEKKQ 133
>gnl|CDD|185364 PRK15467, PRK15467, ethanolamine utilization protein EutP;
Provisional.
Length = 158
Score = 24.9 bits (54), Expect = 4.4
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 37 AILGPSGAGKSSLLNVISG 55
A +G GAGK++L N + G
Sbjct: 5 AFVGAVGAGKTTLFNALQG 23
>gnl|CDD|236781 PRK10869, PRK10869, recombination and repair protein;
Provisional.
Length = 553
Score = 24.9 bits (55), Expect = 4.4
Identities = 10/27 (37%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 21 TILKSVSGRFRAGELSAILGPSGAGKS 47
I++ + F++G ++ I G +GAGKS
Sbjct: 11 AIVRELEIDFQSG-MTVITGETGAGKS 36
>gnl|CDD|224116 COG1195, RecF, Recombinational DNA repair ATPase (RecF pathway)
[DNA replication, recombination, and repair].
Length = 363
Score = 24.9 bits (55), Expect = 4.5
Identities = 7/17 (41%), Positives = 12/17 (70%)
Query: 38 ILGPSGAGKSSLLNVIS 54
++G +G GK++LL I
Sbjct: 28 LVGENGQGKTNLLEAIY 44
>gnl|CDD|112137 pfam03308, ArgK, ArgK protein. The ArgK protein acts as an
ATPase enzyme and as a kinase, and phosphorylates
periplasmic binding proteins involved in the LAO
(lysine, arginine, ornithine)/AO transport systems.
Length = 267
Score = 25.0 bits (55), Expect = 4.6
Identities = 12/44 (27%), Positives = 21/44 (47%), Gaps = 2/44 (4%)
Query: 7 VTMVTFFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLL 50
+T+V + A+ +L+ + I G GAGKS+L+
Sbjct: 5 ITLVE--SRRPEARELLRRLMPLTGRAHRVGITGVPGAGKSTLI 46
>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 = 24.9 bits (55), Expect = 4.6
Identities = 12/39 (30%), Positives = 20/39 (51%), Gaps = 2/39 (5%)
Query: 38 ILGPSGAGKSSLLNVISGYEKNEKEEEKKKKKKEKEKKK 76
++G SG GK++L+N + + + E EK KK
Sbjct: 9 VVGESGLGKTTLIN--TLFLTDLIPERGIPGPSEKIKKT 45
>gnl|CDD|106587 PRK13644, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 274
Score = 24.9 bits (54), Expect = 4.7
Identities = 12/39 (30%), Positives = 25/39 (64%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISGYEKNEK 61
L++++ + GE I+G +G+GKS+L ++G + +K
Sbjct: 18 LENINLVIKKGEYIGIIGKNGSGKSTLALHLNGLLRPQK 56
>gnl|CDD|240339 PTZ00265, PTZ00265, multidrug resistance protein (mdr1);
Provisional.
Length = 1466
Score = 25.0 bits (54), Expect = 4.9
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLLNVI 53
I K ++ G+ A +G SG GKS++L +I
Sbjct: 400 IYKDLNFTLTEGKTYAFVGESGCGKSTILKLI 431
Score = 24.6 bits (53), Expect = 6.3
Identities = 15/73 (20%), Positives = 34/73 (46%), Gaps = 10/73 (13%)
Query: 10 VTFFNEPSPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGY----------EKN 59
V F P I K ++ + + +AI+G +G+GKS++++++ + KN
Sbjct: 1171 VNFRYISRPNVPIYKDLTFSCDSKKTTAIVGETGSGKSTVMSLLMRFYDLKNDHHIVFKN 1230
Query: 60 EKEEEKKKKKKEK 72
E + ++ +
Sbjct: 1231 EHTNDMTNEQDYQ 1243
>gnl|CDD|227297 COG4962, CpaF, Flp pilus assembly protein, ATPase CpaF
[Intracellular trafficking and secretion].
Length = 355
Score = 25.0 bits (55), Expect = 4.9
Identities = 10/19 (52%), Positives = 16/19 (84%)
Query: 38 ILGPSGAGKSSLLNVISGY 56
I G +G+GK++LLN +SG+
Sbjct: 178 ISGGTGSGKTTLLNALSGF 196
>gnl|CDD|223296 COG0218, COG0218, Predicted GTPase [General function prediction
only].
