RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8618
(232 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 = 102 bits (256), Expect = 3e-28
Identities = 42/99 (42%), Positives = 58/99 (58%), Gaps = 3/99 (3%)
Query: 57 VISVREEQPPGTEVVRARAVDKDDGSNATISYSILKGRDTDGYGVFTIDPISGVIRTKSV 116
+SV E PPGT V+ A D D G N ++YSI+ G + G+F+IDP +G I T
Sbjct: 3 EVSVPENAPPGTVVLTVSATDPDSGENGEVTYSIVSG---NEDGLFSIDPSTGEITTAKP 59
Query: 117 LDHEDRSIYRIAVAATDNGFPSRQTVRLLRVEVLDLNDN 155
LD E++S Y + V ATD G P + + + VLD+NDN
Sbjct: 60 LDREEQSSYTLTVTATDGGGPPLSSTATVTITVLDVNDN 98
Score = 65.0 bits (159), Expect = 7e-14
Identities = 26/46 (56%), Positives = 31/46 (67%)
Query: 1 EISTREPLDREARSSHELVAEARDQGSPPRSSRVAVKISVTDVNDN 46
EI+T +PLDRE +SS+ L A D G PP SS V I+V DVNDN
Sbjct: 53 EITTAKPLDREEQSSYTLTVTATDGGGPPLSSTATVTITVLDVNDN 98
Score = 63.9 bits (156), Expect = 2e-13
Identities = 26/66 (39%), Positives = 38/66 (57%), Gaps = 1/66 (1%)
Query: 163 SLLFKVSASDPDCGVNAMVNYTLGESPSRTNHFYMKSVSGEICISQDLDFESRSSYEFPV 222
+++ VSA+DPD G N V Y++ S + F + +GEI ++ LD E +SSY V
Sbjct: 14 TVVLTVSATDPDSGENGEVTYSI-VSGNEDGLFSIDPSTGEITTAKPLDREEQSSYTLTV 72
Query: 223 VATDRG 228
ATD G
Sbjct: 73 TATDGG 78
>gnl|CDD|215665 pfam00028, Cadherin, Cadherin domain.
Length = 92
Score = 88.9 bits (221), Expect = 4e-23
Identities = 38/94 (40%), Positives = 46/94 (48%), Gaps = 3/94 (3%)
Query: 57 VISVREEQPPGTEVVRARAVDKDDGSNATISYSILKGRDTDGYGVFTIDPISGVIRTKSV 116
SV E P GTEV+ A D D G N I YSIL G G F IDP +G + T
Sbjct: 2 SASVPENAPVGTEVLTVTATDADLGPNGRIFYSILGG---GPGGWFRIDPDTGDLSTTKP 58
Query: 117 LDHEDRSIYRIAVAATDNGFPSRQTVRLLRVEVL 150
LD E Y + V ATD+G P + + + VL
Sbjct: 59 LDRESIGEYELTVLATDSGGPPLSSTTTVTITVL 92
Score = 50.8 bits (122), Expect = 1e-08
Identities = 20/66 (30%), Positives = 34/66 (51%), Gaps = 1/66 (1%)
Query: 163 SLLFKVSASDPDCGVNAMVNYTLGESPSRTNHFYMKSVSGEICISQDLDFESRSSYEFPV 222
+ + V+A+D D G N + Y++ F + +G++ ++ LD ES YE V
Sbjct: 13 TEVLTVTATDADLGPNGRIFYSILGGGPG-GWFRIDPDTGDLSTTKPLDRESIGEYELTV 71
Query: 223 VATDRG 228
+ATD G
Sbjct: 72 LATDSG 77
Score = 50.4 bits (121), Expect = 2e-08
Identities = 19/41 (46%), Positives = 25/41 (60%)
Query: 1 EISTREPLDREARSSHELVAEARDQGSPPRSSRVAVKISVT 41
++ST +PLDRE+ +EL A D G PP SS V I+V
Sbjct: 52 DLSTTKPLDRESIGEYELTVLATDSGGPPLSSTTTVTITVL 92
>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 = 87.4 bits (217), Expect = 1e-22
Identities = 35/84 (41%), Positives = 48/84 (57%), Gaps = 3/84 (3%)
