RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy454
(134 letters)
>gnl|CDD|239745 cd03776, MATH_TRAF6, Tumor Necrosis Factor Receptor
(TNFR)-Associated Factor (TRAF) family, TRAF6 subfamily,
TRAF domain, C-terminal MATH subdomain; composed of
proteins with similarity to human TRAF6, including the
Drosophila protein DTRAF2. TRAF molecules serve as
adapter proteins that link TNFRs and downstream kinase
cascades resulting in the activation of transcription
factors and the regulation of cell survival,
proliferation and stress responses. TRAF6 is the most
divergent in its TRAF domain among the mammalian TRAFs.
In addition to mediating TNFR family signaling, it is
also an essential signaling molecule of the
interleukin-1/Toll-like receptor superfamily. Whereas
other TRAF molecules display similar and overlapping
TNFR-binding specificities, TRAF6 binds completely
different sites on receptors such as CD40 and RANK.
TRAF6 serves as a molecular bridge between innate and
adaptive immunity and plays a central role in
osteoimmunology. DTRAF2, as an activator of nuclear
factor-kappaB, plays a pivotal role in Drosophila
development and innate immunity. TRAF6 contains a RING
finger domain, five zinc finger domains, and a TRAF
domain. The TRAF domain can be divided into a more
divergent N-terminal alpha helical region (TRAF-N), and
a highly conserved C-terminal MATH subdomain (TRAF-C)
with an eight-stranded beta-sandwich structure. TRAF-N
mediates trimerization while TRAF-C interacts with
receptors.
Length = 147
Score = 117 bits (296), Expect = 5e-35
Identities = 51/127 (40%), Positives = 73/127 (57%), Gaps = 8/127 (6%)
Query: 8 FYSACFYSSCFGYRFCTRVNISR---EDAQYLSLFIHLVQGENDDILDWPFVGRIRFTAL 64
+S FY+S GY+ C R+N+S Y+SLF+HL+QGEND LDWPF G I T L
Sbjct: 25 IHSPGFYTSPPGYKLCARLNLSLPEARCPNYISLFVHLMQGENDSHLDWPFQGTITLTLL 84
Query: 65 NTSSEF-SITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLDPGRGFLMEDDTF 123
+ S +I + + S +F+RP N K FG+ F + D+L RGF+ ++DT
Sbjct: 85 DQSEPRQNIHETMMSKPELLAFQRPTT-DRNPKGFGYVEFAHIEDLLQ--RGFV-KNDTL 140
Query: 124 VIKTQVT 130
+IK +V
Sbjct: 141 LIKIEVN 147
>gnl|CDD|238168 cd00270, MATH_TRAF_C, Tumor Necrosis Factor Receptor
(TNFR)-Associated Factor (TRAF) family, TRAF domain,
C-terminal MATH subdomain; TRAF molecules serve as
adapter proteins that link cell surface TNFRs and
receptors of the interleukin-1/Toll-like family to
downstream kinase signaling 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. There
are at least six mammalian and three Drosophila proteins
containing TRAF domains. The mammalian TRAFs display
varying expression profiles, indicating independent and
cell type-specific regulation. They display distinct, as
well as overlapping functions and interactions with
receptors. Most TRAFs, except TRAF1, share N-terminal
homology and contain a RING domain, multiple zinc finger
domains, and a TRAF domain. TRAFs form homo- and
heterotrimers through its TRAF domain. The TRAF domain
can be divided into a more divergent N-terminal alpha
helical region (TRAF-N), and a highly conserved
C-terminal MATH subdomain (TRAF-C) with an
eight-stranded beta-sandwich structure. TRAF-N mediates
trimerization while TRAF-C interacts with receptors.
