RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11985
(334 letters)
>gnl|CDD|233149 TIGR00845, caca, sodium/calcium exchanger 1. The Ca2+:Cation
Antiporter (CaCA) Family (TC 2.A.19)Proteins of the CaCA
family are found ubiquitously, having been identified in
animals, plants, yeast, archaea and widely divergent
bacteria.All of the characterized animal proteins
catalyze Ca2+:Na+ exchange although some also transport
K+. The NCX1 plasma membrane protein exchanges 3 Na+ for
1 Ca2+. The E. coli ChaA protein catalyzes Ca2+:H+
antiport but may also catalyze Na+:H+ antiport. All
remaining well-characterized members of the family
catalyze Ca2+:H+ exchange.This model is specific for the
eukaryotic sodium ion/calcium ion exchangers of the Caca
family [Transport and binding proteins, Other].
Length = 928
Score = 272 bits (696), Expect = 5e-84
Identities = 125/327 (38%), Positives = 181/327 (55%), Gaps = 53/327 (16%)
Query: 18 YATTLRELRQMHPNLKMEELEKMAENEIMKRVPKSRAFYRIQASRNIMGS--------FQ 69
L+EL+Q HP+ +E+LE+MA +++ R KSRAFYRIQA+R + G+
Sbjct: 319 MIRILKELKQKHPDKDLEQLEEMANYQVLSRQQKSRAFYRIQATRLMTGAGNILKKHAAD 378
Query: 70 SARKEKPQHRPTSPLPELGGLTGARIFFKPQYYTVLENVGEFEVVVAREG-DVSGTVTVE 128
+ARK H + E ++ +IFF+P +YT LEN G + V R G D++ TV V+
Sbjct: 379 AARKAVSMHEVATDDEENDPVS--KIFFEPGHYTCLENCGTVALTVVRRGGDLTNTVYVD 436
Query: 129 YATEDGTAQAGSDYVGAAGKIVFQPGELEQRIRLQVIDDDVFEEDEYFFVHLTKVKDAKL 188
Y TEDGTA AGSDY G +VF+PGE ++ R+ +IDDD+FEEDE+F+V L+ ++
Sbjct: 437 YRTEDGTANAGSDYEFTEGTLVFKPGETQKEFRIGIIDDDIFEEDEHFYVRLSNLR---- 492
Query: 189 VAPSSATVMILDDDHAGSFGFLETSVTIAESVGIVKELWSTRHGVVHLTKVKDAKLVAPS 248
+ IL+ +H + A+L +P+
Sbjct: 493 ---VGSEDGILEANHVSAV----------------------------------AQLASPN 515
Query: 249 SATVMILDDDHAGSFGFLETSVTIAESVGMYELEVLRSCGARGTVEVGYKTYDDTAKAGT 308
+ATV ILDDDHAG F F E ++ES+G+ E++VLR+ GARGTV V Y+T + TA+ G
Sbjct: 516 TATVTILDDDHAGIFTFEEDVFHVSESIGIMEVKVLRTSGARGTVIVPYRTVEGTARGGG 575
Query: 309 -HYVQTEGALIFHNEETSYFYNRRSVD 334
+ T G L F N+ET + VD
Sbjct: 576 KDFEDTCGELEFENDETEKTIRVKIVD 602
Score = 75.2 bits (185), Expect = 7e-15
Identities = 36/97 (37%), Positives = 59/97 (60%), Gaps = 2/97 (2%)
Query: 93 ARIF-FKPQYYTVLENVGEFEVVVAREGDVSGTVTVEYATEDGTAQAGS-DYVGAAGKIV 150
A IF F+ + V E++G EV V R GTV V Y T +GTA+ G D+ G++
Sbjct: 527 AGIFTFEEDVFHVSESIGIMEVKVLRTSGARGTVIVPYRTVEGTARGGGKDFEDTCGELE 586
Query: 151 FQPGELEQRIRLQVIDDDVFEEDEYFFVHLTKVKDAK 187
F+ E E+ IR++++DD+ +E+++ FF+ L + + AK
Sbjct: 587 FENDETEKTIRVKIVDDEEYEKNDTFFIELGEPRWAK 623
>gnl|CDD|202559 pfam03160, Calx-beta, Calx-beta domain.
