RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2001
(202 letters)
>gnl|CDD|188976 cd09577, SAM_Ph1,2,3, SAM domain of Ph (polyhomeotic) proteins of
Polycomb group. SAM (sterile alpha motif) domain of Ph
(polyhomeotic) proteins of Polycomb group is a
protein-protein interaction domain. Ph1,2,3 proteins are
members of PRC1 complex. This complex is involved in
transcriptional repression of Hox (Homeobox) cluster
genes. It is recruited through methylated H3Lys27 and
supports the repression state by mediating
monoubiquitination of histone H2A. Proteins of the
Ph1,2,3 subfamily contribute to anterior-posterior
neural tissue specification during embryogenesis.
Additionally, the P2 protein of zebrafish is known to be
involved in epiboly and tailbud formation. SAM domains
of Ph proteins may interact with each other, forming
homooligomers, as well as with SAM domains of other
proteins, in particular with the SAM domain of Scm (sex
comb on midleg) proteins, forming heterooligomers.
Homooligomers are similar to the ones formed by SAM
Pointed domains of the TEL proteins. Such SAM/SAM
oligomers apparently play a role in transcriptional
repression through polymerization along the chromosome.
Length = 69
Score = 126 bits (319), Expect = 2e-38
Identities = 43/69 (62%), Positives = 58/69 (84%)
Query: 119 PNPLKWTVTEVCDFIRNLPGCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLGPALKI 178
NP KW+V +V +FIR+LPGC++Y E+F QEIDGQAL+LL+ HLM AM++KLGPALKI
Sbjct: 1 SNPSKWSVEDVYEFIRSLPGCSDYAEEFRAQEIDGQALLLLKEDHLMSAMNIKLGPALKI 60
Query: 179 VAKIDSMRQ 187
AKI+S+++
Sbjct: 61 CAKINSLKE 69
>gnl|CDD|188908 cd09509, SAM_Polycomb, SAM domain of Polycomb group. SAM (sterile
alpha motif) domain of Polycomb group is a
protein-protein interaction domain. The Polycomb group
includes transcriptional repressors which are involved
in the regulation of some key regulatory genes during
development in many organisms. They are best known for
silencing Hox (Homeobox) genes. Polycomb proteins work
together in large multimeric and chromatin-associated
complexes. They organize chromatin of the target genes
and maintain repressed states during many cell
divisions. Polycomb proteins are classified based on
their common function, but not on conserved domains
and/or motifs; however many Polycomb proteins (members
of PRC1 class complex) contain SAM domains which are
more similar to each other inside of the Polycomb group
than to SAM domains outside of it. Most information
about structure and function of Polycomb SAM domains
comes from studies of Ph (Polyhomeotic) and Scm (Sex
comb on midleg) proteins. Polycomb SAM domains usually
can be found at the C-terminus of the proteins. Some
members of this group contain, in addition to the SAM
domain, MTB repeats, Zn finger, and/or DUF3588 domains.
Polycomb SAM domains can form homo- and/or
heterooligomers through ML and EH surfaces. SAM/SAM
oligomers apparently play a role in transcriptional
repression through polymerization along the chromosome.
Polycomb proteins are known to be highly expressed in
some cells years before their cancer pathology; thus
they are attractive markers for early cancer therapy.
Length = 64
Score = 108 bits (272), Expect = 2e-31
Identities = 36/64 (56%), Positives = 44/64 (68%)
Query: 121 PLKWTVTEVCDFIRNLPGCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLGPALKIVA 180
P KW+V +V FI++L GCAEY E F QEIDGQAL+LL L++ M +KLGPALKI
Sbjct: 1 PSKWSVDDVAQFIKSLDGCAEYAEVFREQEIDGQALLLLTEDDLLKGMGLKLGPALKIYN 60
Query: 181 KIDS 184
I
Sbjct: 61 HIVK 64
>gnl|CDD|188978 cd09579, SAM_Samd7,11, SAM domain of Samd7,11 subfamily of Polycomb
group. SAM (sterile alpha motif) domain is a
protein-protein interaction domain. Phylogenetic
analysis suggests that proteins of this subfamily are
most closely related to SAM-Ph1,2,3 subfamily of
Polycomb group. They are predicted transcriptional
repressors in photoreceptor cells and pinealocytes of
vertebrates. SAM domain containing protein 11 is also
known as Mr-s (major retinal SAM) protein. In mouse, it
is predominantly expressed in developing retinal
photoreceptors and in adult pineal gland. The SAM domain
is involved in homooligomerization of whole proteins (it
was shown based on immunoprecipitation assay and
mutagenesis), however its repression activity is not due
to SAM/SAM interactions but to the C-terminal region.
Length = 68
Score = 89.0 bits (221), Expect = 8e-24
Identities = 33/61 (54%), Positives = 43/61 (70%)
Query: 122 LKWTVTEVCDFIRNLPGCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLGPALKIVAK 181
KWTV +VC FI +LPGCAEY + F IDG+ L LL +HL+ M +KLGPALKI ++
Sbjct: 2 RKWTVDDVCSFIGSLPGCAEYAQVFREHSIDGETLPLLTEEHLLNTMGLKLGPALKIRSQ 61
Query: 182 I 182
+
Sbjct: 62 V 62
>gnl|CDD|188981 cd09582, SAM_Scm-like-3MBT3,4, SAM domain of Scm-like-3MBT3,4
proteins of Polycomb group. SAM (sterile alpha motif)
domain of Scm-like-3MBT3,4 (Sex comb on midleg,
Malignant brain tumor) subfamily proteins (also known as
L3mbtl3,4 proteins) is a putative protein-protein
interaction domain. Proteins of this subfamily are
predicted transcriptional regulators belonging to
Polycomb group. The majority of them are multidomain
proteins: in addition to the C-terminal SAM domain, they
contain three MBT repeats and Zn finger domain. Murine
L3mbtl3 protein of this subfamily is essential for
maturation of myeloid progenitor cells during
differentiation. Human L3mbtl4 is a potential tumor
suppressor gene in breast cancer, while deregulation of
L3MBTL3 is associated with neuroblastoma.
Length = 66
Score = 73.5 bits (181), Expect = 8e-18
Identities = 28/62 (45%), Positives = 44/62 (70%)
Query: 121 PLKWTVTEVCDFIRNLPGCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLGPALKIVA 180
L+W+V EV +F+++LPGC E+ + F ++IDG+A +LL L++ + +KLGPALKI
Sbjct: 1 VLRWSVDEVAEFVQSLPGCEEHAKVFRDEQIDGEAFLLLTQSDLVKILGIKLGPALKIYN 60
Query: 181 KI 182
I
Sbjct: 61 SI 62
>gnl|CDD|188980 cd09581, SAM_Scm-like-4MBT1,2, SAM domain of Scm-like-4MBT1,2
proteins of Polycomb group. SAM (sterile alpha motif)
domain of Scm-like-4MBT1,2 (Sex comb on midleg,
Malignant Brain Tumor) subfamily proteins (also known as
Sfmbt1,2 proteins) is a putative protein-protein
interaction domain. Proteins of this subfamily are
transcriptional regulators belonging to Polycomb group.
