RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6097
(167 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 = 152 bits (386), Expect = 2e-43
Identities = 70/174 (40%), Positives = 95/174 (54%), Gaps = 20/174 (11%)
Query: 1 YGKNEINVPIQNISSLFVLEALNPFYIFQVFTLCVWFAEAYYYYTGAIICMSVFGIVSSV 60
YGKNEI +P+ + L E L+PFY+FQVF++ +W + YYYY+ I+ MS I SV
Sbjct: 152 YGKNEIEIPVPSFLELLKEEVLHPFYVFQVFSVILWLLDEYYYYSLCIVFMSSTSISLSV 211
Query: 61 IQTRQKS--LHDTVNTVDKVTVKRSKGLYEEVPTTHLVPGDIIVIPK-HGCTLACDATLL 117
Q R++ L D V+ V V R+ G + + + LVPGDI+ IP+ T+ CD+ LL
Sbjct: 212 YQIRKQMQRLRDMVHKPQSVIVIRN-GKWVTIASDELVPGDIVSIPRPEEKTMPCDSVLL 270
Query: 118 QGNCIVNESMLT----------------VHGALFIMWEDVNHTLYCGTVILQAR 155
G+CIVNESMLT LF+ H L+ GT ILQ R
Sbjct: 271 SGSCIVNESMLTGESVPVLKFPIPDNGDDDEDLFLYETSKKHVLFGGTKILQIR 324
>gnl|CDD|223550 COG0474, MgtA, Cation transport ATPase [Inorganic ion transport and
metabolism].
Length = 917
Score = 64.3 bits (157), Expect = 1e-12
Identities = 32/155 (20%), Positives = 61/155 (39%), Gaps = 24/155 (15%)
Query: 16 LFVLEALNPFYIFQVFTLCVWFAEAYYYYTGAIICMSVFGIVSSVIQTRQ--KSLHDTVN 73
L ++ AL ++ V ++ ++ + + ++L +
Sbjct: 85 LLLVAALLSAFVGDWVDAGV-----DAIVILLVVVINALLGFVQEYRAEKALEALKKMSS 139
Query: 74 TVDKVTVKRSKGLYEEVPTTHLVPGDIIVIPKHGCTLACDATLLQGNC-IVNESMLT--- 129
K V R E+P + LVPGDI+++ + G + D LL+ + V+ES LT
Sbjct: 140 P--KAKVLRDGKF-VEIPASELVPGDIVLL-EAGDVVPADLRLLESSDLEVDESALTGES 195
Query: 130 ---VHGALFIMWEDV------NHTLYCGTVILQAR 155
AL + D ++ L+ GT ++ R
Sbjct: 196 LPVEKQALPLTKSDAPLGLDRDNMLFSGTTVVSGR 230
>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 = 61.2 bits (149), Expect = 1e-11
Identities = 34/132 (25%), Positives = 56/132 (42%), Gaps = 22/132 (16%)
Query: 48 IICMSVFGIVSSVIQT-----RQKSLHDTVNTVDKVTVKRSKGLYEEVPTTHLVPGDIIV 102
I+ + + ++ V Q +SL D + TV R+ +E+P LVPGD+++
Sbjct: 2 ILFLVLVFVLLVVKQKLKAEDILRSLSDRLVNTRPATVLRNGW--KEIPAKDLVPGDVVL 59
Query: 103 IPKHGCTLACDATLLQGNCIVNESMLT------VHGALFIMWEDV--------NHTLYCG 148
+ G T+ D LL G+C V+ES LT + AL ++ G
Sbjct: 60 VKS-GETVPADGVLLSGSCFVDESNLTGESNPVLKTALKETQSGTITGDLVFAGTYVFGG 118
Query: 149 TVILQARYHGDE 160
T+I+ G
Sbjct: 119 TLIVVVTPTGIL 130
>gnl|CDD|215733 pfam00122, E1-E2_ATPase, E1-E2 ATPase.
