RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17264
(75 letters)
>gnl|CDD|222177 pfam13499, EF_hand_5, EF-hand domain pair.
Length = 60
Score = 44.3 bits (105), Expect = 5e-08
Identities = 20/60 (33%), Positives = 35/60 (58%), Gaps = 1/60 (1%)
Query: 1 MYDLDNDDAISRDELLAVLHMMVGANISEEQLTSIAERTILEADQNGDQMISFDEFCKAL 60
+ D D D I +EL +L + G +++E++ + E E D++GD ISF+EF +A+
Sbjct: 2 LLDKDGDGYIDVEELRKLLKAL-GLKLTDEEVEELIEADFNEIDKDGDGRISFEEFLEAM 60
>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 = 43.3 bits (103), Expect = 1e-07
Identities = 23/60 (38%), Positives = 35/60 (58%), Gaps = 5/60 (8%)
Query: 1 MYDLDNDDAISRDELLAVLHMMVGANISEEQLTSIAERTILEADQNGDQMISFDEFCKAL 60
++D D D IS DEL A L + G +SEE++ + I E D++GD I F+EF + +
Sbjct: 8 LFDKDGDGTISADELKAALKSL-GEGLSEEEI----DEMIREVDKDGDGKIDFEEFLELM 62
>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 = 36.9 bits (86), Expect = 2e-04
Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 5/61 (8%)
Query: 2 YDLDNDDAISRDELLAVLHMMVGANISEEQLTSIAERTILEADQNGDQMISFDEFCKALE 61
+D D+D IS EL VL ++ E E+ + E D++GD I ++EF K ++
Sbjct: 101 FDKDHDGYISIGELRRVL-----KSLGERLSDEEVEKLLKEYDEDGDGEIDYEEFKKLIK 155
Query: 62 R 62
Sbjct: 156 D 156
>gnl|CDD|222407 pfam13833, EF_hand_6, EF-hand domain pair.
Length = 53
Score = 34.0 bits (79), Expect = 5e-04
Identities = 21/56 (37%), Positives = 33/56 (58%), Gaps = 5/56 (8%)
Query: 7 DDAISRDELLAVLHMMVGANISEEQLTSIAERTILEADQNGDQMISFDEFCKALER 62
I+R+EL L ++ G ++SEE++ + E D +GD ISF+EFC L+R
Sbjct: 2 KGLITREELKRALALL-GISLSEEEVDIL----FREFDTDGDGKISFEEFCVLLQR 52
>gnl|CDD|185504 PTZ00184, PTZ00184, calmodulin; Provisional.
Length = 149
Score = 31.7 bits (72), Expect = 0.015
Identities = 19/60 (31%), Positives = 34/60 (56%), Gaps = 5/60 (8%)
Query: 1 MYDLDNDDAISRDELLAVLHMMVGANISEEQLTSIAERTILEADQNGDQMISFDEFCKAL 60
++D D + IS EL V+ + G +++E+ + I EAD +GD I+++EF K +
Sbjct: 92 VFDRDGNGFISAAELRHVMTNL-GEKLTDEE----VDEMIREADVDGDGQINYEEFVKMM 146
Score = 26.3 bits (58), Expect = 1.5
Identities = 22/73 (30%), Positives = 38/73 (52%), Gaps = 9/73 (12%)
Query: 1 MYDLDNDDAISRDELLAVLHMMVGANISEEQLTSIAERTILEADQNGDQMISFDEF---- 56
++D D D I+ EL V+ + G N +E +L + I E D +G+ I F EF
Sbjct: 19 LFDKDGDGTITTKELGTVMRSL-GQNPTEAELQDM----INEVDADGNGTIDFPEFLTLM 73
Query: 57 CKALERTDVEQKM 69
+ ++ TD E+++
Sbjct: 74 ARKMKDTDSEEEI 86
>gnl|CDD|185503 PTZ00183, PTZ00183, centrin; Provisional.
