RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9252
(346 letters)
>gnl|CDD|238607 cd01276, PKCI_related, Protein Kinase C Interacting protein related
(PKCI): PKCI and related proteins belong to the
ubiquitous HIT family of hydrolases that act on
alpha-phosphates of ribonucleotides. The members of this
subgroup have a conserved HxHxHxx motif (x is a
hydrophobic residue) that is a signature for this
family. No enzymatic activity has been reported however,
for PKCI and its related members.
Length = 104
Score = 72.6 bits (179), Expect = 4e-16
Identities = 44/103 (42%), Positives = 64/103 (62%), Gaps = 2/103 (1%)
Query: 173 LYDKILRNKFKYKKVIYNDSLCWAYRELTKLAPVYINIIPKKNLTSLAEAQEEDAFLLGH 232
++ KI+R + KKV Y D A+ ++ APV+I +IPKK++ SL++A EED LLGH
Sbjct: 3 IFCKIIRGEIPAKKV-YEDDEVLAFHDINPQAPVHILVIPKKHIASLSDATEEDEELLGH 61
Query: 233 MFHLCQKFAFDLKMRE-GYRVVINNGHAGNHNLTHFNILLIGG 274
+ K A DL + E GYR+VIN G G + H ++ L+GG
Sbjct: 62 LLSAAAKVAKDLGIAEDGYRLVINCGKDGGQEVFHLHLHLLGG 104
>gnl|CDD|182648 PRK10687, PRK10687, purine nucleoside phosphoramidase; Provisional.
Length = 119
Score = 60.3 bits (146), Expect = 2e-11
Identities = 32/108 (29%), Positives = 57/108 (52%), Gaps = 2/108 (1%)
Query: 171 EKLYDKILRNKFKYKKVIYNDSLCWAYRELTKLAPVYINIIPKKNLTSLAEAQEEDAFLL 230
E ++ KI+R + ++Y D L A+R+++ AP +I IIP + ++ + E L
Sbjct: 4 ETIFSKIIRREIP-SDIVYQDELVTAFRDISPQAPTHILIIPNILIPTVNDVSAEHEQAL 62
Query: 231 GHMFHLCQKFAFDLKMRE-GYRVVINNGHAGNHNLTHFNILLIGGRQM 277
G M + K A + E GYR+++N G + H ++ L+GGR +
Sbjct: 63 GRMITVAAKIAEQEGIAEDGYRLIMNTNRHGGQEVYHIHMHLLGGRPL 110
>gnl|CDD|216377 pfam01230, HIT, HIT domain.
Length = 97
Score = 54.2 bits (131), Expect = 2e-09
Identities = 33/96 (34%), Positives = 53/96 (55%), Gaps = 5/96 (5%)
Query: 184 YKKVIYNDSLCWAYRELTKLAPVYINIIPKKNLTSLAEAQEEDAFLLGHMFHLCQKFAFD 243
KV+Y D L A+ ++ AP ++ +IPKK++T L + E+ LG + +K A
Sbjct: 5 PSKVVYEDDLVLAFLDIDPQAPGHVLVIPKKHITELHDLTPEE---LGDLMSEAKKVARA 61
Query: 244 LKMR--EGYRVVINNGHAGNHNLTHFNILLIGGRQM 277
L +GYR+VINNG A ++ H +I +I R+
Sbjct: 62 LGKAKADGYRIVINNGAAAGQSVPHLHIHVIPRREG 97
>gnl|CDD|223611 COG0537, Hit, Diadenosine tetraphosphate (Ap4A) hydrolase and other
HIT family hydrolases [Nucleotide transport and
metabolism / Carbohydrate transport and metabolism /
General function prediction only].
Length = 138
Score = 52.0 bits (125), Expect = 2e-08
Identities = 28/94 (29%), Positives = 47/94 (50%), Gaps = 6/94 (6%)
Query: 187 VIYNDSLCWAYRELTKLAPVYINIIPKKNLTSLAEAQEEDAFLLGHMFHLCQKFAFDLKM 246
+Y D A+ ++ AP + +IPK++++ L ++ D L +F L QK A LK
Sbjct: 17 KVYEDEHVLAFLDIYPAAPGHTLVIPKRHVSDL---EDLDPEELAELFLLAQKIAKALKE 73
Query: 247 ---REGYRVVINNGHAGNHNLTHFNILLIGGRQM 277
+GY + INNG A + H +I +I +
Sbjct: 74 AFGADGYNIGINNGKAAGQEVFHLHIHIIPRYKG 107
>gnl|CDD|221348 pfam11969, DcpS_C, Scavenger mRNA decapping enzyme C-term binding.
