RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1020
(132 letters)
>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 = 183 bits (466), Expect = 6e-55
Identities = 77/129 (59%), Positives = 85/129 (65%), Gaps = 25/129 (19%)
Query: 1 YLISSNIGEVVSIFLTAALGLPEALIPVQLLWVNLVTDGLPATALGFNPPDLDIMDKPPR 60
Y+ISSNIGEVV IFLTAALG+PE LIPVQLLWVNLVTDGLPATALGFNPPD DIM KPPR
Sbjct: 698 YMISSNIGEVVCIFLTAALGIPEGLIPVQLLWVNLVTDGLPATALGFNPPDKDIMWKPPR 757
Query: 61 KADEGLISGWLFFRYLAIGGYVGAATADEGLISGWLFFRYLAIGGYVGAATVGAAAWWFL 120
+ DE LI+GWLFFRYL +G YVG ATVG WW+L
Sbjct: 758 R-------------------------PDEPLITGWLFFRYLVVGVYVGLATVGGFVWWYL 792
Query: 121 YSPYGPQMT 129
+ +
Sbjct: 793 LTHFTGCDE 801
>gnl|CDD|223550 COG0474, MgtA, Cation transport ATPase [Inorganic ion transport and
metabolism].
Length = 917
Score = 95.9 bits (239), Expect = 4e-24
Identities = 43/126 (34%), Positives = 68/126 (53%), Gaps = 8/126 (6%)
Query: 1 YLISSNIGEVVSIFLTAALGLPEA-LIPVQLLWVNLVTDGLPATALGFNPPDLDIMDKPP 59
YL+S N+GEV+++ + + L L P+QLLW+NL+TD LPA ALG P+ D+M +PP
Sbjct: 707 YLLSKNVGEVLTLLIYSLFNLFFLPLTPLQLLWINLLTDSLPALALGVEDPESDVMKRPP 766
Query: 60 RKADEGLISGWLFFRYLAIGGYVGAATADEGLISGWLFFRYLAIGGYVGAATVGAAA--- 116
R +EGL + +F+R++ I G + A I +L + I +G A
Sbjct: 767 RGPEEGLFNRKIFWRFILIIGLLSAILF----ILTFLLYLLGFIANTLGLDLFQALLQTT 822
Query: 117 WWFLYS 122
+ +
Sbjct: 823 AFTVLV 828
>gnl|CDD|216063 pfam00689, Cation_ATPase_C, Cation transporting ATPase, C-terminus.
Members of this families are involved in Na+/K+, H+/K+,
Ca++ and Mg++ transport. This family represents 5
transmembrane helices.
Length = 175
Score = 76.9 bits (190), Expect = 9e-19
Identities = 40/99 (40%), Positives = 52/99 (52%), Gaps = 9/99 (9%)
Query: 22 PEALIPVQLLWVNLVTDGLPATALGFNPPDLDIMDKPPRKADEGLISGWLFFRYLAIGGY 81
P L P+Q+LW+NLVTDGLPA ALGF PP+ D+M +PPRK E L S L R L G
Sbjct: 1 PLPLTPIQILWINLVTDGLPALALGFEPPEPDLMKRPPRKPKEPLFSRKLLRRILLQGLL 60
Query: 82 VGAATADEGLISGWLFFRYLAIGGYVGAATVGAAAWWFL 120
+ T L +L + G+ + + A F
Sbjct: 61 IAIVT---------LLVFFLGLLGFGISESGLAQTMAFN 90
>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 = 65.2 bits (159), Expect = 2e-13
Identities = 26/74 (35%), Positives = 45/74 (60%)
Query: 3 ISSNIGEVVSIFLTAALGLPEALIPVQLLWVNLVTDGLPATALGFNPPDLDIMDKPPRKA 62
+S+++ + I L +G P L +Q+LW+N++ DG PA +LG P D D+M KPPR
Sbjct: 688 LSTSVAALSLIALATLMGFPNPLNAMQILWINILMDGPPAQSLGVEPVDKDVMRKPPRPR 747
Query: 63 DEGLISGWLFFRYL 76
