RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16432
(69 letters)
>gnl|CDD|107241 cd06492, p23_mNUDC_like, p23-like NUD (nuclear distribution)
C-like domain of mammalian(m) NUDC and similar
proteins. Mammalian(m) NUDC associates both with the
dynein complex and also with an anti-inflammatory
enzyme, platelet activating factor acetylhydrolase I,
PAF-AH(I) complex, through binding mNUDF, the
regulatory beta subunit of PAF-AH(I). mNUDC is
important for cell proliferation both in normal and
tumor tissues. Its expression is elevated in various
cell types undergoing mitosis or stimulated to
proliferate, with high expression levels observed in
leukemic cells and tumors. For a leukemic cell line,
human NUDC was shown to activate the thrombopoietin
(TPO) receptor (Mpl) by binding to its extracellular
domain, and promoting cell proliferation and
differentiation.
Length = 87
Score = 63.9 bits (156), Expect = 2e-15
Identities = 25/55 (45%), Positives = 40/55 (72%)
Query: 10 KKQDVLKKFMEQHPEMAVRHQTPIIDGELEHEIKLEESTWVFENAKTVMINMEKI 64
K +DV+ +H ++ ++ Q PIIDGEL +E+K+EES+W+ E+ K V +N+EKI
Sbjct: 23 KGKDVVVDIQRKHLKVGLKGQPPIIDGELYNEVKVEESSWLIEDGKVVTVNLEKI 77
>gnl|CDD|107224 cd06467, p23_NUDC_like, p23_like domain of NUD (nuclear
distribution) C and similar proteins. Aspergillus
nidulas (An) NUDC is needed for nuclear movement.
AnNUDC is localized at the hyphal cortex, and binds
NUDF at spindle pole bodies (SPBs) and in the cytoplasm
at different stages in the cell cycle. At the SPBs it
is part of the dynein molecular motor/NUDF complex that
regulates microtubule dynamics. Mammalian(m) NUDC
associates both with the dynein complex and also with
an anti-inflammatory enzyme, platelet activating factor
acetylhydrolase I, PAF-AH(I) complex, through binding
mNUDF, the regulatory beta subunit of PAF-AH(I). mNUDC
is important for cell proliferation both in normal and
tumor tissues. Its expression is elevated in various
cell types undergoing mitosis or stimulated to
proliferate, with high expression levels observed in
leukemic cells and tumors. For a leukemic cell line,
human NUDC was shown to activate the thrombopoietin
(TPO) receptor (Mpl) by binding to its extracellular
domain, and promoting cell proliferation and
differentiation. This group also includes the human
broadly immunogenic tumor associated antigen, CML66,
which is highly expressed in a variety of solid tumors
and in leukemias. In normal tissues high expression of
CML66 is limited to testis and heart.
Length = 85
Score = 55.2 bits (134), Expect = 4e-12
Identities = 20/55 (36%), Positives = 35/55 (63%)
Query: 10 KKQDVLKKFMEQHPEMAVRHQTPIIDGELEHEIKLEESTWVFENAKTVMINMEKI 64
K +DV + +H ++ V+ P++DGEL ++K++ESTW E+ K + I +EK
Sbjct: 21 KSKDVKVEITPKHLKVGVKGGEPLLDGELYAKVKVDESTWTLEDGKLLEITLEKR 75
>gnl|CDD|218355 pfam04969, CS, CS domain. The CS and CHORD (pfam04968) are fused
into a single polypeptide chain in metazoans but are
found in separate proteins in plants; this is thought
to be indicative of an interaction between CS and
CHORD. It has been suggested that the CS domain is a
binding module for HSP90, implying that CS
domain-containing proteins are involved in recruiting
heat shock proteins to multiprotein assemblies.
Length = 78
Score = 36.8 bits (86), Expect = 6e-05
Identities = 19/64 (29%), Positives = 34/64 (53%), Gaps = 4/64 (6%)
Query: 3 LPTSDEQKKQDVLKKFMEQHPEMAVRHQ---TPIIDGELEHEIKLEESTWVFENAKTVMI 59
+P KK+DV + + +++++ ++DGEL I EES+W E+ K V I
Sbjct: 16 IPLKGVTKKKDVKVEIKPRSLKVSIKGPGGKEYLLDGELFGPIDPEESSWKIEDTK-VEI 74
Query: 60 NMEK 63
++K
Sbjct: 75 TLKK 78
>gnl|CDD|107242 cd06493, p23_NUDCD1_like, p23_NUDCD1: p23-like NUD (nuclear
distribution) C-like domain found in human NUD (nuclear
distribution) C domain-containing protein 1, NUDCD1
(also known as CML66), and similar proteins.
NUDCD1/CML66 is a broadly immunogenic tumor associated
antigen, which is highly expressed in a variety of
solid tumors and in leukemias. In normal tissues high
expression of NUDCD1/CML66 is limited to testis and
heart.
