RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17141
(141 letters)
>gnl|CDD|193253 pfam12777, MT, Microtubule-binding stalk of dynein motor. the 380
kDa motor unit of dynein belongs to the AAA class of
chaperone-like ATPases. The core of the 380 kDa motor
unit contains a concatenated chain of six AAA modules,
of which four correspond to the ATP binding sites with
P-loop signatures described previously, and two are
modules in which the P loop has been lost in evolution.
This family is the region between D4 and D5 and is the
two predicted alpha-helical coiled coil segments that
form the stalk supporting the ATP-sensitive microtubule
binding component.
Length = 344
Score = 57.0 bits (137), Expect = 2e-10
Identities = 24/60 (40%), Positives = 37/60 (61%)
Query: 31 SLYEYDKDHIPEKILKKITNYVNLPDFDPEEIGMVSVAAKSLSKWVMAIEKYAQLFKDIQ 90
SL +DK++I E LK I Y+ P+FDPE I S AA L WV+ I ++ +++ D++
Sbjct: 158 SLINFDKENIHENCLKAIKPYLGDPEFDPEFIRSKSTAAAGLCSWVINIVRFYEVYCDVE 217
>gnl|CDD|193256 pfam12780, AAA_8, P-loop containing dynein motor region D4. The
380 kDa motor unit of dynein belongs to the AAA class of
chaperone-like ATPases. The core of the 380 kDa motor
unit contains a concatenated chain of six AAA modules,
of which four correspond to the ATP binding sites with
P-loop signatures described previously, and two are
modules in which the P loop has been lost in evolution.
This particular family is the D4 ATP-binding region of
the motor.
Length = 268
Score = 47.6 bits (113), Expect = 3e-07
Identities = 15/41 (36%), Positives = 28/41 (68%)
Query: 91 RQYPSIIDCTTIDWILDCPEQSLMEVAERFLETVDILETNV 131
R++P++++CT IDW + P+ +L+ V+ RFLE + + V
Sbjct: 180 RKFPAVVNCTAIDWFHEWPQDALVSVSARFLEETEGIPWEV 220
>gnl|CDD|220107 pfam09090, MIF4G_like_2, MIF4G like. Members of this family are
involved in mediating U snRNA export from the nucleus.
They adopt a highly helical structure, wherein the
polypeptide chain forms a right-handed solenoid. At the
tertiary level, the domain is composed of a
superhelical arrangement of successive antiparallel
pairs of helices.
Length = 250
Score = 30.5 bits (69), Expect = 0.22
Identities = 14/69 (20%), Positives = 30/69 (43%), Gaps = 11/69 (15%)
Query: 32 LYEYDKDHIPE----KILKKITNYVNLP--DFDPEEIGMVS-----VAAKSLSKWVMAIE 80
L + + P +++K I + DF+ I + + ++S S + AIE
Sbjct: 17 LLDAIRKKKPSEEILELIKSIPEIASDHGSDFNRFAIDLFVQTLLHLGSRSFSHALSAIE 76
Query: 81 KYAQLFKDI 89
+Y ++ K +
Sbjct: 77 RYKEVLKTL 85
>gnl|CDD|215346 PLN02643, PLN02643, ADP-glucose phosphorylase.
Length = 336
Score = 28.6 bits (64), Expect = 1.1
Identities = 13/39 (33%), Positives = 17/39 (43%), Gaps = 2/39 (5%)
Query: 52 VNLPDFDPEEIGMVSVAAKSLSKWVMAIE--KYAQLFKD 88
V L D IG V A K + + KY Q+FK+
Sbjct: 119 VQLSDLPARHIGEVLKAYKKRINQLQSDSRFKYVQVFKN 157
>gnl|CDD|185573 PTZ00356, PTZ00356, peptidyl-prolyl cis-trans isomerase (PPIase);
Provisional.
Length = 115
Score = 27.3 bits (61), Expect = 1.7
Identities = 12/34 (35%), Positives = 17/34 (50%), Gaps = 3/34 (8%)
Query: 68 AAKSLSKWVMAIEKYAQLFKDIQRQYPSIIDCTT 101
A K L+KW I + F++I RQ DC +
Sbjct: 37 AIKELAKWREQIVSGEKTFEEIARQRS---DCGS 67
>gnl|CDD|223001 PHA03148, PHA03148, hypothetical protein; Provisional.
