RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15326
(78 letters)
>gnl|CDD|238008 cd00051, EFh, EF-hand, calcium binding motif; A diverse
superfamily of calcium sensors and calcium signal
modulators; most examples in this alignment model have
2 active canonical EF hands. Ca2+ binding induces a
conformational change in the EF-hand motif, leading to
the activation or inactivation of target proteins.
EF-hands tend to occur in pairs or higher copy numbers.
Length = 63
Score = 46.4 bits (111), Expect = 1e-08
Identities = 15/65 (23%), Positives = 33/65 (50%), Gaps = 11/65 (16%)
Query: 1 MYDVDGNGVIDIQEMTKIVQAIYDMLGACSSNRPADSAEERAKNIFAKMDENNDGQLTQD 60
++D DG+G I E+ ++++ + L EE + ++D++ DG++ +
Sbjct: 8 LFDKDGDGTISADELKAALKSLGEGLS-----------EEEIDEMIREVDKDGDGKIDFE 56
Query: 61 EFLKG 65
EFL+
Sbjct: 57 EFLEL 61
Score = 27.1 bits (61), Expect = 0.29
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 1 MYDVDGNGVIDIQEMTKIVQ 20
D DG+G ID +E +++
Sbjct: 44 EVDKDGDGKIDFEEFLELMA 63
Score = 26.7 bits (60), Expect = 0.49
Identities = 10/43 (23%), Positives = 19/43 (44%), Gaps = 6/43 (13%)
Query: 41 RAKNIFAKMDENNDGQLTQDEFLKGC------LQDEELSKMLA 77
+ F D++ DG ++ DE L +EE+ +M+
Sbjct: 1 ELREAFRLFDKDGDGTISADELKAALKSLGEGLSEEEIDEMIR 43
>gnl|CDD|222177 pfam13499, EF_hand_5, EF-hand domain pair.
Length = 60
Score = 44.3 bits (105), Expect = 5e-08
Identities = 18/66 (27%), Positives = 38/66 (57%), Gaps = 7/66 (10%)
Query: 1 MYDVDGNGVIDIQEMTKIVQAIYDMLGACSSNRPADSAEERAKNIFAKMDENNDGQLTQD 60
+ D DG+G ID++E+ K+++A+ + EE + F ++D++ DG+++ +
Sbjct: 2 LLDKDGDGYIDVEELRKLLKALG-------LKLTDEEVEELIEADFNEIDKDGDGRISFE 54
Query: 61 EFLKGC 66
EFL+
Sbjct: 55 EFLEAM 60
>gnl|CDD|227455 COG5126, FRQ1, Ca2+-binding protein (EF-Hand superfamily) [Signal
transduction mechanisms / Cytoskeleton / Cell division
and chromosome partitioning / General function
prediction only].
Length = 160
Score = 36.5 bits (85), Expect = 3e-04
Identities = 14/69 (20%), Positives = 33/69 (47%), Gaps = 11/69 (15%)
Query: 2 YDVDGNGVIDIQEMTKIVQAIYDMLGACSSNRPADSAEERAKNIFAKMDENNDGQLTQDE 61
+D D +G I I E+ ++++++ + ++E + + + DE+ DG++ +E
Sbjct: 101 FDKDHDGYISIGELRRVLKSLGE-----------RLSDEEVEKLLKEYDEDGDGEIDYEE 149
Query: 62 FLKGCLQDE 70
F K
Sbjct: 150 FKKLIKDSP 158
Score = 25.0 bits (55), Expect = 4.4
Identities = 7/25 (28%), Positives = 13/25 (52%)
Query: 40 ERAKNIFAKMDENNDGQLTQDEFLK 64
+ K F D ++DG + ++E K
Sbjct: 20 QELKEAFQLFDRDSDGLIDRNELGK 44
>gnl|CDD|200946 pfam00036, efhand, EF hand. The EF-hands can be divided into two
classes: signaling proteins and buffering/transport
proteins. The first group is the largest and includes
the most well-known members of the family such as
calmodulin, troponin C and S100B. These proteins
typically undergo a calcium-dependent conformational
change which opens a target binding site. The latter
group is represented by calbindin D9k and do not
undergo calcium dependent conformational changes.
