RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4214
(271 letters)
>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 = 231 bits (590), Expect = 5e-77
Identities = 89/114 (78%), Positives = 103/114 (90%)
Query: 85 HSWNPNDCSRNVYIKPNGFTLHRNPVAQSTDAVRGKMGFYQGRHAWEVFWQGPLGTVAVV 144
H+WNPNDCSRNVYIKPNGFTLHRNPVAQSTD RGK+GF GRHAWEV+W+GPLGTVAVV
Sbjct: 1 HAWNPNDCSRNVYIKPNGFTLHRNPVAQSTDGARGKIGFSSGRHAWEVWWEGPLGTVAVV 60
Query: 145 GIATKDALLQSHGYLALIGSDSESWGWNIVDNRILHNGESQGSYPQLNNPPKWE 198
GIATK+A LQ HGY+AL+GSD +SWGWN+VDN +LHNG+ QG+YPQ NN PK++
Sbjct: 61 GIATKEAPLQCHGYVALLGSDDQSWGWNLVDNHLLHNGDVQGNYPQCNNAPKYQ 114
>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 = 176 bits (448), Expect = 1e-55
Identities = 67/116 (57%), Positives = 88/116 (75%), Gaps = 2/116 (1%)
Query: 85 HSWNPNDCSRNVYIKPNGFTLHRNPVAQSTDAVRGKMGFYQGRHAWEVFWQG-PLGTVAV 143
H+WNP DCS+N+YIK +G T HR PVAQSTDA+RGK+G+ +G HAWEV W+G G+ AV
Sbjct: 1 HAWNPADCSKNIYIKEDGLTFHRRPVAQSTDAIRGKIGYSRGLHAWEVKWEGRQRGSHAV 60
Query: 144 VGIATKDALLQSHGYLALIGSDSESWGWNIVDNRILHNGE-SQGSYPQLNNPPKWE 198
VG+ATKDA LQ GY+AL+GSDSESWGW++ N++ H+G+ GSYP + +
Sbjct: 61 VGVATKDAPLQCDGYVALLGSDSESWGWDLSTNKLYHDGKVVIGSYPAGSATENYS 116
>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 = 147 bits (372), Expect = 4e-44
Identities = 53/116 (45%), Positives = 76/116 (65%), Gaps = 8/116 (6%)
Query: 85 HSWNPNDCSRNVYIKP-NGFTLHRNPVAQSTDAVRGKMGFYQGRHAWEVFWQGPL---GT 140
H+WNP D S N+++K + T HR+PVAQSTD +RGK+G+ +G H WE+ W P GT
Sbjct: 1 HAWNPEDRSLNIFVKEDDPLTFHRHPVAQSTDGIRGKVGYSRGLHVWEINW--PTRQRGT 58
Query: 141 VAVVGIATKDALLQSHGYLALIGSDSESWGWNIVDNRILHNGESQGS--YPQLNNP 194
AVVG+AT +A L GY +L+GS+ ESWGW++ N++ H+ ++ YP P
Sbjct: 59 HAVVGVATAEAPLHCVGYQSLVGSNEESWGWDLGRNKLYHDSKNNPGVTYPAFLKP 114
>gnl|CDD|221867 pfam12937, F-box-like, F-box-like. This is an F-box-like family.
Length = 47
Score = 57.1 bits (139), Expect = 3e-11
Identities = 21/49 (42%), Positives = 30/49 (61%), Gaps = 2/49 (4%)
Query: 10 ISHLPEHILELLFSYLDLTDIRNCMLVCKKWYTLLCNEKNEVWRVHCLR 58
+S LP+ IL +FSYLD D+ LVC++W L ++ +WR CLR
Sbjct: 1 LSDLPDEILLQIFSYLDPRDLLRLALVCRRWRELASDD--SLWRRLCLR 47
>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 = 60.3 bits (147), Expect = 4e-11
Identities = 36/105 (34%), Positives = 53/105 (50%), Gaps = 8/105 (7%)
Query: 86 SWNPNDCSRNVYIKPN--GFTLHRNPVAQSTDAVRGKMGFYQ-GRHAWEV-FWQGPLGTV 141
W+ +D S +V + + H + + T AVRG + G+H WE+ GT
Sbjct: 3 VWDEDDKSPSVVLSEDNREVYFHPD-YSCGTAAVRGSKPLTEGGQHYWEIKMLSPVYGTS 61
Query: 142 AVVGIATKDALLQSHGYL--ALIGSDSESWGWNIVDNRILHNGES 184
+VGI T DA L ++ Y +L+G D ESWG + + HNGES
Sbjct: 62 MMVGIGTDDADLHAYRYEFCSLLGLDEESWGLS-YKGLLWHNGES 105
>gnl|CDD|201368 pfam00646, F-box, F-box domain. This domain is approximately 50
amino acids long, and is usually found in the
N-terminal half of a variety of proteins. Two motifs
that are commonly found associated with the F-box
domain are the leucine rich repeats (LRRs; pfam00560
and pfam07723) and the WD repeat (pfam00400). The F-box
domain has a role in mediating protein-protein
interactions in a variety of contexts, such as
polyubiquitination, transcription elongation,
centromere binding and translational repression.
