RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780247|ref|YP_003064660.1| 30S ribosomal protein S8
[Candidatus Liberibacter asiaticus str. psy62]
(129 letters)
>1sei_A Ribosomal protein S8; prokaryotic, rRNA-binding; 1.90A
{Geobacillus stearothermophilus} (A:69-130)
Length = 62
Score = 88.4 bits (220), Expect = 3e-19
Identities = 26/61 (42%), Positives = 40/61 (65%)
Query: 69 SVIRKIDCVSKPGRRLYSSFKDIPQVCNGLGIMIVTTSKGVMAGHQARECKVGGEVLCSV 128
VI + +SKPG R+Y ++P+V NGLGI I++TS+GV+ +AR+ GGE++ V
Sbjct: 2 RVITGLKRISKPGLRVYVKAHEVPRVLNGLGIAILSTSQGVLTDKEARQKGTGGEIIAYV 61
Query: 129 F 129
Sbjct: 62 I 62
>1s03_H 30S ribosomal protein S8; protein-RNA complex, SPC operon,
transcription/RNA complex; 2.70A {Escherichia coli}
(H:1-71)
Length = 71
Score = 88.2 bits (219), Expect = 4e-19
Identities = 25/71 (35%), Positives = 39/71 (54%), Gaps = 2/71 (2%)
Query: 1 MSCLGDMLTRIRNANLRYKPSVVIPFSRLHARVLDVLKTEGYIGEYCEIDAGKGRIQLKV 60
+ DMLTRIRN K +V +P S+L + +VLK EG+I ++ K + ++
Sbjct: 3 QDPIADMLTRIRNGQAANKAAVTMPSSKLKVAIANVLKEEGFIEDFKVEGDTKPEL--EL 60
Query: 61 DLKYHNGASVI 71
LKY G +V+
Sbjct: 61 TLKYFQGKAVV 71
>3bbn_H Ribosomal protein S8; small ribosomal subunit, spinach
chloroplast ribosome, ribonucleoprotein particle,
macromolecular complex; 9.40A {Spinacea oleracea}
(H:77-134)
Length = 58
Score = 84.9 bits (211), Expect = 3e-18
Identities = 24/57 (42%), Positives = 42/57 (73%)
Query: 73 KIDCVSKPGRRLYSSFKDIPQVCNGLGIMIVTTSKGVMAGHQARECKVGGEVLCSVF 129
+ VS+PG R+YS+++ IP++ G+GI I++TS+G+M +AR +GGE+LC ++
Sbjct: 2 HLKRVSRPGLRIYSNYQRIPRILGGMGIAILSTSRGIMTDREARLEGIGGEILCYIW 58
>2vqe_H 30S ribosomal protein S8, 30S ribosomal protein S6;
tRNA-binding, rRNA-binding, metal-binding, zinc-finger,
translation; HET: TM2 PAR; 2.5A {Thermus thermophilus}
(H:81-138)
Length = 58
Score = 83.0 bits (206), Expect = 1e-17
Identities = 30/57 (52%), Positives = 42/57 (73%)
Query: 73 KIDCVSKPGRRLYSSFKDIPQVCNGLGIMIVTTSKGVMAGHQARECKVGGEVLCSVF 129
I +SKPGRR+Y K+IP+V GLGI I++TSKGV+ +AR+ VGGE++C V+
Sbjct: 2 HIRRISKPGRRVYVGVKEIPRVRRGLGIAILSTSKGVLTDREARKLGVGGELICEVW 58
>1s03_H 30S ribosomal protein S8; protein-RNA complex, SPC operon,
transcription/RNA complex; 2.70A {Escherichia coli}
(H:72-129)
Length = 58
Score = 81.1 bits (201), Expect = 5e-17
Identities = 27/56 (48%), Positives = 38/56 (67%)
Query: 73 KIDCVSKPGRRLYSSFKDIPQVCNGLGIMIVTTSKGVMAGHQARECKVGGEVLCSV 128
I VS+PG R+Y ++P+V GLGI +V+TSKGVM AR+ +GGE++C V
Sbjct: 2 SIQRVSRPGLRIYKRKDELPKVMAGLGIAVVSTSKGVMTDRAARQAGLGGEIICYV 57
>1sei_A Ribosomal protein S8; prokaryotic, rRNA-binding; 1.90A