Length = 149
Score = 98.4 bits (246), Expect = 3e-27
Identities = 46/135 (34%), Positives = 74/135 (54%), Gaps = 10/135 (7%)
Query: 1 MKEINRYFYSACFYSSCFGYRFCTRVNISRE---DAQYLSLFIHLVQGENDDILDWPFVG 57
+ N YS FY+S +GY+ C R+ ++ + +LSLF+H+++GE D +L+WPF G
Sbjct: 18 VAGSNTVLYSPPFYTSRYGYKLCLRLYLNGDGTGKGTHLSLFVHVMKGEYDALLEWPFRG 77
Query: 58 RIRFTAL---NTSSEFSITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLDPGR 114
+I T L + S IT+ D N +F+RP N FG+ F+ + + R
Sbjct: 78 KITLTLLDQSDDSKRKHITETFMPDPNSSAFQRPPT-GENNIGFGYPEFVPLEKLES--R 134
Query: 115 GFLMEDDTFVIKTQV 129
G++ +DDT IK +V
Sbjct: 135 GYV-KDDTLFIKVEV 148
>gnl|CDD|239747 cd03778, MATH_TRAF2, Tumor Necrosis Factor Receptor (TNFR)
Associated Factor (TRAF) family, TRAF2 subfamily, TRAF
domain; TRAF molecules serve as adapter proteins that
link TNFRs and downstream kinase cascades resulting in
the activation of transcription factors and the
regulation of cell survival, proliferation and stress
responses. TRAF2 associates with the receptors TNFR-1,
TNFR-2, RANK (which mediates differentiation and
maturation of osteoclasts) and CD40 (which is important
for the proliferation and activation of B cells), among
others. It regulates distinct pathways that lead to the
activation of nuclear factor-kappaB and Jun NH2-terminal
kinases. TRAF2 also indirectly associates with death
receptors through its interaction with TRADD
(TNFR-associated death domain protein). It is involved
in regulating oxidative stress or ROS-induced cell death
and in the preconditioning of cells by sublethal stress
for protection from subsequent injury. TRAF2 contains a
RING finger domain, five zinc finger domains, and a TRAF
domain. The TRAF domain can be divided into a more
divergent N-terminal alpha helical region (TRAF-N), and
a highly conserved C-terminal MATH subdomain (TRAF-C)
with an eight-stranded beta-sandwich structure. TRAF-N
mediates trimerization while TRAF-C interacts with
receptors.
Length = 164
Score = 60.0 bits (145), Expect = 2e-12
Identities = 37/124 (29%), Positives = 61/124 (49%), Gaps = 7/124 (5%)
Query: 9 YSACFYSSCFGYRFCTRVNISRED---AQYLSLFIHLVQGENDDILDWPFVGRIRFTALN 65
+S FY+S +GY+ C R+ ++ + +LSLF +++G ND +L WPF ++ L+
Sbjct: 44 FSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSLFFVVMKGPNDALLRWPFNQKVTLMLLD 103
Query: 66 TSSEFSITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLDPGRGFLMEDDTFVI 125
++ + D + D SF+RPVN A G F V+ + + DD I
Sbjct: 104 QNNREHVIDAFRPDVTSSSFQRPVNDM--NIASGCPLFCPVSKX--EAKNSYVRDDAIFI 159
Query: 126 KTQV 129
K V
Sbjct: 160 KAIV 163
>gnl|CDD|239748 cd03779, MATH_TRAF1, Tumor Necrosis Factor Receptor (TNFR)
Associated Factor (TRAF) family, TRAF1 subfamily, TRAF
domain, C-terminal MATH subdomain; TRAF molecules serve
as adapter proteins that link TNFRs and downstream
kinase cascades resulting in the activation of
transcription factors and the regulation of cell
survival, proliferation and stress responses. TRAF1
expression is the most restricted among the TRAFs. It is
found exclusively in activated lymphocytes, dendritic
cells and certain epithelia. TRAF1 associates, directly
or indirectly through heterodimerization with TRAF2,
with the TNFR family receptors TNFR-2, CD30, RANK, CD40
and LMP1, among others. It also binds the intracellular
proteins TRADD, TANK, TRIP, RIP1, RIP2 and FLIP. TRAF1
is unique among the TRAFs in that it lacks a RING
domain, which is critical for the activation of nuclear
factor-kappaB and Jun NH2-terminal kinase. Studies on
TRAF1-deficient mice suggest that TRAF1 has a negative
regulatory role in TNFR-mediated signaling events. TRAF1
contains one zinc finger and one TRAF domain. The TRAF
domain can be divided into a more divergent N-terminal
alpha helical region (TRAF-N), and a highly conserved
C-terminal MATH subdomain (TRAF-C) with an
eight-stranded beta-sandwich structure. TRAF-N mediates
trimerization while TRAF-C interacts with receptors.
