RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11633
(127 letters)
>gnl|CDD|199822 cd10497, MH2_SMAD_1_5_9, C-terminal Mad Homology 2 (MH2) domain in
SMAD1, SMAD5 and SMAD9. The MH2 domain is located at
the C-terminus of the SMAD (small mothers against
decapentaplegic) family of proteins, which are signal
transducers and transcriptional modulators that mediate
multiple signaling pathways. The MH2 domain is
responsible for type I receptor interaction,
phosphorylation-triggered homo- and
hetero-oligomerization, and transactivation. It is
negatively regulated by the N-terminal MH1 domain, which
prevents it from forming a complex with SMAD4. SMAD1,
SMAD5 and SMAD9 (also known as SMAD8), are receptor
regulated SMADs (R-SMADs). SMAD1 plays an essential role
in bone development and postnatal bone formation through
activation by bone morphogenetic protein (BMP) type 1
receptor kinase. SMAD5 is involved in BMP signal
modulation and may also play a role in the pathway
involving inhibition of hematopoietic progenitor cells
by TGF-beta. SMAD9 mediates the differentiation of
mesenchymal stem cells (MSCs) into tendon-like cells by
inhibiting the osteogenic pathway.
Length = 201
Score = 128 bits (323), Expect = 1e-38
Identities = 51/53 (96%), Positives = 51/53 (96%)
Query: 75 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct: 149 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 201
>gnl|CDD|199820 cd10495, MH2_R-SMAD, C-terminal Mad Homology 2 (MH2) domain in
receptor regulated SMADs. The MH2 domain is located at
the C-terminus of the SMAD (small mothers against
decapentaplegic) family of proteins, which are signal
transducers and transcriptional modulators that mediate
multiple signaling pathways. The MH2 domain is
responsible for type I receptor interaction,
phosphorylation-triggered homo- and
hetero-oligomerization, and transactivation. It is
negatively regulated by the N-terminal MH1 domain.
Receptor regulated SMADs (R-SMADs) include SMAD1, SMAD2,
SMAD3, SMAD5 and SMAD9. SMAD1 plays an essential role in
bone development and postnatal bone formation through
activation by bone morphogenetic protein (BMP) type 1
receptor kinase. SMAD2 regulates multiple cellular
processes, such as cell proliferation, apoptosis and
differentiation, while SMAD3 modulates signals of
activin and TGF-beta. SMAD5 is involved in BMP signal
modulation, possibly playing a role in the pathway
involving inhibition of hematopoietic progenitor cells
by TGF-beta. SMAD9 (also known as SMAD8) can mediate the
differentiation of mesenchymal stem cells into
tendon-like cells by inhibiting the osteogenic pathway.
Length = 182
Score = 102 bits (256), Expect = 1e-28
Identities = 38/39 (97%), Positives = 39/39 (100%)
Query: 75 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL 113
R+SFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL
Sbjct: 143 RISFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL 181
>gnl|CDD|199826 cd10985, MH2_SMAD_2_3, C-terminal Mad Homology 2 (MH2) domain in
SMAD2 and SMAD3. The MH2 domain is located at the
C-terminus of the SMAD (small mothers against
decapentaplegic) family of proteins, which are signal
transducers and transcriptional modulators that mediate
multiple signaling pathways. The MH2 domain is
responsible for type I receptor interaction,
phosphorylation-triggered homo- and
hetero-oligomerization, and transactivation. It is
negatively regulated by the N-terminal MH1 domain. SMAD2
and SMAD3 are receptor regulated SMADs (R-SMADs). SMAD2
regulates multiple cellular processes, such as cell
proliferation, apoptosis and differentiation, while
SMAD3 modulates signals of activin and TGF-beta.
Length = 191
Score = 93.5 bits (232), Expect = 5e-25
Identities = 36/42 (85%), Positives = 39/42 (92%)
Query: 75 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQM 116
RMSFVKGWGAEY RQ VTSTPCWIE+HL+GPLQWLD+VL QM
Sbjct: 150 RMSFVKGWGAEYRRQTVTSTPCWIELHLNGPLQWLDRVLTQM 191
>gnl|CDD|199823 cd10498, MH2_SMAD_4, C-terminal Mad Homology 2 (MH2) domain in
SMAD4. The MH2 domain is located at the C-terminus of
the SMAD (small mothers against decapentaplegic) family
of proteins, which are signal transducers and
transcriptional modulators that mediate multiple
signaling pathways. The MH2 domain is responsible for
type I receptor interaction, phosphorylation-triggered
homo- and hetero-oligomerization, and transactivation.