{Geobacillus stearothermophilus} (A:1-68)
Length = 68
Score = 78.6 bits (194), Expect = 3e-16
Identities = 23/64 (35%), Positives = 37/64 (57%), Gaps = 1/64 (1%)
Query: 1 MSCLGDMLTRIRNANLRYKPSVVIPFSRLHARVLDVLKTEGYIGEYCEIDAGKGRIQLKV 60
+ DMLT IRNAN+ + +P S++ + ++LK EG+I +Y I+ K L++
Sbjct: 3 TDPIADMLTAIRNANMVRHEKLEVPASKIKREIAEILKREGFIRDYEYIEDNKQG-ILRI 61
Query: 61 DLKY 64
LKY
Sbjct: 62 FLKY 65
>3bbn_H Ribosomal protein S8; small ribosomal subunit, spinach
chloroplast ribosome, ribonucleoprotein particle,
macromolecular complex; 9.40A {Spinacea oleracea}
(H:1-63)
Length = 63
Score = 75.8 bits (187), Expect = 2e-15
Identities = 15/62 (24%), Positives = 29/62 (46%), Gaps = 1/62 (1%)
Query: 1 MSCLGDMLTRIRNANLRYKPSVVIPFSRLHARVLDVLKTEGYIGEYCEIDAGKGRIQLKV 60
+ D++T IRNA++ K +V I + + ++ +L EG+I + L +
Sbjct: 3 KDTIADIITCIRNADMNRKGTVRIVSTNITENIVKILLREGFIENARKHQERNKY-FLVL 61
Query: 61 DL 62
L
Sbjct: 62 TL 63
>2vqe_H 30S ribosomal protein S8, 30S ribosomal protein S6;
tRNA-binding, rRNA-binding, metal-binding, zinc-finger,
translation; HET: TM2 PAR; 2.5A {Thermus thermophilus}
(H:1-63)
Length = 63
Score = 75.4 bits (186), Expect = 2e-15
Identities = 25/62 (40%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 1 MSCLGDMLTRIRNANLRYKPSVVIPFSRLHARVLDVLKTEGYIGEYCEIDAGKGRIQLKV 60
+ DMLTRIRNA YK S +P SR +L +L EG+I Y +D L+V
Sbjct: 3 TDPIADMLTRIRNATRVYKESTDVPASRFKEEILRILAREGFIKGYERVDVDGKP-YLRV 61
Query: 61 DL 62
L
Sbjct: 62 YL 63
>2zkq_h 40S ribosomal protein S15AE; protein-RNA complex, 40S
ribosomal subunit, ribosomal protein/RNA complex; 8.70A
{Canis familiaris} PDB: 1s1h_H (h:69-130)
Length = 62
Score = 75.3 bits (186), Expect = 3e-15
Identities = 16/64 (25%), Positives = 26/64 (40%), Gaps = 3/64 (4%)
Query: 66 NGASVIRKIDCVSKPGRRLYSSFKDIPQVCNGLGIMIVTTSKGVMAGHQARECKVGGEVL 125
N VI V + + + G +++TTS G+M +AR GG++L
Sbjct: 2 NKCGVISPRFDVQLKDLEKWQNNLLPSR---QFGFIVLTTSAGIMDHEEARRKHTGGKIL 58
Query: 126 CSVF 129
F
Sbjct: 59 GFFF 62
>2zkq_h 40S ribosomal protein S15AE; protein-RNA complex, 40S
ribosomal subunit, ribosomal protein/RNA complex; 8.70A
{Canis familiaris} PDB: 1s1h_H (h:1-68)
Length = 68
Score = 73.5 bits (181), Expect = 1e-14
Identities = 25/65 (38%), Positives = 35/65 (53%), Gaps = 2/65 (3%)
Query: 1 MSCLGDMLTRIRNANLRYKPSVVI-PFSRLHARVLDVLKTEGYIGEYCEIDAGKGRIQLK 59
M+ L D L I NA R K V+I P S++ R L V+ GYIGE+ ID + ++
Sbjct: 4 MNVLADALKSINNAEKRGKRQVLIRPCSKVIVRFLTVMMKHGYIGEFEIIDDHRAG-KIV 62
Query: 60 VDLKY 64
V+L
Sbjct: 63 VNLTG 67
>1i6u_A 30S ribosomal protein S8P; protein-RNA interactions,
ribosome, RNA, X-RAY crystallography; 2.60A
