RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy410
(93 letters)
>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 = 102 bits (256), Expect = 4e-27
Identities = 30/80 (37%), Positives = 44/80 (55%)
Query: 1 MTVGRIYAQSRLQKNNIYCISPRTINVSGSINCVCFDKTGTLTEDGLDMWGVVPVHDCKF 60
+++G + +RL+K I+C SP IN +G I+ CFDKTGTLTEDGLD+ GV + +
Sbjct: 418 LSIGINNSLARLKKKGIFCTSPFRINFAGKIDVCCFDKTGTLTEDGLDLRGVQGLSGNQE 477
Query: 61 LAPVKRPSSLPPTEPLLAAM 80
+ S A+
Sbjct: 478 FLKIVTEDSSLKPSITHKAL 497
>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 = 63.5 bits (155), Expect = 2e-13
Identities = 17/54 (31%), Positives = 28/54 (51%)
Query: 1 MTVGRIYAQSRLQKNNIYCISPRTINVSGSINCVCFDKTGTLTEDGLDMWGVVP 54
+TV +RL K I + + G ++ +C DKTGTLT++ + + GV
Sbjct: 210 VTVALAVGDARLAKKGILVRNLNALEELGKVDYLCSDKTGTLTKNKMTLQGVYI 263
>gnl|CDD|223550 COG0474, MgtA, Cation transport ATPase [Inorganic ion transport and
metabolism].
Length = 917
Score = 61.2 bits (149), Expect = 2e-12
Identities = 22/79 (27%), Positives = 35/79 (44%)
Query: 1 MTVGRIYAQSRLQKNNIYCISPRTINVSGSINCVCFDKTGTLTEDGLDMWGVVPVHDCKF 60
+T+ R+ K+N S I GS++ +C DKTGTLT++ + + + K
Sbjct: 318 VTIALALGAQRMAKDNAIVRSLNAIETLGSVDVICSDKTGTLTQNKMTVKKIYINGGGKD 377
Query: 61 LAPVKRPSSLPPTEPLLAA 79
+ S LLAA
Sbjct: 378 IDDKDLKDSPALLRFLLAA 396
>gnl|CDD|225127 COG2217, ZntA, Cation transport ATPase [Inorganic ion transport and
metabolism].
Length = 713
Score = 36.4 bits (85), Expect = 8e-04
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 29 GSINCVCFDKTGTLTE 44
++ V FDKTGTLTE
Sbjct: 403 AKVDTVVFDKTGTLTE 418
>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 = 36.3 bits (84), Expect = 8e-04
Identities = 14/44 (31%), Positives = 22/44 (50%)
Query: 2 TVGRIYAQSRLQKNNIYCISPRTINVSGSINCVCFDKTGTLTED 45
T+ Y+ ++ K+N GS +C DKTGTLT++
Sbjct: 349 TIALAYSMKKMMKDNNLVRHLAACETMGSATAICSDKTGTLTQN 392
>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 = 34.1 bits (79), Expect = 0.004
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 29 GSINCVCFDKTGTLTEDGLDMWGVVPVHD 57
+ V FDKTGTLT + + P+ D
Sbjct: 244 AKVKTVVFDKTGTLTTGKPTVVDIEPLDD 272
>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 = 33.4 bits (77), Expect = 0.008
Identities = 10/15 (66%), Positives = 13/15 (86%)
Query: 30 SINCVCFDKTGTLTE 44
+I+ V FDKTGTLT+
Sbjct: 283 NIDTVVFDKTGTLTQ 297
>gnl|CDD|184448 PRK14010, PRK14010, potassium-transporting ATPase subunit B;
Provisional.
Length = 673
Score = 33.1 bits (75), Expect = 0.012
Identities = 19/60 (31%), Positives = 27/60 (45%)
Query: 6 IYAQSRLQKNNIYCISPRTINVSGSINCVCFDKTGTLTEDGLDMWGVVPVHDCKFLAPVK 65
I R+ + NI S R++ G +N + DKTGT+T +PV F VK
Sbjct: 273 IAGMDRVTQFNILAKSGRSVETCGDVNVLILDKTGTITYGNRMADAFIPVKSSSFERLVK 332
>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 = 32.7 bits (75), Expect = 0.014
Identities = 21/82 (25%), Positives = 27/82 (32%), Gaps = 16/82 (19%)
Query: 2 TVGRIYAQSRLQKNNIYCISPRTINVSGSINCVCFDKTGTLTEDGLDMWGVVPVHDCKFL 61
+ A S ++ I + I V FDKTGTLT VV V + L
Sbjct: 217 PAAYLSAISAAARHGILIKGGAALEALAKIKTVAFDKTGTLTTGRPK---VVDVVPAEVL 273
Query: 62 APVKRPSSLPPTEPLLAAMEKR 83
L AA E+
Sbjct: 274 R-------------LAAAAEQA 282
>gnl|CDD|236827 PRK11033, zntA, zinc/cadmium/mercury/lead-transporting ATPase;
Provisional.