Length = 200
Score = 24.9 bits (55), Expect = 5.0
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 37 AILGPSGAGKSSLLNVISG 55
A G S GKSSL+N ++
Sbjct: 28 AFAGRSNVGKSSLINALTN 46
>gnl|CDD|182221 PRK10070, PRK10070, glycine betaine transporter ATP-binding
subunit; Provisional.
Length = 400
Score = 25.0 bits (54), Expect = 5.1
Identities = 11/32 (34%), Positives = 21/32 (65%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
+K S GE+ I+G SG+GKS+++ +++
Sbjct: 44 VKDASLAIEEGEIFVIMGLSGSGKSTMVRLLN 75
>gnl|CDD|216796 pfam01935, DUF87, Domain of unknown function DUF87. The function
of this prokaryotic domain is unknown. It contains
several conserved aspartates and histidines that could
be metal ligands.
Length = 218
Score = 24.6 bits (54), Expect = 5.1
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 37 AILGPSGAGKSSLLNVI 53
AILG +G+GKS+ + V+
Sbjct: 27 AILGSTGSGKSNTVAVL 43
>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 = 24.7 bits (54), Expect = 5.2
Identities = 7/21 (33%), Positives = 11/21 (52%)
Query: 37 AILGPSGAGKSSLLNVISGYE 57
+G G GK++L + G E
Sbjct: 4 MFIGSVGCGKTTLTQALQGEE 24
>gnl|CDD|149438 pfam08374, Protocadherin, Protocadherin. The structure of
protocadherins is similar to that of classic cadherins
(pfam00028), but particularly on the cytoplasmic domains
they also have some unique features. They are expressed
in a variety of organisms and are found in high
concentrations in the brain where they seem to be
localised mainly at cell-cell contact sites. Their
expression seems to be developmentally regulated.
Length = 223
Score = 24.8 bits (54), Expect = 5.4
Identities = 13/32 (40%), Positives = 18/32 (56%), Gaps = 9/32 (28%)
Query: 54 SGYEKNEKEEE---------KKKKKKEKEKKK 76
GY+ +KE E K+KKKK+ +KKK
Sbjct: 70 KGYQAGKKETEDWFSPNQENKQKKKKKDKKKK 101
>gnl|CDD|213245 cd03278, ABC_SMC_barmotin, ATP-binding cassette domain of
barmotin, a member of the SMC protein family. Barmotin
is a tight junction-associated protein expressed in rat
epithelial cells which is thought to have an important
regulatory role in tight junction barrier function.
Barmotin belongs to the SMC protein family. SMC
proteins are large (approximately 110 to 170 kDa), and
each is arranged into five recognizable domains.
Amino-acid sequence homology of SMC proteins between
species is largely confined to the amino- and
carboxy-terminal globular domains. The amino-terminal
domain contains a 'Walker A' nucleotide-binding domain
(GxxGxGKS/T, in the single-letter amino-acid code),
which by mutational studies has been shown to be
essential in several proteins. The carboxy-terminal
domain contains a sequence (the DA-box) that resembles
a 'Walker B' motif, and a motif with homology to the
signature sequence of the ATP-binding cassette (ABC)
family of ATPases. The sequence homology within the
carboxy-terminal domain is relatively high within the
SMC1-SMC4 group, whereas SMC5 and SMC6 show some
divergence in both of these sequences. In eukaryotic
cells, the proteins are found as heterodimers of SMC1
paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6
(formerly known as Rad18).
Length = 197
Score = 24.7 bits (55), Expect = 5.6
Identities = 11/19 (57%), Positives = 16/19 (84%), Gaps = 3/19 (15%)
Query: 35 LSAILGPSGAGKSSLLNVI 53
L+AI+GP+G+GKS N+I
Sbjct: 24 LTAIVGPNGSGKS---NII 39
>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 = 24.4 bits (54), Expect = 5.6
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 38 ILGPSGAGKSSLLN 51
++G G GKSSLL
Sbjct: 4 LVGDGGVGKSSLLI 17
>gnl|CDD|218734 pfam05758, Ycf1, Ycf1. The chloroplast genomes of most higher
plants contain two giant open reading frames designated
ycf1 and ycf2. Although the function of Ycf1 is unknown,
it is known to be an essential gene.