It is negatively regulated by the N-terminal MH1 domain.
SMAD4, which belongs to the Dwarfin family of proteins,
is involved in many cell functions such as
differentiation, apoptosis, gastrulation, embryonic
development and the cell cycle. SMAD4 binds receptor
regulated SMADs (R-SMADs) such as SMAD1 or SMAD2, and
forms an oligomeric complex that binds to DNA and serves
as a transcription factor. SMAD4 is often mutated in
several cancers, such as multiploid colorectal cancer,
cervical cancer and pancreatic carcinoma, as well as in
juvenile polyposis syndrome.
Length = 222
Score = 77.1 bits (190), Expect = 2e-18
Identities = 29/41 (70%), Positives = 32/41 (78%)
Query: 73 ISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL 113
I RMSFVKGWG +Y RQ + TPCWIEIHLH LQ LD+VL
Sbjct: 181 ILRMSFVKGWGPDYPRQSIKETPCWIEIHLHRALQLLDEVL 221
>gnl|CDD|217398 pfam03166, MH2, MH2 domain. This is the MH2 (MAD homology 2)
domain found at the carboxy terminus of MAD related
proteins such as Smads. This domain is separated from
the MH1 domain by a non-conserved linker region. The MH2
domain mediates interaction with a wide variety of
proteins and provides specificity and selectivity to
Smad function and also is critical for mediating
interactions in Smad oligomers. Unlike MH1, MH2 does not
bind DNA. The well-studied MH2 domain of Smad4 is
composed of five alpha helices and three loops enclosing
a beta sandwich. Smads are involved in the propagation
of TGF-beta signals by direct association with the
TGF-beta receptor kinase which phosphorylates the last
two Ser of a conserved 'SSXS' motif located at the
C-terminus of MH2.
Length = 179
Score = 74.7 bits (184), Expect = 5e-18
Identities = 23/31 (74%), Positives = 28/31 (90%)
Query: 75 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGP 105
R+SFVKGWG +Y RQD+TSTPCWIE+HL+ P
Sbjct: 149 RISFVKGWGEDYPRQDITSTPCWIEVHLNRP 179
>gnl|CDD|199819 cd00050, MH2, C-terminal Mad Homology 2 (MH2) domain. The MH2
domain is found in the SMAD (small mothers against
decapentaplegic) family of proteins and is responsible
for type I receptor interactions,
phosphorylation-triggered homo- and
hetero-oligomerization, and transactivation. It is
negatively regulated by the N-terminal MH1 domain which
prevents it from forming a complex with SMAD4. The MH2
domain is multifunctional and provides SMADs with their
specificity and selectivity, as well as transcriptional
activity. Several transcriptional co-activators and
repressors have also been reported to regulate SMAD
signaling by interacting with the MH2 domain. Mutations
in the MH2 domains of SMAD2 and especially SMAD4 have
been detected in colorectal and other human cancers.
Length = 170
Score = 73.4 bits (180), Expect = 1e-17
Identities = 27/29 (93%), Positives = 28/29 (96%)
Query: 75 RMSFVKGWGAEYHRQDVTSTPCWIEIHLH 103
RMSFVKGWG EYHRQD+TSTPCWIEIHLH
Sbjct: 142 RMSFVKGWGPEYHRQDITSTPCWIEIHLH 170
>gnl|CDD|197770 smart00524, DWB, Domain B in dwarfin family proteins.
Length = 171
Score = 70.8 bits (174), Expect = 2e-16
Identities = 21/31 (67%), Positives = 26/31 (83%)
Query: 73 ISRMSFVKGWGAEYHRQDVTSTPCWIEIHLH 103
R+SFVKGWG +Y RQ +TSTPCWIE+HL+
Sbjct: 141 TIRISFVKGWGPDYSRQTITSTPCWIEVHLN 171
>gnl|CDD|199821 cd10496, MH2_I-SMAD, C-terminal Mad Homology 2 (MH2) domain in
Inhibitory SMADs. The MH2 domain is located at the
C-terminus of the SMAD (small mothers against
decapentaplegic) family of proteins, which are signal
transducers and transcriptional modulators that mediate
multiple signaling pathways. The MH2 domain is
responsible for type I receptor interaction,
phosphorylation-triggered homo- and
hetero-oligomerization, and transactivation. It is
negatively regulated by the N-terminal MH1 domain, which
prevents it from forming a complex with SMAD4. SMAD6 and
SMAD7 are inhibitory SMADs (I-SMADs) that function as
negative regulators of signaling mediated by the
TGF-beta superfamily. SMAD6 specifically inhibits bone
morphogenetic protein (BMP) type I receptor mediated
signaling, while SMAD7 enhances muscle differentiation
and is often associated with cancer, tissue fibrosis and
inflammatory diseases.