The majority of them are multidomain proteins: in
addition to the C-terminal SAM domain, they contain four
MBT repeats and DUF5388 domain. The MBT repeats of the
human sfmbt1 protein are responsible for association
with the nuclear matrix and for selective binding of H3
histone N-terminal tails, while the exact function of
the SAM domain is unclear.
Length = 85
Score = 67.5 bits (165), Expect = 3e-15
Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 1/69 (1%)
Query: 120 NPLKWTVTEVCDFIRNLPGCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLGPALKIV 179
NPL W+V +V FI++ CA + F QEIDGQAL+LL + E M +KLGPA+K+
Sbjct: 11 NPLFWSVDDVVRFIKS-TDCAPLAKIFKDQEIDGQALLLLTLPTVQECMELKLGPAIKLC 69
Query: 180 AKIDSMRQA 188
I+ ++ A
Sbjct: 70 HHIERVKVA 78
>gnl|CDD|188977 cd09578, SAM_Scm, SAM domain of Scm proteins of Polycomb group.
SAM (sterile alpha motif) domain of Scm (Sex comb on
midleg) subfamily of Polycomb group is a protein-protein
interaction domain. Proteins of this subfamily are
transcriptional repressors associated with PRC1 complex.
This group includes invertebrate Scm protein and
chordate Scm homolog 1 and Scm-like 1, 2, 3 proteins.
Most have a SAM domain, two MBT repeats, and a DUF3588
domain, except Scm-like 4 proteins which do not have MBT
repeats. Originally the Scm protein was described in
Drosophila as a regulator required for proper spatial
expression of homeotic genes. It plays a major role
during early embryogenesis. SAM domains of Scm proteins
can interact with each other, forming homooligomers, as
well as with SAM domains of other proteins, in
particular with SAM domains of Ph (polyhomeotic)
proteins, forming heterooligomers. Homooligomers are
similar to the ones formed by SAM Pointed domains of the
TEL proteins. Such SAM/SAM oligomers apparently play a
role in transcriptional repression through
polymerization along the chromosome. Mammalian Scmh1
protein is known be indispensible member of PRC1
complex; it plays a regulatory role for the complex
during meiotic prophase of male sperm cells, and is
particularly involved in regulation of chromatin
modification at the XY chromatin domain of the pachytene
spermatocytes.
Length = 72
Score = 65.1 bits (159), Expect = 1e-14
Identities = 29/70 (41%), Positives = 44/70 (62%), Gaps = 2/70 (2%)
Query: 120 NPLKWTVTEVCDFIRNL--PGCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLGPALK 177
+P W+V +V FI+ A +V+ F EIDG+AL+LL + +M+ M +KLGPALK
Sbjct: 3 DPSTWSVEDVVQFIKEADPQALAPHVDLFRKHEIDGKALLLLNSDMMMKYMGLKLGPALK 62
Query: 178 IVAKIDSMRQ 187
+ ID ++Q
Sbjct: 63 LCYHIDKLKQ 72
>gnl|CDD|188982 cd09583, SAM_Atherin-like, SAM domain of Atherin/Atherin-like
subfamily. SAM (sterile alpha motif) domain of
SAM_Atherin and Atherin-like subfamily proteins is a
putative protein-protein and/or protein-lipid
interaction domain. In addition to the C-terminal SAM
domain, the majority of proteins belonging to this group
also have PHD (or Zn finger) domain. As potential
members of the polycomb group, these proteins may be
involved in regulation of some key regulatory genes
during development. Atherin can be recruited by
Ruk/CIN85 kinase-binding proteins via its SH3 domains
thus participating in the signal transferring kinase
cascades. Also, atherin was found associated with low
density lipids (LDL) in atherosclerotic lesions in
human. It was suggested that atherin plays an essential
role in atherogenesis via immobilization of LDL in the
arterial wall. SAM domains of atherins are predicted to
form polymers. Inhibition of polymer formation could be
a potential antiatherosclerotic therapy.
Length = 69
Score = 59.2 bits (144), Expect = 3e-12
Identities = 25/67 (37%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 121 PLKWTVTEVCDFIRNLPGCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLGPALKIVA 180
P W+V +V + + G E F QEIDG++L+LL ++ +S+KLGPALKI
Sbjct: 1 PSNWSVEDVVQYFKTA-GFPEEANAFKEQEIDGKSLLLLTRSDVLTGLSLKLGPALKIYE 59
Query: 181 KIDSMRQ 187
+ ++Q
Sbjct: 60 HVVKLQQ 66
>gnl|CDD|215981 pfam00536, SAM_1, SAM domain (Sterile alpha motif). It has been
suggested that SAM is an evolutionarily conserved
protein binding domain that is involved in the
regulation of numerous developmental processes in
diverse eukaryotes. The SAM domain can potentially
function as a protein interaction module through its
ability to homo- and heterooligomerise with other SAM
domains.
Length = 62
Score = 56.9 bits (138), Expect = 2e-11
Identities = 18/63 (28%), Positives = 36/63 (57%), Gaps = 1/63 (1%)
Query: 124 WTVTEVCDFIRNLPGCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLGPALKIVAKID 183
W+V +V +++ ++ G +Y ++F IDG AL+LL + L++ G KI++ I
Sbjct: 1 WSVEDVGEWLESI-GLGQYADNFRAGYIDGDALLLLTEEDLLKLGVTLPGHRKKILSSIQ 59
Query: 184 SMR 186
++
Sbjct: 60 GLK 62
>gnl|CDD|197735 smart00454, SAM, Sterile alpha motif. Widespread domain in
signalling and nuclear proteins. In EPH-related tyrosine
kinases, appears to mediate cell-cell initiated signal
transduction via the binding of SH2-containing proteins
to a conserved tyrosine that is phosphorylated. In many
cases mediates homodimerisation.
Length = 68
Score = 55.4 bits (134), Expect = 9e-11
Identities = 18/68 (26%), Positives = 38/68 (55%), Gaps = 2/68 (2%)
Query: 121 PLKWTVTEVCDFIRNLPGCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSM-KLGPALKIV 179
+W+ V D++ ++ G +Y ++F IDG L+LL ++ ++ + + KLG KI+
Sbjct: 1 VSQWSPESVADWLESI-GLEQYADNFRKNGIDGALLLLLTSEEDLKELGITKLGHRKKIL 59
Query: 180 AKIDSMRQ 187
I +++
Sbjct: 60 KAIQKLKE 67
>gnl|CDD|188979 cd09580, SAM_Scm-like-4MBT, SAM domain of Scm-like-4MBT proteins of
Polycomb group. SAM (sterile alpha motif) domain of
Scm-like-4MBT (Sex comb on midleg like, Malignant Brain
Tumor) subfamily proteins of the polycomb group is a
putative protein-protein interaction domain.