Length = 48
Score = 48.3 bits (116), Expect = 4e-08
Identities = 14/47 (29%), Positives = 24/47 (51%)
Query: 9 IISHLPEHILELLFSYLDLTDIRNCMLVCKKWYTLLCNEKNEVWRVH 55
+ LP+ +L + S LD D+ LV K+W +L+ + K R+
Sbjct: 2 SLLDLPDDLLLEILSRLDPKDLLRLSLVSKRWRSLVDSLKLWKKRLL 48
>gnl|CDD|197608 smart00256, FBOX, A Receptor for Ubiquitination Targets.
Length = 41
Score = 47.8 bits (115), Expect = 4e-08
Identities = 13/37 (35%), Positives = 20/37 (54%)
Query: 13 LPEHILELLFSYLDLTDIRNCMLVCKKWYTLLCNEKN 49
LP+ ILE + S LD D+ V +KW +L+ +
Sbjct: 1 LPDEILEEILSKLDPKDLLRLRKVSRKWRSLIDSHDF 37
>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 = 43.8 bits (104), Expect = 7e-06
Identities = 21/60 (35%), Positives = 27/60 (45%), Gaps = 5/60 (8%)
Query: 125 QGRHAWEVFWQGPLGTVAVVGIATKDALLQSHGYLALIGSDSESWGWNIVDNRILHNGES 184
GRH +EV VG+ATK GY AL+G D SWG++ + HN
Sbjct: 1 SGRHYFEVEIGDG--GHWRVGVATKSV---PRGYFALLGEDKGSWGYDGDGGKKYHNSTG 55
>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 = 43.9 bits (104), Expect = 9e-06
Identities = 21/60 (35%), Positives = 26/60 (43%), Gaps = 3/60 (5%)
Query: 125 QGRHAWEVFWQGPLGTVAVVGIATKDALLQSHGYLALIGSDSESWGWNIVDNRILHNGES 184
G+H +EV G VG ATK L+G D SWG++ HNGES
Sbjct: 1 SGKHYFEVEVDTGGGGHVRVGWATKSV---KKPGFRLLGDDEGSWGYDGSGGSKYHNGES 57
>gnl|CDD|240451 cd11709, SPRY, SPRY domain. SPRY domains, first identified in the
SP1A kinase of Dictyostelium and rabbit Ryanodine
receptor (hence the name), are homologous to B30.2. SPRY
domains have been identified in at least 11 protein
families, covering a wide range of functions, including
regulation of cytokine signaling (SOCS), RNA metabolism
(DDX1 and hnRNP), immunity to retroviruses (TRIM5alpha),
intracellular calcium release (ryanodine receptors or
RyR) and regulatory and developmental processes (HERC1
and Ash2L). B30.2 also contains residues in the
N-terminus that form a distinct PRY domain structure;
i.e. B30.2 domain consists of PRY and SPRY subdomains.
B30.2 domains comprise the C-terminus of three protein
families: BTNs (receptor glycoproteins of immunoglobulin
superfamily); several TRIM proteins (composed of
RING/B-box/coiled-coil or RBCC core); Stonutoxin
(secreted poisonous protein of the stonefish Synanceia
horrida). While SPRY domains are evolutionarily ancient,
B30.2 domains are a more recent adaptation where the
SPRY/PRY combination is a possible component of immune
defense. Mutations found in the SPRY-containing proteins
have shown to cause Mediterranean fever and Opitz
syndrome.
