RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1047
(127 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 = 81.6 bits (202), Expect = 2e-21
Identities = 35/106 (33%), Positives = 48/106 (45%), Gaps = 22/106 (20%)
Query: 10 VYQATVKENQPIGTLVITLKAADADPPGMNSKISYSVRGGDGLGYFTIDNEGPLNHFRIV 69
Y+ +V EN P GT+V+T+ A D D G N +++YS+ G+ G F+ID
Sbjct: 1 SYEVSVPENAPPGTVVLTVSATDPD-SGENGEVTYSIVSGNEDGLFSID----------- 48
Query: 70 PTKIDPGTKKKEYNIVVLKLLDREIAPLGYNLTLRAVDKGTPPRET 115
I K LDRE Y LT+ A D G PP +
Sbjct: 49 ---------PSTGEITTAKPLDREEQSS-YTLTVTATDGGGPPLSS 84
>gnl|CDD|215665 pfam00028, Cadherin, Cadherin domain.
Length = 92
Score = 71.2 bits (175), Expect = 2e-17
Identities = 40/106 (37%), Positives = 50/106 (47%), Gaps = 22/106 (20%)
Query: 11 YQATVKENQPIGTLVITLKAADADPPGMNSKISYSVRGGDGLGYFTIDNEGPLNHFRIVP 70
Y A+V EN P+GT V+T+ A DAD G N +I YS+ GG G+F ID
Sbjct: 1 YSASVPENAPVGTEVLTVTATDAD-LGPNGRIFYSILGGGPGGWFRID------------ 47
Query: 71 TKIDPGTKKKEYNIVVLKLLDREIAPLGYNLTLRAVDKGTPPRETY 116
D G + K LDRE Y LT+ A D G PP +
Sbjct: 48 --PDTGD------LSTTKPLDRESIGE-YELTVLATDSGGPPLSST 84
>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 = 51.2 bits (123), Expect = 7e-10
Identities = 31/88 (35%), Positives = 38/88 (43%), Gaps = 22/88 (25%)
Query: 29 KAADADPPGMNSKISYSVRGGDGLGYFTIDNEGPLNHFRIVPTKIDPGTKKKEYNIVVLK 88
A DAD G N K++YS+ G+ G F+ID E G I K
Sbjct: 1 SATDADS-GENGKVTYSILSGNDDGLFSIDPET--------------GE------ITTTK 39
Query: 89 LLDREIAPLGYNLTLRAVDKGTPPRETY 116
LDRE P Y LT+ A D G PP +
Sbjct: 40 PLDREEQPE-YTLTVEATDGGGPPLSST 66
>gnl|CDD|223028 PHA03263, PHA03263, Capsid triplex subunit 1; Provisional.
Length = 332
Score = 27.7 bits (62), Expect = 1.7
Identities = 10/35 (28%), Positives = 15/35 (42%), Gaps = 1/35 (2%)
Query: 2 NAPVFSDFVYQA-TVKENQPIGTLVITLKAADADP 35
P++ DF+ A T +P GT + K D
Sbjct: 67 RQPLYGDFLVHAKTFSNQEPRGTPLFCFKQEDPGS 101
>gnl|CDD|219414 pfam07452, CHRD, CHRD domain. CHRD (after SWISS-PROT
abbreviation for chordin) is a novel domain identified
in chordin, an inhibitor of bone morphogenetic
proteins. This family includes bacterial homologues. It
is anticipated to have an immunoglobulin-like
beta-barrel structure based on limited similarity to
superoxide dismutases but, as yet, no clear functional
prediction can be made. Its most conserved feature is a
GE[I/L]RCG[V/I/L] motif towards its C-terminal end Most
bacterial proteins in this family have only one CHRD
domain, whereas it is found repeated in many eukaryotic
proteins such as human chordin and Drosophila SOG..
Length = 118
Score = 26.5 bits (59), Expect = 2.4
Identities = 10/47 (21%), Positives = 17/47 (36%), Gaps = 8/47 (17%)
Query: 23 TLVITLKAADADPPGMNSKISYSVRGGDGLGYFTIDNEGPLNHFRIV 69
T L + PP G G + T+D++G H+ +
Sbjct: 2 TFSALLTGSQEVPPVT--------TGASGSAWLTLDDDGNSLHYSVT 40
>gnl|CDD|214400 MTH00020, ND5, NADH dehydrogenase subunit 5; Reviewed.
Length = 610
Score = 27.3 bits (61), Expect = 2.7
Identities = 8/30 (26%), Positives = 18/30 (60%)
Query: 81 EYNIVVLKLLDREIAPLGYNLTLRAVDKGT 110
++N ++ L ++I G+ ++ R +DKG
Sbjct: 535 QFNYILNYFLIKKIWKGGHLISYRTIDKGV 564
>gnl|CDD|117022 pfam08445, FR47, FR47-like protein. The members of this family are
similar to the C-terminal region of the D. melanogaster
hypothetical protein FR47. This protein has been found
to consist of two N-acyltransferase-like domains swapped
with the C-terminal strands.
