RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7348
(229 letters)
>gnl|CDD|219095 pfam06585, JHBP, Haemolymph juvenile hormone binding protein
(JHBP). This family consists of several insect-specific
haemolymph juvenile hormone binding proteins (JHBP).
Juvenile hormone regulates embryogenesis, maintains the
status quo of larval development and stimulates
reproductive maturation in the adult insect. JH is
transported from the sites of its synthesis to target
tissues by a haemolymph carrier called juvenile
hormone-binding protein (JHBP). JHBP protects the JH
molecules from hydrolysis by non-specific esterases
present in the insect haemolymph. The crystal structure
of the JHBP from Galleria mellonella shows an unusual
fold consisting of a long alpha-helix wrapped in a much
curved antiparallel beta-sheet. The folding pattern for
this structure closely resembles that found in some
tandem-repeat mammalian lipid-binding and bactericidal
permeability-increasing proteins, with a similar
organisation of the major cavity and a disulfide bond
linking the long helix and the beta-sheet. It would
appear that JHBP forms two cavities, only one of which,
the one near the N- and C-termini, binds the hormone;
binding induces a conformational change, of unknown
significance. This family now includes DUF233,
pfam03027.
Length = 246
Score = 187 bits (477), Expect = 1e-59
Identities = 73/220 (33%), Positives = 126/220 (57%)
Query: 2 AEYIHPCTKASPKINDCIKQTFNHLRKYLIQGIDEIAVPSIEPLIIPAMKMENGHGAVRV 61
++ C+++ P N C+K++ LR YL +GI E+ +P ++PL+I +K+ G G + +
Sbjct: 24 PAFLEKCSRSDPNDNKCLKESIQALRPYLAKGIPELGIPPLDPLVIDDLKISQGSGPIGL 83
Query: 62 RAIFSNLTIHGASNYTVLNVKSDLNKYRIDLALHLPHIEVTGNYDVNGNVLLFPVRSRGD 121
+A F NL I+G SN+T+ +K DL+K + +L L+ P + + G Y + G +LL P+ +GD
Sbjct: 84 KANFKNLKIYGLSNFTIKKLKLDLDKLKFELKLYFPKLSLKGKYKLKGKLLLLPISGKGD 143
Query: 122 FWAAFGNVTGLAKLYATEQLRNETKFMKTERLGIQFKLSKSNFKIKDFINRNNVIGEAMN 181
F NV KL R+ ++K +L ++ + F +++ N N +G+AMN
Sbjct: 144 FNLTLENVKATGKLKGRLYERDGKTYLKVTKLKVEIDVGDVKFDLENLFNGNKELGDAMN 203
Query: 182 IFLNQNAAEIIEEMKPAASAAIGKHFKSFLNAAFLQIPLK 221
F+N+N E++ E+KPA A+ K F LN F ++P
Sbjct: 204 KFINENWKELLNELKPAIEEALEKIFVDILNKIFKKVPYD 243
>gnl|CDD|214779 smart00700, JHBP, Juvenile hormone binding protein domains in
insects. The juvenile hormone exerts pleiotropic
functions during insect life cycles and its binding
proteins regulate these functions.
Length = 224
Score = 140 bits (355), Expect = 2e-41
Identities = 57/223 (25%), Positives = 106/223 (47%), Gaps = 3/223 (1%)
Query: 2 AEYIHPCTKASPKINDCIKQTFNHLRKYLIQGIDEIAVPSIEPLIIPAMKMENGHGAVRV 61
++ PC P ++C++ L L GI E +P ++PL I +K+ G + +
Sbjct: 4 PAFLKPCKLGDP--SECLRDAIEALLPQLKNGIPEYGIPPLDPLEIDDLKISIDSGVIGL 61
Query: 62 RAIFSNLTIHGASNYTVLNVKSDLNKYRIDLALHLPHIEVTGNYDVNGNVLLFPVRSRGD 121
R F N+ I+G SN+ + K DL +I+L + P + V G+Y ++G +L P+ +GD
Sbjct: 62 RLTFKNVKIYGLSNFEITKFKMDLKDKKIELKIEFPKLNVKGDYKLDGRLLGLPLNGKGD 121
Query: 122 FWAAFGNVTGLAKLYATEQLRNETKFMKTERLGIQFKLSKSNFKIKDFINRNNVIGEAMN 181
NV + + ++K + L + F++ + + N N + +A+N
Sbjct: 122 ANFTLENVKIRGT-LKLKLGPDGKTYLKIKSLKVNFEVGDVKSHLDNLFNGNKDLNDAIN 180
Query: 182 IFLNQNAAEIIEEMKPAASAAIGKHFKSFLNAAFLQIPLKVWL 224
FLN+N +I E+ PA + F +N F ++P+ +
Sbjct: 181 KFLNENWKALINELLPAIVEKLESIFLDLVNKVFAKVPIDEFF 223
>gnl|CDD|233000 TIGR00508, bioA, adenosylmethionine-8-amino-7-oxononanoate
transaminase. All members of the seed alignment have
been demonstrated experimentally to act as EC 2.6.1.62,
an enzyme in the biotin biosynthetic pathway. Alternate
names include 7,8-diaminopelargonic acid
aminotransferase, DAPA aminotransferase, and
adenosylmethionine-8-amino-7-oxononanoate
aminotransferase. The gene symbol is bioA in E. coli and
BIO3 in S. cerevisiae [Biosynthesis of cofactors,
prosthetic groups, and carriers, Biotin].
