RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4485
(91 letters)
>gnl|CDD|214794 smart00731, SprT, SprT homologues. Predicted to have roles in
transcription elongation. Contains a conserved HExxH
motif, indicating a metalloprotease function.
Length = 146
Score = 34.6 bits (80), Expect = 0.002
Identities = 7/35 (20%), Positives = 14/35 (40%)
Query: 15 PDIHGLFVAFAKRFFQDRLGSVEVKWSKRMTSGAV 49
++ + R F +L +V W+KR+
Sbjct: 1 QELTQRLEDASLRVFGRKLPHPKVVWNKRLRKTGG 35
>gnl|CDD|220661 pfam10263, SprT-like, SprT-like family. This family represents a
domain found in eukaryotes and prokaryotes. The domain
contains a characteristic motif of the zinc
metallopeptidases. This family includes the bacterial
SprT protein.
Length = 153
Score = 29.7 bits (67), Expect = 0.13
Identities = 11/32 (34%), Positives = 15/32 (46%), Gaps = 1/32 (3%)
Query: 17 IHGLFVAFAKRFFQDRLGSVEVKWSKRMTSGA 48
+ LF FF L +V WSKR+ + A
Sbjct: 1 LEALFELANLAFFHGFL-RPKVVWSKRLRTTA 31
>gnl|CDD|129974 TIGR00896, CynX, cyanate transporter. This family of proteins is
involved in active transport of cyanate. The cyanate
transporter in E.Coli is used to transport cyanate into
the cell so it can be metabolized into ammonia and
bicarbonate. This process is used to overcome the
toxicity of environmental cyanate [Transport and binding
proteins, Other].
Length = 355
Score = 28.6 bits (64), Expect = 0.36
Identities = 10/41 (24%), Positives = 16/41 (39%), Gaps = 6/41 (14%)
Query: 26 KRFFQDRLGSVEVKWSKRMT------SGAVVSVVDFGSGGW 60
KR F R+G + +S + + A V + G W
Sbjct: 113 KRDFPQRVGLMTGLYSMALMGGAALAAAATVPLAQHSGGHW 153
>gnl|CDD|219697 pfam08014, DUF1704, Domain of unknown function (DUF1704). This
family contains many hypothetical proteins.
Length = 348
Score = 27.6 bits (62), Expect = 0.95
Identities = 8/32 (25%), Positives = 14/32 (43%)
Query: 20 LFVAFAKRFFQDRLGSVEVKWSKRMTSGAVVS 51
A +F+ +VK S + + A+VS
Sbjct: 116 YLQERADAYFEGDGFKCKVKLSDDIVADAMVS 147
>gnl|CDD|225487 COG2936, COG2936, Predicted acyl esterases [General function
prediction only].
Length = 563
Score = 27.4 bits (61), Expect = 1.0
Identities = 11/55 (20%), Positives = 15/55 (27%)
Query: 6 SQWEVIDPTPDIHGLFVAFAKRFFQDRLGSVEVKWSKRMTSGAVVSVVDFGSGGW 60
E P D +++ F L E + R VV G W
Sbjct: 291 GGPEWEGPGKDYGATALSWQDDFLDAYLDDKENDPADRAGVRPVVRYFTMGGNHW 345
>gnl|CDD|221036 pfam11227, DUF3025, Protein of unknown function (DUF3025). Some
members in this bacterial family of proteins are
annotated as transmembrane proteins however this cannot
be confirmed. Currently this family of proteins has no
known function.
Length = 212
Score = 26.9 bits (60), Expect = 1.3
Identities = 18/74 (24%), Positives = 33/74 (44%), Gaps = 14/74 (18%)
Query: 18 HGLFVAFAKRFFQDRL----GSVEVKWSKRMTSGAVVSVVDF------GSGGWWFESKSN 67
H L V FF L ++ + + + SG +++ F G GWW +++
Sbjct: 139 HALIVPVPPDFFLLSLAEQDAWLDARLAAALDSGCLLAPRPFSPLPVLGVPGWWPDNE-- 196
Query: 68 LGNPSFYRSSDFYR 81
+P+FY +D +R
Sbjct: 197 --DPAFYDDTDVFR 208
>gnl|CDD|130789 TIGR01728, SsuA_fam, ABC transporter, substrate-binding protein,
aliphatic sulfonates family. Members of this family
are substrate-binding periplasmic proteins of ABC
transporters. This subfamily includes SsuA, a member of
a transporter operon needed to obtain sulfur from
aliphatic sulfonates. Related proteins outside the
scope of This model include taurine (NH2-CH2-CH2-S03H)
binding proteins, the probable sulfate ester binding
protein AtsR, and the probable aromatic sulfonate
binding protein AsfC. All these families make sulfur
available when Cys and sulfate levels are low. Please
note that phylogenetic analysis by neighbor-joining
suggests that a number of sequences belonging to this
family have been excluded because of scoring lower than
taurine-binding proteins [Transport and binding
proteins, Other].
