RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6837
(122 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 = 83.1 bits (206), Expect = 3e-22
Identities = 34/91 (37%), Positives = 53/91 (58%), Gaps = 8/91 (8%)
Query: 38 EYTISEDVPVGTLVAKVKAIDPDLP--GTIAYSLVAGDE-GKFVLESSSGNLKLKDTLDR 94
E ++ E+ P GT+V V A DPD G + YS+V+G+E G F ++ S+G + LDR
Sbjct: 3 EVSVPENAPPGTVVLTVSATDPDSGENGEVTYSIVSGNEDGLFSIDPSTGEITTAKPLDR 62
Query: 95 EQKDKYRVQVRASDGVQ-----SADVVLTIL 120
E++ Y + V A+DG +A V +T+L
Sbjct: 63 EEQSSYTLTVTATDGGGPPLSSTATVTITVL 93
>gnl|CDD|215665 pfam00028, Cadherin, Cadherin domain.
Length = 92
Score = 71.2 bits (175), Expect = 2e-17
Identities = 28/73 (38%), Positives = 40/73 (54%), Gaps = 3/73 (4%)
Query: 40 TISEDVPVGTLVAKVKAIDPDLP--GTIAYSLVAGDE-GKFVLESSSGNLKLKDTLDREQ 96
++ E+ PVGT V V A D DL G I YS++ G G F ++ +G+L LDRE
Sbjct: 4 SVPENAPVGTEVLTVTATDADLGPNGRIFYSILGGGPGGWFRIDPDTGDLSTTKPLDRES 63
Query: 97 KDKYRVQVRASDG 109
+Y + V A+D
Sbjct: 64 IGEYELTVLATDS 76
>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 = 55.0 bits (133), Expect = 2e-11
Identities = 22/71 (30%), Positives = 39/71 (54%), Gaps = 6/71 (8%)
Query: 55 KAIDPDLP--GTIAYSLVAGDE-GKFVLESSSGNLKLKDTLDREQKDKYRVQVRASDG-- 109
A D D G + YS+++G++ G F ++ +G + LDRE++ +Y + V A+DG
Sbjct: 1 SATDADSGENGKVTYSILSGNDDGLFSIDPETGEITTTKPLDREEQPEYTLTVEATDGGG 60
Query: 110 -VQSADVVLTI 119
S+ +TI
Sbjct: 61 PPLSSTATVTI 71
>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 = 33.5 bits (76), Expect = 0.005
Identities = 18/71 (25%), Positives = 25/71 (35%), Gaps = 3/71 (4%)
Query: 39 YTISEDVPVGTLVAKVKAIDPDLPGTIAYSLVAGDE---GKFVLESSSGNLKLKDTLDRE 95
+ E G+ + G I AG E E SG L+ + LDRE
Sbjct: 4 GSAVEGRSRGSFRVSIPTDLIASSGEIIKISAAGKEALPSWLHWEPHSGILEGLEKLDRE 63
Query: 96 QKDKYRVQVRA 106
K + + V A
Sbjct: 64 DKGVHYISVSA 74
>gnl|CDD|203892 pfam08266, Cadherin_2, Cadherin-like. This cadherin domain is
usually the most N-terminal copy of the domain.
Length = 84
Score = 30.2 bits (69), Expect = 0.069
Identities = 16/65 (24%), Positives = 31/65 (47%), Gaps = 10/65 (15%)
Query: 39 YTISEDVPVGTLVAKVKAIDPDL---PGTIA---YSLVAGDEGK-FVLESSSGNLKLKDT 91
Y++ E+ G+ V + DL +A +V+G + F L +G+L + +
Sbjct: 5 YSVPEETEPGSFVGNLAK---DLGLNVQELAARGARIVSGGNKQYFQLNPETGDLLVNER 61
Query: 92 LDREQ 96
+DRE+
Sbjct: 62 IDREE 66
>gnl|CDD|218656 pfam05612, DUF781, Mouse protein of unknown function (DUF781).
This family consists of uncharacterized mouse proteins
of unknown function.
