RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780293|ref|YP_003064706.1| 30S ribosomal protein S9
[Candidatus Liberibacter asiaticus str. psy62]
(170 letters)
>gnl|CDD|178888 PRK00132, rpsI, 30S ribosomal protein S9; Reviewed.
Length = 130
Score = 206 bits (528), Expect = 2e-54
Identities = 69/124 (55%), Positives = 93/124 (75%)
Query: 47 YATGKRKTSIARVWIKSGSGKFTINYVDISKYFTQDLLVLNIKRPFNTVSQDNMYDVFAT 106
Y TG+RKT++ARV +K GSGK T+N D+ +YF ++ L + +++P + +DV+ T
Sbjct: 7 YGTGRRKTAVARVRLKPGSGKITVNGRDLEEYFPRETLRMVVRQPLELTETEGKFDVYVT 66
Query: 107 VSGGGLSGQASAICHGVAKALTYFQPDLRPQIKKGGFLTRDSRIVERKKYGKAKARRSFQ 166
V GGG+SGQA AI HG+A+AL + PDLRP +KK GFLTRD+R+VERKKYG KARR+ Q
Sbjct: 67 VKGGGISGQAGAIRHGIARALLEYDPDLRPALKKAGFLTRDARMVERKKYGLKKARRAPQ 126
Query: 167 FSKR 170
FSKR
Sbjct: 127 FSKR 130
>gnl|CDD|179041 PRK00474, rps9p, 30S ribosomal protein S9P; Reviewed.
Length = 134
Score = 70.3 bits (173), Expect = 2e-13
Identities = 44/131 (33%), Positives = 60/131 (45%), Gaps = 11/131 (8%)
Query: 48 ATGKRKTSIARVWIKSGSGKFTINYVDISKYFTQDLLVLNIKRPFNTVSQD--NMYDVFA 105
+GKRKT+IAR I+ G G+ IN V + +L L I P +D + D+
Sbjct: 7 TSGKRKTAIARATIREGKGRVRINGVPLELI-EPELARLKIMEPLILAGEDLRSKVDIDV 65
Query: 106 TVSGGGLSGQASAICHGVAKALTYFQPDLRPQIKKG------GFLTRDSRIVERKKYGKA 159
V GGG+ GQA A +A+ L + D ++K L D R E KK+G
Sbjct: 66 NVEGGGIMGQADAARTAIARGLVEWTGD--MELKDAFLAYDRTLLVGDPRRTEPKKWGGK 123
Query: 160 KARRSFQFSKR 170
AR Q S R
Sbjct: 124 GARAKRQKSYR 134
>gnl|CDD|132666 TIGR03627, arch_S9P, archaeal ribosomal protein S9P. This model
describes exclusively the archaeal ribosomal protein
S9P. Homologous eukaryotic and bacterial ribosomal
proteins are excluded from this model.
Length = 130
Score = 66.6 bits (163), Expect = 3e-12
Identities = 45/132 (34%), Positives = 60/132 (45%), Gaps = 16/132 (12%)
Query: 49 TGKRKTSIARVWIKSGSGKFTINYVDISKYFTQDLLVLNIKRPF----NTVSQDNMYDVF 104
+GKRKT+IAR I+ G G+ IN V + Y +L L I P + + D+
Sbjct: 5 SGKRKTAIARATIREGKGRVRINGVPVELY-PPELARLKIMEPLILAGDIAKE---VDID 60
Query: 105 ATVSGGGLSGQASAICHGVAKALTYFQPDLRPQIKKG------GFLTRDSRIVERKKYGK 158
VSGGG+ GQA A +A+ L F D +++ L D R E KK G
Sbjct: 61 VKVSGGGIMGQADAARTAIARGLVEFTGD--KELRDAFRAYDRTLLVNDPRRKEPKKPGG 118
Query: 159 AKARRSFQFSKR 170
AR Q S R
Sbjct: 119 RGARAKRQKSYR 130
>gnl|CDD|177799 PLN00210, PLN00210, 40S ribosomal protein S16; Provisional.
