RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780844|ref|YP_003065257.1| hypothetical protein
CLIBASIA_03695 [Candidatus Liberibacter asiaticus str. psy62]
(113 letters)
>gnl|CDD|145575 pfam02510, SPAN, Surface presentation of antigens protein. Surface
presentation of antigens protein (SPAN), also know as
invasion protein invJ, is a Salmonella secretory pathway
protein involved in presentation of determinants
required for mammalian host cell invasion.
Length = 336
Score = 28.5 bits (63), Expect = 0.41
Identities = 16/49 (32%), Positives = 19/49 (38%)
Query: 60 LVGATVHSEGKKRSHDVPSSSNQEDQRGSPSPKKTKNILELFPLPLPPT 108
+ G + EG + DV S G K K I E LPL PT
Sbjct: 174 IAGEGIRKEGALLAGDVAPSRMAAANTGKADDKDHKKIKEAPQLPLQPT 222
>gnl|CDD|38920 KOG3716, KOG3716, KOG3716, Carnitine O-acyltransferase CPTI [Lipid
transport and metabolism].
Length = 764
Score = 26.4 bits (58), Expect = 1.7
Identities = 15/65 (23%), Positives = 27/65 (41%), Gaps = 4/65 (6%)
Query: 1 MFLRSACRNLLVCILSIQCL-VLFCSEIFAFEKYKAPSYPTT---VALNVLSPLAPLGDG 56
+ + + L V L L +L + + FE PSY T V + +LS P+
Sbjct: 100 LAIFATGLWLTVIFLRRLLLKLLLSYKGWLFESPGKPSYATKIWGVVVKILSKRPPMLYS 159
Query: 57 CEQLV 61
++ +
Sbjct: 160 FQRSL 164
>gnl|CDD|39479 KOG4278, KOG4278, KOG4278, Protein tyrosine kinase [Signal
transduction mechanisms].
Length = 1157
Score = 26.2 bits (57), Expect = 1.8
Identities = 13/47 (27%), Positives = 18/47 (38%), Gaps = 4/47 (8%)
Query: 71 KRSHDVPSSSNQEDQRGSPSPKKTKNILELF----PLPLPPTQYYSF 113
++S SS ED+ + KT P P PP + SF
Sbjct: 601 RKSRIRSPSSLLEDEVSFFNDSKTSKFSSFRKKGPPAPTPPKRSSSF 647
>gnl|CDD|32805 COG2986, HutH, Histidine ammonia-lyase [Amino acid transport and
metabolism].
Length = 498
Score = 25.5 bits (56), Expect = 3.4
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 7/49 (14%)
Query: 59 QLVGATVHSEGKKRSH-----DVPSSSNQEDQ--RGSPSPKKTKNILEL 100
Q A + SE K +H +P+S+NQED + + +K I+E
Sbjct: 384 QYTAAALVSENKVLAHPASVDSIPTSANQEDHVSMATHAARKLLEIIEN 432
>gnl|CDD|39013 KOG3809, KOG3809, KOG3809, Microtubule-binding protein MIP-T3
[Cytoskeleton].
Length = 583
Score = 24.4 bits (52), Expect = 7.0
Identities = 11/36 (30%), Positives = 18/36 (50%)
Query: 67 SEGKKRSHDVPSSSNQEDQRGSPSPKKTKNILELFP 102
S+ K+R SS + ++ S S KK K+ + P
Sbjct: 198 SKSKERPKSEDRSSRKNSEKSSKSKKKEKSTTKEKP 233
>gnl|CDD|173876 cd08511, PBP2_NikA_DppA_OppA_like_5, The substrate-binding
component of an uncharacterized ABC-type
nickel/dipeptide/oligopeptide-like import system
contains the type 2 periplasmic binding fold. This
family 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 binds 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 = 467
Score = 24.2 bits (53), Expect = 7.4
Identities = 10/30 (33%), Positives = 14/30 (46%), Gaps = 1/30 (3%)
Query: 24 CSEIFAFEKYKAPSYPTTVALNVLSPLAPL 53
SE+ + E + P TV + P APL
Sbjct: 98 KSELASVESVEVVD-PATVRFRLKQPFAPL 126
>gnl|CDD|31541 COG1350, COG1350, Predicted alternative tryptophan synthase
beta-subunit (paralog of TrpB) [General function
prediction only].
Length = 432
Score = 24.1 bits (52), Expect = 9.2
Identities = 10/17 (58%), Positives = 11/17 (64%)
Query: 91 PKKTKNILELFPLPLPP 107
PK+ NIL P PLPP
Sbjct: 12 PKRWYNILPDLPEPLPP 28
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
0.320 0.136 0.412
Gapped
Lambda K H
0.267 0.0719 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 1,374,285
Number of extensions: 60302
Number of successful extensions: 106
Number of sequences better than 10.0: 1
Number of HSP's gapped: 106
Number of HSP's successfully gapped: 12
Length of query: 113
Length of database: 6,263,737
Length adjustment: 79
Effective length of query: 34
Effective length of database: 4,556,626
Effective search space: 154925284
Effective search space used: 154925284
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 (21.8 bits)
S2: 51 (23.4 bits)