RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15327
(127 letters)
>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 = 94.7 bits (236), Expect = 7e-26
Identities = 37/117 (31%), Positives = 61/117 (52%), Gaps = 14/117 (11%)
Query: 1 FAEHVFRTFDANGDGTIDFREFLCALSVTS-RGKLEQKLRWAFSMYDLDGNGYISRNEML 59
+F DA G+ T+DF EFL +SV RG E++LR AF ++D D +GYIS E+
Sbjct: 57 EINKLFEEIDA-GNETVDFPEFLTVMSVKLKRGDKEEELREAFKLFDKDHDGYISIGELR 115
Query: 60 EIVQAIYKMVGTVMKMPEDESTPEKRTDKIFRQMDKNQDGRLSLEEFIEGAKSDPSI 116
+++ E ++ +K+ ++ D++ DG + EEF + K P+I
Sbjct: 116 RVLK------------SLGERLSDEEVEKLLKEYDEDGDGEIDYEEFKKLIKDSPTI 160
Score = 36.9 bits (86), Expect = 6e-04
Identities = 25/101 (24%), Positives = 44/101 (43%), Gaps = 24/101 (23%)
Query: 36 QKLRWAFSMYDLDGNGYISRNEMLEIVQAI------------------------YKMVGT 71
Q+L+ AF ++D D +G I RNE+ +I++++ + T
Sbjct: 20 QELKEAFQLFDRDSDGLIDRNELGKILRSLGFNPSEAEINKLFEEIDAGNETVDFPEFLT 79
Query: 72 VMKMPEDESTPEKRTDKIFRQMDKNQDGRLSLEEFIEGAKS 112
VM + E+ + F+ DK+ DG +S+ E KS
Sbjct: 80 VMSVKLKRGDKEEELREAFKLFDKDHDGYISIGELRRVLKS 120
>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 = 69.1 bits (170), Expect = 6e-17
Identities = 23/75 (30%), Positives = 42/75 (56%), Gaps = 12/75 (16%)
Query: 37 KLRWAFSMYDLDGNGYISRNEMLEIVQAIYKMVGTVMKMPEDESTPEKRTDKIFRQMDKN 96
+LR AF ++D DG+G IS +E+ ++++ E E+ D++ R++DK+
Sbjct: 1 ELREAFRLFDKDGDGTISADELKAALKSLG------------EGLSEEEIDEMIREVDKD 48
Query: 97 QDGRLSLEEFIEGAK 111
DG++ EEF+E
Sbjct: 49 GDGKIDFEEFLELMA 63
Score = 68.7 bits (169), Expect = 8e-17
Identities = 22/62 (35%), Positives = 29/62 (46%)
Query: 2 AEHVFRTFDANGDGTIDFREFLCALSVTSRGKLEQKLRWAFSMYDLDGNGYISRNEMLEI 61
FR FD +GDGTI E AL G E+++ D DG+G I E LE+
Sbjct: 2 LREAFRLFDKDGDGTISADELKAALKSLGEGLSEEEIDEMIREVDKDGDGKIDFEEFLEL 61
Query: 62 VQ 63
+
Sbjct: 62 MA 63
Score = 29.1 bits (66), Expect = 0.14
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 88 KIFRQMDKNQDGRLSLEEFIEGAKS 112
+ FR DK+ DG +S +E KS
Sbjct: 4 EAFRLFDKDGDGTISADELKAALKS 28
>gnl|CDD|185504 PTZ00184, PTZ00184, calmodulin; Provisional.
Length = 149
Score = 56.7 bits (137), Expect = 2e-11
Identities = 33/99 (33%), Positives = 58/99 (58%), Gaps = 13/99 (13%)
Query: 10 DANGDGTIDFREFLCALSVTSR-GKLEQKLRWAFSMYDLDGNGYISRNEMLEIVQAIYKM 68
DA+G+GTIDF EFL ++ + E++++ AF ++D DGNG+IS E+ + M
Sbjct: 57 DADGNGTIDFPEFLTLMARKMKDTDSEEEIKEAFKVFDRDGNGFISAAELRHV------M 110
Query: 69 VGTVMKMPEDESTPEKRTDKIFRQMDKNQDGRLSLEEFI 107
K+ ++E D++ R+ D + DG+++ EEF+
Sbjct: 111 TNLGEKLTDEE------VDEMIREADVDGDGQINYEEFV 143
Score = 28.2 bits (63), Expect = 0.79
Identities = 20/72 (27%), Positives = 35/72 (48%), Gaps = 12/72 (16%)
Query: 36 QKLRWAFSMYDLDGNGYISRNEMLEIVQAIYKMVGTVMKMPEDESTPEKRTDKIFRQMDK 95
+ + AFS++D DG+G I+ E+ GTVM+ T + D I ++D
Sbjct: 11 AEFKEAFSLFDKDGDGTITTKEL-----------GTVMRSLGQNPTEAELQDMI-NEVDA 58
Query: 96 NQDGRLSLEEFI 107
+ +G + EF+
Sbjct: 59 DGNGTIDFPEFL 70
>gnl|CDD|222177 pfam13499, EF_hand_5, EF-hand domain pair.