This family consists of several scavenger mRNA decapping
enzymes (DcpS) and is the C-terminal region. DcpS is a
scavenger pyrophosphatase that hydrolyses the residual
cap structure following 3' to 5' decay of an mRNA. The
association of DcpS with 3' to 5' exonuclease exosome
components suggests that these two activities are linked
and there is a coupled exonucleolytic decay-dependent
decapping pathway. The C-terminal domain contains a
histidine triad (HIT) sequence with three histidines
separated by hydrophobic residues. The central histidine
within the DcpS HIT motif is critical for decapping
activity and defines the HIT motif as a new mRNA
decapping domain, making DcpS the first member of the
HIT family of proteins with a defined biological
function.
Length = 113
Score = 48.0 bits (115), Expect = 3e-07
Identities = 26/101 (25%), Positives = 55/101 (54%), Gaps = 2/101 (1%)
Query: 173 LYDKILRNKFKYKKVIYNDSLCWAYRELTKLAPVYINIIPKKNLTSLAEAQEEDAFLLGH 232
++ I+ + ++++Y D A++++ AP+++ +IPKK++ SL + +E LLGH
Sbjct: 3 VFCIIINGEE-PERIVYEDDGFVAFKDIKPKAPLHLLVIPKKHIKSLRDLTKEHLPLLGH 61
Query: 233 MFHLCQKFAFDLKMREGYRVVINNGHAGNHNLTHFNILLIG 273
M + +K A + YR V+ G ++ H ++ +I
Sbjct: 62 MREVAKKIAKEKYNEG-YRDVLRLGFHYGPSVYHLHLHVIA 101
>gnl|CDD|238608 cd01277, HINT_subgroup, HINT (histidine triad nucleotide-binding
protein) subgroup: Members of this CD belong to the
superfamily of histidine triad hydrolases that act on
alpha-phosphate of ribonucleotides. This subgroup
includes members from all three forms of cellular life.
Although the biochemical function has not been
characterised for many of the members of this subgroup,
the proteins from Yeast have been shown to be involved
in secretion, peroxisome formation and gene expression.
Length = 103
Score = 41.8 bits (99), Expect = 4e-05
Identities = 25/100 (25%), Positives = 46/100 (46%), Gaps = 7/100 (7%)
Query: 176 KILRNKFKYKKVIYNDSLCWAYRELTKLAPVYINIIPKKNLTSLAEAQEEDAFLLGHMFH 235
KI+ + KV Y D A+ ++ + + +IPKK+ +L + E+ L +
Sbjct: 6 KIIAGEIPSYKV-YEDDHVLAFLDINPASKGHTLVIPKKHYENLLDLDPEE---LAELIL 61
Query: 236 LCQKFAFDLKMR---EGYRVVINNGHAGNHNLTHFNILLI 272
+K A LK +G ++ NNG A + H ++ +I
Sbjct: 62 AAKKVARALKKALKADGLNILQNNGRAAGQVVFHVHVHVI 101
>gnl|CDD|147949 pfam06068, TIP49, TIP49 C-terminus. This family consists of the
C-terminal region of several eukaryotic and archaeal
RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin
or TIP49b) proteins. The N-terminal domain contains the
pfam00004 domain. In zebrafish, the liebeskummer (lik)
mutation, causes development of hyperplastic embryonic
hearts. lik encodes Reptin, a component of a
DNA-stimulated ATPase complex. Beta-catenin and Pontin,
a DNA-stimulated ATPase that is often part of complexes
with Reptin, are in the same genetic pathways. The
Reptin/Pontin ratio serves to regulate heart growth
during development, at least in part via the
beta-catenin pathway. TBP-interacting protein 49 (TIP49)
was originally identified as a TBP-binding protein, and
two related proteins are encoded by individual genes,
tip49a and b. Although the function of this gene family
has not been elucidated, they are supposed to play a
critical role in nuclear events because they interact
with various kinds of nuclear factors and have DNA
helicase activities.TIP49a has been suggested to act as
an autoantigen in some patients with autoimmune
diseases.