Additionally to the SAM domain, most of the proteins of
this subfamily have 4 MBT repeats. In Drosophila
SAM-Scm-like-4MBT protein (known as dSfmbt) is a member
of Pho repressive complex (PhoRC). Additionally to
dSfmbt, the PhoRC complex includes Pho or Pho-like
proteins. This complex is responsible for HOX (Homeobox)
gene silencing: Pho or Pho-like proteins bind DNA and
dSmbt binds methylated histones. dSmbt can interact with
mono- and di-methylated histones H3 and H4 (however this
activity has been shown for the MBT repeats, while exact
function of the SAM domain is unclear). Besides
interaction with histones, dSmbt can interact with Scm
(a member of PRC complex), but this interaction also
seems to be SAM domain independent.
Length = 67
Score = 54.3 bits (131), Expect = 2e-10
Identities = 25/66 (37%), Positives = 35/66 (53%), Gaps = 1/66 (1%)
Query: 121 PLKWTVTEVCDFIRNLPGCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLGPALKIVA 180
P W V +V F+R C Y E F Q IDG+ L+ L + +M MK+GP+LKI
Sbjct: 1 PSTWGVKDVSQFLR-ENDCGAYCECFCRQNIDGKRLLSLTKEQIMTLTGMKVGPSLKIYD 59
Query: 181 KIDSMR 186
I ++
Sbjct: 60 LIQQLK 65
>gnl|CDD|188933 cd09534, SAM_Ste11_fungal, SAM domain of Ste11_fungal subfamily.
SAM (sterile alpha motif) domain of Ste11 subfamily is a
protein-protein interaction domain. Proteins of this
subfamily have SAM domain at the N-terminus and protein
kinase domain at the C-terminus. They participate in
regulation of mating pheromone response, invasive growth
and high osmolarity growth response. MAP triple kinase
Ste11 from S.cerevisia is known to interact with Ste20
kinase and Ste50 regulator. These kinases are able to
form homodimers interacting through their SAM domains as
well as heterodimers or heterogenous complexes when
either SAM domain of monomeric or homodimeric form of
Ste11 interacts with Ste50 regulator.
Length = 62
Score = 47.2 bits (113), Expect = 8e-08
Identities = 17/63 (26%), Positives = 31/63 (49%), Gaps = 1/63 (1%)
Query: 124 WTVTEVCDFIRNLPGCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLGPALKIVAKID 183
W V +++ L C +Y++ F I G L+ L + L E K+G ++++ I
Sbjct: 1 WDEEFVEEWLNEL-NCGQYLDIFEKNLITGDLLLELDKEALKELGITKVGDRIRLLRAIK 59
Query: 184 SMR 186
S+R
Sbjct: 60 SLR 62
>gnl|CDD|188904 cd09505, SAM_WDSUB1, SAM domain of WDSUB1 proteins. SAM (sterile
alpha motif) domain of WDSUB1 subfamily proteins is a
putative protein-protein interaction domain. Proteins of
this group contain multiple domains: SAM, one or more
WD40 repeats and U-box (derived version of the
RING-finger domain). Apparently the WDSUB1 subfamily
proteins participate in protein degradation through
ubiquitination, since U-box domain are known as a member
of E3 ubiquitin ligase family, while SAM and WD40
domains most probably are responsible for an E2
ubiquitin-conjugating enzyme binding and a target
protein binding.
Length = 72
Score = 46.5 bits (111), Expect = 2e-07
Identities = 21/65 (32%), Positives = 39/65 (60%), Gaps = 2/65 (3%)
Query: 124 WTVTEVCDFIRNLPGCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSMK-LGPALKIVAKI 182
W+ +VC ++R++ G +YVE F IDG+ L+ L + L + + ++ LG KI+ KI
Sbjct: 5 WSEEDVCTWLRSI-GLEQYVEVFRANNIDGKELLNLTKESLSKDLKIESLGHRNKILRKI 63
Query: 183 DSMRQ 187
+ ++
Sbjct: 64 EELKM 68
>gnl|CDD|203706 pfam07647, SAM_2, SAM domain (Sterile alpha motif).
Length = 66
Score = 43.8 bits (104), Expect = 2e-06
Identities = 17/65 (26%), Positives = 36/65 (55%), Gaps = 4/65 (6%)
Query: 124 WTVTEVCDFIRNLPGCAEYVEDFAMQEIDG-QALMLLQAKHLMEAMSM-KLGPALKIVAK 181
W+ +V +++R++ G +Y ++F Q I G + L+ L + L + + +G KI+ K
Sbjct: 4 WSPEDVAEWLRSI-GLPQYADNFRDQGITGGELLLRLTEEDLKA-LGITSVGHRKKILKK 61
Query: 182 IDSMR 186
I ++
Sbjct: 62 IQRLK 66
>gnl|CDD|188927 cd09528, SAM_Samd9_Samd9L, SAM domain of Samd9/Samd9L subfamily.
SAM (sterile alpha motif) domain of Samd9/Samd9L
subfamily is a putative protein-protein interaction
domain. SAM is a widespread domain in signaling
proteins. Samd9 is a tumor suppressor gene. It is
involved in death signaling of malignant glioblastoma.
Samd9 suppression blocks cancer cell death induced by
HVJ-E or IFN-beta treatment. Deleterious mutations in
Samd9 lead to normophosphatemic familial tumoral
calcinosis, a cutaneous disorder characterized by
cutaneous calcification or ossification.
Length = 64
Score = 42.8 bits (101), Expect = 3e-06
Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 1/57 (1%)
Query: 123 KWTVTEVCDFIRNLPGCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLGPALKIV 179
WT V ++ +Y E +E+ G L L + L++ M + GPAL I+
Sbjct: 2 DWTKEHVKQWLIEDLIDKKYAEILYEEEVTGAVLKELTEEDLVD-MGLPHGPALLII 57
>gnl|CDD|188886 cd09487, SAM_superfamily, SAM (Sterile alpha motif ). SAM (Sterile
Alpha Motif) domain is a module consisting of
approximately 70 amino acids. This domain is found in
the Fungi/Metazoa group and in a restricted number of
bacteria. Proteins with SAM domains are represented by a
wide variety of domain architectures and have different
intracellular localization, including nucleus, cytoplasm
and membranes. SAM domains have diverse functions. They
can interact with proteins, RNAs and membrane lipids,
contain site of phosphorylation and/or kinase docking
site, and play a role in protein homo and hetero
dimerization/oligomerization in processes ranging from
signal transduction to regulation of transcription.
