RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10763
(90 letters)
>gnl|CDD|239743 cd03774, MATH_SPOP, Speckle-type POZ protein (SPOP) family, MATH
domain; composed of proteins with similarity to human
SPOP. SPOP was isolated as a novel antigen recognized by
serum from a scleroderma patient, whose overexpression
in COS cells results in a discrete speckled pattern in
the nuclei. It contains an N-terminal MATH domain and a
C-terminal BTB (also called POZ) domain. Together with
Cul3, SPOP constitutes an ubiquitin E3 ligase which is
able to ubiquitinate the PcG protein BMI1, the variant
histone macroH2A1 and the death domain-associated
protein Daxx. Therefore, SPOP may be involved in the
regulation of these proteins and may play a role in
transcriptional regulation, apoptosis and X-chromosome
inactivation. Cul3 binds to the BTB domain of SPOP
whereas Daxx and the macroH2A1 nonhistone region have
been shown to bind to the MATH domain. Both MATH and BTB
domains are necessary for the nuclear speckled
accumulation of SPOP. There are many proteins, mostly
uncharacterized, containing both MATH and BTB domains
from C. elegans and plants which are excluded from this
family.
Length = 139
Score = 83.0 bits (205), Expect = 5e-22
Identities = 39/43 (90%), Positives = 42/43 (97%)
Query: 6 KSQRAYRFVQGKDWGFKKFIRRDFLLDELNGLLPEDKLTIFCE 48
+SQRAYRFVQGKDWGFKKFIRRDFLLDE NGLLP+DKLT+FCE
Sbjct: 91 ESQRAYRFVQGKDWGFKKFIRRDFLLDEANGLLPDDKLTLFCE 133
>gnl|CDD|238068 cd00121, MATH, MATH (meprin and TRAF-C homology) domain; an
independent folding unit with an eight-stranded
beta-sandwich structure found in meprins, TRAFs and
other proteins. Meprins comprise a class of
extracellular metalloproteases which are anchored to the
membrane and are capable of cleaving growth factors,
extracellular matrix proteins, and biologically active
peptides. TRAF molecules serve as adapter proteins that
link cell surface receptors of the Tumor Necrosis Factor
and 1nterleukin-1/Toll-like families to downstream
kinase cascades, which results in the activation of
transcription factors and the regulation of cell
survival, proliferation and stress responses in the
immune and inflammatory systems. Other members include
the ubiquitin ligases, TRIM37 and SPOP, and the
ubiquitin-specific proteases, HAUSP and Ubp21p. A large
number of uncharacterized members mostly from
lineage-specific expansions in C. elegans and rice
contain MATH and BTB domains, similar to SPOP. The MATH
domain has been shown to bind peptide/protein substrates
in TRAFs and HAUSP. It is possible that the MATH domain
in other members of this superfamily also interacts with
various protein substrates. The TRAF domain may also be
involved in the trimerization of TRAFs. Based on
homology, it is postulated that the MATH domain in
meprins may be involved in its tetramer assembly and
that the MATH domain, in general, may take part in
diverse modular arrangements defined by adjacent
multimerization domains.
Length = 126
Score = 35.4 bits (82), Expect = 7e-04
Identities = 16/38 (42%), Positives = 19/38 (50%), Gaps = 2/38 (5%)
Query: 11 YRFVQGKDWGFKKFIRRDFLLDELNGLLPEDKLTIFCE 48
+ +G WGF KFI D L D L +D LTI E
Sbjct: 89 FFSEKGSGWGFPKFISWDDLEDS--YYLVDDSLTIEVE 124
>gnl|CDD|216189 pfam00917, MATH, MATH domain. This motif has been called the
Meprin And TRAF-Homology (MATH) domain. This domain is
hugely expanded in the nematode C. elegans.
