RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1735
(335 letters)
>gnl|CDD|147119 pfam04802, SMK-1, Component of IIS longevity pathway SMK-1. SMK-1
is a component of the IIs longevity pathway which
regulates aging in C.elegans. Specifically, SMK-1
influences DAF-16-dependant regulation of the aging
process by regulating the transcriptional specificity of
DAF-16 activity. SMK-1 plays a role in longevity by
modulating the transcriptional specificity of DAF-16.
Length = 193
Score = 218 bits (557), Expect = 9e-71
Identities = 90/194 (46%), Positives = 125/194 (64%), Gaps = 38/194 (19%)
Query: 174 IESEGYIRKLVGIFHMCEDLENLPGLHCLYDILKSIFLLNKTQLLDILFSDDIILDVVGC 233
+E+E YI KL+ +FHMCEDLENL LH L +I+K++ LLN +Q+L+I+ SD+ I+ VVGC
Sbjct: 1 LENEDYIPKLIPLFHMCEDLENLDDLHLLCNIVKTLILLNDSQILEIILSDENIMGVVGC 60
Query: 234 LEYDPALTSPK-RHRHYLRTNSKFKEVVPISNSDLLGKIHQTYRIQYIQDVVLPTPSLFE 292
LEYDP PK HR +L N+KFKEV+PI N +L KIHQTYR+QY++DVVL P + +
Sbjct: 61 LEYDPEFPQPKANHRQFLTQNAKFKEVIPIKNPELRQKIHQTYRLQYLKDVVL--PRVLD 118
Query: 293 DNILSTVSSFIYFNKIEIVTLIQ-----------------------------------FS 317
DN ST++SFI+FN++EIVTL+Q +
Sbjct: 119 DNTFSTLNSFIFFNQVEIVTLLQDDEKFLEELFALLTDSSTSDERRRDLVLFLHEFCNIA 178
Query: 318 QNLQPQAKENFYKT 331
++LQPQ++ F+KT
Sbjct: 179 KSLQPQSRSTFFKT 192
>gnl|CDD|241234 cd00837, EVH1_family, EVH1 (Drosophila Enabled
(Ena)/Vasodilator-stimulated phosphoprotein (VASP)
homology 1) domain. The EVH1 domains are part of the
PH domain superfamily. EVH1 subfamilies include
Enables/VASP, Homer/Vesl, WASP, and Spred. Ligands
are known for three of the EVH1 subfamilies, all of
which bind proline-rich sequences: the Enabled/VASP
family binds to FPPPP peptides, the Homer/Vesl family
binds PPxxF peptides, and the WASP family binds LPPPEP
peptides. EVH1 has a PH-like fold, despite having
minimal sequence similarity to PH or PTB domains.
Length = 102
Score = 34.0 bits (78), Expect = 0.022
Identities = 17/87 (19%), Positives = 32/87 (36%), Gaps = 4/87 (4%)
Query: 13 RRRVKLYALN-ADRQWDDKGTGHVSSIYVEKHKGMSLLVRAE--ADGTLLLESKIQTDTA 69
R + + + + W G G YV+ S + E D +++ I+ +
Sbjct: 4 SARAVVMTRDDSSKGWVPAGGGASRVSYVKDTGRNSFRIHGEDIKDKKVVINCTIRKNLV 63
Query: 70 YQKQQDTLIVWSERDNYDLALSFQEKA 96
Y K T W++ D L+F +
Sbjct: 64 YNKATQTFHQWAD-DRTVFGLNFASEE 89
>gnl|CDD|241328 cd13174, RanBD4_RanBP2_insect-like, Ran-binding protein 2, Ran
binding domain repeat 4. RanBP2 (also called E3
SUMO-protein ligase RanBP2, 358 kDa nucleoporin, and
nuclear pore complex (NPC) protein Nup358) is a giant
nucleoporin that localizes to the cytosolic face of the
NPC. RanBP2 contains a leucine-rich region, 8
zinc-finger motifs, a cyclophilin A homologous domain,
and 4 RanBDs. Ran is a Ras-like nuclear small GTPase,
which regulates receptor-mediated transport between the
nucleus and the cytoplasm. RanGTP hydrolysis is
stimulated by RanGAP together with the Ran-binding
domain containing acessory proteins RanBP1 and RanBP2.
