RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5886
(184 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 = 74.7 bits (184), Expect = 5e-18
Identities = 32/68 (47%), Positives = 38/68 (55%), Gaps = 4/68 (5%)
Query: 106 PYEFSVPEGQD-GLAVGRVHATDADEGQNAVVYYSV---PEDIPFVVDANTGDIRTNKAL 161
YE SVPE G V V ATD D G+N V YS+ ED F +D +TG+I T K L
Sbjct: 1 SYEVSVPENAPPGTVVLTVSATDPDSGENGEVTYSIVSGNEDGLFSIDPSTGEITTAKPL 60
Query: 162 DYEKQQLY 169
D E+Q Y
Sbjct: 61 DREEQSSY 68
Score = 59.2 bits (144), Expect = 4e-12
Identities = 34/87 (39%), Positives = 43/87 (49%), Gaps = 21/87 (24%)
Query: 30 GVTLMQVKATDKDSGKFGLVEYRLLDNNTDAASYFNLDPAT-----------EHQGPIQ- 77
G ++ V ATD DSG+ G V Y ++ N D F++DP+T E Q
Sbjct: 13 GTVVLTVSATDPDSGENGEVTYSIVSGNED--GLFSIDPSTGEITTAKPLDREEQSSYTL 70
Query: 78 -----DEGG--LSSTATVNIRVTDIND 97
D GG LSSTATV I V D+ND
Sbjct: 71 TVTATDGGGPPLSSTATVTITVLDVND 97
>gnl|CDD|215665 pfam00028, Cadherin, Cadherin domain.
Length = 92
Score = 67.7 bits (166), Expect = 2e-15
Identities = 29/67 (43%), Positives = 35/67 (52%), Gaps = 4/67 (5%)
Query: 107 YEFSVPEGQ-DGLAVGRVHATDADEGQNAVVYYSVPEDIP---FVVDANTGDIRTNKALD 162
Y SVPE G V V ATDAD G N ++YS+ P F +D +TGD+ T K LD
Sbjct: 1 YSASVPENAPVGTEVLTVTATDADLGPNGRIFYSILGGGPGGWFRIDPDTGDLSTTKPLD 60
Query: 163 YEKQQLY 169
E Y
Sbjct: 61 RESIGEY 67
Score = 35.4 bits (82), Expect = 0.003
Identities = 26/83 (31%), Positives = 32/83 (38%), Gaps = 21/83 (25%)
Query: 30 GVTLMQVKATDKDSGKFGLVEYRLLDNNTDAASYFNLDPAT-----------EHQGP--- 75
G ++ V ATD D G G + Y +L +F +DP T E G
Sbjct: 12 GTEVLTVTATDADLGPNGRIFYSIL--GGGPGGWFRIDPDTGDLSTTKPLDRESIGEYEL 69
Query: 76 ---IQDEG--GLSSTATVNIRVT 93
D G LSST TV I V
Sbjct: 70 TVLATDSGGPPLSSTTTVTITVL 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 = 55.8 bits (135), Expect = 5e-11
Identities = 23/49 (46%), Positives = 29/49 (59%), Gaps = 3/49 (6%)
Query: 124 HATDADEGQNAVVYYSV---PEDIPFVVDANTGDIRTNKALDYEKQQLY 169
ATDAD G+N V YS+ +D F +D TG+I T K LD E+Q Y
Sbjct: 1 SATDADSGENGKVTYSILSGNDDGLFSIDPETGEITTTKPLDREEQPEY 49
Score = 50.0 bits (120), Expect = 9e-09
Identities = 33/83 (39%), Positives = 41/83 (49%), Gaps = 21/83 (25%)
Query: 37 KATDKDSGKFGLVEYRLLDNNTDAASYFNLDPAT---------------EHQGPIQ--DE 79
ATD DSG+ G V Y +L N D F++DP T E+ ++ D
Sbjct: 1 SATDADSGENGKVTYSILSGNDD--GLFSIDPETGEITTTKPLDREEQPEYTLTVEATDG 58
Query: 80 GG--LSSTATVNIRVTDINDKNP 100
GG LSSTATV I V D+ND P
Sbjct: 59 GGPPLSSTATVTITVLDVNDNAP 81
>gnl|CDD|224082 COG1160, COG1160, Predicted GTPases [General function prediction
only].
Length = 444
Score = 30.2 bits (69), Expect = 0.56
Identities = 15/57 (26%), Positives = 19/57 (33%), Gaps = 3/57 (5%)
Query: 121 GRVHATDADEGQNAVVYYSVPEDIPFVVDANTGDIRTNKALDYEKQQLYLERVFLIS 177
GR T ADE + P ++ N D + L YE L IS
Sbjct: 93 GREGITPADE---EIAKILRRSKKPVILVVNKIDNLKAEELAYEFYSLGFGEPVPIS 146
>gnl|CDD|218696 pfam05692, Myco_haema, Mycoplasma haemagglutinin. This family
consists of several haemagglutinin sequences from
Mycoplasma synoviae and Mycoplasma gallisepticum. The
major plasma membrane proteins, pMGAs, of Mycoplasma
gallisepticum are cell adhesin (hemagglutinin)
molecules. It has been shown that the genetic
determinants that code for the haemagglutinins are
organised into a large family of genes and that only one
of these genes is predominately expressed in any given
strain.