++ +++ L + L
Sbjct: 748 NDKILTKDLIKKIL 761
>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 = 55.9 bits (135), Expect = 3e-10
Identities = 27/76 (35%), Positives = 39/76 (51%)
Query: 6 NIGEVVSIFLTAALGLPEALIPVQLLWVNLVTDGLPATALGFNPPDLDIMDKPPRKADEG 65
N+ V+ F+ + + L VQLLWVNL+ D L A AL PP ++D+ P +
Sbjct: 745 NVVAVILTFVGSCISSTSPLTAVQLLWVNLIMDTLAALALATEPPTEALLDRKPIGRNAP 804
Query: 66 LISGWLFFRYLAIGGY 81
LIS ++ L GY
Sbjct: 805 LISRSMWKNILGQAGY 820
>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 = 49.0 bits (117), Expect = 9e-08
Identities = 41/144 (28%), Positives = 62/144 (43%), Gaps = 23/144 (15%)
Query: 1 YLISSNIGEVVSIFLTAALGLPEALIPVQLLWVNLVTDGLPATALGFNPPDLDIMDKPPR 60
Y ++SNI E+ + +P L + +L ++L TD +PA +L + + DIM + PR
Sbjct: 752 YTLTSNIPEITPFLIFIIANIPLPLGTITILCIDLGTDMVPAISLAYEKAESDIMKRQPR 811
Query: 61 K------ADEGLISGWLFFRYLAIGGYVGAATADEGLISGWLFFRYLAIGGYVGAATVGA 114
+E LIS Y G +G A G + +F LA G++ VG
Sbjct: 812 NPKTDKLVNERLIS----MAY----GQIGMIQALGGFFT---YFVILAENGFLPLHLVGL 860
Query: 115 AAWWF------LYSPYGPQMTYWQ 132
W L YG + TY Q
Sbjct: 861 RVQWDDRWINDLEDSYGQEWTYEQ 884
>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 = 47.3 bits (112), Expect = 3e-07
Identities = 25/93 (26%), Positives = 41/93 (44%), Gaps = 9/93 (9%)
Query: 1 YLISSNIGEVVSIFLTAALGLPE-------ALIPVQLLWVNLVTDGLPATALGFNPPDLD 53
+L++ N+ E I L L + L PV++LW ++T PA LG D
Sbjct: 814 HLLAENVAEA--ILLIIGLAFRDENGKSVFPLSPVEILWCIMITSCFPAMGLGLEKAAPD 871
Query: 54 IMDKPPRKADEGLISGWLFFRYLAIGGYVGAAT 86
+MD+ P + G+ L A G ++G +
Sbjct: 872 LMDRLPHDNEVGIFQKELIIDMFAYGFFLGGSC 904
>gnl|CDD|240381 PTZ00364, PTZ00364, dipeptidyl-peptidase I precursor; Provisional.
Length = 548
Score = 28.3 bits (63), Expect = 1.3
Identities = 16/61 (26%), Positives = 26/61 (42%), Gaps = 6/61 (9%)
Query: 70 WLFFRYLAIGGYVGAATADEGLISGWLFFRYLAIGGYVGAATVGAAAWWFLYSPYGPQMT 129
+ F Y +GGY GA T + +I W +R+ G V A+ + W+ +
Sbjct: 325 YYFTNYGPLGGYYGAVTDPDEII--WEIYRH----GPVPASVYANSDWYNCDENSTEDVR 378
Query: 130 Y 130
Y
Sbjct: 379 Y 379
>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 = 28.1 bits (63), Expect = 1.5
Identities = 8/45 (17%), Positives = 14/45 (31%), Gaps = 14/45 (31%)
Query: 1 YLISSNIGEVVSIFLTAALGLPEALIPVQLLWVNLVTDGLPATAL 45
+ I+ N+ + L + L+ L A AL
Sbjct: 513 WAIAYNLILIPLALLLIV--------------IILLLPMLAALAL 543
>gnl|CDD|224674 COG1760, SdaA, L-serine deaminase [Amino acid transport and
metabolism].