Length = 222
Score = 58.0 bits (141), Expect = 7e-11
Identities = 31/120 (25%), Positives = 51/120 (42%), Gaps = 22/120 (18%)
Query: 47 AIICMSVFGIVSSVIQTRQ-----KSLHDTVNTVDKVTVKRSKGLYEEVPTTHLVPGDII 101
I+ + + + Q + K+L + TV R EE+P LV GDI+
Sbjct: 1 IILLLVLINALLEAYQEYRARKALKALKKLLPPT-AATVIRDGKE-EEIPADELVVGDIV 58
Query: 102 VIPKHGCTLACDATLLQGNCIVNESMLTVHGALFIMWE------DVNHTLYCGTVILQAR 155
++ K G + D +++G+ V+ES LT G E T++ GTV+L
Sbjct: 59 LL-KPGDRVPADGRIIEGSLEVDESALT--G------ESLPVEKSRGDTVFAGTVVLSGE 109
>gnl|CDD|225127 COG2217, ZntA, Cation transport ATPase [Inorganic ion transport and
metabolism].
Length = 713
Score = 46.8 bits (112), Expect = 1e-06
Identities = 20/54 (37%), Positives = 30/54 (55%), Gaps = 1/54 (1%)
Query: 76 DKVTVKRSKGLYEEVPTTHLVPGDIIVIPKHGCTLACDATLLQGNCIVNESMLT 129
TV R G EEVP + GDI+++ + G + D ++ G+ V+ESMLT
Sbjct: 211 KTATVVRGDGEEEEVPVEEVQVGDIVLV-RPGERIPVDGVVVSGSSSVDESMLT 263
>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 = 45.0 bits (107), Expect = 5e-06
Identities = 21/54 (38%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 76 DKVTVKRSKGLYEEVPTTHLVPGDIIVIPKHGCTLACDATLLQGNCIVNESMLT 129
D V R G EEV L GD++V+ K G + D +L G V+ES LT
Sbjct: 55 DTARVLRG-GSLEEVAVEELKVGDVVVV-KPGERVPVDGVVLSGTSTVDESALT 106
>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 = 44.9 bits (107), Expect = 5e-06
Identities = 18/54 (33%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 76 DKVTVKRSKGLYEEVPTTHLVPGDIIVIPKHGCTLACDATLLQGNCIVNESMLT 129
V + G EEVP L GDI+++ + G + D ++ G V+ES LT
Sbjct: 55 STARVLQGDGSEEEVPVEELQVGDIVIV-RPGERIPVDGVVISGESEVDESALT 107
>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 = 38.7 bits (90), Expect = 8e-04
Identities = 33/141 (23%), Positives = 57/141 (40%), Gaps = 15/141 (10%)
Query: 1 YGKNEINVPIQNISS---LFVLEALNPFYIFQVFTLCVWFAEAYYYYTGAIICM-SVFGI 56
+G N+ + L + NPF + V + T I M G+
Sbjct: 46 FGPNQ--TVEEKKVPNLRLLIRAFNNPFIYILAMLMGVSYLTDDLEATVIIALMVLASGL 103
Query: 57 VSSVIQTRQ-------KSLHDTVNTVDKVTVKRSKGLYEEVPTTHLVPGDIIVIPKHGCT 109
+ + ++R K++ TV +V + G +EVP LVPGD+I + G
Sbjct: 104 LGFIQESRAERAAYALKNMVKNTATVLRVINENGNGSMDEVPIDALVPGDLIELAA-GDI 162
Query: 110 LACDATLLQG-NCIVNESMLT 129
+ DA ++ + +N+S LT
Sbjct: 163 IPADARVISARDLFINQSALT 183
>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 = 37.3 bits (87), Expect = 0.002
Identities = 20/54 (37%), Positives = 33/54 (61%), Gaps = 3/54 (5%)
Query: 77 KVTVKRSKGLYEEVPTTHLVPGDIIVIPKHGCTLACDATLLQGNCI-VNESMLT 129
K V R G ++E+P + LVPGD++ + K G + D L +G+ I V+++ LT
Sbjct: 93 KARVLRD-GKWQEIPASELVPGDVVRL-KIGDIVPADCRLFEGDYIQVDQAALT 144
