RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11746
(172 letters)
>gnl|CDD|197477 smart00027, EH, Eps15 homology domain. Pair of EF hand motifs that
recognise proteins containing Asn-Pro-Phe (NPF)
sequences.
Length = 96
Score = 129 bits (327), Expect = 8e-40
Identities = 54/96 (56%), Positives = 68/96 (70%), Gaps = 2/96 (2%)
Query: 72 DWIVN-KDRHKYDSIFSSLNP-VDGKVTGANAKAEMVKSKLPNSVLGKIWKLSDVDKDGF 129
W ++ +D+ KY+ IF SL+ DG VTGA AK ++KS LP ++L KIW L+D+D DG
Sbjct: 1 PWAISPEDKAKYEQIFRSLDKNQDGTVTGAQAKPILLKSGLPQTLLAKIWNLADIDNDGE 60
Query: 130 LDADEFALAMHLIQVKIGGYDIPTELPDHLVPPSKR 165
LD DEFALAMHLI K+ GY IP LP L+PPSKR
Sbjct: 61 LDKDEFALAMHLIYRKLNGYPIPASLPPSLIPPSKR 96
>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 = 94.6 bits (236), Expect = 3e-26
Identities = 36/65 (55%), Positives = 46/65 (70%), Gaps = 1/65 (1%)
Query: 82 YDSIFSSLNPV-DGKVTGANAKAEMVKSKLPNSVLGKIWKLSDVDKDGFLDADEFALAMH 140
YD IF SL+P DG ++G A+ + KS LP SVL +IW L+D DKDG LD +EFA+AMH
Sbjct: 1 YDQIFRSLDPDGDGLISGDEARPFLGKSGLPRSVLAQIWDLADTDKDGKLDKEEFAIAMH 60
Query: 141 LIQVK 145
LI +
Sbjct: 61 LIALA 65
>gnl|CDD|193239 pfam12763, efhand_3, Cytoskeletal-regulatory complex EF hand. This
is an efhand family from the N-terminal of actin
cytoskeleton-regulatory complex END3 and similar
proteins from fungi and closely related species.
Length = 104
Score = 93.6 bits (233), Expect = 2e-25
Identities = 42/87 (48%), Positives = 53/87 (60%), Gaps = 2/87 (2%)
Query: 81 KYDSIFSSLNPVDGKVTGANAKAEMVKSKLPNSVLGKIWKLSDVDKDGFLDADEFALAMH 140
KY IFS L P + K+TG + S+LP+ L KIW L+D+D DG LD +EF +AM
Sbjct: 11 KYWEIFSGLKPENNKLTGDQVSPVLKNSRLPDDQLAKIWDLADIDSDGKLDFEEFCIAMR 70
Query: 141 LIQVKIGGY--DIPTELPDHLVPPSKR 165
LI + G D+P ELPD LVP SK
Sbjct: 71 LIFDLVNGNIADVPDELPDWLVPGSKA 97
>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 = 32.0 bits (74), Expect = 0.011
Identities = 7/26 (26%), Positives = 13/26 (50%)
Query: 117 KIWKLSDVDKDGFLDADEFALAMHLI 142
+ +K D D DG + +EF + +
Sbjct: 4 EAFKEFDKDGDGKISFEEFKELLKKL 29
>gnl|CDD|115805 pfam07175, Osteoregulin, Osteoregulin. This family represents a
conserved region approximately 180 residues long within
osteoregulin, a bone-remodelling protein expressed
highly in osteocytes within trabecular and cortical
bone. A conserved RGD motif is found towards the
C-terminal end of this region, and this is potentially
involved in integrin recognition.
Length = 163
Score = 32.7 bits (74), Expect = 0.046
Identities = 16/58 (27%), Positives = 25/58 (43%)
Query: 61 GEGIDAGQGEPDWIVNKDRHKYDSIFSSLNPVDGKVTGANAKAEMVKSKLPNSVLGKI 118
+G + G + +++R+ + + PV VTG E K K P SVL I
Sbjct: 30 NKGTEDGDDAILHLHDQERYGAALLRNITQPVKSLVTGIELLGEENKEKTPQSVLSVI 87
>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 = 29.3 bits (67), Expect = 0.087
Identities = 8/26 (30%), Positives = 15/26 (57%)
Query: 117 KIWKLSDVDKDGFLDADEFALAMHLI 142
+ ++L D D DG +D +EF + +
Sbjct: 4 EAFRLFDKDGDGKIDFEEFKDLLKAL 29
>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 = 29.8 bits (68), Expect = 0.11
Identities = 9/26 (34%), Positives = 15/26 (57%)
Query: 117 KIWKLSDVDKDGFLDADEFALAMHLI 142
+ ++L D D DG + ADE A+ +
Sbjct: 4 EAFRLFDKDGDGTISADELKAALKSL 29
Score = 25.2 bits (56), Expect = 6.3
Identities = 13/50 (26%), Positives = 23/50 (46%), Gaps = 2/50 (4%)
Query: 93 DGKVTGANAKA--EMVKSKLPNSVLGKIWKLSDVDKDGFLDADEFALAMH 140
DG ++ KA + + L + ++ + D D DG +D +EF M
Sbjct: 14 DGTISADELKAALKSLGEGLSEEEIDEMIREVDKDGDGKIDFEEFLELMA 63
>gnl|CDD|225968 COG3434, COG3434, Predicted signal transduction protein containing
EAL and modified HD-GYP domains [Signal transduction
mechanisms].
