RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6838
(442 letters)
>gnl|CDD|206637 cd11304, Cadherin_repeat, Cadherin tandem repeat domain. Cadherins
are glycoproteins involved in Ca2+-mediated cell-cell
adhesion. The cadherin repeat domains occur as tandem
repeats in the extracellular regions, which are thought
to mediate cell-cell contact when bound to calcium. They
play numerous roles in cell fate, signalling,
proliferation, differentiation, and migration; members
include E-, N-, P-, T-, VE-, CNR-, proto-, and
FAT-family cadherin, desmocollin, and desmoglein, a
large variety of domain architectures with varying
repeat copy numbers. Cadherin-repeat containing proteins
exist as monomers, homodimers, or heterodimers.
Length = 98
Score = 107 bits (269), Expect = 2e-28
Identities = 44/98 (44%), Positives = 55/98 (56%)
Query: 297 VYAFDVLEDLPRGSRVGQVFTTDADEGVNGVVTYSVVSDWANDVFSINPQSGIFTLTAKL 356
Y V E+ P G+ V V TD D G NG VTYS+VS + +FSI+P +G T L
Sbjct: 1 SYEVSVPENAPPGTVVLTVSATDPDSGENGEVTYSIVSGNEDGLFSIDPSTGEITTAKPL 60
Query: 357 DYEDVHHYIFVVQAQDTGKPMMSSTVTVYFNVVDLNDN 394
D E+ Y V A D G P +SST TV V+D+NDN
Sbjct: 61 DREEQSSYTLTVTATDGGGPPLSSTATVTITVLDVNDN 98
Score = 102 bits (256), Expect = 1e-26
Identities = 43/96 (44%), Positives = 57/96 (59%), Gaps = 1/96 (1%)
Query: 163 ETTIPENSPLNTVVAALKAIDRDEGQNSYVEYSII-NSEATPFSLGPVDGLLRVAQKLDR 221
E ++PEN+P TVV + A D D G+N V YSI+ +E FS+ P G + A+ LDR
Sbjct: 3 EVSVPENAPPGTVVLTVSATDPDSGENGEVTYSIVSGNEDGLFSIDPSTGEITTAKPLDR 62
Query: 222 EIKSNYTLEIKAKDRGEPSKSSRTKFFIRLLDENDN 257
E +S+YTL + A D G P SS I +LD NDN
Sbjct: 63 EEQSSYTLTVTATDGGGPPLSSTATVTITVLDVNDN 98
Score = 97.8 bits (244), Expect = 6e-25
Identities = 52/140 (37%), Positives = 65/140 (46%), Gaps = 42/140 (30%)
Query: 15 VYAFDVLEDLPRGSRVGQVFTTDADEGVNGVVTYSVVSDWANDVFSINPQSGIFTLTAKL 74
Y V E+ P G+ V V TD D G NG VTYS
Sbjct: 1 SYEVSVPENAPPGTVVLTVSATDPDSGENGEVTYS------------------------- 35
Query: 75 DYEDVSDNGRLEYSIVSGDDEEIFTINPSNGTLSNLKHLDRETKSSYNLVVMATDMAKPP 134
IVSG+++ +F+I+PS G ++ K LDRE +SSY L V ATD PP
Sbjct: 36 --------------IVSGNEDGLFSIDPSTGEITTAKPLDREEQSSYTLTVTATDGGGPP 81
Query: 135 QKRLSSTTQVSIVIRDVNDN 154
LSST V+I + DVNDN
Sbjct: 82 ---LSSTATVTITVLDVNDN 98
Score = 28.4 bits (64), Expect = 2.2
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 404 NIPVYENVTLGTGLASVHAVDLDSG 428
+ V EN GT + +V A D DSG
Sbjct: 3 EVSVPENAPPGTVVLTVSATDPDSG 27
>gnl|CDD|214520 smart00112, CA, Cadherin repeats. Cadherins are glycoproteins
involved in Ca2+-mediated cell-cell adhesion. Cadherin
domains occur as repeats in the extracellular regions
which are thought to mediate cell-cell contact when
bound to calcium.
