RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8040
(272 letters)
>gnl|CDD|240486 cd12906, SPRY_SOCS1-2-4, SPRY domain in the suppressor of cytokine
signaling 1, 2, 4 families (SOCS1, SOCS2, SOCS4). The
SPRY domain-containing SOCS box protein family (SPSB1-4,
also known as SSB-1 to -4) is composed of a central SPRY
protein interaction domain and a C-terminal SOCS box.
All four SPSB proteins interact with c-Met, the
hepatocyte growth factor receptor, but only SPSB1,
SPSB2, and SPSB4 interact with prostate apoptosis
response protein 4 (Par-4). They are negative regulators
that recruit the ECS E3 ubiquitin ligase complex to
polyubiquitinate inducible nitric-oxide synthase (iNOS),
resulting in its proteasomal degradation, thus
contributing to protection against the cytotoxic effect
of iNOS in activated macrophages. It has been shown that
SPSB1 and SPSB4 induce the degradation of iNOS more
strongly than SPSB2. The Drosophila melanogaster SPSB1
homolog, GUSTAVUS, interacts with the DEAD box RNA
helicase Vasa. Suppressor of cytokine signaling (SOCS)
proteins negatively regulate signaling from
JAK-associated cytokine receptor complexes, and play key
roles in the regulation of immune homeostasis.
Length = 174
Score = 177 bits (452), Expect = 4e-56
Identities = 60/77 (77%), Positives = 69/77 (89%)
Query: 191 HAWNPEDRSLNIFVKDDDKLTFHRHPVAQSTDCIRGRVGFTKGFHIWEVHWSARQRGTHA 250
HAWNPEDRSLNIFVK+DD LTFHRHPVAQSTD IRG+VG+++G H+WE++W RQRGTHA
Sbjct: 1 HAWNPEDRSLNIFVKEDDPLTFHRHPVAQSTDGIRGKVGYSRGLHVWEINWPTRQRGTHA 60
Query: 251 VVGVGTIDAPLHSVGYQ 267
VVGV T +APLH VGYQ
Sbjct: 61 VVGVATAEAPLHCVGYQ 77
>gnl|CDD|240455 cd12875, SPRY_SOCS_Fbox, SPRY domain in Fbxo45 and suppressors of
cytokine signaling (SOCS) proteins. This family
consists of the SPRY domain-containing SOCS box protein
family (SPSB1-4, also known as SSB-1 to -4) as well as
F-box protein 45 (Fbxo45), a novel synaptic E3 and
ubiquitin ligase. The SPSB protein is composed of a
central SPRY protein interaction domain and a C-terminal
SOCS box. SPSB1, SPSB2, and SPSB4 interact with prostate
apoptosis response protein 4 (Par-4) and are negative
regulators that recruit the ECS E3 ubiquitin ligase
complex to polyubiquitinate inducible nitric-oxide
synthase (iNOS), resulting in its proteasomal
degradation. Fbxo45 is related to this family; it is
located N-terminal to the SPRY domain, and known to
induce the degradation of a synaptic vesicle-priming
factor, Munc13-1, via the SPRY domain, thus playing an
important role in the regulation of neurotransmission by
modulating Munc13-1 at the synapse. Suppressor of
cytokine signaling (SOCS) proteins negatively regulate
signaling from JAK-associated cytokine receptor
complexes, and play key roles in the regulation of
immune homeostasis.
