RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2751
(102 letters)
>gnl|CDD|130176 TIGR01106, ATPase-IIC_X-K, sodium or proton efflux -- potassium
uptake antiporter, P-type ATPase, alpha subunit. This
model describes the P-type ATPases responsible for the
exchange of either protons or sodium ions for potassium
ions across the plasma membranes of eukaryotes. Unlike
most other P-type ATPases, members of this subfamily
require a beta subunit for activity. This model
encompasses eukaryotes and consists of two functional
types, a Na/K antiporter found widely distributed in
eukaryotes and a H/K antiporter found only in
vertebrates. The Na+ or H+/K+ antiporter P-type ATPases
have been characterized as Type IIC based on a published
phylogenetic analysis. Sequences from Blastocladiella
emersonii (GP|6636502, GP|6636502 and PIR|T43025), C.
elegans (GP|2315419, GP|6671808 and PIR|T31763) and
Drosophila melanogaster (GP|7291424) score below trusted
cutoff, apparently due to long branch length (excessive
divergence from the last common ancestor) as evidenced
by a phylogenetic tree. Experimental evidence is needed
to determine whether these sequences represent ATPases
with conserved function. Aside from fragments, other
sequences between trusted and noise appear to be
bacterial ATPases of unclear lineage, but most likely
calcium pumps [Energy metabolism, ATP-proton motive
force interconversion].
Length = 997
Score = 161 bits (410), Expect = 1e-47
Identities = 58/88 (65%), Positives = 74/88 (84%)
Query: 2 EFATVIRQGEKLTVRAEDIVLGDVVDVKFGDRIPADIRIIECRGFKVDNSSLTGESEPQS 61
+ A VIR GEK+++ AE +V+GD+V+VK GDRIPAD+RII +G KVDNSSLTGESEPQ+
Sbjct: 141 QQALVIRDGEKMSINAEQVVVGDLVEVKGGDRIPADLRIISAQGCKVDNSSLTGESEPQT 200
Query: 62 RGVDFTNDNPLETKNLGFFSTNAVEGNA 89
R +FT++NPLET+N+ FFSTN VEG A
Sbjct: 201 RSPEFTHENPLETRNIAFFSTNCVEGTA 228
>gnl|CDD|223550 COG0474, MgtA, Cation transport ATPase [Inorganic ion transport and
metabolism].
Length = 917
Score = 88.9 bits (221), Expect = 4e-22
Identities = 32/92 (34%), Positives = 51/92 (55%), Gaps = 4/92 (4%)
Query: 3 FATVIRQGEKLTVRAEDIVLGDVVDVKFGDRIPADIRIIECRGFKVDNSSLTGESEPQSR 62
A V+R G+ + + A ++V GD+V ++ GD +PAD+R++E +VD S+LTGES P +
Sbjct: 141 KAKVLRDGKFVEIPASELVPGDIVLLEAGDVVPADLRLLESSDLEVDESALTGESLPVEK 200
Query: 63 GVDFTNDNP----LETKNLGFFSTNAVEGNAF 90
+ L+ N+ F T V G A
Sbjct: 201 QALPLTKSDAPLGLDRDNMLFSGTTVVSGRAK 232
>gnl|CDD|233438 TIGR01494, ATPase_P-type, ATPase, P-type (transporting), HAD
superfamily, subfamily IC. The P-type ATPases are a
large family of trans-membrane transporters acting on
charged substances. The distinguishing feature of the
family is the formation of a phosphorylated intermediate
(aspartyl-phosphate) during the course of the reaction.
Another common name for these enzymes is the E1-E2
ATPases based on the two isolable conformations: E1
(unphosphorylated) and E2 (phosphorylated). Generally,
P-type ATPases consist of only a single subunit
encompassing the ATPase and ion translocation pathway,
however, in the case of the potassium (TIGR01497) and
sodium/potassium (TIGR01106) varieties, these functions
are split between two subunits. Additional small
regulatory or stabilizing subunits may also exist in
some forms. P-type ATPases are nearly ubiquitous in life
and are found in numerous copies in higher organisms (at
least 45 in Arabidopsis thaliana, for instance ).
Phylogenetic analyses have revealed that the P-type
ATPase subfamily is divided up into groups based on
substrate specificities and this is represented in the
various subfamily and equivalog models that have been
made: IA (K+) TIGR01497, IB (heavy metals) TIGR01525,
IIA1 (SERCA-type Ca++) TIGR01116, IIA2 (PMR1-type Ca++)
TIGR01522, IIB (PMCA-type Ca++) TIGR01517, IIC (Na+/K+,
H+/K+ antiporters) TIGR01106, IID (fungal-type Na+ and
K+) TIGR01523, IIIA (H+) TIGR01647, IIIB (Mg++)
TIGR01524, IV (phospholipid, flippase) TIGR01652 and V
(unknown specificity) TIGR01657. The crystal structure
of one calcium-pumping ATPase and an analysis of the
fold of the catalytic domain of the P-type ATPases have
been published. These reveal that the catalytic core of
these enzymes is a haloacid dehalogenase(HAD)-type
aspartate-nucleophile hydrolase. The location of the
ATP-binding loop in between the first and second HAD
conserved catalytic motifs defines these enzymes as
members of subfamily I of the HAD superfamily (see also
TIGR01493, TIGR01509, TIGR01549, TIGR01544 and
TIGR01545). Based on these classifications, the P-type
ATPase _superfamily_ corresponds to the IC subfamily of
the HAD superfamily.