Length = 741
Score = 32.7 bits (75), Expect = 0.016
Identities = 11/16 (68%), Positives = 12/16 (75%)
Query: 29 GSINCVCFDKTGTLTE 44
G + V FDKTGTLTE
Sbjct: 434 GRVTTVAFDKTGTLTE 449
>gnl|CDD|225126 COG2216, KdpB, High-affinity K+ transport system, ATPase chain B
[Inorganic ion transport and metabolism].
Length = 681
Score = 32.2 bits (74), Expect = 0.020
Identities = 12/39 (30%), Positives = 21/39 (53%)
Query: 5 RIYAQSRLQKNNIYCISPRTINVSGSINCVCFDKTGTLT 43
I R+ + N+ S R + +G ++ + DKTGT+T
Sbjct: 273 GIAGMDRVTQFNVIATSGRAVEAAGDVDTLLLDKTGTIT 311
>gnl|CDD|216069 pfam00702, Hydrolase, haloacid dehalogenase-like hydrolase. This
family is structurally different from the alpha/beta
hydrolase family (pfam00561). This family includes
L-2-haloacid dehalogenase, epoxide hydrolases and
phosphatases. The structure of the family consists of
two domains. One is an inserted four helix bundle,
which is the least well conserved region of the
alignment, between residues 16 and 96 of Pseudomonas
sp. (S)-2-haloacid dehalogenase 1. The rest of the fold
is composed of the core alpha/beta domain. Those
members with the characteristic DxD triad at the
N-terminus are probably phosphatidylglycerolphosphate
(PGP) phosphatases involved in cardiolipin biosynthesis
in the mitochondria.
Length = 187
Score = 31.1 bits (70), Expect = 0.040
Identities = 8/14 (57%), Positives = 9/14 (64%)
Query: 31 INCVCFDKTGTLTE 44
I V FD GTLT+
Sbjct: 1 IKAVVFDLDGTLTD 14
>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 = 31.4 bits (71), Expect = 0.041
Identities = 20/72 (27%), Positives = 30/72 (41%), Gaps = 2/72 (2%)
Query: 6 IYAQSRLQKNNIYCISPRTINVSGSINCVCFDKTGTLTEDGLDMWGVVPV--HDCKFLAP 63
I R+ N+ S R + G ++ + DKTGT+T +P D K LA
Sbjct: 274 IAGMDRVLGFNVIATSGRAVEACGDVDTLLLDKTGTITLGNRLASEFIPAQGVDEKTLAD 333
Query: 64 VKRPSSLPPTEP 75
+ +SL P
Sbjct: 334 AAQLASLADDTP 345
>gnl|CDD|181212 PRK08056, PRK08056, threonine-phosphate decarboxylase; Provisional.
Length = 356
Score = 31.2 bits (71), Expect = 0.044
Identities = 13/32 (40%), Positives = 16/32 (50%)
Query: 57 DCKFLAPVKRPSSLPPTEPLLAAMEKRCKVHK 88
DC FL P+ L P LL A+ +RCK
Sbjct: 144 DCLFLCTPNNPTGLLPERQLLQAIAERCKSLN 175
>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 = 31.0 bits (70), Expect = 0.060
Identities = 10/21 (47%), Positives = 18/21 (85%)
Query: 29 GSINCVCFDKTGTLTEDGLDM 49
G+++ +C DKTGTLT+D +++
Sbjct: 334 GAMDILCTDKTGTLTQDKIEL 354
>gnl|CDD|236705 PRK10517, PRK10517, magnesium-transporting ATPase MgtA;
Provisional.
Length = 902
Score = 30.8 bits (70), Expect = 0.070
Identities = 12/29 (41%), Positives = 19/29 (65%), Gaps = 6/29 (20%)
Query: 29 GSINCVCFDKTGTLTEDGL------DMWG 51
G+++ +C DKTGTLT+D + D+ G
Sbjct: 369 GAMDILCTDKTGTLTQDKIVLENHTDISG 397
>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 = 30.6 bits (69), Expect = 0.076
Identities = 11/15 (73%), Positives = 13/15 (86%)
Query: 29 GSINCVCFDKTGTLT 43
GS+N +C DKTGTLT
Sbjct: 322 GSVNVICSDKTGTLT 336
>gnl|CDD|237914 PRK15122, PRK15122, magnesium-transporting ATPase; Provisional.