Length = 158
Score = 30.0 bits (68), Expect = 0.058
Identities = 22/63 (34%), Positives = 35/63 (55%), Gaps = 5/63 (7%)
Query: 1 MYDLDNDDAISRDELLAVLHMMVGANISEEQLTSIAERTILEADQNGDQMISFDEFCKAL 60
++D D IS L V + G I++E+L + I EAD+NGD IS +EF + +
Sbjct: 98 LFDDDKTGKISLKNLKRVAKEL-GETITDEELQEM----IDEADRNGDGEISEEEFYRIM 152
Query: 61 ERT 63
++T
Sbjct: 153 KKT 155
>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 = 28.0 bits (63), Expect = 0.15
Identities = 16/58 (27%), Positives = 23/58 (39%), Gaps = 7/58 (12%)
Query: 3 DLDNDDAISRDELLAVLHMMVGANISEEQLTSIAERTILEADQNGDQMISFDEFCKAL 60
D D D IS DE L + + L I + AD + D + +EF A+
Sbjct: 9 DPDGDGLISGDEARPFL---GKSGLPRSVLAQIWD----LADTDKDGKLDKEEFAIAM 59
>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 = 25.9 bits (58), Expect = 0.42
Identities = 10/28 (35%), Positives = 17/28 (60%)
Query: 36 AERTILEADQNGDQMISFDEFCKALERT 63
+ E D++GD ISF+EF + L++
Sbjct: 2 LKEAFKEFDKDGDGKISFEEFKELLKKL 29
Score = 22.8 bits (50), Expect = 7.0
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 1 MYDLDNDDAISRDELLAVLHMM 22
+D D D IS +E +L +
Sbjct: 8 EFDKDGDGKISFEEFKELLKKL 29
>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 = 25.4 bits (57), Expect = 0.68
Identities = 8/19 (42%), Positives = 11/19 (57%)
Query: 42 EADQNGDQMISFDEFCKAL 60
D++GD I F+EF L
Sbjct: 8 LFDKDGDGKIDFEEFKDLL 26
Score = 22.7 bits (50), Expect = 7.4
Identities = 6/22 (27%), Positives = 11/22 (50%)
Query: 1 MYDLDNDDAISRDELLAVLHMM 22
++D D D I +E +L +
Sbjct: 8 LFDKDGDGKIDFEEFKDLLKAL 29
>gnl|CDD|218431 pfam05099, TerB, Tellurite resistance protein TerB. This family
contains the TerB tellurite resistance proteins from a
a number of bacteria.
Length = 140
Score = 26.8 bits (60), Expect = 0.86
Identities = 12/67 (17%), Positives = 31/67 (46%), Gaps = 6/67 (8%)
Query: 7 DDAISRDELLAVLHMMVGA-NISEEQLTSIAERTILEADQNGDQMISFDEFCKAL-ERTD 64
D + +E A+ ++ + E+ ++ E A++ + EF +A+ + D
Sbjct: 37 DGQVDEEERQAIRRLLRSRFGLDPEEAAALIE----LAEEAEQEAPDLYEFTRAIKDHFD 92
Query: 65 VEQKMSI 71
EQ++++
Sbjct: 93 YEQRLAL 99
>gnl|CDD|131083 TIGR02028, ChlP, geranylgeranyl reductase. This model represents
the reductase which acts reduces the geranylgeranyl
group to the phytyl group in the side chain of
chlorophyll. It is unclear whether the enzyme has a
preference for acting before or after the attachment of
the side chain to chlorophyllide a by chlorophyll
synthase. This clade is restricted to plants and
cyanobacteria to separate it from the homologues which
act in the biosynthesis of bacteriochlorophyll
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Chlorophyll and bacteriochlorphyll].
Length = 398
Score = 26.4 bits (58), Expect = 1.4
Identities = 9/37 (24%), Positives = 15/37 (40%)
Query: 38 RTILEADQNGDQMISFDEFCKALERTDVEQKMSIRFL 74
I+E + G + + L R D E + + R L
Sbjct: 302 EAIVEESRLGGAVTEEGDLAGYLRRWDKEYRPTYRVL 338
>gnl|CDD|205583 pfam13405, EF_hand_4, EF-hand domain.
Length = 30
Score = 24.5 bits (54), Expect = 1.6
Identities = 8/22 (36%), Positives = 12/22 (54%)
Query: 1 MYDLDNDDAISRDELLAVLHMM 22
++D D D IS +EL L +
Sbjct: 8 LFDKDGDGYISAEELRKALRSL 29
>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 = 25.4 bits (56), Expect = 2.0
Identities = 14/54 (25%), Positives = 29/54 (53%), Gaps = 7/54 (12%)
Query: 7 DDAISRDELLAVLHMMVGANISEEQLTSIAERTILEADQNGDQMISFDEFCKAL 60
++ ++ D++ VL + + ++QL I + AD + D + F+EFC A+
Sbjct: 23 NNKLTGDQVSPVLK---NSRLPDDQLAKIWDL----ADIDSDGKLDFEEFCIAM 69
>gnl|CDD|185056 PRK15101, PRK15101, protease3; Provisional.
Length = 961
Score = 25.7 bits (57), Expect = 2.2
Identities = 12/28 (42%), Positives = 18/28 (64%), Gaps = 2/28 (7%)
Query: 12 RDELL--AVLHMMVGANISEEQLTSIAE 37
RD LL A +V N++EEQ+T++A
Sbjct: 691 RDALLSGATPEFLVVGNLTEEQVTTLAR 718
>gnl|CDD|218647 pfam05591, DUF770, Protein of unknown function (DUF770). This
family consists of several proteins of unknown function
from various bacterial species.