Length = 91
Score = 113 bits (284), Expect = 2e-31
Identities = 47/89 (52%), Positives = 56/89 (62%), Gaps = 1/89 (1%)
Query: 94 RIFFKPQYYTVLENVGEFEVVVAR-EGDVSGTVTVEYATEDGTAQAGSDYVGAAGKIVFQ 152
+ F+P Y V EN G EV V R G + GTVTV Y TEDGTA AG DY G + F
Sbjct: 3 VVGFEPPVYQVSENDGVVEVCVVRMSGALRGTVTVSYRTEDGTATAGDDYEPVEGTLTFG 62
Query: 153 PGELEQRIRLQVIDDDVFEEDEYFFVHLT 181
PGE E+ I + +IDDDV+E DE FFV L+
Sbjct: 63 PGETEKCINVTIIDDDVYEGDENFFVELS 91
Score = 60.7 bits (148), Expect = 6e-12
Identities = 30/66 (45%), Positives = 37/66 (56%), Gaps = 1/66 (1%)
Query: 260 AGSFGFLETSVTIAESVGMYELEVLRSCGA-RGTVEVGYKTYDDTAKAGTHYVQTEGALI 318
AG GF ++E+ G+ E+ V+R GA RGTV V Y+T D TA AG Y EG L
Sbjct: 1 AGVVGFEPPVYQVSENDGVVEVCVVRMSGALRGTVTVSYRTEDGTATAGDDYEPVEGTLT 60
Query: 319 FHNEET 324
F ET
Sbjct: 61 FGPGET 66
>gnl|CDD|197594 smart00237, Calx_beta, Domains in Na-Ca exchangers and
integrin-beta4. Domain in Na-Ca exchangers and integrin
subunit beta4 (and some cyanobacterial proteins).
Length = 90
Score = 106 bits (267), Expect = 6e-29
Identities = 45/88 (51%), Positives = 60/88 (68%)
Query: 94 RIFFKPQYYTVLENVGEFEVVVAREGDVSGTVTVEYATEDGTAQAGSDYVGAAGKIVFQP 153
+ F+ YTV E+ GE EV V R G G V V Y+TEDGTA AGSDY G++ F P
Sbjct: 3 SVGFEQPVYTVSESDGEVEVCVVRTGGARGPVVVPYSTEDGTATAGSDYEPVPGELTFPP 62
Query: 154 GELEQRIRLQVIDDDVFEEDEYFFVHLT 181
GE E+ IR+++IDDD++E+DE F+V L+
Sbjct: 63 GETEKEIRIKIIDDDIYEKDETFYVRLS 90
Score = 67.3 bits (165), Expect = 2e-14
Identities = 31/65 (47%), Positives = 38/65 (58%)
Query: 260 AGSFGFLETSVTIAESVGMYELEVLRSCGARGTVEVGYKTYDDTAKAGTHYVQTEGALIF 319
AGS GF + T++ES G E+ V+R+ GARG V V Y T D TA AG+ Y G L F
Sbjct: 1 AGSVGFEQPVYTVSESDGEVEVCVVRTGGARGPVVVPYSTEDGTATAGSDYEPVPGELTF 60
Query: 320 HNEET 324
ET
Sbjct: 61 PPGET 65
>gnl|CDD|221279 pfam11867, DUF3387, Domain of unknown function (DUF3387). This
domain is functionally uncharacterized. This domain is
found in bacteria and archaea. This presumed domain is
typically between 255 to 340 amino acids in length. This
domain is found associated with pfam04851, pfam04313.
Length = 333
Score = 32.1 bits (74), Expect = 0.36
Identities = 14/39 (35%), Positives = 23/39 (58%), Gaps = 5/39 (12%)
Query: 22 LRELRQM-HPNLKMEELEKMAENEIMKR----VPKSRAF 55
L E++ M H NL +E L+K+ +EI R + +S+ F
Sbjct: 159 LAEVKNMKHKNLALELLKKLLNDEIKSRSKTNLVQSKKF 197
>gnl|CDD|225800 COG3261, HycE, Ni,Fe-hydrogenase III large subunit [Energy
production and conversion].