Length = 543
Score = 77.4 bits (191), Expect = 4e-18
Identities = 34/101 (33%), Positives = 46/101 (45%), Gaps = 2/101 (1%)
Query: 1 MEFATVIRQGEKLTVRAEDIVLGDVVDVKFGDRIPADIRIIECRGFKVDNSSLTGESEPQ 60
ATV+R G K + A+D+V GDVV VK G+ +PAD ++ F VD S+LTGES P
Sbjct: 34 TRPATVLRNGWK-EIPAKDLVPGDVVLVKSGETVPADGVLLSGSCF-VDESNLTGESNPV 91
Query: 61 SRGVDFTNDNPLETKNLGFFSTNAVEGNAFSSFVLLLANNF 101
+ + T +L F T G
Sbjct: 92 LKTALKETQSGTITGDLVFAGTYVFGGTLIVVVTPTGILTT 132
>gnl|CDD|233277 TIGR01116, ATPase-IIA1_Ca, sarco/endoplasmic reticulum
calcium-translocating P-type ATPase. This model
describes the P-type ATPase responsible for
translocating calcium ions across the endoplasmic
reticulum membrane of eukaryotes , and is of particular
importance in the sarcoplasmic reticulum of skeletal and
cardiac muscle in vertebrates. These pumps transfer Ca2+
from the cytoplasm to the lumen of the endoplasmic
reticulum. In humans and mice, at least, there are
multiple isoforms of the SERCA pump with overlapping but
not redundant functions. Defects in SERCA isoforms are
associated with diseases in humans. The calcium P-type
ATPases have been characterized as Type IIA based on a
phylogenetic analysis which distinguishes this group
from the Type IIB PMCA calcium pump modelled by
TIGR01517. A separate analysis divides Type IIA into
sub-types, SERCA and PMR1 the latter of which is
modelled by TIGR01522 [Transport and binding proteins,
Cations and iron carrying compounds].
Length = 917
Score = 76.7 bits (189), Expect = 6e-18
Identities = 34/91 (37%), Positives = 53/91 (58%), Gaps = 3/91 (3%)
Query: 2 EFATVIRQGEKLTVRAEDIVLGDVVDVKFGDRIPADIRIIECRGFKVDNSSLTGESEPQS 61
E A V+R G ++A+D+V GD+V++ GD++PADIR++ + +VD S LTGES +
Sbjct: 73 EHAKVLRDGRWSVIKAKDLVPGDIVELAVGDKVPADIRVLSLKTLRVDQSILTGESVSVN 132
Query: 62 RGVDFTNDNPL---ETKNLGFFSTNAVEGNA 89
+ + D + KN+ F T V G A
Sbjct: 133 KHTESVPDERAVNQDKKNMLFSGTLVVAGKA 163
>gnl|CDD|215733 pfam00122, E1-E2_ATPase, E1-E2 ATPase.
Length = 222
Score = 73.0 bits (180), Expect = 2e-17
Identities = 31/62 (50%), Positives = 44/62 (70%), Gaps = 1/62 (1%)
Query: 4 ATVIRQGEKLTVRAEDIVLGDVVDVKFGDRIPADIRIIECRGFKVDNSSLTGESEPQSRG 63
ATVIR G++ + A+++V+GD+V +K GDR+PAD RIIE +VD S+LTGES P +
Sbjct: 36 ATVIRDGKEEEIPADELVVGDIVLLKPGDRVPADGRIIE-GSLEVDESALTGESLPVEKS 94
Query: 64 VD 65
Sbjct: 95 RG 96
>gnl|CDD|233506 TIGR01647, ATPase-IIIA_H, plasma-membrane proton-efflux P-type
ATPase. This model describes the plasma membrane proton
efflux P-type ATPase found in plants, fungi, protozoa,
slime molds and archaea. The best studied representative
is from yeast.
Length = 754
Score = 67.4 bits (165), Expect = 1e-14
Identities = 26/62 (41%), Positives = 39/62 (62%)
Query: 4 ATVIRQGEKLTVRAEDIVLGDVVDVKFGDRIPADIRIIECRGFKVDNSSLTGESEPQSRG 63
A V+R G+ + A ++V GDVV +K GD +PAD R+ E +VD ++LTGES P ++
Sbjct: 94 ARVLRDGKWQEIPASELVPGDVVRLKIGDIVPADCRLFEGDYIQVDQAALTGESLPVTKK 153
Query: 64 VD 65
Sbjct: 154 TG 155
>gnl|CDD|130586 TIGR01523, ATPase-IID_K-Na, potassium and/or sodium efflux P-type
ATPase, fungal-type. Initially described as a calcium
efflux ATPase , more recent work has shown that the S.
pombe CTA3 gene is in fact a potassium ion efflux pump.