Length = 159
Score = 25.5 bits (57), Expect = 2.2
Identities = 15/62 (24%), Positives = 29/62 (46%), Gaps = 8/62 (12%)
Query: 2 YDLDNDDAISRDELLAVLHMMVG--ANISEEQLTSIAERTILEADQNGDQMISFDEFCKA 59
YD++ A + EL V+ ++G + E+L + ER + D++ FD+ K
Sbjct: 14 YDVETGGAQKKVELPFVM-GVLGDLSGGPTEELPPLEERKFVNIDKDN-----FDDVMKE 67
Query: 60 LE 61
+
Sbjct: 68 MN 69
>gnl|CDD|145817 pfam02864, STAT_bind, STAT protein, DNA binding domain. STAT
proteins (Signal Transducers and Activators of
Transcription) are a family of transcription factors
that are specifically activated to regulate gene
transcription when cells encounter cytokines and growth
factors. This family represents the DNA binding domain
of STAT, which has an ig-like fold. STAT proteins also
include an SH2 domain pfam00017.
Length = 254
Score = 25.5 bits (56), Expect = 2.3
Identities = 15/55 (27%), Positives = 25/55 (45%), Gaps = 4/55 (7%)
Query: 8 DAISRDELLAVLHMM----VGANISEEQLTSIAERTILEADQNGDQMISFDEFCK 58
++ +L VL VG ++ EQL +AE+ + IS+ +FCK
Sbjct: 177 PRVTWAQLSEVLSWQFSSEVGRGLNIEQLGFLAEKLFGQNSSYSGGSISWSQFCK 231
>gnl|CDD|235855 PRK06707, PRK06707, amidase; Provisional.
Length = 536
Score = 25.6 bits (56), Expect = 3.0
Identities = 16/38 (42%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 19 LHMMVG-ANISEEQLTSIAERTILEADQNGDQMISFDE 55
L M+ +S E+LTSI I E DQNG + S E
Sbjct: 76 LQKMIDDGKLSYEELTSIYLFRIQEHDQNGITLNSVTE 113
>gnl|CDD|143414 cd07095, ALDH_SGSD_AstD, N-succinylglutamate 5-semialdehyde
dehydrogenase, AstD-like. N-succinylglutamate
5-semialdehyde dehydrogenase or succinylglutamic
semialdehyde dehydrogenase (SGSD, E. coli AstD,
EC=1.2.1.71) involved in L-arginine degradation via the
arginine succinyltransferase (AST) pathway and catalyzes
the NAD+-dependent reduction of succinylglutamate
semialdehyde into succinylglutamate.
Length = 431
Score = 24.9 bits (55), Expect = 4.1
Identities = 10/49 (20%), Positives = 21/49 (42%), Gaps = 2/49 (4%)
Query: 17 AVLHMMVGANISEEQLTSIAERTILEADQNGDQMISFDEFCKALERTDV 65
A ++ A ++ Q + A R I+ GD + + +A +R +
Sbjct: 224 AAYLIVQSAFLTAGQRCTCARRLIVPDGAVGDAFL--ERLVEAAKRLRI 270
>gnl|CDD|188311 TIGR03381, agmatine_aguB, N-carbamoylputrescine amidase. Members
of this family are N-carbamoylputrescine amidase
(3.5.1.53). Bacterial genes are designated AguB. The
AguAB pathway replaces SpeB for conversion of agmatine
to putrescine in two steps rather than one [Central
intermediary metabolism, Polyamine biosynthesis].
Length = 279
Score = 25.0 bits (55), Expect = 4.7
Identities = 15/49 (30%), Positives = 20/49 (40%), Gaps = 8/49 (16%)
Query: 16 LAVLHMMVGANISEEQLTSIAERTILEADQNGDQMISFDE------FCK 58
+A L M ++ AER + EA G Q+I E FCK
Sbjct: 3 VAALQMACSDDVETNIAR--AERLVREAAARGAQIILLPELFEGPYFCK 49
>gnl|CDD|218957 pfam06251, Caps_synth_GfcC, Capsule biosynthesis GfcC. Many
bacteria are covered in a layer of surface-associated
polysaccharide called the capsule. These capsules can
be divided into four groups depending upon the
organisation of genes responsible for capsule assembly,
the assembly pathway and regulation. This family plays
a role in group 4 capsule biosynthesis. These proteins
have a beta-grasp fold. Two beta-grasp domains, D2 and
D3, are arranged in tandem. There is a C-terminal
amphipathic helix which packs against D3. A helical
hairpin insert in D2 binds to D3 and constrains its
position, a conserved arginine residue at the end of
this hairpin is essential for structural integrity.