Length = 141
Score = 52.4 bits (126), Expect = 6e-08
Identities = 42/134 (31%), Positives = 57/134 (42%), Gaps = 14/134 (10%)
Query: 50 GKRKTSIARVWIKSGSGKFTINYVDISKYFTQDLLVLNIKRPFNTVSQDNMYDV--FATV 107
G++KT++A + K G G IN I + ++L P + + V V
Sbjct: 9 GRKKTAVAVTYCKRGRGLIKINGCPI-ELVQPEILRFKAFEPILLLGRHRFAGVDMRIRV 67
Query: 108 SGGGLSGQASAICHGVAKALT-YFQPDLRPQIKKG----------GFLTRDSRIVERKKY 156
GGG + Q AI +AKAL Y+Q + Q KK L D R E KK+
Sbjct: 68 KGGGHTSQIYAIRQSIAKALVAYYQKYVDEQSKKEIKDILLRYDRTLLVADPRRCEPKKF 127
Query: 157 GKAKARRSFQFSKR 170
G AR FQ S R
Sbjct: 128 GGRGARARFQKSYR 141
>gnl|CDD|185437 PTZ00086, PTZ00086, 40S ribosomal protein S16; Provisional.
Length = 147
Score = 44.7 bits (106), Expect = 1e-05
Identities = 40/134 (29%), Positives = 55/134 (41%), Gaps = 14/134 (10%)
Query: 50 GKRKTSIARVWIKSGSGKFTINYVDISKYFTQDLLVLNIKRPFNTVSQDNM--YDVFATV 107
GK+KT++A + G G +N V + + L + P V ++ D+ V
Sbjct: 15 GKKKTAVAVALVTKGKGLIRVNGVPLDLI-NPETLRAKVFEPLLLVGKERFSRLDIRVRV 73
Query: 108 SGGGLSGQASAICHGVAKAL-TYFQPDLRPQIKKG----------GFLTRDSRIVERKKY 156
GGG QA AI +AK L Y+Q + K L D R E KK+
Sbjct: 74 RGGGQVAQAYAIRQAIAKGLVAYYQKYVDEATKAELKDKLLAYDRSLLVADPRRCEPKKF 133
Query: 157 GKAKARRSFQFSKR 170
G AR FQ S R
Sbjct: 134 GGPGARARFQKSYR 147
>gnl|CDD|181001 PRK07494, PRK07494, 2-octaprenyl-6-methoxyphenyl hydroxylase;
Provisional.
Length = 388
Score = 28.7 bits (65), Expect = 0.71
Identities = 9/26 (34%), Positives = 15/26 (57%), Gaps = 2/26 (7%)
Query: 94 TVSQDNMYDVFATVSGGGLSGQASAI 119
++ + D+ V GGG +G A+AI
Sbjct: 1 SLMEKEHTDI--AVIGGGPAGLAAAI 24
>gnl|CDD|129577 TIGR00486, YbgI_SA1388, dinuclear metal center protein, YbgI/SA1388
family. The characterization of this family of
uncharacterized proteins as orthologous is tentative.
Members are found in all three domains of life. Several
members (from Bacillus subtilis, Listeria monocytogenes,
and Mycobacterium tuberculosis - all classified as
Firmicutes within the Eubacteria) share a long insert
relative to other members.
Length = 249
Score = 28.1 bits (63), Expect = 1.0
Identities = 15/57 (26%), Positives = 19/57 (33%), Gaps = 6/57 (10%)
Query: 73 VDISKYFTQDLLVLNIKRPFNT------VSQDNMYDVFATVSGGGLSGQASAICHGV 123
+ VL IK+ N + A VSG GLS A+ GV
Sbjct: 133 GEFKAPIESLEEVLEIKKVLNVKPLLVVKNGPEYVKKVAVVSGSGLSFIMKALREGV 189
>gnl|CDD|130194 TIGR01124, ilvA_2Cterm, threonine ammonia-lyase, biosynthetic, long
form. Forms scoring between the trusted and noise
cutoff tend to branch with this subgroup of threonine
ammonia-lyase phylogenetically but have only a single
copy of the C-terminal domain.