This model describes the clade of fungal P-type ATPases
responsible for potassium and sodium efflux. The degree
to which these pumps show preference for sodium or
potassium varies. This group of ATPases has been
classified by phylogentic analysis as type IID. The
Leishmania sequence (GP|3192903), which falls between
trusted and noise in this model, may very well turn out
to be an active potassium pump.
Length = 1053
Score = 67.0 bits (163), Expect = 2e-14
Identities = 36/91 (39%), Positives = 51/91 (56%), Gaps = 5/91 (5%)
Query: 4 ATVIRQGEKLTVRAEDIVLGDVVDVKFGDRIPADIRIIECRGFKVDNSSLTGESEPQSRG 63
A VIR G+ + + D+V GD+ +K GD IPAD+R+IE + F D + LTGES P +
Sbjct: 120 AHVIRNGKSDAIDSHDLVPGDICLLKTGDTIPADLRLIETKNFDTDEALLTGESLPVIKD 179
Query: 64 VDFT----NDNPLETK-NLGFFSTNAVEGNA 89
T D P+ + NL F S+ +G A
Sbjct: 180 AHATFGKEEDTPIGDRINLAFSSSAVTKGRA 210
>gnl|CDD|130585 TIGR01522, ATPase-IIA2_Ca, golgi membrane calcium-translocating
P-type ATPase. This model describes the P-type ATPase
responsible for translocating calcium ions across the
golgi membrane of fungi and animals , and is of
particular importance in the sarcoplasmic reticulum of
skeletal and cardiac muscle in vertebrates. The calcium
P-type ATPases have been characterized as Type IIA based
on a phylogenetic analysis which distinguishes this
group from the Type IIB PMCA calcium pump modelled by
TIGR01517. A separate analysis divides Type IIA into
sub-types, SERCA and PMR1 the former of which is
modelled by TIGR01116.
Length = 884
Score = 65.6 bits (160), Expect = 5e-14
Identities = 31/90 (34%), Positives = 46/90 (51%), Gaps = 4/90 (4%)
Query: 4 ATVIRQGEKLTVRAEDIVLGDVVDVKFGDRIPADIRIIECRGFKVDNSSLTGESEPQSRG 63
+IR+G+ V A +V GD+V + GDR+PAD+RI+E +D S+LTGE+ P S+
Sbjct: 119 CHLIREGKLEHVLASTLVPGDLVCLSVGDRVPADLRIVEAVDLSIDESNLTGETTPVSKV 178
Query: 64 VDFTNDNPL----ETKNLGFFSTNAVEGNA 89
E N+ F T G+
Sbjct: 179 TAPIPAATNGDLAERSNIAFMGTLVRCGHG 208
>gnl|CDD|236705 PRK10517, PRK10517, magnesium-transporting ATPase MgtA;
Provisional.
Length = 902
Score = 65.1 bits (159), Expect = 8e-14
Identities = 37/97 (38%), Positives = 51/97 (52%), Gaps = 13/97 (13%)
Query: 4 ATVIRQG------EKLTVRAEDIVLGDVVDVKFGDRIPADIRIIECRGFKVDNSSLTGES 57
ATV+R L + + +V GD++ + GD IPAD+RI++ R V +SLTGES
Sbjct: 161 ATVLRVINDKGENGWLEIPIDQLVPGDIIKLAAGDMIPADLRILQARDLFVAQASLTGES 220
Query: 58 EP-----QSRGVDFTNDNPLETKNLGFFSTNAVEGNA 89
P +R + + NPLE L F TN V G A
Sbjct: 221 LPVEKFATTRQPE--HSNPLECDTLCFMGTNVVSGTA 255
>gnl|CDD|130587 TIGR01524, ATPase-IIIB_Mg, magnesium-translocating P-type ATPase.
This model describes the magnesium translocating P-type
ATPase found in a limited number of bacterial species
and best described in Salmonella typhimurium, which
contains two isoforms. These transporters are active in
low external Mg2+ concentrations and pump the ion into
the cytoplasm. The magnesium ATPases have been
classified as type IIIB by a phylogenetic analysis
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 867
Score = 64.5 bits (157), Expect = 1e-13
Identities = 34/95 (35%), Positives = 51/95 (53%), Gaps = 9/95 (9%)
Query: 4 ATVIRQGEK------LTVRAEDIVLGDVVDVKFGDRIPADIRIIECRGFKVDNSSLTGES 57
ATV+R + V + +V GD++++ GD IPAD R+I R ++ S+LTGES
Sbjct: 127 ATVLRVINENGNGSMDEVPIDALVPGDLIELAAGDIIPADARVISARDLFINQSALTGES 186
Query: 58 EPQSRGV---DFTNDNPLETKNLGFFSTNAVEGNA 89
P + V + LE +NL F TN + G+A
Sbjct: 187 LPVEKFVEDKRARDPEILERENLCFMGTNVLSGHA 221
>gnl|CDD|237914 PRK15122, PRK15122, magnesium-transporting ATPase; Provisional.