Length = 227
Score = 24.6 bits (54), Expect = 5.3
Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 9/47 (19%)
Query: 24 GANISEEQLTSIAER---------TILEADQNGDQMISFDEFCKALE 61
GA + + Q T+ AER L A + DQ + ++ + L
Sbjct: 42 GAALFDLQATAKAERQRQHVLAQLAELAASADSDQAAAINQLRQQLR 88
>gnl|CDD|222790 PHA00430, PHA00430, tail fiber protein.
Length = 568
Score = 24.9 bits (54), Expect = 5.5
Identities = 12/40 (30%), Positives = 19/40 (47%), Gaps = 4/40 (10%)
Query: 25 ANISEEQLTSIAERTILEADQNGDQMISFDEFCKALERTD 64
A S + A+R EAD+ G+ + F A+E+ D
Sbjct: 269 AATSANRAKQQADRAKTEADKLGN----MNGFAGAIEKVD 304
>gnl|CDD|143596 cd07572, nit, Nit1, Nit 2, and related proteins, and the
Nit1-like domain of NitFhit (class 10 nitrilases).
This subgroup includes mammalian Nit1 and Nit2, the
Nit1-like domain of the invertebrate NitFhit, and
various uncharacterized bacterial and archaeal Nit-like
proteins. Nit1 and Nit2 are candidate tumor suppressor
proteins. In NitFhit, the Nit1-like domain is encoded
as a fusion protein with the non-homologous tumor
suppressor, fragile histidine triad (Fhit). Mammalian
Nit1 and Fhit may affect distinct signal pathways, and
both may participate in DNA damage-induced apoptosis.
Nit1 is a negative regulator in T cells. Overexpression
of Nit2 in HeLa cells leads to a suppression of cell
growth through cell cycle arrest in G2. These Nit
proteins and the Nit1-like domain of NitFhit belong to
a larger nitrilase superfamily comprised of nitrile- or
amide-hydrolyzing enzymes and amide-condensing enzymes,
which depend on a Glu-Lys-Cys catalytic triad. This
superfamily has been classified in the literature based
on global and structure based sequence analysis into
thirteen different enzyme classes (referred to as
1-13), this subgroup corresponds to class 10.
Length = 265
Score = 24.3 bits (54), Expect = 6.6
Identities = 13/50 (26%), Positives = 22/50 (44%), Gaps = 2/50 (4%)
Query: 15 LLAVLHMMVGANISEEQLTSIAERTILEADQNGDQMISFDEFCKALERTD 64
+A++ M A+ E L + A+ I EA G +++ E TD
Sbjct: 1 RVALIQMTSTADK-EANL-ARAKELIEEAAAQGAKLVVLPECFNYPGGTD 48
>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 = 23.6 bits (52), Expect = 7.1
Identities = 13/61 (21%), Positives = 21/61 (34%), Gaps = 18/61 (29%)
Query: 6 NDDAISRDELLAVLHMMVGANISEEQLTSIAERTILEA---------DQNGDQMISFDEF 56
+ D +S+ EL +L E +L + + D N D + F EF
Sbjct: 23 DKDTLSKKELKELL---------ETELPNFLKNQKDPEAVDKIMKDLDVNKDGKVDFQEF 73
Query: 57 C 57
Sbjct: 74 L 74
>gnl|CDD|233058 TIGR00625, tfb2, Transcription factor tfb2. All proteins in this
family are part of the TFIIH complex which is involved
in the initiation of transcription and nucleotide
excision repair.This family is based on the phylogenomic
analysis of JA Eisen (1999, Ph.D. Thesis, Stanford
University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 448
Score = 24.5 bits (53), Expect = 7.7
Identities = 11/42 (26%), Positives = 21/42 (50%), Gaps = 3/42 (7%)
Query: 3 DLDNDDAISRDELLAVLHMMVG---ANISEEQLTSIAERTIL 41
D+D+ D + + +LH MVG A + E + + ++ L
Sbjct: 126 DVDSLDKYAEERWETILHFMVGTPSAKVPSEDVLQLLKQAGL 167
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
0.318 0.132 0.350
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: 3,749,618
Number of extensions: 286689
Number of successful extensions: 346
Number of sequences better than 10.0: 1
Number of HSP's gapped: 342
Number of HSP's successfully gapped: 40
Length of query: 75
Length of database: 10,937,602
Length adjustment: 45
Effective length of query: 30
Effective length of database: 8,941,672
Effective search space: 268250160
Effective search space used: 268250160
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 (21.7 bits)
S2: 53 (23.9 bits)