Length = 382
Score = 31.1 bits (71), Expect = 0.68
Identities = 26/107 (24%), Positives = 40/107 (37%), Gaps = 16/107 (14%)
Query: 30 PNLKMEELEKMAEN--EIMKRVPKSRAFYRIQASRNIMGSFQSARKEKPQH-RPTSPLPE 86
+E++ ++ E+ E +K + + + NI Q + R S +
Sbjct: 166 LESDLEQILELIEDIREEVKEI-----VEVLLSDPNIEDRLQGVGVLDKEDARKLSAVGP 220
Query: 87 LGGLTG----ARIFFKPQYYTVLENVGEFEVVVAREGDVSGTVTVEY 129
+G ARI P YY L FEV+V EGDV V
Sbjct: 221 TARASGIADDARIDHPPVYYDELP----FEVIVRDEGDVFARFLVRI 263
>gnl|CDD|236778 PRK10859, PRK10859, membrane-bound lytic transglycosylase F;
Provisional.
Length = 482
Score = 31.4 bits (72), Expect = 0.73
Identities = 10/32 (31%), Positives = 20/32 (62%)
Query: 18 YATTLRELRQMHPNLKMEELEKMAENEIMKRV 49
+ TL+EL++ +P L EE + E++++V
Sbjct: 160 HVETLQELKKKYPELSWEESDDKDSEELLEQV 191
>gnl|CDD|197294 cd09198, PLDc_pPLDbeta_1, Catalytic domain, repeat 1, of plant
beta-type phospholipase D. Catalytic domain, repeat 1,
of plant beta-type phospholipase D (PLDbeta, EC
3.1.4.4). Plant PLDbeta is a phosphatidylinositol
4,5-bisphosphate (PIP2)-dependent PLD that possesses a
regulatory calcium-dependent phospholipid-binding C2
domain in the N-terminus and requires nanomolar calcium
and cytosolic factors for optimal activity. The C2
domain is unique to plant PLDs and is not present in
animal or fungal PLDs. Sequence analysis shows that
plant PLDbeta is evolutionarily divergent from
alpha-type plant PLD, and plant PLDbeta is more closely
related to mammalian and yeast PLDs than to plant
PLDalpha. Like other PLD enzymes, the monomer of plant
PLDbeta consists of two catalytic domains, each of which
contains one copy of the conserved HKD motif
(H-x-K-x(4)-D, where x represents any amino acid
residue). Two HKD motifs from two domains form a single
active site. Plant PLDbeta may utilize a common two-step
ping-pong catalytic mechanism involving an
enzyme-substrate intermediate to cleave phosphodiester
bonds. The two histidine residues from the two HKD
motifs play key roles in the catalysis. Upon substrate
binding, a histidine residue from one HKD motif could
function as the nucleophile, attacking the
phosphodiester bond to create a covalent
phosphohistidine intermediate, while the other histidine
residue from the second HKD motif could serve as a
general acid, stabilizing the leaving group.
Length = 180
Score = 29.5 bits (66), Expect = 1.6
Identities = 17/52 (32%), Positives = 25/52 (48%), Gaps = 1/52 (1%)
Query: 282 EVLRSCGARGTVEVGYKTYDDTAKAGTHYVQTEGALIFHNEETSYFYNRRSV 333
E+L+S G V V +DD +T+G + H+EET F+ SV
Sbjct: 56 ELLKSKSQEG-VRVLLLVWDDKTSHSILGYKTDGVMATHDEETKRFFKHSSV 106
>gnl|CDD|148737 pfam07301, DUF1453, Protein of unknown function (DUF1453). This
family consists of several hypothetical bacterial
proteins of around 150 residues in length. The function
of this family is unknown. Members of this family seem
to be found exclusively in the Order Bacillales.
