RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254781058|ref|YP_003065471.1| phage-related lysozyme
[Candidatus Liberibacter asiaticus str. psy62]
(102 letters)
>gnl|CDD|29561 cd00737, endolysin_autolysin, Endolysins and autolysins are found
in viruses and bacteria, respectively. The ds DNA phages
of eubacteria use endolysins or muralytic enzymes in
conjunction with hollin, a small membrane protein, to
degrade the peptidoglycan found in bacterial cell walls.
Similarly, bacteria produce autolysins to facilitate the
biosynthesis of its cell wall hetropolymer peptidoglycan
and cell division. Both endolysin and autolysin enzymes
cleave the glycosidic beta 1,4-bonds between the
N-acetylmuramic acid and the N-acetylglucosamine of the
peptidoglycan..
Length = 133
Score = 74.9 bits (184), Expect = 5e-15
Identities = 32/94 (34%), Positives = 50/94 (53%), Gaps = 2/94 (2%)
Query: 1 MTITAKEAEDLLLSDLRSHLDLLLDASPTLKSASENRLVAVADFVFNLGIGNYNKSTFKQ 60
MTIT ++A+ LL DL + A ++N+ A+ F FN+G G + ST +
Sbjct: 41 MTITEEQADALLAKDLAKAERAVNRAVK--VPLTQNQFDALVSFAFNVGAGAFRTSTLLR 98
Query: 61 RVDAQDWEKAAEECKKWTKAGGQSLRGIENRRAE 94
+++A DW A + +W KAGG+ L G+ RR
Sbjct: 99 KLNAGDWAGACAQLPRWVKAGGKVLPGLVRRREA 132
>gnl|CDD|33567 COG3772, COG3772, Phage-related lysozyme (muraminidase) [General
function prediction only].
Length = 152
Score = 60.7 bits (147), Expect = 8e-11
Identities = 28/102 (27%), Positives = 45/102 (44%), Gaps = 4/102 (3%)
Query: 2 TITAKEAEDLLLSDLRSHLDLLLDASPTLKSASENRLVAVADFVFNLGIGNYNKSTFKQR 61
+A L + + L + + A+ F +N+G GN+ ST +R
Sbjct: 52 KEECDQANALERDLAEAERAVNRYIKVPLT---QPQFDALVSFAYNIGAGNFFSSTLLRR 108
Query: 62 VDAQDWEKAAEECKKWTKAGGQS-LRGIENRRAEGATMLLNG 102
++A DW A E+ ++W KAGG L G+ RR + L G
Sbjct: 109 INAGDWSGACEQLRRWIKAGGGKVLPGLVRRREAERALFLWG 150
>gnl|CDD|144526 pfam00959, Phage_lysozyme, Phage lysozyme. This family includes
lambda phage lysozyme and E. coli endolysin.
Length = 108
Score = 55.5 bits (134), Expect = 3e-09
Identities = 25/94 (26%), Positives = 35/94 (37%), Gaps = 2/94 (2%)
Query: 1 MTITAKEAEDLLLSDLRSHLDLLLDASPTLKSASENRLVAVADFVFNLGIGNYNKSTFKQ 60
IT A DL + + S NR A+ FN+G G ST +
Sbjct: 17 PRITKSTAAGRYQFDLDTAERGIKQYGK--VDFSPNRQDALVSLAFNVGCGARGFSTLLR 74
Query: 61 RVDAQDWEKAAEECKKWTKAGGQSLRGIENRRAE 94
+ W A K KAGG+ G++ RR +
Sbjct: 75 AGNQGQWVLACSAIWKSLKAGGKEYNGLKRRREK 108
>gnl|CDD|35655 KOG0434, KOG0434, KOG0434, Isoleucyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 1070
Score = 27.2 bits (60), Expect = 0.95
Identities = 12/36 (33%), Positives = 17/36 (47%), Gaps = 1/36 (2%)
Query: 43 DFVFNLGIGNYNKSTFKQRVD-AQDWEKAAEECKKW 77
D V +GI YN K + + +WEK E +W
Sbjct: 105 DDVMKMGIDKYNNECRKIVMRYSSEWEKTVERLGRW 140
>gnl|CDD|153385 cd07373, 2A5CPDO_A, The alpha subunit of the Class III extradiol
dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase,
which catalyzes the oxidization and subsequent
ring-opening of 2-amino-5-chlorophenol.
2-amino-5-chlorophenol 1,6-dioxygenase (2A5CPDO)
catalyzes the oxidization and subsequent ring-opening of
2-amino-5-chlorophenol, which is an intermediate during
p-chloronitrobenzene degradation. This enzyme is a
member of the class III extradiol dioxygenase family, a
group of enzymes which use a non-heme Fe(II) to cleave
aromatic rings between a hydroxylated carbon and an
adjacent non-hydroxylated carbon. The active enzyme is
probably a heterotetramer, composed of two alpha and two
beta subunits. The alpha and beta subunits share
significant sequence similarity and may have evolved by
gene duplication. This model describes the alpha
subunit, which does not contain a potential metal
binding site and may not possess catalytic activity.