Query: 74 RAVDKDDGSNATISYSILKGRDTDGYGVFTIDPISGVIRTKSVLDHEDRSIYRIAVAATD 133
A D D G N ++YSIL G + G+F+IDP +G I T LD E++ Y + V ATD
Sbjct: 1 SATDADSGENGKVTYSILSG---NDDGLFSIDPETGEITTTKPLDREEQPEYTLTVEATD 57
Query: 134 NGFPSRQTVRLLRVEVLDLNDNRP 157
G P + + + VLD+NDN P
Sbjct: 58 GGGPPLSSTATVTITVLDVNDNAP 81
Score = 65.8 bits (161), Expect = 2e-14
Identities = 27/48 (56%), Positives = 32/48 (66%)
Query: 1 EISTREPLDREARSSHELVAEARDQGSPPRSSRVAVKISVTDVNDNAP 48
EI+T +PLDRE + + L EA D G PP SS V I+V DVNDNAP
Sbjct: 34 EITTTKPLDREEQPEYTLTVEATDGGGPPLSSTATVTITVLDVNDNAP 81
Score = 56.2 bits (136), Expect = 9e-11
Identities = 22/60 (36%), Positives = 31/60 (51%), Gaps = 1/60 (1%)
Query: 169 SASDPDCGVNAMVNYTLGESPSRTNHFYMKSVSGEICISQDLDFESRSSYEFPVVATDRG 228
SA+D D G N V Y++ S + F + +GEI ++ LD E + Y V ATD G
Sbjct: 1 SATDADSGENGKVTYSI-LSGNDDGLFSIDPETGEITTTKPLDREEQPEYTLTVEATDGG 59
>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 = 39.6 bits (92), Expect = 1e-04
Identities = 25/98 (25%), Positives = 41/98 (41%), Gaps = 3/98 (3%)
Query: 58 ISVREEQPPGTEVVRARAVDKDDGSNATISYSILKGRDTDGYGVFTIDPISGVIRTKSVL 117
S E + G+ V + D +++ I +P SG++ L
Sbjct: 4 GSAVEGRSRGSFRVS---IPTDLIASSGEIIKISAAGKEALPSWLHWEPHSGILEGLEKL 60
Query: 118 DHEDRSIYRIAVAATDNGFPSRQTVRLLRVEVLDLNDN 155
D ED+ ++ I+V+A G QT + +EV D NDN
Sbjct: 61 DREDKGVHYISVSAASLGANVPQTSSVFSIEVYDENDN 98
Score = 27.7 bits (61), Expect = 2.2
Identities = 14/41 (34%), Positives = 18/41 (43%)
Query: 6 EPLDREARSSHELVAEARDQGSPPRSSRVAVKISVTDVNDN 46
E LDRE + H + A G+ + I V D NDN
Sbjct: 58 EKLDREDKGVHYISVSAASLGANVPQTSSVFSIEVYDENDN 98
>gnl|CDD|183125 PRK11413, PRK11413, putative hydratase; Provisional.
Length = 751
Score = 32.3 bits (74), Expect = 0.24
Identities = 10/36 (27%), Positives = 18/36 (50%), Gaps = 4/36 (11%)
Query: 67 GTEVV----RARAVDKDDGSNATISYSILKGRDTDG 98
G E++ + K++ TI++SIL +T G
Sbjct: 14 GNEIIAEEHFTGEIKKEEAKKGTIAWSILSSHNTSG 49
>gnl|CDD|235635 PRK05878, PRK05878, pyruvate phosphate dikinase; Provisional.
Length = 530
Score = 30.1 bits (68), Expect = 1.1
Identities = 21/62 (33%), Positives = 27/62 (43%), Gaps = 6/62 (9%)
Query: 5 REPLDREARSSHELVAEARDQGSPPRSSRVAVKISVTDVNDNAPELVDPQEDVISVREEQ 64
R L EAR + L+A+ P V + TDV D A + D E VI VR+
Sbjct: 336 RPSLQPEARLAAPLLAKGL-----PACPGVVSGTAYTDV-DEALDAADRGEPVILVRDHT 389
Query: 65 PP 66
P
Sbjct: 390 RP 391
>gnl|CDD|240313 PTZ00206, PTZ00206, amino acid transporter; Provisional.