Length = 165
Score = 56.2 bits (136), Expect = 5e-11
Identities = 19/28 (67%), Positives = 22/28 (78%)
Query: 75 RMSFVKGWGAEYHRQDVTSTPCWIEIHL 102
R+SFVKGWG Y RQ +TS PCW+EI L
Sbjct: 137 RISFVKGWGPNYSRQFITSCPCWLEILL 164
>gnl|CDD|199824 cd10499, MH2_SMAD_6, C-terminal Mad Homology 2 (MH2) domain in
SMAD6. The MH2 domain is located at the C-terminus of
the SMAD (small mothers against decapentaplegic) family
of proteins, which are signal transducers and
transcriptional modulators that mediate multiple
signaling pathways. The MH2 domain is responsible for
type I receptor interaction, phosphorylation-triggered
homo- and hetero-oligomerization, and transactivation.
It is negatively regulated by the N-terminal MH1 domain,
which prevents it from forming a complex with SMAD4.
SMAD6, an inhibitory or antagonistic SMAD (I-SMAD), acts
as a negative regulator of signaling mediated by the
TGF-beta superfamily of ligands, by competing with SMAD4
and preventing the transcription of SMAD4's gene
products. SMAD6 specifically inhibits bone morphogenetic
protein (BMP) type I receptor mediated signaling. SMAD6
and SMAD7 act as critical mediators for effective
TGF-beta I-mediated suppression of
Interleukin-1/Toll-like receptor (IL-1R/TLR) signaling
through simultaneous binding to Pellino-1, an adaptor
protein of interleukin-1 receptor associated kinase 1
(IRAK1), via their MH2 domains.
Length = 174
Score = 47.9 bits (114), Expect = 8e-08
Identities = 18/28 (64%), Positives = 21/28 (75%)
Query: 75 RMSFVKGWGAEYHRQDVTSTPCWIEIHL 102
R+SF KGWG Y RQ +TS PCW+EI L
Sbjct: 145 RISFAKGWGPCYSRQFITSCPCWLEILL 172
>gnl|CDD|199825 cd10500, MH2_SMAD_7, C-terminal Mad Homology 2 (MH2) domain in
SMAD7. The MH2 domain is located at the C-terminus of
the SMAD (small mothers against decapentaplegic) family
of proteins, which are signal transducers and
transcriptional modulators that mediate multiple
signaling pathways. The MH2 domain is responsible for
type I receptor interaction, phosphorylation-triggered
homo- and hetero-oligomerization, and transactivation.
It is negatively regulated by the N-terminal MH1 domain,
which prevents it from forming a complex with SMAD4.
SMAD7, an inhibitory or antagonistic SMAD (I-SMAD), acts
as a negative regulator of signaling mediated by the
TGF-beta superfamily of ligands, by blocking TGF-beta
type 1 and activin association with the receptor as well
as access to SMAD2. SMAD7 enhances muscle
differentiation, playing pivotal roles in embryonic
development and adult homoeostasis. SMAD7 and SMAD6 act
as critical mediators for effective TGF-beta I-mediated
suppression of Interleukin-1/Toll-like receptor
(IL-1R/TLR) signaling through simultaneous binding to
Pellino-1, an adaptor protein of interleukin-1 receptor
associated kinase 1(IRAK1), via their MH2 domains.
Altered expression of SMAD7 is often associated with
cancer, tissue fibrosis and inflammatory diseases.
