RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6668
(306 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 = 58.9 bits (143), Expect = 1e-10
Identities = 21/65 (32%), Positives = 37/65 (56%), Gaps = 2/65 (3%)
Query: 90 YAHYVFNTLDHNKTGFLNFEDFVKGLSI-LCRGSEEEKLRWIFCLYDINGDGVISKDDLY 148
+ +F +D ++F +F+ +S+ L RG +EE+LR F L+D + DG IS +L
Sbjct: 57 EINKLFEEIDAG-NETVDFPEFLTVMSVKLKRGDKEEELREAFKLFDKDHDGYISIGELR 115
Query: 149 NIVSS 153
++ S
Sbjct: 116 RVLKS 120
Score = 32.3 bits (74), Expect = 0.13
Identities = 16/82 (19%), Positives = 31/82 (37%), Gaps = 16/82 (19%)
Query: 122 SEEEKLRWIFCLYDINGDGVISKDDLYNIVSSVYELMGTYAYRAFDSGMVAQRVEYLFQV 181
+ ++L+ F L+D + DG+I +++L I R+ + LF+
Sbjct: 17 EQIQELKEAFQLFDRDSDGLIDRNELGKI------------LRSLGFNPSEAEINKLFEE 64
Query: 182 STKGFE----MSILCSISIPRS 199
G E L +S+
Sbjct: 65 IDAGNETVDFPEFLTVMSVKLK 86
Score = 29.6 bits (67), Expect = 1.2
Identities = 17/61 (27%), Positives = 30/61 (49%), Gaps = 5/61 (8%)
Query: 88 IRYAHYVFNTLDHNKTGFLNFEDFVKGLSILC-RGSEEEKLRWIFCLYDINGDGVISKDD 146
+R A F D + G+++ + + L L R S+EE + + YD +GDG I ++
Sbjct: 94 LREA---FKLFDKDHDGYISIGELRRVLKSLGERLSDEE-VEKLLKEYDEDGDGEIDYEE 149
Query: 147 L 147
Sbjct: 150 F 150
>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 = 53.3 bits (129), Expect = 1e-09
Identities = 13/63 (20%), Positives = 27/63 (42%)
Query: 90 YAHYVFNTLDHNKTGFLNFEDFVKGLSILCRGSEEEKLRWIFCLYDINGDGVISKDDLYN 149
F D + G ++ ++ L L G EE++ + D +GDG I ++
Sbjct: 1 ELREAFRLFDKDGDGTISADELKAALKSLGEGLSEEEIDEMIREVDKDGDGKIDFEEFLE 60
Query: 150 IVS 152
+++
Sbjct: 61 LMA 63
Score = 37.5 bits (88), Expect = 4e-04
Identities = 14/33 (42%), Positives = 21/33 (63%)
Query: 126 KLRWIFCLYDINGDGVISKDDLYNIVSSVYELM 158
+LR F L+D +GDG IS D+L + S+ E +
Sbjct: 1 ELREAFRLFDKDGDGTISADELKAALKSLGEGL 33
>gnl|CDD|217829 pfam03985, Paf1, Paf1. Members of this family are components of
the RNA polymerase II associated Paf1 complex. The Paf1
complex functions during the elongation phase of
transcription in conjunction with Spt4-Spt5 and
Spt16-Pob3i.
Length = 431
Score = 50.9 bits (122), Expect = 3e-07
Identities = 14/27 (51%), Positives = 17/27 (62%)
Query: 23 SELVCRVKYNNTLPDIPFDCKFIAYPF 49
+ + +VKY N LPD PF K I YPF
Sbjct: 1 QDYIAKVKYTNNLPDPPFPPKLITYPF 27
>gnl|CDD|222177 pfam13499, EF_hand_5, EF-hand domain pair.