Length = 407
Score = 30.8 bits (70), Expect = 0.28
Identities = 9/28 (32%), Positives = 19/28 (67%)
Query: 10 LQVVDKMLSEDIAHLMQQIPMDDEARVA 37
++D++L EDI L++++P+ +E A
Sbjct: 321 FSLLDELLDEDIESLVRELPISEEVVQA 348
>gnl|CDD|182681 PRK10727, PRK10727, DNA-binding transcriptional regulator GalR;
Provisional.
Length = 343
Score = 30.9 bits (70), Expect = 0.33
Identities = 12/26 (46%), Positives = 16/26 (61%), Gaps = 1/26 (3%)
Query: 5 HTCFVLQVVDKMLS-EDIAHLMQQIP 29
H C L V KM+ ++A LM+QIP
Sbjct: 114 HRCAALVVHAKMIPDAELASLMKQIP 139
>gnl|CDD|205583 pfam13405, EF_hand_4, EF-hand domain.
Length = 30
Score = 27.9 bits (63), Expect = 0.34
Identities = 10/28 (35%), Positives = 17/28 (60%)
Query: 115 LGKIWKLSDVDKDGFLDADEFALAMHLI 142
L + +KL D D DG++ A+E A+ +
Sbjct: 2 LREAFKLFDKDGDGYISAEELRKALRSL 29
>gnl|CDD|205383 pfam13202, EF_hand_3, EF hand.
Length = 25
Score = 26.1 bits (59), Expect = 1.3
Identities = 4/17 (23%), Positives = 8/17 (47%)
Query: 123 DVDKDGFLDADEFALAM 139
D + DG + +E +
Sbjct: 9 DTNGDGKISKEELKRLL 25
>gnl|CDD|215221 PLN02394, PLN02394, trans-cinnamate 4-monooxygenase.
Length = 503
Score = 28.9 bits (65), Expect = 1.3
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 139 MHLIQVKIGGYDIPTE 154
M+L K+GGYDIP E
Sbjct: 376 MNLEDAKLGGYDIPAE 391
>gnl|CDD|222177 pfam13499, EF_hand_5, EF-hand domain pair.
Length = 60
Score = 26.6 bits (59), Expect = 1.7
Identities = 7/33 (21%), Positives = 17/33 (51%)
Query: 123 DVDKDGFLDADEFALAMHLIQVKIGGYDIPTEL 155
D D DG++D +E + + +K+ ++ +
Sbjct: 4 DKDGDGYIDVEELRKLLKALGLKLTDEEVEELI 36
Score = 25.8 bits (57), Expect = 3.1
Identities = 8/23 (34%), Positives = 11/23 (47%)
Query: 117 KIWKLSDVDKDGFLDADEFALAM 139
+ D D DG + +EF AM
Sbjct: 38 ADFNEIDKDGDGRISFEEFLEAM 60
>gnl|CDD|198330 cd10297, GST_C_CLIC5, C-terminal, alpha helical domain of Chloride
Intracellular Channel 5. Glutathione S-transferase
(GST) C-terminal domain family, Chloride Intracellular
Channel (CLIC) 5 subfamily; CLICs are auto-inserting,
self-assembling intracellular anion channels involved in
a wide variety of functions including regulated
secretion, cell division, and apoptosis. They can exist
in both water-soluble and membrane-bound states and are
found in various vesicles and membranes, and they may
play roles in the maintenance of these intracellular
membranes. The membrane localization domain is present
in the N-terminal part of the protein. Structures of
soluble CLICs reveal that they adopt a fold similar to
GSTs, containing an N-terminal domain with a thioredoxin
fold and a C-terminal alpha helical domain. CLIC5 exists
in two alternatively-spliced isoforms, CLIC5A or CLIC5B
(also called p64). It is expressed at high levels in
hair cell stereocilia and is associated with the actin
cytoskeleton and ezrin. A recessive mutation in the
CLIC5 gene in mice led to the lack of coordination and
deafness, due to a defect in the basal region of the
hair bundle causing stereocilia to degrade. CLIC5 is
therefore essential for normal inner ear function. CLIC5
is also highly expressed in podocytes where it is
colocalized with the ezrin/radixin/moesin (ERM) complex.