Length = 832
Score = 24.6 bits (54), Expect = 5.8
Identities = 11/31 (35%), Positives = 18/31 (58%)
Query: 45 GKSSLLNVISGYEKNEKEEEKKKKKKEKEKK 75
K ++ E+ K+EEKK+K K +EK+
Sbjct: 648 EKKKEFKILDYTEEKTKKEEKKEKNKREEKE 678
>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown].
Length = 434
Score = 24.8 bits (54), Expect = 5.8
Identities = 7/19 (36%), Positives = 13/19 (68%)
Query: 57 EKNEKEEEKKKKKKEKEKK 75
E +K++E+ + KEK +K
Sbjct: 411 ENEKKQKEQADEDKEKRQK 429
Score = 24.0 bits (52), Expect = 9.6
Identities = 7/20 (35%), Positives = 16/20 (80%)
Query: 57 EKNEKEEEKKKKKKEKEKKK 76
++ E+ +E K+K+++ E+KK
Sbjct: 415 KQKEQADEDKEKRQKDERKK 434
>gnl|CDD|206739 cd09912, DLP_2, Dynamin-like protein including dynamins,
mitofusins, and guanylate-binding proteins. The
dynamin family of large mechanochemical GTPases
includes the classical dynamins and dynamin-like
proteins (DLPs) that are found throughout the Eukarya.
This family also includes bacterial DLPs. These
proteins catalyze membrane fission during
clathrin-mediated endocytosis. Dynamin consists of five
domains; an N-terminal G domain that binds and
hydrolyzes GTP, a middle domain (MD) involved in
self-assembly and oligomerization, a pleckstrin
homology (PH) domain responsible for interactions with
the plasma membrane, GED, which is also involved in
self-assembly, and a proline arginine rich domain (PRD)
that interacts with SH3 domains on accessory proteins.
To date, three vertebrate dynamin genes have been
identified; dynamin 1, which is brain specific,
mediates uptake of synaptic vesicles in presynaptic
terminals; dynamin-2 is expressed ubiquitously and
similarly participates in membrane fission; mutations
in the MD, PH and GED domains of dynamin 2 have been
linked to human diseases such as Charcot-Marie-Tooth
peripheral neuropathy and rare forms of centronuclear
myopathy. Dynamin 3 participates in megakaryocyte
progenitor amplification, and is also involved in
cytoplasmic enlargement and the formation of the
demarcation membrane system. This family also includes
mitofusins (MFN1 and MFN2 in mammals) that are involved
in mitochondrial fusion. Dynamin oligomerizes into
helical structures around the neck of budding vesicles
in a GTP hydrolysis-dependent manner.
Length = 180
Score = 24.4 bits (54), Expect = 5.8
Identities = 9/15 (60%), Positives = 12/15 (80%)
Query: 37 AILGPSGAGKSSLLN 51
A++G AGKS+LLN
Sbjct: 4 AVVGEFSAGKSTLLN 18
>gnl|CDD|184202 PRK13642, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 277
Score = 24.7 bits (53), Expect = 6.0
Identities = 13/33 (39%), Positives = 19/33 (57%)
Query: 23 LKSVSGRFRAGELSAILGPSGAGKSSLLNVISG 55
L VS GE +I+G +G+GKS+ +I G
Sbjct: 23 LNGVSFSITKGEWVSIIGQNGSGKSTTARLIDG 55
>gnl|CDD|238356 cd00660, Topoisomer_IB_N, Topoisomer_IB_N: N-terminal DNA binding
fragment found in eukaryotic DNA topoisomerase (topo) IB
proteins similar to the monomeric yeast and human topo I
and heterodimeric topo I from Leishmania donvanni. Topo
I enzymes are divided into: topo type IA (bacterial)
and type IB (eukaryotic). Topo I relaxes superhelical
tension in duplex DNA by creating a single-strand nick,
the broken strand can then rotate around the unbroken
strand to remove DNA supercoils and, the nick is
religated, liberating topo I. These enzymes regulate the
topological changes that accompany DNA replication,
transcription and other nuclear processes. Human topo I
is the target of a diverse set of anticancer drugs
including camptothecins (CPTs). CPTs bind to the topo
I-DNA complex and inhibit re-ligation of the
single-strand nick, resulting in the accumulation of
topo I-DNA adducts. In addition to differences in
structure and some biochemical properties,
Trypanosomatid parasite topo I differ from human topo I
in their sensitivity to CPTs and other classical topo I
inhibitors. Trypanosomatid topos I play putative roles
in organizing the kinetoplast DNA network unique to
these parasites. This family may represent more than
one structural domain.