Length = 60
Score = 43.5 bits (103), Expect = 3e-06
Identities = 15/59 (25%), Positives = 27/59 (45%), Gaps = 4/59 (6%)
Query: 97 TLDHNKTGFLNFEDFVKGLSILCRGSEEEK----LRWIFCLYDINGDGVISKDDLYNIV 151
LD + G+++ E+ K L L +E+ + F D +GDG IS ++ +
Sbjct: 2 LLDKDGDGYIDVEELRKLLKALGLKLTDEEVEELIEADFNEIDKDGDGRISFEEFLEAM 60
Score = 32.0 bits (73), Expect = 0.047
Identities = 7/25 (28%), Positives = 15/25 (60%)
Query: 91 AHYVFNTLDHNKTGFLNFEDFVKGL 115
FN +D + G ++FE+F++ +
Sbjct: 36 IEADFNEIDKDGDGRISFEEFLEAM 60
Score = 27.3 bits (61), Expect = 1.9
Identities = 10/48 (20%), Positives = 20/48 (41%), Gaps = 8/48 (16%)
Query: 133 LYDINGDGVISKDDLYNIVSSVYELMGTYAYRAFDSGMVAQRVEYLFQ 180
L D +GDG I ++L ++ ++ + V + +E F
Sbjct: 2 LLDKDGDGYIDVEELRKLLKALGLKL--------TDEEVEELIEADFN 41
>gnl|CDD|222407 pfam13833, EF_hand_6, EF-hand domain pair.
Length = 53
Score = 42.9 bits (102), Expect = 4e-06
Identities = 13/48 (27%), Positives = 26/48 (54%)
Query: 102 KTGFLNFEDFVKGLSILCRGSEEEKLRWIFCLYDINGDGVISKDDLYN 149
+ G + E+ + L++L EE++ +F +D +GDG IS ++
Sbjct: 1 EKGLITREELKRALALLGISLSEEEVDILFREFDTDGDGKISFEEFCV 48
>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 = 35.0 bits (82), Expect = 0.002
Identities = 8/29 (27%), Positives = 19/29 (65%)
Query: 126 KLRWIFCLYDINGDGVISKDDLYNIVSSV 154
+L+ F L+D +GDG I ++ +++ ++
Sbjct: 1 ELKEAFRLFDKDGDGKIDFEEFKDLLKAL 29
Score = 27.7 bits (63), Expect = 0.59
Identities = 8/25 (32%), Positives = 12/25 (48%)
Query: 94 VFNTLDHNKTGFLNFEDFVKGLSIL 118
F D + G ++FE+F L L
Sbjct: 5 AFRLFDKDGDGKIDFEEFKDLLKAL 29
>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 = 0.002
Identities = 8/29 (27%), Positives = 17/29 (58%)
Query: 126 KLRWIFCLYDINGDGVISKDDLYNIVSSV 154
+L+ F +D +GDG IS ++ ++ +
Sbjct: 1 ELKEAFKEFDKDGDGKISFEEFKELLKKL 29
Score = 29.3 bits (67), Expect = 0.20
Identities = 7/23 (30%), Positives = 12/23 (52%)
Query: 94 VFNTLDHNKTGFLNFEDFVKGLS 116
F D + G ++FE+F + L
Sbjct: 5 AFKEFDKDGDGKISFEEFKELLK 27
>gnl|CDD|205583 pfam13405, EF_hand_4, EF-hand domain.
Length = 30
Score = 32.6 bits (75), Expect = 0.011
Identities = 10/25 (40%), Positives = 16/25 (64%)
Query: 130 IFCLYDINGDGVISKDDLYNIVSSV 154
F L+D +GDG IS ++L + S+
Sbjct: 5 AFKLFDKDGDGYISAEELRKALRSL 29
Score = 31.0 bits (71), Expect = 0.040
Identities = 7/27 (25%), Positives = 12/27 (44%)
Query: 92 HYVFNTLDHNKTGFLNFEDFVKGLSIL 118
F D + G+++ E+ K L L
Sbjct: 3 REAFKLFDKDGDGYISAEELRKALRSL 29
>gnl|CDD|185504 PTZ00184, PTZ00184, calmodulin; Provisional.