Length = 60
Score = 50.1 bits (120), Expect = 2e-09
Identities = 22/66 (33%), Positives = 41/66 (62%), Gaps = 8/66 (12%)
Query: 43 SMYDLDGNGYISRNEMLEIVQAIYKMVGTVMKMPEDESTPEKRTDKIFRQMDKNQDGRLS 102
+ D DG+GYI E+ ++++A+ +K+ ++E E+ + F ++DK+ DGR+S
Sbjct: 1 KLLDKDGDGYIDVEELRKLLKALG------LKLTDEEV--EELIEADFNEIDKDGDGRIS 52
Query: 103 LEEFIE 108
EEF+E
Sbjct: 53 FEEFLE 58
Score = 41.2 bits (97), Expect = 4e-06
Identities = 19/60 (31%), Positives = 29/60 (48%), Gaps = 4/60 (6%)
Query: 7 RTFDANGDGTIDFREFLCAL----SVTSRGKLEQKLRWAFSMYDLDGNGYISRNEMLEIV 62
+ D +GDG ID E L + ++E+ + F+ D DG+G IS E LE +
Sbjct: 1 KLLDKDGDGYIDVEELRKLLKALGLKLTDEEVEELIEADFNEIDKDGDGRISFEEFLEAM 60
Score = 30.4 bits (69), Expect = 0.041
Identities = 12/26 (46%), Positives = 14/26 (53%)
Query: 1 FAEHVFRTFDANGDGTIDFREFLCAL 26
E F D +GDG I F EFL A+
Sbjct: 35 LIEADFNEIDKDGDGRISFEEFLEAM 60
Score = 25.4 bits (56), Expect = 3.4
Identities = 7/22 (31%), Positives = 14/22 (63%)
Query: 91 RQMDKNQDGRLSLEEFIEGAKS 112
+ +DK+ DG + +EE + K+
Sbjct: 1 KLLDKDGDGYIDVEELRKLLKA 22
>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 = 38.1 bits (90), Expect = 3e-05
Identities = 10/29 (34%), Positives = 20/29 (68%)
Query: 37 KLRWAFSMYDLDGNGYISRNEMLEIVQAI 65
+L+ AF ++D DG+G I E ++++A+
Sbjct: 1 ELKEAFRLFDKDGDGKIDFEEFKDLLKAL 29
Score = 33.5 bits (78), Expect = 0.001
Identities = 13/23 (56%), Positives = 14/23 (60%)
Query: 5 VFRTFDANGDGTIDFREFLCALS 27
FR FD +GDG IDF EF L
Sbjct: 5 AFRLFDKDGDGKIDFEEFKDLLK 27
Score = 32.7 bits (76), Expect = 0.003
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 87 DKIFRQMDKNQDGRLSLEEFIEGAKS 112
+ FR DK+ DG++ EEF + K+
Sbjct: 3 KEAFRLFDKDGDGKIDFEEFKDLLKA 28
>gnl|CDD|222407 pfam13833, EF_hand_6, EF-hand domain pair.
Length = 53
Score = 38.6 bits (91), Expect = 3e-05
Identities = 14/45 (31%), Positives = 21/45 (46%)
Query: 13 GDGTIDFREFLCALSVTSRGKLEQKLRWAFSMYDLDGNGYISRNE 57
G I E AL++ E+++ F +D DG+G IS E
Sbjct: 1 EKGLITREELKRALALLGISLSEEEVDILFREFDTDGDGKISFEE 45
Score = 32.5 bits (75), Expect = 0.006
Identities = 17/60 (28%), Positives = 30/60 (50%), Gaps = 12/60 (20%)
Query: 49 GNGYISRNEMLEIVQAIYKMVGTVMKMPEDESTPEKRTDKIFRQMDKNQDGRLSLEEFIE 108
G I+R E+ + ++G + + E+E D +FR+ D + DG++S EEF
Sbjct: 1 EKGLITREEL----KRALALLG--ISLSEEE------VDILFREFDTDGDGKISFEEFCV 48
Score = 29.4 bits (67), Expect = 0.081
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 2 AEHVFRTFDANGDGTIDFREFL 23
+ +FR FD +GDG I F EF
Sbjct: 26 VDILFREFDTDGDGKISFEEFC 47
>gnl|CDD|185503 PTZ00183, PTZ00183, centrin; Provisional.