Length = 171
Score = 132 bits (334), Expect = 1e-38
Identities = 50/76 (65%), Positives = 59/76 (77%), Gaps = 1/76 (1%)
Query: 191 HAWNPEDRSLNIFVKDDDKLTFHRHPVAQSTDCIRGRVGFTKGFHIWEVHWSARQRGTHA 250
HAWNP D S NI++K+D LTFHR PVAQSTD IRG++G+++G H WEV W RQRG+HA
Sbjct: 1 HAWNPADCSKNIYIKED-GLTFHRRPVAQSTDAIRGKIGYSRGLHAWEVKWEGRQRGSHA 59
Query: 251 VVGVGTIDAPLHSVGY 266
VVGV T DAPL GY
Sbjct: 60 VVGVATKDAPLQCDGY 75
>gnl|CDD|240487 cd12907, SPRY_Fbox, SPRY domain in the F-box family Fbxo45. Fbxo45
is a novel synaptic E3 and ubiquitin ligase, related to
the suppressor of cytokine signaling (SOCS) proteins and
located N-terminal to a SPRY (SPla and the ryanodine
receptor) domain. Fbxo45 induces the degradation of a
synaptic vesicle-priming factor, Munc13-1, via the SPRY
domain, thus playing an important role in the regulation
of neurotransmission by modulating Munc13-1 at the
synapse. F-box motifs are found in proteins that
function as the substrate recognition component of SCF
E3 complexes.
Length = 175
Score = 94.1 bits (234), Expect = 1e-23
Identities = 41/76 (53%), Positives = 51/76 (67%), Gaps = 2/76 (2%)
Query: 191 HAWNPEDRSLNIFVKDDDKLTFHRHPVAQSTDCIRGRVGFTKGFHIWEVHWSARQRGTHA 250
HAWNP D S N+++K + T HR+PVAQSTD RG++GF+ G H WEV W GT A
Sbjct: 1 HAWNPNDCSRNVYIKPNG-FTLHRNPVAQSTDGARGKIGFSSGRHAWEVWWEG-PLGTVA 58
Query: 251 VVGVGTIDAPLHSVGY 266
VVG+ T +APL GY
Sbjct: 59 VVGIATKEAPLQCHGY 74
>gnl|CDD|240456 cd12876, SPRY_SOCS3, SPRY domain in the suppressor of cytokine
signaling 3 (SOCS3) family. The SPRY domain-containing
SOCS box protein family (SPSB1-4, also known as SSB-1 to
-4) is composed of a central SPRY protein interaction
domain and a C-terminal SOCS box. All four SPSB proteins
interact with c-Met, the hepatocyte growth factor
receptor, but SOCS3 regulates cellular response to a
variety of cytokines such as leukemia inhibitory factor
(LIF) and interleukin 6. SOCS3, along with SOCS1, are
expressed by immune cells and cells of the central
nervous system (CNS) and have the potential to impact
immune processes within the CNS. In non-small cell lung
cancer (NSCLC), SOCS3 is silenced and proline-rich
tyrosine kinase 2 (Pyk2) is over-expressed; it has been
suggested that SOCS3 could be an effective way to
prevent the progression of NSCLC due to its role in
regulating Pyk2 expression.
Length = 187
Score = 50.7 bits (122), Expect = 1e-07
Identities = 26/80 (32%), Positives = 44/80 (55%), Gaps = 5/80 (6%)
Query: 193 WNPEDRSLN-IFVKDDDKLTFHRHPV-AQSTDCIRGRVGFTK-GFHIWEVHWSARQRGTH 249
W+ +D+S + + +D+ ++ FH P + T +RG T+ G H WE+ + GT
Sbjct: 4 WDEDDKSPSVVLSEDNREVYFH--PDYSCGTAAVRGSKPLTEGGQHYWEIKMLSPVYGTS 61
Query: 250 AVVGVGTIDAPLHSVGYQII 269
+VG+GT DA LH+ Y+
Sbjct: 62 MMVGIGTDDADLHAYRYEFC 81
>gnl|CDD|234493 TIGR04189, surface_SprA, cell surface protein SprA. SprA is a cell
surface protein widely distributed in the Bacteroidetes
lineage. In Flavobacterium johnsoniae, a species that
shows gliding motility, mutation disrupts gliding.