Length = 467
Score = 29.8 bits (67), Expect = 1.2
Identities = 18/64 (28%), Positives = 31/64 (48%), Gaps = 2/64 (3%)
Query: 69 EVVRARAVDKDDGSNATISYSILKGRDTDGYGVFTIDPISGVIRTKSVLDHEDRSIYRIA 128
E ++ +V KDD NA I R +G GVF + + + +D +RS+ +
Sbjct: 234 ENIKNVSVGKDD--NAEIILFNSGNRAIEGLGVFIFAYVFQITAYEVYMDMTNRSVGKFV 291
Query: 129 VAAT 132
+A+T
Sbjct: 292 LAST 295
>gnl|CDD|193454 pfam12981, DUF3865, Domain of Unknown Function with PDB structure
(DUF3865). Family based of PDB:3B5P encoded by
ZP_00108531 from nitrogen-fixing cyanobacterium Nostoc
punctiforme pcc 73102 is a CADD-like protein of unknown
function. Superposition between protein structures
encoded by CT610 from Chlamydia trachomatis (PDB code
1rwc), pyrroloquinolinquinone synthase C (PqqC, PDB code
1otv) and ZP_00108531 revealed that putative active
sites in CT610 and ZP_00108531 are identical. ( REF:
http://www.topsan.org/Proteins/JCSG/3B5P).
Length = 231
Score = 29.2 bits (65), Expect = 1.8
Identities = 14/69 (20%), Positives = 28/69 (40%), Gaps = 10/69 (14%)
Query: 150 LDLNDNRPTFTSSSLLFKVSASDPDCGVNAMVNYTLG-----ESPSRTNHFYMKSVSGEI 204
+ + + P+ +S L V + + V+Y LG E+ + + + E
Sbjct: 106 VAVKNTIPSVATSKFLRTVLSL-----FDRQVDYVLGATYAIEATAIPELTLIVELVHEG 160
Query: 205 CISQDLDFE 213
I +DL +E
Sbjct: 161 AIPKDLQYE 169
>gnl|CDD|99812 cd06216, FNR_iron_sulfur_binding_2, Iron-sulfur binding ferredoxin
reductase (FNR) proteins combine the FAD and NAD(P)
binding regions of FNR with an iron-sulfur binding
cluster domain. Ferredoxin-NADP+ (oxido)reductase is an
FAD-containing enzyme that catalyzes the reversible
electron transfer between NADP(H) and electron carrier
proteins such as ferredoxin and flavodoxin. Isoforms of
these flavoproteins (i.e. having a non-covalently bound
FAD as a prosthetic group) are present in chloroplasts,
mitochondria, and bacteria in which they participate in
a wide variety of redox metabolic pathways. The
C-terminal domain contains most of the NADP(H) binding
residues and the N-terminal domain interacts
non-covalently with the isoalloxazine rings of the
flavin molecule which lies largely in a large gap
betweed the two domains. Ferredoxin-NADP+ reductase
first accepts one electron from reduced ferredoxin to
form a flavin semiquinone intermediate. The enzyme then
accepts a second electron to form FADH2 which then
transfers two electrons and a proton to NADP+ to form
NADPH.
Length = 243
Score = 28.7 bits (65), Expect = 2.5
Identities = 23/99 (23%), Positives = 37/99 (37%), Gaps = 19/99 (19%)
Query: 68 TEVVRARAVDKDDGSNATISYSILKGRDTDGY--------GVFTIDPISGVIRTK----- 114
+RAR V + ++ ++ R G+ GV I GV +
Sbjct: 15 ARELRARVVAVRPETADMVTLTLRPNRGWPGHRAGQHVRLGV----EIDGVRHWRSYSLS 70
Query: 115 SVLDHEDRSIYRIAVAATDNGFPSRQTVRLLRV-EVLDL 152
S ED +I + V A +G S V L +V++L
Sbjct: 71 SSPTQEDGTI-TLTVKAQPDGLVSNWLVNHLAPGDVVEL 108
>gnl|CDD|237404 PRK13506, PRK13506, formate--tetrahydrofolate ligase; Provisional.