Mutations in SAM domains have been linked to several
diseases.
Length = 56
Score = 39.9 bits (94), Expect = 3e-05
Identities = 19/56 (33%), Positives = 29/56 (51%), Gaps = 1/56 (1%)
Query: 128 EVCDFIRNLPGCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLGPALKIVAKID 183
+V +++ +L G +Y + F EIDG AL+LL + L E G KI+ I
Sbjct: 1 DVAEWLESL-GLEQYADLFRKNEIDGDALLLLTDEDLKELGITSPGHRKKILRAIQ 55
>gnl|CDD|188934 cd09535, SAM_BOI-like_fungal, SAM domain of BOI-like fungal
subfamily. SAM (sterile alpha motif) domain of BOI-like
fungal subfamily is a potential protein-protein
interaction domain. Proteins of this subfamily are
apparently scaffold proteins, since most contain SH3 and
PH domains, which are also protein-protein interaction
domains, in addition to SAM domain. BOI-like proteins
participate in cell cycle regulation. In particular
BOI1 and BOI2 proteins of budding yeast S.cerevisiae are
involved in bud formation, and POB1 protein of fission
yeast S.pombe plays a role in cell elongation and
separation. Among binding partners of BOI-like fungal
subfamily members are such proteins as Bem1 and Cdc42
(they are known to be involved in cell polarization and
bud formation).
Length = 65
Score = 39.5 bits (93), Expect = 6e-05
Identities = 17/65 (26%), Positives = 28/65 (43%), Gaps = 4/65 (6%)
Query: 124 WTVTEVCDFIRNLPGCAEYVEDFAMQEIDGQALMLLQAKHLME--AMSMKLGPALKIVAK 181
W+ +V +++ + E F EI G L+ L + L E S G K+ +
Sbjct: 3 WSPEQVAEWLLSAGFDDSVCEKFRENEITGDILLELDLEDLKELDIGSF--GKRFKLWNE 60
Query: 182 IDSMR 186
I S+R
Sbjct: 61 IKSLR 65
>gnl|CDD|188929 cd09530, SAM_Samd14, SAM domain of Samd14 subfamily. SAM (sterile
alpha motif) domain of SamD14 (or FAM15A) subfamily is a
putative protein-protein interaction domain. SAM is
widespread domain in proteins involved in signal
transduction and regulation. In many cases SAM mediates
homodimerization/oligomerization. The exact function of
proteins belonging to this subfamily is unknown.
Length = 67
Score = 38.8 bits (91), Expect = 1e-04
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 122 LKWTVTEVCDFIRNLPGCAEYVEDFAMQEIDGQALMLLQAKHL 164
L W +V ++I L G +Y E F IDG+ L+L+ A L
Sbjct: 1 LSWDTEDVAEWIEGL-GFPQYRECFTTNFIDGRKLILVDASTL 42
>gnl|CDD|188911 cd09512, SAM_Neurabin-like, SAM domain of SAM_Neurabin-like
subfamily. SAM (sterile alpha motif) domain of
Neurabin-like (Neural actin-binding) subfamily is a
putative protein-protein interaction domain. This group
currently includes the SAM domains of neurobin-I, SAMD14
and neurobin-I/SAMD14-like proteins. Most are
multidomain proteins and in addition to SAM domain they
contain other protein-binding domains such as PDZ and
actin-binding domains. Members of this subfamily
participate in signal transduction. Neurabin-I is
involved in the regulation of Ca signaling intensity in
alpha-adrenergic receptors; it forms a functional pair
of opposing regulators with neurabin-II. Neurabins are
expressed almost exclusively in neuronal cells. They are
known to interact with protein phosphatase 1 and inhibit
its activity; they also can bind actin filaments;
however, the exact role of the SAM domain is unclear,
since SAM doesn't participate in these interactions.
Length = 70
Score = 36.5 bits (85), Expect = 8e-04
Identities = 15/41 (36%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 124 WTVTEVCDFIRNLPGCAEYVEDFAMQEIDGQALMLLQAKHL 164
W+V +VC ++ L G +Y+ +F IDGQ L+ L + L
Sbjct: 7 WSVQQVCQWLMGL-GLEQYIPEFTANNIDGQQLLQLDSSKL 46
>gnl|CDD|188906 cd09507, SAM_DGK-delta-eta, SAM domain of diacylglycerol kinase
delta and eta subunits. SAM (sterile alpha motif)
domain of DGK-eta-delta subfamily proteins is a
protein-protein interaction domain. Proteins of this
subfamily are multidomain diacylglycerol kinases with a
SAM domain located at the C-terminus. DGK proteins
participate in signal transduction. They regulate the
level of second messengers such as diacylglycerol and
phosphatidic acid. The SAM domain of DGK proteins can
form high molecular weight homooligomers through
head-to-tail interactions as well as heterooligomers
between the SAM domains of DGK delta and eta proteins.
The oligomerization plays a role in the regulation of
DGK intracellular localization.
Length = 65
Score = 35.5 bits (82), Expect = 0.002
Identities = 18/63 (28%), Positives = 31/63 (49%), Gaps = 1/63 (1%)
Query: 123 KWTVTEVCDFIRNLPGCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLGPALKIVAKI 182
WT EV ++ +L EY + FA +I G L+ L+ + L + K+G +I+ I
Sbjct: 4 NWTTEEVGAWLESL-QLGEYRDIFARNDIRGSELLHLERRDLKDLGITKVGHVKRILQAI 62
Query: 183 DSM 185
+
Sbjct: 63 KDL 65
>gnl|CDD|188909 cd09510, SAM_aveugle-like, SAM domain of aveugle-like subfamily.
SAM (sterile alpha motif) domain of SAM_aveugle-like
subfamily is a protein-protein interaction domain. In
Drosophila, the aveugle (AVE) protein (also known as HYP
(Hyphen)) is involved in normal photoreceptor
differentiation, and required for epidermal growth
factor receptor (EGFR) signaling between ras and raf
genes during eye development and wing vein formation.
SAM domain of the HYP(AVE) protein interacts with SAM
domain of CNK, the multidomain scaffold protein
connector enhancer of kinase suppressor of ras.
CNK/HYP(AVE) complex interacts with KSR (kinase
suppressor of Ras) protein. This interaction leads to
stimulation of Ras-dependent Raf activation. This
subfamily also includes vertebrate AVE homologs - Samd10
and Samd12 proteins. Their exact function is unknown,
but they may play a role in signal transduction during
embryogenesis.