Length = 288
Score = 26.6 bits (59), Expect = 1.7
Identities = 12/46 (26%), Positives = 19/46 (41%), Gaps = 7/46 (15%)
Query: 20 LFVAFAKRFFQDRLGSVEVKWSKRMTSGAVVSV------VDFGSGG 59
L +A K + LG +V+W + +G +DFG G
Sbjct: 13 LALAKEKGLLEKELGKTKVEWVE-FPAGPPALEALGAGSLDFGYIG 57
>gnl|CDD|212948 cd12015, SH3_Tks_1, First Src homology 3 domain of Tyrosine
kinase substrate (Tks) proteins. Tks proteins are Src
substrates and scaffolding proteins that play important
roles in the formation of podosomes and invadopodia,
the dynamic actin-rich structures that are related to
cell migration and cancer cell invasion. Vertebrates
contain two Tks proteins, Tks4 (Tyr kinase substrate
with four SH3 domains) and Tks5 (Tyr kinase substrate
with five SH3 domains), which display partially
overlapping but non-redundant functions. Both associate
with the ADAMs family of transmembrane
metalloproteases, which function as sheddases and
mediators of cell and matrix interactions. Tks5
interacts with N-WASP and Nck, while Tks4 is essential
for the localization of MT1-MMP (membrane-type 1 matrix
metalloproteinase) to invadopodia. Tks proteins contain
an N-terminal Phox homology (PX) domain and four or
five SH3 domains. This model characterizes the first
SH3 domain of Tks proteins. SH3 domains are protein
interaction domains that bind to proline-rich ligands
with moderate affinity and selectivity, preferentially
to PxxP motifs. They play versatile and diverse roles
in the cell including the regulation of enzymes,
changing the subcellular localization of signaling
pathway components, and mediating the formation of
multiprotein complex assemblies.
Length = 53
Score = 25.1 bits (55), Expect = 1.9
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 44 MTSGAVVSVVDFGSGGWWFES 64
+ +G VV V++ GWWF S
Sbjct: 18 LRAGDVVDVIEKNENGWWFVS 38
>gnl|CDD|222410 pfam13839, PC-Esterase, GDSL/SGNH-like Acyl-Esterase family found
in Pmr5 and Cas1p. The PC-Esterase family is comprised
of Cas1p, the Homo sapiens C7orf58, Arabidopsis thaliana
PMR5 and a group of plant freezing
resistance/coldacclimatization proteins typified by
Arabidopsis thaliana ESKIMO1, animal FAM55D proteins,
and animal FAM113 proteins. The PC-Esterase family has
features that are both similar and different from the
canonical GDSL/SGNH superfamily. The members of this
family are predicted to have Acyl esterase activity and
predicted to modify cell-surface biopolymers such as
glycans and glycoproteins. The Cas1p protein has a
Cas1_AcylT domain, in addition, with the opposing
acyltransferase activity. The C7orf58 family has a
ATP-Grasp domain fused to the PC-Esterase and is the
first identified secreted tubulin-tyrosine ligase like
enzyme in eukaryotes. The plant family with PMR5, ESK1,
TBL3 etc have a N-terminal C rich potential sugar
binding domain followed by the PC-Esterase domain.
Length = 270
Score = 25.8 bits (57), Expect = 3.6
Identities = 14/38 (36%), Positives = 19/38 (50%), Gaps = 3/38 (7%)
Query: 32 RLGSVEVKWSKRMTSGAVVSVVDFGSGGWWFESKSNLG 69
+L S++ KWSK V+ F SG WW K +G
Sbjct: 88 KLDSIDEKWSKLWPG---ADVLVFNSGHWWLHRKVYIG 122
>gnl|CDD|239222 cd02892, SQCY_1, Squalene cyclase (SQCY) domain subgroup 1; found
in class II terpene cyclases that have an alpha 6 -
alpha 6 barrel fold. Squalene cyclase (SQCY) and
2,3-oxidosqualene cyclase (OSQCY) are integral membrane
proteins that catalyze a cationic cyclization cascade
converting linear triterpenes to fused ring compounds.
