RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10576
(151 letters)
>gnl|CDD|227411 COG5079, SAC3, Nuclear protein export factor [Intracellular
trafficking and secretion / Cell division and chromosome
partitioning].
Length = 646
Score = 93.1 bits (231), Expect = 8e-23
Identities = 43/135 (31%), Positives = 60/135 (44%), Gaps = 2/135 (1%)
Query: 15 YDFLWDRLRGIRKDIVQQQLCSVNTANILEQCARFHILCFDRLCGEDASIFDEKINTENL 74
+ F+ DR R +R+D Q + E+ ARFHIL L D F ++ E L
Sbjct: 157 HRFVRDRTRAVRQDFTIQNEKGKDAVECHERIARFHILFLHLLH--DHPHFSKQQELEQL 214
Query: 75 NNCLQSLIHMYDDLHAQGLVCPNEPEFRAYEILLKLNRGDIIWEFQQLSPHLQTAPEILF 134
L SLI +YDD A CPNE EFRAY IL L + Q + +
Sbjct: 215 KKSLASLIELYDDGRAGKKECPNEAEFRAYAILASLGDPRYVAGIQGWPGGIFCDLPVQI 274
Query: 135 SLRVFSAFNNNLYSL 149
+L++ +N + L
Sbjct: 275 ALKLMQLAQSNNFRL 289
>gnl|CDD|217534 pfam03399, SAC3_GANP, SAC3/GANP/Nin1/mts3/eIF-3 p25 family. This
large family includes diverse proteins involved in large
complexes. The alignment contains one highly conserved
negatively charged residue and one highly conserved
positively charged residue that are probably important
for the function of these proteins. The family includes
the yeast nuclear export factor Sac3, and mammalian
GANP/MCM3-associated proteins, which facilitate the
nuclear localisation of MCM3, a protein that associates
with chromatin in the G1 phase of the cell-cycle. The
26S protease (or 26S proteasome) is responsible for
degrading ubiquitin conjugates. It consists of 19S
regulatory complexes associated with the ends of 20S
proteasomes. The 19S regulatory complex is composed of
about 20 different polypeptides and confers
ATP-dependence and substrate specificity to the 26S
enzyme. The conserved region occurs at the C-terminal of
the Nin1-like regulatory subunit. This family includes
several eukaryotic translation initiation factor 3
subunit 11 (eIF-3 p25) proteins. Eukaryotic initiation
factor 3 (eIF3) is a multisubunit complex that is
required for binding of mRNA to 40 S ribosomal subunits,
stabilisation of ternary complex binding to 40 S
subunits, and dissociation of 40 and 60 S subunits.
Length = 155
Score = 65.4 bits (160), Expect = 3e-14
Identities = 33/110 (30%), Positives = 43/110 (39%), Gaps = 21/110 (19%)
Query: 42 ILEQCARFHILCFDRLCGEDASIFDEKINTENLNNCLQSLIHMYDDLHAQGLVCPNEPEF 101
+LE AR + EK + E N CL L +YDDL PNE EF
Sbjct: 15 VLEIGARIAL---------------EKGDLEQFNQCLSQLKELYDDL---LGKSPNEAEF 56
Query: 102 RAYEILLKL---NRGDIIWEFQQLSPHLQTAPEILFSLRVFSAFNNNLYS 148
AY +L L D E + L ++ P I F+L + A Y
Sbjct: 57 IAYYLLYLLSNNPISDFHTELELLPDEIRNDPYIQFALELEQALMEGNYH 106
>gnl|CDD|238634 cd01309, Met_dep_hydrolase_C, Metallo-dependent hydrolases,
subgroup C is part of the superfamily of
metallo-dependent hydrolases, a large group of proteins
that show conservation in their 3-dimensional fold (TIM
barrel) and in details of their active site. The vast
majority of the members have a conserved metal binding
site, involving four histidines and one aspartic acid
residue. In the common reaction mechanism, the metal ion
(or ions) deprotonate a water molecule for a
nucleophilic attack on the substrate. The function of
this subgroup is unknown.