Length = 81
Score = 91.6 bits (228), Expect = 6e-23
Identities = 39/79 (49%), Positives = 51/79 (64%)
Query: 318 TDADEGVNGVVTYSVVSDWANDVFSINPQSGIFTLTAKLDYEDVHHYIFVVQAQDTGKPM 377
TDAD G NG VTYS++S + +FSI+P++G T T LD E+ Y V+A D G P
Sbjct: 3 TDADSGENGKVTYSILSGNDDGLFSIDPETGEITTTKPLDREEQPEYTLTVEATDGGGPP 62
Query: 378 MSSTVTVYFNVVDLNDNPP 396
+SST TV V+D+NDN P
Sbjct: 63 LSSTATVTITVLDVNDNAP 81
Score = 90.9 bits (226), Expect = 1e-22
Identities = 39/80 (48%), Positives = 53/80 (66%), Gaps = 3/80 (3%)
Query: 77 EDVSDNGRLEYSIVSGDDEEIFTINPSNGTLSNLKHLDRETKSSYNLVVMATDMAKPPQK 136
D +NG++ YSI+SG+D+ +F+I+P G ++ K LDRE + Y L V ATD PP
Sbjct: 5 ADSGENGKVTYSILSGNDDGLFSIDPETGEITTTKPLDREEQPEYTLTVEATDGGGPP-- 62
Query: 137 RLSSTTQVSIVIRDVNDNAP 156
LSST V+I + DVNDNAP
Sbjct: 63 -LSSTATVTITVLDVNDNAP 81
Score = 83.2 bits (206), Expect = 7e-20
Identities = 33/81 (40%), Positives = 44/81 (54%), Gaps = 1/81 (1%)
Query: 180 KAIDRDEGQNSYVEYSII-NSEATPFSLGPVDGLLRVAQKLDREIKSNYTLEIKAKDRGE 238
A D D G+N V YSI+ ++ FS+ P G + + LDRE + YTL ++A D G
Sbjct: 1 SATDADSGENGKVTYSILSGNDDGLFSIDPETGEITTTKPLDREEQPEYTLTVEATDGGG 60
Query: 239 PSKSSRTKFFIRLLDENDNNP 259
P SS I +LD NDN P
Sbjct: 61 PPLSSTATVTITVLDVNDNAP 81
>gnl|CDD|215665 pfam00028, Cadherin, Cadherin domain.
Length = 92
Score = 87.0 bits (216), Expect = 4e-21
Identities = 36/91 (39%), Positives = 48/91 (52%)
Query: 298 YAFDVLEDLPRGSRVGQVFTTDADEGVNGVVTYSVVSDWANDVFSINPQSGIFTLTAKLD 357
Y+ V E+ P G+ V V TDAD G NG + YS++ F I+P +G + T LD
Sbjct: 1 YSASVPENAPVGTEVLTVTATDADLGPNGRIFYSILGGGPGGWFRIDPDTGDLSTTKPLD 60
Query: 358 YEDVHHYIFVVQAQDTGKPMMSSTVTVYFNV 388
E + Y V A D+G P +SST TV V
Sbjct: 61 RESIGEYELTVLATDSGGPPLSSTTTVTITV 91
Score = 82.0 bits (203), Expect = 3e-19
Identities = 33/89 (37%), Positives = 44/89 (49%), Gaps = 1/89 (1%)
Query: 165 TIPENSPLNTVVAALKAIDRDEGQNSYVEYSIINSEATP-FSLGPVDGLLRVAQKLDREI 223
++PEN+P+ T V + A D D G N + YSI+ F + P G L + LDRE
Sbjct: 4 SVPENAPVGTEVLTVTATDADLGPNGRIFYSILGGGPGGWFRIDPDTGDLSTTKPLDRES 63
Query: 224 KSNYTLEIKAKDRGEPSKSSRTKFFIRLL 252
Y L + A D G P SS T I +L
Sbjct: 64 IGEYELTVLATDSGGPPLSSTTTVTITVL 92
Score = 80.0 bits (198), Expect = 2e-18
Identities = 44/133 (33%), Positives = 54/133 (40%), Gaps = 42/133 (31%)
Query: 16 YAFDVLEDLPRGSRVGQVFTTDADEGVNGVVTYSVVSDWANDVFSINPQSGIFTLTAKLD 75
Y+ V E+ P G+ V V TDAD G
Sbjct: 1 YSASVPENAPVGTEVLTVTATDADLG---------------------------------- 26
Query: 76 YEDVSDNGRLEYSIVSGDDEEIFTINPSNGTLSNLKHLDRETKSSYNLVVMATDMAKPPQ 135
NGR+ YSI+ G F I+P G LS K LDRE+ Y L V+ATD PP
Sbjct: 27 -----PNGRIFYSILGGGPGGWFRIDPDTGDLSTTKPLDRESIGEYELTVLATDSGGPPL 81
Query: 136 KRLSSTTQVSIVI 148
SSTT V+I +
Sbjct: 82 ---SSTTTVTITV 91
>gnl|CDD|206635 cd00031, CA_like, Cadherin repeat-like domain. Cadherins are
glycoproteins involved in Ca2+-mediated cell-cell
adhesion. The cadherin repeat domains occur as tandem
repeats in the extracellular regions, which are thought