Length = 2315
Score = 33.1 bits (76), Expect = 0.16
Identities = 22/80 (27%), Positives = 27/80 (33%), Gaps = 18/80 (22%)
Query: 43 EEMGSHITFELHLRDQSATNYCLSD-YSQYPV---------VFFLSHRYKSSS------G 86
E GS + + A Y + Y + L RYKSSS G
Sbjct: 541 EPFGSGLAKAFSTNNALADKYVFQELYDSTKTQAQQFAEKNKYRLKGRYKSSSGSEIRLG 600
Query: 87 GCGVS--SSRCTASGVELRE 104
V S R TA G L+E
Sbjct: 601 AINVPRGSVRVTAGGRTLQE 620
>gnl|CDD|240469 cd12889, SPRY_PRY_TRIM67_9, PRY/SPRY domain in tripartite
motif-containing proteins, TRIM9 and TRIM67. This
domain, consisting of the distinct N-terminal PRY
subdomain followed by the SPRY subdomain, is found at
the C-terminus of TRIM9 proteins. TRIM9 protein is
expressed mainly in the cerebral cortex, and functions
as an E3 ubiquitin ligase. It has been shown that TRIM9
is localized to the neurons in the normal human brain
and its immunoreactivity in affected brain areas in
Parkinson's disease and dementia with Lewy bodies is
severely decreased, possibly playing an important role
in the regulation of neuronal function and participating
in pathological process of Lewy body disease through its
ligase. TRIM67 negatively regulates Ras activity via
degradation of 80K-H , leading to neural
differentiation, including neuritogenesis.
Length = 172
Score = 31.5 bits (72), Expect = 0.26
Identities = 12/33 (36%), Positives = 14/33 (42%)
Query: 226 GRVGFTKGFHIWEVHWSARQRGTHAVVGVGTID 258
G VGF++G H WEV GV D
Sbjct: 42 GSVGFSRGVHYWEVTIDRYDGHPDPAFGVARAD 74
>gnl|CDD|235778 PRK06319, PRK06319, DNA topoisomerase I/SWI domain fusion protein;
Validated.
Length = 860
Score = 31.7 bits (72), Expect = 0.39
Identities = 19/49 (38%), Positives = 25/49 (51%), Gaps = 5/49 (10%)
Query: 100 VELRELRRHNYKSCVFPNKTSASYQD-HRHHRTRSGRGMSMGQKISNGV 147
VE +E RR+ Y P TS Q+ RH R S R M++ Q + GV
Sbjct: 258 VESKEKRRNAYP----PFITSTLQQEASRHFRFSSSRTMNIAQTLYEGV 302
>gnl|CDD|240473 cd12893, SPRY_PRY_TRIM35, PRY/SPRY domain in tripartite
motif-containing protein 35 (TRIM35). This PRY/SPRY
domain is found at the C-terminus of the overall domain
architecture of tripartite motif 35, TRIM35 (also known
as hemopoietic lineage switch protein), which includes a
RING finger domain (RING) and a B-box motif (BBOX).
TRIM35 may play a role as a tumor suppressor and is
implicated in the cell death mechanism.
Length = 171
Score = 30.3 bits (69), Expect = 0.72
Identities = 8/18 (44%), Positives = 11/18 (61%)
Query: 223 CIRGRVGFTKGFHIWEVH 240
C+ G GF+ G H W+V
Sbjct: 43 CVLGSEGFSSGSHSWDVE 60
>gnl|CDD|102354 PRK06392, PRK06392, homoserine dehydrogenase; Provisional.
Length = 326
Score = 30.2 bits (68), Expect = 1.1
Identities = 22/84 (26%), Positives = 40/84 (47%), Gaps = 14/84 (16%)
Query: 104 ELRRHNYK-SCVFPNKTSASYQDHRHHRTRSGRGMSMGQKISNGVKTVNRESSAPFKPVI 162
+ RR+N S V + + SY + RG+ +G+ IS K R ++ +
Sbjct: 24 DDRRNNNGISVVSVSDSKLSYY--------NERGLDIGKIISY--KEKGRLEEIDYEKIK 73
Query: 163 PRELAHQRPGRLDIILDMPPASRE 186
E+ +P D+I+D+ PAS++
Sbjct: 74 FDEIFEIKP---DVIVDVTPASKD 94
>gnl|CDD|240468 cd12888, SPRY_PRY_TRIM7_like, PRY/SPRY domain in tripartite
motif-binding protein 7 (TRIM7)-like, including TRIM7,
TRIM10, TRIM15, TRIM26, TRIM39, TRIM41. This domain,
consisting of the distinct N-terminal PRY subdomain
followed by the SPRY subdomain, is found at the
C-terminus of several tripartite motif-containing (TRIM)
proteins, including TRIM7 (also referred to as
glycogenin-interacting protein, RING finger protein 90
or RNF90), TRIM10, TRIM15, TRIM26, TRIM39 and TRIM41.