Length = 29
Score = 29.3 bits (67), Expect = 0.022
Identities = 7/26 (26%), Positives = 15/26 (57%)
Query: 41 RAKNIFAKMDENNDGQLTQDEFLKGC 66
K F + D++ DG+++ +EF +
Sbjct: 1 ELKEAFKEFDKDGDGKISFEEFKELL 26
Score = 26.6 bits (60), Expect = 0.28
Identities = 6/22 (27%), Positives = 14/22 (63%)
Query: 1 MYDVDGNGVIDIQEMTKIVQAI 22
+D DG+G I +E ++++ +
Sbjct: 8 EFDKDGDGKISFEEFKELLKKL 29
>gnl|CDD|205583 pfam13405, EF_hand_4, EF-hand domain.
Length = 30
Score = 28.7 bits (65), Expect = 0.044
Identities = 6/26 (23%), Positives = 12/26 (46%)
Query: 41 RAKNIFAKMDENNDGQLTQDEFLKGC 66
+ F D++ DG ++ +E K
Sbjct: 1 ELREAFKLFDKDGDGYISAEELRKAL 26
Score = 26.4 bits (59), Expect = 0.32
Identities = 7/22 (31%), Positives = 16/22 (72%)
Query: 1 MYDVDGNGVIDIQEMTKIVQAI 22
++D DG+G I +E+ K ++++
Sbjct: 8 LFDKDGDGYISAEELRKALRSL 29
>gnl|CDD|185503 PTZ00183, PTZ00183, centrin; Provisional.
Length = 158
Score = 29.7 bits (67), Expect = 0.091
Identities = 17/63 (26%), Positives = 34/63 (53%), Gaps = 11/63 (17%)
Query: 1 MYDVDGNGVIDIQEMTKIVQAIYDMLGACSSNRPADSAEERAKNIFAKMDENNDGQLTQD 60
++D DG+G ID +E+ +++ LG + +E K + A +D++ G++ +
Sbjct: 25 LFDTDGSGTIDPKELKVAMRS----LGF-------EPKKEEIKQMIADVDKDGSGKIDFE 73
Query: 61 EFL 63
EFL
Sbjct: 74 EFL 76
>gnl|CDD|197492 smart00054, EFh, EF-hand, calcium binding motif. EF-hands are
calcium-binding motifs that occur at least in pairs.
Links between disease states and genes encoding
EF-hands, particularly the S100 subclass, are emerging.
Each motif consists of a 12 residue loop flanked on
either side by a 12 residue alpha-helix. EF-hands
undergo a conformational change unpon binding calcium
ions.
Length = 29
Score = 27.7 bits (63), Expect = 0.10
Identities = 7/22 (31%), Positives = 12/22 (54%)
Query: 43 KNIFAKMDENNDGQLTQDEFLK 64
K F D++ DG++ +EF
Sbjct: 3 KEAFRLFDKDGDGKIDFEEFKD 24
Score = 25.8 bits (58), Expect = 0.51
Identities = 8/22 (36%), Positives = 16/22 (72%)
Query: 1 MYDVDGNGVIDIQEMTKIVQAI 22
++D DG+G ID +E +++A+
Sbjct: 8 LFDKDGDGKIDFEEFKDLLKAL 29
>gnl|CDD|215520 PLN02964, PLN02964, phosphatidylserine decarboxylase.