Length = 149
Score = 29.2 bits (66), Expect = 1.7
Identities = 14/51 (27%), Positives = 19/51 (37%), Gaps = 4/51 (7%)
Query: 64 IMGSFQSARKEKPQHRPTSP----LPELGGLTGARIFFKPQYYTVLENVGE 110
M + + K +P S LP L TGA +F P + V E
Sbjct: 13 CMAALVIFIRMKASKKPISGKKIILPPLFMSTGALMFVVPFFRVTGWEVLE 63
>gnl|CDD|182743 PRK10801, PRK10801, colicin uptake protein TolQ; Provisional.
Length = 227
Score = 29.1 bits (65), Expect = 2.8
Identities = 17/48 (35%), Positives = 24/48 (50%), Gaps = 2/48 (4%)
Query: 209 FLETSVTIAESVGIVKELWSTRHGVVHLTKVKDAKL--VAPSSATVMI 254
FL T +I+ +G+ +W H + L VK A L VAP A +I
Sbjct: 126 FLGTVGSISPYIGLFGTVWGIMHAFIALGAVKQATLQMVAPGIAEALI 173
>gnl|CDD|176020 cd08374, C2F_Ferlin, C2 domain sixth repeat in Ferlin. Ferlins are
involved in vesicle fusion events. Ferlins and other
proteins, such as Synaptotagmins, are implicated in
facilitating the fusion process when cell membranes fuse
together. There are six known human Ferlins: Dysferlin
(Fer1L1), Otoferlin (Fer1L2), Myoferlin (Fer1L3),
Fer1L4, Fer1L5, and Fer1L6. Defects in these genes can
lead to a wide range of diseases including muscular
dystrophy (dysferlin), deafness (otoferlin), and
infertility (fer-1, fertilization factor-1).
Structurally they have 6 tandem C2 domains, designated
as (C2A-C2F) and a single C-terminal transmembrane
domain, though there is a new study that disputes this
and claims that there are actually 7 tandem C2 domains
with another C2 domain inserted between C2D and C2E.
In a subset of them (Dysferlin, Myoferlin, and Fer1)
there is an additional conserved domain called DysF. C2
domains fold into an 8-standed beta-sandwich that can
adopt 2 structural arrangements: Type I and Type II,
distinguished by a circular permutation involving their
N- and C-terminal beta strands. Many C2 domains are
Ca2+-dependent membrane-targeting modules that bind a
wide variety of substances including bind phospholipids,
inositol polyphosphates, and intracellular proteins.
Most C2 domain proteins are either signal transduction
enzymes that contain a single C2 domain, such as protein
kinase C, or membrane trafficking proteins which contain
at least two C2 domains, such as synaptotagmin 1.
However, there are a few exceptions to this including
RIM isoforms and some splice variants of piccolo/aczonin
and intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. This cd contains the sixth C2
repeat, C2E, and has a type-II topology.
Length = 133
Score = 28.4 bits (64), Expect = 3.0
Identities = 16/47 (34%), Positives = 22/47 (46%), Gaps = 11/47 (23%)
Query: 141 DYVGAAGKIV-------FQPGELEQRIR----LQVIDDDVFEEDEYF 176
DY+ A KIV + E E +I LQV D+D F D++
Sbjct: 65 DYLPAEKKIVVIKKEHFWSLDETEYKIPPKLTLQVWDNDKFSPDDFL 111
>gnl|CDD|219850 pfam08455, SNF2_assoc, Bacterial SNF2 helicase associated. This
domain is found in bacterial proteins of the SWF/SNF/SWI
helicase family to the N-terminus of the SNF2 family
N-terminal domain (pfam00176) and together with the
Helicase conserved C-terminal domain (pfam00271). The
function of the domain is not clear.