Length = 215
Score = 24.5 bits (54), Expect = 6.1
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 58 KNEKEEEKKKKKKEKEKK 75
K +EEKK K+EKEK
Sbjct: 102 KAMSKEEKKAIKEEKEKL 119
>gnl|CDD|183177 PRK11524, PRK11524, putative methyltransferase; Provisional.
Length = 284
Score = 24.7 bits (54), Expect = 6.1
Identities = 19/68 (27%), Positives = 26/68 (38%), Gaps = 10/68 (14%)
Query: 18 PAKTILKSVSGRFRAGELSAILGPSGAG--------KSSL--LNVISGYEKNEKEEEKKK 67
P +L +G F G ++ G G K L L+V S Y E + KK+
Sbjct: 208 PGDIVLDPFAGSFTTGAVAKASGRKFIGIEINSEYIKMGLRRLDVASHYSAEELAKVKKR 267
Query: 68 KKKEKEKK 75
K KK
Sbjct: 268 KTGNLSKK 275
>gnl|CDD|206728 cd04165, GTPBP1_like, GTP binding protein 1 (GTPBP1)-like family
includes GTPBP2. Mammalian GTP binding protein 1
(GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1
are GTPases whose specific functions remain unknown. In
mouse, GTPBP1 is expressed in macrophages, in smooth
muscle cells of various tissues and in some neurons of
the cerebral cortex; GTPBP2 tissue distribution appears
to overlap that of GTPBP1. In human leukemia and
macrophage cell lines, expression of both GTPBP1 and
GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The
chromosomal location of both genes has been identified
in humans, with GTPBP1 located in chromosome 22q12-13.1
and GTPBP2 located in chromosome 6p21-12. Human
glioblastoma multiforme (GBM), a highly-malignant
astrocytic glioma and the most common cancer in the
central nervous system, has been linked to chromosomal
deletions and a translocation on chromosome 6. The GBM
translocation results in a fusion of GTPBP2 and PTPRZ1,
a protein involved in oligodendrocyte differentiation,
recovery, and survival. This fusion product may
contribute to the onset of GBM.
Length = 224
Score = 24.6 bits (54), Expect = 6.1
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 37 AILGPSGAGKSSLLNVIS 54
A++G AGKS+LL V++
Sbjct: 3 AVVGNVDAGKSTLLGVLT 20
>gnl|CDD|219856 pfam08477, Miro, Miro-like protein. Mitochondrial Rho proteins
(Miro-1, and Miro-2), are atypical Rho GTPases. They
have a unique domain organisation, with tandem
GTP-binding domains and two EF hand domains
(pfam00036), that may bind calcium. They are also
larger than classical small GTPases. It has been
proposed that they are involved in mitochondrial
homeostasis and apoptosis.
Length = 116
Score = 24.3 bits (53), Expect = 6.4
Identities = 11/31 (35%), Positives = 18/31 (58%)
Query: 37 AILGPSGAGKSSLLNVISGYEKNEKEEEKKK 67
++G G+GKSSLL+ + G E + E +
Sbjct: 3 VVIGDKGSGKSSLLSQLVGGEFPPEPLEIQG 33
>gnl|CDD|206734 cd04171, SelB, SelB, the dedicated elongation factor for delivery
of selenocysteinyl-tRNA to the ribosome. SelB is an
elongation factor needed for the co-translational
incorporation of selenocysteine. Selenocysteine is
coded by a UGA stop codon in combination with a
specific downstream mRNA hairpin. In bacteria, the
C-terminal part of SelB recognizes this hairpin, while
the N-terminal part binds GTP and tRNA in analogy with
elongation factor Tu (EF-Tu). It specifically
recognizes the selenocysteine charged tRNAsec, which
has a UCA anticodon, in an EF-Tu like manner. This
allows insertion of selenocysteine at in-frame UGA stop
codons. In E. coli SelB binds GTP,
selenocysteyl-tRNAsec, and a stem-loop structure
immediately downstream of the UGA codon (the SECIS
sequence). The absence of active SelB prevents the
participation of selenocysteyl-tRNAsec in translation.
Archaeal and animal mechanisms of selenocysteine
incorporation are more complex. Although the SECIS
elements have different secondary structures and
conserved elements between archaea and eukaryotes, they
do share a common feature. Unlike in E. coli, these
SECIS elements are located in the 3' UTRs. This group
contains bacterial SelBs, as well as, one from archaea.