These accessory proteins stabilize the active GTP-bound
form of Ran. All eukaryotic cells contain RanBP1, but
in vertebrates however, the main RanBP seems to be
RanBP2. There is no RanBP2 ortholog in yeast. Transport
complex disassembly is accomplished by a small
ubiquitin-related modifier-1 (SUMO-1)-modified version
of RanGAP that is bound to RanBP2. RanBP1 acts as a
second line of defense against exported RanGTP-importin
complexes which have escaped from dissociation by
RanBP2. RanBP2 also interacts with the importin subunit
beta-1. RabBD shares structural similarity to the PH
domain, but lacks detectable sequence similarity. The
members here include insects and nematodes. The fourth
RanBD is present in this hierarchy.
Length = 113
Score = 33.5 bits (77), Expect = 0.037
Identities = 20/88 (22%), Positives = 35/88 (39%), Gaps = 3/88 (3%)
Query: 14 RRVKLYALNAD-RQWDDKGTGHVSSIYVEKHKGMSLLVRAEADGTLLLESKIQTDTAYQ- 71
R KLY +AD ++W ++G G + +Y + LL+R E ++L I +D +
Sbjct: 7 ERAKLYRFDADTKEWKERGVGEMKILYHPELNTYRLLMRREQVHKVVLNMLITSDLQLRP 66
Query: 72 -KQQDTLIVWSERDNYDLALSFQEKAGC 98
D W + + E
Sbjct: 67 MNTSDKSFTWGGMNYAEADEPEVETLAV 94
>gnl|CDD|241324 cd13170, RanBD_NUP50, Nucleoporin 50 Ran-binding domain. NUP50
acts as a cofactor for the importin-alpha:importin-beta
heterodimer, which allows for transportation of many
nuclear-targeted proteins through nuclear pore
complexes. It is thought to function primarily at the
terminal stages of nuclear protein import to coordinate
import complex disassembly and importin recycling.
NUP50 is composed of a N-terminal NUP50 domain which
binds the C-terminus of importin-beta, a central domain
which binds importin-beta, and a C-terminal RanBD which
binds importin-beta through Ran-GTP.
NUP50:importin-alpha then binds cargo and can stimulate
nuclear import. The N-terminal domain of NUP50 is also
able to displace nuclear localization signals from
importin-alpha. NUP50 interacts with cyclin-dependent
kinase inhibitor 1B which binds to cyclin E-CDK2 or
cyclin D-CDK4 complexes and prevents its activation,
thereby controling the cell cycle progression at G1.
Ran is a Ras-like nuclear small GTPase, which regulates
receptor-mediated transport between the nucleus and the
cytoplasm. RanGTP hydrolysis is stimulated by RanGAP
together with the Ran-binding domain containing
acessory proteins RanBP1 and RanBP2. These accessory
proteins stabilize the active GTP-bound form of Ran.
RabBD shares structural similarity to the PH domain,
but lacks detectable sequence similarity.
Length = 109
Score = 33.4 bits (77), Expect = 0.038
Identities = 21/50 (42%), Positives = 29/50 (58%), Gaps = 7/50 (14%)
Query: 15 RVKLYALNADRQWDDKGTGHVSSIYVEKHKGMS---LLVRAE-ADGTLLL 60
R KL+ D +W DKG G +Y++K K S LLVRA+ + G +LL
Sbjct: 8 RCKLFVKKDDGEWKDKGVGT---LYLKKVKDTSKARLLVRADTSLGKILL 54
>gnl|CDD|109686 pfam00638, Ran_BP1, RanBP1 domain.