Length = 376
Score = 28.7 bits (65), Expect = 4.4
Identities = 13/48 (27%), Positives = 21/48 (43%), Gaps = 10/48 (20%)
Query: 9 ILEENETMNYATTLRELRQMHPNLKMEELEKMAENEIMKRVPKSRAFY 56
LEE E ++ L +LR +L +++ +PK RA Y
Sbjct: 303 DLEEEELKKFSQLLEDLRLSKEDLGGGKIK----------LPKYRALY 340
>gnl|CDD|100037 cd06061, PurM-like1, AIR synthase (PurM) related protein, subgroup
1 of unknown function. The family of PurM related
proteins includes Hydrogen expression/formation protein
HypE, AIR synthases, FGAM synthase and Selenophosphate
synthetase (SelD). They all contain two conserved
domains and seem to dimerize. The N-terminal domain
forms the dimer interface and is a putative ATP binding
domain.
Length = 298
Score = 28.7 bits (65), Expect = 4.5
Identities = 19/85 (22%), Positives = 35/85 (41%), Gaps = 23/85 (27%)
Query: 116 AREGD---VSGTVTVEYATEDGTAQAGSDYVGAAGKIVFQPGELEQRIRLQVIDDDVFEE 172
A+ GD ++ +E GTA +D+ EL++R+ ++ E
Sbjct: 149 AKPGDDIVMTKGAGIE-----GTAILANDF----------EEELKKRL-----SEEELRE 188
Query: 173 DEYFFVHLTKVKDAKLVAPSSATVM 197
F ++ VK+A + A + T M
Sbjct: 189 AAKLFYKISVVKEALIAAEAGVTAM 213
>gnl|CDD|183437 PRK12322, PRK12322, NADH dehydrogenase subunit D; Provisional.
Length = 366
Score = 28.5 bits (64), Expect = 4.9
Identities = 21/70 (30%), Positives = 33/70 (47%), Gaps = 11/70 (15%)
Query: 35 EELEKMAENEIMKRVPKSRAFYRIQASRNIMG-SFQSARKEKPQ----HRPT----SPLP 85
+E +A+ + + PK A+ RI++ R +G S K+KP RP+ LP
Sbjct: 280 KEGPVLAKVPKIIKAPKGEAYVRIESPRGEIGCYIASDGKKKPYRLKFRRPSFYNLQILP 339
Query: 86 ELGGLTGARI 95
+L L G I
Sbjct: 340 KL--LKGENI 347
>gnl|CDD|219182 pfam06804, Lipoprotein_18, NlpB/DapX lipoprotein. This family
consists of a number of bacterial lipoproteins often
known as NlpB or DapX. This lipoprotein is detected in
outer membrane vesicles in Escherichia coli and appears
to be nonessential.
Length = 303
Score = 28.3 bits (63), Expect = 5.4
Identities = 13/49 (26%), Positives = 17/49 (34%), Gaps = 3/49 (6%)
Query: 123 GTVTVEYAT---EDGTAQAGSDYVGAAGKIVFQPGELEQRIRLQVIDDD 168
GTV +YA E +G FQ G+L R + D
Sbjct: 234 GTVKAKYAPPDDEFWQELGVKPPGLKSGTYTFQVGDLGNRSSINFTDPK 282
>gnl|CDD|193565 cd08018, M20_Acy1_amhX_like, M20 Peptidase Aminoacylase 1 amhX_like
subfamily. Peptidase M20 family, Uncharacterized
subfamily of uncharacterized proteins predicted as
putative amidohydrolases, including the amhX gene
product from Bacillus subtilis. These are a class of
zinc binding homodimeric enzymes involved in hydrolysis
of N-acetylated proteins. N-terminal acetylation of
proteins is a widespread and highly conserved process
that is involved in protection and stability of
proteins. Several types of aminoacylases can be
distinguished on the basis of substrate specificity.
Aminoacylase 1 (ACY1) breaks down cytosolic aliphatic
N-acyl-alpha-amino acids (except L-aspartate),
especially N-acetyl-methionine and acetyl-glutamate into
L-amino acids and an acyl group. However, ACY1 can also
catalyze the reverse reaction, the synthesis of
acetylated amino acids. ACY1 may also play a role in
xenobiotic bioactivation as well as the inter-organ
processing of amino acid-conjugated xenobiotic
derivatives (S-substituted-N-acetyl-L-cysteine).