>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 = 0.005
Identities = 30/149 (20%), Positives = 55/149 (36%), Gaps = 23/149 (15%)
Query: 1 YGKNEINVPIQNISSLFVLEALNPFYIFQVFTLC--VWFAEAYYY------------YTG 46
YGKNE+ V AL+ + ++ V G
Sbjct: 74 YGKNELPEKPPKSFLQIVWAALSD-QTLILLSVAAVVSLVLGLPEPGEGKADTETGWIEG 132
Query: 47 AIICMSVFGIVS-SVIQTRQKSLH----DTVNTVDKVTVKRSKGLYEEVPTTHLVPGDII 101
I +SV +V + + +K L + + K+ V R G +++ +V GDI+
Sbjct: 133 VAILVSVILVVLVTAVNDYKKELQFRQLNREKSAQKIAVIRG-GQEQQISIHDIVVGDIV 191
Query: 102 VIPKHGCTLACDATLLQG-NCIVNESMLT 129
+ G + D + G + ++ES +T
Sbjct: 192 SL-STGDVVPADGVFISGLSLEIDESSIT 219
>gnl|CDD|237914 PRK15122, PRK15122, magnesium-transporting ATPase; Provisional.
Length = 903
Score = 35.0 bits (81), Expect = 0.012
Identities = 33/129 (25%), Positives = 56/129 (43%), Gaps = 36/129 (27%)
Query: 1 YGKNEI---NVP---IQNISSLFVLEAL-NPF-YIFQVFTLCVWFAEAYYY--------- 43
YG NE+ P +Q +L+A NPF Y+ V +F + Y+
Sbjct: 58 YGPNEVAHEKPPHALVQ------LLQAFNNPFIYVLMVLAAISFFTD-YWLPLRRGEETD 110
Query: 44 YTGAIICMSVFGIVSSVIQTRQ-----------KSLHDTVNTVDKVTVKRSKGLYEEVPT 92
TG II +++ + S +++ Q K++ T TV + ++ + E+P
Sbjct: 111 LTGVIIILTMVLL-SGLLRFWQEFRSNKAAEALKAMVRTTATVLRRGHAGAEPVRREIPM 169
Query: 93 THLVPGDII 101
LVPGDI+
Sbjct: 170 RELVPGDIV 178
>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 = 34.9 bits (81), Expect = 0.015
Identities = 17/42 (40%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 88 EEVPTTHLVPGDIIVIPKHGCTLACDATLLQGNCIVNESMLT 129
EEVP L PGDI+ + G + D T+++G V+ES++T
Sbjct: 103 EEVPVELLQPGDIVRV-LPGEKIPVDGTVIEGESEVDESLVT 143
>gnl|CDD|225126 COG2216, KdpB, High-affinity K+ transport system, ATPase chain B
[Inorganic ion transport and metabolism].
Length = 681
Score = 34.5 bits (80), Expect = 0.019
Identities = 17/48 (35%), Positives = 28/48 (58%), Gaps = 1/48 (2%)
Query: 82 RSKGLYEEVPTTHLVPGDIIVIPKHGCTLACDATLLQGNCIVNESMLT 129
R+ G E VP T L GDI+++ + G + D +++G V+ES +T
Sbjct: 110 RADGSIEMVPATELKKGDIVLV-EAGEIIPSDGEVIEGVASVDESAIT 156
>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 = 34.1 bits (78), Expect = 0.024
Identities = 21/74 (28%), Positives = 39/74 (52%), Gaps = 4/74 (5%)
Query: 59 SVIQTRQKSLHDTVNTVDKVTVKR---SKGLYEEVPTTHLVPGDIIVIPKHGCTLACDAT 115
+V + R K+ D++ K T + G ++VP L GDI+++ + G + CD
Sbjct: 85 AVAEGRGKAQADSLKGTKKTTFAKLLRDDGAIDKVPADQLKKGDIVLV-EAGDVIPCDGE 143
Query: 116 LLQGNCIVNESMLT 129
+++G V+ES +T
Sbjct: 144 VIEGVASVDESAIT 157
>gnl|CDD|234905 PRK01122, PRK01122, potassium-transporting ATPase subunit B;
Provisional.