Length = 359
Score = 29.2 bits (66), Expect = 0.80
Identities = 13/51 (25%), Positives = 24/51 (47%), Gaps = 6/51 (11%)
Query: 96 PNEPEFRAYEILLKLNRGDIIWEFQQLSPHLQTAPEILFSLRVFSAFNNNL 146
P E + + E LL + +G+I + H A +IL ++R+ F +
Sbjct: 175 PPERDLK-LEALLPVLKGEI-----PVRIHAHRADDILTAIRIAKEFGIKI 219
>gnl|CDD|216871 pfam02092, tRNA_synt_2f, Glycyl-tRNA synthetase beta subunit.
Length = 549
Score = 28.2 bits (64), Expect = 1.8
Identities = 9/31 (29%), Positives = 14/31 (45%), Gaps = 6/31 (19%)
Query: 7 PDINVSQWYDFLWDRLR------GIRKDIVQ 31
+ V +F DRLR G+R D++
Sbjct: 513 AEEVVEDLLEFFLDRLRSLLEEQGVRYDVID 543
>gnl|CDD|215414 PLN02772, PLN02772, guanylate kinase.
Length = 398
Score = 28.3 bits (63), Expect = 1.8
Identities = 14/61 (22%), Positives = 25/61 (40%), Gaps = 3/61 (4%)
Query: 59 GEDASIFDEKINTENLNNC---LQSLIHMYDDLHAQGLVCPNEPEFRAYEILLKLNRGDI 115
G+ + IFD + +NL C L+ L+ + G+ P + K++ I
Sbjct: 290 GKSSGIFDHILYNDNLEECYKNLKKLLGLDGLAAVNGVEAPEGINLPKEHSVSKMDDKII 349
Query: 116 I 116
I
Sbjct: 350 I 350
>gnl|CDD|223822 COG0751, GlyS, Glycyl-tRNA synthetase, beta subunit [Translation,
ribosomal structure and biogenesis].
Length = 691
Score = 27.6 bits (62), Expect = 3.0
Identities = 10/28 (35%), Positives = 13/28 (46%), Gaps = 6/28 (21%)
Query: 10 NVSQWYDFLWDRLR------GIRKDIVQ 31
+ + DF RLR G RKDI+
Sbjct: 521 VLEELLDFFLGRLRTYLQDEGYRKDIID 548
>gnl|CDD|176515 cd08573, GDPD_GDE1, Glycerophosphodiester phosphodiesterase domain
of mammalian glycerophosphodiester phosphodiesterase
GDE1 and similar proteins. This subfamily corresponds
to the glycerophosphodiester phosphodiesterase domain
(GDPD) present in mammalian GDE1 (also known as MIR16,
membrane interacting protein of RGS16) and their
metazoan homologs. GDE1 is widely expressed in mammalian
tissues, including the heart, brain, liver, and kidney.
It shows sequence homology to bacterial
glycerophosphodiester phosphodiesterases (GP-GDEs, EC
3.1.4.46), which catalyzes the hydrolysis of various
glycerophosphodiesters, and produce
sn-glycerol-3-phosphate (G3P) and the corresponding
alcohols. GDE1 has been characterized as GPI-GDE (EC
3.1.4.44) that selectively hydrolyzes extracellular
glycerophosphoinositol (GPI) to generate glycerol
phosphate and inositol. It functions as an integral
membrane-bound glycoprotein interacting with regulator
of G protein signaling protein RGS16, and is modulated
by G protein-coupled receptor (GPCR) signaling. In
addition, GDE1 may interact with PRA1 domain family,
member 2 (PRAF2, also known as JM4), which is an
interacting protein of the G protein-coupled chemokine
receptor CCR5. The catalytic activity, which is
dependent on the integrity of the GDPD domain, is
required for GDE1 cellular function.
Length = 258
Score = 26.5 bits (59), Expect = 6.7
Identities = 14/43 (32%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 64 IFDEKINTENLNNCLQSLIHMYDDLHAQGLVCPNEPEFRAYEI 106
IFD K N+ L + L++L Y L+ + +VC P Y++
Sbjct: 106 IFDVKSNSSKLVDALKNLFKKYPGLYDKAIVCSFNPIV-IYKV 147
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
0.325 0.140 0.443
Gapped
Lambda K H
0.267 0.0759 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,720,388
Number of extensions: 680242
Number of successful extensions: 622
Number of sequences better than 10.0: 1
Number of HSP's gapped: 618
Number of HSP's successfully gapped: 13
Length of query: 151
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 63
Effective length of database: 7,034,450
Effective search space: 443170350
Effective search space used: 443170350
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (24.5 bits)