Length = 158
Score = 40.8 bits (96), Expect = 3e-05
Identities = 28/98 (28%), Positives = 47/98 (47%), Gaps = 11/98 (11%)
Query: 6 FRTFDANGDGTIDFREFLCALSVTSRGKLEQKLRWAFSMYDLDGNGYISRNEMLEIVQAI 65
F FD +G GTID +E A+ +++++ + D DG+G I E L+I+
Sbjct: 23 FDLFDTDGSGTIDPKELKVAMRSLGFEPKKEEIKQMIADVDKDGSGKIDFEEFLDIMTK- 81
Query: 66 YKMVGTVMKMPEDESTPEKRTDKIFRQMDKNQDGRLSL 103
K+ E + P + K FR D ++ G++SL
Sbjct: 82 --------KLGERD--PREEILKAFRLFDDDKTGKISL 109
Score = 33.5 bits (77), Expect = 0.012
Identities = 18/74 (24%), Positives = 38/74 (51%), Gaps = 12/74 (16%)
Query: 35 EQKLRWAFSMYDLDGNGYISRNEMLEIVQAIYKMVGTVMKMPEDESTPEKRTDKIFRQMD 94
++++R AF ++D DG+G I E+ ++++ G K E ++ +D
Sbjct: 16 KKEIREAFDLFDTDGSGTIDPKELKVAMRSL----GFEPKKEE--------IKQMIADVD 63
Query: 95 KNQDGRLSLEEFIE 108
K+ G++ EEF++
Sbjct: 64 KDGSGKIDFEEFLD 77
>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 = 37.9 bits (89), Expect = 1e-04
Identities = 15/61 (24%), Positives = 33/61 (54%), Gaps = 8/61 (13%)
Query: 48 DGNGY-ISRNEMLEIVQAIYKMVGTVMKMPEDESTPEKRTDKIFRQMDKNQDGRLSLEEF 106
+G+ +S+ E+ E+++ + +K +D DKI + +D N+DG++ +EF
Sbjct: 21 EGDKDTLSKKELKELLE---TELPNFLKNQKDPEA----VDKIMKDLDVNKDGKVDFQEF 73
Query: 107 I 107
+
Sbjct: 74 L 74
Score = 30.5 bits (70), Expect = 0.065
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 3 EHVFRTFDANGDGTIDFREFL 23
+ + + D N DG +DF+EFL
Sbjct: 54 DKIMKDLDVNKDGKVDFQEFL 74
>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 = 37.2 bits (87), Expect = 2e-04
Identities = 17/66 (25%), Positives = 26/66 (39%), Gaps = 14/66 (21%)
Query: 42 FSMYDLDGNGYISRNEMLEIVQAIYKMVGTVMKMPEDESTPEKRTDKIFRQMDKNQDGRL 101
F D DG+G IS +E + +P +I+ D ++DG+L
Sbjct: 5 FRSLDPDGDGLISGDEARPFLGKS--------GLPRSV------LAQIWDLADTDKDGKL 50
Query: 102 SLEEFI 107
EEF
Sbjct: 51 DKEEFA 56
Score = 25.6 bits (57), Expect = 2.7
Identities = 8/16 (50%), Positives = 12/16 (75%)
Query: 87 DKIFRQMDKNQDGRLS 102
D+IFR +D + DG +S
Sbjct: 2 DQIFRSLDPDGDGLIS 17
>gnl|CDD|183426 PRK12309, PRK12309, transaldolase/EF-hand domain-containing
protein; Provisional.
Length = 391
Score = 37.8 bits (88), Expect = 5e-04
Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 25/68 (36%)
Query: 42 FSMYDLDGNGYISRNEMLEIVQAIYKMVGTVMKMPEDESTPEKRTDKIFRQMDKNQDGRL 101
F +YDLDG+G+I+R E L +D +F +D N DG++
Sbjct: 340 FRLYDLDGDGFITREEWLG-------------------------SDAVFDALDLNHDGKI 374
Query: 102 SLEEFIEG 109
+ EE G
Sbjct: 375 TPEEMRAG 382
Score = 30.1 bits (68), Expect = 0.24
Identities = 19/69 (27%), Positives = 32/69 (46%), Gaps = 13/69 (18%)
Query: 2 AEHVFRTFDANGDGTIDFREFLCALSVTSRGKLEQKLRWAFSMYDLDGNGYISRNEMLEI 61
A+ +FR +D +GDG I E+L + +V F DL+ +G I+ EM
Sbjct: 336 AQEIFRLYDLDGDGFITREEWLGSDAV-------------FDALDLNHDGKITPEEMRAG 382
Query: 62 VQAIYKMVG 70
+ A ++
Sbjct: 383 LGAALRLAT 391
>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 = 34.7 bits (81), Expect = 6e-04
Identities = 11/29 (37%), Positives = 19/29 (65%)
Query: 37 KLRWAFSMYDLDGNGYISRNEMLEIVQAI 65
+L+ AF +D DG+G IS E E+++ +
Sbjct: 1 ELKEAFKEFDKDGDGKISFEEFKELLKKL 29
Score = 34.0 bits (79), Expect = 0.001
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 2 AEHVFRTFDANGDGTIDFREFLCALS 27
+ F+ FD +GDG I F EF L
Sbjct: 2 LKEAFKEFDKDGDGKISFEEFKELLK 27
Score = 33.2 bits (77), Expect = 0.002
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 87 DKIFRQMDKNQDGRLSLEEFIEGAKS 112
+ F++ DK+ DG++S EEF E K
Sbjct: 3 KEAFKEFDKDGDGKISFEEFKELLKK 28
>gnl|CDD|205383 pfam13202, EF_hand_3, EF hand.
