RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780252|ref|YP_003064665.1| 30S ribosomal protein S17
[Candidatus Liberibacter asiaticus str. psy62]
(79 letters)
>gnl|CDD|180162 PRK05610, rpsQ, 30S ribosomal protein S17; Reviewed.
Length = 84
Score = 112 bits (283), Expect = 2e-26
Identities = 42/75 (56%), Positives = 57/75 (76%)
Query: 1 MPKRVLQGMVVSDKSEKTIIVLVERRFSHPRFQKTIRRSKRYAVHDENNKYKVGDFVSIE 60
MP++ LQG VVSDK +KTI+VLVERR HP + K ++RSK+Y HDENN+ K+GD V I
Sbjct: 4 MPRKTLQGRVVSDKMDKTIVVLVERRVKHPLYGKIVKRSKKYHAHDENNEAKIGDVVRIM 63
Query: 61 ESAPISKKKSWLVID 75
E+ P+SK K W +++
Sbjct: 64 ETRPLSKTKRWRLVE 78
>gnl|CDD|163368 TIGR03635, S17_bact, 30S ribosomal protein S17. This model
describes the bacterial ribosomal small subunit protein
S17, while excluding cytosolic eukaryotic homologs and
archaeal homologs. The model finds many, but not,
chloroplast and mitochondrial counterparts to bacterial
S17.
Length = 71
Score = 106 bits (266), Expect = 2e-24
Identities = 40/71 (56%), Positives = 54/71 (76%)
Query: 3 KRVLQGMVVSDKSEKTIIVLVERRFSHPRFQKTIRRSKRYAVHDENNKYKVGDFVSIEES 62
++ LQG+VVSDK +KTI+VLVERR HP + K ++R+K+Y HDENN+ KVGD V I E+
Sbjct: 1 RKTLQGVVVSDKMDKTIVVLVERRVKHPLYGKIVKRTKKYHAHDENNECKVGDVVRIIET 60
Query: 63 APISKKKSWLV 73
P+SK K W +
Sbjct: 61 RPLSKTKRWRL 71
>gnl|CDD|181479 PRK08572, rps17p, 30S ribosomal protein S17P; Reviewed.
Length = 108
Score = 54.5 bits (132), Expect = 6e-09
Identities = 29/72 (40%), Positives = 43/72 (59%), Gaps = 1/72 (1%)
Query: 4 RVLQGMVVSDKSEKTIIVLVERRFSHPRFQKTIRRSKRYAVHD-ENNKYKVGDFVSIEES 62
+VL+G VVSDK KT++V E P++++ +R R H+ KVGD V I E
Sbjct: 30 QVLEGTVVSDKMHKTVVVEREYLHYVPKYERYEKRRSRIHAHNPPCIDAKVGDKVKIAEC 89
Query: 63 APISKKKSWLVI 74
P+SK KS++V+
Sbjct: 90 RPLSKTKSFVVV 101
>gnl|CDD|132669 TIGR03630, arch_S17P, archaeal ribosomal protein S17P. This
model describes exclusively the archaeal ribosomal
protein S17P. It excludes homologous ribosomal proteins
S11 from eukaryotes and S17 from bacteria.
Length = 102
Score = 52.3 bits (126), Expect = 3e-08
Identities = 26/72 (36%), Positives = 44/72 (61%), Gaps = 1/72 (1%)
Query: 4 RVLQGMVVSDKSEKTIIVLVERRFSHPRFQKTIRRSKRYAVHD-ENNKYKVGDFVSIEES 62
++L+G+VVSDK KT++V E + ++++ RR + H+ K GD V I E+
Sbjct: 28 QILEGVVVSDKMNKTVVVEREYLYYDRKYERYERRRSKIHAHNPPCIDVKEGDIVIIGET 87
Query: 63 APISKKKSWLVI 74
P+SK KS++V+
Sbjct: 88 RPLSKTKSFVVL 99
>gnl|CDD|185523 PTZ00241, PTZ00241, 40S ribosomal protein S11; Provisional.
Length = 158
Score = 34.3 bits (79), Expect = 0.007
Identities = 22/67 (32%), Positives = 37/67 (55%), Gaps = 5/67 (7%)
Query: 4 RVLQGMVVSDKSEKTIIVLVERRFSH--PRFQKTIRRSKRYAVHDENN-KYKVGDFVSIE 60
R+L+G+V+S K ++TII + R + H ++ + +R K VH K GD V +
Sbjct: 69 RILRGVVISTKMKRTII--IRRDYLHYVKKYNRYEKRHKNIPVHCSPCFDVKEGDIVVVG 126
Query: 61 ESAPISK 67
+ P+SK
Sbjct: 127 QCRPLSK 133
>gnl|CDD|152630 pfam12195, End_beta_barrel, Beta barrel domain of bacteriophage
endosialidase. This domain family is found in bacteria
and viruses, and is approximately 80 amino acids in
length.This domain is the beta barrel domain of
bacteriophage endosialidase which represents the one of
the two sialic acid binding sites of the enzyme. The
domain is nested in the beta propeller domain of the
endosialidase enzyme. The endosialidase protein
complexes to form homotrimeric molecules.