Length = 149
Score = 35.1 bits (81), Expect = 0.013
Identities = 17/65 (26%), Positives = 40/65 (61%), Gaps = 7/65 (10%)
Query: 96 NTLDHNKTGFLNFEDFVKGLSILCRGSE----EEKLRWIFCLYDINGDGVISKDDLYNIV 151
N +D + G ++F +F L+++ R + EE+++ F ++D +G+G IS +L +++
Sbjct: 54 NEVDADGNGTIDFPEF---LTLMARKMKDTDSEEEIKEAFKVFDRDGNGFISAAELRHVM 110
Query: 152 SSVYE 156
+++ E
Sbjct: 111 TNLGE 115
>gnl|CDD|185503 PTZ00183, PTZ00183, centrin; Provisional.
Length = 158
Score = 33.9 bits (78), Expect = 0.037
Identities = 17/57 (29%), Positives = 30/57 (52%)
Query: 94 VFNTLDHNKTGFLNFEDFVKGLSILCRGSEEEKLRWIFCLYDINGDGVISKDDLYNI 150
F D +KTG ++ ++ + L +E+L+ + D NGDG IS+++ Y I
Sbjct: 95 AFRLFDDDKTGKISLKNLKRVAKELGETITDEELQEMIDEADRNGDGEISEEEFYRI 151
Score = 30.4 bits (69), Expect = 0.71
Identities = 14/69 (20%), Positives = 35/69 (50%), Gaps = 3/69 (4%)
Query: 85 IKQIRYAHYVFNTLDHNKTGFLNFEDFVKGLSILCRGSEEEKLRWIFCLYDINGDGVISK 144
K+IR A F+ D + +G ++ ++ + L ++E+++ + D +G G I
Sbjct: 16 KKEIREA---FDLFDTDGSGTIDPKELKVAMRSLGFEPKKEEIKQMIADVDKDGSGKIDF 72
Query: 145 DDLYNIVSS 153
++ +I++
Sbjct: 73 EEFLDIMTK 81
>gnl|CDD|215520 PLN02964, PLN02964, phosphatidylserine decarboxylase.
Length = 644
Score = 33.7 bits (77), Expect = 0.13
Identities = 16/59 (27%), Positives = 30/59 (50%)
Query: 89 RYAHYVFNTLDHNKTGFLNFEDFVKGLSILCRGSEEEKLRWIFCLYDINGDGVISKDDL 147
+A + +D+++ G L+F +F + K +F D+NGDGV++ D+L
Sbjct: 179 SFARRILAIVDYDEDGQLSFSEFSDLIKAFGNLVAANKKEELFKAADLNGDGVVTIDEL 237
>gnl|CDD|205383 pfam13202, EF_hand_3, EF hand.
Length = 25
Score = 27.2 bits (62), Expect = 0.87
Identities = 9/15 (60%), Positives = 12/15 (80%)
Query: 133 LYDINGDGVISKDDL 147
+D NGDG ISK++L
Sbjct: 7 QFDTNGDGKISKEEL 21
>gnl|CDD|220646 pfam10240, DUF2464, Protein of unknown function (DUF2464). This is
a family of proteins conserved from worms to humans.
Members have been annotated as FAM125A proteins, but
their function is unknown.
Length = 251
Score = 30.0 bits (68), Expect = 1.2
Identities = 13/61 (21%), Positives = 23/61 (37%), Gaps = 5/61 (8%)
Query: 220 SLPFSSSVPEGQSSLQAIRPIQSSVPGLKAIRPPAKSMPDLKPLPLRVSEPESNSYHGNG 279
S+P VP+ +S Q + + PA +P L L S +++ +
Sbjct: 144 SVPAPPPVPKPRSISQGSQSLSLDSAS-----RPAPGLPLLSSLSRGKSATRADATYDTS 198
Query: 280 T 280
T
Sbjct: 199 T 199
>gnl|CDD|218376 pfam05005, Ocnus, Janus/Ocnus family (Ocnus). This family is
comprised of the Ocnus, Janus-A and Janus-B proteins.