Length = 271
Score = 26.4 bits (58), Expect = 2.0
Identities = 14/45 (31%), Positives = 25/45 (55%), Gaps = 6/45 (13%)
Query: 35 ENRLVAVADFVFNLGIGNYNKSTFKQRVDAQDWEKAAEECKKWTK 79
+N+ VAV +G+G + S F++ +D ++ A EE KW +
Sbjct: 165 QNKRVAV------VGVGGLSGSLFREEIDPREDHIANEEDDKWNR 203
>gnl|CDD|36002 KOG0783, KOG0783, KOG0783, Uncharacterized conserved protein,
contains ankyrin and BTB/POZ domains [Function unknown].
Length = 1267
Score = 26.2 bits (57), Expect = 2.2
Identities = 15/55 (27%), Positives = 21/55 (38%), Gaps = 9/55 (16%)
Query: 10 DLLLSDLRSHLDLLLDASPTLKSASENRLVAVADFV-FNLGIGNYNKSTFKQRVD 63
L L S + +LD N + V LGIGN + + +RVD
Sbjct: 124 QFLSRVLSSTIHPVLD--------LPNDVYGWGTNVNNTLGIGNGKEPSSPERVD 170
>gnl|CDD|176858 cd07816, Bet_v1-like, Ligand-binding bet_v_1 domain of major
pollen allergen of white birch (Betula verrucosa), Bet
v 1, and related proteins. This family includes the
ligand binding domain of Bet v 1 (the major pollen
allergen of white birch, Betula verrucosa) and related
proteins. In addition to birch Bet v 1, this family
includes other plant intracellular pathogenesis-related
class 10 (PR-10) proteins, norcoclaurine synthases
(NCSs), cytokinin binding proteins (CSBPs), major latex
proteins (MLPs), and ripening-related proteins. It
belongs to the SRPBCC
(START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain
superfamily of proteins that bind hydrophobic ligands.
SRPBCC domains have a deep hydrophobic ligand-binding
pocket. Members of this family binds a diverse range of
ligands. Bet v 1 can bind brassinosteroids, cytokinins,
flavonoids and fatty acids. Hyp-1, a PR-10 from
Hypericum perforatum/St. John's wort, catalyzes the
condensation of two molecules of emodin to the
bioactive naphthodianthrone hypericin. NCSs catalyze
the condensation of dopamine and
4-hydroxyphenylacetaldehyde to (S)-norcoclaurine, the
first committed step in the biosynthesis of
benzylisoquinoline alkaloids such as morphine. The role
of MLPs is unclear; however, they are associated with
fruit and flower development and in pathogen defense
responses. A number of PR-10 proteins in this subgroup,
including Bet v 1, have in vitro RNase activity, the
biological significance of which is unclear. Bet v 1
family proteins have a conserved glycine-rich P
(phosphate-binding)-loop proximal to the entrance of
the ligand-binding pocket. However, its conformation
differs from that of the canonical P-loop structure
found in nucleotide-binding proteins. Several PR-10
members including Bet v1 are allergenic.
Cross-reactivity of Bet v 1 with homologs from plant
foods results in birch-fruit syndrome.
Length = 148
Score = 25.2 bits (56), Expect = 3.8
Identities = 9/25 (36%), Positives = 12/25 (48%), Gaps = 1/25 (4%)
Query: 45 VFNLGIGNYNKSTFKQRVDAQDWEK 69
+ G G K K+R+DA D E
Sbjct: 52 LITFGPGGKVK-YVKERIDAVDEEN 75
>gnl|CDD|38955 KOG3751, KOG3751, KOG3751, Growth factor receptor-bound proteins
(GRB7, GRB10, GRB14) [Signal transduction mechanisms].
Length = 622
Score = 24.6 bits (53), Expect = 5.5
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 16 LRSHLDLLLDASPTLKSASENRLVAV 41
+ + L AS +SAS N LVA+
Sbjct: 437 QQIRRETLSPASSPSRSASSNSLVAM 462
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.314 0.129 0.363
Gapped
Lambda K H
0.267 0.0701 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 1,113,051
Number of extensions: 46980
Number of successful extensions: 100
Number of sequences better than 10.0: 1
Number of HSP's gapped: 97
Number of HSP's successfully gapped: 12
Length of query: 102
Length of database: 6,263,737
Length adjustment: 69
Effective length of query: 33
Effective length of database: 4,772,716
Effective search space: 157499628
Effective search space used: 157499628
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (23.5 bits)