Length = 395
Score = 30.0 bits (68), Expect = 1.9
Identities = 12/38 (31%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 156 RITLKTVPGRLLYD-HEKLYDKILRNKFKYKKVIYNDS 192
+ITLKT K+Y+++ + K + VIY D
Sbjct: 145 KITLKTTKMEKTLKLGPKIYEQLQKEKVQAGDVIYIDK 182
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 30.4 bits (68), Expect = 2.2
Identities = 15/59 (25%), Positives = 24/59 (40%), Gaps = 3/59 (5%)
Query: 198 RELTKLAPVYINIIPKKNLTSLAEAQEEDAFLLGHMFHLCQKFAFDLKMREGYRVVINN 256
REL KL P I NL+ + + LL F + F +++ G ++N
Sbjct: 3402 RELMKLTP---ETINDDNLSEIKHLKSRKHLLLTETFKTLKAFGLQYRVKAGIEENLSN 3457
>gnl|CDD|238629 cd01304, FMDH_A, Formylmethanofuran dehydrogenase (FMDH) subunit A;
Methanogenic bacteria and archea derive the energy for
autotrophic growth from methanogenesis, the reduction of
CO2 with molecular hydrogen as the electron donor. FMDH
catalyzes the first step in methanogenesis, the
formyl-methanofuran synthesis. In this step, CO2 is
bound to methanofuran and subsequently reduced to the
formyl state with electrons derived from hydrogen.
Length = 541
Score = 29.7 bits (67), Expect = 2.3
Identities = 25/94 (26%), Positives = 33/94 (35%), Gaps = 24/94 (25%)
Query: 206 VYINIIPKKNLTSLAEAQEEDAFLLGHMFHL-CQKFAFDLKMREGYRVVINN-GHAGNHN 263
Y +I P++ L LAEA EE L H H+ C NN G GN+
Sbjct: 201 PYFDITPREILKGLAEANEE--LGLPHSIHVHC-----------------NNLGVPGNYE 241
Query: 264 LTHFNILLIGG---RQMRYPKYYDLSHFNSYASE 294
T + G R + F+SY
Sbjct: 242 TTLETMKAAEGVKPDPRRQVLHLTHVQFHSYGGT 275
>gnl|CDD|116881 pfam08298, AAA_PrkA, PrkA AAA domain. This is a family of PrkA
bacterial and archaeal serine kinases approximately 630
residues long. This is the N-terminal AAA domain.
Length = 358
Score = 29.3 bits (66), Expect = 2.6
Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 13/54 (24%)
Query: 140 FDDSVISHGNEEE------------FMKRITLKTVPGRL-LYDHEKLYDKILRN 180
FD +++H NE E F+ RI + VP L + + K+Y+K+L+
Sbjct: 273 FDGIILAHSNESEWNSFKSNKNNEAFLDRIVVIKVPYCLRVSEEIKIYEKLLKE 326
>gnl|CDD|191388 pfam05849, L-fibroin, Fibroin light chain (L-fibroin). This family
consists of several moth fibroin light chain (L-fibroin)
proteins. Fibroin of the silkworm, Bombyx mori, is
secreted into the lumen of posterior silk gland (PSG)
from the surrounding PSG cells as a molecular complex
consisting of a heavy (H)-chain of approximately 350
kDa, a light (L)-chain of 25 kDa and a P25 of about 27
kDa. The H- and L-chains are disulfide-linked but P25 is
associated with the H-L complex by non-covalent force.
Length = 245
Score = 29.5 bits (66), Expect = 2.6
Identities = 9/31 (29%), Positives = 13/31 (41%)
Query: 168 YDHEKLYDKILRNKFKYKKVIYNDSLCWAYR 198
YD E +D +L + N+ C A R
Sbjct: 152 YDFEAAWDSVLAYADPVGSSLINEEYCIAKR 182
>gnl|CDD|151367 pfam10920, DUF2705, Protein of unknown function (DUF2705). This
bacterial family of proteins has no known function.