This group contains bacterial SQCY which catalyzes the
convertion of squalene to hopene or diplopterol and
eukaryotic OSQCY which transforms the 2,3-epoxide of
squalene to compounds such as, lanosterol in mammals and
fungi or, cycloartenol in plants. Deletion of a single
glycine residue of Alicyclobacillus acidocaldarius SQCY
alters its substrate specificity into that of eukaryotic
OSQCY. Both enzymes have a second minor domain, which
forms an alpha-alpha barrel that is inserted into the
major domain.
Length = 634
Score = 25.6 bits (57), Expect = 3.6
Identities = 10/29 (34%), Positives = 14/29 (48%)
Query: 57 SGGWWFESKSNLGNPSFYRSSDFYRNIYT 85
G W E + +G P+FY YRN +
Sbjct: 599 DGDWPQEEITGVGFPNFYIRYHNYRNYFP 627
>gnl|CDD|192528 pfam10307, DUF2410, Hypothetical protein (DUF2410). This is a
family of proteins conserved in fungi. The function is
not known.There are two characteristic sequence motifs,
GGWW and TGR.
Length = 200
Score = 25.3 bits (56), Expect = 4.0
Identities = 9/25 (36%), Positives = 13/25 (52%), Gaps = 1/25 (4%)
Query: 40 WSKRMTSGAVVSVVDFGSGGWWFES 64
W+ T G + S F +GGWW +
Sbjct: 10 WNGP-TIGLLQSPESFANGGWWHDP 33
>gnl|CDD|212950 cd12017, SH3_Tks_3, Third Src homology 3 domain of Tyrosine
kinase substrate (Tks) proteins. Tks proteins are Src
substrates and scaffolding proteins that play important
roles in the formation of podosomes and invadopodia,
the dynamic actin-rich structures that are related to
cell migration and cancer cell invasion. Vertebrates
contain two Tks proteins, Tks4 (Tyr kinase substrate
with four SH3 domains) and Tks5 (Tyr kinase substrate
with five SH3 domains), which display partially
overlapping but non-redundant functions. Both associate
with the ADAMs family of transmembrane
metalloproteases, which function as sheddases and
mediators of cell and matrix interactions. Tks5
interacts with N-WASP and Nck, while Tks4 is essential
for the localization of MT1-MMP (membrane-type 1 matrix
metalloproteinase) to invadopodia. Tks proteins contain
an N-terminal Phox homology (PX) domain and four or
five SH3 domains. This model characterizes the third
SH3 domain of Tks proteins. SH3 domains are protein
interaction domains that bind to proline-rich ligands
with moderate affinity and selectivity, preferentially
to PxxP motifs. They play versatile and diverse roles
in the cell including the regulation of enzymes,
changing the subcellular localization of signaling
pathway components, and mediating the formation of
multiprotein complex assemblies.
Length = 53
Score = 24.3 bits (53), Expect = 4.4
Identities = 7/17 (41%), Positives = 9/17 (52%)
Query: 46 SGAVVSVVDFGSGGWWF 62
G V V+D GWW+
Sbjct: 20 KGQKVEVIDKNPSGWWY 36
>gnl|CDD|212790 cd11856, SH3_p47phox_like, Src homology 3 domains of the p47phox
subunit of NADPH oxidase and similar domains. This
family is composed of the tandem SH3 domains of p47phox
subunit of NADPH oxidase and Nox Organizing protein 1
(NoxO1), the four SH3 domains of Tks4 (Tyr kinase
substrate with four SH3 domains), the five SH3 domains
of Tks5, the SH3 domain of obscurin, Myosin-I, and
similar domains. Most members of this group also
contain Phox homology (PX) domains, except for obscurin
and Myosin-I. p47phox and NoxO1 are regulators of the
phagocytic NADPH oxidase complex (also called Nox2 or
gp91phox) and nonphagocytic NADPH oxidase Nox1,
respectively. They play roles in the activation of
their respective NADPH oxidase, which catalyzes the
transfer of electrons from NADPH to molecular oxygen to
form superoxide. Tks proteins are Src substrates and
scaffolding proteins that play important roles in the
formation of podosomes and invadopodia, the dynamic
actin-rich structures that are related to cell
migration and cancer cell invasion. Obscurin is a giant
muscle protein that plays important roles in the
organization and assembly of the myofibril and the
sarcoplasmic reticulum. Type I myosins (Myosin-I) are
actin-dependent motors in endocytic actin structures
and actin patches. They play roles in membrane traffic
in endocytic and secretory pathways, cell motility, and
mechanosensing. Myosin-I contains an N-terminal
actin-activated ATPase, a phospholipid-binding TH1
(tail homology 1) domain, and a C-terminal extension
which includes an F-actin-binding TH2 domain, an SH3
domain, and an acidic peptide that participates in
activating the Arp2/3complex. The SH3 domain of
myosin-I is required for myosin-I-induced actin
polymerization. SH3 domains are protein interaction
domains that bind to proline-rich ligands with moderate
affinity and selectivity, preferentially to PxxP
motifs. They play versatile and diverse roles in the
cell including the regulation of enzymes, changing the
subcellular localization of signaling pathway
components, and mediating the formation of multiprotein
complex assemblies.