TRIM7 or GNIP interacts with glycogenin and stimulates
its self-glucosylating activity via its SPRY domain.
TRIM10 (also known as hematopoietic RING finger 1
(HERF1) or TRIM10/HERF1) plays a key role in definitive
erythroid development; downregulation of the Spi-1/PU.1
oncogene induces the expression of TRIM10/HERF1, a key
factor required for terminal erythroid cell
differentiation and survival. Antiviral activity of
TRIM15 is dependent on the ability of its B-box to
interact with the MLV Gag precursor protein;
downregulation of TRIM15, along with TRIM11, enhances
virus release suggesting that these proteins contribute
to the endogenous restriction of retroviruses in cells.
Tripartite motif-containing 26 (TRIM26) function is as
yet unknown; however, since it is localized in the human
histocompatibility complex (MHC) class I region, TRIM26
may play a role in immune response although studies show
no association between TRIM26 polymorphisms and the risk
of aspirin-exacerbated respiratory disease. TRIM39 is a
MOAP-1 (Modulator of Apoptosis)-binding protein that
stabilizes MOAP-1 through inhibition of its
poly-ubiquitination process. TRIM41 (also known as RING
finger-interacting protein with C kinase or RINCK)
functions as an E3 ligase that catalyzes the
ubiquitin-mediated degradation of protein kinase C.
Length = 171
Score = 29.5 bits (67), Expect = 1.4
Identities = 10/17 (58%), Positives = 11/17 (64%)
Query: 223 CIRGRVGFTKGFHIWEV 239
C+ G GFT G H WEV
Sbjct: 43 CVLGSEGFTSGRHYWEV 59
>gnl|CDD|214669 smart00449, SPRY, Domain in SPla and the RYanodine Receptor.
Domain of unknown function. Distant homologues are
domains in butyrophilin/marenostrin/pyrin homologues.
Length = 122
Score = 28.4 bits (64), Expect = 2.1
Identities = 11/31 (35%), Positives = 12/31 (38%), Gaps = 3/31 (9%)
Query: 232 KGFHIWEVHWSARQRGTHAVVGVGTIDAPLH 262
G H +EV G H VGV T P
Sbjct: 1 SGRHYFEVEI---GDGGHWRVGVATKSVPRG 28
>gnl|CDD|213365 cd12831, TmCorA-like_u2, Uncharacterized bacterial subfamily of the
Thermotoga maritima CorA-like family. This subfamily
belongs to the Thermotoga maritima CorA (TmCorA)-like
family of the MIT superfamily of essential membrane
proteins involved in transporting divalent cations
(uptake or efflux) across membranes. Members of the
TmCorA-like family are found in all three kingdoms of
life. It is a functionally diverse family which includes
the CorA Co2+ transporter from the hyperthermophilic
Thermotoga maritima, and three Saccharomyces cerevisiae
proteins: two located in the plasma membrane: the Mg2+
transporter Alr1p/Swc3p and the putative Mg2+
transporter, Alr2p, and the vacuole membrane protein
Mnr2p, a putative Mg2+ transporter. Thermotoga maritima
CorA forms funnel-shaped homopentamers, the tip of the
funnel is formed from two C-terminal transmembrane (TM)
helices from each monomer, and the large opening of the
funnel from the N-terminal cytoplasmic domains. The GMN
signature motif of the MIT superfamily occurs just after
TM1, mutation within this motif is known to abolish Mg2+
transport by a related protein, Saccharomyces cerevisiae
Alr1p. Natural variants in this signature sequence may
be associated with the transport of different divalent
cations. The functional diversity of the MIT superfamily
may also be due to minor structural differences
regulating gating, substrate selection, and transport.