to mediate cell-cell contact when bound to calcium. They
play numerous roles in cell fate, signalling,
proliferation, differentiation, and migration; members
include E-, N-, P-, T-, VE-, CNR-, proto-, and
FAT-family cadherin, desmocollin, and desmoglein, a
large variety of domain architectures with varying
repeat copy numbers. Cadherin-repeat containing proteins
exist as monomers, homodimers, or heterodimers. This
family also includes the cadherin-like repeats of
extracellular alpha-dystroglycan.
Length = 98
Score = 34.6 bits (79), Expect = 0.014
Identities = 24/95 (25%), Positives = 38/95 (40%), Gaps = 3/95 (3%)
Query: 165 TIPENSPLNTVVAALKAIDRDEGQNSYVEYSIINSEATP--FSLGPVDGLLRVAQKLDRE 222
+ E + ++ D ++ S EA P P G+L +KLDRE
Sbjct: 5 SAVEGRSRGSFRVSIPT-DLIASSGEIIKISAAGKEALPSWLHWEPHSGILEGLEKLDRE 63
Query: 223 IKSNYTLEIKAKDRGEPSKSSRTKFFIRLLDENDN 257
K + + + A G + + F I + DENDN
Sbjct: 64 DKGVHYISVSAASLGANVPQTSSVFSIEVYDENDN 98
Score = 34.6 bits (79), Expect = 0.017
Identities = 22/93 (23%), Positives = 31/93 (33%)
Query: 302 VLEDLPRGSRVGQVFTTDADEGVNGVVTYSVVSDWANDVFSINPQSGIFTLTAKLDYEDV 361
+E RGS + T + + + P SGI KLD ED
Sbjct: 6 AVEGRSRGSFRVSIPTDLIASSGEIIKISAAGKEALPSWLHWEPHSGILEGLEKLDREDK 65
Query: 362 HHYIFVVQAQDTGKPMMSSTVTVYFNVVDLNDN 394
+ V A G + ++ V D NDN
Sbjct: 66 GVHYISVSAASLGANVPQTSSVFSIEVYDENDN 98
>gnl|CDD|241445 cd13291, PH_ORP10_ORP11, Human Oxysterol binding protein (OSBP)
related proteins 10 and 11 (ORP10 and ORP11) Pleckstrin
homology (PH) domain. Human ORP10 is involvedt in
intracellular transport or organelle positioning and is
proposed to function as a regulator of cellular lipid
metabolism. Human ORP11 localizes at the Golgi-late
endosome interface and is thought to form a dimer with
ORP9 functioning as an intracellular lipid sensor or
transporter. Both ORP10 and ORP11 contain a N-terminal
PH domain, a FFAT motif (two phenylalanines in an acidic
tract), and a C-terminal OSBP-related domain. Oxysterol
binding proteins are a multigene family that is
conserved in yeast, flies, worms, mammals and plants. In
general OSBPs and ORPs have been found to be involved in
the transport and metabolism of cholesterol and related
lipids in eukaryotes. They all contain a C-terminal
oxysterol binding domain, and most contain an N-terminal
PH domain. OSBP PH domains bind to membrane
phosphoinositides and thus likely play an important role
in intracellular targeting. They are members of the
oxysterol binding protein (OSBP) family which includes
OSBP, OSBP-related proteins (ORP), Goodpasture antigen
binding protein (GPBP), and Four phosphate adaptor
protein 1 (FAPP1). They have a wide range of purported
functions including sterol transport, cell cycle
control, pollen development and vessicle transport from
Golgi recognize both PI lipids and ARF proteins. PH
