RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6923
(113 letters)
>gnl|CDD|176644 cd00866, PEBP_euk, PhosphatidylEthanolamine-Binding Protein
(PEBP) domain present in eukaryotes.
PhosphatidylEthanolamine-Binding Proteins (PEBPs) are
represented in all three major phylogenetic divisions
(eukaryotes, bacteria, archaea). The members in this
subgroup are present in eukaryotes. Members here
include those in plants such as Arabidopsis thaliana
FLOWERING LOCUS (FT) and TERMINAL FLOWER1 (FT1) which
function as a promoter and a repressor of the floral
transitions, respectively as well as the mammalian Raf
kinase inhibitory protein (RKIP) which inhibits MAP
kinase (Raf-MEK-ERK), G protein-coupled receptor (GPCR)
kinase and NFkappaB signaling cascades. Although their
overall structures are similar, the members of the PEBP
family have very different substrates and
oligomerization states (monomer/dimer/tetramer).
Length = 154
Score = 72.4 bits (178), Expect = 2e-17
Identities = 29/54 (53%), Positives = 34/54 (62%), Gaps = 5/54 (9%)
Query: 1 MVDPDAPSRKDQKLSPILHYLVGNIPG-----HDVNKGHIIADYRGAMPPKGSG 49
MVDPDAPSR D K LH+LV NIPG V+KG ++ Y G PPKG+G
Sbjct: 46 MVDPDAPSRDDPKFREWLHWLVTNIPGSDTTTGLVSKGEVLVPYLGPGPPKGTG 99
>gnl|CDD|216338 pfam01161, PBP, Phosphatidylethanolamine-binding protein.
Length = 147
Score = 59.0 bits (143), Expect = 2e-12
Identities = 29/60 (48%), Positives = 32/60 (53%), Gaps = 11/60 (18%)
Query: 1 MVDPDAPSRKDQKLSPILHYLVGNIPG----------HDVNK-GHIIADYRGAMPPKGSG 49
MVDPDAPSR D K S LH+LV NIP VN G +A Y G PP G+G
Sbjct: 42 MVDPDAPSRSDPKGSEFLHWLVTNIPASVTELPGGGVQGVNDFGQTLAGYIGPCPPPGTG 101
>gnl|CDD|177765 PLN00169, PLN00169, CETS family protein; Provisional.
Length = 175
Score = 40.6 bits (95), Expect = 3e-05
Identities = 20/51 (39%), Positives = 24/51 (47%), Gaps = 1/51 (1%)
Query: 1 MVDPDAPSRKDQKLSPILHYLVGNIPGHD-VNKGHIIADYRGAMPPKGSGR 50
MVDPDAPS + L LH+LV +IP G + Y P G R
Sbjct: 69 MVDPDAPSPSNPNLREYLHWLVTDIPATTGATFGQEVVCYESPRPTAGIHR 119
>gnl|CDD|176642 cd00457, PEBP, PhosphatidylEthanolamine-Binding Protein (PEBP)
domain. PhosphatidylEthanolamine-Binding Proteins
(PEBPs) are represented in all three major phylogenetic
divisions (eukaryotes, bacteria, archaea). A number of
biological roles for members of the PEBP family include
serine protease inhibition, membrane biogenesis,
regulation of flowering plant stem architecture, and
Raf-1 kinase inhibition. Although their overall
structures are similar, the members of the PEBP family
bind very different substrates including phospholipids,
opioids, and hydrophobic odorant molecules as well as
having different oligomerization states
(monomer/dimer/tetramer).
Length = 159
Score = 33.9 bits (78), Expect = 0.007
Identities = 22/100 (22%), Positives = 28/100 (28%), Gaps = 33/100 (33%)
Query: 1 MVDPDAPSRKDQKLSPILHYLVGNIPGHDVNKGHIIADYRGAMPPKGSGRTSSQWITEVK 60
M DPDAP PI+H LV IP + + + +
Sbjct: 45 MEDPDAP-----LGRPIVHGLVYGIPANKTSLSN-------------DDFVVTDNGKGGL 86
Query: 61 QLGNSGTINQSRAAGFFQPGVKVCHIIADYRGAMPPKGSG 100
Q G N+ Y G PP G G
Sbjct: 87 QGGFKYGKNRGG---------------TVYIGPRPPLGHG 111
>gnl|CDD|224793 COG1881, COG1881, Phospholipid-binding protein [General function
prediction only].
