RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1679
(250 letters)
>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 = 117 bits (294), Expect = 7e-30
Identities = 51/162 (31%), Positives = 94/162 (58%), Gaps = 2/162 (1%)
Query: 84 NLLLAVTL--YALFCGFSAQTIFDPMYISVFNLFYTSLPILTNAVLDQDVSDTNSIRYPK 141
NL+ A+ Y+ + GFS QT+++ Y+ ++N+F+T+LP+++ V DQDVS + S+RYP+
Sbjct: 841 NLIFAIIQFWYSFYNGFSGQTLYEGWYMVLYNVFFTALPVISLGVFDQDVSASLSLRYPQ 900
Query: 142 LYTPGMHNLLFNEREFVYCSLHGFYTSAVMFFVIYGTFIHGVSSNGRTFSDYVFMATVLA 201
LY G F+ + F L G Y S V+FF +I G + + D+ + ++
Sbjct: 901 LYREGQKGQGFSTKTFWGWMLDGIYQSLVIFFFPMFAYILGDFVSSGSVDDFSSVGVIVF 960
Query: 202 FILVAVVSVQILFDTQYWTYINTLSMLVSIASYFVFTYVFST 243
LV +V+++I + W +I+ +++ SI + +F V+S+
Sbjct: 961 TALVVIVNLKIALEINRWNWISLITIWGSILVWLIFVIVYSS 1002
Score = 85.1 bits (211), Expect = 7e-19
Identities = 37/90 (41%), Positives = 54/90 (60%), Gaps = 7/90 (7%)
Query: 1 MDDLNNFASDGLRTLVLAVRDVDENFYNRWKLK--HSQIVMENEIGEAKEEKLNHLYDEL 58
+ L N+AS+GLRTL +A R++ E Y W + + + + EEKL+ + + +
Sbjct: 562 KEHLENYASEGLRTLCIAYRELSEEEYEEWNEEYNEASTALTDR-----EEKLDVVAESI 616
Query: 59 ESDLDLVGVTAIEDKLQDDVPKTIANLLLA 88
E DL L+G TAIEDKLQ+ VP+TI L A
Sbjct: 617 EKDLILLGATAIEDKLQEGVPETIELLRQA 646
>gnl|CDD|215623 PLN03190, PLN03190, aminophospholipid translocase; Provisional.
Length = 1178
Score = 60.3 bits (146), Expect = 2e-10
Identities = 41/155 (26%), Positives = 77/155 (49%), Gaps = 9/155 (5%)
Query: 83 ANLLLAVTLYALFCGFSAQTIFDPMYISVFNLFYTSLPILTNAVLDQDVSDTNSIRYPKL 142
A +L + Y LF F+ T + ++++ YT+LP + +LD+D+S ++YP+L
Sbjct: 945 AVFVLVLFWYVLFTCFTLTTAINEWSSVLYSVIYTALPTIVVGILDKDLSRRTLLKYPQL 1004
Query: 143 YTPGMHNLLFNEREFVYCSLHGFYTSAVMFFVIYGTFIHGVSS-NGRTFSDYVFMATVLA 201
Y G +N + F + + SAV+FFV F + S+ +G + D +A V+
Sbjct: 1005 YGAGQRQEAYNSKLFWLTMIDTLWQSAVVFFVPL--FAYWASTIDGSSIGDLWTLAVVI- 1061
Query: 202 FILVAVVSVQILFDTQYWTYINTLSMLVSIASYFV 236
+V++ + D W +I ++ SI + F+
Sbjct: 1062 -----LVNLHLAMDIIRWNWITHAAIWGSIVATFI 1091
Score = 56.4 bits (136), Expect = 3e-09
Identities = 29/85 (34%), Positives = 51/85 (60%), Gaps = 3/85 (3%)
Query: 4 LNNFASDGLRTLVLAVRDVDENFYNRWKLKHSQIVMENEIGEAKEEKLNHLYDELESDLD 63
L+ ++S GLRTLV+ +R+++++ + +W + IG A L + +E++L
Sbjct: 660 LHTYSSLGLRTLVVGMRELNDSEFEQWHFSF-EAASTALIGRAA--LLRKVASNVENNLT 716
Query: 64 LVGVTAIEDKLQDDVPKTIANLLLA 88
++G +AIEDKLQ VP+ I +L A
Sbjct: 717 ILGASAIEDKLQQGVPEAIESLRTA 741
>gnl|CDD|223550 COG0474, MgtA, Cation transport ATPase [Inorganic ion transport and
metabolism].