domains have diverse functions, but in general are
involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from other
PIP-binding domains by their specific high-affinity
binding to PIPs with two vicinal phosphate groups:
PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3 which
results in targeting some PH domain proteins to the
plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 107
Score = 33.8 bits (78), Expect = 0.031
Identities = 22/76 (28%), Positives = 37/76 (48%), Gaps = 18/76 (23%)
Query: 50 VVSDWANDVFSINPQSGIFTLTAKLDYEDVSDNGR---------LEYSIVSGDDEE--IF 98
VV W N F ++P++G L+Y VS+ + L +++S DE+ F
Sbjct: 11 VVKGWQNRWFVLDPEAGS------LEYF-VSEESKNQKPRGSLPLAGAVISPSDEDSHTF 63
Query: 99 TINPSNGTLSNLKHLD 114
T+N +NG + L+ D
Sbjct: 64 TVNAANGEMYKLRAAD 79
>gnl|CDD|214999 smart01055, Cadherin_pro, Cadherin prodomain like. Cadherins are a
family of proteins that mediate calcium dependent
cell-cell adhesion. They are activated through cleavage
of a prosequence in the late Golgi. This domain
corresponds to the folded region of the prosequence, and
is termed the prodomain. The prodomain shows structural
resemblance to the cadherin domain, but lacks all the
features known to be important for cadherin-cadherin
interactions.
Length = 87
Score = 27.6 bits (62), Expect = 3.6
Identities = 17/65 (26%), Positives = 29/65 (44%), Gaps = 14/65 (21%)
Query: 259 PIFDSKSYSASVPENISVGATVLQV--SDTNDNSPVF---SEPVYAFDVLEDLPRGSRVG 313
P F + Y+ VP ++ G + +V + ++ + S+P F VLED G
Sbjct: 3 PGFSEEKYTFHVPSHLEAGQPLGRVNFEECLGSARLQFESSDP--DFRVLED-------G 53
Query: 314 QVFTT 318
V+ T
Sbjct: 54 TVYAT 58
>gnl|CDD|220006 pfam08758, Cadherin_pro, Cadherin prodomain like. Cadherins are a
family of proteins that mediate calcium dependent
cell-cell adhesion. They are activated through cleavage
of a prosequence in the late Golgi. This domain
corresponds to the folded region of the prosequence, and
is termed the prodomain. The prodomain shows structural
resemblance to the cadherin domain, but lacks all the
features known to be important for cadherin-cadherin
interactions.
Length = 90
Score = 27.6 bits (62), Expect = 4.1
Identities = 28/96 (29%), Positives = 37/96 (38%), Gaps = 11/96 (11%)
Query: 291 PVFSEPVYAFDVLEDLPRGSRVGQVFTTDADEGVNGVVTYSVVSDWANDVFSINPQSGIF 350
P FSE VY F V L G +G+V D G + SD F +N ++
Sbjct: 4 PGFSEEVYTFLVPRRLEEGQPLGRVKFNDCK-GRRRI--QYESSDPD---FKVNEDGTVY 57
Query: 351 TL-TAKLDYEDVHHYIFVVQAQD-TGKPMMSSTVTV 384
+ L E F+V A D + M VTV
Sbjct: 58 AKRSVTLHSEQKS---FLVHAWDSETREMAEVKVTV 90
>gnl|CDD|238403 cd00780, NTF2, Nuclear transport factor 2 (NTF2) domain plays an
important role in the trafficking of macromolecules,
ions and small molecules between the cytoplasm and
nucleus. This bi-directional transport of macromolecules
across the nuclear envelope requires many soluble
factors that includes GDP-binding protein Ran (RanGDP).