Length = 903
Score = 60.0 bits (146), Expect = 5e-12
Identities = 31/105 (29%), Positives = 49/105 (46%), Gaps = 19/105 (18%)
Query: 4 ATVIR------QGEKLTVRAEDIVLGDVVDVKFGDRIPADIRIIECRGFKVDNSSLTGES 57
ATV+R + + + ++V GD+V + GD IPAD+R+IE R + + LTGE+
Sbjct: 150 ATVLRRGHAGAEPVRREIPMRELVPGDIVHLSAGDMIPADVRLIESRDLFISQAVLTGEA 209
Query: 58 EP-------------QSRGVDFTNDNPLETKNLGFFSTNAVEGNA 89
P + + + L+ N+ F TN V G A
Sbjct: 210 LPVEKYDTLGAVAGKSADALADDEGSLLDLPNICFMGTNVVSGTA 254
>gnl|CDD|188151 TIGR01517, ATPase-IIB_Ca, plasma-membrane calcium-translocating
P-type ATPase. This model describes the P-type ATPase
responsible for translocating calcium ions across the
plasma membrane of eukaryotes , out of the cell. In some
organisms, this type of pump may also be found in
vacuolar membranes. In humans and mice, at least, there
are multiple isoforms of the PMCA pump with overlapping
but not redundant functions. Accordingly, there are no
human diseases linked to PMCA defects, although
alterations of PMCA function do elicit physiological
effects. The calcium P-type ATPases have been
characterized as Type IIB based on a phylogenetic
analysis which distinguishes this group from the Type
IIA SERCA calcium pump. A separate analysis divides Type
IIA into sub-types (SERCA and PMR1) which are modelled
by TIGR01116 and TIGR01522. This model is well separated
from those.
Length = 944
Score = 59.0 bits (143), Expect = 1e-11
Identities = 25/61 (40%), Positives = 37/61 (60%)
Query: 5 TVIRQGEKLTVRAEDIVLGDVVDVKFGDRIPADIRIIECRGFKVDNSSLTGESEPQSRGV 64
VIR G++ + DIV+GD+V + GD +PAD I ++D SS+TGES+P +G
Sbjct: 170 AVIRGGQEQQISIHDIVVGDIVSLSTGDVVPADGVFISGLSLEIDESSITGESDPIKKGP 229
Query: 65 D 65
Sbjct: 230 V 230
>gnl|CDD|225127 COG2217, ZntA, Cation transport ATPase [Inorganic ion transport and
metabolism].
Length = 713
Score = 59.1 bits (144), Expect = 1e-11
Identities = 26/65 (40%), Positives = 38/65 (58%), Gaps = 2/65 (3%)
Query: 2 EFATVIRQ-GEKLTVRAEDIVLGDVVDVKFGDRIPADIRIIECRGFKVDNSSLTGESEPQ 60
+ ATV+R GE+ V E++ +GD+V V+ G+RIP D ++ VD S LTGES P
Sbjct: 211 KTATVVRGDGEEEEVPVEEVQVGDIVLVRPGERIPVDGVVVSGSSS-VDESMLTGESLPV 269
Query: 61 SRGVD 65
+
Sbjct: 270 EKKPG 274
>gnl|CDD|233447 TIGR01525, ATPase-IB_hvy, heavy metal translocating P-type ATPase.
This model encompasses two equivalog models for the
copper and cadmium-type heavy metal transporting P-type
ATPases (TIGR01511 and TIGR01512) as well as those
species which score ambiguously between both models. For
more comments and references, see the files on TIGR01511
and 01512.
Length = 556
Score = 56.1 bits (136), Expect = 1e-10
Identities = 24/65 (36%), Positives = 36/65 (55%), Gaps = 2/65 (3%)
Query: 4 ATVIRQ-GEKLTVRAEDIVLGDVVDVKFGDRIPADIRIIECRGFKVDNSSLTGESEPQSR 62
A V++ G + V E++ +GD+V V+ G+RIP D +I VD S+LTGES P +
Sbjct: 57 ARVLQGDGSEEEVPVEELQVGDIVIVRPGERIPVDGVVISGESE-VDESALTGESMPVEK 115
Query: 63 GVDFT 67
Sbjct: 116 KEGDE 120
>gnl|CDD|211664 TIGR01512, ATPase-IB2_Cd, heavy
metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase.
This model describes the P-type ATPase primarily
responsible for translocating cadmium ions (and other
closely-related divalent heavy metals such as cobalt,
mercury, lead and zinc) across biological membranes.
These transporters are found in prokaryotes and plants.
