RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13120
(384 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 = 112 bits (283), Expect = 8e-31
Identities = 47/102 (46%), Positives = 61/102 (59%), Gaps = 4/102 (3%)
Query: 185 SYSASVPENISVGATVLQVSATDLDDGINGRVRYTIISGDDNHDLTISEDNGLLRIAKNL 244
SY SVPEN G VL VSATD D G NG V Y+I+SG+++ +I G + AK L
Sbjct: 1 SYEVSVPENAPPGTVVLTVSATDPDSGENGEVTYSIVSGNEDGLFSIDPSTGEITTAKPL 60
Query: 245 NYERKAQYSLTIQAEDCGGDTEERIRFDTATVSILVSDINDN 286
+ E ++ Y+LT+ A D GG TATV+I V D+NDN
Sbjct: 61 DREEQSSYTLTVTATDGGGPP----LSSTATVTITVLDVNDN 98
Score = 105 bits (264), Expect = 4e-28
Identities = 43/96 (44%), Positives = 57/96 (59%), Gaps = 1/96 (1%)
Query: 83 ETTIPENSPLNTVVAALKAIDRDEGQNSYVEYSII-NSEATPFSLGPVDGLLRVAQKLDR 141
E ++PEN+P TVV + A D D G+N V YSI+ +E FS+ P G + A+ LDR
Sbjct: 3 EVSVPENAPPGTVVLTVSATDPDSGENGEVTYSIVSGNEDGLFSIDPSTGEITTAKPLDR 62
Query: 142 EIKSNYTLEIKAKDRGEPSKSSRTKFFIRLLDENDN 177
E +S+YTL + A D G P SS I +LD NDN
Sbjct: 63 EEQSSYTLTVTATDGGGPPLSSTATVTITVLDVNDN 98
Score = 90.1 bits (224), Expect = 3e-22
Identities = 39/74 (52%), Positives = 52/74 (70%), Gaps = 3/74 (4%)
Query: 1 DNGRLEYSIVSGDDEEIFTINPSNGTLSNLKHLDRETKSSYNLVVMATDMAKPPQKRLSS 60
+NG + YSIVSG+++ +F+I+PS G ++ K LDRE +SSY L V ATD PP LSS
Sbjct: 28 ENGEVTYSIVSGNEDGLFSIDPSTGEITTAKPLDREEQSSYTLTVTATDGGGPP---LSS 84
Query: 61 TTQVSIVIRDVNDN 74
T V+I + DVNDN
Sbjct: 85 TATVTITVLDVNDN 98
Score = 75.0 bits (185), Expect = 6e-17
Identities = 33/91 (36%), Positives = 43/91 (47%), Gaps = 14/91 (15%)
Query: 294 PYLALVNENTLPGPSFRIMTVQAHDADSLPFNGLVRYFLKDSGASSGNSQTQGGTGDLFR 353
Y V EN PG ++TV A D DS NG V Y + G LF
Sbjct: 1 SYEVSVPENAPPG--TVVLTVSATDPDS-GENGEVTYSI-----------VSGNEDGLFS 46
Query: 354 VNSTTGDIYLLKSLDREKQAEYLLTLQAMDS 384
++ +TG+I K LDRE+Q+ Y LT+ A D
Sbjct: 47 IDPSTGEITTAKPLDREEQSSYTLTVTATDG 77
>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 = 91.3 bits (227), Expect = 5e-23
Identities = 38/76 (50%), Positives = 52/76 (68%), Gaps = 3/76 (3%)
Query: 1 DNGRLEYSIVSGDDEEIFTINPSNGTLSNLKHLDRETKSSYNLVVMATDMAKPPQKRLSS 60
+NG++ YSI+SG+D+ +F+I+P G ++ K LDRE + Y L V ATD PP LSS
Sbjct: 9 ENGKVTYSILSGNDDGLFSIDPETGEITTTKPLDREEQPEYTLTVEATDGGGPP---LSS 65
Query: 61 TTQVSIVIRDVNDNAP 76
T V+I + DVNDNAP
Sbjct: 66 TATVTITVLDVNDNAP 81
Score = 86.2 bits (214), Expect = 4e-21
Identities = 37/85 (43%), Positives = 53/85 (62%), Gaps = 4/85 (4%)
Query: 204 SATDLDDGINGRVRYTIISGDDNHDLTISEDNGLLRIAKNLNYERKAQYSLTIQAEDCGG 263
SATD D G NG+V Y+I+SG+D+ +I + G + K L+ E + +Y+LT++A D GG
Sbjct: 1 SATDADSGENGKVTYSILSGNDDGLFSIDPETGEITTTKPLDREEQPEYTLTVEATDGGG 60
Query: 264 DTEERIRFDTATVSILVSDINDNYP 288
TATV+I V D+NDN P