Length = 116
Score = 31.1 bits (71), Expect = 0.031
Identities = 13/45 (28%), Positives = 22/45 (48%), Gaps = 3/45 (6%)
Query: 4 LQKSQRAYRFVQGKDWGFKKFIRRDFLLDELNGLLPEDKLTIFCE 48
L K +++ F + +G+ KFI D L N + +D + I E
Sbjct: 72 LTKRNKSHVFTKPTGYGWGKFISWDDL---ENDYVVDDTIIIEAE 113
>gnl|CDD|239741 cd03772, MATH_HAUSP, Herpesvirus-associated ubiquitin-specific
protease (HAUSP, also known as USP7) family, N-terminal
MATH (TRAF-like) domain; composed of proteins similar to
human HAUSP, an enzyme that specifically catalyzes the
deubiquitylation of p53 and MDM2, hence playing an
important role in the p53-MDM2 pathway. It contains an
N-terminal TRAF-like domain and a C-terminal catalytic
protease (C19 family) domain. The tumor suppressor p53
protein is a transcription factor that responds to many
cellular stress signals and is regulated primarily
through ubiquitylation and subsequent degradation. MDM2
is a RING-finger E3 ubiquitin ligase that promotes p53
ubiquitinylation. p53 and MDM2 bind to the same site in
the N-terminal TRAF-like domain of HAUSP in a mutually
exclusive manner. HAUSP also interacts with the
Epstein-Barr nuclear antigen 1 (EBNA1) protein of the
Epstein-Barr virus (EBV), which efficiently immortalizes
infected cells predisposing the host to a variety of
cancers. EBNA1 plays several important roles in EBV
latent infection and cellular transformation. It binds
the same pocket as p53 in the HAUSP TRAF-like domain.
Through interactions with p53, MDM2 and EBNA1, HAUSP
plays a role in cell proliferation, apoptosis and
EBV-mediated immortalization.
Length = 137
Score = 28.2 bits (63), Expect = 0.43
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 18 DWGFKKFIRRDFLLDELNGLLPEDKLTIFC 47
DWGF F+ + D G + +D +T+
Sbjct: 99 DWGFSNFMTWSEVTDPEKGFIEDDTITLEV 128
>gnl|CDD|150423 pfam09748, Med10, Transcription factor subunit Med10 of Mediator
complex. Med10 is one of the protein subunits of the
Mediator complex, tethered to Rgr1 protein. The Mediator
complex is required for the transcription of most RNA
polymerase II (Pol II)-transcribed genes. Med10
specifically mediates basal-level HIS4 transcription via
Gcn4, and, additionally, there is a putative requirement
for Med10 in Bas2-mediated transcription. Med10 is part
of the middle region of Mediator.
Length = 120
Score = 27.6 bits (62), Expect = 0.48
Identities = 15/39 (38%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 4 LQKSQRAYRFVQGKDWGFKKFIRRDFLLDELNGLLPEDK 42
++ R ++V+GK FKKF RD L +EL+ PE
Sbjct: 78 VELVLRKNQYVKGKMHAFKKF--RDVLAEELSEAFPELV 114
>gnl|CDD|235751 PRK06241, PRK06241, phosphoenolpyruvate synthase; Validated.
Length = 871
Score = 27.5 bits (62), Expect = 0.99
Identities = 12/30 (40%), Positives = 18/30 (60%), Gaps = 4/30 (13%)
Query: 20 GFKKFIRR----DFLLDELNGLLPEDKLTI 45
+KKF+ + D LLD+L+ L ED+ I
Sbjct: 46 AYKKFLEQNEEFDALLDQLSALKLEDREQI 75
>gnl|CDD|239742 cd03773, MATH_TRIM37, Tripartite motif containing protein 37
(TRIM37) family, MATH domain; TRIM37 is a peroxisomal
protein and is a member of the tripartite motif (TRIM)
protein subfamily, also known as the
RING-B-box-coiled-coil (RBCC) subfamily of zinc-finger
proteins. Mutations in the human TRIM37 gene (also known
as MUL) cause Mulibrey (muscle-liver-brain-eye) nanism,
a rare growth disorder of prenatal onset characterized
by dysmorphic features, pericardial constriction and
hepatomegaly. TRIM37, similar to other TRIMs, contains a
cysteine-rich, zinc-binding RING-finger domain followed
by another cysteine-rich zinc-binding domain, the B-box,
and a coiled-coil domain. TRIM37 is autoubiquitinated in
a RING domain-dependent manner, indicating that it
functions as an ubiquitin E3 ligase. In addition to the
tripartite motif, TRIM37 also contains a MATH domain
C-terminal to the coiled-coil domain. The MATH domain of
TRIM37 has been shown to interact with the TRAF domain
of six known TRAFs in vitro, however, it is unclear
whether this is physiologically relevant. Eleven TRIM37
mutations have been associated with Mulibrey nanism so
far. One mutation, Gly322Val, is located in the MATH
domain and is the only mutation that does not affect the
length of the protein. It results in the incorrect
subcellular localization of TRIM37.