Length = 147
Score = 57.6 bits (139), Expect = 1e-11
Identities = 27/86 (31%), Positives = 51/86 (59%), Gaps = 3/86 (3%)
Query: 8 FYSACFYSSCFGYRFCTRVNISREDA---QYLSLFIHLVQGENDDILDWPFVGRIRFTAL 64
S FY++ +GY+ C R+ ++ + A ++SLF +++GE D +L WPF ++ F L
Sbjct: 25 LCSPAFYTAKYGYKVCLRLYLNGDGAGKGTHISLFFVIMKGEYDALLPWPFRHKVTFMLL 84
Query: 65 NTSSEFSITDEIQSDKNFDSFKRPVN 90
+ ++ + D + D + SF+RPV+
Sbjct: 85 DQNNREHVIDAFRPDLSSASFQRPVS 110
>gnl|CDD|239749 cd03780, MATH_TRAF5, Tumor Necrosis Factor Receptor
(TNFR)-Associated Factor (TRAF) family, TRAF5 subfamily,
TRAF domain, C-terminal MATH subdomain; TRAF molecules
serve as adapter proteins that link TNFRs and downstream
kinase cascades resulting in the activation of
transcription factors and the regulation of cell
survival, proliferation and stress responses. TRAF5 was
identified as an activator of nuclear factor-kappaB and
a regulator of lymphotoxin-beta receptor and CD40
signaling. Its interaction with CD40 is indirect,
involving hetero-oligomerization with TRAF3. In
addition, TRAF5 has been shown to associate with other
TNFRs including CD27, CD30, OX40 and GITR
(glucocorticoid-induced TNFR). It plays a role in
modulating Th2 immune responses (driven by OX40
costimulation) and T-cell activation (triggered by
GITR). It is also involved in osteoclastogenesis. TRAF5
contains a RING finger domain, five zinc finger domains,
and a TRAF domain. The TRAF domain can be divided into a
more divergent N-terminal alpha helical region (TRAF-N),
and a highly conserved C-terminal MATH subdomain
(TRAF-C) with an eight-stranded beta-sandwich structure.
TRAF-N mediates trimerization while TRAF-C interacts
with receptors.
Length = 148
Score = 56.2 bits (135), Expect = 6e-11
Identities = 40/128 (31%), Positives = 66/128 (51%), Gaps = 13/128 (10%)
Query: 9 YSACFYSSCFGYRFCTRVNISREDA---QYLSLFIHLVQGENDDILDWPFVGRIRFTALN 65
+S FY+S GYR C R ++ + + +LSL+ +++GE D +L WPF R+ L+
Sbjct: 26 FSQPFYTSRCGYRLCARAYLNGDGSGKGTHLSLYFVVMRGEFDSLLQWPFRQRVTLMLLD 85
Query: 66 -TSSEFSITDEIQSDKNFDSFKRP---VNFFLNKKAFGFNNFIRVADVLDPGRGFLMEDD 121
+ + I + ++D N SFKRP +N A G F+ VL+ + ++DD
Sbjct: 86 QSGKKNHIMETFKADPNSSSFKRPDGEMNI-----ASGCPRFV-AHSVLENAKNTYIKDD 139
Query: 122 TFVIKTQV 129
T +K V
Sbjct: 140 TLFLKVAV 147
>gnl|CDD|239750 cd03781, MATH_TRAF4, Tumor Necrosis Factor Receptor
(TNFR)-Associated Factor (TRAF) family, TRAF4 subfamily,
TRAF domain, C-terminal MATH subdomain; composed of
proteins with similarity to human TRAF4, including the
Drosophila protein DTRAF1. TRAF molecules serve as
adapter proteins that link TNFRs and downstream kinase
cascades resulting in the activation of transcription
factors and the regulation of cell survival,
proliferation and stress responses. TRAF4 is highly
expressed during embryogenesis, especially in the
central and peripheral nervous system. Studies using
TRAF4-deficient mice show that TRAF4 is required for
neurogenesis, as well as the development of the trachea
and the axial skeleton. In addition, TRAF4 augments
nuclear factor-kappaB activation triggered by GITR
(glucocorticoid-induced TNFR), a receptor expressed in
T-cells, B-cells and macrophages. It also participates
in counteracting the signaling mediated by Toll-like
receptors through its association with TRAF6 and TRIF.