Experimentally characterized members of the seed
alignment include: SP|P37617 from E. coli, SP|Q10866
from Mycobacterium tuberculosis and SP|Q59998 from
Synechocystis PCC6803. The cadmium P-type ATPases have
been characterized as Type IB based on a phylogenetic
analysis which combines the copper-translocating ATPases
with the cadmium-translocating species. This model and
that describing the copper-ATPases (TIGR01511) are well
separated, and thus we further type the copper-ATPases
as IB1 and the cadmium-ATPases as IB2. Several sequences
which have not been characterized experimentally fall
just below trusted cutoff for both of these models
(SP|Q9CCL1 from Mycobacterium leprae, GP|13816263 from
Sulfolobus solfataricus, OMNI|NTL01CJ01098 from
Campylobacter jejuni, OMNI|NTL01HS01687 from
Halobacterium sp., GP|6899169 from Ureaplasma
urealyticum and OMNI|HP1503 from Helicobacter pylori)
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 536
Score = 54.2 bits (131), Expect = 6e-10
Identities = 25/60 (41%), Positives = 35/60 (58%), Gaps = 1/60 (1%)
Query: 4 ATVIRQGEKLTVRAEDIVLGDVVDVKFGDRIPADIRIIECRGFKVDNSSLTGESEPQSRG 63
A V+R G V E++ +GDVV VK G+R+P D ++ VD S+LTGES P +
Sbjct: 57 ARVLRGGSLEEVAVEELKVGDVVVVKPGERVPVDGVVLSGTS-TVDESALTGESVPVEKA 115
>gnl|CDD|236827 PRK11033, zntA, zinc/cadmium/mercury/lead-transporting ATPase;
Provisional.
Length = 741
Score = 53.8 bits (130), Expect = 8e-10
Identities = 27/62 (43%), Positives = 37/62 (59%), Gaps = 3/62 (4%)
Query: 2 EFATVIRQGEKLTVRAEDIVLGDVVDVKFGDRIPADIRII-ECRGFKVDNSSLTGESEPQ 60
E AT +R GE+ V D+ GDV++V G R+PAD +++ F D S+LTGES P
Sbjct: 243 ETATRLRDGEREEVAIADLRPGDVIEVAAGGRLPADGKLLSPFASF--DESALTGESIPV 300
Query: 61 SR 62
R
Sbjct: 301 ER 302
>gnl|CDD|233445 TIGR01511, ATPase-IB1_Cu, copper-(or silver)-translocating P-type
ATPase. This model describes the P-type ATPase
primarily responsible for translocating copper ions
accross biological membranes. These transporters are
found in prokaryotes and eukaryotes. This model
encompasses those species which pump copper ions out of
cells or organelles (efflux pumps such as CopA of
Escherichia coli ) as well as those which pump the ion
into cells or organelles either for the purpose of
supporting life in extremely low-copper environments
(for example CopA of Enterococcus hirae ) or for the
specific delivery of copper to a biological complex for
which it is a necessary component (for example FixI of
Bradyrhizobium japonicum, or CtaA and PacS of
Synechocystis). The substrate specificity of these
transporters may, to a varying degree, include silver
ions (for example, CopA from Archaeoglobus fulgidus).
Copper transporters from this family are well known as
the genes which are mutated in two human disorders of
copper metabolism, Wilson's and Menkes' diseases. The
sequences contributing to the seed of this model are all
experimentally characterized. The copper P-type ATPases
have been characterized as Type IB based on a
phylogenetic analysis which combines the
copper-translocating ATPases with the
cadmium-translocating species. This model and that
describing the cadmium-ATPases (TIGR01512) are well
separated, and thus we further type the copper-ATPases
as IB1 (and the cadmium-ATPases as IB2). Several
sequences which have not been characterized
experimentally fall just below the cutoffs for both of
these models. A sequence from Enterococcus faecalis
scores very high against this model, but yet is
annotated as an "H+/K+ exchanging ATPase". BLAST of this
sequence does not hit anything else annotated in this
way. This error may come from the characterization paper
published in 1987. Accession GP|7415611 from
Saccharomyces cerevisiae appears to be mis-annotated as
a cadmium resistance protein. Accession
OMNI|NTL01HS00542 from Halobacterium which scores above
trusted for this model is annotated as
"molybdenum-binding protein" although no evidence can be
found for this classification [Cellular processes,
Detoxification, Transport and binding proteins, Cations
and iron carrying compounds].
Length = 572
Score = 52.3 bits (126), Expect = 3e-09
Identities = 25/65 (38%), Positives = 34/65 (52%), Gaps = 2/65 (3%)
Query: 4 ATVIRQ-GEKLTVRAEDIVLGDVVDVKFGDRIPADIRIIECRGFKVDNSSLTGESEPQSR 62
AT++ GE V E + GD+V V G++IP D +IE VD S +TGES P +
Sbjct: 93 ATLLTDDGEIEEVPVELLQPGDIVRVLPGEKIPVDGTVIEGESE-VDESLVTGESLPVPK 151
Query: 63 GVDFT 67
V
Sbjct: 152 KVGDP 156
>gnl|CDD|234905 PRK01122, PRK01122, potassium-transporting ATPase subunit B;
Provisional.