Length = 53
Score = 24.1 bits (53), Expect = 5.6
Identities = 7/16 (43%), Positives = 10/16 (62%)
Query: 47 GAVVSVVDFGSGGWWF 62
G VV V++ GWW+
Sbjct: 21 GEVVEVLEKNDSGWWY 36
>gnl|CDD|213008 cd12075, SH3_Tks4_1, First Src homology 3 domain of Tyrosine
kinase substrate with four SH3 domains. Tks4, also
called SH3 and PX domain-containing protein 2B
(SH3PXD2B) or HOFI, is a Src substrate and scaffolding
protein that plays an important role in the formation
of podosomes and invadopodia, the dynamic actin-rich
structures that are related to cell migration and
cancer cell invasion. It is required in the formation
of functional podosomes, EGF-induced membrane ruffling,
and lamellipodia generation. It plays an important role
in cellular attachment and cell spreading. Tks4 is
essential for the localization of MT1-MMP
(membrane-type 1 matrix metalloproteinase) to
invadopodia. It contains an N-terminal Phox homology
(PX) domain and four SH3 domains. This model
characterizes the first SH3 domain of Tks4. SH3 domains
are protein interaction domains that bind to
proline-rich ligands with moderate affinity and
selectivity, preferentially to PxxP motifs. They play
versatile and diverse roles in the cell including the
regulation of enzymes, changing the subcellular
localization of signaling pathway components, and
mediating the formation of multiprotein complex
assemblies.
Length = 55
Score = 23.9 bits (51), Expect = 6.5
Identities = 8/21 (38%), Positives = 13/21 (61%)
Query: 47 GAVVSVVDFGSGGWWFESKSN 67
G VV +++ GWWF S ++
Sbjct: 22 GQVVDIIEKNESGWWFVSTAD 42
>gnl|CDD|213007 cd12074, SH3_Tks5_1, First Src homology 3 domain of Tyrosine
kinase substrate with five SH3 domains. Tks5, also
called SH3 and PX domain-containing protein 2A
(SH3PXD2A) or Five SH (FISH), is a scaffolding protein
and Src substrate that is localized in podosomes, which
are electron-dense structures found in Src-transformed
fibroblasts, osteoclasts, macrophages, and some
invasive cancer cells. It binds and regulates some
members of the ADAMs family of transmembrane
metalloproteases, which function as sheddases and
mediators of cell and matrix interactions. It is
required for podosome formation, degradation of the
extracellular matrix, and cancer cell invasion. Tks5
contains an N-terminal Phox homology (PX) domain and
five SH3 domains. This model characterizes the first
SH3 domain of Tks5. SH3 domains are protein interaction
domains that bind to proline-rich ligands with moderate
affinity and selectivity, preferentially to PxxP
motifs. They play versatile and diverse roles in the
cell including the regulation of enzymes, changing the
subcellular localization of signaling pathway
components, and mediating the formation of multiprotein
complex assemblies.
Length = 53
Score = 23.9 bits (51), Expect = 6.9
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 44 MTSGAVVSVVDFGSGGWWFESKS 66
+ +G VV V++ GWWF S +
Sbjct: 18 LQAGEVVDVIEKNESGWWFVSTA 40
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
0.321 0.135 0.438
Gapped
Lambda K H
0.267 0.0722 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,754,408
Number of extensions: 377127
Number of successful extensions: 354
Number of sequences better than 10.0: 1
Number of HSP's gapped: 354
Number of HSP's successfully gapped: 24
Length of query: 91
Length of database: 10,937,602
Length adjustment: 58
Effective length of query: 33
Effective length of database: 8,365,070
Effective search space: 276047310
Effective search space used: 276047310
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 (21.9 bits)
S2: 53 (24.2 bits)