DTRAF1 plays a pivotal role in the development of eye
imaginal discs and photosensory neuron arrays in
Drosophila. TRAF4 contains a RING finger domain, seven
zinc finger domains, and a TRAF domain. The TRAF domain
can be divided into a more divergent N-terminal alpha
helical region (TRAF-N), and a highly conserved
C-terminal MATH subdomain (TRAF-C) with an
eight-stranded beta-sandwich structure. TRAF-N mediates
trimerization while TRAF-C interacts with receptors.
Length = 154
Score = 54.0 bits (130), Expect = 4e-10
Identities = 39/133 (29%), Positives = 67/133 (50%), Gaps = 15/133 (11%)
Query: 8 FYSACFYSSCFGYRFCTRV----NISREDAQYLSLFIHLVQGENDDILDWPFVGRIRFTA 63
+S FY+ +GY+ N S E + +LS++I ++ GE D++L+WPF RI FT
Sbjct: 25 LFSPPFYTHRYGYKLQVSAFLNGNGSGEGS-HLSVYIRVLPGEYDNLLEWPFSHRITFTL 83
Query: 64 LNTSSEFS-----ITDEIQSDKNFDSFKRPVNFFLNKK--AFGFNNFIRVADVLDPGRGF 116
L+ S IT+ D + +F++P L++ FG+ FI D+ R +
Sbjct: 84 LDQSDPSLSKPQHITETFTPDPTWKNFQKPSASRLDESTLGFGYPKFISHEDLKK--RNY 141
Query: 117 LMEDDTFVIKTQV 129
+ +DD ++ V
Sbjct: 142 I-KDDAIFLRASV 153
>gnl|CDD|239746 cd03777, MATH_TRAF3, Tumor Necrosis Factor Receptor
(TNFR)-Associated Factor (TRAF) family, TRAF3 subfamily,
TRAF domain; TRAF molecules serve as adapter proteins
that link TNFRs and downstream kinase cascades resulting
in the activation of transcription factors and the
regulation of cell survival, proliferation and stress
responses. TRAF3 was first described as a molecule that
binds the cytoplasmic tail of CD40. However, it is not
required for CD40 signaling. More recently, TRAF3 has
been identified as a key regulator of type I interferon
(IFN) production and the mammalian innate antiviral
immunity. It mediates IFN responses in Toll-like
receptor (TLR)-dependent as well as TLR-independent
viral recognition pathways. It is also a key element in
immunological homeostasis through its regulation of the
anti-inflammatory cytokine interleukin-10. TRAF3
contains a RING finger domain, five zinc finger domains,
and a TRAF domain. The TRAF domain can be divided into a
more divergent N-terminal alpha helical region (TRAF-N),
and a highly conserved C-terminal MATH subdomain
(TRAF-C) with an eight-stranded beta-sandwich structure.
TRAF-N mediates trimerization while TRAF-C interacts
with receptors.