Length = 499
Score = 27.8 bits (62), Expect = 1.4
Identities = 17/53 (32%), Positives = 22/53 (41%), Gaps = 11/53 (20%)
Query: 96 SQDNMYDVFATVSGGGLSGQASAICHGVAKALTYFQPDLRPQIKKGGFLTRDS 148
+ + VF V GGGL+ GVA + L P+IK G DS
Sbjct: 163 VANPLDAVFVPVGGGGLAA-------GVAALIK----QLMPEIKVIGVEPTDS 204
>gnl|CDD|181531 PRK08665, PRK08665, ribonucleotide-diphosphate reductase subunit
alpha; Validated.
Length = 752
Score = 27.6 bits (62), Expect = 1.7
Identities = 14/38 (36%), Positives = 23/38 (60%), Gaps = 4/38 (10%)
Query: 94 TVSQDN--MYDVFATV--SGGGLSGQASAICHGVAKAL 127
TV++D ++VF T+ +GG + Q+ AI V+ AL
Sbjct: 618 TVNEDEGGPFEVFTTLGKAGGCAAAQSEAIGRLVSLAL 655
>gnl|CDD|185515 PTZ00213, PTZ00213, asparagine synthetase A; Provisional.
Length = 348
Score = 26.7 bits (59), Expect = 3.6
Identities = 14/39 (35%), Positives = 18/39 (46%), Gaps = 4/39 (10%)
Query: 16 GTLTEENTSQPEETSSSPAIHSRKVDQ--WQRSYATGKR 52
G T+ N + EE + IHS VDQ W+ A R
Sbjct: 94 GIYTDMNALRVEEELDN--IHSVYVDQWDWEMVIAPADR 130
>gnl|CDD|182544 PRK10555, PRK10555, aminoglycoside/multidrug efflux system;
Provisional.
Length = 1037
Score = 26.3 bits (58), Expect = 4.5
Identities = 17/40 (42%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 81 QDLLVLN-IKRPFNTVSQDNMYDVFATV-SGGGLSGQASA 118
Q L V+ +++ + T +DN+ VFATV SG G +GQ A
Sbjct: 585 QTLKVVEKVEKYYFTHEKDNVMSVFATVGSGPGGNGQNVA 624
>gnl|CDD|181276 PRK08186, PRK08186, allophanate hydrolase; Provisional.
Length = 600
Score = 26.0 bits (58), Expect = 5.0
Identities = 9/18 (50%), Positives = 11/18 (61%)
Query: 107 VSGGGLSGQASAICHGVA 124
VSGG SG A A+ G+
Sbjct: 147 VSGGSSSGSAVAVALGLV 164
>gnl|CDD|162923 TIGR02562, cas3_yersinia, CRISPR-associated helicase Cas3. The
helicase in many CRISPR-associated (cas) gene clusters
is designated Cas3, and most Cas3 proteins are described
by model TIGR01587. Members of this family are
considerably larger, show a number of motifs in common
with TIGR01587 sequences, and replace Cas3 in some
CRISPR/cas loci in a number of Proteobacteria, including
Yersinia pestis, Chromobacterium violaceum, Erwinia
carotovora subsp. atroseptica SCRI1043, Photorhabdus
luminescens subsp. laumondii TTO1, Legionella
pneumophila, etc.
Length = 1110
Score = 26.0 bits (57), Expect = 5.2
Identities = 20/93 (21%), Positives = 36/93 (38%), Gaps = 9/93 (9%)
Query: 49 TGKRKTSIARVWIKSGSGKFTINYVDISKYFTQDLLVLNIKRPFNTVSQD----NMYDVF 104
T +R T++A WI + + V + F V P N+ +D + +
Sbjct: 52 TARRNTAVACYWIFGMNRSELLWIVGDKRRFNHQGAV-----PTNSTQRDILRALDENEW 106
Query: 105 ATVSGGGLSGQASAICHGVAKALTYFQPDLRPQ 137
+ L + + H + KA +FQ L P+
Sbjct: 107 VSAESISLLAGLAGLLHDIGKASVHFQNKLSPE 139
>gnl|CDD|181709 PRK09224, PRK09224, threonine dehydratase; Reviewed.