Length = 679
Score = 44.0 bits (105), Expect = 2e-06
Identities = 23/51 (45%), Positives = 31/51 (60%), Gaps = 3/51 (5%)
Query: 10 GEKLTVRAEDIVLGDVVDVKFGDRIPADIRIIECRGF-KVDNSSLTGESEP 59
G V A ++ GD+V V+ G+ IPAD +IE G VD S++TGES P
Sbjct: 113 GAAEEVPATELRKGDIVLVEAGEIIPADGEVIE--GVASVDESAITGESAP 161
>gnl|CDD|225126 COG2216, KdpB, High-affinity K+ transport system, ATPase chain B
[Inorganic ion transport and metabolism].
Length = 681
Score = 44.2 bits (105), Expect = 2e-06
Identities = 27/69 (39%), Positives = 40/69 (57%), Gaps = 4/69 (5%)
Query: 3 FATVIRQ-GEKLTVRAEDIVLGDVVDVKFGDRIPADIRIIECRGFKVDNSSLTGESEPQS 61
A ++R G V A ++ GD+V V+ G+ IP+D +IE VD S++TGES P
Sbjct: 105 IARLLRADGSIEMVPATELKKGDIVLVEAGEIIPSDGEVIEGVA-SVDESAITGESAPVI 163
Query: 62 R--GVDFTN 68
R G DF++
Sbjct: 164 RESGGDFSS 172
>gnl|CDD|233513 TIGR01657, P-ATPase-V, P-type ATPase of unknown pump specificity
(type V). These P-type ATPases form a distinct clade
but the substrate of their pumping activity has yet to
be determined. This clade has been designated type V in.
Length = 1054
Score = 41.6 bits (98), Expect = 1e-05
Identities = 19/60 (31%), Positives = 33/60 (55%), Gaps = 3/60 (5%)
Query: 5 TVIRQGEKLTVRAEDIVLGDVVDVKF--GDRIPADIRIIECRGFKVDNSSLTGESEPQSR 62
VIR G+ +T+ ++++V GD+V + +P D ++ V+ S LTGES P +
Sbjct: 232 IVIRNGKWVTIASDELVPGDIVSIPRPEEKTMPCDSVLLSGSCI-VNESMLTGESVPVLK 290
>gnl|CDD|130561 TIGR01497, kdpB, K+-transporting ATPase, B subunit. This model
describes the P-type ATPase subunit of the complex
responsible for translocating potassium ions across
biological membranes in microbes. In E. coli and other
species, this complex consists of the proteins KdpA,
KdpB, KdpC and KdpF. KdpB is the ATPase subunit, while
KdpA is the potassium-ion translocating subunit. The
function of KdpC is unclear, although cit has been
suggested to couple the ATPase subunit to the
ion-translocating subunit , while KdpF serves to
stabilize the complex. The potassium P-type ATPases have
been characterized as Type IA based on a phylogenetic
analysis which places this clade closest to the
heavy-metal translocating ATPases (Type IB). Others
place this clade closer to the Na+/K+ antiporter type
(Type IIC) based on physical characteristics. This model
is very clear-cut, with a strong break between trusted
hits and noise. All members of the seed alignment, from
Clostridium, Anabaena and E. coli are in the
characterized table. One sequence above trusted,
OMNI|NTL01TA01282, is apparently mis-annotated in the
primary literature, but properly annotated by TIGR
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 675
Score = 40.6 bits (95), Expect = 3e-05
Identities = 27/67 (40%), Positives = 38/67 (56%), Gaps = 4/67 (5%)
Query: 3 FATVIRQGEKL-TVRAEDIVLGDVVDVKFGDRIPADIRIIECRGFKVDNSSLTGESEPQS 61
FA ++R + V A+ + GD+V V+ GD IP D +IE VD S++TGES P
Sbjct: 106 FAKLLRDDGAIDKVPADQLKKGDIVLVEAGDVIPCDGEVIE-GVASVDESAITGESAPVI 164
Query: 62 R--GVDF 66
+ G DF
Sbjct: 165 KESGGDF 171
>gnl|CDD|184448 PRK14010, PRK14010, potassium-transporting ATPase subunit B;
Provisional.
Length = 673
Score = 36.2 bits (83), Expect = 0.001
Identities = 23/61 (37%), Positives = 34/61 (55%), Gaps = 3/61 (4%)
Query: 10 GEKLTVRAEDIVLGDVVDVKFGDRIPADIRIIECRGFKVDNSSLTGESEP--QSRGVDFT 67
G + A D+ G +V V G++IP D ++I+ VD S++TGES P + G DF
Sbjct: 113 GSYEMIDASDLKKGHIVRVATGEQIPNDGKVIKGLA-TVDESAITGESAPVIKESGGDFD 171
Query: 68 N 68
N
Sbjct: 172 N 172
>gnl|CDD|182635 PRK10671, copA, copper exporting ATPase; Provisional.