Length = 132
Score = 26.6 bits (59), Expect = 1.5
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 10 AYRFVQGKDWGFKKFIRRDFLLDE 33
A F G+ WG+ +F R D L++E
Sbjct: 90 ASDFEVGECWGYNRFFRLDLLINE 113
>gnl|CDD|100598 PRK00561, ppnK, inorganic polyphosphate/ATP-NAD kinase;
Provisional.
Length = 259
Score = 26.8 bits (59), Expect = 1.6
Identities = 14/31 (45%), Positives = 21/31 (67%), Gaps = 3/31 (9%)
Query: 33 ELNGLLPEDKLTIFCEQNPLILVVKTEISFE 63
ELN LL ++ TI Q+P+IL + T++ FE
Sbjct: 171 ELNPLLHPNQTTI---QSPIILPIDTKVEFE 198
>gnl|CDD|226863 COG4456, VagC, Virulence-associated protein and related proteins
[Function unknown].
Length = 74
Score = 25.4 bits (56), Expect = 2.5
Identities = 8/30 (26%), Positives = 15/30 (50%)
Query: 38 LPEDKLTIFCEQNPLILVVKTEISFECFVT 67
PED++ I E + LI+ + + F+
Sbjct: 22 FPEDRVEIIREGDRLIIEPLGKSWDDWFLL 51
>gnl|CDD|180650 PRK06665, flgK, flagellar hook-associated protein FlgK; Validated.
Length = 627
Score = 25.8 bits (57), Expect = 3.9
Identities = 15/58 (25%), Positives = 23/58 (39%), Gaps = 12/58 (20%)
Query: 26 RRDFLLDELNGLLP-------EDKLTIFCEQNPLILV---VKTEISFECFVTCVGSWN 73
RRD L+D+L+ L+ D+ I LV + E+ E G W+
Sbjct: 210 RRDLLVDKLSSLIDVSIERSDPDEFMIHIGG--RHLVQGNIANELDLEANPPNEGYWD 265
>gnl|CDD|165762 PLN00196, PLN00196, alpha-amylase; Provisional.
Length = 428
Score = 25.3 bits (55), Expect = 5.1
Identities = 10/28 (35%), Positives = 14/28 (50%)
Query: 18 DWGFKKFIRRDFLLDELNGLLPEDKLTI 45
DWG K+ I + NG+ P +L I
Sbjct: 352 DWGLKEEIAALVSIRNRNGITPTSELRI 379
>gnl|CDD|239744 cd03775, MATH_Ubp21p, Ubiquitin-specific protease 21 (Ubp21p)
family, MATH domain; composed of fungal proteins with
similarity to Ubp21p of fission yeast. Ubp21p is a
deubiquitinating enzyme that may be involved in the
regulation of the protein kinase Prp4p, which controls
the formation of active spliceosomes. Members of this
family are similar to human HAUSP
(Herpesvirus-associated ubiquitin-specific protease) in
that they contain an N-terminal MATH domain and a
C-terminal catalytic protease (C19 family) domain. HAUSP
is also an ubiquitin-specific protease that specifically
catalyzes the deubiquitylation of p53 and MDM2. The MATH
domain of HAUSP contains the binding site for p53 and
MDM2. Similarly, the MATH domain of members in this
family may be involved in substrate binding.