Length = 118
Score = 42.8 bits (101), Expect = 2e-05
Identities = 19/69 (27%), Positives = 27/69 (39%), Gaps = 3/69 (4%)
Query: 126 GRHAWEVFWQGPLGTVAVVGIATKDALLQSHGYLALIGSDSESWGWNIVDNRILHNGESQ 185
G+ +EV G + VG ATK L + G D SWG++ R H G S+
Sbjct: 1 GKWYYEVRVDSGNGGLIQVGWATKSFSLDGERGV---GDDEGSWGFDGSRLRKGHGGSSE 57
Query: 186 GSYPQLNNP 194
+
Sbjct: 58 PGGRPWKSG 66
>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 = 38.3 bits (90), Expect = 0.001
Identities = 19/71 (26%), Positives = 29/71 (40%), Gaps = 5/71 (7%)
Query: 117 VRGKMGFYQGRHAWEVFWQGPLGTVAVVGIATKDALLQSHGYLALIGSDSESWGWNIVDN 176
V GRH WEV W G+ VG+A K + G + +G + +SW +
Sbjct: 43 VLCTESLSSGRHYWEVEWS---GSGVSVGVAYKSIGRKGSGDDSRLGRNDKSWCLEWSGD 99
Query: 177 RI--LHNGESQ 185
+ HN +
Sbjct: 100 KYSAWHNNKET 110
>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 = 33.0 bits (76), Expect = 0.078
Identities = 30/118 (25%), Positives = 46/118 (38%), Gaps = 37/118 (31%)
Query: 82 AYFHSWNPNDCSRNVYIKPNGFTLHRNPVAQSTD--AVRGKMGFYQGRHAWEVFWQGPLG 139
A+F ++P+ ++ + + T+ S + V G +GF +G H WEV
Sbjct: 8 AWFQ-FDPSSGHPDIILSNDNLTV----TCSSYEDRVVLGSVGFSRGVHYWEV------- 55
Query: 140 TV--------AVVGIAT----KDALLQSHGYLALIGSDSESWGWNIVDNR--ILHNGE 183
T+ G+A KD +L G D + W I NR LHN E
Sbjct: 56 TIDRYDGHPDPAFGVARADVAKDKML---------GKDDKGWAMYIDSNRSWFLHNNE 104
>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 = 32.6 bits (75), Expect = 0.092
Identities = 21/70 (30%), Positives = 27/70 (38%), Gaps = 9/70 (12%)
Query: 115 DAVRGKMGFYQGRHAWEVFWQGPLGTVAVVGIATKDALLQSHGYLALIGSDSESWGWNIV 174
+V G GRH WEV T VG+A K +G +S SW
Sbjct: 44 YSVLGDTAISSGRHYWEVSVDR--STSYRVGVAYKSVPRDED-----LGKNSTSWCLRRT 96
Query: 175 DNR--ILHNG 182
+NR H+G
Sbjct: 97 NNRYSARHDG 106
>gnl|CDD|240454 cd12874, SPRY_PRY, PRY/SPRY domain, also known as B30.2. This
domain contains residues in the N-terminus that form a
distinct PRY domain structure such that the B30.2 domain
consists of PRY and SPRY subdomains. B30.2 domains
comprise the C-terminus of three protein families: BTNs
(receptor glycoproteins of immunoglobulin superfamily);
several TRIM proteins (composed of
RING/B-box/coiled-coil core); Stonutoxin (secreted
poisonous protein of the stonefish Synanceia horrida).
While SPRY domains are evolutionarily ancient, B30.2
domains are a more recent adaptation where the SPRY/PRY
combination is a possible component of immune defense.
Among the TRIM proteins, also known as the N-terminal
RING finger/B-box/coiled coil (RBCC) family, only
Classes I and IV contain the B30.2 domain that has
evolved under positive selection. Class IV TRIM proteins
include multiple members involved in antiviral immunity
at various levels of interferon signaling cascade.