Length = 679
Score = 34.0 bits (79), Expect = 0.031
Identities = 18/48 (37%), Positives = 28/48 (58%), Gaps = 1/48 (2%)
Query: 82 RSKGLYEEVPTTHLVPGDIIVIPKHGCTLACDATLLQGNCIVNESMLT 129
R G EEVP T L GDI+++ + G + D +++G V+ES +T
Sbjct: 110 REPGAAEEVPATELRKGDIVLV-EAGEIIPADGEVIEGVASVDESAIT 156
>gnl|CDD|236827 PRK11033, zntA, zinc/cadmium/mercury/lead-transporting ATPase;
Provisional.
Length = 741
Score = 33.8 bits (78), Expect = 0.035
Identities = 19/46 (41%), Positives = 21/46 (45%), Gaps = 3/46 (6%)
Query: 85 GLYEEVPTTHLVPGDII-VIPKHGCTLACDATLLQGNCIVNESMLT 129
G EEV L PGD+I V G L D LL +ES LT
Sbjct: 251 GEREEVAIADLRPGDVIEVAA--GGRLPADGKLLSPFASFDESALT 294
>gnl|CDD|236705 PRK10517, PRK10517, magnesium-transporting ATPase MgtA;
Provisional.
Length = 902
Score = 31.2 bits (71), Expect = 0.27
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 74 TVDKVTVKRSKGLYEEVPTTHLVPGDIIVI 103
TV +V + + + E+P LVPGDII +
Sbjct: 162 TVLRVINDKGENGWLEIPIDQLVPGDIIKL 191
>gnl|CDD|239042 cd02127, PA_hPAP21_like, PA_hPAP21_like: Protease-associated domain
containing proteins like the human secreted glycoprotein
hPAP21 (human protease-associated domain-containing
protein, 21kDa). This group contains various PA
domain-containing proteins similar to hPAP21. Complex
N-glycosylation may be required for the secretion of
hPAP21. The significance of the PA domain to hPAP21 has
not been ascertained. It may be a protein-protein
interaction domain. At peptidase active sites, the PA
domain may participate in substrate binding and/or
promoting conformational changes, which influence the
stability and accessibility of the site to substrate.
Length = 118
Score = 29.3 bits (66), Expect = 0.40
Identities = 18/60 (30%), Positives = 23/60 (38%), Gaps = 14/60 (23%)
Query: 93 THLVPGDIIVIPKHGCTLACDATLLQGNCIVNE----SMLT------VHGALFIMWEDVN 142
LVP D P C + + GN + E S LT GAL ++ DVN
Sbjct: 13 VPLVPAD----PLEACEELRNIHDINGNIALIERGGCSFLTKAINAQKAGALAVIITDVN 68
>gnl|CDD|233397 TIGR01405, polC_Gram_pos, DNA polymerase III, alpha chain,
Gram-positive type. This model describes a polypeptide
chain of DNA polymerase III. Full-length homologs of
this protein are restricted to the Gram-positive
lineages, including the Mycoplasmas. This protein is
designated alpha chain and given the gene symbol polC,
but is not a full-length homolog of other polC genes.
The N-terminal region of about 200 amino acids is rich
in low-complexity sequence, poorly alignable, and not
included n this model [DNA metabolism, DNA replication,
recombination, and repair].