Length = 287
Score = 29.1 bits (66), Expect = 2.4
Identities = 12/32 (37%), Positives = 20/32 (62%), Gaps = 3/32 (9%)
Query: 189 VKHAWNPED---RSLNIFVKDDDKLTFHRHPV 217
V HA + ED +N+FV ++ +TFH+ P+
Sbjct: 51 VLHAIDQEDLEAEEVNLFVGENYIVTFHKEPI 82
>gnl|CDD|240471 cd12891, SPRY_PRY_C-IV_2, PRY/SPRY domain in tripartite
motif-containing (TRIM) proteins, including TRIM14-like,
TRIM16-like, TRIM25-like, TRIM47-like and RNF135 and
stonustoxin. This domain, consisting of the distinct
N-terminal PRY subdomain followed by the SPRY subdomain,
is found at the C-terminus of several Class IV TRIM
proteins, including TRIM14, TRIM16 and TRIM25, TRIM47
as well as RING finger protein RNF135 and stonustoxin, a
secreted poisonous protein of the stonefish Synanceja
horrida. TRIM16 (also known as estrogen-responsive B box
protein or EBBP) has E3 ubiquitin ligase activity. It is
a regulator of keratinocyte differentiation and a tumor
suppressor in retinoid-sensitive neuroblastoma. TRIM25
(also called Efp) ubiquitinates the N terminus of the
viral RNA receptor retinoic acid-inducible gene-I
(RIG-I) in response to viral infection, leading to
activation of the RIG-I signaling pathway, thus
resulting in type I interferon production to limit viral
replication. It has been shown that the influenza A
virus targets TRIM25 and disables its antiviral
function. TRIM47, also known as GOA (Gene overexpressed
in astrocytoma protein) or RNF100 (RING finger protein
100), is highly expressed in kidney tubular cells, but
low expressed in most tissue. It is overexpressed in
astrocytoma tumor cells and plays an important role in
the process of dedifferentiation that is associated with
astrocytoma tumorigenesis. RNF135 ubiquitinates RIG-I
(retinoic acid-inducible gene-I) to promote
interferon-beta induction during the early phase of
viral infection. Stonustoxin (STNX) is a hypotensive and
lethal protein factor that also possesses other
biological activities such as species-specific hemolysis
(due to its ability to form pores in the cell membrane)
and platelet aggregation, edema-induction, and
endothelium-dependent vasorelaxation (mediated by the
nitric oxide pathway and activation of potassium
channels).
Length = 169
Score = 28.3 bits (64), Expect = 3.2
Identities = 11/26 (42%), Positives = 13/26 (50%), Gaps = 4/26 (15%)
Query: 229 GFTKGFHIWEVHWSARQRGTHAVVGV 254
+ G H WEV WS G+ VGV
Sbjct: 48 SLSSGRHYWEVEWS----GSGVSVGV 69
>gnl|CDD|226466 COG3957, COG3957, Phosphoketolase [Carbohydrate transport and
metabolism].