Length = 25
Score = 33.4 bits (78), Expect = 0.002
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 3 EHVFRTFDANGDGTIDFREF 22
+ +FR FD NGDG I E
Sbjct: 2 KDLFRQFDTNGDGKISKEEL 21
Score = 32.6 bits (76), Expect = 0.003
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 87 DKIFRQMDKNQDGRLSLEEFIE 108
+FRQ D N DG++S EE
Sbjct: 2 KDLFRQFDTNGDGKISKEELKR 23
Score = 26.5 bits (60), Expect = 0.75
Identities = 7/22 (31%), Positives = 14/22 (63%)
Query: 41 AFSMYDLDGNGYISRNEMLEIV 62
F +D +G+G IS+ E+ ++
Sbjct: 4 LFRQFDTNGDGKISKEELKRLL 25
>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 = 34.2 bits (79), Expect = 0.003
Identities = 15/26 (57%), Positives = 19/26 (73%)
Query: 83 EKRTDKIFRQMDKNQDGRLSLEEFIE 108
+K DKIF +D NQDG+LS EEF+
Sbjct: 50 QKAIDKIFEDLDTNQDGQLSFEEFLV 75
Score = 30.4 bits (69), Expect = 0.074
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 2 AEHVFRTFDANGDGTIDFREFL 23
+ +F D N DG + F EFL
Sbjct: 53 IDKIFEDLDTNQDGQLSFEEFL 74
>gnl|CDD|205583 pfam13405, EF_hand_4, EF-hand domain.
Length = 30
Score = 32.2 bits (74), Expect = 0.006
Identities = 10/25 (40%), Positives = 19/25 (76%)
Query: 41 AFSMYDLDGNGYISRNEMLEIVQAI 65
AF ++D DG+GYIS E+ + ++++
Sbjct: 5 AFKLFDKDGDGYISAEELRKALRSL 29
Score = 31.4 bits (72), Expect = 0.010
Identities = 10/25 (40%), Positives = 12/25 (48%)
Query: 3 EHVFRTFDANGDGTIDFREFLCALS 27
F+ FD +GDG I E AL
Sbjct: 3 REAFKLFDKDGDGYISAEELRKALR 27
Score = 30.3 bits (69), Expect = 0.027
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 88 KIFRQMDKNQDGRLSLEEFIEGAKS 112
+ F+ DK+ DG +S EE + +S
Sbjct: 4 EAFKLFDKDGDGYISAEELRKALRS 28
>gnl|CDD|227723 COG5436, COG5436, Predicted integral membrane protein [Function
unknown].
Length = 182
Score = 32.9 bits (75), Expect = 0.024
Identities = 26/89 (29%), Positives = 43/89 (48%), Gaps = 5/89 (5%)
Query: 40 WAFSMYDLDGNGYISRNEMLEIVQAIYKMVGTVMKMPE-DESTPEKRTDKIFRQMDKNQD 98
W+ S+YD +GN + S N+ + +V T ++M + PE TD IF + K+++
Sbjct: 91 WSVSIYDSNGNNFFSINDRTAKGGKLDLVVATPIQMILLRKDGPEVLTDAIFVEA-KDEE 149
Query: 99 GRLSLEEFIEGAKSDPSIVRLLQ---CDP 124
G L F+ P + R L C+P
Sbjct: 150 GFAVLRTFVPDDSWIPQVDRFLDESKCEP 178
>gnl|CDD|204523 pfam10591, SPARC_Ca_bdg, Secreted protein acidic and rich in
cysteine Ca binding region. The SPARC_Ca_bdg domain of
Secreted Protein Acidic and Rich in Cysteine is
responsible for the anti-spreading activity of human
urothelial cells. It is rich in alpha-helices. This
extracellular calcium-binding domain contains two
EF-hands that each coordinates one Ca2+ ion, forming a
helix-loop-helix structure that not only drives the
conformation of the protein but is also necessary for
biological activity. The anti-spreading activity was
dependent on the coordination of Ca2+ by a Glu residue
at the Z position of EF-hand 2.