Length = 504
Score = 25.9 bits (58), Expect = 5.3
Identities = 16/44 (36%), Positives = 20/44 (45%), Gaps = 13/44 (29%)
Query: 97 QDNMYDVFATVSGGGL-SGQASAICHGVAKALTYFQPDLRPQIK 139
+ VF V GGGL +G A+ I K LRP+IK
Sbjct: 167 PHPLDAVFVPVGGGGLIAGVAAYI-----KQ-------LRPEIK 198
>gnl|CDD|183779 PRK12830, PRK12830, UDP-N-acetylglucosamine
1-carboxyvinyltransferase; Reviewed.
Length = 417
Score = 25.6 bits (57), Expect = 6.1
Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 4/49 (8%)
Query: 2 EDIENIRDIIEQQGGTLTEENTS---QPEETSSSPAIHSRKVDQWQRSY 47
D+ ++ DI+E+ GG + + + P S P + KV + SY
Sbjct: 48 SDVHSLVDILEELGGKVKRDGDTLEIDPTGIQSMPL-PNGKVKSLRASY 95
>gnl|CDD|183757 PRK12800, fliF, flagellar MS-ring protein; Reviewed.
Length = 574
Score = 25.4 bits (55), Expect = 7.1
Identities = 9/24 (37%), Positives = 16/24 (66%)
Query: 94 TVSQDNMYDVFATVSGGGLSGQAS 117
+V QD +YD ++G GL+G+ +
Sbjct: 94 SVPQDRLYDARLKLAGSGLTGKET 117
>gnl|CDD|182005 PRK09632, PRK09632, ATP-dependent DNA ligase; Reviewed.
Length = 764
Score = 25.3 bits (56), Expect = 7.9
Identities = 12/32 (37%), Positives = 17/32 (53%)
Query: 103 VFATVSGGGLSGQASAICHGVAKALTYFQPDL 134
++A + G S AS + VA+AL PDL
Sbjct: 183 LYAPLDGPVSSEGASVVAKEVARALEQDHPDL 214
>gnl|CDD|117563 pfam08997, UCR_6-4kD, Ubiquinol-cytochrome C reductase complex,
6.4kD protein. The ubiquinol-cytochrome C reductase
complex (cytochrome bc1 complex) is an essential
component of the mitochondrial cellular respiratory
chain. This family represents the 6.4kD protein, which
may be closely linked to the iron-sulphur protein in
the complex and function as an iron-sulphur protein
binding factor.
Length = 56
Score = 25.1 bits (55), Expect = 8.4
Identities = 12/38 (31%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 50 GKRKTSIARVWIKSGSGKFTINYVDISKYFTQDLLVLN 87
G + +AR W+ + +G V + YFT LVL+
Sbjct: 7 GPKYRELARSWVPTAAGWGAAGGVALV-YFTDWRLVLD 43
>gnl|CDD|181928 PRK09525, lacZ, beta-D-galactosidase; Reviewed.
Length = 1027
Score = 24.9 bits (55), Expect = 9.6
Identities = 8/20 (40%), Positives = 10/20 (50%)
Query: 25 QPEETSSSPAIHSRKVDQWQ 44
QP T+ S A H QW+
Sbjct: 706 QPNATAWSEAGHRSAWQQWR 725
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
0.316 0.131 0.374
Gapped
Lambda K H
0.267 0.0713 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 2,715,331
Number of extensions: 158177
Number of successful extensions: 367
Number of sequences better than 10.0: 1
Number of HSP's gapped: 359
Number of HSP's successfully gapped: 25
Length of query: 170
Length of database: 5,994,473
Length adjustment: 87
Effective length of query: 83
Effective length of database: 4,114,577
Effective search space: 341509891
Effective search space used: 341509891
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 (21.6 bits)
S2: 54 (24.6 bits)