Length = 186
Score = 54.6 bits (131), Expect = 4e-10
Identities = 30/85 (35%), Positives = 47/85 (55%), Gaps = 4/85 (4%)
Query: 8 FYSACFYSSCFGYRFCTRVNISRE---DAQYLSLFIHLVQGENDDILDWPFVGRIRFTAL 64
YS FY+ FGY+ C RV ++ + +LSLF +++GE D +L WPF ++ +
Sbjct: 63 LYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFVIMRGEYDALLPWPFKQKVTLMLM 122
Query: 65 NT-SSEFSITDEIQSDKNFDSFKRP 88
+ SS + D + D N SFK+P
Sbjct: 123 DQGSSRRHLGDAFKPDPNSSSFKKP 147
>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 = 52.4 bits (126), Expect = 9e-10
Identities = 31/132 (23%), Positives = 49/132 (37%), Gaps = 18/132 (13%)
Query: 1 MKEINRYFYSACFYSSCFGYRFCTRV--NISREDAQYLSLFIHLVQGENDDILDWPFVGR 58
+ YS F GY++ R+ N E YLSL++ L +GE+D W
Sbjct: 11 SELEGESIYSPPFEV--GGYKWRIRIYPNGDGESGDYLSLYLELDKGESDL-EKWSVRAE 67
Query: 59 IRFTALNTSSEFSITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLDPGRGFLM 118
+N + K+ V F +GF FI D+ D + +
Sbjct: 68 FTLKLVNQNGG----------KSLSKSFTHVFFSEKGSGWGFPKFISWDDLEDS---YYL 114
Query: 119 EDDTFVIKTQVT 130
DD+ I+ +V
Sbjct: 115 VDDSLTIEVEVK 126
>gnl|CDD|239740 cd03771, MATH_Meprin, Meprin family, MATH domain; Meprins are
multidomain, highly glycosylated extracellular
metalloproteases, which are either anchored to the
membrane or secreted into extracellular spaces. They
are expressed in renal and intestinal brush border
membranes, leukocytes, and cancer cells, and are
capable of cleaving growth factors, cytokines,
extracellular matrix proteins, and biologically active
peptides. Meprin proteases are composed of two related
subunits, alpha and beta, which form homo- or
hetro-complexes where the basic unit is a
disulfide-linked dimer. Despite their similarity, the
two subunits differ in their ability to self-associate,
in proteolytic processing during biosynthesis and in
substrate specificity. Both subunits are synthesized as
membrane spanning proteins, however, the alpha subunit
is cleaved during biosynthesis and loses its
transmembrane domain. Meprin beta forms homodimers or
heterotetramers while meprin alpha oligomerizes into
large complexes containing 10-100 subunits. Both alpha
and beta subunits contain a catalytic astacin (M12
family) protease domain followed by the adhesion or
interaction domains MAM, MATH and AM. The MATH and MAM
domains provide symmetrical intersubunit disulfide
bonds necessary for the dimerization of meprin
subunits. The MATH domain may also be required for
folding of an activable zymogen.