Length = 170
Score = 24.5 bits (54), Expect = 6.5
Identities = 12/33 (36%), Positives = 21/33 (63%), Gaps = 3/33 (9%)
Query: 38 ILGPSGA---GKSSLLNVISGYEKNEKEEEKKK 67
I+G +G GK++L+ ++G E + EEKK+
Sbjct: 1 IIGTAGHIDHGKTTLIKALTGIETDRLPEEKKR 33
>gnl|CDD|224410 COG1493, HprK, Serine kinase of the HPr protein, regulates
carbohydrate metabolism [Signal transduction
mechanisms].
Length = 308
Score = 24.5 bits (54), Expect = 6.6
Identities = 10/12 (83%), Positives = 10/12 (83%)
Query: 38 ILGPSGAGKSSL 49
I GPSGAGKS L
Sbjct: 150 ITGPSGAGKSEL 161
>gnl|CDD|217429 pfam03215, Rad17, Rad17 cell cycle checkpoint protein.
Length = 490
Score = 24.6 bits (53), Expect = 6.7
Identities = 12/35 (34%), Positives = 18/35 (51%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
LK+V + + GPSG GKS+ + V+S
Sbjct: 32 DHWLKAVFLESNKQLILLLTGPSGCGKSTTVKVLS 66
>gnl|CDD|223666 COG0593, DnaA, ATPase involved in DNA replication initiation [DNA
replication, recombination, and repair].
Length = 408
Score = 24.6 bits (54), Expect = 7.0
Identities = 10/32 (31%), Positives = 12/32 (37%), Gaps = 4/32 (12%)
Query: 38 ILGPSGAGKSSLLNVISGYEKNEKEEEKKKKK 69
I G G GK+ LL I NE +
Sbjct: 118 IYGGVGLGKTHLLQAI----GNEALANGPNAR 145
>gnl|CDD|223571 COG0497, RecN, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 557
Score = 24.5 bits (54), Expect = 7.2
Identities = 9/25 (36%), Positives = 16/25 (64%), Gaps = 1/25 (4%)
Query: 30 FRAGELSAILGPSGAGKSSLLNVIS 54
F G L+ + G +GAGKS +++ +
Sbjct: 20 FEKG-LTVLTGETGAGKSIIIDALG 43
>gnl|CDD|185603 PTZ00415, PTZ00415, transmission-blocking target antigen s230;
Provisional.
Length = 2849
Score = 24.6 bits (53), Expect = 7.2
Identities = 11/39 (28%), Positives = 21/39 (53%)
Query: 29 RFRAGELSAILGPSGAGKSSLLNVISGYEKNEKEEEKKK 67
+ AG++ IL P G +S + + + EK +++KK
Sbjct: 460 KLNAGDIGGILFPEGIKSTSCFDEMIPHNAEEKWDKEKK 498
>gnl|CDD|185352 PRK15455, PRK15455, PrkA family serine protein kinase; Provisional.
Length = 644
Score = 24.6 bits (54), Expect = 7.3
Identities = 9/12 (75%), Positives = 10/12 (83%)
Query: 38 ILGPSGAGKSSL 49
+LGP G GKSSL
Sbjct: 108 LLGPVGGGKSSL 119
>gnl|CDD|223645 COG0572, Udk, Uridine kinase [Nucleotide transport and
metabolism].
Length = 218
Score = 24.2 bits (53), Expect = 7.3
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 37 AILGPSGAGKSSLLNVIS 54
I G SG+GK+++ +S
Sbjct: 12 GIAGGSGSGKTTVAKELS 29
>gnl|CDD|172745 PRK14257, PRK14257, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 329
Score = 24.3 bits (52), Expect = 7.3
Identities = 11/31 (35%), Positives = 20/31 (64%)
Query: 20 KTILKSVSGRFRAGELSAILGPSGAGKSSLL 50
K +L ++ + +++A +GPSG GKS+ L
Sbjct: 95 KHVLHDLNLDIKRNKVTAFIGPSGCGKSTFL 125
>gnl|CDD|218482 pfam05178, Kri1, KRI1-like family. The yeast member of this
family (Kri1p) is found to be required for 40S ribosome
biogenesis in the nucleolus.
