RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12738
(173 letters)
>gnl|CDD|217486 pfam03311, Cornichon, Cornichon protein.
Length = 128
Score = 95.4 bits (238), Expect = 8e-26
Identities = 52/124 (41%), Positives = 66/124 (53%), Gaps = 22/124 (17%)
Query: 1 VIAFDELKVDYKNPIDQCNSLNPLVLPEYLAHAIFNHNYVGNLRTYFTVFIPQYISTEGW 60
VI +L+ DY NPID C+ LNPLVLPEY+ H ++ L ++ VF+
Sbjct: 27 VIMLSDLEADYINPIDLCSRLNPLVLPEYILHGFLCLLFL--LTGHWFVFL--------- 75
Query: 61 IKLAFYLLSFFYYLYGYRNRPVMSGYGLYDPTSIMNADTLNKCQREGWIKLAFYLLSFFY 120
L LL++ YLY L D T I TL+K +RE +IKLAFYLL FFY
Sbjct: 76 --LNLPLLAYNVYLY-------YKRTHLLDATEIFR--TLSKHKRESFIKLAFYLLLFFY 124
Query: 121 YLYG 124
YLY
Sbjct: 125 YLYR 128
Score = 55.3 bits (134), Expect = 2e-10
Identities = 24/66 (36%), Positives = 32/66 (48%), Gaps = 6/66 (9%)
Query: 107 GWIKLAFYLLSFFYYLYGSEFSYLSFFKDLTVIAFDELKVDYKNPIDQCNSLNPLVLPEY 166
+ Y+L+ L F + VI +L+ DY NPID C+ LNPLVLPEY
Sbjct: 2 AFEFWLLYILALLINAA------LLFLQVYFVIMLSDLEADYINPIDLCSRLNPLVLPEY 55
Query: 167 LAHAIF 172
+ H
Sbjct: 56 ILHGFL 61
>gnl|CDD|177769 PLN00174, PLN00174, predicted protein; Provisional.
Length = 160
Score = 31.6 bits (71), Expect = 0.12
Identities = 28/118 (23%), Positives = 45/118 (38%), Gaps = 22/118 (18%)
Query: 6 ELKVDYKNPIDQCNSLNPLVLPEYLAHAIFNHNYVGNLRTYFTVFIPQYISTEGWIKLAF 65
+L D NP++ C+ +N L +PEYLAH + GW + F
Sbjct: 38 DLSTDTVNPVEVCDKVNQLKVPEYLAHLFLS----------------IAFVIRGWWIVGF 81
Query: 66 YLLSFFYYLYGYRNRPVMSGYGLYDPTSIMNADTLNKCQREGWIKLAFYLLSFFYYLY 123
F +Y + G D I N L++ R K AF+++ Y ++
Sbjct: 82 LNFPFIFYNFAQW----YEGKHQLDSAQIFN--VLSRELRVIKAKSAFFIIIVIYTIW 133
Score = 30.4 bits (68), Expect = 0.27
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 143 ELKVDYKNPIDQCNSLNPLVLPEYLAHAIF 172
+L D NP++ C+ +N L +PEYLAH
Sbjct: 38 DLSTDTVNPVEVCDKVNQLKVPEYLAHLFL 67
>gnl|CDD|227334 COG5001, COG5001, Predicted signal transduction protein containing
a membrane domain, an EAL and a GGDEF domain [Signal
transduction mechanisms].
Length = 663
Score = 31.8 bits (72), Expect = 0.17
Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 3/54 (5%)
Query: 90 DPTSIMNADTLNKCQR-EGWIKLAFYLLSFFYYLYGSEF--SYLSFFKDLTVIA 140
DP L + R G+I F S Y YG + S+++F+ +TVIA
Sbjct: 87 DPDPERALRALARTNRLAGFIAALFTGWSLALYPYGDAYTRSHIAFYMAITVIA 140
>gnl|CDD|164750 MTH00204, ND4, NADH dehydrogenase subunit 4; Provisional.
Length = 485
Score = 27.3 bits (61), Expect = 4.9
Identities = 11/30 (36%), Positives = 16/30 (53%), Gaps = 2/30 (6%)
Query: 105 REGWIKLAFYLLSFFYYLYGSEFSYLSFFK 134
RE ++ ++Y FFY GS F L F+
Sbjct: 158 REEKVRASYYF--FFYTFAGSVFMLLGIFQ 185
>gnl|CDD|237913 PRK15119, PRK15119, undecaprenyl-phosphate
alpha-N-acetylglucosaminyl 1-phosphate transferase;
Provisional.