Length = 85
Score = 35.2 bits (81), Expect = 3e-04
Identities = 17/53 (32%), Positives = 34/53 (64%)
Query: 11 KQDVLKKFMEQHPEMAVRHQTPIIDGELEHEIKLEESTWVFENAKTVMINMEK 63
K+D+ KF+ H +A++ Q P+++G+L I E STW+ + K++ +++ K
Sbjct: 22 KEDIRIKFLPDHISIALKDQAPLLEGKLYSSIDHESSTWIIKENKSLEVSLIK 74
>gnl|CDD|107220 cd06463, p23_like, Proteins containing this p23_like domain
include p23 and its Saccharomyces cerevisiae (Sc)
homolog Sba1. Both are co-chaperones for the heat shock
protein (Hsp) 90. p23 binds Hsp90 and participates in
the folding of a number of Hsp90 clients, including the
progesterone receptor. p23 also has a passive
chaperoning activity and in addition may participate in
prostaglandin synthesis. Both p23 and Sba1p can
regulate telomerase activity. This group includes
domains similar to the C-terminal CHORD-SGT1 (CS)
domain of suppressor of G2 allele of Skp1 (Sgt1). Sgt1
interacts with multiple protein complexes and has the
features of a co-chaperone. Human (h) Sgt1 interacts
with both Hsp70 and Hsp90, and has been shown to bind
Hsp90 through its CS domain. Saccharomyces cerevisiae
(Sc) Sgt1 is a subunit of both core kinetochore and SCF
(Skp1-Cul1-F-box) ubiquitin ligase complexes. Sgt1 is
required for pathogen resistance in plants. This group
also includes the p23_like domains of human
butyrate-induced transcript 1 (hB-ind1), NUD (nuclear
distribution) C, Melusin, and NAD(P)H cytochrome b5
(NCB5) oxidoreductase (OR). hB-ind1 plays a role in the
signaling pathway mediated by the small GTPase Rac1,
NUDC is needed for nuclear movement, Melusin interacts
with two splice variants of beta1 integrin, and NCB5OR
plays a part in maintaining viable pancreatic beta
cells.
Length = 84
Score = 33.0 bits (76), Expect = 0.002
Identities = 11/35 (31%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 29 HQTPIIDGELEHEIKLEESTWVFENAKTVMINMEK 63
+ +++GEL I EES W E+ + + I ++K
Sbjct: 40 GKEYLLEGELFGPIDPEESKWTVED-RKIEITLKK 73
>gnl|CDD|107244 cd06495, p23_NUDCD3_like, p23-like NUD (nuclear distribution)
C-like domain found in human NUDC domain-containing
protein 3 (NUDCD3) and similar proteins. Little is
known about the function of the proteins in this
subgroup.
Length = 102
Score = 31.4 bits (71), Expect = 0.009
Identities = 11/31 (35%), Positives = 19/31 (61%)
Query: 33 IIDGELEHEIKLEESTWVFENAKTVMINMEK 63
+++GE H+I E S W E K V++++ K
Sbjct: 54 LMEGEFTHKINTENSLWSLEPGKCVLLSLSK 84
>gnl|CDD|219903 pfam08559, Cut8, Cut8. In Schizosaccharomyces pombe, Cut8 is a
nuclear envelope protein that physically interacts with
and tethers 26S proteasome in the nucleus resulting in
the nuclear accumulation of proteasome. Cut8 is a
proteasome substrate and amino terminal residues 1-72
are polyubiquitinated and function as a degron tag.
Ubiquitination of the amino terminal is essential to
the function of Cut8. Lysine residues in the amino
terminal 72 amino acids of Cut8 are required for
physical interaction with proteasome. In fission yeast
the function of Cut8 has been demonstrated to be
regulated by ubiquitin-conjugating Rhp6/Ubc2/Rad6 and
ligating enzymes Ubr1. Cut8 homologs have been
identified in Drosophila melanogaster, Anopheles
gambiae and Dictyostelium discoideum.
Length = 200
Score = 28.0 bits (63), Expect = 0.28
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 3 LPTSDEQKKQDVLKKFMEQHPEMA--VRHQTPI 33
L T D+Q+ Q +L +E+HPE+A +R P
Sbjct: 30 LETLDKQQLQSLLLSLIERHPEIAREIRKILPR 62
>gnl|CDD|107243 cd06494, p23_NUDCD2_like, p23-like NUD (nuclear distribution)
C-like found in human NUDC domain-containing protein 2
(NUDCD2) and similar proteins. Little is known about
the function of the proteins in this subgroup.