Length = 1213
Score = 30.0 bits (68), Expect = 0.61
Identities = 17/78 (21%), Positives = 33/78 (42%), Gaps = 19/78 (24%)
Query: 37 FAEAYYYYTGAIICM---SVFGIVSSVIQTRQKSLHDTVNTVDKVT-----VKRSKGLYE 88
F E + + G I + + +G V + + H ++++ VKR+ G +
Sbjct: 761 FGEDHTFRAGTIGTVAEKTAYGYVKKYFED--QGKHYRDAEIERLVQGCTGVKRTTGQH- 817
Query: 89 EVPTTHLVPGDIIVIPKH 106
PG II++PK+
Sbjct: 818 --------PGGIIIVPKY 827
>gnl|CDD|184523 PRK14125, PRK14125, cell division suppressor protein YneA;
Provisional.
Length = 103
Score = 27.7 bits (62), Expect = 1.5
Identities = 7/16 (43%), Positives = 10/16 (62%)
Query: 91 PTTHLVPGDIIVIPKH 106
P+ H+ GD +VIP
Sbjct: 76 PSGHIKAGDKLVIPVL 91
>gnl|CDD|225535 COG2988, COG2988, Succinylglutamate desuccinylase [Amino acid
transport and metabolism].
Length = 324
Score = 27.8 bits (62), Expect = 3.0
Identities = 11/37 (29%), Positives = 17/37 (45%), Gaps = 4/37 (10%)
Query: 131 HGALFIMWEDVNHTLYCGTVILQARYHGDEYLPWELV 167
G L E G++++ A HG+E P EL+
Sbjct: 31 EGVL----ELTPLAPRDGSLVISAGIHGNETAPVELL 63
>gnl|CDD|184448 PRK14010, PRK14010, potassium-transporting ATPase subunit B;
Provisional.
Length = 673
Score = 27.7 bits (61), Expect = 3.6
Identities = 28/128 (21%), Positives = 51/128 (39%), Gaps = 23/128 (17%)
Query: 15 SLFVLEALNPFYIFQVFTLCVW------FAEAYYYYTGAIICMSVFGIVSSVIQTRQKSL 68
LF E+++ Y+F +F + + F+EA G + + +L
Sbjct: 53 DLFHQESVSRLYVFSIFIILLLTLVFANFSEALAEGRG---------------KAQANAL 97
Query: 69 HDTVNTVDKVTVKRSKGLYEEVPTTHLVPGDIIVIPKHGCTLACDATLLQGNCIVNESML 128
T + +K G YE + + L G I+ + G + D +++G V+ES +
Sbjct: 98 RQTQTEMKARRIK-QDGSYEMIDASDLKKGHIVRV-ATGEQIPNDGKVIKGLATVDESAI 155
Query: 129 TVHGALFI 136
T A I
Sbjct: 156 TGESAPVI 163
>gnl|CDD|111047 pfam02108, FliH, Flagellar assembly protein FliH.
Length = 128
Score = 26.4 bits (59), Expect = 4.9
Identities = 10/44 (22%), Positives = 15/44 (34%), Gaps = 8/44 (18%)
Query: 88 EEVPTTHLVPGDI--------IVIPKHGCTLACDATLLQGNCIV 123
T L P D+ + G L D +L +G C +
Sbjct: 67 SGKVTLRLNPDDLALVEEHLGDELKARGWRLVADPSLSRGGCRI 110
>gnl|CDD|240660 cd12184, HGDH_like, (R)-2-Hydroxyglutarate Dehydrogenase and
related dehydrogenases, NAD-binding and catalytic
domains. (R)-2-hydroxyglutarate dehydrogenase (HGDH)
catalyzes the NAD-dependent reduction of 2-oxoglutarate
to (R)-2-hydroxyglutarate. HGDH is a member of the
D-2-hydroxyacid NAD(+)-dependent dehydrogenase family;
these proteins typically have a characteristic
arrangement of 2 similar subdomains of the alpha/beta
Rossmann fold NAD+ binding form. The NAD+ binding domain
is inserted within the linear sequence of the mostly
N-terminal catalytic domain, which has a similar domain
structure to the internal NAD binding domain.