Length = 171
Score = 40.8 bits (95), Expect = 4e-05
Identities = 15/26 (57%), Positives = 21/26 (80%)
Query: 75 RMSFVKGWGAEYHRQDVTSTPCWIEI 100
++SFVKGWG Y RQ ++S PCW+E+
Sbjct: 143 QISFVKGWGQCYTRQFISSCPCWLEV 168
>gnl|CDD|221834 pfam12891, Glyco_hydro_44, Glycoside hydrolase family 44. This is
a family of bacterial glycoside hydrolases formerly
known as cellulase family J, and now known as Cel44A. It
is one of the major enzymatic components of the
cellulosome of Clostridium thermocellum strain F1 and of
many other Firmicutes.
Length = 236
Score = 29.3 bits (66), Expect = 0.39
Identities = 15/36 (41%), Positives = 18/36 (50%), Gaps = 3/36 (8%)
Query: 81 GWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQM 116
GW A ++ QD P W + HG WLD L QM
Sbjct: 180 GWCAYFNSQD---APDWSDRKAHGNYPWLDYYLDQM 212
>gnl|CDD|185337 PRK15440, PRK15440, L-rhamnonate dehydratase; Provisional.
Length = 394
Score = 28.2 bits (63), Expect = 1.1
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 3/32 (9%)
Query: 75 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPL 106
R FV G GA+YH Q WI+ H+ P+
Sbjct: 10 RAWFVGGGGADYHDQGANH---WIDDHIATPM 38
>gnl|CDD|184188 PRK13626, PRK13626, transcriptional regulator SgrR; Provisional.
Length = 552
Score = 27.7 bits (62), Expect = 2.0
Identities = 14/38 (36%), Positives = 19/38 (50%), Gaps = 4/38 (10%)
Query: 87 HRQDVTS-TPCWIEIHLHGPLQWLDKVLIQMGSPHQPI 123
H + S TP ++IHL P +WL +L GS I
Sbjct: 216 HIAKIVSPTPWTLDIHLSQPDRWLPWLL---GSVPAMI 250
>gnl|CDD|130849 TIGR01789, lycopene_cycl, lycopene cyclase. This model represents
a family of bacterial lycopene cyclases catalyzing the
transformation of lycopene to carotene. These enzymes
are found in a limited spectrum of alpha and gamma
proteobacteria as well as Flavobacterium.
Length = 370
Score = 26.0 bits (57), Expect = 6.0
Identities = 16/60 (26%), Positives = 22/60 (36%), Gaps = 3/60 (5%)
Query: 69 YFVLISRMSFVKGWGAEYHR--QDVTSTP-CWIEIHLHGPLQWLDKVLIQMGSPHQPISS 125
Y+ L++RM F + R Q IE DK+ + G P PI S
Sbjct: 309 YYRLLNRMLFFAAKPEKRVRVFQRFYGLREGLIERFYAARSNTFDKLRVLWGKPPVPIHS 368
>gnl|CDD|233208 TIGR00956, 3a01205, Pleiotropic Drug Resistance (PDR) Family protein.
[Transport and binding proteins, Other].
Length = 1394
Score = 26.2 bits (58), Expect = 7.0
Identities = 18/78 (23%), Positives = 28/78 (35%), Gaps = 22/78 (28%)
Query: 1 MKYLVIIPLSSSYVQLFISLI-------QPSNIFQQLSF-FTQRPIFCIRNKCNRTEIPF 52
M ++ PL Y+ F++ +PS F L+F Q I EIP+
Sbjct: 1135 MATVLFNPLIQQYLPPFVAQRDLYEVRERPSRTFSWLAFIAAQ--ITV--------EIPY 1184
Query: 53 AVKVPRQFSLSVIILWYF 70
+ F WY+
Sbjct: 1185 NLVAGTIFFFI----WYY 1198
>gnl|CDD|178745 PLN03206, PLN03206, phosphoribosylformylglycinamidine synthase;
Provisional.
Length = 1307
Score = 25.9 bits (57), Expect = 7.7
Identities = 8/15 (53%), Positives = 11/15 (73%)
Query: 76 MSFVKGWGAEYHRQD 90
+S ++ WGAEY QD
Sbjct: 532 LSVLEIWGAEYQEQD 546
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
0.329 0.140 0.456
Gapped
Lambda K H
0.267 0.0730 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,288,966
Number of extensions: 528317
Number of successful extensions: 552
Number of sequences better than 10.0: 1
Number of HSP's gapped: 552
Number of HSP's successfully gapped: 24
Length of query: 127
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 42
Effective length of database: 7,167,512
Effective search space: 301035504
Effective search space used: 301035504
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 (21.8 bits)
S2: 53 (24.2 bits)