Length = 917
Score = 52.3 bits (126), Expect = 7e-08
Identities = 23/79 (29%), Positives = 34/79 (43%), Gaps = 24/79 (30%)
Query: 7 FASDGLRTLVLAVRDVDENFYNRWKLKHSQIVMENEIGEAKEEKLNHLYDELESDLDLVG 66
AS+GLR L +A + +D + DE+ESDL +G
Sbjct: 505 LASEGLRVLAVAYKKLDRAEKDD------------------------EVDEIESDLVFLG 540
Query: 67 VTAIEDKLQDDVPKTIANL 85
+T IED ++DV + I L
Sbjct: 541 LTGIEDPPREDVKEAIEEL 559
Score = 49.3 bits (118), Expect = 8e-07
Identities = 35/175 (20%), Positives = 66/175 (37%), Gaps = 20/175 (11%)
Query: 78 VPKTIANLLLAVTLYALFCGFSAQTIFDPMYISVFNLFYTSLPILTNAVLDQDVSDTNSI 137
+ K + +L + +Y+LF F P+ + NL SLP L V D +++ +
Sbjct: 709 LSKNVGEVLTLL-IYSLFNLFFL--PLTPLQLLWINLLTDSLPALALGVED---PESDVM 762
Query: 138 RYPKLYTPGMHNLLFNEREFVYCSLHGFYTSAVMFFVIYGTFIHGVSSNGRTF-SDYVFM 196
+ P G LFN + F L SA++F + + ++ G +N +
Sbjct: 763 KRPP---RGPEEGLFNRKIFWRFILIIGLLSAILFILTFLLYLLGFIANTLGLDLFQALL 819
Query: 197 ATVLAFILVAVVSVQIL----FDTQYW------TYINTLSMLVSIASYFVFTYVF 241
T +LV + + L + L++LV I + ++
Sbjct: 820 QTTAFTVLVLIQLLLTLAVRSRGRPFLSSLLFSNKYLWLALLVIIILQLLIIFLP 874
>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 = 40.0 bits (94), Expect = 8e-04
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 55 YDELESDLDLVGVTAIEDKLQDDVPKTIANL 85
ELE DL+ +G+ ED L+ D +TI L
Sbjct: 371 SKELEDDLEFLGLITFEDPLRPDAKETIEEL 401
>gnl|CDD|226164 COG3638, COG3638, ABC-type phosphate/phosphonate transport system,
ATPase component [Inorganic ion transport and
metabolism].
Length = 258
Score = 33.4 bits (77), Expect = 0.068
Identities = 20/71 (28%), Positives = 35/71 (49%), Gaps = 5/71 (7%)
Query: 1 MDDLNNFA-SDGLRTLVLAVRDVD--ENFYNR-WKLKHSQIVMENEIGEAKEEKLNHLYD 56
MD L + DG+ T+++ + VD + + +R LK +IV + E +E L+ +Y
Sbjct: 187 MDILKDINQEDGI-TVIVNLHQVDLAKKYADRIIGLKAGRIVFDGPASELTDEALDEIYG 245
Query: 57 ELESDLDLVGV 67
S+ GV
Sbjct: 246 NEISEDINRGV 256
>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 = 31.3 bits (71), Expect = 0.55
Identities = 21/82 (25%), Positives = 29/82 (35%), Gaps = 25/82 (30%)
Query: 2 DDLNNFASDGLRTLVLAVRDVDENFYNRWKLKHSQIVMENEIGEAKEEKLNHLYDELESD 61
D + ASD LRT+ LA RD + R D
Sbjct: 536 DVIEPLASDALRTICLAYRDFAPEEFPRK-------------------------DYPNKG 570
Query: 62 LDLVGVTAIEDKLQDDVPKTIA 83
L L+GV I+D L+ V + +
Sbjct: 571 LTLIGVVGIKDPLRPGVREAVQ 592
>gnl|CDD|224183 COG1263, PtsG, Phosphotransferase system IIC components,
glucose/maltose/N-acetylglucosamine-specific
[Carbohydrate transport and metabolism].
Length = 393
Score = 29.1 bits (66), Expect = 2.1
Identities = 10/74 (13%), Positives = 27/74 (36%), Gaps = 13/74 (17%)
Query: 168 SAVMFFVIYGTFIHGVSSNGRTFSDYVFMATVLAFILVAVVSVQILFDTQYWTYINTLSM 227
+ + + + S+ D+V + + +L Y+ + +
Sbjct: 312 AGLGGALAGLLGVKAGSTFSGGLIDFV-----------LIFPLPLLGGNNLLVYV--IGL 358
Query: 228 LVSIASYFVFTYVF 241
+++ YFVFT++
Sbjct: 359 VIAAVYYFVFTFLI 372
>gnl|CDD|218131 pfam04530, Viral_Beta_CD, Viral Beta C/D like family. Family of
ssRNA positive-strand viral proteins. Conserved region
found in the Beta C and Beta D transcripts.