Length = 356
Score = 29.9 bits (67), Expect = 0.28
Identities = 10/18 (55%), Positives = 11/18 (61%)
Query: 21 RILDRNDSPPSFADFHTE 38
R+L D PP ADF TE
Sbjct: 273 RVLQNTDHPPFIADFTTE 290
>gnl|CDD|221854 pfam12920, TcdA_TcdB_pore, TcdA/TcdB pore forming domain. This
family represents the most conserved region within the
C. difficile Toxin A and Toxin B pore forming region.
Length = 654
Score = 28.4 bits (64), Expect = 0.82
Identities = 28/116 (24%), Positives = 46/116 (39%), Gaps = 20/116 (17%)
Query: 21 RILDRNDSPPSFADFHTEYTIS------EDVPVG--------TLVAKVKAIDPDLPGTIA 66
R+ D F F +EYTI+ D PV TLV V + + G ++
Sbjct: 409 RLEDDYRFDWDFYAFPSEYTITRLKPEYVDTPVSVILDNRNRTLV--VPTLPEEWRGKLS 466
Query: 67 YSLVAGDEGKFVLESSSGNLKLKDTLDREQKDKYRV---QVRASDGVQSADVVLTI 119
Y L G G++ L SSG ++ D + K+ + + +Q D + +
Sbjct: 467 YELK-GAGGEYTLSLSSGAANIELNSDSTKNSKWIIDASALVKESTIQIEDNNIVV 521
>gnl|CDD|181947 PRK09553, tauD, taurine dioxygenase; Reviewed.
Length = 277
Score = 27.7 bits (62), Expect = 1.5
Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 11/57 (19%)
Query: 7 NLAHKFG----------VIGCVQLRILD-RNDSPPSFADFHTEYTISEDVPVGTLVA 52
+LA +FG G ++ +LD ND+PP ++HT+ T E P+G ++A
Sbjct: 57 DLAARFGDLHIHPVYPHAEGVPEIIVLDTHNDNPPDNDNWHTDVTFIETPPLGAILA 113
>gnl|CDD|227885 COG5598, COG5598, Trimethylamine:corrinoid methyltransferase
[Coenzyme metabolism].
Length = 526
Score = 27.7 bits (62), Expect = 1.8
Identities = 8/39 (20%), Positives = 13/39 (33%), Gaps = 1/39 (2%)
Query: 2 RDLTLNLAHKFGVIGCVQLRILDRNDSPPSFADFHTEYT 40
R+L LA I + + +D + T Y
Sbjct: 162 RNLA-KLAQHAPNIHFFGGPVCEPDDVDVNKRHLDTIYA 199
>gnl|CDD|237603 PRK14083, PRK14083, HSP90 family protein; Provisional.
Length = 601
Score = 27.2 bits (61), Expect = 2.1
Identities = 9/28 (32%), Positives = 14/28 (50%)
Query: 55 KAIDPDLPGTIAYSLVAGDEGKFVLESS 82
+A+DP PG I L G ++E +
Sbjct: 43 RALDPTAPGRIRIELTDAGGGTLIVEDN 70
>gnl|CDD|218090 pfam04450, BSP, Peptidase of plants and bacteria. These basic
secretory proteins (BSPs) are believed to be part of the
plants defence mechanism against pathogens.
Length = 203
Score = 26.9 bits (60), Expect = 2.6
Identities = 12/59 (20%), Positives = 26/59 (44%), Gaps = 2/59 (3%)
Query: 54 VKAIDPDLPGTIAYSLVAGDEGKFVLESSSGNLKL--KDTLDREQKDKYRVQVRASDGV 110
++ I+PD PG + + D + + ++S ++ + DR + + DGV
Sbjct: 6 LEIINPDTPGGKRFDRLVPDAEQTLSDASRFVWRILYQPPSDRPPVRSVTLTLDDIDGV 64
>gnl|CDD|225185 COG2302, COG2302, Uncharacterized conserved protein, contains
S4-like domain [Function unknown].
Length = 257
Score = 26.9 bits (60), Expect = 2.8
Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 11/44 (25%)
Query: 66 AYSLVAGD----EGKFVLESSSGNLKLKDTLDREQKDKYRVQVR 105
+Y + GD G G LK+ + +KDK+R+ +R
Sbjct: 218 SYEVQEGDLISIRGF-------GRLKILEINGVTKKDKFRITLR 254
>gnl|CDD|235405 PRK05320, PRK05320, rhodanese superfamily protein; Provisional.