Length = 167
Score = 46.6 bits (111), Expect = 3e-07
Identities = 22/57 (38%), Positives = 26/57 (45%), Gaps = 3/57 (5%)
Query: 4 INRYFYSACFYSSCFGYRFCTRVNI-SREDAQ-YLSLFIHLVQGENDDILDWPFVGR 58
YS FYS GY F + E Y L+ HL GENDD+L+WP R
Sbjct: 20 KGTKIYSPRFYSPE-GYAFQVGLYPNGTESYPGYTGLYFHLCSGENDDVLEWPCPNR 75
>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 = 43.4 bits (103), Expect = 2e-06
Identities = 27/122 (22%), Positives = 48/122 (39%), Gaps = 19/122 (15%)
Query: 9 YSACFYSSCFGYRFCTRVNISREDAQYLSLFIHLVQGENDDILDWPFVGRIRFTALNTSS 68
Y Y FG + + I R +L L++H +GE D++L W ++ +
Sbjct: 13 YYTSPYEERFGIPWR--LRIYRNGG-FLGLYLHCEKGEKDELLGWSIETEFTLKLVS-DN 68
Query: 69 EFSITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLDPGRGFLMEDDTFVIKTQ 128
S+T +S F +G+ FI D+ + + DDT +I+ +
Sbjct: 69 GKSLTKRNKSHV-----------FTKPTGYGWGKFISWDDLEND----YVVDDTIIIEAE 113
Query: 129 VT 130
V
Sbjct: 114 VK 115
>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 = 42.5 bits (100), Expect = 7e-06
Identities = 35/134 (26%), Positives = 56/134 (41%), Gaps = 20/134 (14%)
Query: 1 MKEINRYFYSACFYSSCFG-YRFCTRVN---ISREDAQYLSLFIHLVQGENDDILDWPFV 56
+E+ S+ F S ++C RVN + E YLSL++ LV ++
Sbjct: 18 REEMGEVIKSSTFSSGANDKLKWCLRVNPKGLDEESKDYLSLYLLLVSCPKSEV--R--- 72
Query: 57 GRIRFTALNTSSEFSITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLDPGRGF 116
+ +F+ LN E + E Q F+ K +GF FIR +LD G
Sbjct: 73 AKFKFSILNAKGEETKAMESQR----------AYRFVQGKDWGFKKFIRRDFLLDEANG- 121
Query: 117 LMEDDTFVIKTQVT 130
L+ DD + +V+
Sbjct: 122 LLPDDKLTLFCEVS 135
>gnl|CDD|239752 cd03783, MATH_Meprin_Alpha, Meprin family, Alpha subunit, MATH
domain; Meprins are multidomain extracellular
metalloproteases capable of cleaving growth factors,
cytokines, extracellular matrix proteins, and
biologically active peptides. They are composed of two
related subunits, alpha and beta, which form homo- or
hetro-complexes where the basic unit is a
disulfide-linked dimer. The alpha subunit is
synthesized as a membrane spanning protein, however, it
is cleaved during biosynthesis and loses its
transmembrane domain. It oligomerizes into large
complexes, containing 10-100 subunits (dimers that
associate noncovalently), which are secreted as latent
proteases and can move through extracellular spaces in
a nondestructive manner. This allows delivery of the
concentrated protease to sites containing activating
enzymes, such as sites of inflammation, infection or
cancerous growth. Meprin alpha shows preference for
small or hydrophobic residues at the P1 and P1' sites
of its substrate. Both alpha and beta subunits contain
a catalytic astacin (M12 family) protease domain
followed by the adhesion or interaction domains MAM,
MATH and AM. The MATH and MAM domains provide
symmetrical intersubunit disulfide bonds necessary for
the dimerization of meprin subunits. The MATH domain
may also be required for folding of an activable
zymogen.
Length = 167
Score = 42.2 bits (99), Expect = 1e-05
Identities = 20/55 (36%), Positives = 26/55 (47%), Gaps = 5/55 (9%)
Query: 8 FYSACFYSSCFGYRFCTRV----NISREDAQYLSLFIHLVQGENDDILDWPFVGR 58
S FYS GY + + N S Y L+ HL GEND +L+WP + R
Sbjct: 24 LQSPRFYSP-EGYGYGVSLYPLSNESDYSGNYTGLYFHLCSGENDAVLEWPALNR 77
>gnl|CDD|239751 cd03782, MATH_Meprin_Beta, Meprin family, Beta subunit, MATH
domain; Meprins are multidomain extracellular
metalloproteases capable of cleaving growth factors,
cytokines, extracellular matrix proteins, and
biologically active peptides. They are composed of two
related subunits, alpha and beta, which form homo- or
hetro-complexes where the basic unit is a
disulfide-linked dimer. The beta subunit is a type I
membrane protein, which forms homodimers or
heterotetramers (alpha2beta2 or alpha3beta). Meprin
beta shows preference for acidic residues at the P1 and
P1' sites of its substrate. Among its best substrates
are growth factors and chemokines such as gastrin and
osteopontin. Both alpha and beta subunits contain a
catalytic astacin (M12 family) protease domain followed
by the adhesion or interaction domains MAM, MATH and
AM. The MATH and MAM domains provide symmetrical
intersubunit disulfide bonds necessary for the
dimerization of meprin subunits. The MATH domain may
also be required for folding of an activable zymogen.