Length = 167
Score = 31.6 bits (72), Expect = 0.23
Identities = 15/34 (44%), Positives = 17/34 (50%), Gaps = 2/34 (5%)
Query: 117 VRGKMGFYQGRHAWEVFWQGPLGTVAVVGIATKD 150
V G F GRH WEV Q V +VG+A K
Sbjct: 43 VLGDTSFLSGRHYWEVEVQK--SKVYIVGVAYKS 74
>gnl|CDD|233946 TIGR02599, TIGR02599, Verru_Chthon cassette protein C. This family
consists sets of paralogous family of proteins in the
Verrucomicrobium spinosum and Chthoniobacter flavus. All
members contain the prepilin-type N-terminal
cleavage/methylation domain (TIGR02532) at the
N-terminus. The mature protein would be about 350 amino
acids long. These proteins occur in the four-gene
Verru_Chthon cassette, in which two other genes likewise
encode a cleavage/methylation domain. Most of these
cassettes occur next to an unusually large PEP-CTERM
protein with an autotransporter domain [Cell envelope,
Surface structures].
Length = 343
Score = 31.6 bits (72), Expect = 0.36
Identities = 18/39 (46%), Positives = 20/39 (51%), Gaps = 2/39 (5%)
Query: 128 HAWEVFWQGPLGTVAVVGIATKDALLQSHGYLALIGSDS 166
HA VF+Q PLG G A D LL + GY GSD
Sbjct: 103 HA--VFFQAPLGVTEQAGTAGLDNLLNAWGYYVEFGSDL 139
>gnl|CDD|178937 PRK00227, glnD, PII uridylyl-transferase; Provisional.
Length = 693
Score = 31.7 bits (72), Expect = 0.39
Identities = 22/87 (25%), Positives = 31/87 (35%), Gaps = 18/87 (20%)
Query: 109 PVAQSTDAVRGKMGFYQGRHAWEVFWQGPLGTVAVVGIATKDALLQSHGYLALIGSDSES 168
PVA A +G + + V W G D + LALI +
Sbjct: 529 PVAPMFAARS-DIGLVEEDGFFTVIWHG-------------DYPRELVRVLALIAAK--- 571
Query: 169 WGWNIVDNRILHNGESQGSYPQLNNPP 195
GWNI+ R++ NG + N P
Sbjct: 572 -GWNILSARMVANGPWSAEFDVRANGP 597
>gnl|CDD|240452 cd12872, SPRY_Ash2, SPRY domain in Ash2. This SPRY domain is found
at the C-terminus of Ash2 (absent, small, or homeotic
discs 2) -like proteins, core components of all
mixed-lineage leukemia (MLL) family histone
methyltransferases. Ash2 is a member of the trithorax
group of transcriptional regulators of the Hox genes.
Recent studies show that the SPRY domain of Ash2
mediates the interaction with RbBP5 and has an important
role in regulating the methyltransferase activity of MLL
complexes. In yeast, Ash2 is involved in histone
methylation and is required for the earliest stages of
embryogenesis.
Length = 149
Score = 30.2 bits (69), Expect = 0.64
Identities = 19/68 (27%), Positives = 29/68 (42%), Gaps = 7/68 (10%)
Query: 117 VRGKMGFYQGRHAWEV-FWQGPLGTVAV-VGIATKDALLQSHGYLALIGSDSESWGWNIV 174
R G +G+ +EV +G T V VG + ++A LQ A +G D S+ +
Sbjct: 19 ARANHGVREGKWYFEVKILEGGGETGHVRVGWSRREASLQ-----APVGYDKYSYAYRDK 73
Query: 175 DNRILHNG 182
D H
Sbjct: 74 DGEKFHLS 81
>gnl|CDD|129495 TIGR00400, mgtE, Mg2+ transporter (mgtE). This family of
prokaryotic proteins models a class of Mg++ transporter
first described in Bacillus firmus. May form a homodimer
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 449
Score = 30.9 bits (70), Expect = 0.76
Identities = 28/128 (21%), Positives = 51/128 (39%), Gaps = 23/128 (17%)
Query: 8 EIISHLPEHILELLFSYL---DLTDI--------RNCML--VCKKWYTLLCNEKNEVWRV 54
E + LP L LL+ +L D +N +L K + + NE N +
Sbjct: 37 EALKRLPGTELILLYRFLPKKIAVDTFSNLDQSTQNKLLNSFTNKEISEMINEMNLDDVI 96
Query: 55 HCLRFMSENVIKSDLLSSLSTYKAKLRAYFHSWNPNDCSRNVYIK----PNGFTLHRNPV 110
L + NV++ LL+S + + K S++ + R + I+ +T V
Sbjct: 97 DLLEEVPANVVQQ-LLASSTEEERKAINLLLSYSDDSAGRIMTIEYVELKEDYT-----V 150
Query: 111 AQSTDAVR 118
++ D +R
Sbjct: 151 GKALDYIR 158
>gnl|CDD|240453 cd12873, SPRY_DDX1, SPRY domain associated with DEAD box gene DDX1.