Length = 93
Score = 27.0 bits (60), Expect = 0.41
Identities = 15/54 (27%), Positives = 28/54 (51%), Gaps = 1/54 (1%)
Query: 10 KKQDVLKKFMEQHPEMAVRHQTPIIDGELEHEIKLEESTWVFENAKTVMINMEK 63
+ +DV K + +AV+ Q ++ G+L + +E TW E+ K + I + K
Sbjct: 28 RAKDVKCKLGSRDISLAVKGQE-VLKGKLFDSVVADECTWTLEDRKLIRIVLTK 80
>gnl|CDD|220781 pfam10493, Rod_C, Rough deal protein C-terminal region. Rod, the
Rough deal protein, displays a dynamic intracellular
staining pattern, localising first to kinetochores in
pro-metaphase, but moving to kinetochore microtubules at
metaphase. Early in anaphase the protein is once again
restricted to the kinetochores, where it persists until
the end of telophase. This behaviour is in all respects
similar to that described for ZW10, and indeed the two
proteins function together, localisation of each
depending upon the other. These two proteins are found
at the kinetochore in complex with a third, Zwilch, in
both flies and humans. The C-terminus is the most
conserved part of the protein. During pro-metaphase, the
ZW10-Rod complex, dynein/dynactin, and Mad2 all
accumulate on unattached kinetochores; microtubule
capture leads to Mad2 depletion as it is carried off by
dynein/dynactin; ZW10-Rod complex accumulation
continues, replenishing kinetochore dynein. The
continuing recruitment of the ZW10-Rod complex during
metaphase may serve to maintain adequate dynein/dynactin
complex on kinetochores for assisting chromatid movement
during anaphase. The ZW10-Rod complex acts as a bridge
whose association with Zwint-1 links Mad1 and Mad2,
components that are directly responsible for generating
the diffusible 'wait anaphase' signal, to a structural,
inner kinetochore complex containing Mis12 and
KNL-1AF15q14, the last of which has been proved to be
essential for kinetochore assembly in C. elegans.
Removal of ZW10 or Rod inactivates the mitotic
checkpoint.
Length = 555
Score = 26.3 bits (58), Expect = 1.2
Identities = 9/30 (30%), Positives = 17/30 (56%), Gaps = 2/30 (6%)
Query: 1 MGLPTSDEQKKQDVLKKFMEQHPEMAVRHQ 30
+ P S++Q++Q +KKF+ P + Q
Sbjct: 505 LLFPHSEKQRQQ--IKKFLASCPVENLLQQ 532
>gnl|CDD|176110 cd08418, PBP2_TdcA, The C-terminal substrate binding domain of
LysR-type transcriptional regulator TdcA, which is
involved in the degradation of L-serine and
L-threonine, contains the type 2 periplasmic binding
fold. TdcA, a member of the LysR family, activates the
expression of the anaerobically-regulated tdcABCDEFG
operon which is involved in the degradation of L-serine
and L-threonine to acetate and propionate,
respectively. The tdc operon is comprised of one
regulatory gene tdcA and six structural genes, tdcB to
tdcG. The expression of the tdc operon is affected by
several transcription factors including the cAMP
receptor protein (CRP), integration host factor (IHF),
histone-like protein (HU), and the operon specific
regulators TdcA and TcdR. TcdR is divergently
transcribed from the operon and encodes a small protein
that is required for efficient expression of the
Escherichia coli tdc operon. This substrate-binding
domain shows significant homology to the type 2
periplasmic binding proteins (PBP2), which are
responsible for the uptake of a variety of substrates
such as phosphate, sulfate, polysaccharides,
lysine/arginine/ornithine, and histidine. The PBP2 bind
their ligand in the cleft between these domains in a
manner resembling a Venus flytrap. After binding their
specific ligand with high affinity, they can interact
with a cognate membrane transport complex comprised of
two integral membrane domains and two cytoplasmically
located ATPase domains. This interaction triggers the
ligand translocation across the cytoplasmic membrane
energized by ATP hydrolysis.
Length = 201
Score = 26.2 bits (58), Expect = 1.4
Identities = 9/38 (23%), Positives = 16/38 (42%), Gaps = 8/38 (21%)
Query: 13 DVLKKFMEQHPEMAVR--------HQTPIIDGELEHEI 42
V+ +F EQ P++ + + DG L+ I
Sbjct: 17 AVINRFKEQFPDVQISIYEGQLSSLLPELRDGRLDFAI 54
>gnl|CDD|107219 cd00298, ACD_sHsps_p23-like, This domain family includes the
alpha-crystallin domain (ACD) of alpha-crystallin-type
small heat shock proteins (sHsps) and a similar domain
found in p23-like proteins. sHsps are small stress
induced proteins with monomeric masses between 12 -43
kDa, whose common feature is this ACD. sHsps are
generally active as large oligomers consisting of
multiple subunits, and are believed to be
ATP-independent chaperones that prevent aggregation and
are important in refolding in combination with other
Hsps. p23 is a cochaperone of the Hsp90 chaperoning
pathway. It binds Hsp90 and participates in the folding
of a number of Hsp90 clients including the progesterone
receptor. p23 also has a passive chaperoning activity.
p23 in addition may act as the cytosolic prostaglandin
E2 synthase. Included in this family is the p23-like
C-terminal CHORD-SGT1 (CS) domain of suppressor of G2
allele of Skp1 (Sgt1) and the p23-like domains of
human butyrate-induced transcript 1 (hB-ind1), NUD
(nuclear distribution) C, Melusin, and NAD(P)H
cytochrome b5 (NCB5) oxidoreductase (OR).