Length = 134
Score = 24.6 bits (54), Expect = 6.0
Identities = 14/49 (28%), Positives = 21/49 (42%), Gaps = 5/49 (10%)
Query: 2 YALQKSQRAYRFV-QGKDWGFKKFIRRDFLL----DELNGLLPEDKLTI 45
+ +RF + KDWGF +FI L D+ + L +L I
Sbjct: 81 SIQLSNVAHHRFNAEDKDWGFTRFIELRKLAHRTPDKPSPFLENGELNI 129
>gnl|CDD|119352 cd02873, GH18_IDGF, The IDGF's (imaginal disc growth factors) are a
family of growth factors identified in insects that
include at least five members, some of which are encoded
by genes in a tight cluster. The IDGF's have an
eight-stranded alpha/beta barrel fold and are related to
the glycosyl hydrolase family 18 (GH18) chitinases, but
they have an amino acid substitution known to abolish
chitinase catalytic activity. IDGFs may have evolved
from chitinases to gain new functions as growth factors,
interacting with cell surface glycoproteins involved in
growth-promoting processes.
Length = 413
Score = 25.0 bits (55), Expect = 7.1
Identities = 8/19 (42%), Positives = 10/19 (52%), Gaps = 1/19 (5%)
Query: 16 GKDW-GFKKFIRRDFLLDE 33
G W FKK D ++DE
Sbjct: 144 GSAWHSFKKLFTGDSVVDE 162
>gnl|CDD|183222 PRK11596, PRK11596, cyclic-di-GMP phosphodiesterase; Provisional.
Length = 255
Score = 24.6 bits (54), Expect = 8.3
Identities = 14/52 (26%), Positives = 20/52 (38%), Gaps = 7/52 (13%)
Query: 3 ALQKSQRAYRFVQGKDWGFKKFIRRDFLLDELNGLLPEDKLTIFCEQNPLIL 54
AL++ R ++ W +R F L E L + CE PL L
Sbjct: 113 ALRQQPAILRLIERLPW-----LR--FELVEHIRLPKDSPFASMCEFGPLWL 157
>gnl|CDD|241424 cd13270, PH1_TAPP1_2, Tandem PH-domain-containing proteins 1 and
2 Pleckstrin homology (PH) domain, N-terminal repeat.
The binding of TAPP1 (also called PLEKHA1/pleckstrin
homology domain containing, family A (phosphoinositide
binding specific) member 1) and TAPP2 (also called
PLEKHA2) adaptors to PtdIns(3,4)P(2), but not PI(3,4,
5)P3, function as negative regulators of insulin and
PI3K signalling pathways (i.e. TAPP/utrophin/syntrophin
complex). TAPP1 and TAPP2 contain two sequential PH
domains in which the C-terminal PH domain binds
PtdIns(3,4)P2. They also contain a C-terminal
PDZ-binding motif that interacts with several
PDZ-binding proteins, including PTPN13 (known
previously as PTPL1 or FAP-1) as well as the
scaffolding proteins MUPP1 (multiple
PDZ-domain-containing protein 1), syntrophin and
utrophin. PH domains have diverse functions, but in
general are involved in targeting proteins to the
appropriate cellular location or in the interaction
with a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH
domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved
across all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 118
Score = 24.3 bits (53), Expect = 9.1
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 22 KKFIRRDFLLDELNGLL 38
KF+RR F+LD GLL
Sbjct: 23 GKFLRRYFILDTAAGLL 39
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
0.328 0.143 0.454
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: 4,522,975
Number of extensions: 365400
Number of successful extensions: 326
Number of sequences better than 10.0: 1
Number of HSP's gapped: 325
Number of HSP's successfully gapped: 21
Length of query: 90
Length of database: 10,937,602
Length adjustment: 58
Effective length of query: 32
Effective length of database: 8,365,070
Effective search space: 267682240
Effective search space used: 267682240
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (24.2 bits)