These proteins have been found to be testes specific in
Drosophila melanogaster.
Length = 109
Score = 28.4 bits (64), Expect = 1.8
Identities = 14/36 (38%), Positives = 18/36 (50%), Gaps = 2/36 (5%)
Query: 70 DNNCLAGGRCDHKLDIKQIR-YAH-YVFNTLDHNKT 103
CL GGR +H D K+I+ Y + F DH T
Sbjct: 61 CTECLGGGRIEHDQDKKKIKVYGYSQGFGRADHAIT 96
>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 = 28.2 bits (63), Expect = 1.8
Identities = 14/25 (56%), Positives = 17/25 (68%), Gaps = 3/25 (12%)
Query: 98 LDHNKTGFLNFEDF---VKGLSILC 119
LD N+ G +NFE+F V GLSI C
Sbjct: 60 LDQNRDGKVNFEEFVSLVAGLSIAC 84
>gnl|CDD|104071 PRK09629, PRK09629, bifunctional thiosulfate
sulfurtransferase/phosphatidylserine decarboxylase;
Provisional.
Length = 610
Score = 29.3 bits (65), Expect = 3.2
Identities = 27/104 (25%), Positives = 46/104 (44%), Gaps = 19/104 (18%)
Query: 185 GFEMSILCSISIPRSPYSLVPEGGEGAPHLNTPLFSLPFSSSVP-EGQSSLQAIRPIQSS 243
GF + ++ PR + GE H +TP+ +P ++ P E Q P Q +
Sbjct: 237 GFTYLVAKALGYPRVK-AYAGSWGEWGNHPDTPV-EVPTVAAAPIEAVEVAQPAAPAQPA 294
Query: 244 VPGLKAIRPPAKSMPDLKPLPLRVSEPE--SNSYHGNGTSGPAV 285
PA+++ P+R +EP S Y G+ +SGP++
Sbjct: 295 ---------PAETVE-----PVRATEPSKGSQKYSGHSSSGPSM 324
>gnl|CDD|183426 PRK12309, PRK12309, transaldolase/EF-hand domain-containing
protein; Provisional.
Length = 391
Score = 28.9 bits (65), Expect = 3.4
Identities = 11/35 (31%), Positives = 21/35 (60%), Gaps = 5/35 (14%)
Query: 112 VKGLSILCRGSEEEKLRWIFCLYDINGDGVISKDD 146
++G ++E IF LYD++GDG I++++
Sbjct: 326 LEGGEAFTHAAQE-----IFRLYDLDGDGFITREE 355
>gnl|CDD|226837 COG4403, LcnDR2, Lantibiotic modifying enzyme [Defense mechanisms].
Length = 963
Score = 29.0 bits (65), Expect = 4.4
Identities = 15/80 (18%), Positives = 21/80 (26%), Gaps = 10/80 (12%)
Query: 69 KDNNCLAGGRCDHKLDIKQIRYAHYVFNTLDHNKTGFLNFEDFVKGLSILCRGSEEEKLR 128
K+ + + K Y+ GF N LC G E K +
Sbjct: 394 KEPYMFESEKNLPTFNGKDKELLDYIK----EITEGFRNMYLL------LCSGISEIKEK 443
Query: 129 WIFCLYDINGDGVISKDDLY 148
I D V +Y
Sbjct: 444 NILAFEDCKIRVVFRNTSVY 463
>gnl|CDD|237182 PRK12727, PRK12727, flagellar biosynthesis regulator FlhF;
Provisional.