Length = 99
Score = 23.8 bits (52), Expect = 7.4
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 57 EKNEKEEEKKKKKKEKEKK 75
EK ++EEE K+ K K ++
Sbjct: 7 EKAQREEELKRLKNLKREE 25
Score = 23.8 bits (52), Expect = 8.0
Identities = 8/19 (42%), Positives = 14/19 (73%)
Query: 58 KNEKEEEKKKKKKEKEKKK 76
K KEEEK ++++E ++ K
Sbjct: 1 KERKEEEKAQREEELKRLK 19
>gnl|CDD|224401 COG1484, DnaC, DNA replication protein [DNA replication,
recombination, and repair].
Length = 254
Score = 24.3 bits (53), Expect = 7.4
Identities = 17/58 (29%), Positives = 20/58 (34%), Gaps = 5/58 (8%)
Query: 1 MSLQTHVTMVTF---FNEPSPAKTILKSVSGR--FRAGELSAILGPSGAGKSSLLNVI 53
S T F F K + S F GE +LGP G GK+ L I
Sbjct: 68 ASFPAKKTFEEFDFEFQPGIDKKALEDLASLVEFFERGENLVLLGPPGVGKTHLAIAI 125
>gnl|CDD|237498 PRK13768, PRK13768, GTPase; Provisional.
Length = 253
Score = 24.4 bits (54), Expect = 7.4
Identities = 6/12 (50%), Positives = 10/12 (83%)
Query: 38 ILGPSGAGKSSL 49
LG +G+GK++L
Sbjct: 7 FLGTAGSGKTTL 18
>gnl|CDD|213208 cd03241, ABC_RecN, ATP-binding cassette domain of RecN. RecN
ATPase involved in DNA repair; similar to 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 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 = 276
Score = 24.1 bits (53), Expect = 7.5
Identities = 12/33 (36%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 22 ILKSVSGRFRAGELSAILGPSGAGKSSLLNVIS 54
+++ + F G L+ + G +GAGKS LL+ +S
Sbjct: 11 LIEELELDFEEG-LTVLTGETGAGKSILLDALS 42
>gnl|CDD|172761 PRK14273, PRK14273, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 254
Score = 24.2 bits (52), Expect = 7.7
Identities = 9/20 (45%), Positives = 16/20 (80%)
Query: 35 LSAILGPSGAGKSSLLNVIS 54
++A++GPSG GKS+ L ++
Sbjct: 35 ITALIGPSGCGKSTFLRTLN 54
>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 = 24.0 bits (53), Expect = 7.7
Identities = 11/44 (25%), Positives = 17/44 (38%), Gaps = 6/44 (13%)
Query: 38 ILGPSGAGKSSLLN------VISGYEKNEKEEEKKKKKKEKEKK 75
++G SG GKS+ +N + E K + K K
Sbjct: 9 VVGESGLGKSTFINTLFGTKLYPSKYPPAPGEHITKTVEIKISK 52
>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 908
Score = 24.3 bits (53), Expect = 7.7
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 30 FRAGELSAILGPSGAGKSSLLNVIS 54
+ I+GP+GAGKSS+L+ I+
Sbjct: 22 LFDSGIFLIVGPNGAGKSSILDAIT 46
>gnl|CDD|177661 PLN00023, PLN00023, GTP-binding protein; Provisional.
Length = 334
Score = 24.4 bits (53), Expect = 7.8
Identities = 9/16 (56%), Positives = 14/16 (87%)
Query: 38 ILGPSGAGKSSLLNVI 53
++G SG GKSSL+++I
Sbjct: 26 VVGDSGVGKSSLVHLI 41
>gnl|CDD|227446 COG5116, RPN2, 26S proteasome regulatory complex component
[Posttranslational modification, protein turnover,
chaperones].
Length = 926
Score = 24.5 bits (53), Expect = 7.9
Identities = 5/20 (25%), Positives = 9/20 (45%)
Query: 57 EKNEKEEEKKKKKKEKEKKK 76
EK ++E K + E +
Sbjct: 803 EKGPNDKEIKIESPSVETEG 822
>gnl|CDD|133310 cd04110, Rab35, Rab GTPase family 35 (Rab35). Rab35 is one of
several Rab proteins to be found to participate in the
regulation of osteoclast cells in rats. In addition,
Rab35 has been identified as a protein that interacts
with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK)
in human cells. Overexpression of NPM-ALK is a key
oncogenic event in some anaplastic large-cell
lymphomas; since Rab35 interacts with N|PM-ALK, it may
provide a target for cancer treatments. GTPase
activating proteins (GAPs) interact with GTP-bound Rab
and accelerate the hydrolysis of GTP to GDP. Guanine
nucleotide exchange factors (GEFs) interact with
GDP-bound Rabs to promote the formation of the
GTP-bound state. Rabs are further regulated by guanine
nucleotide dissociation inhibitors (GDIs), which
facilitate Rab recycling by masking C-terminal lipid
binding and promoting cytosolic localization. Most Rab
GTPases contain a lipid modification site at the
C-terminus, with sequence motifs CC, CXC, or CCX. Lipid
binding is essential for membrane attachment, a key
feature of most Rab proteins.