Length = 112
Score = 30.0 bits (68), Expect = 0.16
Identities = 20/69 (28%), Positives = 34/69 (49%), Gaps = 14/69 (20%)
Query: 38 LRWAFSMYDLDGNGYISRNEMLEIVQAIYKMVGTVMKMPEDESTPEKRTDKIFRQMDKNQ 97
L W F+ D + +GY+SR+E L ++A ++ M E F+ D ++
Sbjct: 55 LGWMFNQLDTNHDGYLSRSE-LAPLRAP------LVPM-------EHCIKPFFKSCDADK 100
Query: 98 DGRLSLEEF 106
DG +SL E+
Sbjct: 101 DGLISLREW 109
>gnl|CDD|238377 cd00736, bacteriophage_lambda_lysozyme, The lysozyme from
bacteriophage lambda hydrolyses the beta-1,4-glycosidic
bond between N-acetylmuramic acid (MurNAc) and
N-acetylglucosamine (GlcNAc), as do other lysozymes.
But unlike other lysozymes, bacteriophage lambda does
not produce a reducing end upon cleavage of the
peptidoglycan but rather uses the 6-OH of the same
MurNAc residue to produce a 1,6-anhydromuramic acid
terminal residue and is therefore a lytic
transglycosylase. An identical 1,6-anhydro bond is
formed in bacterial peptidoglycans by the action of the
lytic transglycosylases of E. coli. However, they differ
structurally.
Length = 151
Score = 30.0 bits (68), Expect = 0.19
Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 9/51 (17%)
Query: 25 ALSVTSRGKLEQKLR-----WAFSMYDLDGNGYISRNEMLEIVQAIYKMVG 70
AL G++EQ + WA L G GY LE ++AIY+
Sbjct: 104 ALPDILAGRIEQAIAKLSNIWA----SLPGAGYGQEEHKLESLRAIYQKAL 150
>gnl|CDD|240157 cd05031, S-100A10_like, S-100A10_like: S-100A10 domain found in
proteins similar to S100A10. S100A10 is a member of the
S100 family of EF-hand superfamily of calcium-binding
proteins. Note that the S-100 hierarchy, to which this
S-100A1_like group belongs, 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. A unique feature of S100A10 is
that it contains mutation in both of the calcium binding
sites, making it calcium insensitive. S100A10 has been
detected in brain, heart, gastrointestinal tract,
kidney, liver, lung, spleen, testes, epidermis, aorta,
and thymus. Structural data supports the homo- and
hetero-dimeric as well as hetero-tetrameric nature of
the protein. S100A10 has multiple binding partners in
its calcium free state and is therefore involved in many
diverse biological functions.
Length = 94
Score = 28.5 bits (64), Expect = 0.37
Identities = 19/66 (28%), Positives = 38/66 (57%), Gaps = 8/66 (12%)
Query: 42 FSMYDLDGNGYISRNEMLEIVQAIYKMVGTVMKMPEDESTPEKRTDKIFRQMDKNQDGRL 101
++ D D N +SR E+ ++++ K + +K +D DKI + +D+N+DG++
Sbjct: 17 YAGKDGDKN-TLSRKELKKLME---KELSEFLKNQKDP----MAVDKIMKDLDQNRDGKV 68
Query: 102 SLEEFI 107
+ EEF+
Sbjct: 69 NFEEFV 74
Score = 25.5 bits (56), Expect = 5.0
Identities = 7/23 (30%), Positives = 13/23 (56%)
Query: 1 FAEHVFRTFDANGDGTIDFREFL 23
+ + + D N DG ++F EF+
Sbjct: 52 AVDKIMKDLDQNRDGKVNFEEFV 74
>gnl|CDD|235244 PRK04182, PRK04182, cytidylate kinase; Provisional.
Length = 180
Score = 29.4 bits (67), Expect = 0.38
Identities = 13/28 (46%), Positives = 19/28 (67%), Gaps = 2/28 (7%)
Query: 89 IFRQMDKNQDGRLSLEEFIEGAKSDPSI 116
IFR++ K + +SLEEF + A+ DP I
Sbjct: 34 IFRELAKERG--MSLEEFNKYAEEDPEI 59
>gnl|CDD|224027 COG1102, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 179
Score = 28.8 bits (65), Expect = 0.52
Identities = 13/29 (44%), Positives = 18/29 (62%), Gaps = 2/29 (6%)
Query: 88 KIFRQMDKNQDGRLSLEEFIEGAKSDPSI 116
IFR+M + + +SLEEF A+ DP I
Sbjct: 33 TIFREMARERG--MSLEEFSRYAEEDPEI 59
>gnl|CDD|240152 cd05025, S-100A1, S-100A1: S-100A1 domain found in proteins
similar to S100A1. S100A1 is a calcium-binding protein
belonging to a large S100 vertebrate-specific protein
family within the EF-hand superfamily of
calcium-binding proteins. Note that the S-100
hierarchy, to which this S-100A1 group belongs,
contains only S-100 EF-hand domains, other EF-hands
have been modeled separately. As is the case with many
other members of S100 protein family, S100A1 is
implicated in intracellular and extracellular
regulatory activities, including interaction with
myosin-associated twitchin kinase, actin-capping
protein CapZ, sinapsin I, and tubulin. Structural data
suggests that S100A1 proteins exist within cells as
antiparallel homodimers, while heterodimers with
S100A4 and S100B also has been reported. Upon binding
calcium S100A1 changes conformation to expose a
hydrophobic cleft which is the interaction site of
S100A1 with its more that 20 known target proteins.