{Methanocaldococcus jannaschii} (A:69-130)
Length = 62
Score = 72.2 bits (178), Expect = 2e-14
Identities = 17/64 (26%), Positives = 31/64 (48%), Gaps = 3/64 (4%)
Query: 66 NGASVIRKIDCVSKPGRRLYSSFKDIPQVCNGLGIMIVTTSKGVMAGHQARECKVGGEVL 125
N I+ V K G + + GI+IV+T++GV + +A++ +GG +L
Sbjct: 2 NKCGAIKPRFPVKKFGYEKFEKRYLPAR---DFGILIVSTTQGVXSHEEAKKRGLGGRLL 58
Query: 126 CSVF 129
V+
Sbjct: 59 AYVY 62
>1i6u_A 30S ribosomal protein S8P; protein-RNA interactions,
ribosome, RNA, X-RAY crystallography; 2.60A
{Methanocaldococcus jannaschii} (A:1-68)
Length = 68
Score = 72.0 bits (177), Expect = 2e-14
Identities = 25/65 (38%), Positives = 32/65 (49%), Gaps = 2/65 (3%)
Query: 1 MSCLGDMLTRIRNANLRYKPSVVI-PFSRLHARVLDVLKTEGYIGEYCEIDAGKGRIQLK 59
M L + L I N K V I P S+L RVL V + GYIGE+ I+ G+ K
Sbjct: 4 MDPLANALNHISNCERVGKKVVYIKPASKLIGRVLKVXQDNGYIGEFEFIEDGRAG-IFK 62
Query: 60 VDLKY 64
V+L
Sbjct: 63 VELIG 67
>1wwj_A Circadian clock protein KAIB; 1.90A {Synechocystis SP} PDB:
1r5p_A 2qke_A 1vgl_A (A:)
Length = 105
Score = 23.9 bits (52), Expect = 6.7
Identities = 14/66 (21%), Positives = 24/66 (36%), Gaps = 9/66 (13%)
Query: 43 IGEYCEIDAGKGRIQLKV-DLKYHNGASVIRKI-------DCVSKPGRRLYSSFKDIPQV 94
+ E + G LKV D+ + + KI + P R++ D +V
Sbjct: 28 LKNILEQEFQ-GVYALKVIDVLKNPQLAEEDKILATPTLAKILPPPVRKIIGDLSDREKV 86
Query: 95 CNGLGI 100
GL +
Sbjct: 87 LIGLDL 92
>1si2_A Eukaryotic translation initiation factor 2C 1; protein-RNA
complex, RNA interference, double helix, overhang, gene
regulation/RNA/DNA complex; 2.60A {Homo sapiens} (A:)
Length = 149
Score = 24.1 bits (52), Expect = 7.5
Identities = 8/62 (12%), Positives = 23/62 (37%)
Query: 18 YKPSVVIPFSRLHARVLDVLKTEGYIGEYCEIDAGKGRIQLKVDLKYHNGASVIRKIDCV 77
+ VI F + ++ + + + + K LKV++ + ++ V
Sbjct: 3 HMAQPVIEFMCEVLDIRNIDEQPKPLTDSQRVRFTKEIKGLKVEVTHCGQMKRKYRVCNV 62
Query: 78 SK 79
++
Sbjct: 63 TR 64
Database: mmdb70
Posted date: Jun 20, 2010 3:12 AM
Number of letters in database: 4,956,049
Number of sequences in database: 33,805
Lambda K H
0.324 0.141 0.426
Gapped
Lambda K H
0.267 0.0794 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 982,985
Number of extensions: 40996
Number of successful extensions: 155
Number of sequences better than 10.0: 1
Number of HSP's gapped: 150
Number of HSP's successfully gapped: 18
Length of query: 129
Length of database: 4,956,049
Length adjustment: 77
Effective length of query: 52
Effective length of database: 2,353,064
Effective search space: 122359328
Effective search space used: 122359328
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: 50 (22.9 bits)