Length = 559
Score = 28.8 bits (64), Expect = 4.8
Identities = 19/75 (25%), Positives = 27/75 (36%), Gaps = 5/75 (6%)
Query: 231 QSSLQAIRPIQSSVPGLKAIRPPAKSMPDLKPLPLRVSEPESNSYHGNGTSGPAVVTAAK 290
Q +L+ R P A PA P P V P S + N + V +AA+
Sbjct: 52 QRALETARS---DTPATAAAPAPAPQAPTKPAAP--VHAPLKLSANANMSQRQRVASAAE 106
Query: 291 VTLLADSQTQSSFSP 305
+ A + Q P
Sbjct: 107 DMIAAMALRQPVSVP 121
>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 = 5.5
Identities = 9/29 (31%), Positives = 17/29 (58%), Gaps = 3/29 (10%)
Query: 94 VFNTLDHNKTGFLNFEDFVK---GLSILC 119
+ LD NK G ++F++F+ L++ C
Sbjct: 56 IMKDLDVNKDGKVDFQEFLVLIGKLAVAC 84
>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 = 28.3 bits (64), Expect = 5.8
Identities = 14/38 (36%), Positives = 21/38 (55%), Gaps = 5/38 (13%)
Query: 135 DINGDGVISKDDLYNI-VSSVYELMG----TYAYRAFD 167
D+NGDG I DD I S+ +L +++Y+ FD
Sbjct: 801 DVNGDGKIDDDDRVPIGYSNTPDLTYGFGNSFSYKGFD 838
>gnl|CDD|238675 cd01379, MYSc_type_III, Myosin motor domain, type III myosins.
Myosin III has been shown to play a role in the vision
process in insects and in hearing in mammals. Myosin
III, an unconventional myosin, does not form dimers.
This catalytic (head) domain has ATPase activity and
belongs to the larger group of P-loop NTPases. Myosins
are actin-dependent molecular motors that play important
roles in muscle contraction, cell motility, and
organelle transport. The head domain is a molecular
motor, which utilizes ATP hydrolysis to generate
directed movement toward the plus end along actin
filaments. A cyclical interaction between myosin and
actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 653
Score = 28.3 bits (63), Expect = 6.4
Identities = 17/65 (26%), Positives = 29/65 (44%), Gaps = 4/65 (6%)
Query: 64 FIQQQKDNNCLAGGRCDHKLDIKQIRYAHYVFNTLDHNKTGF---LNFEDFVKGLSILCR 120
F++ K N + D + +KQ+RY + T + GF + F +F++ L
Sbjct: 549 FVRCIKPNEDRQAKKFDAEKVLKQLRYTG-ILETARIRRQGFSHRILFANFIRRYCFLAY 607
Query: 121 GSEEE 125
EEE
Sbjct: 608 RFEEE 612
>gnl|CDD|177973 PLN02339, PLN02339, NAD+ synthase (glutamine-hydrolysing).
Length = 700
Score = 28.1 bits (63), Expect = 6.9
Identities = 20/55 (36%), Positives = 22/55 (40%), Gaps = 18/55 (32%)
Query: 100 HNKTGFLNFEDFVKGLSILCRGSE--EEKLRWIFCLY-----DINGDGVISKDDL 147
K+GFL L GS +E LR Y DIN G ISK DL
Sbjct: 504 RGKSGFL-----------LVLGSANVDEGLRGYLTKYDCSSADINPIGGISKQDL 547
>gnl|CDD|234547 TIGR04330, cas_Cpf1, CRISPR-associated protein Cpf1, subtype
PREFRAN. This family is the long protein of a novel
CRISPR subtype, PREFRAN, which is most common in
Prevotella and Francisella, although widely distributed.
The PREFRAN type has Cas1, Cas2, and Cas4, but lacks the
helicase Cas3 and endonuclease Cas3-HD.