Length = 417
Score = 29.8 bits (68), Expect = 1.4
Identities = 14/48 (29%), Positives = 20/48 (41%), Gaps = 2/48 (4%)
Query: 7 PCTKASPKINDCIKQTFNHLRKYLIQGIDEIAVPSIEPLIIPA--MKM 52
P +DC + L L + DEIA +EPL+ A M+
Sbjct: 166 PPCYRCWDPDDCEAECLAALEALLEEHADEIAAFIVEPLVQGAGGMRF 213
>gnl|CDD|219113 pfam06629, MipA, MltA-interacting protein MipA. This family
consists of several bacterial MltA-interacting protein
(MipA) like sequences. As well as interacting with the
membrane-bound lytic transglycosylase MltA, MipA is
known to bind to PBP1B, a bifunctional murein
transglycosylase/transpeptidase. MipA is considered to
be a structural protein mediating the assembly of MltA
to PBP1B into a complex.
Length = 226
Score = 28.5 bits (64), Expect = 2.6
Identities = 5/32 (15%), Positives = 12/32 (37%)
Query: 82 KSDLNKYRIDLALHLPHIEVTGNYDVNGNVLL 113
+S L +Y L + ++ Y + +
Sbjct: 160 RSGLAQYNAGAGLWSAGLGLSATYMLTDHWSA 191
>gnl|CDD|233469 TIGR01564, S_layer_MJ, S-layer protein, MJ0822 family. This model
represents one of several families of proteins
associated with the formation of prokaryotic S-layers.
Members of this family are found in archaeal species,
including Pyrococcus horikoshii (split into two tandem
reading frames), Methanococcus jannaschii, and related
species. Some local similarity can be found to other
S-layer protein families [Cell envelope, Surface
structures].
Length = 571
Score = 28.4 bits (63), Expect = 3.3
Identities = 14/88 (15%), Positives = 25/88 (28%), Gaps = 16/88 (18%)
Query: 67 NLTIHGASNYTVLNVKSDLNKYRIDLALHLPHIEVTGNYDVNGNVLLFPVRSRGDFWAAF 126
++T+ + ++K N N D+ A+
Sbjct: 82 SVTVRADATSDDDDLKVFNNNTFYP----------------AKNQAFIVAADDLDYSEAW 125
Query: 127 GNVTGLAKLYATEQLRNETKFMKTERLG 154
N T + Y L + TK + LG
Sbjct: 126 WNGTAFSANYTASVLNDGTKSGELVNLG 153
>gnl|CDD|238353 cd00653, RNA_pol_B_RPB2, RNA polymerase beta subunit. RNA
polymerases catalyse the DNA dependent polymerization of
RNA. Prokaryotes contain a single RNA polymerase
compared to three in eukaryotes (not including
mitochondrial. and chloroplast polymerases). Each RNA
polymerase complex contains two related members of this
family, in each case they are the two largest
subunits.The clamp is a mobile structure that grips DNA
during elongation.
Length = 866
Score = 28.3 bits (64), Expect = 4.1
Identities = 7/40 (17%), Positives = 15/40 (37%)
Query: 146 KFMKTERLGIQFKLSKSNFKIKDFINRNNVIGEAMNIFLN 185
+ + + +Q +LSK + + I + FL
Sbjct: 258 RLEREVKEKLQKQLSKKKDLTPQLLINSKPITSGIKEFLA 297
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
0.322 0.137 0.402
Gapped
Lambda K H
0.267 0.0740 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,850,220
Number of extensions: 1126358
Number of successful extensions: 951
Number of sequences better than 10.0: 1
Number of HSP's gapped: 949
Number of HSP's successfully gapped: 24
Length of query: 229
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 135
Effective length of database: 6,768,326
Effective search space: 913724010
Effective search space used: 913724010
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (25.7 bits)