Length = 365
Score = 28.4 bits (64), Expect = 5.4
Identities = 16/48 (33%), Positives = 28/48 (58%), Gaps = 3/48 (6%)
Query: 148 KIVFQPGELEQRIRLQVIDDDVFEEDEYFF-VHLTKVKDAKL--VAPS 192
K +FQP E + L +I+D V ++ +Y F VHL +++ L +P+
Sbjct: 114 KFIFQPAEEKGTGALAMIEDGVLDDVDYLFGVHLRPIQELPLGQASPA 161
>gnl|CDD|145678 pfam02650, HTH_WhiA, Sporulation Regulator WhiA C terminal domain.
This domain is found at the C terminal of the
sporulation regulator WhiA. It is predicted to form a
DNA binding helix-turn-helix structure. WhiA is a
distant homologue of LAGLIDADG homing endonucleases.
Length = 191
Score = 28.0 bits (63), Expect = 5.8
Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 7 EEILEENETMNYATTLRE---LRQMHPNLKMEELEKMAENEIMK 47
ILE N LRE LR +P+ ++EL ++ + I K
Sbjct: 133 NFILETLGLDNLPEKLREIAQLRLENPDASLKELGELLDPPITK 176
>gnl|CDD|219780 pfam08286, Spc24, Spc24 subunit of Ndc80. Spc24 is a component
of the evolutionarily conserved kinetochore-associated
Ndc80 complex and is involved in chromosome
segregation.
Length = 117
Score = 26.9 bits (60), Expect = 7.2
Identities = 13/53 (24%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 12 ENETMNYATTLRELRQMHPNLKMEELEKMAENEIMKRVPKSRAFYRIQASRNI 64
E+E N + L EL++ L+ +E+E +E V S +++ R++
Sbjct: 19 ESELNNLQSELEELKERLEELEEQEVEGDEVDEDETPVDDSNV-LKLKLYRSL 70
>gnl|CDD|240327 PTZ00243, PTZ00243, ABC transporter; Provisional.
Length = 1560
Score = 27.8 bits (62), Expect = 9.3
Identities = 20/55 (36%), Positives = 26/55 (47%), Gaps = 14/55 (25%)
Query: 100 QYYT---VLENVGEFEVVVA----REG---DVSGTVTVEYATEDGTA----QAGS 140
YYT E++ E + V R G DV+GTV +E A+ A QAGS
Sbjct: 1254 LYYTDEVPHEDMPELDEEVDALERRTGMAADVTGTVVIEPASPTSAAPHPVQAGS 1308
>gnl|CDD|215038 PLN00040, PLN00040, Protein MAK16 homolog; Provisional.
Length = 233
Score = 27.4 bits (61), Expect = 9.7
Identities = 12/47 (25%), Positives = 21/47 (44%)
Query: 2 EKDVEEEILEENETMNYATTLRELRQMHPNLKMEELEKMAENEIMKR 48
+ + + E+ T RE R+ K +LEK E E+++R
Sbjct: 122 MRKLALKTREKIVTTPRKLLKRERRRESKAQKAAQLEKSIEKELLER 168
>gnl|CDD|224592 COG1678, COG1678, Putative transcriptional regulator
[Transcription].
Length = 194
Score = 27.3 bits (61), Expect = 9.8
Identities = 7/43 (16%), Positives = 17/43 (39%)
Query: 119 GDVSGTVTVEYATEDGTAQAGSDYVGAAGKIVFQPGELEQRIR 161
++ T +++ + + A G + G+LE+ I
Sbjct: 108 DGLALTTSLDVLEAIAAGKGPEKALVALGYAGWAAGQLEEEIE 150
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
0.315 0.132 0.367
Gapped
Lambda K H
0.267 0.0758 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,216,704
Number of extensions: 1700043
Number of successful extensions: 1596
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1588
Number of HSP's successfully gapped: 37
Length of query: 334
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 237
Effective length of database: 6,635,264
Effective search space: 1572557568
Effective search space used: 1572557568
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 59 (26.4 bits)