Length = 174
Score = 31.6 bits (72), Expect = 0.042
Identities = 18/66 (27%), Positives = 26/66 (39%), Gaps = 22/66 (33%)
Query: 1 MVDPDAPSRKDQKLSPILHYLVGNIP--GHDVNKGHII---------------ADYRGAM 43
+ DPDAP+ +H++V NIP ++ +G Y G
Sbjct: 67 VDDPDAPTG-----GGWVHWVVANIPADVTELPEGSGPKSKIGIVQGINDFGSRGYGGPC 121
Query: 44 PPKGSG 49
PPKG G
Sbjct: 122 PPKGHG 127
>gnl|CDD|176643 cd00865, PEBP_bact_arch, PhosphatidylEthanolamine-Binding Protein
(PEBP) domain present in bacteria and archaea.
PhosphatidylEthanolamine-Binding Proteins (PEBPs) are
represented in all three major phylogenetic divisions
(eukaryotes, bacteria, archaea). The members in this
subgroup are present in bacterial and archaea. Members
here include Escherichia coli YBHB and YBCL which are
thought to regulate protein phosphorylation as well as
Sulfolobus solfataricus SsCEI which inhibits serine
proteases alpha-chymotrypsin and elastase. Although
their overall structures are similar, the members of the
PEBP family have very different substrates and
oligomerization states (monomer/dimer/tetramer). In a
few of the bacterial members present here the
dimerization interface is proposed to form the ligand
binding site, unlike in other PEBP members.
Length = 150
Score = 28.7 bits (65), Expect = 0.41
Identities = 16/65 (24%), Positives = 22/65 (33%), Gaps = 23/65 (35%)
Query: 1 MVDPDAPSRKDQKLSPILHYLVGNIP----------GHDVNKGHII--------ADYRGA 42
+ DPDAP+ +H++V NIP + A Y G
Sbjct: 46 VEDPDAPTG-----GGFVHWVVWNIPADTTELPEGASRGALPAGAVQGRNDFGEAGYGGP 100
Query: 43 MPPKG 47
PP G
Sbjct: 101 CPPDG 105
>gnl|CDD|237658 PRK14284, PRK14284, chaperone protein DnaJ; Provisional.
Length = 391
Score = 27.5 bits (61), Expect = 1.7
Identities = 18/50 (36%), Positives = 24/50 (48%), Gaps = 2/50 (4%)
Query: 28 HDVNKGHIIADYRGAMPPKGSGRTSSQWITEVKQLGNSGTINQSRAAGFF 77
V K +++ Y+ GSG SSQ I + SG + QSR GFF
Sbjct: 147 KGVEKELLVSGYKSCDACSGSGANSSQGIKVCDRCKGSGQVVQSR--GFF 194
>gnl|CDD|240630 cd05305, L-AlaDH, Alanine dehydrogenase NAD-binding and catalytic
domains. Alanine dehydrogenase (L-AlaDH) catalyzes the
NAD-dependent conversion of pyruvate to L-alanine via
reductive amination. Like formate dehydrogenase and
related enzymes, L-AlaDH is comprised of 2 domains
connected by a long alpha helical stretch, each
resembling a Rossmann fold NAD-binding domain. The
NAD-binding domain is inserted within the linear
sequence of the more divergent catalytic domain. Ligand
binding and active site residues are found in the cleft
between the subdomains. L-AlaDH is typically hexameric
and is critical in carbon and nitrogen metabolism in
micro-organisms.
Length = 359
Score = 27.0 bits (61), Expect = 2.1
Identities = 15/58 (25%), Positives = 23/58 (39%), Gaps = 24/58 (41%)
Query: 17 ILHYLVGNIPGHDVNKGHIIADYRGAMPPKGSGRTSSQWITE-----VKQLGNSGTIN 69
++HY V N+P GA+P RTS+ +T + +L N G
Sbjct: 293 VIHYCVPNMP--------------GAVP-----RTSTLALTNATLPYLLKLANKGLEE 331
>gnl|CDD|148813 pfam07419, PilM, PilM. This family contains the bacterial protein
PilM (approximately 150 residues long). PilM is an inner
membrane protein that has been predicted to function as
a component of the pilin transport apparatus and
thin-pilus basal body.