Structurally, these domains are connected by extended
alpha helices and create a cleft in which NAD is bound,
primarily to the C-terminal portion of the 2nd
(internal) domain.
Length = 330
Score = 26.9 bits (60), Expect = 5.0
Identities = 6/17 (35%), Positives = 11/17 (64%)
Query: 112 CDATLLQGNCIVNESML 128
DA +++GNC ++ L
Sbjct: 45 HDAVIVRGNCFADKENL 61
>gnl|CDD|220785 pfam10498, IFT57, Intra-flagellar transport protein 57.
Eukaryotic cilia and flagella are specialised
organelles found at the periphery of cells of diverse
organisms. Intra-flagellar transport (IFT) is required
for the assembly and maintenance of eukaryotic cilia
and flagella, and consists of the bidirectional
movement of large protein particles between the base
and the distal tip of the organelle. IFT particles
contain multiple copies of two distinct protein
complexes, A and B, which contain at least 6 and 11
protein subunits. IFT57 is part of complex B but is
not, however, required for the core subunits to stay
associated. This protein is known as
Huntington-interacting protein-1 in humans.
Length = 355
Score = 27.0 bits (60), Expect = 5.6
Identities = 11/21 (52%), Positives = 12/21 (57%), Gaps = 1/21 (4%)
Query: 17 FVLEALNPFYIFQVFT-LCVW 36
F LE+ NP F FT LC W
Sbjct: 31 FALESTNPGEQFYYFTSLCAW 51
>gnl|CDD|226593 COG4108, PrfC, Peptide chain release factor RF-3 [Translation,
ribosomal structure and biogenesis].
Length = 528
Score = 26.8 bits (60), Expect = 7.3
Identities = 9/32 (28%), Positives = 14/32 (43%), Gaps = 1/32 (3%)
Query: 96 VPGDIIVIPKHGCTLACDATLLQGNCIVNESM 127
GDII + HG T+ T +G + +
Sbjct: 359 YAGDIIGLHNHG-TIQIGDTFTEGEKLKFTGI 389
>gnl|CDD|100024 cd06060, misato, Human Misato shows similarity with Tubulin/FtsZ
family of GTPases and is localized to the the outer
membrane of mitochondria. It has a role in mitochondrial
fusion and in mitochondrial distribution and morphology.
Mutations in its Drosophila homolog (misato) lead to
irregular chromosome segregation during mitosis.
Deletion of the budding yeast homolog DML1 is lethal and
unregulate expression of DML1 leads to mitochondrial
dispersion and abnormalities in cell morphology. The
Misato/DML1 protein family is conserved from yeast to
human, but its exact function is still unknown.
Length = 493
Score = 26.6 bits (59), Expect = 7.4
Identities = 12/48 (25%), Positives = 19/48 (39%)
Query: 84 KGLYEEVPTTHLVPGDIIVIPKHGCTLACDATLLQGNCIVNESMLTVH 131
+G+ EE L+ GD P + C+ + L C SM +
Sbjct: 344 RGIPEERLKRRLLAGDQARSPAYACSSVEEMLQLYLQCQYPGSMSALS 391
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
0.325 0.140 0.443
Gapped
Lambda K H
0.267 0.0688 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,383,911
Number of extensions: 731755
Number of successful extensions: 876
Number of sequences better than 10.0: 1
Number of HSP's gapped: 864
Number of HSP's successfully gapped: 47
Length of query: 167
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 77
Effective length of database: 6,945,742
Effective search space: 534822134
Effective search space used: 534822134
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (25.0 bits)