This SPRY domain is associated with the DEAD box gene,
DDX1, an RNA-dependent ATPase involved in HIV-1 Rev
function and virus replication. It is suggested that
DDX1 acts as a cellular cofactor by promoting
oligomerization of Rev on the Rev response element
(RRE). DDX1 RNA is overexpressed in breast cancer, data
showing a strong and independent association between
poor prognosis and deregulation of the DEAD box protein
DDX1, thus potentially serving as an effective
prognostic biomarker for early recurrence in primary
breast cancer. DDX1 also interacts with RelA and
enhances nuclear factor kappaB-mediated transcription.
DEAD-box proteins are associated with all levels of RNA
metabolism and function, and have been implicated in
translation initiation, transcription, RNA splicing,
ribosome assembly, RNA transport, and RNA decay.
Length = 155
Score = 29.1 bits (66), Expect = 1.3
Identities = 23/95 (24%), Positives = 36/95 (37%), Gaps = 31/95 (32%)
Query: 87 WNPNDCSRNVYIKPNGFTLHRNPVAQSTDA-----VRGKMG-FYQGRHAWEVFWQGPLGT 140
+P D + I P+G QS + R G +G++ +EV T
Sbjct: 1 MSPYDRDAALAISPDGLL------CQSREEKGWQGCRATKGVKGKGKYYYEV-------T 47
Query: 141 V-----AVVGIATKDALLQSHGYLALIGSDSESWG 170
V VG +T+DA L +G+D +G
Sbjct: 48 VTDEGLCRVGWSTEDASL-------DLGTDKFGFG 75
>gnl|CDD|240479 cd12899, SPRY_PRY_TRIM76_like, PRY/SPRY domain in tripartite
motif-containing protein 76 (TRIM76)-like. This domain
is similar to the distinct PRY/SPRY subdomain found at
the C-terminus of TRIM76, a Class I TRIM protein. TRIM76
(also known as cardiomyopathy-associated protein 5 or
CMYA5 or myospryn or SPRYD2) is a muscle-specific member
of the TRIM superfamily, but lacks the RING domain. It
has been suggested that TRIM76 is involved in two
distinct processes, protein kinase A signaling and
vesicular trafficking.
Length = 176
Score = 29.0 bits (65), Expect = 1.8
Identities = 19/54 (35%), Positives = 30/54 (55%), Gaps = 7/54 (12%)
Query: 116 AVRGKMGFYQGRHAWEVFWQGPLGTVAVVGIATKDALLQSHGYLALIGSDSESW 169
AV G + +G+H WEV + T +G+A +D + +GYL G++S SW
Sbjct: 46 AVMGNLIPVRGKHYWEV--EVDEHTEYRIGVAFEDT--RRNGYL---GANSTSW 92
>gnl|CDD|240472 cd12892, SPRY_PRY_TRIM18, PRY/SPRY domain of TRIM18/MID1, also
known as FXY or RNF59. This domain, consisting of the
distinct N-terminal PRY subdomain followed by the SPRY
subdomain, is at the C-terminus of the overall domain
architecture of MID1 (also known as FXY, RNF59, TRIM18)
gene represented by a RING finger domain (RING), two
B-box motifs (BBOX), coiled-coil C-terminal to Bbox
domain (BBC) and fibronectin type 3 domain (FN3).
Mutations in the human MID1 gene result in X-linked
Opitz G/BBB syndrome (OS), a disorder affecting
development of midline structures, causing craniofacial,
urogenital, gastrointestinal and cardiovascular
abnormalities. A unique MID1 gene mutation located in a
variable loop in the SPRY domain alters conformation of
the binding pocket and may affect the binding affinity
to the PRY/SPRY domain.