Length = 75
Score = 34.6 bits (80), Expect = 0.004
Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 2/43 (4%)
Query: 124 WTVTEVCDFI-RNLP-GCAEYVEDFAMQEIDGQALMLLQAKHL 164
W+V +VC ++ R+ P Y E F +I G+AL+ L L
Sbjct: 6 WSVQDVCKWLKRHCPDYYLLYAELFLQHDITGRALLRLNDNKL 48
>gnl|CDD|188932 cd09533, SAM_Ste50-like_fungal, SAM domain of Ste50_like (ubc2)
subfamily. SAM (sterile alpha motif) domain of
Ste50-like (or Ubc2 for Ustilago bypass of cyclase)
subfamily is a putative protein-protein interaction
domain. This group includes only fungal proteins.
Basidiomycetes have an N-terminal SAM domain, central
UBQ domain, and C-terminal SH3 domain, while Ascomycetes
lack the SH3 domain. Ubc2 of Ustilago maydis is a major
virulence and maize pathogenicity factor. It is required
for filamentous growth (the budding haploid form of
Ustilago maydis is a saprophyte, while filamentous
dikaryotic form is a pathogen). Also the Ubc2 protein is
involved in the pheromone-responsive morphogenesis via
the MAP kinase cascade. The SAM domain is necessary for
ubc2 function; deletion of SAM eliminates this function.
A Lys-to-Glu mutation in the SAM domain of ubc2 gene
induces temperature sensitivity.
Length = 58
Score = 33.4 bits (77), Expect = 0.007
Identities = 15/55 (27%), Positives = 26/55 (47%), Gaps = 1/55 (1%)
Query: 128 EVCDFIRNLPGCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLGPALKIVAKI 182
+V D++ +L G +Y + F I G L+ L + L E +G L I+ +
Sbjct: 1 DVADWLSSL-GLPQYEDQFIENGITGDVLVALDHEDLKEMGITSVGHRLTILKAV 54
>gnl|CDD|188905 cd09506, SAM_Shank1,2,3, SAM domain of Shank1,2,3 family proteins.
SAM (sterile alpha motif) domain of Shank1,2,3 family
proteins is a protein-protein interaction domain.
Shank1,2,3 proteins are scaffold proteins that are known
to interact with a variety of cytoplasmic and membrane
proteins. SAM domains of the Shank1,2,3 family are prone
to homooligomerization. They are highly enriched in the
postsynaptic density, acting as scaffolds to organize
assembly of postsynaptic proteins. SAM domains of Shank3
proteins can form large sheets of helical fibers. Shank
genes show distinct patterns of expression, in rat
Shank1 mRNA is found almost exclusively in brain, Shank2
in brain, kidney and liver, and Shank3 in heart, brain
and spleen.
Length = 66
Score = 33.4 bits (77), Expect = 0.008
Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 124 WTVTEVCDFIRNLPGCAEYVEDFAMQEIDGQALMLLQAKHLME 166
WTV +V D++ +L E+ E F EIDG L L + L E
Sbjct: 5 WTVDDVGDWLESL-NLGEHRERFMDNEIDGSHLPNLDKEDLTE 46
>gnl|CDD|188916 cd09517, SAM_USH1G_HARP, SAM domain of USH1G_HARP family. SAM
(sterile alpha motif) domain of USH1G/HARP (Usher
syndrome type-1G/ Harmonin-interacting Ankyrin
Repeat-containing protein) family is a protein-protein
interaction domain. Members of this family have an
N-terminal ankyrin repeat region and a C-terminal SAM
domain. In mammals these proteins can interact via the
SAM domain with the PDZ domain of harmonin to form a
scaffolding complex that facilitates signal transduction
in epithelial and inner ear sensory cells. It was
suggested that USH1G and HARP can be tissue specific
partners of harmonin. Mutations in ush1g genes lead to
Usher syndrome type 1G. This syndrome is the cause of
deaf-blindness in humans.
Length = 66
Score = 32.3 bits (74), Expect = 0.021
Identities = 19/50 (38%), Positives = 31/50 (62%), Gaps = 1/50 (2%)
Query: 141 EYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLGPALKIVAKIDSMRQAAE 190
EY+ F ++ID +ALMLL + L +++ + LGP K++ I +QA E
Sbjct: 16 EYLPVFEREKIDLEALMLLTDEDL-QSLKLPLGPRRKLLNAIAKRKQALE 64
>gnl|CDD|188914 cd09515, SAM_SGMS1-like, SAM domain of sphingomyelin synthase
related subfamily. SAM (sterile alpha motif) domain of
SGMS-like (sphingomyelin synthase) subfamily is a
potential protein-protein interaction domain. This group
of proteins is related to sphingomyelin synthase 1, and
contains an N-terminal SAM domain. The function of
SGMS1-like proteins is unknown; they may play a role in
sphingolipid metabolism.
Length = 70
Score = 32.2 bits (74), Expect = 0.022
Identities = 16/70 (22%), Positives = 35/70 (50%), Gaps = 4/70 (5%)
Query: 121 PLKWTVTEVCDFIRNLPGCAEYVEDFAMQE-IDGQALMLLQAKHLME-AMSMK-LGPALK 177
+WT +V +++ G ++YV+ + IDG+ L+ L + L + +K LG +
Sbjct: 1 VHEWTCEDVAKWLKKE-GFSKYVDLLCNKHRIDGKVLLSLTEEDLRSPPLEIKVLGDIKR 59
Query: 178 IVAKIDSMRQ 187
+ I +++
Sbjct: 60 LWLAIRKLQR 69
>gnl|CDD|188910 cd09511, SAM_CNK1,2,3-suppressor, SAM domain of CNK1,2,3-suppressor
subfamily. SAM (sterile alpha motif) domain of CNK
(connector enhancer of kinase suppressor of ras (Ksr))
subfamily is a protein-protein interaction domain. CNK
proteins are multidomain scaffold proteins containing a
few protein-protein interaction domains and are required
for connecting Rho and Ras signaling pathways. In
Drosophila, the SAM domain of CNK is known to interact
with the SAM domain of the aveugle protein, forming a
heterodimer. Mutation of the SAM domain in human CNK1
abolishes the ability to cooperate with the Ras
effector, supporting the idea that this interaction is
necessary for proper Ras signal transduction.
Length = 69
Score = 30.3 bits (69), Expect = 0.10
Identities = 14/52 (26%), Positives = 28/52 (53%), Gaps = 1/52 (1%)
Query: 123 KWTVTEVCDFIRNLPGCAE-YVEDFAMQEIDGQALMLLQAKHLMEAMSMKLG 173
KW+ +V D+++ L C + Y+ F +++ G+ L+ L + L K+G
Sbjct: 3 KWSPKQVTDWLKGLDDCLQQYIYTFEREKVTGEQLLNLSPQDLENLGVTKIG 54
>gnl|CDD|188984 cd09585, SAM_DDHD2, SAM domain of DDHD2. SAM (sterile alpha motif)
domain of DDHD2 group is a potential protein-protein
interaction domain. DDHD2 proteins contain at least two
domains:a SAM domain and a predicted metal-binding
domain. Phospholipase A1 activity was demonstrated for
the mammalian DDHD2 protein. Mutation of the putative
catalytic serine resulted in elimination of activity.