Length = 262
Score = 27.2 bits (61), Expect = 2.3
Identities = 24/78 (30%), Positives = 32/78 (41%), Gaps = 16/78 (20%)
Query: 42 ATALGFNPPDLDIMDKPPRKADEGLISGWLFFRYLAIGGYVGAATADEGLISGWLFFRYL 101
A ALG P L I + A++G+ +L G +GA + ISG
Sbjct: 101 AGALGIIPAVLRIKESFEIAAEKGIK------IFLLTAGAIGALHPNNASISG------- 147
Query: 102 AIGGY---VGAATVGAAA 116
A GG VG+A AA
Sbjct: 148 AEGGCQGEVGSAIGMGAA 165
>gnl|CDD|222101 pfam13397, DUF4109, Domain of unknown function (DUF4109). This
is a family of bacterial proteins with several highly
conserved characteristic sequence motifs, such as: APR,
WxC and ERR. The function is not known.
Length = 105
Score = 26.4 bits (59), Expect = 2.6
Identities = 14/38 (36%), Positives = 16/38 (42%), Gaps = 3/38 (7%)
Query: 23 EALIPVQLLWVNLVTDGLPATALGFNPPDLDIMDKPPR 60
+A IP W GLPA NPP+ KP R
Sbjct: 44 DAEIPAV--WECPRC-GLPAGLDDGNPPEPKKPVKPYR 78
>gnl|CDD|147988 pfam06120, Phage_HK97_TLTM, Tail length tape measure protein. This
family consists of the tail length tape measure protein
from bacteriophage HK97 and related sequences from
Escherichia coli O157:H7.
Length = 311
Score = 27.5 bits (60), Expect = 2.6
Identities = 16/38 (42%), Positives = 20/38 (52%)
Query: 84 AATADEGLISGWLFFRYLAIGGYVGAATVGAAAWWFLY 121
+ATA GL+ G IGG G +GA AW+ LY
Sbjct: 6 SATAVGGLLKGGAMGLLSLIGGLPGILMLGAGAWYALY 43
>gnl|CDD|176642 cd00457, PEBP, PhosphatidylEthanolamine-Binding Protein (PEBP)
domain. PhosphatidylEthanolamine-Binding Proteins
(PEBPs) are represented in all three major phylogenetic
divisions (eukaryotes, bacteria, archaea). A number of
biological roles for members of the PEBP family include
serine protease inhibition, membrane biogenesis,
regulation of flowering plant stem architecture, and
Raf-1 kinase inhibition. Although their overall
structures are similar, the members of the PEBP family
bind very different substrates including phospholipids,
opioids, and hydrophobic odorant molecules as well as
having different oligomerization states
(monomer/dimer/tetramer).
Length = 159
Score = 26.2 bits (58), Expect = 4.4
Identities = 11/54 (20%), Positives = 20/54 (37%), Gaps = 4/54 (7%)
Query: 32 WVNLVTDGLPATALGFNPPDLDIMDKPPRKADEGLISGWLFFRYLAIGGYVGAA 85
V+ + G+PA + D + D GL G+ + + Y+G
Sbjct: 56 IVHGLVYGIPANKTSLSNDDFVVTDNGKG----GLQGGFKYGKNRGGTVYIGPR 105
>gnl|CDD|235449 PRK05415, PRK05415, hypothetical protein; Provisional.
Length = 341
Score = 26.0 bits (58), Expect = 6.0
Identities = 12/63 (19%), Positives = 18/63 (28%), Gaps = 9/63 (14%)
Query: 68 SGWLFFRYLAIGGYVGAATA--DEGLI-----SGWLFFRYLAIGGYVGAATVGAAA--WW 118
S W + +G + L S WL +G + A +G W
Sbjct: 64 SLWRKLLWGGLGLLGSLVVGQAVQWLRDAFQRSDWLGLGAAVVGALIVLAGLGIVVREWR 123
Query: 119 FLY 121
L
Sbjct: 124 RLR 126
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.324 0.144 0.474
Gapped
Lambda K H
0.267 0.0748 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,340,886
Number of extensions: 709377
Number of successful extensions: 826
Number of sequences better than 10.0: 1
Number of HSP's gapped: 817
Number of HSP's successfully gapped: 83
Length of query: 132
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 46
Effective length of database: 7,123,158
Effective search space: 327665268
Effective search space used: 327665268
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (24.2 bits)