Length = 177
Score = 28.8 bits (64), Expect = 2.4
Identities = 22/59 (37%), Positives = 28/59 (47%), Gaps = 7/59 (11%)
Query: 111 AQSTDAVRGKMGFYQGRHAWEVFWQGPLGTVAVVGIATKDALLQSHGYLALIGSDSESW 169
+Q + V G + GRH WEV G T +GIA K A H + IG +S SW
Sbjct: 40 SQGSYGVAGNVFIDSGRHYWEVVISG--STWYAIGIAYKSA--PKHEW---IGKNSASW 91
>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 = 28.4 bits (64), Expect = 2.6
Identities = 8/16 (50%), Positives = 10/16 (62%)
Query: 117 VRGKMGFYQGRHAWEV 132
V G GF G H+W+V
Sbjct: 44 VLGSEGFSSGSHSWDV 59
>gnl|CDD|218967 pfam06273, eIF-4B, Plant specific eukaryotic initiation factor 4B.
This family consists of several plant specific
eukaryotic initiation factor 4B proteins.
Length = 496
Score = 28.9 bits (64), Expect = 3.5
Identities = 21/85 (24%), Positives = 27/85 (31%), Gaps = 9/85 (10%)
Query: 122 GFYQGRHAWEVFWQGPLGT---VAVVGIATKDALLQSHGYLALIGSDSESWGWNIVDNRI 178
F QGR G G G S G DS+ WG V+
Sbjct: 171 SFDQGRQGRYPSGGGAFGGGGGGGGGGERRSGGFRDSPG-----ADDSDRWGRKKVETFG 225
Query: 179 LHNGESQGSYPQLN-NPPKWEKESG 202
GE+ P+L NP K + +
Sbjct: 226 SAFGENGEERPRLILNPRKRDVSAT 250
>gnl|CDD|181765 PRK09294, PRK09294, acyltransferase PapA5; Provisional.
Length = 416
Score = 28.5 bits (64), Expect = 3.6
Identities = 14/46 (30%), Positives = 19/46 (41%)
Query: 150 DALLQSHGYLALIGSDSESWGWNIVDNRILHNGESQGSYPQLNNPP 195
DALL++H LA GW +V + +LH G P
Sbjct: 44 DALLRAHPVLAAHLEQDSDGGWELVADDLLHPGIVVVDGDAARPLP 89
>gnl|CDD|240491 cd13733, SPRY_PRY_C-IV_1, PRY/SPRY domain in tripartite
motif-containing (TRIM) proteins, including TRIM7,
TRIM35, TRIM41, TRIM50, TRIM62, TRIM69, TRIM72, NF7 and
bloodthirsty (bty). 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 TRIM7, TRIM35, TRIM41,
TRIM50, TRIM62, TRIM69, TRIM72, TRIM protein NF7 and
bloodthirsty (bty). TRIM7 interacts with glycogenin and
stimulates its self-glucosylating activity via its SPRY
domain. TRIM35 may play a role as a tumor suppressor and
is implicated in the cell death mechanism. TRIM41 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.
TRIM50, an E3 ubiquitin ligase, is deleted in
Williams-Beuren (WBS) syndrome, a multi-system
neurodevelopmental disorder caused by the deletion of
contiguous genes at chromosome region 7q11.23. TRIM62 is
involved in the morphogenesis of the mammary gland; loss
of TRIM62 gene expression in breast is associated with
increased risk of recurrence in early-onset breast
cancer. 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. TRIM72 has been shown
to perform a critical function in membrane repair
following acute muscle injury by nucleating the assembly
of the repair machinery at injury sites.
Length = 176
Score = 27.8 bits (62), Expect = 4.1
Identities = 11/20 (55%), Positives = 11/20 (55%)
Query: 113 STDAVRGKMGFYQGRHAWEV 132
S V G GF GRH WEV
Sbjct: 40 SAVCVLGSRGFSSGRHYWEV 59
>gnl|CDD|240476 cd12896, SPRY_PRY_TRIM65, PRY/SPRY domain in tripartite
motif-containing domain 65 (TRIM65). This domain,
consisting of the distinct N-terminal PRY subdomain
followed by the SPRY subdomain, is found at the
C-terminus of TRIM65 proteins (composed of
RING/B-box/coiled-coil core and also known as RBCC
proteins). The SPRY/PRY combination is a possible
component of immune defense. This protein family has not
been characterized.