Length = 92
Score = 27.9 bits (62), Expect = 0.68
Identities = 9/21 (42%), Positives = 15/21 (71%)
Query: 3 EHVFRTFDANGDGTIDFREFL 23
+ + + D NGDG +DF+EF+
Sbjct: 55 DKIMKELDENGDGEVDFQEFV 75
Score = 27.2 bits (60), Expect = 1.2
Identities = 9/21 (42%), Positives = 16/21 (76%)
Query: 87 DKIFRQMDKNQDGRLSLEEFI 107
DKI +++D+N DG + +EF+
Sbjct: 55 DKIMKELDENGDGEVDFQEFV 75
>gnl|CDD|240149 cd05022, S-100A13, S-100A13: S-100A13 domain found in proteins
similar to S100A13. S100A13 is a calcium-binding protein
belonging to a large S100 vertebrate-specific protein
family within the EF-hand superfamily of calcium-binding
proteins. Note that the S-100 hierarchy, to which this
S-100A13 group belongs, contains only S-100 EF-hand
domains, other EF-hands have been modeled separately.
S100A13 is involved in the cellular export of
interleukin-1 (IL-1) and of fibroblast growth factor-1
(FGF-1), which plays an important role in angiogenesis
and tissue regeneration. Export is based on the
CuII-dependent formation of multiprotein complexes
containing the S100A13 protein. Assembly of these
complexes occurs near the inner surface of the plasma
membrane. Binding of two Ca(II) ions per monomer
triggers key conformational changes leading to the
creation of two identical and symmetrical Cu(II)-binding
sites on the surface of the protein, close to the
interface between the two monomers. These Cu(II)-binding
sites are unique among the S100 proteins, which are
reported to bind Cu(II) or Zn(II) ions in addition to
Ca(II) ions. In addition, the three-dimensional
structure of S100A13 differs significantly from those of
other S100 proteins; the hydrophobic pocket that largely
contributes to protein-protein interactions in other
S100 proteins is absent in S100A13. The structure of
S100A13 contains a large patch of negatively charged
residues flanked by dense cationic clusters, formed
mostly from positively charged residues from the
C-terminal end, which plays major role in binding FGF-1.
Length = 89
Score = 27.7 bits (62), Expect = 0.82
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 87 DKIFRQMDKNQDGRLSLEEF 106
++ + +D NQD +LS EEF
Sbjct: 50 EEKMKNLDVNQDSKLSFEEF 69
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional.
Length = 3151
Score = 28.4 bits (63), Expect = 1.3
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 40 WAFSMYDLDGNGYISRNEMLEIVQAIYKM 68
W S+ D G G + R E+ E+ +AI+K+
Sbjct: 874 WLASLGDAAGQGLVERKELDELARAIHKI 902
>gnl|CDD|201220 pfam00427, PBS_linker_poly, Phycobilisome Linker polypeptide.
Length = 131
Score = 27.1 bits (61), Expect = 2.1
Identities = 17/63 (26%), Positives = 31/63 (49%), Gaps = 13/63 (20%)
Query: 54 SRNEMLEIVQAIYKMV--GTVMKMPEDESTPEKRTDKIFRQMDKNQDGRLSLEEFIEG-A 110
S E+ E+++A Y+ V + E ++ E + R +G +S+ EF+ G A
Sbjct: 6 SEEELEEVIRAAYRQVFGNDHVMESERLTSLESQ----LR------NGEISVREFVRGLA 55
Query: 111 KSD 113
KS+
Sbjct: 56 KSE 58
>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 = 26.5 bits (59), Expect = 2.4
Identities = 9/16 (56%), Positives = 14/16 (87%)
Query: 87 DKIFRQMDKNQDGRLS 102
++IFR +DKNQDG ++
Sbjct: 13 EQIFRSLDKNQDGTVT 28
Score = 26.1 bits (58), Expect = 3.1
Identities = 16/57 (28%), Positives = 30/57 (52%), Gaps = 4/57 (7%)
Query: 3 EHVFRTFDANGDGTIDFREFLCALSVTSRGKLEQK-LRWAFSMYDLDGNGYISRNEM 58
E +FR+ D N DGT+ + A + + L Q L +++ D+D +G + ++E
Sbjct: 13 EQIFRSLDKNQDGTVTGAQ---AKPILLKSGLPQTLLAKIWNLADIDNDGELDKDEF 66
>gnl|CDD|236969 PRK11753, PRK11753, DNA-binding transcriptional dual regulator Crp;
Provisional.