Length = 83
Score = 28.8 bits (64), Expect = 0.35
Identities = 13/39 (33%), Positives = 19/39 (48%), Gaps = 1/39 (2%)
Query: 26 RFSHPRFQKTIRRSKRYA-VHDENNKYKVGDFVSIEESA 63
R H T ++RYA +H ++ GDFV+ SA
Sbjct: 2 RSLHLTGGITKAANQRYATIHIPDHGLFAGDFVNFSNSA 40
>gnl|CDD|152652 pfam12217, End_beta_propel, Catalytic beta propeller domain of
bacteriophage endosialidase. This domain family is
found in bacteria and viruses, and is typically between
443 and 460 amino acids in length. This domain is the
highly conserved beta propeller of bacteriophage
endosialidase which represents the catalytically active
part of the enzymes. This core domain forms stable
SDS-resistant trimers. There is a nested beta barrel
domain in this domain (pfam12195). The endosialidase
protein complexes to form a homotrimeric molecule.
Length = 449
Score = 27.6 bits (61), Expect = 0.69
Identities = 12/39 (30%), Positives = 19/39 (48%), Gaps = 1/39 (2%)
Query: 26 RFSHPRFQKTIRRSKRYA-VHDENNKYKVGDFVSIEESA 63
R H T +++YA +H ++ GDFV+ SA
Sbjct: 113 RSLHLTGGITKAANQQYATIHIPDHGLFAGDFVNFSNSA 151
>gnl|CDD|130337 TIGR01270, Trp_5_monoox, tryptophan 5-monooxygenase, tetrameric.
This model describes tryptophan 5-monooxygenase, a
member of the family of tetrameric, biopterin-dependent
aromatic amino acid hydroxylases found in metazoans. It
is closely related to tetrameric
phenylalanine-4-hydroxylase and tyrosine
3-monooxygenase, and more distantly related to the
monomeric phenylalanine-4-hydroxylase found in some
Gram-negative bacteria.
Length = 464
Score = 27.5 bits (61), Expect = 0.87
Identities = 14/46 (30%), Positives = 21/46 (45%), Gaps = 1/46 (2%)
Query: 29 HPRFQKTIRRSKRYAVHDENNKYKVGDFVSIEESAPISKKKSWLVI 74
HP F+ T R +R D YK G+ + E ++K+W I
Sbjct: 157 HPGFKDTEYRKRRMMFADLALNYKHGEPIPRVEYTE-EERKTWGTI 201
>gnl|CDD|162801 TIGR02302, aProt_lowcomp, conserved hypothetical protein TIGR02302.
Members of this family are long (~850 residue)
bacterial proteins from the alpha Proteobacteria. Each
has 2-3 predicted transmembrane helices near the
N-terminus and a long C-terminal region that includes
stretches of Gln/Gly-rich low complexity sequence,
predicted by TMHMM to be outside the membrane. In
Bradyrhizobium japonicum, two tandem reading frames are
together homologous the single members found in other
species; the cutoffs scores are set low enough that the
longer scores above the trusted cutoff and the shorter
above the noise cutoff for this model.
Length = 851
Score = 25.7 bits (56), Expect = 2.6
Identities = 16/62 (25%), Positives = 24/62 (38%), Gaps = 7/62 (11%)
Query: 3 KRVLQGMVVSD------KSEKTIIVLVERRFSHPRFQKTIRRSKRYAVHDENNKYKVGDF 56
V +V D SE I L ER F+ P + + + A+ D N +V D
Sbjct: 384 AEVTLTLVAKDAAGNQGHSEPFTIRLPERLFTKPLARAVAEQRRILAL-DANQNSQVYDA 442
Query: 57 VS 58
+
Sbjct: 443 LD 444
>gnl|CDD|173501 PTZ00265, PTZ00265, multidrug resistance protein (mdr1); Provisional.
Length = 1466
Score = 25.0 bits (54), Expect = 4.1
Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 9/50 (18%)
Query: 11 VSDKSEKTIIVLVERRFSHPRFQKTIRRSKRYAVHDENNKYKVGDFVSIE 60
+ DK++KTII + R S I+RS + V NN + G FV
Sbjct: 1404 IKDKADKTIITIAHRIAS-------IKRSDKIVVF--NNPDRTGSFVQAH 1444
>gnl|CDD|148097 pfam06283, ThuA, Trehalose utilisation. This family consists of
several bacterial ThuA like proteins. ThuA appears to be
involved in utilisation of trehalose. The thuA and thuB
genes form part of the trehalose/sucrose transport
operon thuEFGKAB, which is located on the pSymB
megaplasmid. The thuA and thuB genes are induced in
vitro by trehalose but not by sucrose and the extent of
its induction depends on the concentration of trehalose
available in the medium.