Length = 903
Score = 30.8 bits (70), Expect = 0.079
Identities = 10/17 (58%), Positives = 15/17 (88%)
Query: 29 GSINCVCFDKTGTLTED 45
G+++ +C DKTGTLT+D
Sbjct: 367 GAMDVLCTDKTGTLTQD 383
>gnl|CDD|234905 PRK01122, PRK01122, potassium-transporting ATPase subunit B;
Provisional.
Length = 679
Score = 29.8 bits (68), Expect = 0.13
Identities = 12/38 (31%), Positives = 21/38 (55%)
Query: 6 IYAQSRLQKNNIYCISPRTINVSGSINCVCFDKTGTLT 43
I R+ + N+ S R + +G ++ + DKTGT+T
Sbjct: 273 IAGMDRVLQANVIATSGRAVEAAGDVDTLLLDKTGTIT 310
>gnl|CDD|215623 PLN03190, PLN03190, aminophospholipid translocase; Provisional.
Length = 1178
Score = 29.9 bits (67), Expect = 0.17
Identities = 16/38 (42%), Positives = 23/38 (60%), Gaps = 8/38 (21%)
Query: 23 RTINVS---GSINCVCFDKTGTLTEDGLD-----MWGV 52
R +N++ G I V DKTGTLTE+ ++ +WGV
Sbjct: 442 RALNINEDLGQIKYVFSDKTGTLTENKMEFQCASIWGV 479
>gnl|CDD|239249 cd02951, SoxW, SoxW family; SoxW is a bacterial periplasmic TRX,
containing a redox active CXXC motif, encoded by a
genetic locus (sox operon) involved in thiosulfate
oxidation. Sulfur bacteria oxidize sulfur compounds to
provide reducing equivalents for carbon dioxide fixation
during autotrophic growth and the respiratory electron
transport chain. It is unclear what the role of SoxW is,
since it has been found to be dispensable in the
oxidation of thiosulfate to sulfate. SoxW is
specifically kept in the reduced state by SoxV, which is
essential in thiosulfate oxidation.
Length = 125
Score = 28.4 bits (64), Expect = 0.26
Identities = 17/67 (25%), Positives = 22/67 (32%), Gaps = 7/67 (10%)
Query: 21 SPRTINVSGSINCVCFDKTGTLTEDGLDMWGVVPVHDCKFLAPVKR------PSSLPPTE 74
IN+ G FD ++ + V FL P P LPP E
Sbjct: 51 VVVYINIDGDKEVTDFDGEALSEKELARKYRVRFTPTVIFLDPEGGKEIARLPGYLPPDE 110
Query: 75 PLLAAME 81
LA +E
Sbjct: 111 -FLAYLE 116
>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 = 29.0 bits (65), Expect = 0.27
Identities = 14/43 (32%), Positives = 23/43 (53%), Gaps = 3/43 (6%)
Query: 11 RLQKNNIYCISPRTINVSGSINCVCFDKTGTLTEDGLD---MW 50
R+ + N + + GS + +C DKTGTLT++ + MW
Sbjct: 324 RMARKNCLVKNLEAVETLGSTSTICSDKTGTLTQNRMTVAHMW 366
>gnl|CDD|221729 pfam12710, HAD, haloacid dehalogenase-like hydrolase.
Length = 122
Score = 28.3 bits (63), Expect = 0.32
Identities = 6/16 (37%), Positives = 8/16 (50%)
Query: 34 VCFDKTGTLTEDGLDM 49
FD GTLT+ +
Sbjct: 1 AVFDLDGTLTDSDTAL 16
>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 = 28.4 bits (63), Expect = 0.55
Identities = 13/44 (29%), Positives = 23/44 (52%), Gaps = 4/44 (9%)
Query: 1 MTVGRIYAQSRLQKNNIYCISPRTINVSGSINCVCFDKTGTLTE 44
M +G + + K N+ + G++N +C DKTGT+T+
Sbjct: 333 MAMG----AANMSKRNVIVRKLDALEALGAVNDICSDKTGTITQ 372
>gnl|CDD|182635 PRK10671, copA, copper exporting ATPase; Provisional.