Unlike SEC23IP, DDHD2 proteins do not have an N-terminal
proline-rich region and correspondingly they are not
able to interact with Sec23p/Sec24p complex.
Overexpression of DDHD2 is the cause of dispersion of
ER/Golgi intermediate compartment and dispersion of
tethering proteins located in the Golgi region, leading
to aggregation in the endoplasmic reticulum.
Length = 69
Score = 30.1 bits (68), Expect = 0.13
Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 138 GCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLGPALKIVAKIDSMR 186
G +EY + F ++ID +AL L Q + L + + + LGP KI+ I
Sbjct: 20 GLSEYCDVFEKEKIDLEALALCQERDLKD-LGIPLGPRKKILNYIRRRF 67
>gnl|CDD|188900 cd09501, SAM_SARM1-like_repeat1, SAM domain ot SARM1-like proteins,
repeat 1. SAM (sterile alpha motif) domain repeat 1 of
SARM1-like adaptor proteins is a protein-protein
interaction domain. SARM1-like proteins contain two
tandem SAM domains. SARM1-like proteins are involved in
TLR (Toll-like receptor) signaling. They are responsible
for targeted localization of the whole protein to
post-synaptic regions of axons. In humans SARM1
expression is detected in kidney and liver.
Length = 69
Score = 30.0 bits (68), Expect = 0.17
Identities = 14/50 (28%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 124 WTVTEVCDFIRNLPGCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLG 173
W+V +V +++ + G +Y E F+ ++DG L+ L L + + M G
Sbjct: 4 WSVADVQTWLKQI-GFEDYAEKFSESQVDGDLLLQLTEDELKQDLGMSSG 52
>gnl|CDD|188903 cd09504, SAM_STIM-1,2-like, SAM domain of STIM-1,2-like proteins.
SAM (sterile alpha motif) domain of STIM-1,2-like
(Stromal interaction molecule) proteins is a putative
protein-protein interaction domain. STIM1 and STIM2
human proteins are type I transmembrane proteins. The
N-terminal part of them includes "hidden" EF-hand and
SAM domains. This region is responsible for sensing
changes in store-operated and basal cytoplasmic Ca2+
levels and initiates oligomerization. "Hidden" EF hand
and SAM domains have a stable intramolecular
association, and the SAM domain is a component that
regulates stability within STIM proteins.
Destabilization of the EF-SAM association during Ca2+
depletion leads to partial unfolding and aggregation
(homooligomerization), thus activating the
store-operated Ca2+ entry. Immunoprecipitation analysis
indicates that STIM1 and STIM2 can form co-precipitable
oligomeric associations in vivo. It was suggested that
STIM1 and STIM2 are involved in opposite regulation of
store operated channels in plasma membrane.
Length = 74
Score = 29.2 bits (66), Expect = 0.36
Identities = 13/40 (32%), Positives = 20/40 (50%)
Query: 124 WTVTEVCDFIRNLPGCAEYVEDFAMQEIDGQALMLLQAKH 163
WTV + +++ N +YVE F +DG AL L +
Sbjct: 5 WTVEDTVEWLVNSVELPQYVEAFKENGVDGSALPRLAVNN 44
>gnl|CDD|188912 cd09513, SAM_BAR, SAM domain of BAR subfamily. SAM (sterile alpha
motif) domain of BAR (Bifunctional Apoptosis Regulator)
subfamily is a protein-protein interaction domain. In
addition to the SAM domain, this type of regulator has a
RING finger domain. Proteins of this subfamily are
involved in the apoptosis signal network. Their
overexpression in human neuronal cells significantly
protects cells from a broad range of cell death stimuli.
SAM domain can interact with Caspase8, Bcl-2 and Bcl-X
resulting in suppression of Bax-induced cell death.
Length = 71
Score = 29.0 bits (65), Expect = 0.37
Identities = 13/38 (34%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 123 KWTVTEVCDFIRNL-PGCAEYVEDFAMQEIDGQALMLL 159
KWT EV ++ L P + Y E F + ++G+ L+ L
Sbjct: 3 KWTPEEVVLWLEQLGPWASLYRERFLSENVNGRLLLTL 40
>gnl|CDD|188983 cd09584, SAM_sec23ip, SAM domain of sec23ip. SAM (sterile alpha
motif) domain of Sec23ip (Sec23 interacting protein)
group is a potential protein-protein interaction domain.
Sec23ip proteins (also known as p125) contain an
N-terminal proline-rich region, a central region
containing a SAM domain and a C-terminal region with a
predicted metal-binding domain. Sec23ip interacts with
Sec23p/Sec24p part of COPII-coated vesicles complex
involved in protein transport from the ER to the Golgi
apparatus. The proline-rich region plays an essential
role in this interaction. Overexpression of Sec23ip
leads to disorganization of ER/Golgi intermediate
compartment.
Length = 69
Score = 29.0 bits (65), Expect = 0.41
Identities = 14/41 (34%), Positives = 22/41 (53%), Gaps = 1/41 (2%)
Query: 138 GCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLGPALKI 178
+EY F ++ID ++L++ L E M + LGP KI
Sbjct: 20 SLSEYKSTFEKEKIDMESLLMCTVDDLKE-MGIPLGPRKKI 59
>gnl|CDD|188907 cd09508, SAM_HD, SAM domain of HD-phosphohydrolase. SAM (sterile
alpha motif) domain of SAM_HD subfamily proteins is a
putative protein-protein interaction domain. Proteins of
this group, additionally to the SAM domain, contain a HD
hydrolase domain. Human SAM-HD1 is a nuclear protein
involved in innate immune response and may act as a
negative regulator of the cell-intrinsic antiviral
response. Mutations in this gene lead to
Aicardi-Goutieres syndrome (symptoms include cerebral
atrophy, leukoencephalopathy, hepatosplenomegaly, and
increased production of alpha-interferon).
Length = 70
Score = 28.8 bits (65), Expect = 0.48
Identities = 22/70 (31%), Positives = 32/70 (45%), Gaps = 3/70 (4%)
Query: 120 NPLKWTVTEVCDFIR-NLPGCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSMK-LGPALK 177
+ W +VC F+R N G E +E F EI G L L L E + + LG LK
Sbjct: 1 DFRSWDPEDVCQFLRGNGFGEPELLEIFRENEITGAHLPDLTESRL-EKLGVSSLGERLK 59
Query: 178 IVAKIDSMRQ 187
++ + + Q
Sbjct: 60 LLKCLQKLSQ 69
>gnl|CDD|237491 PRK13759, PRK13759, arylsulfatase; Provisional.