Length = 644
Score = 29.4 bits (66), Expect = 0.14
Identities = 13/35 (37%), Positives = 20/35 (57%)
Query: 28 ACSSNRPADSAEERAKNIFAKMDENNDGQLTQDEF 62
+CS P ++ A+ I A +D + DGQL+ EF
Sbjct: 167 SCSIEDPVETERSFARRILAIVDYDEDGQLSFSEF 201
Score = 25.2 bits (55), Expect = 4.6
Identities = 14/59 (23%), Positives = 27/59 (45%), Gaps = 11/59 (18%)
Query: 3 DVDGNGVIDIQEMTKIVQAIYDMLGACSSNRPADSAEERAKNIFAKMDENNDGQLTQDE 61
D D +G + E + +++A +++ A + + +F D N DG +T DE
Sbjct: 189 DYDEDGQLSFSEFSDLIKAFGNLV-----------AANKKEELFKAADLNGDGVVTIDE 236
>gnl|CDD|238009 cd00052, EH, Eps15 homology domain; found in proteins implicated
in endocytosis, vesicle transport, and signal
transduction. The alignment contains a pair of EF-hand
motifs, typically one of them is canonical and binds to
Ca2+, while the other may not bind to Ca2+. A
hydrophobic binding pocket is formed by residues from
both EF-hand motifs. The EH domain binds to proteins
containing NPF (class I), [WF]W or SWG (class II), or
H[TS]F (class III) sequence motifs.
Length = 67
Score = 27.2 bits (61), Expect = 0.29
Identities = 15/60 (25%), Positives = 24/60 (40%), Gaps = 13/60 (21%)
Query: 3 DVDGNGVIDIQEMTKIVQAIYDMLGACSSNRPADSAEERAKNIFAKMDENNDGQLTQDEF 62
D DG+G+I E + S P + I+ D + DG+L ++EF
Sbjct: 9 DPDGDGLISGDEARPFLG---------KSGLPRSVLAQ----IWDLADTDKDGKLDKEEF 55
>gnl|CDD|205383 pfam13202, EF_hand_3, EF hand.
Length = 25
Score = 26.1 bits (59), Expect = 0.40
Identities = 7/20 (35%), Positives = 15/20 (75%)
Query: 43 KNIFAKMDENNDGQLTQDEF 62
K++F + D N DG+++++E
Sbjct: 2 KDLFRQFDTNGDGKISKEEL 21
>gnl|CDD|222407 pfam13833, EF_hand_6, EF-hand domain pair.
Length = 53
Score = 26.3 bits (59), Expect = 0.46
Identities = 6/19 (31%), Positives = 13/19 (68%)
Query: 45 IFAKMDENNDGQLTQDEFL 63
+F + D + DG+++ +EF
Sbjct: 29 LFREFDTDGDGKISFEEFC 47
>gnl|CDD|238131 cd00213, S-100, S-100: S-100 domain, which represents the largest
family within the superfamily of proteins carrying the
Ca-binding EF-hand motif. Note that this S-100
hierarchy contains only S-100 EF-hand domains, other
EF-hands have been modeled separately. S100 proteins
are expressed exclusively in vertebrates, and are
implicated in intracellular and extracellular
regulatory activities. Intracellularly, S100 proteins
act as Ca-signaling or Ca-buffering proteins. The most
unusual characteristic of certain S100 proteins is
their occurrence in extracellular space, where they act
in a cytokine-like manner through RAGE, the receptor
for advanced glycation products. Structural data
suggest that many S100 members exist within cells as
homo- or heterodimers and even oligomers;
oligomerization contributes to their functional
diversification. Upon binding calcium, most S100
proteins change conformation to a more open structure
exposing a hydrophobic cleft. This hydrophobic surface
represents the interaction site of S100 proteins with
their target proteins. There is experimental evidence
showing that many S100 proteins have multiple binding
partners with diverse mode of interaction with
different targets. In addition to S100 proteins (such
as S100A1,-3,-4,-6,-7,-10,-11,and -13), this group
includes the ''fused'' gene family, a group of calcium
binding S100-related proteins. The ''fused'' gene
family includes multifunctional epidermal
differentiation proteins - profilaggrin, trichohyalin,
repetin, hornerin, and cornulin; functionally these
proteins are associated with keratin intermediate
filaments and partially crosslinked to the cell
envelope. These ''fused'' gene proteins contain
N-terminal sequence with two Ca-binding EF-hands motif,
which may be associated with calcium signaling in
epidermal cells and autoprocessing in a
calcium-dependent manner. In contrast to S100 proteins,
"fused" gene family proteins contain an extraordinary
high number of almost perfect peptide repeats with
regular array of polar and charged residues similar to
many known cell envelope proteins.