It is essential for foot process integrity, and for
podocyte morphology and function.
Length = 141
Score = 27.6 bits (61), Expect = 2.1
Identities = 14/62 (22%), Positives = 29/62 (46%), Gaps = 10/62 (16%)
Query: 104 EMVKSKLPNSVLGKIWKLSDVDKDGFLDADEFALA-------MHLIQV---KIGGYDIPT 153
+ + + LP + + V FLD DE LA +H++++ K ++IP+
Sbjct: 43 DYLNTPLPEEIDADSTEEEKVSNRKFLDGDELTLADCNLLPKLHVVKIVAKKYRNFEIPS 102
Query: 154 EL 155
++
Sbjct: 103 DM 104
>gnl|CDD|176767 cd08789, CARD_IPS-1_RIG-I, Caspase activation and recruitment
domains (CARDs) found in IPS-1 and RIG-I-like RNA
helicases. Caspase activation and recruitment domains
(CARDs) found in IPS-1 (Interferon beta promoter
stimulator protein 1) and Retinoic acid Inducible Gene
I (RIG-I)-like DEAD box helicases. RIG-I-like helicases
and IPS-1 play important roles in the induction of
interferons in response to viral infection. They are
crucial in triggering innate immunity and in developing
adaptive immunity against viral pathogens. RIG-I-like
helicases, including MDA5 and RIG-I, contain two
N-terminal CARD domains and a C-terminal DEAD box RNA
helicase domain. They are cytoplasmic RNA helicases
that play an important role in host antiviral response
by sensing incoming viral RNA. Upon activation, the
signal is transferred to downstream pathways via the
adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to
the induction of type I interferons. MDA5 and RIG-I
associate with IPS-1 through a CARD-CARD interaction.
In general, CARDs are death domains (DDs) found
associated with caspases. They are known to be
important in the signaling pathways for apoptosis,
inflammation, and host-defense mechanisms. DDs are
protein-protein interaction domains found in a variety
of domain architectures. Their common feature is that
they form homodimers by self-association or
heterodimers by associating with other members of the
DD superfamily including PYRIN and DED (Death Effector
Domain). They serve as adaptors in signaling pathways
and can recruit other proteins into signaling
complexes.
Length = 84
Score = 25.8 bits (57), Expect = 6.2
Identities = 7/43 (16%), Positives = 17/43 (39%)
Query: 7 CFVLQVVDKMLSEDIAHLMQQIPMDDEARVAAPVLKGGAFDGV 49
C ++V + E++ + + +D+ R+ A G
Sbjct: 9 CRRVRVFFHIDVEEVLPYLTCLTAEDKERIQAAENNSGNIKAA 51
>gnl|CDD|219848 pfam08451, A_deaminase_N, Adenosine/AMP deaminase N-terminal. This
domain is found to the N-terminus of the Adenosine/AMP
deaminase domain (pfam00962) in metazoan proteins such
as the Cat eye syndrome critical region protein 1 and
its homologues.
Length = 95
Score = 25.7 bits (57), Expect = 6.7
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 126 KDGFLDADEFALAMHLIQVK 145
+GFL+ +F AMH + K
Sbjct: 64 VEGFLNPSQFPPAMHFFKAK 83
>gnl|CDD|215520 PLN02964, PLN02964, phosphatidylserine decarboxylase.
Length = 644
Score = 26.7 bits (59), Expect = 7.3
Identities = 18/62 (29%), Positives = 27/62 (43%), Gaps = 13/62 (20%)
Query: 84 SIFSSLNPVDGKVTGANAKAEMVKSKLPNSVLGKIWKLSDVDKDGFLDADEFALAMHLIQ 143
S FS L G + AN K E+ K+ +D++ DG + DE A + L Q
Sbjct: 199 SEFSDLIKAFGNLVAANKKEELFKA-------------ADLNGDGVVTIDELAALLALQQ 245
Query: 144 VK 145
+
Sbjct: 246 EQ 247
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
0.317 0.138 0.415
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: 9,095,595
Number of extensions: 844445
Number of successful extensions: 658
Number of sequences better than 10.0: 1
Number of HSP's gapped: 656
Number of HSP's successfully gapped: 31
Length of query: 172
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 82
Effective length of database: 6,945,742
Effective search space: 569550844
Effective search space used: 569550844
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: 55 (24.6 bits)