Length = 122
Score = 27.8 bits (62), Expect = 2.4
Identities = 6/35 (17%), Positives = 11/35 (31%)
Query: 206 AVVSVQILFDTQYWTYINTLSMLVSIASYFVFTYV 240
V +F Y + ++ +L S Y
Sbjct: 39 REVLFVSVFSDNYVLIVASVLILFSFLLYIYSLGG 73
>gnl|CDD|150622 pfam09968, DUF2202, Uncharacterized protein domain (DUF2202).
This domain, found in various hypothetical archaeal
proteins, has no known function.
Length = 162
Score = 27.7 bits (62), Expect = 3.6
Identities = 21/80 (26%), Positives = 28/80 (35%), Gaps = 28/80 (35%)
Query: 20 RDVDENFYNRWKLK-----------HSQIV--------MENEI-----GEAKEEKLNHLY 55
RDV YNRW L H V +E+ I G L LY
Sbjct: 16 RDVYLTLYNRWGLPVFLNIARSEQTHMDAVKSLLDKYGLEDPILSETVGVFTNPDLQELY 75
Query: 56 DELESDLDLVGVTAIEDKLQ 75
++L G ++ED L+
Sbjct: 76 NQLVEK----GSKSLEDALK 91
>gnl|CDD|227239 COG4902, COG4902, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 189
Score = 27.9 bits (62), Expect = 3.9
Identities = 24/95 (25%), Positives = 34/95 (35%), Gaps = 30/95 (31%)
Query: 20 RDVDENFYNRWKL-----------KHSQIVM-------------ENEIGEAKEEKLNHLY 55
RDV YN+W L +H V IG +L LY
Sbjct: 65 RDVYLYLYNKWNLPIFRNIAASEQEHMDAVKSLLEKYNVQDPASTTSIGVFTNPELQELY 124
Query: 56 DEL-----ESDLDLVGVTA-IEDKLQDDVPKTIAN 84
++L S +D + V A IE+K D+ +A
Sbjct: 125 NQLVEQGSVSRVDALKVGAIIEEKDIRDLEAWLAK 159
>gnl|CDD|112398 pfam03579, SHP, Small hydrophobic protein. The small hydrophobic
integral membrane protein, SH (previously designated 1A)
is found to have a variety of glycosylated forms. This
protein is a component of the mature virion.
Length = 64
Score = 26.4 bits (58), Expect = 4.0
Identities = 8/30 (26%), Positives = 18/30 (60%)
Query: 209 SVQILFDTQYWTYINTLSMLVSIASYFVFT 238
S+ I F +++W Y + M+++I S+ +
Sbjct: 5 SITIEFTSKFWPYFTLVHMILTIISFLIII 34
>gnl|CDD|212033 cd10323, SLC-NCS1sbd, nucleobase-cation-symport-1 (NCS1)
transporters; solute-binding domain. NCS1s are
essential components of salvage pathways for nucleobases
and related metabolites; their known substrates include
allantoin, uracil, thiamine, and nicotinamide riboside.
This family includes Microbacterium liquefaciens Mhp1, a
transporter that mediates the uptake of indolyl methyl-
and benzyl-hydantoins as part of a metabolic salvage
pathway for their conversion to amino acids. It also
includes various Saccharomyces cerevisiae transporters:
Fcy21p (Purine-cytosine permease), vitamin B6
transporter Tpn1, nicotinamide riboside transporter 1
(Nrt1p, also called Thi71p), Dal4p (allantoin permease),
Fui1p (uridine permease), and Fur4p (uracil permease).
Mhp1 has 12 transmembrane (TM) helices (an inverted
topology repeat: TMs1-5 and TMs6-10, and TMs11-12; TMs
numbered to conform to the solute carrier 6 family
Aquifex aeolicus LeuT). NCS1s belong to a superfamily
which also contains the solute carrier 5 family
sodium/glucose transporters (SLC5s), and SLC6
neurotransmitter transporters.