Length = 199
Score = 24.0 bits (52), Expect = 7.9
Identities = 10/13 (76%), Positives = 11/13 (84%)
Query: 38 ILGPSGAGKSSLL 50
I+G SG GKSSLL
Sbjct: 11 IIGDSGVGKSSLL 23
>gnl|CDD|224617 COG1703, ArgK, Putative periplasmic protein kinase ArgK and
related GTPases of G3E family [Amino acid transport and
metabolism].
Length = 323
Score = 24.2 bits (53), Expect = 8.3
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 38 ILGPSGAGKSSLL 50
I G GAGKS+L+
Sbjct: 56 ITGVPGAGKSTLI 68
>gnl|CDD|233251 TIGR01054, rgy, reverse gyrase. This model describes reverse
gyrase, found in both archaeal and bacterial
thermophiles. This enzyme, a fusion of a type I
topoisomerase domain and a helicase domain, introduces
positive supercoiling to increase the melting
temperature of DNA double strands. Generally, these
gyrases are encoded as a single polypeptide. An
exception was found in Methanopyrus kandleri, where
enzyme is split within the topoisomerase domain,
yielding a heterodimer of gene products designated RgyB
and RgyA [DNA metabolism, DNA replication,
recombination, and repair].
Length = 1171
Score = 24.4 bits (53), Expect = 8.3
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 17 SPAKTILKSVSGRFRAGELSAILGPSGAGKSSLLNVISGY 56
S +I K + R G+ AI+ P+G GK++ +S +
Sbjct: 77 SEPWSIQKMWAKRVLRGDSFAIIAPTGVGKTTFGLAMSLF 116
>gnl|CDD|224035 COG1110, COG1110, Reverse gyrase [DNA replication, recombination,
and repair].
Length = 1187
Score = 24.3 bits (53), Expect = 8.4
Identities = 10/28 (35%), Positives = 17/28 (60%)
Query: 29 RFRAGELSAILGPSGAGKSSLLNVISGY 56
R G+ AI+ P+G GK++ ++S Y
Sbjct: 93 RLVRGKSFAIIAPTGVGKTTFGLLMSLY 120
>gnl|CDD|184203 PRK13643, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 288
Score = 24.3 bits (52), Expect = 8.6
Identities = 10/25 (40%), Positives = 19/25 (76%)
Query: 31 RAGELSAILGPSGAGKSSLLNVISG 55
+ G +A++G +G+GKS+LL ++G
Sbjct: 30 KKGSYTALIGHTGSGKSTLLQHLNG 54
>gnl|CDD|206656 cd01863, Rab18, Rab GTPase family 18 (Rab18). Rab18 subfamily.
Mammalian Rab18 is implicated in endocytic transport
and is expressed most highly in polarized epithelial
cells. However, trypanosomal Rab, TbRAB18, is
upregulated in the BSF (Blood Stream Form) stage and
localized predominantly to elements of the Golgi
complex. In human and mouse cells, Rab18 has been
identified in lipid droplets, organelles that store
neutral lipids. GTPase activating proteins (GAPs)
interact with GTP-bound Rab and accelerate the
hydrolysis of GTP to GDP. Guanine nucleotide exchange
factors (GEFs) interact with GDP-bound Rabs to promote
the formation of the GTP-bound state. Rabs are further
regulated by guanine nucleotide dissociation inhibitors
(GDIs), which facilitate Rab recycling by masking
C-terminal lipid binding and promoting cytosolic
localization. Most Rab GTPases contain a lipid
modification site at the C-terminus, with sequence
motifs CC, CXC, or CCX. Lipid binding is essential for
membrane attachment, a key feature of most Rab
proteins. Due to the presence of truncated sequences in
this CD, the lipid modification site is not available
for annotation.