Length = 86
Score = 26.1 bits (58), Expect = 2.9
Identities = 11/46 (23%), Positives = 17/46 (36%)
Query: 73 IDPGTKKKEYNIVVLKLLDREIAPLGYNLTLRAVDKGTPPRETYKA 118
P +++ ++ L R IA G V TP R Y+
Sbjct: 29 TLPEHRRRGLGSRLVAALARGIAERGITPFAVVVAGNTPSRRLYEK 74
>gnl|CDD|183077 PRK11288, araG, L-arabinose transporter ATP-binding protein;
Provisional.
Length = 501
Score = 27.2 bits (61), Expect = 2.9
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 28 LKAADADPPGMNSKISYSVRGGDGLGYF 55
L+ PG+ IS+SVR G+ +G F
Sbjct: 258 LRLDGLKGPGLREPISFSVRAGEIVGLF 285
>gnl|CDD|223801 COG0729, COG0729, Outer membrane protein [Cell envelope biogenesis,
outer membrane].
Length = 594
Score = 26.6 bits (59), Expect = 4.9
Identities = 13/51 (25%), Positives = 19/51 (37%)
Query: 4 PVFSDFVYQATVKENQPIGTLVITLKAADADPPGMNSKISYSVRGGDGLGY 54
FS V Q K+ P G L + + ++ + YS G GL
Sbjct: 246 GYFSSVVVQPADKQAGPDGLLPVKVSVSERKENTFELGVGYSTDVGAGLEA 296
>gnl|CDD|131542 TIGR02489, flgE_epsilon, flagellar hook protein FlgE, epsilon
proteobacterial. Members of this family are flagellar
hook proteins, designated FlgE, as found in the epsilon
subdivision of the Proteobacteria (Helicobacter,
Wolinella, and Campylobacter). These proteins differ
significantly in architecture from proteins designated
FlgE in other lineages; the N-terminal and C-terminal
domains are homologous, but members of this family only
contain a large central domain that is surface-exposed
and variable between strains.
Length = 719
Score = 26.5 bits (58), Expect = 5.1
Identities = 7/31 (22%), Positives = 12/31 (38%)
Query: 54 YFTIDNEGPLNHFRIVPTKIDPGTKKKEYNI 84
T+D+ P + I P + P E +
Sbjct: 156 DQTVDSTRPPQNIFIDPGMVIPAAATTEVAL 186
>gnl|CDD|216900 pfam02144, Rad1, Repair protein Rad1/Rec1/Rad17.
Length = 251
Score = 26.0 bits (58), Expect = 5.2
Identities = 12/60 (20%), Positives = 23/60 (38%), Gaps = 12/60 (20%)
Query: 1 MNAPVFSDFVYQATVKENQPIGTLVITLKA--------ADADPPGMNS-KISYSVRGGDG 51
++ +FS + + E + + I+L A D S ++SY G+G
Sbjct: 49 LDKALFSSYKFNPPDDETEEFPSFGISLSALLECLSIFGSNDDSSKTSCRLSYK---GEG 105
>gnl|CDD|224077 COG1155, NtpA, Archaeal/vacuolar-type H+-ATPase subunit A [Energy
production and conversion].
Length = 588
Score = 25.7 bits (57), Expect = 8.9
Identities = 10/32 (31%), Positives = 11/32 (34%), Gaps = 3/32 (9%)
Query: 46 VRGGDGLGYFTIDNEGPLNHFRIVPTKIDPGT 77
V GD LG E L RI+ G
Sbjct: 128 VYPGDVLGTV---QETSLITHRIMVPPGVSGK 156
>gnl|CDD|240238 PTZ00040, PTZ00040, translation initiation factor E4; Provisional.
Length = 233
Score = 25.5 bits (56), Expect = 9.8
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 10/57 (17%)
Query: 60 EGPLN------HFRIVPTKIDPGTKKKEYNIVVLKLLDREIAPLGYNLT--LRAVDK 108
E P+N +R PT + PG + +N +VL L+ + +L +R VDK
Sbjct: 123 EDPMNATGGHFEYRFWPTDVSPGQIDEYWNNLVLALIGSSLE--HSSLINGIRLVDK 177
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
0.316 0.138 0.410
Gapped
Lambda K H
0.267 0.0779 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,555,381
Number of extensions: 579062
Number of successful extensions: 384
Number of sequences better than 10.0: 1
Number of HSP's gapped: 374
Number of HSP's successfully gapped: 21
Length of query: 127
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 42
Effective length of database: 7,167,512
Effective search space: 301035504
Effective search space used: 301035504
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 (21.6 bits)
S2: 53 (24.1 bits)