Length = 167
Score = 40.2 bits (94), Expect = 5e-05
Identities = 20/52 (38%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 5 NRYFYSACFYSSCFGYRFCTRVNISREDAQ--YLSLFIHLVQGENDDILDWP 54
N YS F SS GY F + ++ D L++++HL G NDD L WP
Sbjct: 21 NGKIYSPPFLSST-GYSFQVGLYLNGTDDYPGNLAIYLHLTSGPNDDQLQWP 71
>gnl|CDD|219034 pfam06448, DUF1081, Domain of Unknown Function (DUF1081). This
region is found in Apolipophorin proteins.
Length = 114
Score = 34.2 bits (79), Expect = 0.005
Identities = 14/87 (16%), Positives = 25/87 (28%), Gaps = 20/87 (22%)
Query: 5 NRYFYSACF--YSSCFGYRFCTRVN---ISREDAQYLSLFIHLVQGENDDILDWPFVGRI 59
R S+CF G + C +N + R +A L P ++
Sbjct: 2 VRPSRSSCFPALEPVLGLKMCYDMNYPDVFRTNALPLGG---------------PASFKL 46
Query: 60 RFTALNTSSEFSITDEIQSDKNFDSFK 86
++ + D+ S K
Sbjct: 47 ELEKTPEVRGYTAKANYKLDRGDKSIK 73
>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 = 34.0 bits (78), Expect = 0.008
Identities = 20/57 (35%), Positives = 33/57 (57%), Gaps = 3/57 (5%)
Query: 76 IQSDKNFDSFKRPVN--FFLNKKAFGFNNFIRVADVLDPGRGFLMEDDTFVIKTQVT 130
I + SF R ++ FF + +GF+NF+ ++V DP +GF+ EDDT ++ V
Sbjct: 76 INYKDDEPSFSRRISHLFFSKENDWGFSNFMTWSEVTDPEKGFI-EDDTITLEVYVQ 131
>gnl|CDD|173109 PRK14646, PRK14646, hypothetical protein; Provisional.
Length = 155
Score = 29.9 bits (67), Expect = 0.29
Identities = 19/52 (36%), Positives = 32/52 (61%), Gaps = 9/52 (17%)
Query: 46 ENDDILDWPFVGRIRFTALNTSSEFSITDEIQSDKNFDSFKR-PVNFFLNKK 96
EN ++L+ +V L SS+ ++DE+ S+++F +FK PVN LN+K
Sbjct: 67 ENSNLLNCSYV-------LEISSQ-GVSDELTSERDFKTFKGFPVNVELNQK 110
>gnl|CDD|214496 smart00061, MATH, meprin and TRAF homology.
Length = 95
Score = 27.3 bits (61), Expect = 1.2
Identities = 17/80 (21%), Positives = 30/80 (37%), Gaps = 15/80 (18%)
Query: 25 RVNISREDAQYLSLFIHLVQGENDDILDWPFVGRIRFTALNTSSEFSITDEIQSDKNFDS 84
R+ I R++ +LSL++H + E D W ++ + +S D
Sbjct: 31 RLKIYRKN-GFLSLYLHCEKEECDS-RKWSIEAEFTLKLVSQNG--------KSLSKKDK 80
Query: 85 FKRPVNFFLNKKAFGFNNFI 104
F +GF+ FI
Sbjct: 81 HV-----FEKPSGWGFSKFI 95
>gnl|CDD|132872 cd07186, CofD_like, LPPG:FO 2-phospho-L-lactate transferase;
important in F420 biosynthesis. CofD is a
2-phospho-L-lactate transferase that catalyzes the last
step in the biosynthesis of coenzyme F(420)-0 (F(420)
without polyglutamate) by transferring the lactyl
phosphate moiety of lactyl(2)diphospho-(5')guanosine
(LPPG) to 7,8-didemethyl-8-hydroxy-5-deazariboflavin
ribitol (F0). F420 is a hydride carrier, important for
energy metabolism of methanogenic archaea, as well as
for the biosynthesis of other natural products, like
tetracycline in Streptomyces. F420 and some of its
precursors are also utilized as cofactors for enzymes,
like DNA photolyase in Mycobacterium tuberculosis.