Length = 834
Score = 35.1 bits (81), Expect = 0.003
Identities = 21/59 (35%), Positives = 33/59 (55%), Gaps = 2/59 (3%)
Query: 6 VIRQGEKLTVRAEDIVLGDVVDVKFGDRIPADIRIIECRGFKVDNSSLTGESEPQSRGV 64
V +GEK +V D+ G ++ + GDR+P D I + + +D + LTGE PQ +G
Sbjct: 328 VTDEGEK-SVPLADVQPGMLLRLTTGDRVPVDGEITQGEAW-LDEAMLTGEPIPQQKGE 384
>gnl|CDD|233509 TIGR01652, ATPase-Plipid, phospholipid-translocating P-type ATPase,
flippase. This model describes the P-type ATPase
responsible for transporting phospholipids from one
leaflet of bilayer membranes to the other. These ATPases
are found only in eukaryotes.
Length = 1057
Score = 33.1 bits (76), Expect = 0.015
Identities = 23/75 (30%), Positives = 36/75 (48%), Gaps = 21/75 (28%)
Query: 4 ATVIRQGEKL-TVRAEDIVLGDVVDVKFGDRIPADIRIIECRGFKVDNSSLTGESEPQSR 62
V+ + + +D+ +GD+V VK +RIPAD+ ++ SS SEP
Sbjct: 87 TEVLEGHGQFVEIPWKDLRVGDIVKVKKDERIPADLLLL---------SS----SEPD-- 131
Query: 63 GVDFTNDNPLETKNL 77
GV + +ET NL
Sbjct: 132 GVCY-----VETANL 141
>gnl|CDD|238599 cd01194, INT_Tn554A_C, Tn544A and related transposases, DNA
breaking-rejoining enzymes, integrase/recombinases,
C-terminal catalytic domain. This CD includes various
bacterial transposases similar to TnpA from transposon
Tn554.
Length = 186
Score = 26.6 bits (59), Expect = 2.2
Identities = 10/26 (38%), Positives = 15/26 (57%), Gaps = 1/26 (3%)
Query: 5 TVIRQGEKLTVRAEDIVLGD-VVDVK 29
T +R GE L +R EDI L + + +
Sbjct: 28 TGLRIGEALGLRIEDIDLAENQIWLV 53
>gnl|CDD|217552 pfam03429, MSP1b, Major surface protein 1B. The major surface
protein (MSP1) of the cattle pathogen Anaplasma is a
heterodimer comprised of MSP1a and MSP1b. This family is
the MSP1b chain. There MSP1 proteins are putative
adhesins for bovine erythrocytes.
Length = 726
Score = 26.6 bits (58), Expect = 3.0
Identities = 11/33 (33%), Positives = 20/33 (60%)
Query: 41 IECRGFKVDNSSLTGESEPQSRGVDFTNDNPLE 73
+E G K+D++ E+ P+++GV+ N LE
Sbjct: 648 LEAAGIKLDDAQGLQEATPEAKGVEGINPEELE 680
>gnl|CDD|193557 cd05682, M20_dipept_like_5, Uncharacterized M20 Dipeptidases.
Peptidase M20 family, unknown dipeptidase-like subfamily
3 (inferred by homology to be dipeptidases). M20
dipeptidases include a large variety of bacterial
enzymes including cytosolic nonspecific dipeptidase
(CNDP), Xaa-methyl-His dipeptidase (anserinase),and
canosinase. These dipeptidases have been shown to act on
a wide range of dipeptides, but not larger peptides. For
example, anserinase mainly catalyzes the hydrolysis of
N-alpha-acetylhistidine while carnosinase degrades
beta-alanyl-L-histidine.
Length = 451
Score = 26.5 bits (59), Expect = 3.0
Identities = 16/68 (23%), Positives = 27/68 (39%), Gaps = 4/68 (5%)
Query: 6 VIRQGEKLTVRAEDIVLGDVVDVKFGDRIPADIRIIECRGFKVDNSSLTGESEPQSRGVD 65
++RQ L R ED G+++ + IPA R + + + P GV
Sbjct: 222 ILRQ---LLDRIEDPETGEILPDELHCEIPAH-RYEQAKKAAEILGEPVFDRFPFLSGVR 277
Query: 66 FTNDNPLE 73
+P+E
Sbjct: 278 PVTTDPVE 285
>gnl|CDD|224070 COG1148, HdrA, Heterodisulfide reductase, subunit A and related
polyferredoxins [Energy production and conversion].