Length = 834
Score = 27.4 bits (61), Expect = 0.97
Identities = 12/21 (57%), Positives = 12/21 (57%), Gaps = 3/21 (14%)
Query: 36 FDKTGTLTEDGLDMWGVVPVH 56
FDKTGTLTE VV V
Sbjct: 522 FDKTGTLTE---GKPQVVAVK 539
>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 = 27.3 bits (61), Expect = 1.2
Identities = 12/31 (38%), Positives = 16/31 (51%), Gaps = 3/31 (9%)
Query: 16 NIYCISPRTINVS---GSINCVCFDKTGTLT 43
S RT N++ G + + DKTGTLT
Sbjct: 341 TDTPASVRTSNLNEELGQVEYIFSDKTGTLT 371
>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 = 26.5 bits (59), Expect = 2.0
Identities = 12/52 (23%), Positives = 20/52 (38%), Gaps = 8/52 (15%)
Query: 31 INCVCFDKTGTLT------EDGLDMWGVVPVHDCKFLAPVKRPSSLPPTEPL 76
++ +C DKTGTLT ++ L + D A S + +
Sbjct: 286 MDILCSDKTGTLTLNKLSIDEILPFFNGFDKDDVLLYA--ALASREEDQDAI 335
>gnl|CDD|233702 TIGR02061, aprA, adenosine phosphosulphate reductase, alpha
subunit. During dissimilatory sulfate reduction or
sulfur oxidation, adenylylsulfate (APS) reductase
catalyzes reversibly the two-electron reduction of APS
to sulfite and AMP. Found in several bacterial lineages
and in Archaeoglobales, APS reductase is a heterodimer
composed of an alpha subunit containing a noncovalently
bound FAD, and a beta subunit containing two [4Fe-4S]
clusters. Described by this model is the alpha subunit
of APS reductase, sharing common evolutionary origin
with fumarate reductase/succinate dehydrogenase
flavoproteins [Central intermediary metabolism, Sulfur
metabolism].
Length = 614
Score = 26.4 bits (58), Expect = 2.6
Identities = 14/35 (40%), Positives = 18/35 (51%), Gaps = 1/35 (2%)
Query: 44 EDGLDMW-GVVPVHDCKFLAPVKRPSSLPPTEPLL 77
ED LDM G + + P +R S + PTEP L
Sbjct: 335 EDFLDMTVGQANLWAATNVDPEERGSEIMPTEPYL 369
>gnl|CDD|198088 smart01020, B2-adapt-app_C, Beta2-adaptin appendage, C-terminal
sub-domain. Members of this family adopt a structure
consisting of a 5 stranded beta-sheet, flanked by one
alpha helix on the outer side, and by two alpha helices
on the inner side. This domain is required for binding
to clathrin, and its subsequent polymerisation.
Furthermore, a hydrophobic patch present in the domain
also binds to a subset of D-phi-F/W motif-containing
proteins that are bound by the alpha-adaptin appendage
domain (epsin, AP180, eps15).
Length = 111
Score = 25.3 bits (56), Expect = 3.4
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 9 QSRLQKNNIYCISPRTIN 26
+LQ NNI+ I+ R +
Sbjct: 40 IKKLQSNNIFTIAKRNVG 57
>gnl|CDD|220546 pfam10060, DUF2298, Uncharacterized membrane protein (DUF2298).
This domain, found in various hypothetical bacterial
proteins, has no known function.
Length = 413
Score = 25.5 bits (56), Expect = 5.4
Identities = 9/19 (47%), Positives = 10/19 (52%)
Query: 60 FLAPVKRPSSLPPTEPLLA 78
FL V R S PP +P A
Sbjct: 45 FLNAVIRSPSFPPQDPWFA 63
>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing
protein; Provisional.
Length = 697
Score = 24.8 bits (54), Expect = 7.5
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 66 RPSSLPPTEPLLAAMEKRCKVHKNMTL 92
R + PT + AA+ C++HKN+ L
Sbjct: 486 RRAPFKPTVNMWAALLTACRIHKNLEL 512
>gnl|CDD|217561 pfam03443, Glyco_hydro_61, Glycosyl hydrolase family 61.
Length = 234
Score = 24.6 bits (54), Expect = 8.0
Identities = 18/56 (32%), Positives = 22/56 (39%), Gaps = 10/56 (17%)
Query: 32 NCVCFDKTGT----LTEDGLD------MWGVVPVHDCKFLAPVKRPSSLPPTEPLL 77
+C DKTG + EDGLD W + V PSS+ P LL
Sbjct: 114 DCATVDKTGLVWFKIDEDGLDDGTKVPTWATDQLIANNNSWSVTIPSSIAPGNYLL 169
>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 = 24.7 bits (54), Expect = 9.7
Identities = 9/15 (60%), Positives = 10/15 (66%)
Query: 29 GSINCVCFDKTGTLT 43
G +C DKTGTLT
Sbjct: 287 GCTTVICSDKTGTLT 301
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
0.321 0.135 0.427
Gapped
Lambda K H
0.267 0.0730 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,500,965
Number of extensions: 345119
Number of successful extensions: 282
Number of sequences better than 10.0: 1
Number of HSP's gapped: 282
Number of HSP's successfully gapped: 34
Length of query: 93
Length of database: 10,937,602
Length adjustment: 60
Effective length of query: 33
Effective length of database: 8,276,362
Effective search space: 273119946
Effective search space used: 273119946
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 (21.9 bits)
S2: 53 (24.2 bits)