Length = 793
Score = 28.9 bits (65), Expect = 3.6
Identities = 22/104 (21%), Positives = 34/104 (32%), Gaps = 19/104 (18%)
Query: 168 HQRPGRLDIILDM---------PPASRETQVKHAWNPEDRS-LNIFVKDDDKLTFHRHPV 217
HQ PG +D + + PP + + R+ +N+ V + P
Sbjct: 542 HQDPGFIDHVANKKSDIVRVYFPPDANTLLAVYDHCLRSRNKINVIVAS-------KQPR 594
Query: 218 AQSTDCIRGRVGFTKGFHIWEVHWSARQRGTHAVVGVGTIDAPL 261
Q + T G IW W++ G VV D P
Sbjct: 595 PQWLTMEQAEKHCTDGAGIW--EWASGDDGEPDVVMACAGDVPT 636
>gnl|CDD|240485 cd12905, SPRY_PRY_TRIM_Bty_69_NF7, PRY/SPRY domain in tripartite
motif-containing protein 69 (TRIM69), Bloodthirsty (bty)
and NF7. This domain, consisting of the distinct
N-terminal PRY subdomain followed by the SPRY subdomain,
is found at the C-terminus of TRIM69 and TRIM proteins
NF7 and bloodthirsty (bty). TRIM69 is a novel testis E3
ubiquitin ligase that may function to ubiquitinate its
particular substrates during spermatogenesis. In humans,
TRIM69 localizes in the cytoplasm and nucleus, and
requires an intact RING finger domain to function. TRIM
protein NF7, which also contains a chromodomain (CHD) at
the N-terminus and an RFP (Ret finger protein)-like
domain at the C-terminus, is required for its
association with transcriptional units of RNA polymerase
II which is mediated by a trimeric B box. In Xenopus
oocyte, xNF7 has been identified as a nuclear
microtubule-associated protein (MAP) whose
microtubule-bundling activity, but not E3-ligase
activity, contributes to microtubule organization and
spindle integrity. Bloodthirsty (bty) is a novel gene
identified in zebrafish and has been shown to likely
play a role in in regulation of the terminal steps of
erythropoiesis.
Length = 176
Score = 28.0 bits (63), Expect = 3.7
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 223 CIRGRVGFTKGFHIWEV 239
C+ G+ GFT G H WEV
Sbjct: 45 CVLGKEGFTSGRHYWEV 61
>gnl|CDD|234393 TIGR03914, UDG_fam_dom, uracil-DNA glycosylase family domain. This
model represents a clade within the uracil-DNA
glycosylase superfamily. Among characterized proteins,
it most closely resembles the Thermus thermophilus
uracil-DNA glycosylase TTUDGA, which acts uracil
(deamidated cytosine) in both single-stranded DNA and
U/G pairs of double-stranded DNA. This domain may occur
either as a stand-alone protein or as the C-terminal
domain of a fusion with another domain that always pairs
with a particular radical-SAM family protein.
Length = 230
Score = 28.0 bits (63), Expect = 4.2
Identities = 11/23 (47%), Positives = 11/23 (47%)
Query: 245 QRGTHAVVGVGTIDAPLHSVGYQ 267
T V G G DAPL VG Q
Sbjct: 61 CPATQTVFGEGPEDAPLMIVGEQ 83
>gnl|CDD|240494 cd13736, SPRY_PRY_TRIM25, PRY/SPRY domain in tripartite
motif-containing domain 25 (TRIM25). This domain,
consisting of the distinct N-terminal PRY subdomain
followed by the SPRY subdomain, is found at the
C-terminus of TRIM25 proteins (composed of
RING/B-box/coiled-coil core and also known as RBCC
proteins). TRIM25 (also called Efp) ubiquitinates the N
terminus of the viral RNA receptor retinoic
acid-inducible gene-I (RIG-I) in response to viral
infection, leading to activation of the RIG-I signaling
pathway, thus resulting in type I interferon production
to limit viral replication. It has been shown that the
influenza A virus targets TRIM25 and disables its
antiviral function.
Length = 169
Score = 27.9 bits (62), Expect = 4.4
Identities = 13/35 (37%), Positives = 17/35 (48%), Gaps = 3/35 (8%)
Query: 207 DDKLTFHRHPVAQSTDC--IRGRVGFTKGFHIWEV 239
DD + HP + T C + G F +G H WEV
Sbjct: 25 DDPANYPEHP-QRFTVCSQVLGTKCFKQGIHYWEV 58
>gnl|CDD|183831 PRK12933, secD, preprotein translocase subunit SecD; Reviewed.