Length = 211
Score = 26.9 bits (60), Expect = 2.8
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 53 ISRNEMLEIVQAIYKMVGTVMKMPEDES 80
I+R E+ IV +MVG V+KM ED+
Sbjct: 169 ITRQEIGRIVGCSREMVGRVLKMLEDQG 196
>gnl|CDD|215520 PLN02964, PLN02964, phosphatidylserine decarboxylase.
Length = 644
Score = 26.7 bits (59), Expect = 3.8
Identities = 18/60 (30%), Positives = 29/60 (48%), Gaps = 4/60 (6%)
Query: 1 FAEHVFRTFDANGDGTIDFREFLCALSVTSRGKL--EQKLRWAFSMYDLDGNGYISRNEM 58
FA + D + DG + F EF L + + G L K F DL+G+G ++ +E+
Sbjct: 180 FARRILAIVDYDEDGQLSFSEF-SDL-IKAFGNLVAANKKEELFKAADLNGDGVVTIDEL 237
Score = 26.0 bits (57), Expect = 8.0
Identities = 17/83 (20%), Positives = 41/83 (49%), Gaps = 15/83 (18%)
Query: 26 LSVTSRGKLEQKLRWA---FSMYDLDGNGYISRNEMLEIVQAIYKMVGTVMKMPEDESTP 82
+S + +E + +A ++ D D +G +S +E ++++A G ++ + E
Sbjct: 166 VSCSIEDPVETERSFARRILAIVDYDEDGQLSFSEFSDLIKAF----GNLVAANKKE--- 218
Query: 83 EKRTDKIFRQMDKNQDGRLSLEE 105
++F+ D N DG ++++E
Sbjct: 219 -----ELFKAADLNGDGVVTIDE 236
>gnl|CDD|222857 PHA02531, 20, portal vertex protein; Provisional.
Length = 514
Score = 26.5 bits (59), Expect = 4.3
Identities = 12/44 (27%), Positives = 21/44 (47%), Gaps = 2/44 (4%)
Query: 83 EKRTDKIFRQMDKNQDGRLSLEEFIEGAKSDPSIVRLLQCDPQN 126
+++ +IFR+ DGR+ + I+ I L Q DP+
Sbjct: 137 DRKGYEIFRRWYV--DGRIFFHKIIDPKNPKGGIQELRQLDPRK 178
>gnl|CDD|233761 TIGR02173, cyt_kin_arch, cytidylate kinase, putative. Proteins in
this family are believed to be cytidylate kinase.
Members of this family are found in the archaea and in
spirochaetes, and differ considerably from the common
bacterial form of cytidylate kinase described by
TIGR00017.
Length = 171
Score = 25.8 bits (57), Expect = 5.3
Identities = 10/33 (30%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 88 KIFRQMDKNQDGRLSLEEFIEGAKSDPSIVRLL 120
IFR++ L L EF+ A+ +P I + +
Sbjct: 33 DIFRELAAKMG--LDLIEFLNYAEENPEIDKKI 63
>gnl|CDD|185352 PRK15455, PRK15455, PrkA family serine protein kinase; Provisional.
Length = 644
Score = 26.1 bits (58), Expect = 6.0
Identities = 8/25 (32%), Positives = 16/25 (64%)
Query: 91 RQMDKNQDGRLSLEEFIEGAKSDPS 115
++ + ++ SL+E++E K DPS
Sbjct: 9 QRYEAAKEEEFSLQEYLELCKQDPS 33
>gnl|CDD|143386 cd00141, NT_POLXc, Nucleotidyltransferase (NT) domain of family X
DNA Polymerases. X family polymerases fill in short
gaps during DNA repair. They are relatively inaccurate
enzymes and play roles in base excision repair, in
non-homologous end joining (NHEJ) which acts mainly to
repair damage due to ionizing radiation, and in V(D)J
recombination. This family includes eukaryotic Pol beta,
Pol lambda, Pol mu, and terminal deoxyribonucleotidyl
transferase (TdT). Pol beta and Pol lambda are primarily
DNA template-dependent polymerases. TdT is a DNA
template-independent polymerase. Pol mu has both
template dependent and template independent activities.