RanGDP is required for both import and export of
proteins and poly(A) RNA. RanGDP also has been
implicated in cell cycle control, specifically in
mitotic spindle assembly. In interphase cells, RanGDP is
predominately nuclear and thought to be GTP bound, but
it is also present in the cytoplasm, probably in the
GDP-bound state. NTF2 mediates the nuclear import of
RanGDP. NTF2 binds to both RanGDP and FxFG
repeat-containing nucleoporins.
Length = 119
Score = 28.0 bits (63), Expect = 4.8
Identities = 10/43 (23%), Positives = 17/43 (39%), Gaps = 3/43 (6%)
Query: 355 KLDYEDVHHYIFVVQAQDTGKPMMSSTVTVYFNVVDLNDNPPL 397
L ++ H I V +Q T + VT + ++ PP
Sbjct: 54 SLPFQKTKHKITTVDSQPTPSGGVIVMVTGSLKL---DEQPPR 93
>gnl|CDD|235232 PRK04161, PRK04161, tagatose 1,6-diphosphate aldolase; Reviewed.
Length = 329
Score = 28.6 bits (64), Expect = 6.2
Identities = 11/40 (27%), Positives = 18/40 (45%)
Query: 265 SYSASVPENISVGATVLQVSDTNDNSPVFSEPVYAFDVLE 304
+Y + +N S L+ N VFS+ + DVL+
Sbjct: 166 TYDERISDNNSAAYAKLKPHKVNGAMKVFSDKRFGVDVLK 205
>gnl|CDD|173790 cd04077, Peptidases_S8_PCSK9_ProteinaseK_like, Peptidase S8 family
domain in ProteinaseK-like proteins. The peptidase S8
or Subtilase clan of proteases have a Asp/His/Ser
catalytic triad that is not homologous to trypsin. This
CD contains several members of this clan including:
PCSK9 (Proprotein convertase subtilisin/kexin type 9),
Proteinase_K, Proteinase_T, and other subtilisin-like
serine proteases. PCSK9 posttranslationally regulates
hepatic low-density lipoprotein receptors (LDLRs) by
binding to LDLRs on the cell surface, leading to their
degradation. The binding site of PCSK9 has been
localized to the epidermal growth factor-like repeat A
(EGF-A) domain of the LDLR. Characterized Proteinases K
are secreted endopeptidases with a high degree of
sequence conservation. Proteinases K are not
substrate-specific and function in a wide variety of
species in different pathways. It can hydrolyze keratin
and other proteins with subtilisin-like specificity. The
number of calcium-binding motifs found in these differ.
Proteinase T is a novel proteinase from the fungus
Tritirachium album Limber. The amino acid sequence of
proteinase T as deduced from the nucleotide sequence is
about 56% identical to that of proteinase K.
Length = 255
Score = 28.3 bits (64), Expect = 7.7
Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 9/41 (21%)
Query: 255 NDNNPIFDSKSYS-ASVPENISVGATVLQVSDTNDNSPVFS 294
N N D+ +YS AS PE I+VGAT D++D FS
Sbjct: 155 NSNQ---DACNYSPASAPEAITVGAT-----DSDDARASFS 187
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
0.313 0.132 0.374
Gapped
Lambda K H
0.267 0.0746 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 22,438,341
Number of extensions: 2180093
Number of successful extensions: 1436
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1430
Number of HSP's successfully gapped: 35
Length of query: 442
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 342
Effective length of database: 6,502,202
Effective search space: 2223753084
Effective search space used: 2223753084
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 61 (27.2 bits)