Length = 1287
Score = 28.3 bits (63), Expect = 7.3
Identities = 25/92 (27%), Positives = 36/92 (39%), Gaps = 26/92 (28%)
Query: 143 SKDDLYNIVSSVYELMGTYAYR--------AFDSGMVAQRVEYLFQVSTKGFEMSILCSI 194
S D YN +S Y + T Y+ + + MV + YLFQ+ K
Sbjct: 693 SDTDSYNDISEFYREVETQGYKIEFINISEEYINKMVDEGKLYLFQIYNK---------- 742
Query: 195 SIPRSPYSLVPEGGEGAPHLNTPLFSLPFSSS 226
SP+S +G P+L+T F FS
Sbjct: 743 --DFSPFS------KGKPNLHTLYFKALFSEE 766
>gnl|CDD|217393 pfam03154, Atrophin-1, Atrophin-1 family. Atrophin-1 is the
protein product of the dentatorubral-pallidoluysian
atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive
neurodegenerative disorder. It is caused by the
expansion of a CAG repeat in the DRPLA gene on
chromosome 12p. This results in an extended
polyglutamine region in atrophin-1, that is thought to
confer toxicity to the protein, possibly through
altering its interactions with other proteins. The
expansion of a CAG repeat is also the underlying defect
in six other neurodegenerative disorders, including
Huntington's disease. One interaction of expanded
polyglutamine repeats that is thought to be pathogenic
is that with the short glutamine repeat in the
transcriptional coactivator CREB binding protein, CBP.
This interaction draws CBP away from its usual nuclear
location to the expanded polyglutamine repeat protein
aggregates that are characteristic of the polyglutamine
neurodegenerative disorders. This interferes with
CBP-mediated transcription and causes cytotoxicity.
Length = 979
Score = 27.7 bits (61), Expect = 8.6
Identities = 24/71 (33%), Positives = 30/71 (42%), Gaps = 10/71 (14%)
Query: 194 ISIPRSPYSLVPEGGEGAPHLNTPLFSLPFSSSVPEGQSSLQAIRPIQSSVPGLKAIRPP 253
S P P+ L P L P + P S P QS+LQ +P + PP
Sbjct: 290 SSNPPQPFGLAQSQV---PPLPLPSQAQP-HSHTPPSQSALQPQQPPREQP------LPP 339
Query: 254 AKSMPDLKPLP 264
A SMP +KP P
Sbjct: 340 APSMPHIKPPP 350
>gnl|CDD|220232 pfam09421, FRQ, Frequency clock protein. The frequency clock
protein, is the central component of the frq-based
circadian negative feedback loop, regulates various
aspects of the circadian clock in Neurospora crassa.
This protein has been shown to interact with itself via
a coiled-coil.
Length = 989
Score = 28.0 bits (62), Expect = 8.8
Identities = 19/67 (28%), Positives = 26/67 (38%), Gaps = 6/67 (8%)
Query: 170 MVAQRVEYLFQVSTKGFEMSILCSISIPRSPYSLVP------EGGEGAPHLNTPLFSLPF 223
+V +R+E +F G + S P +L P EG + AP F
Sbjct: 298 LVVRRLEQIFTGKISGRNVRRTQSTLTPSVDAALPPVQAQQQEGTQMAPPQPPSNFITNP 357
Query: 224 SSSVPEG 230
SSVPE
Sbjct: 358 FSSVPEP 364
>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing
protein; Provisional.
Length = 697
Score = 27.5 bits (61), Expect = 9.5
Identities = 23/96 (23%), Positives = 28/96 (29%), Gaps = 20/96 (20%)
Query: 196 IPRSPYSLVPEGGEGAPHLNTPLFSLP--FSS-----SVPEGQSSLQAIRPIQSSVPGLK 248
IP + Y + N L P FS P S S GLK
Sbjct: 3 IPLARYQSIRLDEIRDSLSNPRLLHSPRKFSLRGRRTKTPFSSIS------CSSVEQGLK 56
Query: 249 AIRPPAKSMPDLKPLPLRVSEPESNSYHGNGTSGPA 284
P LKP P+R+ ES + T
Sbjct: 57 P-------RPRLKPEPIRIEVSESKDARLDDTQIRK 85
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
0.319 0.136 0.407
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: 15,235,050
Number of extensions: 1425810
Number of successful extensions: 1007
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1001
Number of HSP's successfully gapped: 41
Length of query: 306
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 209
Effective length of database: 6,635,264
Effective search space: 1386770176
Effective search space used: 1386770176
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 (21.7 bits)
S2: 59 (26.2 bits)