Length = 437
Score = 28.0 bits (63), Expect = 3.3
Identities = 28/116 (24%), Positives = 49/116 (42%), Gaps = 21/116 (18%)
Query: 36 VKATDKDSGKFGLVEYRLLDNNTDAASY-FNLDPATEHQGPIQDEGGLSS---------- 84
VK++D + GL +Y+L NN + + FN S+
Sbjct: 131 VKSSDSN--NVGL-QYKL--NNGNPKAIEFNSTTTASASSDRSSSEESSADETATETNTM 185
Query: 85 --TATVN-IRVTDINDKNPEFQSLPYEFSVPEGQDGLA--VGRVHATDADEGQNAV 135
T TV+ I V + N +F EFSVP G + +A +G ++ T ++ ++ +
Sbjct: 186 NPTPTVDDINVAKVTLSNLKFGENTIEFSVPTGDNKVAPMIGNMYLTSSENNKDKI 241
>gnl|CDD|235965 PRK07205, PRK07205, hypothetical protein; Provisional.
Length = 444
Score = 27.0 bits (60), Expect = 6.3
Identities = 14/36 (38%), Positives = 20/36 (55%)
Query: 101 EFQSLPYEFSVPEGQDGLAVGRVHATDADEGQNAVV 136
E L +E+ V E + + VHA DA +G NAV+
Sbjct: 227 ELDKLGFEYVVKENEVTVLGKSVHAKDAPQGINAVI 262
>gnl|CDD|241009 cd12565, RRM1_MRD1, RNA recognition motif 1 in yeast multiple
RNA-binding domain-containing protein 1 (MRD1) and
similar proteins. This subgroup corresponds to the
RRM1 of MRD1 which is encoded by a novel yeast gene
MRD1 (multiple RNA-binding domain). It is
well-conserved in yeast and its homologs exist in all
eukaryotes. MRD1 is present in the nucleolus and the
nucleoplasm. It interacts with the 35 S precursor rRNA
(pre-rRNA) and U3 small nucleolar RNAs (snoRNAs). MRD1
is essential for the initial processing at the A0-A2
cleavage sites in the 35 S pre-rRNA. It contains 5
conserved RNA recognition motifs (RRMs), also termed
RBDs (RNA binding domains) or RNPs (ribonucleoprotein
domains), which may play an important structural role
in organizing specific rRNA processing events. .
Length = 76
Score = 25.6 bits (57), Expect = 6.3
Identities = 9/30 (30%), Positives = 16/30 (53%)
Query: 36 VKATDKDSGKFGLVEYRLLDNNTDAASYFN 65
++ D S +FG V ++ ++ A YFN
Sbjct: 33 MRTRDGKSRRFGFVGFKSEEDAQQAVKYFN 62
>gnl|CDD|225157 COG2248, COG2248, Predicted hydrolase (metallo-beta-lactamase
superfamily) [General function prediction only].
Length = 304
Score = 27.0 bits (60), Expect = 6.4
Identities = 14/48 (29%), Positives = 24/48 (50%), Gaps = 2/48 (4%)
Query: 101 EFQSLPYEFS--VPEGQDGLAVGRVHATDADEGQNAVVYYSVPEDIPF 146
EF EFS VP G++G +G V +G++++V+ S +
Sbjct: 143 EFGGTVIEFSPPVPHGREGSKLGYVLMVAVTDGKSSIVFASDVQGPIN 190
>gnl|CDD|180760 PRK06934, PRK06934, flavodoxin; Provisional.
Length = 221
Score = 26.8 bits (59), Expect = 7.1
Identities = 8/21 (38%), Positives = 13/21 (61%)
Query: 125 ATDADEGQNAVVYYSVPEDIP 145
A D + + +VY+S PED+
Sbjct: 30 AADRNARRVLIVYFSQPEDVK 50
>gnl|CDD|201731 pfam01328, Peroxidase_2, Peroxidase, family 2. The peroxidases in
this family do not have similarity to other peroxidases.
Length = 319
Score = 26.6 bits (58), Expect = 7.8
Identities = 24/92 (26%), Positives = 29/92 (31%), Gaps = 14/92 (15%)
Query: 61 ASYFNLDPATEHQGPIQDEGGLS------STATVNIRVTDINDKNPEFQSLPYEFSVPEG 114
AS FNLD EH P + +G S A N + D N F F+ E
Sbjct: 110 ASLFNLDDLAEHHAPFEHDGSFSRADYKQGPAHSNDFIDDRNFDAEIFDQFLDFFAGKEH 169
Query: 115 QDGLAVGRVHATDADEGQNAVVYYSVPEDIPF 146
D DA + A D F
Sbjct: 170 FD--------IADAAAAKLAREKLEEEHDFHF 193
>gnl|CDD|181254 PRK08150, PRK08150, enoyl-CoA hydratase; Provisional.
Length = 255
Score = 26.5 bits (59), Expect = 8.8
Identities = 25/85 (29%), Positives = 33/85 (38%), Gaps = 32/85 (37%)
Query: 80 GGLSSTATVNIRVTDINDKNPEFQSLPYEFSVPEGQDGLAVG-----RV----------- 123
GGL + +IRV D + Y F++PEGQ G+ VG RV
Sbjct: 106 GGLELASAAHIRVADES---------TY-FALPEGQRGIFVGGGGSVRVPRLIGVARMTD 155
Query: 124 -----HATDADEGQNA-VVYYSVPE 142
DA EG+ + Y VP
Sbjct: 156 MMLTGRVYDAQEGERLGLAQYLVPA 180
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
0.314 0.133 0.379
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: 9,242,117
Number of extensions: 839511
Number of successful extensions: 458
Number of sequences better than 10.0: 1
Number of HSP's gapped: 452
Number of HSP's successfully gapped: 23
Length of query: 184
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 93
Effective length of database: 6,901,388
Effective search space: 641829084
Effective search space used: 641829084
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: 42 (22.0 bits)
S2: 56 (25.4 bits)