Length = 578
Score = 28.8 bits (65), Expect = 2.7
Identities = 17/47 (36%), Positives = 21/47 (44%), Gaps = 11/47 (23%)
Query: 98 GYGVFT---------IDPISGVIRTKSVLDHEDRSIYRIAVAATDNG 135
GY F IDP I K V+DH DR++ I V +NG
Sbjct: 155 GYDAFEAQSGLPALDIDPEQ--ILWKRVVDHNDRALRMITVGLGENG 199
>gnl|CDD|241303 cd01273, PTB_CED-6, Cell death protein 6 homolog (CED-6/GULP1)
Phosphotyrosine-binding (PTB) domain. CED6 (also known
as GULP1: engulfment adaptor PTB domain containing 1) is
an adaptor protein involved in the specific recognition
and engulfment of apoptotic cells. CED6 has been shown
to interact with the cytoplasmic tail of another protein
involved in the engulfment of apoptotic cells, CED1.
CED6 has a C-terminal PTB domain, which can bind to NPXY
motifs. PTB domains have a common PH-like fold and are
found in various eukaryotic signaling molecules. This
domain was initially shown to binds peptides with a NPXY
motif with differing requirements for phosphorylation of
the tyrosine, although more recent studies have found
that some types of PTB domains can bind to peptides lack
tyrosine residues altogether. In contrast to SH2
domains, which recognize phosphotyrosine and adjacent
carboxy-terminal residues, PTB-domain binding
specificity is conferred by residues amino-terminal to
the phosphotyrosine. PTB domains are classified into
three groups: phosphotyrosine-dependent Shc-like,
phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains. This
cd is part of the Dab-like subgroup.
Length = 144
Score = 26.9 bits (60), Expect = 6.2
Identities = 24/84 (28%), Positives = 37/84 (44%), Gaps = 26/84 (30%)
Query: 63 EQPPGTEVVR--------ARAVDKDDGSNAT---ISYSILKGRDTDGYGVFTIDPISGVI 111
+QP GTEVV+ AR + K +G+ + SI GV DP
Sbjct: 25 DQPKGTEVVKEAIRKLKFARQIKKSEGAKLPKVELQISI--------DGVKIQDP----- 71
Query: 112 RTKSVLDHEDRSIYRIAVAATDNG 135
+TK ++ H+ ++RI+ A D
Sbjct: 72 KTKEIM-HQ-FPLHRISFCADDKT 93
>gnl|CDD|235722 PRK06164, PRK06164, acyl-CoA synthetase; Validated.
Length = 540
Score = 27.8 bits (62), Expect = 6.4
Identities = 22/76 (28%), Positives = 28/76 (36%), Gaps = 19/76 (25%)
Query: 14 SSHELVAEARDQGSPPR----SSRVAVKISVTDVNDNAPELVDPQEDVISVREEQPPGTE 69
+ EL A AR +G P SS V +++ D SVR E G
Sbjct: 307 ALGELAALARARGVPLTGLYGSSEVQALVALQPATDPV-----------SVRIE-GGGRP 354
Query: 70 V---VRARAVDKDDGS 82
R RA D DG+
Sbjct: 355 ASPEARVRARDPQDGA 370
>gnl|CDD|218390 pfam05028, PARG_cat, Poly (ADP-ribose) glycohydrolase (PARG).
Poly(ADP-ribose) glycohydrolase (PARG), is a
ubiquitously expressed exo- and endoglycohydrolase which
mediates oxidative and excitotoxic neuronal death.
Length = 339
Score = 26.9 bits (60), Expect = 9.2
Identities = 8/29 (27%), Positives = 12/29 (41%)
Query: 123 SIYRIAVAATDNGFPSRQTVRLLRVEVLD 151
S R +++ D + T L VEV
Sbjct: 120 SFERKSLSPLDFPLWKKSTTNLCPVEVFT 148
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 0.130 0.359
Gapped
Lambda K H
0.267 0.0710 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,404,433
Number of extensions: 1062640
Number of successful extensions: 589
Number of sequences better than 10.0: 1
Number of HSP's gapped: 582
Number of HSP's successfully gapped: 33
Length of query: 232
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 138
Effective length of database: 6,768,326
Effective search space: 934028988
Effective search space used: 934028988
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: 57 (25.8 bits)