Length = 622
Score = 25.5 bits (56), Expect = 5.5
Identities = 8/21 (38%), Positives = 14/21 (66%)
Query: 10 GEKLTVRAEDIVLGDVVDVKF 30
+KL VR ED + G+V +++
Sbjct: 445 KKKLIVRVEDTLTGEVKEIEA 465
>gnl|CDD|233311 TIGR01208, rmlA_long, glucose-1-phosphate thymidylylransferase,
long form. The family of known and putative
glucose-1-phosphate thymidyltransferase (also called
dTDP-glucose synthase) shows a deep split into a short
form (see TIGR01207) and a long form described by this
model. The homotetrameric short form is found in
numerous bacterial species that incorporate
dTDP-L-rhamnose, which it helps synthesize, into the
cell wall. It is subject to feedback inhibition. This
form, in contrast, is found in many species for which it
serves as a sugar-activating enzyme for antibiotic
biosynthesis and or other, unknown pathways, and in
which dTDP-L-rhamnose is not necessarily produced.
Alternate name: dTDP-D-glucose synthase.
Length = 353
Score = 25.4 bits (56), Expect = 5.8
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 16 RAEDIVLGDVVDVKFGDRIPADIRII 41
R D V+G V +K R P D+R+
Sbjct: 319 RIVDSVIGKKVRIKGNRRRPGDLRLT 344
>gnl|CDD|226700 COG4249, COG4249, Uncharacterized protein containing caspase domain
[General function prediction only].
Length = 380
Score = 25.5 bits (56), Expect = 6.3
Identities = 10/35 (28%), Positives = 13/35 (37%)
Query: 65 DFTNDNPLETKNLGFFSTNAVEGNAFSSFVLLLAN 99
D DNP L FFS + A L+ +
Sbjct: 125 DAARDNPPADTILFFFSGHGATPGADGRAYLIAFD 159
>gnl|CDD|107254 cd01541, PBP1_AraR, Ligand-binding domain of DNA transcription
repressor specific for arabinose (AraR) which is a
member of the LacI-GalR family of bacterial
transcription regulators. Ligand-binding domain of DNA
transcription repressor specific for arabinose (AraR)
which is a member of the LacI-GalR family of bacterial
transcription regulators. The ligand-binding domain of
AraR is structurally homologous to the periplasmic
sugar-binding domain of ABC-type transporters and both
domains contain the type I periplasmic binding
protein-like fold. The LacI-GalR family repressors are
composed of two functional domains: an N-terminal HTH
(helix-turn-helix) domain, which is responsible for the
DNA-binding specificity, and a C-terminal ligand-binding
domain, which is homologous to the type I periplasmic
binding proteins. As also observed in the periplasmic
binding proteins, the C-terminal domain of the bacterial
transcription repressor undergoes a conformational
change upon ligand binding which in turn changes the DNA
binding affinity of the repressor.
Length = 273
Score = 25.2 bits (56), Expect = 7.5
Identities = 12/31 (38%), Positives = 18/31 (58%), Gaps = 5/31 (16%)
Query: 29 KFGDRIPADIRIIECRGFKVDNSSLTGESEP 59
+ G +IP DI ++ GF D+S L+ SE
Sbjct: 204 ELGLKIPEDISVV---GF--DDSYLSVASEV 229
>gnl|CDD|119344 cd06552, ASCH_yqfb_like, ASC-1 homology domain, subfamily similar
to Escherichia coli Yqfb. The ASCH domain, a small
beta-barrel domain found in all three kingdoms of life,
resembles the RNA-binding PUA domain and may also
interact with RNA. ASCH has been proposed to function
as an RNA-binding domain during coactivation,
RNA-processing and the regulation of prokaryotic
translation.
Length = 100
Score = 24.5 bits (54), Expect = 8.5
Identities = 14/40 (35%), Positives = 20/40 (50%), Gaps = 4/40 (10%)
Query: 7 IRQGEK-LTVRAE---DIVLGDVVDVKFGDRIPADIRIIE 42
I G+K T+R + GDVV+V G+RI + I
Sbjct: 12 ILSGKKTATIRDGGESHLKPGDVVEVHTGERIFGEAEITS 51
>gnl|CDD|183092 PRK11342, mhpD, 2-keto-4-pentenoate hydratase; Provisional.
Length = 262
Score = 24.8 bits (54), Expect = 9.5
Identities = 17/40 (42%), Positives = 19/40 (47%), Gaps = 6/40 (15%)
Query: 10 GEKLTVRAEDIVL----GDVVDVKFGDRIPADIRIIECRG 45
GE L RA DI+L G +V V GDR A I I
Sbjct: 219 GEPL--RAGDIILTGALGPMVAVNAGDRFEAHIEGIGSVA 256
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
0.318 0.137 0.384
Gapped
Lambda K H
0.267 0.0785 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,095,874
Number of extensions: 419814
Number of successful extensions: 411
Number of sequences better than 10.0: 1
Number of HSP's gapped: 395
Number of HSP's successfully gapped: 45
Length of query: 102
Length of database: 10,937,602
Length adjustment: 68
Effective length of query: 34
Effective length of database: 7,921,530
Effective search space: 269332020
Effective search space used: 269332020
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (24.1 bits)