Length = 88
Score = 26.7 bits (60), Expect = 0.64
Identities = 8/21 (38%), Positives = 11/21 (52%)
Query: 43 KNIFAKMDENNDGQLTQDEFL 63
I +D N DG++ EFL
Sbjct: 54 DKIMKDLDVNKDGKVDFQEFL 74
>gnl|CDD|131761 TIGR02714, amido_AtzD_TrzD, ring-opening amidohydrolases. Members
of this family are are ring-opening amidohydrolases,
including cyanuric acid amidohydrolase (EC 3.5.2.15)
(AtzD and TrzD) and barbiturase. Note that barbiturase
does not act as defined for EC 3.5.2.1 (barbiturate +
water = malonate + urea) but rather catalyzes the
ring-opening of barbituric acid to ureidomalonic acid
(see Soong, et al., PMID:11485332).
Length = 366
Score = 26.4 bits (58), Expect = 1.4
Identities = 16/55 (29%), Positives = 26/55 (47%), Gaps = 2/55 (3%)
Query: 4 VDGNGVI-DIQEMTKIVQAIYDMLGACSSNRPADSAEERAKNIFAKMDENNDGQL 57
V G+ V+ D + + AI D G RP ++ N+FAK + + DG +
Sbjct: 254 VIGHSVMKDAIDQAGVRAAIRD-AGLELPERPHSDDLDQLVNVFAKAEASPDGTV 307
>gnl|CDD|185504 PTZ00184, PTZ00184, calmodulin; Provisional.
Length = 149
Score = 25.5 bits (56), Expect = 2.4
Identities = 16/64 (25%), Positives = 30/64 (46%), Gaps = 11/64 (17%)
Query: 1 MYDVDGNGVIDIQEMTKIVQAIYDMLGACSSNRPADSAEERAKNIFAKMDENNDGQLTQD 60
++D DGNG I E+ ++ + + L +E + + D + DGQ+ +
Sbjct: 92 VFDRDGNGFISAAELRHVMTNLGEKL-----------TDEEVDEMIREADVDGDGQINYE 140
Query: 61 EFLK 64
EF+K
Sbjct: 141 EFVK 144
>gnl|CDD|234450 TIGR04056, OMP_RagA_SusC, TonB-linked outer membrane protein,
SusC/RagA family. This model describes a distinctive
clade among the TonB-linked outer membrane proteins
(OMP). Members of this family are restricted to the
Bacteriodetes lineage (except for Gemmatimonas
aurantiaca T-27 from the novel phylum Gemmatimonadetes)
and occur in high copy numbers, with over 100 members
from Bacteroides thetaiotaomicron VPI-5482 alone.
Published descriptions of members of this family are
available for RagA from Porphyromonas gingivalis, SusC
from Bacteroides thetaiotaomicron, and OmpW from
Bacteroides caccae. Members form pairs with members of
the SusD/RagB family (pfam07980). Transporter complexes
including these outer membrane proteins are likely to
import large degradation products of proteins (e.g.
RagA) or carbohydrates (e.g. SusC) as nutrients, rather
than siderophores [Transport and binding proteins,
Unknown substrate].
Length = 982
Score = 25.6 bits (57), Expect = 2.5
Identities = 7/16 (43%), Positives = 10/16 (62%)
Query: 3 DVDGNGVIDIQEMTKI 18
DV+G+G ID + I
Sbjct: 801 DVNGDGKIDDDDRVPI 816
>gnl|CDD|178373 PLN02774, PLN02774, brassinosteroid-6-oxidase.