Length = 289
Score = 27.7 bits (62), Expect = 2.0
Identities = 6/20 (30%), Positives = 12/20 (60%)
Query: 80 EKYAQLFKDIQRQYPSIIDC 99
+YA++F I + P + +C
Sbjct: 94 TQYARIFYAISLKTPKLGNC 113
>gnl|CDD|220906 pfam10926, DUF2800, Protein of unknown function (DUF2800). This is
a family of uncharacterized proteins found in bacteria
and viruses. Some members of this family are annotated
as being Phi APSE P51-like proteins.
Length = 363
Score = 27.7 bits (62), Expect = 2.1
Identities = 10/29 (34%), Positives = 13/29 (44%)
Query: 56 DFDPEEIGMVSVAAKSLSKWVMAIEKYAQ 84
D EE+ + A L KW +E YA
Sbjct: 245 DLTDEELAELLEKADLLEKWAKDVEAYAL 273
>gnl|CDD|176511 cd08568, GDPD_TmGDE_like, Glycerophosphodiester phosphodiesterase
domain of Thermotoga maritime and similar proteins.
This subfamily corresponds to the glycerophosphodiester
phosphodiesterase domain (GDPD) present in Thermotoga
maritime glycerophosphodiester phosphodiesterase (TmGDE,
EC 3.1.4.46) and its uncharacterized homologs. Members
in this family show high sequence similarity to
Escherichia coli GP-GDE, which catalyzes the degradation
of glycerophosphodiesters to produce
sn-glycerol-3-phosphate (G3P) and the corresponding
alcohols. TmGDE exists as a monomer that might be the
biologically relevant form.
Length = 226
Score = 27.6 bits (62), Expect = 2.2
Identities = 7/44 (15%), Positives = 15/44 (34%)
Query: 2 NITMVLYYATGFSTAKVRFPNYRKNCTRISLYEYDKDHIPEKIL 45
++ + GF RK +I L+ + + K+
Sbjct: 169 HVPIDAIGYIGFEKFVELLRLLRKLGLKIVLWTVNDPELVPKLK 212
>gnl|CDD|240340 PTZ00270, PTZ00270, variable surface protein Vir32; Provisional.
Length = 333
Score = 27.6 bits (61), Expect = 2.6
Identities = 13/35 (37%), Positives = 15/35 (42%), Gaps = 1/35 (2%)
Query: 7 LY-YATGFSTAKVRFPNYRKNCTRISLYEYDKDHI 40
LY Y + T K P Y NC I Y DK +
Sbjct: 152 LYDYCVNYETLKGIVPFYDTNCREIYTYLKDKAVL 186
>gnl|CDD|220676 pfam10288, DUF2392, Protein of unknown function (DUF2392). This
is a family of proteins conserved from plants to
humans. The function is not known. It carries a
characteristic GRG sequence motif.
Length = 104
Score = 26.0 bits (58), Expect = 4.5
Identities = 19/54 (35%), Positives = 28/54 (51%), Gaps = 2/54 (3%)
Query: 45 LKKITNYVNLPDFDPEEIGMVSVAAKSLSKWVMAIEKY-AQLFKDIQRQYPSII 97
LK+I Y +L + P I + A LSK M+I + Q F ++Q YPS +
Sbjct: 42 LKEIEAYCSLKNLPPLLINSLIQIASKLSK-NMSINELTEQYFDNLQENYPSTV 94
>gnl|CDD|198294 cd03185, GST_C_Tau, C-terminal, alpha helical domain of Class Tau
Glutathione S-transferases. Glutathione S-transferase
(GST) C-terminal domain family, Class Tau subfamily;
GSTs are cytosolic dimeric proteins involved in cellular
detoxification by catalyzing the conjugation of
glutathione (GSH) with a wide range of endogenous and
xenobiotic alkylating agents, including carcinogens,
therapeutic drugs, environmental toxins and products of
oxidative stress. The GST fold contains an N-terminal
thioredoxin-fold domain and a C-terminal alpha helical
domain, with an active site located in a cleft between
the two domains. GSH binds to the N-terminal domain
while the hydrophobic substrate occupies a pocket in the
C-terminal domain. The plant-specific class Tau GST
subfamily has undergone extensive gene duplication. The
Arabidopsis and Oryza genomes contain 28 and 40 Tau
GSTs, respectively. They are primarily responsible for
herbicide detoxification together with class Phi GSTs,
showing class specificity in substrate preference. Tau
enzymes are highly efficient in detoxifying
diphenylether and aryloxyphenoxypropionate herbicides.