Length = 604
Score = 28.5 bits (64), Expect = 4.6
Identities = 21/99 (21%), Positives = 36/99 (36%), Gaps = 19/99 (19%)
Query: 130 RTRSGRGMSMGQKISNGVKTVNRESSAPFKPVIPRELAHQRPGRLDIILDMPPASRETQV 189
R + RG+S+ S+ + V + V + + PG QV
Sbjct: 164 REQRIRGVSVRLDDSDQL-AVTTPDNDARSAVR-QFIQQNYPG--------------WQV 207
Query: 190 KHAWNPEDRSLNIFVKDDDKLTFHRHPVAQSTDCIRGRV 228
N +DR L + + +K F V Q+ +R R+
Sbjct: 208 T---NSDDRGLQLKLSQQEKTKFRNLTVQQNLQIMRSRI 243
>gnl|CDD|216029 pfam00622, SPRY, SPRY domain. SPRY Domain is named from SPla and
the RYanodine Receptor. Domain of unknown function.
Distant homologues are domains in
butyrophilin/marenostrin/pyrin homologues.
Length = 125
Score = 27.3 bits (61), Expect = 4.9
Identities = 9/35 (25%), Positives = 10/35 (28%), Gaps = 1/35 (2%)
Query: 232 KGFHIWEVHWSARQRGTHAVVGVGTIDAPLHSVGY 266
G H +EV G H VG T
Sbjct: 1 SGKHYFEVEVDTGG-GGHVRVGWATKSVKKPGFRL 34
>gnl|CDD|240499 cd13741, SPRY_PRY_TRIM41, PRY/SPRY domain in tripartite
motif-binding protein 41 (TRIM41). This domain,
consisting of the distinct N-terminal PRY subdomain
followed by the SPRY subdomain, is found at the
C-terminus of tripartite motif-containing protein 41
(TRIM41). TRIM41 (also known as RING finger-interacting
protein with C kinase or RINCK) is localized to speckles
in the cytoplasm and nucleus, and functions as an E3
ligase that catalyzes the ubiquitin-mediated degradation
of protein kinase C.
Length = 199
Score = 27.8 bits (61), Expect = 5.0
Identities = 14/32 (43%), Positives = 16/32 (50%), Gaps = 1/32 (3%)
Query: 215 HPVAQSTD-CIRGRVGFTKGFHIWEVHWSARQ 245
HP S D C+ G GF G H WEV R+
Sbjct: 34 HPKRFSADCCVLGAQGFRSGRHYWEVEVGGRR 65
>gnl|CDD|240492 cd13734, SPRY_PRY_C-I, PRY/SPRY domain in tripartite
motif-containing proteins 1, 9, 18, 36, 46, 67,76
(TRIM1, TRIM9, TRIM18, TRIM36, TRIM46, TRIM67, TRIM76).
This domain, consisting of the distinct N-terminal PRY
subdomain followed by the SPRY subdomain, is found at
the C-terminus of several Class I TRIM proteins,
including TRIM1, TRIM9, TRIM18, TRIM36, TRIM46, TRIM67
and TRIM76. TRIM1 (also known as MID2) and its close
homolog, TRIM18 (also known as MID1), both contain a
B30.2-like domain at their C-terminus and a single
fibronectin type III (FN3) motif between it and their
N-terminal RBCC domain. Their coiled-coil motifs mediate
both homo- and heterodimerization, a prerequisite for
association of the rapamycin-sensitive PP2A regulatory
subunit Alpha 4 with microtubules. Mutations in TRIM18
have shown to cause Opitz syndrome, a disorder causing
congenital anomalies such as cleft lip and palate as
well as heart defects. TRIM9 is expressed mainly in the
cerebral cortex, and functions as an E3 ubiquitin
ligase. Its immunoreactivity is severely decreased in
affected brain areas in Parkinson's disease and dementia
with Lewy bodies, possibly playing an important role in
the regulation of neuronal function and participating in
pathological process of Lewy body disease through its
ligase. TRIM36 interacts with centromere protein-H, one
of the kinetochore proteins and possibly associates with
chromosome segregation; an excess of TRIM36 may cause
chromosomal instability. TRIM46 has not yet been
characterized. TRIM67 negatively regulates Ras activity
via degradation of 80K-H, leading to neural
differentiation, including neuritogenesis. TRIM76 (also
known as cardiomyopathy-associated protein 5 or CMYA5)
is a muscle-specific member of the TRIM superfamily, but
lacks the RING domain. It is possibly involved in
protein kinase A signaling as well as vesicular
trafficking. It has also been implicated in Duchenne
muscular dystrophy and cardiac disease.