Length = 161
Score = 23.8 bits (52), Expect = 8.8
Identities = 9/13 (69%), Positives = 11/13 (84%)
Query: 38 ILGPSGAGKSSLL 50
++G SG GKSSLL
Sbjct: 5 LIGDSGVGKSSLL 17
>gnl|CDD|237358 PRK13351, PRK13351, elongation factor G; Reviewed.
Length = 687
Score = 24.1 bits (53), Expect = 8.9
Identities = 6/14 (42%), Positives = 8/14 (57%)
Query: 37 AILGPSGAGKSSLL 50
IL AGK++L
Sbjct: 12 GILAHIDAGKTTLT 25
>gnl|CDD|223603 COG0529, CysC, Adenylylsulfate kinase and related kinases
[Inorganic ion transport and metabolism].
Length = 197
Score = 24.2 bits (53), Expect = 9.1
Identities = 9/24 (37%), Positives = 15/24 (62%), Gaps = 3/24 (12%)
Query: 31 RAGELSAIL---GPSGAGKSSLLN 51
G+ A++ G SG+GKS++ N
Sbjct: 18 LKGQKGAVIWFTGLSGSGKSTIAN 41
>gnl|CDD|206689 cd04102, RabL3, Rab GTPase-like family 3 (Rab-like3). RabL3
(Rab-like3) subfamily. RabL3s are novel proteins that
have high sequence similarity with Rab family members,
but display features that are distinct from Rabs, and
have been termed Rab-like. As in other Rab-like
proteins, RabL3 lacks a prenylation site at the
C-terminus. The specific function of RabL3 remains
unknown.
Length = 204
Score = 24.1 bits (52), Expect = 9.2
Identities = 9/16 (56%), Positives = 14/16 (87%)
Query: 38 ILGPSGAGKSSLLNVI 53
+LG SG GKSSL++++
Sbjct: 5 VLGDSGVGKSSLVHLL 20
>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682). The
members of this family are all hypothetical eukaryotic
proteins of unknown function. One member is described as
being an adipocyte-specific protein, but no evidence of
this was found.
Length = 322
Score = 24.1 bits (53), Expect = 9.5
Identities = 8/20 (40%), Positives = 17/20 (85%)
Query: 57 EKNEKEEEKKKKKKEKEKKK 76
+ E++EE ++KK+EK+K++
Sbjct: 276 AEEERQEEAQEKKEEKKKEE 295
>gnl|CDD|238549 cd01129, PulE-GspE, PulE/GspE The type II secretory pathway is the
main terminal branch of the general secretory pathway
(GSP). It is responsible for the export the majority of
Gram-negative bacterial exoenzymes and toxins. PulE is a
cytoplasmic protein of the GSP, which contains an ATP
binding site and a tetracysteine motif. This subgroup
also includes PillB and HofB.
Length = 264
Score = 24.2 bits (53), Expect = 9.5
Identities = 10/24 (41%), Positives = 16/24 (66%), Gaps = 4/24 (16%)
Query: 40 GPSGAGKS----SLLNVISGYEKN 59
GP+G+GK+ S L+ ++ EKN
Sbjct: 87 GPTGSGKTTTLYSALSELNTPEKN 110
>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein
complex aNOP56 subunit; Provisional.
Length = 414
Score = 24.2 bits (53), Expect = 9.6
Identities = 9/16 (56%), Positives = 14/16 (87%)
Query: 61 KEEEKKKKKKEKEKKK 76
K EEKK +K++K+KK+
Sbjct: 386 KREEKKPQKRKKKKKR 401
>gnl|CDD|223203 COG0125, Tmk, Thymidylate kinase [Nucleotide transport and
metabolism].
Length = 208
Score = 23.8 bits (52), Expect = 9.6
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 37 AILGPSGAGKSSLLNVISGY 56
I G GAGK++ ++
Sbjct: 7 VIEGIDGAGKTTQAELLKER 26
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
0.304 0.123 0.318
Gapped
Lambda K H
0.267 0.0740 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,606,472
Number of extensions: 279524
Number of successful extensions: 2869
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2620
Number of HSP's successfully gapped: 920
Length of query: 76
Length of database: 10,937,602
Length adjustment: 46
Effective length of query: 30
Effective length of database: 8,897,318
Effective search space: 266919540
Effective search space used: 266919540
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (21.9 bits)
S2: 53 (24.2 bits)