In addition, Tau GSTs play important roles in
intracellular signalling, biosynthesis of anthocyanin,
responses to soil stresses and responses to auxin and
cytokinin hormones.
Length = 127
Score = 26.0 bits (58), Expect = 4.9
Identities = 17/64 (26%), Positives = 24/64 (37%), Gaps = 17/64 (26%)
Query: 60 EEIGMVSVAAKSLSKWVMAIEKYAQLFKDIQRQYPSIIDCTTIDWILDCPEQSLMEVAER 119
+ IG + +A S W AIE+ + ++D P L AER
Sbjct: 61 DTIGYLDIALGSFLGWFKAIEEVGGV---------KLLDEEK------FPL--LAAWAER 103
Query: 120 FLET 123
FLE
Sbjct: 104 FLER 107
>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational
modification, protein turnover, chaperones].
Length = 494
Score = 26.7 bits (59), Expect = 5.3
Identities = 13/27 (48%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 72 LSKWVMAIEKY-AQLFKDIQRQYPSII 97
LSKWV EK +LF+ ++ PSII
Sbjct: 313 LSKWVGESEKNIRELFEKARKLAPSII 339
>gnl|CDD|236982 PRK11784, PRK11784, tRNA 2-selenouridine synthase; Provisional.
Length = 345
Score = 26.3 bits (59), Expect = 5.5
Identities = 9/28 (32%), Positives = 13/28 (46%), Gaps = 8/28 (28%)
Query: 34 EYDKDHIPEKILKKITNYVNLPDFDPEE 61
E+ + HIP +NLP + EE
Sbjct: 26 EFAEGHIP--------GAINLPLLNDEE 45
>gnl|CDD|224990 COG2079, PrpD, Uncharacterized protein involved in propionate
catabolism [General function prediction only].
Length = 453
Score = 26.5 bits (59), Expect = 5.5
Identities = 6/28 (21%), Positives = 13/28 (46%)
Query: 41 PEKILKKITNYVNLPDFDPEEIGMVSVA 68
+K+L +I +YV + P+ +
Sbjct: 6 EDKLLAEIADYVAYSELSPDAVETAKNR 33
>gnl|CDD|177083 CHL00181, cbbX, CbbX; Provisional.
Length = 287
Score = 26.6 bits (59), Expect = 5.5
Identities = 18/79 (22%), Positives = 37/79 (46%), Gaps = 5/79 (6%)
Query: 47 KITNYVNLPDFDPEEIGMVSVAAKSLSKWVMAIEKYAQLFKDIQR--QYPSIIDCTTIDW 104
+I N+V+ PD+ PEE+ ++ ++ + E L I++ + P + ++
Sbjct: 186 RIANHVDFPDYTPEELLQIAKIMLEEQQYQLTPEAEKALLDYIKKRMEQPLFANARSVRN 245
Query: 105 ILDCPEQSLMEVAERFLET 123
LD ++ M A R E+
Sbjct: 246 ALD---RARMRQANRIFES 261
>gnl|CDD|234132 TIGR03167, tRNA_sel_U_synt, tRNA 2-selenouridine synthase. The
Escherichia coli YbbB protein was shown to encode a
selenophosphate-dependent tRNA 2-selenouridine
synthase, essential for modification of some tRNAs to
replace a sulfur atom with selenium. This enzyme works
with SelD, the selenium donor protein, which also acts
in selenocysteine incorporation. Although the members
of this protein family show a fairly deep split,
sequences from both sides of the split are supported by
co-occurence with, and often proximity to, the selD
gene [Protein synthesis, tRNA and rRNA base
modification].
Length = 311
Score = 26.4 bits (59), Expect = 5.7
Identities = 8/28 (28%), Positives = 13/28 (46%), Gaps = 8/28 (28%)
Query: 34 EYDKDHIPEKILKKITNYVNLPDFDPEE 61
E+ + H+P +NLP + EE
Sbjct: 13 EFAEGHLP--------GAINLPLLNDEE 32
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
0.323 0.137 0.407
Gapped
Lambda K H
0.267 0.0756 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,359,012
Number of extensions: 664286
Number of successful extensions: 731
Number of sequences better than 10.0: 1
Number of HSP's gapped: 729
Number of HSP's successfully gapped: 35
Length of query: 141
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 54
Effective length of database: 7,078,804
Effective search space: 382255416
Effective search space used: 382255416
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 (22.0 bits)
S2: 54 (24.5 bits)