Sbjct: 61 ----PPLSSTATVTITVLDVNDNAP 81
Score = 85.5 bits (212), Expect = 7e-21
Identities = 33/81 (40%), Positives = 44/81 (54%), Gaps = 1/81 (1%)
Query: 100 KAIDRDEGQNSYVEYSII-NSEATPFSLGPVDGLLRVAQKLDREIKSNYTLEIKAKDRGE 158
A D D G+N V YSI+ ++ FS+ P G + + LDRE + YTL ++A D G
Sbjct: 1 SATDADSGENGKVTYSILSGNDDGLFSIDPETGEITTTKPLDREEQPEYTLTVEATDGGG 60
Query: 159 PSKSSRTKFFIRLLDENDNNP 179
P SS I +LD NDN P
Sbjct: 61 PPLSSTATVTITVLDVNDNAP 81
Score = 57.4 bits (139), Expect = 8e-11
Identities = 27/70 (38%), Positives = 34/70 (48%), Gaps = 12/70 (17%)
Query: 315 QAHDADSLPFNGLVRYFLKDSGASSGNSQTQGGTGDLFRVNSTTGDIYLLKSLDREKQAE 374
A DADS NG V Y + G LF ++ TG+I K LDRE+Q E
Sbjct: 1 SATDADS-GENGKVTYSI-----------LSGNDDGLFSIDPETGEITTTKPLDREEQPE 48
Query: 375 YLLTLQAMDS 384
Y LT++A D
Sbjct: 49 YTLTVEATDG 58
>gnl|CDD|215665 pfam00028, Cadherin, Cadherin domain.
Length = 92
Score = 90.8 bits (226), Expect = 1e-22
Identities = 43/95 (45%), Positives = 51/95 (53%), Gaps = 4/95 (4%)
Query: 186 YSASVPENISVGATVLQVSATDLDDGINGRVRYTIISGDDNHDLTISEDNGLLRIAKNLN 245
YSASVPEN VG VL V+ATD D G NGR+ Y+I+ G I D G L K L+
Sbjct: 1 YSASVPENAPVGTEVLTVTATDADLGPNGRIFYSILGGGPGGWFRIDPDTGDLSTTKPLD 60
Query: 246 YERKAQYSLTIQAEDCGGDTEERIRFDTATVSILV 280
E +Y LT+ A D GG T TV+I V
Sbjct: 61 RESIGEYELTVLATDSGG----PPLSSTTTVTITV 91
Score = 83.5 bits (207), Expect = 5e-20
Identities = 33/89 (37%), Positives = 44/89 (49%), Gaps = 1/89 (1%)
Query: 85 TIPENSPLNTVVAALKAIDRDEGQNSYVEYSIINSEATP-FSLGPVDGLLRVAQKLDREI 143
++PEN+P+ T V + A D D G N + YSI+ F + P G L + LDRE
Sbjct: 4 SVPENAPVGTEVLTVTATDADLGPNGRIFYSILGGGPGGWFRIDPDTGDLSTTKPLDRES 63
Query: 144 KSNYTLEIKAKDRGEPSKSSRTKFFIRLL 172
Y L + A D G P SS T I +L
Sbjct: 64 IGEYELTVLATDSGGPPLSSTTTVTITVL 92
Score = 74.3 bits (183), Expect = 1e-16
Identities = 32/68 (47%), Positives = 39/68 (57%), Gaps = 3/68 (4%)
Query: 1 DNGRLEYSIVSGDDEEIFTINPSNGTLSNLKHLDRETKSSYNLVVMATDMAKPPQKRLSS 60
NGR+ YSI+ G F I+P G LS K LDRE+ Y L V+ATD PP SS
Sbjct: 27 PNGRIFYSILGGGPGGWFRIDPDTGDLSTTKPLDRESIGEYELTVLATDSGGPPL---SS 83
Query: 61 TTQVSIVI 68
TT V+I +
Sbjct: 84 TTTVTITV 91
Score = 68.1 bits (167), Expect = 2e-14
Identities = 36/90 (40%), Positives = 44/90 (48%), Gaps = 14/90 (15%)
Query: 295 YLALVNENTLPGPSFRIMTVQAHDADSLPFNGLVRYFLKDSGASSGNSQTQGGTGDLFRV 354
Y A V EN G ++TV A DAD P NG + Y + GG G FR+
Sbjct: 1 YSASVPENAPVGT--EVLTVTATDADLGP-NGRIFYSI-----------LGGGPGGWFRI 46
Query: 355 NSTTGDIYLLKSLDREKQAEYLLTLQAMDS 384
+ TGD+ K LDRE EY LT+ A DS
Sbjct: 47 DPDTGDLSTTKPLDRESIGEYELTVLATDS 76
>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 = 35.0 bits (80), Expect = 0.010
Identities = 24/95 (25%), Positives = 38/95 (40%), Gaps = 3/95 (3%)