Length = 485
Score = 30.4 bits (69), Expect = 0.62
Identities = 13/56 (23%), Positives = 21/56 (37%), Gaps = 20/56 (35%)
Query: 80 DIGTDDGAPLAKKLHLEENVEDKKPLVGESTGCPQTPSLPNPLKWTVTEVCDFIRN 135
DIG D + +A+ LEE + +P W +E +F+R
Sbjct: 160 DIGWDCNSWVARPWDLEERL--------------------HPTNWVGSESIEFLRR 195
>gnl|CDD|188986 cd09587, SAM_HARP, SAM domain of HARP subfamily. SAM (sterile
alpha motif) domain of HARP (Harmonin-interacting
Ankyrin Repeat-containing) proteins, also known as
ANKS4B, is a protein-protein interaction domain.
Proteins of this subfamily have an N-terminal ankyrin
repeat region and C-terminal SAM. In mouse epithelial
tissues, HARP protein interacts with the PDZ domain of
harmonin. This scaffolding complex facilitates signal
transduction in epithelia. HARP was found co-expressed
with harmonin in a number of epithelial cells including
pancreatic ductal epithelium, embryonic epithelia of the
lung, kidney, salivary glands, and cochlea.
Length = 67
Score = 28.3 bits (63), Expect = 0.67
Identities = 16/48 (33%), Positives = 29/48 (60%), Gaps = 1/48 (2%)
Query: 141 EYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLGPALKIVAKIDSMRQA 188
E++ F ++ID +ALML + L + + M+LGP KI++ + +Q
Sbjct: 16 EFLPIFMREQIDLEALMLCSDEDL-QNIQMQLGPRKKILSAVARRKQV 62
>gnl|CDD|188975 cd09576, SAM_DGK-eta, SAM domain of diacylglycerol kinase eta. SAM
(sterile alpha motif) domain of DGK-eta subfamily
proteins is a protein-protein interaction domain.
Proteins of this subfamily are multidomain
diacylglycerol kinases. The SAM domain is located at the
C-terminus of two out of three isoforms of DGK-eta
protein. DGK-eta proteins participate in signal
transduction. They regulate the level of second
messengers such as diacylglycerol and phosphatidic acid.
The SAM domain of DCK-eta proteins can form high
molecular weight homooligomers through head-to-tail
interactions as well as heterooligomers with the SAM
domain of DGK-delta proteins. The oligomerization plays
a role in the regulation of the DGK-delta intracellular
localization: it is responsible for sustained endosomal
localization of the protein and resulted in negative
regulation of DCK-eta catalytic activity.
Length = 65
Score = 27.6 bits (61), Expect = 1.2
Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 1/63 (1%)
Query: 123 KWTVTEVCDFIRNLPGCAEYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLGPALKIVAKI 182
KW EV ++ +L EY E F +I G L+ L+ + L + K+G +I+ I
Sbjct: 4 KWGTDEVAAWL-DLLSLGEYKEIFIRHDIRGSELLHLERRDLKDLGIPKVGHMKRILQGI 62
Query: 183 DSM 185
+
Sbjct: 63 KEL 65
>gnl|CDD|202149 pfam02198, SAM_PNT, Sterile alpha motif (SAM)/Pointed domain.
Length = 83
Score = 27.6 bits (62), Expect = 1.2
Identities = 9/47 (19%), Positives = 19/47 (40%), Gaps = 11/47 (23%)
Query: 119 PNPLKWTVTEVCDFIR------NLPGCAEYVEDFAMQEIDGQALMLL 159
+P WT V +++ +L DF+ ++ G+ L +
Sbjct: 15 ADPNLWTEDHVLEWLEWAVKEFSLSPI-----DFSNFDMSGRELCSM 56
>gnl|CDD|182195 PRK10016, PRK10016, DNA gyrase inhibitor; Provisional.
Length = 156
Score = 28.5 bits (64), Expect = 1.6
Identities = 11/35 (31%), Positives = 16/35 (45%), Gaps = 5/35 (14%)
Query: 6 PQGQFQQ----PQQQHMQPKPLIACYWDKPITTQA 36
QG F+Q ++ PK +A Y+D P A
Sbjct: 27 KQG-FEQLMMWVDSHNIVPKEWVAVYYDNPDEVPA 60
>gnl|CDD|188985 cd09586, SAM_USH1G, SAM domain of USH1G. SAM (sterile alpha motif)
domain of USH1G (Usher syndrome type-1G protein)
proteins (also known as SANS) is a putative
protein-protein interaction domain. Members of this
group have an N-terminal ankyrin repeat region and
C-terminal SAM domain. USH1G is expressed in the hair
bundles of the inner ear sensory cells. It can form a
functional network with USH1B (myosin VIIa), USH1C
(harmonin b), USH1F (protocadherin-related 15), and
USH1D (cadherin 23). The SAM domain of the USH1G protein
is involved in synergetic interactions with the PDZ
domain of harmonin. Such interactions contribute to the
stability of harmonin. The network is required for the
correct cohesion of the hair bundle. Mutations in the
ush1g gene lead to Usher syndrome type 1G. This syndrome
is the cause of deaf-blindness in humans.
Length = 66
Score = 26.7 bits (59), Expect = 2.4
Identities = 14/50 (28%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 141 EYVEDFAMQEIDGQALMLLQAKHLMEAMSMKLGPALKIVAKIDSMRQAAE 190
E++ ++ID AL+L + + ++++ + LGP KI+ RQ E
Sbjct: 16 EFIAILKREKIDLDALLLC-SDNDLKSIHIPLGPRKKILDACQRRRQTIE 64
>gnl|CDD|128547 smart00251, SAM_PNT, SAM / Pointed domain. A subfamily of the SAM
domain.