Length = 136
Score = 26.1 bits (58), Expect = 2.8
Identities = 22/80 (27%), Positives = 30/80 (37%), Gaps = 12/80 (15%)
Query: 36 IADYRGAMPPKGSGRTSSQW-ITEVKQLGNSGTINQSRAAGFF--QPGVKVCHIIADYRG 92
I DYR P + SQ + + S I+ R + QPG+
Sbjct: 41 INDYRYNHPGQSGTLADSQLGLPSLPDSRISHVISAGRLYVWIPEQPGLV---------S 91
Query: 93 AMPPKGSGSILKGPVPNGSL 112
A+ + GS L G V NG L
Sbjct: 92 ALREQSGGSALVGRVRNGRL 111
>gnl|CDD|225485 COG2933, COG2933, Predicted SAM-dependent methyltransferase
[General function prediction only].
Length = 358
Score = 26.3 bits (58), Expect = 4.4
Identities = 28/105 (26%), Positives = 39/105 (37%), Gaps = 28/105 (26%)
Query: 4 PDAPSRKDQKLSPILHYLVGNIPGHDVNK----GHIIADYRGAMPPKGSGRT-----SSQ 54
DAPSR KL H IP + +K G D GA P G T +
Sbjct: 182 ADAPSRSTLKLEEAFHTF---IPRDEWDKRLAPGMWAVDL-GACP---GGWTYQLVKRNM 234
Query: 55 WITEV------KQLGNSGTINQSRAAGF-FQPGVK-----VCHII 87
+ V + L ++G + R GF F+P VC ++
Sbjct: 235 RVYAVDNGPMAQSLMDTGQVTHLREDGFKFRPTRSNIDWMVCDMV 279
>gnl|CDD|129572 TIGR00481, TIGR00481, Raf kinase inhibitor-like protein,
YbhB/YbcL family. [Unknown function, General].
Length = 141
Score = 25.5 bits (56), Expect = 6.5
Identities = 19/70 (27%), Positives = 23/70 (32%), Gaps = 28/70 (40%)
Query: 3 DPDAPSRKDQKLSPILHYLVGNIPGHDVN--------------KGHIIAD--------YR 40
DPDAP H++V NIP D +G + Y
Sbjct: 36 DPDAP-----TGCGWWHWVVVNIP-ADTTVLPENASSDDKRLPQGVPLQGRNDFGKSGYI 89
Query: 41 GAMPPKGSGR 50
G PPKG R
Sbjct: 90 GPCPPKGDHR 99
>gnl|CDD|132187 TIGR03143, AhpF_homolog, putative alkyl hydroperoxide reductase F
subunit. This family of thioredoxin reductase homologs
is found adjacent to alkylhydroperoxide reductase C
subunit predominantly in cases where there is only one C
subunit in the genome and that genome is lacking the F
subunit partner (also a thioredcxin reductase homolog)
that is usually found (TIGR03140).
Length = 555
Score = 25.5 bits (56), Expect = 6.8
Identities = 10/31 (32%), Positives = 15/31 (48%)
Query: 22 VGNIPGHDVNKGHIIADYRGAMPPKGSGRTS 52
VG P ++ KG + D RG +P T+
Sbjct: 242 VGYAPSSELFKGVVELDKRGYIPTNEDMETN 272
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
0.315 0.137 0.419
Gapped
Lambda K H
0.267 0.0604 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,864,057
Number of extensions: 488790
Number of successful extensions: 217
Number of sequences better than 10.0: 1
Number of HSP's gapped: 213
Number of HSP's successfully gapped: 18
Length of query: 113
Length of database: 10,937,602
Length adjustment: 77
Effective length of query: 36
Effective length of database: 7,522,344
Effective search space: 270804384
Effective search space used: 270804384
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: 53 (24.5 bits)