RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780247|ref|YP_003064660.1| 30S ribosomal protein S8
[Candidatus Liberibacter asiaticus str. psy62]
(129 letters)
>gnl|CDD|144123 pfam00410, Ribosomal_S8, Ribosomal protein S8.
Length = 129
Score = 171 bits (437), Expect = 4e-44
Identities = 64/127 (50%), Positives = 86/127 (67%), Gaps = 1/127 (0%)
Query: 4 LGDMLTRIRNANLRYKPSVVIPFSRLHARVLDVLKTEGYIGEYCEIDAGKGRIQLKVDLK 63
+ DMLTRIRNA + K +V+IP S+L +L +LK EGYI + I+ + +KV LK
Sbjct: 3 IADMLTRIRNAQMAKKETVLIPASKLKISILKILKEEGYIKGFEVIEDERNGKFIKVTLK 62
Query: 64 YH-NGASVIRKIDCVSKPGRRLYSSFKDIPQVCNGLGIMIVTTSKGVMAGHQARECKVGG 122
Y NG VI I +SKPG R+Y S+K++P+V GLGI I++TSKGVM +AR+ VGG
Sbjct: 63 YDKNGKPVITGIKRISKPGLRVYVSYKELPKVLGGLGIAILSTSKGVMTDREARKKGVGG 122
Query: 123 EVLCSVF 129
EVLC V+
Sbjct: 123 EVLCYVW 129
>gnl|CDD|30445 COG0096, RpsH, Ribosomal protein S8 [Translation, ribosomal
structure and biogenesis].
Length = 132
Score = 150 bits (380), Expect = 1e-37
Identities = 68/127 (53%), Positives = 83/127 (65%), Gaps = 2/127 (1%)
Query: 4 LGDMLTRIRNANLRYKPSVVIPFSRLHARVLDVLKTEGYIGEYCEIDAGKGRIQLKVDLK 63
L DMLTRIRNA K V +P S+L +L VLK EGYI ++ ID G+ L+V LK
Sbjct: 7 LADMLTRIRNAERAKKEVVSMPASKLKGAILKVLKKEGYIKDFEVIDDGRKGK-LRVQLK 65
Query: 64 Y-HNGASVIRKIDCVSKPGRRLYSSFKDIPQVCNGLGIMIVTTSKGVMAGHQARECKVGG 122
Y NG VI I VSKPG R+Y +++P V NGLGI IV+TSKGVM +AR+ VGG
Sbjct: 66 YRINGCGVISPIKRVSKPGLRVYEKKRELPAVLNGLGIAIVSTSKGVMTDKEARKKGVGG 125
Query: 123 EVLCSVF 129
EVLC V+
Sbjct: 126 EVLCYVW 132
>gnl|CDD|176983 CHL00042, rps8, ribosomal protein S8.
Length = 132
Score = 132 bits (334), Expect = 3e-32
Identities = 51/128 (39%), Positives = 79/128 (61%), Gaps = 3/128 (2%)
Query: 4 LGDMLTRIRNANLRYKPSVVIPFSRLHARVLDVLKTEGYIGEYCEIDAGKGRIQLKVDLK 63
+ DMLTRIRNAN+ K +V IP + + ++ +L EG+I E + L + LK
Sbjct: 6 IADMLTRIRNANMVKKGTVRIPATNITENIVKILLREGFIENVREHRENN-KYFLVLTLK 64
Query: 64 YH--NGASVIRKIDCVSKPGRRLYSSFKDIPQVCNGLGIMIVTTSKGVMAGHQARECKVG 121
Y I + +SKPG R+YS++K+IP+V G+GI+I++TSKG+M +AR +G
Sbjct: 65 YRGNKKKPYITTLKRISKPGLRIYSNYKEIPRVLGGMGIVILSTSKGIMTDREARLKGIG 124
Query: 122 GEVLCSVF 129
GE+LC ++
Sbjct: 125 GEILCYIW 132
>gnl|CDD|36965 KOG1754, KOG1754, KOG1754, 40S ribosomal protein S15/S22
[Translation, ribosomal structure and biogenesis].