Length = 453
Score = 28.2 bits (63), Expect = 4.0
Identities = 17/91 (18%), Positives = 34/91 (37%), Gaps = 13/91 (14%)
Query: 166 YTSAVMFFVIY----GTFIHGVSSNGRTFSDYV---FMATVLAFILVAV------VSVQI 212
+ A+M V H + F Y ++ VLAFI+ + +V +
Sbjct: 213 FLVAIMLVVGGFIAPVVSAHDFVRFAKNFKRYALGQWLGLVLAFIIFGLIGAASTAAVGM 272
Query: 213 LFDTQYWTYINTLSMLVSIASYFVFTYVFST 243
++ W ++ + + SI + + VF
Sbjct: 273 VYGKAEWNPVDIVQEVDSIFAALLAQVVFLL 303
>gnl|CDD|152547 pfam12112, DUF3579, Protein of unknown function (DUF3579). This
family of proteins is functionally uncharacterized. This
protein is found in bacteria. Proteins in this family
are typically between 98 to 126 amino acids in length.
This protein has a conserved FRP sequence motif.
Length = 93
Score = 26.9 bits (60), Expect = 4.1
Identities = 11/30 (36%), Positives = 17/30 (56%), Gaps = 3/30 (10%)
Query: 175 IYGTFIHGVSSNGRTF--SDYV-FMATVLA 201
I FI GV+ G+TF SD+ + V++
Sbjct: 5 IKEIFIQGVTRAGKTFRPSDWAERLCGVMS 34
>gnl|CDD|223547 COG0471, CitT, Di- and tricarboxylate transporters [Inorganic ion
transport and metabolism].
Length = 461
Score = 27.7 bits (62), Expect = 5.9
Identities = 9/46 (19%), Positives = 21/46 (45%), Gaps = 2/46 (4%)
Query: 169 AVMFFVIYGTFIHGVSSNGRTFSDYVFMATVLAFILVAVVSVQILF 214
++ V+ G G+S F+ + +A ++ +IL A+ +
Sbjct: 13 VLLALVLLGPVPFGLSGFAWLFA--ILVAAIILWILEAIPLFALAI 56
>gnl|CDD|227242 COG4905, COG4905, Predicted membrane protein [Function unknown].
Length = 243
Score = 27.1 bits (60), Expect = 7.2
Identities = 14/81 (17%), Positives = 31/81 (38%), Gaps = 17/81 (20%)
Query: 152 FNEREFV--------YCSLHGFYTSAVMFFVIYGTFIHGVSSNGRTFSDYVFMATVLAFI 203
N+++ V YC ++GF V+ + S +F ++ +
Sbjct: 27 VNDKKIVNRGFLTGPYCPIYGFGVQCVLMVGL--------PFKNNLISLIIFSIFIVTVL 78
Query: 204 -LVAVVSVQILFDTQYWTYIN 223
V ++ +F+ ++W Y N
Sbjct: 79 EYVTGFILEAIFNCKWWDYSN 99
>gnl|CDD|214437 MTH00152, ND6, NADH dehydrogenase subunit 6; Provisional.
Length = 163
Score = 26.8 bits (60), Expect = 8.6
Identities = 13/79 (16%), Positives = 27/79 (34%), Gaps = 3/79 (3%)
Query: 132 SDTNSIRYPKLYTPGMHNLLFNEREFVYCSLHGFYTSAVMFFVIYGTFIHGVSSNGRTFS 191
S+ + + + F + L + SS +S
Sbjct: 79 SNFKFVFFSLTLFGFLGLFFFFLYLYSSGGLSLSSLFDGSSGSLSFGGGLYSSSG---WS 135
Query: 192 DYVFMATVLAFILVAVVSV 210
+VF+A +L ++V+VV +
Sbjct: 136 IFVFLAVLLLIVMVSVVKI 154
>gnl|CDD|226458 COG3949, COG3949, Uncharacterized membrane protein [Function
unknown].
Length = 349
Score = 27.3 bits (61), Expect = 9.7
Identities = 13/78 (16%), Positives = 32/78 (41%), Gaps = 4/78 (5%)
Query: 164 GFYTSAVMFFVIYGTFIHGVSSNGRTFSDYVFMATVLAFILVAVVSVQILFDTQYWTYIN 223
G S +++ IY T + + + + + ++A + + I + ++ +IN
Sbjct: 259 GLVMSVIIWLEIYTTTVGLIYGLASRLTSFFPR----RYWIIAAIILVIAYPLSFFGFIN 314
Query: 224 TLSMLVSIASYFVFTYVF 241
++ L I Y +F
Sbjct: 315 LIAKLYPILGYVGLLILF 332
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 0.139 0.410
Gapped
Lambda K H
0.267 0.0753 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,858,823
Number of extensions: 1236762
Number of successful extensions: 1950
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1937
Number of HSP's successfully gapped: 84
Length of query: 250
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 155
Effective length of database: 6,723,972
Effective search space: 1042215660
Effective search space used: 1042215660
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: 58 (26.1 bits)