Length = 257
Score = 26.9 bits (60), Expect = 2.9
Identities = 7/26 (26%), Positives = 14/26 (53%)
Query: 30 PSFADFHTEYTISEDVPVGTLVAKVK 55
FAD + ++S+ P ++ K+K
Sbjct: 66 ARFADLQVKESLSDSQPFRRMLVKLK 91
>gnl|CDD|176796 cd08818, CARD_MDA5_1, Caspase activation and recruitment domain
found in MDA5, first repeat. Caspase activation and
recruitment domain (CARD) found in MDA5
(melanoma-differentiation-associated gene 5), first
repeat. MDA5, also known as IFIH1, contains two
N-terminal CARD domains and a C-terminal RNA helicase
domain. MDA5 is a cytoplasmic DEAD box RNA helicase that
plays an important role in host antiviral response by
sensing incoming viral RNA. Upon activation, the signal
is transferred to downstream pathways via the adaptor
molecule IPS-1 (MAVS, VISA, CARDIF), leading to the
induction of type I interferons. Although very similar
in sequence, MDA5 recognizes different sets of viruses
compared to RIG-I, a related RNA helicase. MDA5
associates with IPS-1 through a CARD-CARD interaction.
In general, CARDs are death domains (DDs) found
associated with caspases. They are known to be important
in the signaling pathways for apoptosis, inflammation,
and host-defense mechanisms. DDs are protein-protein
interaction domains found in a variety of domain
architectures. Their common feature is that they form
homodimers by self-association or heterodimers by
associating with other members of the DD superfamily
including PYRIN and DED (Death Effector Domain). They
serve as adaptors in signaling pathways and can recruit
other proteins into signaling complexes.
Length = 88
Score = 25.8 bits (57), Expect = 3.2
Identities = 8/35 (22%), Positives = 17/35 (48%)
Query: 86 LKLKDTLDREQKDKYRVQVRASDGVQSADVVLTIL 120
L L+ E K++ R + +A+++L+ L
Sbjct: 25 LDYLTFLEAEVKERIRAAAATRGNIAAAELLLSTL 59
>gnl|CDD|222696 pfam14344, DUF4397, Domain of unknown function (DUF4397). This
presumed domain is functionally uncharacterized. This
domain family is found in bacteria, archaea and
eukaryotes, and is approximately 120 amino acids in
length.
Length = 120
Score = 25.7 bits (57), Expect = 4.7
Identities = 21/81 (25%), Positives = 29/81 (35%), Gaps = 5/81 (6%)
Query: 38 EYTISEDVPVGTLVAKVKAIDPDLPGTIAYSLVAGDEGKFVLESSSGNLKLKDTLDREQK 97
YTI T V + D + Y++ A L S L L D L
Sbjct: 44 SYTIEVTPAGTTPTTVVLSADVTVEAGTNYTVAAVGT----LAGSLQLLVLTDDLSAVAA 99
Query: 98 DKYRVQVR-ASDGVQSADVVL 117
+ RV+V A+ + DV L
Sbjct: 100 GEARVRVVHAAPDAPAVDVYL 120
>gnl|CDD|166697 PLN03058, PLN03058, dynein light chain type 1 family protein;
Provisional.
Length = 128
Score = 25.0 bits (54), Expect = 8.6
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 87 KLKDTLDREQKDKYRVQVRASD 108
K K ++QKD+ V+VRASD
Sbjct: 21 KKKAKEQQDQKDELNVRVRASD 42
>gnl|CDD|129984 TIGR00906, 2A0303, cationic amino acid transport permease.
[Transport and binding proteins, Amino acids, peptides
and amines].
Length = 557
Score = 25.5 bits (56), Expect = 9.8
Identities = 11/39 (28%), Positives = 19/39 (48%), Gaps = 2/39 (5%)
Query: 49 TLVAKVKAIDPDLPGTIAYSLVAGDEGKFVLESSSGNLK 87
TL+ +DPD P +A+ V K+++ + G L
Sbjct: 287 TLMMPYYLLDPDAPFPVAFEYVGWGPAKYIV--AVGALC 323
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
0.318 0.136 0.386
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: 6,046,151
Number of extensions: 528062
Number of successful extensions: 515
Number of sequences better than 10.0: 1
Number of HSP's gapped: 511
Number of HSP's successfully gapped: 28
Length of query: 122
Length of database: 10,937,602
Length adjustment: 84
Effective length of query: 38
Effective length of database: 7,211,866
Effective search space: 274050908
Effective search space used: 274050908
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 (21.7 bits)
S2: 53 (24.2 bits)