Length = 122
Score = 30.9 bits (70), Expect = 0.33
Identities = 20/101 (19%), Positives = 39/101 (38%), Gaps = 10/101 (9%)
Query: 15 RVKLYALNAD-RQWDDKGTGHVSSIYVEKHKGMSLLVRAEADGTLLLESKIQTDTAYQKQ 73
R KL+ +A+ +QW ++G G + + + + +L+R + + I D +
Sbjct: 16 RAKLFRFDAEVKQWKERGVGDIKILKNKDDGKVRILMRRDQVLKVCANHYITPDMTLKPL 75
Query: 74 QDTLIVW---------SERDNYDLALSFQEKAGCDEIWEKI 105
+ W E LA+ F+ K D +K
Sbjct: 76 AGSDRSWVWTAADFADGEGKPEQLAIRFKTKEEADSFKKKF 116
>gnl|CDD|241327 cd13173, RanBD3_RanBP2_insect-like, Ran-binding protein 2, Ran
binding domain repeat 3. RanBP2 (also called E3
SUMO-protein ligase RanBP2, 358 kDa nucleoporin, and
nuclear pore complex (NPC) protein Nup358) is a giant
nucleoporin that localizes to the cytosolic face of the
NPC. RanBP2 contains a leucine-rich region, 8
zinc-finger motifs, a cyclophilin A homologous domain,
and 4 RanBDs. Ran is a Ras-like nuclear small GTPase,
which regulates receptor-mediated transport between the
nucleus and the cytoplasm. RanGTP hydrolysis is
stimulated by RanGAP together with the Ran-binding
domain containing acessory proteins RanBP1 and RanBP2.
These accessory proteins stabilize the active GTP-bound
form of Ran. All eukaryotic cells contain RanBP1, but
in vertebrates however, the main RanBP seems to be
RanBP2. There is no RanBP2 ortholog in yeast. Transport
complex disassembly is accomplished by a small
ubiquitin-related modifier-1 (SUMO-1)-modified version
of RanGAP that is bound to RanBP2. RanBP1 acts as a
second line of defense against exported RanGTP-importin
complexes which have escaped from dissociation by
RanBP2. RanBP2 also interacts with the importin subunit
beta-1. RabBD shares structural similarity to the PH
domain, but lacks detectable sequence similarity. The
members here include insects and nematodes. The third
RanBD is present in this hierarchy.
Length = 110
Score = 28.6 bits (64), Expect = 1.9
Identities = 15/70 (21%), Positives = 35/70 (50%), Gaps = 1/70 (1%)
Query: 15 RVKLYALNADRQWDDKGTGHVSSIYVEKHKGMSLLVRAEADGTLLLESKIQTDTAYQKQQ 74
R KL+ D++W ++G G V + ++ + LL+R + + L + + ++K+
Sbjct: 8 RAKLFRFV-DKEWKERGLGDVKILRHKETGKLRLLMRRDQVLKICLNHALTEELEFRKKD 66
Query: 75 DTLIVWSERD 84
+ +W+ D
Sbjct: 67 EKSWMWAAHD 76
>gnl|CDD|221802 pfam12842, DUF3819, Domain of unknown function (DUF3819). This is
an uncharacterized domain that is found on the CCR4-Not
complex component Not1. Not1 is a global regulator of
transcription that affects genes positively and
negatively and is thought to regulate transcription
factor TFIID.
Length = 147
Score = 28.3 bits (64), Expect = 3.6
Identities = 8/23 (34%), Positives = 13/23 (56%)
Query: 84 DNYDLALSFQEKAGCDEIWEKIC 106
DN +LA + EKA ++ +I
Sbjct: 110 DNLELACALIEKAAAEKAVREID 132
>gnl|CDD|219403 pfam07409, GP46, Phage protein GP46. This family contains GP46
phage proteins (approximately 120 residues long).
Length = 115
Score = 27.7 bits (62), Expect = 4.0
Identities = 16/42 (38%), Positives = 21/42 (50%), Gaps = 7/42 (16%)
Query: 3 LLVRAE-ADDTRRRVKLYALNADRQW--DDKGTGHVSSIYVE 41
LL R + +T RR + YA A QW DD G ++I V
Sbjct: 47 LLRREKLTPETLRRAEDYAREA-LQWLIDD---GVATAIDVT 84
>gnl|CDD|176210 cd08248, RTN4I1, Human Reticulon 4 Interacting Protein 1. Human
Reticulon 4 Interacting Protein 1 is a member of the
medium chain dehydrogenase/ reductase (MDR) family.