Length = 130
Score = 62.2 bits (151), Expect = 4e-11
Identities = 44/133 (33%), Positives = 62/133 (46%), Gaps = 10/133 (7%)
Query: 1 MSCLGDMLTRIRNANLRYKPSVVI-PFSRLHARVLDVLKTEGYIGEYCEID---AGKGRI 56
M+ L D L I NA R K V+I P S++ R L V+ GYIGE+ ID AGK +
Sbjct: 4 MNVLADALKSINNAEKRGKRQVLIRPSSKVIIRFLTVMMKHGYIGEFEIIDDHRAGKIVV 63
Query: 57 QLKVDLKYHNGASVIRKIDCVSKPGRRLYSSFKDIPQVCNGLGIMIVTTSKGVMAGHQAR 116
L L N VI V +++ G +++TTS G+M +AR
Sbjct: 64 NLTGRL---NKCGVISPRFDVKLKDLEKWTNSLLPS---RQFGYIVLTTSAGIMDHEEAR 117
Query: 117 ECKVGGEVLCSVF 129
VGG++L +
Sbjct: 118 RKNVGGKILGFFY 130
>gnl|CDD|39490 KOG4289, KOG4289, KOG4289, Cadherin EGF LAG seven-pass G-type
receptor [Signal transduction mechanisms].
Length = 2531
Score = 27.7 bits (61), Expect = 1.0
Identities = 8/16 (50%), Positives = 11/16 (68%)
Query: 40 EGYIGEYCEIDAGKGR 55
G+ GE+CE+ A GR
Sbjct: 1266 PGFTGEHCEVSARAGR 1281
>gnl|CDD|30993 COG0648, Nfo, Endonuclease IV [DNA replication, recombination, and
repair].
Length = 280
Score = 26.8 bits (59), Expect = 1.7
Identities = 15/56 (26%), Positives = 20/56 (35%), Gaps = 4/56 (7%)
Query: 21 SVVIPFSRLHARVLDVLKTEGYIGEYCEIDAGKGRIQLKV----DLKYHNGASVIR 72
V I A D++ E + E D G LK D KY G++ R
Sbjct: 171 GVCIDTCHAFAAGYDIITEEDFEKVLNEFDKVLGLEYLKHIHLNDSKYPLGSNKDR 226
>gnl|CDD|146287 pfam03568, Peptidase_C50, Peptidase family C50.
Length = 339
Score = 25.0 bits (55), Expect = 5.8
Identities = 14/44 (31%), Positives = 19/44 (43%)
Query: 28 RLHARVLDVLKTEGYIGEYCEIDAGKGRIQLKVDLKYHNGASVI 71
L LD+L+ EG Y EID + LK + +N I
Sbjct: 157 DLKYFDLDILRFEGEENAYDEIDLQLLHVLLKEAVNKYNEDDSI 200
>gnl|CDD|37107 KOG1896, KOG1896, KOG1896, mRNA cleavage and polyadenylation factor
II complex, subunit CFT1 (CPSF subunit) [RNA processing
and modification].
Length = 1366
Score = 24.5 bits (53), Expect = 7.4
Identities = 8/30 (26%), Positives = 10/30 (33%), Gaps = 3/30 (10%)
Query: 17 RYKPSVVIPFSRL---HARVLDVLKTEGYI 43
PS VI L ++D GY
Sbjct: 185 FTAPSYVIALRELDEKIKNIIDFQFLHGYY 214
>gnl|CDD|32391 COG2209, NqrE, Na+-transporting NADH:ubiquinone oxidoreductase,
subunit NqrE [Energy production and conversion].
Length = 198
Score = 24.4 bits (53), Expect = 8.4
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 2/35 (5%)
Query: 77 VSKPGRRLYSSFKDIPQVCNGLGIMIVTTSKGVMA 111
V+ G R + D+P+ GLGI +T G+MA
Sbjct: 155 VALAGIREKMKYSDVPKGLQGLGITFITA--GLMA 187
>gnl|CDD|31285 COG1088, RfbB, dTDP-D-glucose 4,6-dehydratase [Cell envelope
biogenesis, outer membrane].
Length = 340
Score = 24.4 bits (53), Expect = 8.8
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 30 HARVLDVLKTEGYIGEYCEIDAGKGRIQLKV 60
H R +D++ T+G IGE I G R L+V
Sbjct: 224 HCRAIDLVLTKGKIGETYNIGGGNERTNLEV 254
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
0.324 0.141 0.426
Gapped
Lambda K H
0.267 0.0704 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 1,523,144
Number of extensions: 72630
Number of successful extensions: 217
Number of sequences better than 10.0: 1
Number of HSP's gapped: 212
Number of HSP's successfully gapped: 12
Length of query: 129
Length of database: 6,263,737
Length adjustment: 83
Effective length of query: 46
Effective length of database: 4,470,190
Effective search space: 205628740
Effective search space used: 205628740
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 52 (23.9 bits)