Length = 463
Score = 25.1 bits (55), Expect = 3.8
Identities = 9/13 (69%), Positives = 9/13 (69%)
Query: 5 DGNGVIDIQEMTK 17
DG IDIQE TK
Sbjct: 157 DGLKTIDIQEKTK 169
>gnl|CDD|240156 cd05030, calgranulins, Calgranulins: S-100 domain found in
proteins belonging to the Calgranulin subgroup of the
S100 family of EF-hand calcium-modulated proteins,
including S100A8, S100A9, and S100A12 . Note that the
S-100 hierarchy, to which this Calgranulin group
belongs, contains only S-100 EF-hand domains, other
EF-hands have been modeled separately. These proteins
are expressed mainly in granulocytes, and are involved
in inflammation, allergy, and neuritogenesis, as well
as in host-parasite response. Calgranulins are
modulated not only by calcium, but also by other metals
such as zinc and copper. Structural data suggested that
calgranulins may exist in multiple structural forms,
homodimers, as well as hetero-oligomers. For example,
the S100A8/S100A9 complex called calprotectin plays
important roles in the regulation of inflammatory
processes, wound repair, and regulating zinc-dependent
enzymes as well as microbial growth.
Length = 88
Score = 24.6 bits (54), Expect = 4.1
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 42 AKNIFAKMDENNDGQLTQDEFL 63
IF +D N DGQL+ +EFL
Sbjct: 53 IDKIFEDLDTNQDGQLSFEEFL 74
>gnl|CDD|183426 PRK12309, PRK12309, transaldolase/EF-hand domain-containing
protein; Provisional.
Length = 391
Score = 25.1 bits (55), Expect = 4.3
Identities = 8/21 (38%), Positives = 14/21 (66%)
Query: 45 IFAKMDENNDGQLTQDEFLKG 65
+F +D N+DG++T +E G
Sbjct: 362 VFDALDLNHDGKITPEEMRAG 382
>gnl|CDD|173495 PTZ00256, PTZ00256, glutathione peroxidase; Provisional.
Length = 183
Score = 24.7 bits (54), Expect = 5.0
Identities = 8/34 (23%), Positives = 15/34 (44%)
Query: 26 LGACSSNRPADSAEERAKNIFAKMDENNDGQLTQ 59
+G+ + + + K+ F + DGQL Q
Sbjct: 1 MGSLLFKKGLEQIQPPTKSFFEFEAIDIDGQLVQ 34
>gnl|CDD|225615 COG3073, RseA, Negative regulator of sigma E activity [Signal
transduction mechanisms].
Length = 213
Score = 24.8 bits (54), Expect = 5.1
Identities = 8/21 (38%), Positives = 11/21 (52%)
Query: 54 DGQLTQDEFLKGCLQDEELSK 74
DG+ E L+ DEEL +
Sbjct: 15 DGETLDSELLRELAHDEELQQ 35
>gnl|CDD|216476 pfam01395, PBP_GOBP, PBP/GOBP family. The olfactory receptors of
terrestrial animals exist in an aqueous environment, yet
detect odorants that are primarily hydrophobic. The
aqueous solubility of hydrophobic odorants is thought to
be greatly enhanced via odorant binding proteins which
exist in the extracellular fluid surrounding the odorant
receptors. This family is composed of pheromone binding
proteins (PBP), which are male-specific and associate
with pheromone-sensitive neurons and general-odorant
binding proteins (GOBP).