Query: 85 TIPENSPLNTVVAALKAIDRDEGQNSYVEYSIINSEATP--FSLGPVDGLLRVAQKLDRE 142
+ E + ++ D ++ S EA P P G+L +KLDRE
Sbjct: 5 SAVEGRSRGSFRVSIPT-DLIASSGEIIKISAAGKEALPSWLHWEPHSGILEGLEKLDRE 63
Query: 143 IKSNYTLEIKAKDRGEPSKSSRTKFFIRLLDENDN 177
K + + + A G + + F I + DENDN
Sbjct: 64 DKGVHYISVSAASLGANVPQTSSVFSIEVYDENDN 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 = 30.7 bits (70), Expect = 0.37
Identities = 21/77 (27%), Positives = 36/77 (46%), Gaps = 26/77 (33%)
Query: 323 PFNGLVRYFLKD-------------SGA----SSGNSQTQGGTGDLFRVNSTTGDIYLLK 365
P G + YF+ + +GA S +S T F VN+ G++Y L+
Sbjct: 24 PEAGSLEYFVSEESKNQKPRGSLPLAGAVISPSDEDSHT-------FTVNAANGEMYKLR 76
Query: 366 SLD-REKQAEYLLTLQA 381
+ D +E+Q E++ L+A
Sbjct: 77 AADAKERQ-EWVNRLRA 92
>gnl|CDD|237397 PRK13488, PRK13488, chemoreceptor glutamine deamidase CheD;
Provisional.
Length = 157
Score = 28.7 bits (65), Expect = 2.8
Identities = 13/45 (28%), Positives = 23/45 (51%), Gaps = 2/45 (4%)
Query: 242 KNLNYERK--AQYSLTIQAEDCGGDTEERIRFDTATVSILVSDIN 284
+N+ ++ + + I AED GGD ++FD T ++V N
Sbjct: 107 RNIESAKETLKKLGIRIVAEDVGGDYGRTVKFDLKTGKVIVRKAN 151
>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 = 27.2 bits (61), Expect = 4.5
Identities = 22/94 (23%), Positives = 38/94 (40%), Gaps = 10/94 (10%)
Query: 179 PIFDSKSYSASVPENISVGATVLQVSATDLDDGINGRVRYTIISGDDNHDLTISEDNGLL 238
P F + Y+ VP ++ G + +V+ + G R S D D + ED G +
Sbjct: 3 PGFSEEKYTFHVPSHLEAGQPLGRVNFEECL----GSARLQFESSDP--DFRVLED-GTV 55
Query: 239 RIAKNL-NYERKAQYSLTIQAEDCGGDTEERIRF 271
+ + K S T+ A D G ++ I+
Sbjct: 56 YATRPVSLSSEKK--SFTVLAWDSQGQEKKEIKV 87
>gnl|CDD|217825 pfam03975, CheD, CheD chemotactic sensory transduction. This
chemotaxis protein stimulates methylation of MCP
proteins. The chemotaxis machinery of Bacillus subtilis
is similar to that of the well characterized system of
Escherichia coli. However, B. subtilis contains several
chemotaxis genes not found in the E. coli genome, such
as CheC and CheD, indicating that the B. subtilis
chemotactic system is more complex. CheD plays an
important role in chemotactic sensory transduction for
many organisms. CheD deamidates other B. subtilis
chemoreceptors including McpB and McpC. Deamidation by
CheD is required for B. subtilis chemoreceptors to
effectively transduce signals to the CheA kinase. The
structure of a complex between the signal-terminating
phosphatase, CheC, and the receptor-modifying deamidase,
CheD, reveals how CheC mimics receptor substrates to
inhibit CheD and how CheD stimulates CheC phosphatase
activity. CheD resembles other cysteine deamidases from
bacterial pathogens that inactivate host Rho-GTPases.