Length = 80
Score = 25.2 bits (56), Expect = 1.8
Identities = 10/44 (22%), Positives = 17/44 (38%), Gaps = 1/44 (2%)
Query: 20 EQHPEMAVRHQTPIIDGELEHEIKLEESTWVFENAKTVMINMEK 63
E+ E + EL ++ E+S EN + I + K
Sbjct: 38 EEEEERERSYGEFERSFELPEDVDPEKSKASLEN-GVLEITLPK 80
>gnl|CDD|147514 pfam05367, Phage_endo_I, Phage endonuclease I. The bacteriophage
endonuclease I is a nuclease that is selective for the
structure of the four-way Holliday DNA junction.
Length = 149
Score = 25.6 bits (56), Expect = 2.2
Identities = 11/27 (40%), Positives = 19/27 (70%), Gaps = 3/27 (11%)
Query: 2 GLPTSDEQKKQDVLKKFMEQHPEMAVR 28
GL S+++KK +++ EQHPE+ +R
Sbjct: 68 GLFESEDRKKHLLIR---EQHPELDIR 91
>gnl|CDD|235786 PRK06369, nac, nascent polypeptide-associated complex protein;
Reviewed.
Length = 115
Score = 24.4 bits (54), Expect = 3.7
Identities = 6/21 (28%), Positives = 13/21 (61%)
Query: 41 EIKLEESTWVFENAKTVMINM 61
I+L++ VFEN + +++
Sbjct: 30 IIRLKDKEIVFENPQVTVMDA 50
>gnl|CDD|232801 TIGR00054, TIGR00054, RIP metalloprotease RseP. Members of this
nearly universal bacterial protein family are regulated
intramembrane proteolysis (RIP) proteases. Older and
synonymous gene symbols include yaeL in E. coli, mmpA in
Caulobacter crescentus, etc. This family includes a
region that hits the PDZ domain, found in a number of
proteins targeted to the membrane by binding to a
peptide ligand. The N-terminal region of this family
contains a perfectly conserved motif HEXGH as found in a
number of metalloproteinases, where the Glu is the
active site and the His residues coordinate the metal
cation [Protein fate, Degradation of proteins, peptides,
and glycopeptides].
Length = 419
Score = 24.8 bits (54), Expect = 4.3
Identities = 15/39 (38%), Positives = 17/39 (43%)
Query: 26 AVRHQTPIIDGELEHEIKLEESTWVFENAKTVMINMEKI 64
VR Q I GE EI E W FE K ++ KI
Sbjct: 164 DVRQQIADIAGEPMVEILAERENWTFEVMKELIPRGPKI 202
>gnl|CDD|226715 COG4264, RhbC, Siderophore synthetase component [Secondary
metabolites biosynthesis, transport, and catabolism].
Length = 602
Score = 24.6 bits (54), Expect = 4.6
Identities = 10/52 (19%), Positives = 18/52 (34%), Gaps = 10/52 (19%)
Query: 12 QDVLKKFMEQHPEMAVRHQTPIIDGELEHEIKLEESTWVFE-NAKTVMINME 62
+ VL ++ Q PE+A R + T + N + N +
Sbjct: 536 RQVLLRYQAQFPELADR---------FLLFDLFKPPTLPCKLNLLRLFENRD 578
>gnl|CDD|240391 PTZ00377, PTZ00377, alanine aminotransferase; Provisional.
Length = 481
Score = 24.2 bits (53), Expect = 6.2
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 23 PEMAVRHQTPIIDGELEHEIKLEESTWVFE 52
E AVR P E++ E+K + + F+
Sbjct: 17 AEYAVRGLVPARAAEIKEELKTGKGKYPFD 46
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
0.314 0.130 0.362
Gapped
Lambda K H
0.267 0.0640 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,476,322
Number of extensions: 256167
Number of successful extensions: 247
Number of sequences better than 10.0: 1
Number of HSP's gapped: 247
Number of HSP's successfully gapped: 21
Length of query: 69
Length of database: 10,937,602
Length adjustment: 39
Effective length of query: 30
Effective length of database: 9,207,796
Effective search space: 276233880
Effective search space used: 276233880
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: 42 (22.0 bits)
S2: 53 (24.4 bits)