Length = 82
Score = 26.8 bits (60), Expect = 2.4
Identities = 9/47 (19%), Positives = 19/47 (40%), Gaps = 11/47 (23%)
Query: 119 PNPLKWTVTEVCDFIR------NLPGCAEYVEDFAMQEIDGQALMLL 159
+P WT V +++ +L DF+ ++ G+ L +
Sbjct: 15 ADPQLWTEDHVLEWLEWAVKEFSLSPI-----DFSKFDMSGKELCSM 56
>gnl|CDD|238846 cd01713, PAPS_reductase, This domain is found in phosphoadenosine
phosphosulphate (PAPS) reductase enzymes or PAPS
sulphotransferase. PAPS reductase is part of the adenine
nucleotide alpha hydrolases superfamily also including N
type ATP PPases and ATP sulphurylases. A highly modified
version of the P loop, the fingerprint peptide of
mononucleotide-binding proteins, is present in the
active site of the protein, which appears to be a
positively charged cleft containing a number of
conserved arginine and lysine residues. Although PAPS
reductase has no ATPase activity, it shows a striking
similarity to the structure of the ATP pyrophosphatase
(ATP PPase) domain of GMP synthetase, indicating that
both enzyme families have evolved from a common
ancestral nucleotide-binding fold. The enzyme uses
thioredoxin as an electron donor for the reduction of
PAPS to phospho-adenosine-phosphate (PAP) . It is also
found in NodP nodulation protein P from Rhizobium
meliloti which has ATP sulphurylase activity (sulphate
adenylate transferase) .
Length = 173
Score = 28.1 bits (63), Expect = 2.5
Identities = 9/26 (34%), Positives = 12/26 (46%), Gaps = 3/26 (11%)
Query: 120 NPLK-WTVTEVCDFIR--NLPGCAEY 142
NPL WT +V ++ LP Y
Sbjct: 140 NPLLDWTYEDVWAYLARHGLPYNPLY 165
>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1. Members
of this family are necessary for accurate chromosome
transmission during cell division.
Length = 804
Score = 27.8 bits (62), Expect = 4.5
Identities = 16/69 (23%), Positives = 19/69 (27%), Gaps = 4/69 (5%)
Query: 1 MAPPPPQGQFQQPQQQHMQPKPLIACYWDKPITTQATLPKTTALVKPQILTHVIEGFVIQ 60
P P G Q PQ Q +P Q LP PQ + +
Sbjct: 195 GPPEQPPGYPQPPQGHPEQVQPQQFLPAPSQAPAQPPLPPQL----PQQPPPLQQPQFPG 250
Query: 61 ESDQPFPVN 69
S Q P
Sbjct: 251 LSQQMPPPP 259
>gnl|CDD|99712 cd05829, Sortase_E, Sortase E (SrtE) is a membrane transpeptidase
found in gram-positive bacteria that cleaves surface
proteins at a cell sorting motif and catalyzes a
transpeptidation reaction in which the surface protein
substrate is covalently linked to peptidoglycan for
display on the bacterial surface. Sortases are grouped
into different classes and subfamilies based on
sequence, membrane topology, genomic positioning, and
cleavage site preference. The function of Sortase E is
unknown. In two different sortase families, the
N-terminus either functions as both a signal peptide for
secretion and a stop-transfer signal for membrane
anchoring, or it contains a signal peptide only and the
C-terminus serves as a membrane anchor. Most
gram-positive bacteria contain more than one sortase and
it is thought that the different sortases anchor
different surface protein classes. The sortase domain is
a modified beta-barrel flanked by two (SrtA) or three
(SrtB) short alpha-helices.
Length = 144
Score = 26.0 bits (58), Expect = 8.9
Identities = 7/29 (24%), Positives = 12/29 (41%)
Query: 174 PALKIVAKIDSMRQAAEGAAGAPPPASTA 202
PA+ + A + + +G PP A
Sbjct: 9 PAIGVDAPVVPVGLDEDGTLEVPPDTDQA 37
>gnl|CDD|215124 PLN02195, PLN02195, cellulose synthase A.
Length = 977
Score = 26.9 bits (59), Expect = 9.1
Identities = 10/40 (25%), Positives = 18/40 (45%), Gaps = 2/40 (5%)
Query: 2 APPPPQGQFQQPQQQHMQPKPLIACYWDKPITTQATLPKT 41
A + Q P +Q M+ KP Y +P++ +P+
Sbjct: 132 AKKKEAHKAQIPPEQQMEEKPSADAY--EPLSRVIPIPRN 169
>gnl|CDD|119387 cd06265, RNase_A_canonical, Canonical RNase A family includes all
vertebrate homologues to the bovine pancreatic
ribonuclease A (RNase A) that contain the catalytic
site, necessary for RNase activity. In the human
genome 8 RNases , refered to as "canonical" RNases,
have been identified, pancreatic RNase (RNase 1),
Eosinophil Derived Neurotoxin (SEDN/RNASE 2),
Eosinophil Cationic Protein (ECP/RNase 3), RNase 4,
Angiogenin (RNase 5), RNase 6 or k6, the skin derived
RNase (RNase 7) and RNase 8. The eight human genes are
all located in a cluster on chromosome 14. Canonical
RNase A enzymes have special biological activities; for
example, some stimulate the development of vascular
endothelial cells, dendritic cells, and neurons, are
cytotoxic/anti-tumoral and/or anti-pathogenic. RNase A
is involved in endonucleolytic cleavage of
3'-phosphomononucleotides and
3'-phosphooligonucleotides ending in C-P or U-P with
2',3'-cyclic phosphate intermediates. The catalytic
mechanism is a transphosphorylation of P-O 5' bonds on
the 3' side of pyrimidines and subsequent hydrolysis to
generate 3' phosphate groups. The canonical RNase A
family proteins have a conserved catalytic triad (two
histidines and one lysine). They also share 6 to 8
cysteines that form three to four disulfide bonds. Two
disulfide bonds that are close to the N and C termini
contribute most significantly to conformational
stability. Angiogenin or RNAse 5 has been implicated in
tumor-associated angiogenesis. Comparative analysis in
mammals and birds indicates that the whole family may
have originated from a RNase 5-like gene. This
hypothesis is supported by the fact that only RNase
5-like RNases have been reported outside the mammalian
class. The RNase 5 group would therefore be the most
ancient form of this family, and all other members
would have arisen during mammalian evolution.
Length = 115
Score = 25.8 bits (57), Expect = 9.1
Identities = 14/70 (20%), Positives = 23/70 (32%), Gaps = 15/70 (21%)
Query: 14 QQQHMQPKPLIACYWD-------------KPITT--QATLPKTTALVKPQILTHVIEGFV 58
+QH+ P Y + KP+ T + A+ +T
Sbjct: 7 LRQHVDPPRTGIRYCNVMMRRRNMTKGRCKPVNTFIHESFADVRAVCTNPNVTCKNGRNN 66
Query: 59 IQESDQPFPV 68
+S+ PFPV
Sbjct: 67 CHKSNSPFPV 76
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
0.317 0.134 0.408
Gapped
Lambda K H
0.267 0.0647 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,350,135
Number of extensions: 939198
Number of successful extensions: 1033
Number of sequences better than 10.0: 1
Number of HSP's gapped: 973
Number of HSP's successfully gapped: 64
Length of query: 202
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 110
Effective length of database: 6,857,034
Effective search space: 754273740
Effective search space used: 754273740
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 56 (25.5 bits)