This subgroup belongs to the Pol beta-like NT
superfamily. In the majority of enzymes in this
superfamily, two carboxylates, Dx[D/E], together with a
third more distal carboxylate, coordinate two divalent
metal cations involved in a two-metal ion mechanism of
nucleotide addition. These three carboxylate residues
are fairly well conserved in this family.
Length = 307
Score = 26.0 bits (58), Expect = 6.0
Identities = 12/33 (36%), Positives = 15/33 (45%), Gaps = 1/33 (3%)
Query: 33 KLEQKLRWAFSMYDLDGNGYISRNEMLEIVQAI 65
KLEQ + Y+ D I R E L I + I
Sbjct: 119 KLEQNILIGLEYYE-DFQQRIPREEALAIAEII 150
>gnl|CDD|240154 cd05027, S-100B, S-100B: S-100B domain found in proteins similar
to S100B. S100B is a calcium-binding protein belonging
to a large S100 vertebrate-specific protein family
within the EF-hand superfamily of calcium-binding
proteins. Note that the S-100 hierarchy, to which this
S-100B group belongs, contains only S-100 EF-hand
domains, other EF-hands have been modeled separately.
S100B is most abundant in glial cells of the central
nervous system, predominately in astrocytes. S100B is
involved in signal transduction via the inhibition of
protein phoshorylation, regulation of enzyme activity
and by affecting the calcium homeostasis. Upon calcium
binding the S100B homodimer changes conformation to
expose a hydrophobic cleft, which represents the
interaction site of S100B with its more than 20 known
target proteins. These target proteins include several
cellular architecture proteins such as tubulin and
GFAP; S100B can inhibit polymerization of these
oligomeric molecules. Furthermore, S100B inhibits the
phosphorylation of multiple kinase substrates including
the Alzheimer protein tau and neuromodulin (GAP-43)
through a calcium-sensitive interaction with the
protein substrates.
Length = 88
Score = 25.2 bits (55), Expect = 6.2
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 5 VFRTFDANGDGTIDFREFL 23
V T D++GDG DF+EF+
Sbjct: 56 VMETLDSDGDGECDFQEFM 74
>gnl|CDD|215485 PLN02895, PLN02895, phosphoacetylglucosamine mutase.
Length = 562
Score = 26.1 bits (58), Expect = 6.5
Identities = 11/19 (57%), Positives = 13/19 (68%), Gaps = 1/19 (5%)
Query: 9 FDANGDGTIDFRE-FLCAL 26
F+ANG GT+ F E FL L
Sbjct: 388 FEANGHGTVLFSERFLDWL 406
>gnl|CDD|237404 PRK13506, PRK13506, formate--tetrahydrofolate ligase; Provisional.
Length = 578
Score = 25.7 bits (57), Expect = 7.8
Identities = 11/35 (31%), Positives = 15/35 (42%), Gaps = 6/35 (17%)
Query: 65 IYKMVGTVMKMPEDESTPEKRTDKIFRQMDKNQDG 99
I +VG VM MP K + +D + DG
Sbjct: 544 ITALVGNVMTMP---GLGLKPG---YLNIDIDADG 572
>gnl|CDD|181139 PRK07832, PRK07832, short chain dehydrogenase; Provisional.
Length = 272
Score = 25.4 bits (56), Expect = 8.9
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 81 TPEKRTDKIFRQMDKNQ 97
TPEK +KI ++KN+
Sbjct: 217 TPEKAAEKILAGVEKNR 233
>gnl|CDD|130569 TIGR01505, tartro_sem_red, 2-hydroxy-3-oxopropionate reductase.
This model represents 2-hydroxy-3-oxopropionate
reductase (EC 1.1.1.60), also called tartronate
semialdehyde reductase. It follows glyoxylate
carboligase and precedes glycerate kinase in D-glycerate
pathway of glyoxylate degradation. The eventual product,
3-phosphoglycerate, is an intermediate of glycolysis and
is readily metabolized. Tartronic semialdehyde, the
substrate of this enzyme, may also come from other
pathways, such as D-glucarate catabolism.
Length = 291
Score = 25.6 bits (56), Expect = 9.0
Identities = 10/30 (33%), Positives = 16/30 (53%)
Query: 5 VFRTFDANGDGTIDFREFLCALSVTSRGKL 34
+F T ANG G +D + AL + + K+
Sbjct: 262 LFNTLRANGGGQLDHSALVQALELLANHKV 291
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
0.320 0.136 0.398
Gapped
Lambda K H
0.267 0.0737 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,510,003
Number of extensions: 565088
Number of successful extensions: 737
Number of sequences better than 10.0: 1
Number of HSP's gapped: 711
Number of HSP's successfully gapped: 89
Length of query: 127
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 42
Effective length of database: 7,167,512
Effective search space: 301035504
Effective search space used: 301035504
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (24.2 bits)