Phospho-CheY, the intracellular signal and CheC target,
stabilises the CheC-CheD complex and reduces
availability of CheD. A model is proposed whereby CheC
acts as a CheY-P-induced regulator of CheD; CheY-P would
cause CheC to sequester CheD from the chemoreceptors,
inducing adaptation of the chemotaxis system.
Length = 111
Score = 27.5 bits (62), Expect = 5.4
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 250 AQYSLTIQAEDCGGDTEERIRFDTAT 275
+ + I AED GG+ I FD AT
Sbjct: 73 KKEGIPIVAEDLGGNYGRTIEFDPAT 98
>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 = 26.9 bits (60), Expect = 5.8
Identities = 20/103 (19%), Positives = 38/103 (36%), Gaps = 17/103 (16%)
Query: 179 PIFDSKSYSASVPENISVGATVLQVSATDLDDGINGRVRYTIISGDDNHDLTISEDNGLL 238
P F + Y+ VP + G + +V D GR R S D + + ++G +
Sbjct: 4 PGFSEEVYTFLVPRRLEEGQPLGRVKFNDCK----GRRRIQYESSDPDFKV---NEDGTV 56
Query: 239 RIAKNL-NYERKAQYSLTIQAEDCGGDTEERIRFDTATVSILV 280
+++ + + S + A D + A V + V
Sbjct: 57 YAKRSVTLHSEQK--SFLVHAWDSETR-------EMAEVKVTV 90
>gnl|CDD|184986 PRK15026, PRK15026, aminoacyl-histidine dipeptidase; Provisional.
Length = 485
Score = 28.5 bits (63), Expect = 7.9
Identities = 27/86 (31%), Positives = 39/86 (45%), Gaps = 7/86 (8%)
Query: 142 EIKSNYTLEIK--AKDRGEPSKSSRTKFFIRLLDENDNNPIFDSKSYSASVPENISVGAT 199
E + N L + A D+ SR F IRLL+ N I +S V +++VG
Sbjct: 293 EKEKNLALLLDSVANDKAALIAKSRDTF-IRLLNATPNGVIRNSDVAKGVVETSLNVGV- 350
Query: 200 VLQVSATDLDDGINGRVRYTIISGDD 225
V+ TD + I+ +R I SG D
Sbjct: 351 ---VTMTDNNVEIHCLIRSLIDSGKD 373
>gnl|CDD|203892 pfam08266, Cadherin_2, Cadherin-like. This cadherin domain is
usually the most N-terminal copy of the domain.
Length = 84
Score = 26.3 bits (59), Expect = 8.6
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 9 IVSGDDEEIFTINPSNGTLSNLKHLDRE 36
IVSG +++ F +NP G L + +DRE
Sbjct: 38 IVSGGNKQYFQLNPETGDLLVNERIDRE 65
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
0.312 0.131 0.359
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: 18,991,634
Number of extensions: 1808468
Number of successful extensions: 1121
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1111
Number of HSP's successfully gapped: 29
Length of query: 384
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 285
Effective length of database: 6,546,556
Effective search space: 1865768460
Effective search space used: 1865768460
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 (21.8 bits)
S2: 60 (26.9 bits)