Length = 365
Score = 27.3 bits (61), Expect = 5.0
Identities = 12/31 (38%), Positives = 19/31 (61%), Gaps = 8/31 (25%)
Query: 47 FTVFIPQYISTEGWIKLAFYLLSFFYYLYGY 77
++ F+P+ W+ L +LL+FF LYGY
Sbjct: 314 YSHFVPE------WVMLVLFLLAFF--LYGY 336
>gnl|CDD|111933 pfam03092, BT1, BT1 family. Members of this family are
transmembrane proteins. Several are Leishmania putative
proteins that are thought to be pteridine transporters.
One such protein, previously termed (and is still
annotated as) ORFG, was shown to encode a biopterin
transport protein using null mutants, thus being
subsequently renamed BT1. The significant similarity of
ORFG/BT1 to Trypanosoma brucei ESAG10 (a putative
transmembrane protein and another member of this
family) was previously noted. This family also contains
five putative Arabidopsis thaliana proteins of unknown
function. In addition, it also contains two predicted
prokaryotic proteins (from the cyanobacteria
Synechocystis and Synechococcus).
Length = 425
Score = 27.3 bits (61), Expect = 5.2
Identities = 11/30 (36%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 55 ISTEGWIKLAFY-LLSFFYYLYGYRNRPVM 83
++T W+ F +LS + L+GYR RP +
Sbjct: 33 LATLPWVIKPFTGVLSDGFALFGYRRRPYL 62
>gnl|CDD|173861 cd08496, PBP2_NikA_DppA_OppA_like_9, The substrate-binding
component of an uncharacterized ABC-type
nickel/dipeptide/oligopeptide-like import system
contains the type 2 periplasmic binding fold. This CD
represents the substrate-binding domain of an
uncharacterized ATP-binding cassette (ABC) type
nickel/dipeptide/oligopeptide-like transporter. The
oligopeptide-binding protein OppA and the
dipeptide-binding protein DppA show significant sequence
similarity to NikA, the initial nickel receptor. The
DppA binds dipeptides and some tripeptides and is
involved in chemotaxis toward dipeptides, whereas the
OppA can bind peptides of a wide range of lengths (2-35
amino-acid residues) and plays a role in recycling of
cell wall peptides, which precludes any involvement in
chemotaxis. Most of other periplasmic binding proteins
are comprised of only two globular subdomains
corresponding to domains I and III of the
dipeptide/oligopeptide binding proteins. The structural
topology of these domains is most similar to that of the
type 2 periplasmic binding proteins (PBP2), which are
responsible for the uptake of a variety of substrates
such as phosphate, sulfate, polysaccharides,
lysine/arginine/ornithine, and histidine. The PBP2 bind
their ligand in the cleft between these domains in a
manner resembling a Venus flytrap. After binding their
specific ligand with high affinity, they can interact
with a cognate membrane transport complex comprised of
two integral membrane domains and two cytoplasmically
located ATPase domains. This interaction triggers the
ligand translocation across the cytoplasmic membrane
energized by ATP hydrolysis. Besides transport
proteins, the PBP2 superfamily includes the
ligand-binding domains from ionotropic glutamate
receptors, LysR-type transcriptional regulators, and
unorthodox sensor proteins involved in signal
transduction.
Length = 454
Score = 26.9 bits (60), Expect = 5.5
Identities = 7/50 (14%), Positives = 14/50 (28%), Gaps = 4/50 (8%)
Query: 48 TVFIPQYISTEGWIKLAFYLLSFFYYLYGYRNRPVMSGYGLYDPTSIMNA 97
+ + E + F L + R P M+ ++ N
Sbjct: 349 PLTGAN-AAGEFFAAEKFDLA---VSGWVGRPDPSMTLSNMFGKGGYYNP 394
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
0.327 0.145 0.459
Gapped
Lambda K H
0.267 0.0753 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,364,074
Number of extensions: 870443
Number of successful extensions: 1063
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1050
Number of HSP's successfully gapped: 46
Length of query: 173
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 83
Effective length of database: 6,945,742
Effective search space: 576496586
Effective search space used: 576496586
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 55 (24.9 bits)