Length = 247
Score = 29.1 bits (65), Expect = 3.1
Identities = 13/36 (36%), Positives = 18/36 (50%), Gaps = 4/36 (11%)
Query: 306 FKLSGRMADFLGSYGSLKA----KRAKWLSSKYPKM 337
F SG + D L SY LK K+ KWL ++ +
Sbjct: 62 FCFSGNIKDLLISYEFLKISREFKKEKWLMKQFLII 97
>gnl|CDD|176181 cd05278, FDH_like, Formaldehyde dehydrogenases. Formaldehyde
dehydrogenase (FDH) is a member of the
zinc-dependent/medium chain alcohol dehydrogenase
family. Formaldehyde dehydrogenase (aka ADH3) may be
the ancestral form of alcohol dehydrogenase, which
evolved to detoxify formaldehyde. This CD contains
glutathione dependant FDH, glutathione independent FDH,
and related alcohol dehydrogenases. FDH converts
formaldehyde and NAD(P) to formate and NAD(P)H. The
initial step in this process the spontaneous formation
of a S-(hydroxymethyl)glutathione adduct from
formaldehyde and glutathione, followed by FDH-mediated
oxidation (and detoxification) of the adduct to
S-formylglutathione. Unlike typical FDH, Pseudomonas
putida aldehyde-dismutating FDH (PFDH) is
glutathione-independent. The medium chain alcohol
dehydrogenase family (MDR) have a NAD(P)(H)-binding
domain in a Rossmann fold of a beta-alpha form. The
N-terminal region typically has an all-beta catalytic
domain. These proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and have 2 tightly bound zinc atoms per subunit.
Length = 347
Score = 29.2 bits (66), Expect = 3.4
Identities = 16/52 (30%), Positives = 20/52 (38%), Gaps = 4/52 (7%)
Query: 139 VFDDSVISHGNEEEFMKRITLKT--VPGRLLYDHEKLYDKILRNKFKYKKVI 188
V+ E F K +T KT VP R +L D I K K+I
Sbjct: 268 VYGKPDPLPLLGEWFGKNLTFKTGLVPVRA--RMPELLDLIEEGKIDPSKLI 317
>gnl|CDD|99891 cd05817, CBM20_DSP, Dual-specificity phosphatase (DSP), N-terminal
CBM20 (carbohydrate-binding module, family 20) domain.
This CBM20 domain is located at the N-terminus of a
protein tyrosine phosphatase of unknown function found
in slime molds and ciliated protozoans. The CBM20 domain
is found in a large number of starch degrading enzymes
including alpha-amylase, beta-amylase, glucoamylase, and
CGTase (cyclodextrin glucanotransferase). CBM20 is also
present in proteins that have a regulatory role in
starch metabolism in plants (e.g. alpha-amylase) or
glycogen metabolism in mammals (e.g. laforin). CBM20
folds as an antiparallel beta-barrel structure with two
starch binding sites. These two sites are thought to
differ functionally with site 1 acting as the initial
starch recognition site and site 2 involved in the
specific recognition of appropriate regions of starch.
Length = 100
Score = 27.1 bits (60), Expect = 6.0
Identities = 11/33 (33%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 297 HCLSTYGDDFKLSGRMADFLGSYGSLKAKRAKW 329
H + +G+ +SG + LG++ KAKR +W
Sbjct: 7 HYPTQFGEAVYISGNC-NQLGNWNPSKAKRMQW 38
>gnl|CDD|214898 smart00901, FRG, This domain contains a conserved N-terminal
(F/Y)RG motif. It is functionally uncharacterised.
Length = 103
Score = 26.5 bits (59), Expect = 8.8
Identities = 14/52 (26%), Positives = 22/52 (42%)
Query: 172 KLYDKILRNKFKYKKVIYNDSLCWAYRELTKLAPVYINIIPKKNLTSLAEAQ 223
L + R K Y ++ +D R + AP ++ P +L LA AQ
Sbjct: 16 PLVPSLFRKKGFYPDLLSSDDERRLLRNFKRQAPNRLDKSPSDDLEWLALAQ 67
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 0.139 0.411
Gapped
Lambda K H
0.267 0.0721 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 18,256,480
Number of extensions: 1824977
Number of successful extensions: 1709
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1702
Number of HSP's successfully gapped: 38
Length of query: 346
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 248
Effective length of database: 6,590,910
Effective search space: 1634545680
Effective search space used: 1634545680
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: 59 (26.5 bits)