Length = 121
Score = 24.5 bits (53), Expect = 5.4
Identities = 7/49 (14%), Positives = 21/49 (42%), Gaps = 6/49 (12%)
Query: 4 VDGNGVIDIQEMTKIVQAIYD------MLGACSSNRPADSAEERAKNIF 46
+D +G +D+ ++ + + ++ C+ + E+A +F
Sbjct: 65 MDDDGKLDVDKILEQLPKDLPDEKAKEVVKKCADAIKGEDPCEKAYKLF 113
>gnl|CDD|200480 cd11341, AmyAc_Pullulanase_LD-like, Alpha amylase catalytic domain
found in Pullulanase (also called dextrinase;
alpha-dextrin endo-1,6-alpha glucosidase), limit
dextrinase, and related proteins. Pullulanase is an
enzyme with action similar to that of isoamylase; it
cleaves 1,6-alpha-glucosidic linkages in pullulan,
amylopectin, and glycogen, and in alpha-and beta-amylase
limit-dextrins of amylopectin and glycogen. Pullulanases
are very similar to limit dextrinases, although they
differ in their action on glycogen and the rate of
hydrolysis of limit dextrins. The Alpha-amylase family
comprises the largest family of glycoside hydrolases
(GH), with the majority of enzymes acting on starch,
glycogen, and related oligo- and polysaccharides. These
proteins catalyze the transformation of alpha-1,4 and
alpha-1,6 glucosidic linkages with retention of the
anomeric center. The protein is described as having 3
domains: A, B, C. A is a (beta/alpha) 8-barrel; B is a
loop between the beta 3 strand and alpha 3 helix of A; C
is the C-terminal extension characterized by a Greek
key. The majority of the enzymes have an active site
cleft found between domains A and B where a triad of
catalytic residues (Asp, Glu and Asp) performs
catalysis. Other members of this family have lost the
catalytic activity as in the case of the human 4F2hc, or
only have 2 residues that serve as the catalytic
nucleophile and the acid/base, such as Thermus A4
beta-galactosidase with 2 Glu residues (GH42) and human
alpha-galactosidase with 2 Asp residues (GH31). The
family members are quite extensive and include: alpha
amylase, maltosyltransferase, cyclodextrin
glycotransferase, maltogenic amylase, neopullulanase,
isoamylase, 1,4-alpha-D-glucan maltotetrahydrolase,
4-alpha-glucotransferase, oligo-1,6-glucosidase,
amylosucrase, sucrose phosphorylase, and amylomaltase.
Length = 406
Score = 24.0 bits (53), Expect = 9.4
Identities = 8/26 (30%), Positives = 15/26 (57%), Gaps = 5/26 (19%)
Query: 2 YDVDG-----NGVIDIQEMTKIVQAI 22
Y +DG G+ D++ M +I +A+
Sbjct: 189 YKIDGFRFDLMGLHDVETMNEIREAL 214
>gnl|CDD|224074 COG1152, CdhA, CO dehydrogenase/acetyl-CoA synthase alpha subunit
[Energy production and conversion].
Length = 772
Score = 24.0 bits (52), Expect = 9.6
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 27 GACSSNRPADSAEERAKNIFAK 48
G+C SN A + NIFAK
Sbjct: 570 GSCVSNAHIAGAAIKVANIFAK 591
>gnl|CDD|236037 PRK07515, PRK07515, 3-oxoacyl-(acyl carrier protein) synthase III;
Reviewed.
Length = 372
Score = 24.1 bits (53), Expect = 9.6
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 10 IDIQEMTKIVQAIYDMLGACSS 31
I+IQ+ I +DM ACSS
Sbjct: 136 IEIQQALGIEGFAFDMNVACSS 157
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
0.313 0.131 0.366
Gapped
Lambda K H
0.267 0.0908 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,845,096
Number of extensions: 287037
Number of successful extensions: 305
Number of sequences better than 10.0: 1
Number of HSP's gapped: 299
Number of HSP's successfully gapped: 52
Length of query: 78
Length of database: 10,937,602
Length adjustment: 47
Effective length of query: 31
Effective length of database: 8,852,964
Effective search space: 274441884
Effective search space used: 274441884
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (23.9 bits)