Length = 303
Score = 26.4 bits (59), Expect = 4.9
Identities = 7/27 (25%), Positives = 14/27 (51%)
Query: 106 VADVLDPGRGFLMEDDTFVIKTQVTEM 132
+A ++D G+ +E DTF + +
Sbjct: 54 LAGLIDRETGWGIEGDTFNTLEALERL 80
>gnl|CDD|236269 PRK08462, PRK08462, biotin carboxylase; Validated.
Length = 445
Score = 26.2 bits (58), Expect = 5.5
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 107 ADVLDPGRGFLMEDDTFV 124
AD + PG GFL E+ FV
Sbjct: 77 ADAIFPGYGFLSENQNFV 94
>gnl|CDD|235023 PRK02277, PRK02277, orotate phosphoribosyltransferase-like
protein; Provisional.
Length = 200
Score = 25.6 bits (57), Expect = 7.4
Identities = 11/35 (31%), Positives = 15/35 (42%), Gaps = 3/35 (8%)
Query: 27 NISREDAQYLSL--FIHLVQGENDDI-LDWPFVGR 58
N+SRE A +L DI +DW +G
Sbjct: 29 NVSRETATWLLTRAKKLEKAPAPKDIHIDWSSIGS 63
>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 = 25.5 bits (56), Expect = 7.5
Identities = 20/100 (20%), Positives = 43/100 (43%), Gaps = 21/100 (21%)
Query: 32 DAQYLSLFIHLVQGENDDILDWPFVGRIRFTALNTSSEFSITDEI--QSDKNFDSFKRPV 89
+LS+F+ L G L +S++ E+ Q++ + +
Sbjct: 49 RGNFLSVFLELCSG------------------LGEASKYEYRVEMVHQANPTKNIKREFA 90
Query: 90 NFFLNKKAFGFNNFIRVADVLDPGRGFLMEDDTFVIKTQV 129
+ F + +G+N F R+ +++ G L E+DT +++ V
Sbjct: 91 SDFEVGECWGYNRFFRLDLLINEGY-LLPENDTLILRFSV 129
>gnl|CDD|203428 pfam06350, HSL_N, Hormone-sensitive lipase (HSL) N-terminus. This
family consists of several mammalian hormone-sensitive
lipase (HSL) proteins (EC:3.1.1.-). Hormone-sensitive
lipase, a key enzyme in fatty acid mobilisation, overall
energy homeostasis, and possibly steroidogenesis, is
acutely controlled through reversible phosphorylation by
catecholamines and insulin.
Length = 315
Score = 25.9 bits (57), Expect = 7.7
Identities = 6/13 (46%), Positives = 8/13 (61%)
Query: 11 ACFYSSCFGYRFC 23
CFY C G++F
Sbjct: 162 YCFYGRCLGFQFT 174
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 0.142 0.434
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: 6,910,051
Number of extensions: 610718
Number of successful extensions: 606
Number of sequences better than 10.0: 1
Number of HSP's gapped: 589
Number of HSP's successfully gapped: 32
Length of query: 134
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 48
Effective length of database: 7,123,158
Effective search space: 341911584
Effective search space used: 341911584
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: 54 (24.6 bits)