Length = 182
Score = 27.8 bits (62), Expect = 4.4
Identities = 18/68 (26%), Positives = 25/68 (36%), Gaps = 8/68 (11%)
Query: 122 GFYQGRHAWEVFWQGPLGTVAVVGIATKDALLQSH--GYLALIGSDSESWGWNIVDNRIL 179
F G H WEV + V + L + IG + SWG + ++
Sbjct: 59 SFSSGHHYWEVELSDHSVVLGV----AYETLPRKKKGRKKNNIGRNPLSWGLQVQEDCYS 114
Query: 180 --HNGESQ 185
HNGE Q
Sbjct: 115 AWHNGEEQ 122
>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 = 27.9 bits (63), Expect = 4.4
Identities = 10/16 (62%), Positives = 10/16 (62%)
Query: 117 VRGKMGFYQGRHAWEV 132
V G GF GRH WEV
Sbjct: 44 VLGSEGFTSGRHYWEV 59
>gnl|CDD|206668 cd01881, Obg_like, Obg-like family of GTPases consist of five
subfamilies: Obg, DRG, YyaF/YchF, Ygr210, and NOG1.
The Obg-like subfamily consists of five well-delimited,
ancient subfamilies, namely Obg, DRG, YyaF/YchF,
Ygr210, and NOG1. Four of these groups (Obg, DRG,
YyaF/YchF, and Ygr210) are characterized by a distinct
glycine-rich motif immediately following the Walker B
motif (G3 box). Obg/CgtA is an essential gene that is
involved in the initiation of sporulation and DNA
replication in the bacteria Caulobacter and Bacillus,
but its exact molecular role is unknown. Furthermore,
several OBG family members possess a C-terminal
RNA-binding domain, the TGS domain, which is also
present in threonyl-tRNA synthetase and in bacterial
guanosine polyphosphatase SpoT. Nog1 is a nucleolar
protein that might function in ribosome assembly. The
DRG and Nog1 subfamilies are ubiquitous in archaea and
eukaryotes, the Ygr210 subfamily is present in archaea
and fungi, and the Obg and YyaF/YchF subfamilies are
ubiquitous in bacteria and eukaryotes. The Obg/Nog1 and
DRG subfamilies appear to form one major branch of the
Obg family and the Ygr210 and YchF subfamilies form
another branch. No GEFs, GAPs, or GDIs for Obg have
been identified.
Length = 167
Score = 27.7 bits (62), Expect = 4.5
Identities = 13/29 (44%), Positives = 20/29 (68%), Gaps = 1/29 (3%)
Query: 63 NVIKSDLLSSLSTYKAKLRAY-FHSWNPN 90
NV KS LLS+L++ K ++ +Y F + PN
Sbjct: 7 NVGKSTLLSALTSAKVEIASYPFTTLEPN 35
>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 = 27.3 bits (61), Expect = 5.8
Identities = 11/16 (68%), Positives = 11/16 (68%)
Query: 117 VRGKMGFYQGRHAWEV 132
V GK GF GRH WEV
Sbjct: 46 VLGKEGFTSGRHYWEV 61
>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 = 27.0 bits (59), Expect = 8.2
Identities = 13/26 (50%), Positives = 14/26 (53%), Gaps = 1/26 (3%)
Query: 108 NPVAQSTD-AVRGKMGFYQGRHAWEV 132
+P S D V G GF GRH WEV
Sbjct: 34 HPKRFSADCCVLGAQGFRSGRHYWEV 59
>gnl|CDD|224818 COG1906, COG1906, Uncharacterized conserved protein [Function
unknown].
Length = 388
Score = 27.5 bits (61), Expect = 8.3
Identities = 12/26 (46%), Positives = 16/26 (61%), Gaps = 3/26 (11%)
Query: 124 YQGRHAWEVFW---QGPLGTVAVVGI 146
Y RH WE+FW Q + T AV+G+
Sbjct: 139 YWFRHIWELFWPLYQAVVITSAVLGV 164
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 0.445
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: 13,690,799
Number of extensions: 1224235
Number of successful extensions: 936
Number of sequences better than 10.0: 1
Number of HSP's gapped: 927
Number of HSP's successfully gapped: 40
Length of query: 271
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 176
Effective length of database: 6,723,972
Effective search space: 1183419072
Effective search space used: 1183419072
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)