Length = 216
Score = 24.9 bits (55), Expect = 4.7
Identities = 7/18 (38%), Positives = 10/18 (55%)
Query: 27 FSHPRFQKTIRRSKRYAV 44
+ P FQK + R R+A
Sbjct: 198 YDDPGFQKLLLRGIRWAA 215
>gnl|CDD|151541 pfam11097, DUF2883, Protein of unknown function (DUF2883). This
family of proteins have no known function but appear to
be restricted to phage.
Length = 75
Score = 25.0 bits (54), Expect = 4.9
Identities = 13/28 (46%), Positives = 15/28 (53%), Gaps = 1/28 (3%)
Query: 31 RFQKTIRRSKRYA-VHDENNKYKVGDFV 57
RFQ T RR K Y +H + K G FV
Sbjct: 38 RFQDTPRRGKNYTQMHILKQRSKTGAFV 65
>gnl|CDD|184251 PRK13695, PRK13695, putative NTPase; Provisional.
Length = 174
Score = 24.9 bits (55), Expect = 5.0
Identities = 10/25 (40%), Positives = 13/25 (52%)
Query: 14 KSEKTIIVLVERRFSHPRFQKTIRR 38
SEK +I + RR HP Q+ R
Sbjct: 124 DSEKPVIATLHRRSVHPFVQEIKSR 148
>gnl|CDD|180431 PRK06155, PRK06155, crotonobetaine/carnitine-CoA ligase;
Provisional.
Length = 542
Score = 24.7 bits (54), Expect = 5.8
Identities = 14/44 (31%), Positives = 18/44 (40%), Gaps = 6/44 (13%)
Query: 21 VLVERRFSHPRFQKTIRRSKRYAVHDENNKYKVGDFVSIEESAP 64
++E RFS F +RR Y +G VSI S P
Sbjct: 249 YVLEPRFSASGFWPAVRRHGATVT------YLLGAMVSILLSQP 286
>gnl|CDD|150107 pfam09328, Phytochelatin_C, Domain of unknown function (DUF1984).
Members of this family of functionally uncharacterized
domains are found at the C-terminus of plant
phytochelatin synthases.
Length = 264
Score = 24.6 bits (54), Expect = 5.8
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 1 MPKRVLQGMVVSDKSEKTIIVLV 23
P V+ G VVSD SE+ + VLV
Sbjct: 166 GPTTVVSGTVVSDGSEQGVDVLV 188
>gnl|CDD|178286 PLN02682, PLN02682, pectinesterase family protein.
Length = 369
Score = 24.3 bits (53), Expect = 6.7
Identities = 9/36 (25%), Positives = 14/36 (38%)
Query: 27 FSHPRFQKTIRRSKRYAVHDENNKYKVGDFVSIEES 62
H FQK + + K GDF +I+ +
Sbjct: 53 LKHSVFQKAKNKLFPSYTIVVDKKPAAGDFTTIQAA 88
>gnl|CDD|161715 TIGR00113, queA, S-adenosylmethionine:tRNA
ribosyltransferase-isomerase. This model describes the
enzyme for S-adenosylmethionine:tRNA
ribosyltransferase-isomerase (QueA). QueA synthesizes
Queuosine which is usually in the first position of the
anticodon of tRNAs specific for asparagine, aspartate,
histidine, and tyrosine.
Length = 344
Score = 23.9 bits (52), Expect = 9.1
Identities = 11/41 (26%), Positives = 18/41 (43%), Gaps = 3/41 (7%)
Query: 15 SEKTIIVLVERRFSHPRFQKTIRRSKRYAVHDENNKYKVGD 55
S + VL+ R R+ I+ SK+ + K K G+
Sbjct: 73 SGGKVEVLLLRMLDENRWLALIKPSKKPKI---GAKVKFGE 110
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.317 0.132 0.368
Gapped
Lambda K H
0.267 0.0821 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 1,243,762
Number of extensions: 61626
Number of successful extensions: 146
Number of sequences better than 10.0: 1
Number of HSP's gapped: 143
Number of HSP's successfully gapped: 27
Length of query: 79
Length of database: 5,994,473
Length adjustment: 49
Effective length of query: 30
Effective length of database: 4,935,681
Effective search space: 148070430
Effective search space used: 148070430
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: 41 (21.7 bits)
S2: 50 (22.9 bits)