Riticulons are endoplasmic reticulum associated proteins
involved in membrane trafficking and neuroendocrine
secretion. The MDR/zinc-dependent alcohol
dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins related
to the first identified member, class I mammalian ADH.
MDRs display a broad range of activities and are
distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES.
Length = 350
Score = 28.3 bits (64), Expect = 5.3
Identities = 15/45 (33%), Positives = 20/45 (44%), Gaps = 5/45 (11%)
Query: 225 DIILDVVGCLEYDPALTSPKRHRHYLRTNSKFKEVVPISNSDLLG 269
D+ILD VG AL K+ Y+ S + N+D LG
Sbjct: 229 DVILDTVGGDTEKWALKLLKKGGTYVTLVSPL-----LKNTDKLG 268
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 28.8 bits (64), Expect = 5.6
Identities = 28/127 (22%), Positives = 41/127 (32%), Gaps = 25/127 (19%)
Query: 145 CEINRLEEIKELMQTCLASPVRKEKLAEAIESEGYIRKLVGIFHMCEDLENLPGLHCLYD 204
CE LEE+ + + AS E L
Sbjct: 2624 CEKLSLEELALIYEDTSASEFCDVTRNERY------------------------FLYL-V 2658
Query: 205 ILKSIFLLNKTQLLDILFSDDIILDVVGCLEYDPALTSPKRHRHYLRTNSKFKEVVPISN 264
I S +L + I FS ++L V DPA+ RHYL + K+ P+
Sbjct: 2659 ITPSSKMLKNQGMAYIYFSFGMLLRYVPDCPVDPAVDRVGHARHYLESEMAIKDGNPVFY 2718
Query: 265 SDLLGKI 271
+ L K+
Sbjct: 2719 NVNLKKV 2725
>gnl|CDD|218540 pfam05291, Bystin, Bystin. Trophinin and tastin form a cell
adhesion molecule complex that potentially mediates an
initial attachment of the blastocyst to uterine
epithelial cells at the time of implantation. Trophinin
and tastin bind to an intermediary cytoplasmic protein
called bystin. Bystin may be involved in implantation
and trophoblast invasion because bystin is found with
trophinin and tastin in the cells at human implantation
sites and also in the intermediate trophoblasts at
invasion front in the placenta from early pregnancy.
This family also includes the yeast protein ENP1. ENP1
is an essential protein in Saccharomyces cerevisiae and
is localised in the nucleus. It is thought that ENP1
plays a direct role in the early steps of rRNA
processing as enp1 defective yeast cannot synthesise 20S
pre-rRNA and hence 18S rRNA, which leads to reduced
formation of 40S ribosomal subunits.
Length = 303
Score = 28.0 bits (63), Expect = 6.4
Identities = 18/61 (29%), Positives = 26/61 (42%), Gaps = 13/61 (21%)
Query: 99 DEIWEKICQVQGKDPSVEITQDIIEESEDERFDDMSDGSPPIELPPCEINRLEEIKELMQ 158
D I EKI Q K+ S + D+ + SP I+L P I E++ EL+
Sbjct: 14 DIIMEKI---QEKEASGQGAGR----------DEEGNPSPEIKLDPKVIEVYEKVGELLS 60
Query: 159 T 159
Sbjct: 61 R 61
>gnl|CDD|224929 COG2018, COG2018, Uncharacterized distant relative of homeotic
protein bithoraxoid [General function prediction only].
Length = 119
Score = 27.3 bits (61), Expect = 6.4
Identities = 14/38 (36%), Positives = 20/38 (52%)
Query: 23 ADRQWDDKGTGHVSSIYVEKHKGMSLLVRAEADGTLLL 60
A+R D+ G G + I +E KG LL A D L++
Sbjct: 56 AERAADELGGGELEQIMIEGKKGKILLYDAGDDAILVV 93
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 0.136 0.393
Gapped
Lambda K H
0.267 0.0735 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,283,016
Number of extensions: 1694326
Number of successful extensions: 1447
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1444
Number of HSP's successfully gapped: 30
Length of query: 335
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 238
Effective length of database: 6,635,264
Effective search space: 1579192832
Effective search space used: 1579192832
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: 59 (26.5 bits)