Length = 169
Score = 27.2 bits (61), Expect = 6.0
Identities = 12/35 (34%), Positives = 14/35 (40%), Gaps = 3/35 (8%)
Query: 226 GRVGFTKGFHIWEVHWSARQRGTHAVVGVGTIDAP 260
G + G H WEV + R T VGV P
Sbjct: 48 GDTAISSGRHYWEV---SVDRSTSYRVGVAYKSVP 79
>gnl|CDD|240503 cd13745, SPRY_PRY_TRIM39, PRY/SPRY domain in butyrophilins and
butyrophilins-like proteins, pyrin, as well as
tripartite motif-containing proteins (TRIM21, 27 and
others). This domain, consisting of the distinct
N-terminal PRY subdomain followed by the SPRY subdomain,
is found at the C-terminus of pyrin, several tripartite
motif-containing proteins (TRIMs), including E3
ubiquitin-protein ligase (TRIM21), RET finger protein
(RFP)/tripartite motif protein 27 (TRIM27), as well as
butyrophilin (Btns) and butyrophilin-like (Btnl) family
members, with the exception of Btnl2. Btn and Btnl
family members are novel regulators of immune responses,
with many of the genes located within the MHC. They are
implicated in T-cell inhibition and modulation of
epithelial cell-T cell interactions. TRIM21 (also known
as RO52, SSA1 or RNF81) is a major autoantigen in
autoimmune diseases such as rheumatoid arthritis,
systemic lupus erythematosus, and Sjorgen's syndrome.
TRIM27 (also known as Ret finger protein, RFP or RNF76)
negatively regulates CD4 T-cells by ubiquitinating and
inhibiting the class II phosphatidylinositol 3 kinase
C2beta (PI3K-C2beta), a kinase critical for KCa3.1
channel activation. The PRY/SPRY domain of Pyrin, which
is mutated in familial Mediterranean fever patients,
interacts with inflammasome components and inhibits
proIL-1beta processing.
Length = 184
Score = 27.3 bits (60), Expect = 6.5
Identities = 20/57 (35%), Positives = 24/57 (42%), Gaps = 12/57 (21%)
Query: 223 CIRGRVGFTKGFHIWEVHWSARQRGTHAVVGV--------GTIDAPLHSVGYQIIRF 271
C+ GFT G H WEV + TH VGV G + PL GY +R
Sbjct: 47 CVLATEGFTSGRHYWEVEVGDK---THWAVGVCRDSVSRKGEL-TPLPETGYWRVRL 99
>gnl|CDD|236154 PRK08119, PRK08119, flagellar motor switch protein; Validated.
Length = 382
Score = 27.5 bits (62), Expect = 8.4
Identities = 12/28 (42%), Positives = 15/28 (53%)
Query: 154 SSAPFKPVIPRELAHQRPGRLDIILDMP 181
A F+ P LA P LD+ILD+P
Sbjct: 280 QPAQFQSFDPPPLATTEPRNLDLILDVP 307
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 0.134 0.408
Gapped
Lambda K H
0.267 0.0737 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,813,493
Number of extensions: 1267624
Number of successful extensions: 937
Number of sequences better than 10.0: 1
Number of HSP's gapped: 933
Number of HSP's successfully gapped: 34
Length of query: 272
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 177
Effective length of database: 6,723,972
Effective search space: 1190143044
Effective search space used: 1190143044
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: 58 (26.1 bits)