RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780329|ref|YP_003064742.1| 30S ribosomal protein S6
[Candidatus Liberibacter asiaticus str. psy62]
(135 letters)
>1cqm_A Ribosomal protein S6; alzheimer disease, oligomerization;
1.65A {Thermus thermophilus} (A:)
Length = 101
Score = 109 bits (273), Expect = 2e-25
Identities = 24/100 (24%), Positives = 49/100 (49%)
Query: 1 MKLYEHVFLLRQDISSQQIKDTIGQYQSLIQENGGEVRLVNELGMRTIAYRIRKNRKAYY 60
M+ YE +L ++ Q+ Q ++ G V V LG+R +AY I K+ + Y+
Sbjct: 1 MRRYEVNIVLNPNLDQSQLALEKEIIQRALENYGARVEKVAILGLRRLAYPIAKDPQGYF 60
Query: 61 VFMNIASPPAAIHEMKRKMRIDENVLRSLTLLVDSHEQSP 100
++ + P ++++ R++RI +NV R + + +
Sbjct: 61 LWYQVEMPEDRVNDLARELRIRDNVRRVMVVKSQEPFLAN 100
>3i1m_F 30S ribosomal protein S6; ribosome structure, protein-RNA
complex, ribonucleoprotein, ribosomal protein,
RNA-binding, rRNA-binding, antibiotic resistance; 3.19A
{Escherichia coli k-12} PDB: 1p6g_F 1p87_F* 1vs7_F*
2avy_F 2aw7_F 1vs5_F 2i2u_F 2i2p_F* 2qan_F* 2qb9_F*
2qbb_F* 2qbd_F 2qbf_F 2qbh_F* 2qbj_F* 2qou_F* 2qow_F*
2qoy_F* 2qp0_F* 2vho_F ... (F:)
Length = 135
Score = 108 bits (271), Expect = 3e-25
Identities = 39/133 (29%), Positives = 70/133 (52%), Gaps = 2/133 (1%)
Query: 1 MKLYEHVFLLRQDISSQQIKDTIGQYQSLIQENGGEVRLVNELGMRTIAYRIRKNRKAYY 60
M+ YE VF++ D S +Q+ I +Y + I G++ + + G R +AY I K KA+Y
Sbjct: 1 MRHYEIVFMVHPDQS-EQVPGMIERYTAAITGAEGKIHRLEDWGRRQLAYPINKLHKAHY 59
Query: 61 VFMNIASPPAAIHEMKRKMRIDENVLRSLTLLVDSHEQSPTLTIQ-RHDRDDRNDRFPRD 119
V MN+ +P I E++ R ++ V+RS+ + + ++ + +R +R D F +
Sbjct: 60 VLMNVEAPQEVIDELETTFRFNDAVIRSMVMRTKHAVTEASPMVKAKDERRERRDDFANE 119
Query: 120 RNVDRKQHVSEEK 132
D + SEE+
Sbjct: 120 TADDAEAGDSEEE 132
>2j5a_A 30S ribosomal protein S6; ribonucleoprotein, RNA-binding,
rRNA-binding, protein folding; 2.3A {Aquifex aeolicus}
(A:)
Length = 110
Score = 105 bits (264), Expect = 2e-24
Identities = 29/101 (28%), Positives = 54/101 (53%), Gaps = 1/101 (0%)
Query: 1 MKLYEHVFLLRQDISSQQIKDTIGQYQSLIQENGGEVRLVNELGMRTIAYRIRKNRKAYY 60
++ YE VF ++ +S +++K Q + I++ GGE+ + GMR +AY I+K A Y
Sbjct: 7 LRYYETVFAVKPTLSEEEMKKKFEQVKEFIKQKGGEILYEEDWGMRQLAYPIQKFNNARY 66
Query: 61 VFMNI-ASPPAAIHEMKRKMRIDENVLRSLTLLVDSHEQSP 100
+ P +E+ +++IDE+V+R L + + E
Sbjct: 67 FLVQFKTENPQLPNELDFQLKIDEDVIRWLNIQIKESEVKK 107
>3bbn_F Ribosomal protein S6; small ribosomal subunit, spinach
chloroplast ribosome, ribonucleoprotein particle,
macromolecular complex; 9.40A {Spinacea oleracea} (F:)
Length = 168
Score = 100 bits (251), Expect = 5e-23
Identities = 22/106 (20%), Positives = 48/106 (45%), Gaps = 9/106 (8%)
Query: 1 MKLYEHVFLLRQDISSQQIKDTIGQYQSLIQENGGEVRLVNELGMRTIAYRIRKNRKA-- 58
++ YE + +LR D++ + +Y+ L+ G V G+ +AY I++ KA
Sbjct: 62 LRQYETMAVLRPDMTEDERLTLTQKYEELLVAGGAMYVEVFNRGVIPLAYSIKRKNKAGE 121
Query: 59 -------YYVFMNIASPPAAIHEMKRKMRIDENVLRSLTLLVDSHE 97
Y+ + P +I ++ + D++V+RS + + +
Sbjct: 122 TNNYLDGIYLLFTYFTKPESISPLEAALVTDDDVIRSSSFKIRKRK 167
>1vmb_A 30S ribosomal protein S6; TM0603, structural genomics, JCSG,
protein structure initiative, PSI, joint center for
structural genomics; 1.70A {Thermotoga maritima} (A:)
Length = 140
Score = 98.8 bits (246), Expect = 2e-22
Identities = 20/101 (19%), Positives = 49/101 (48%), Gaps = 1/101 (0%)
Query: 1 MKLYEHVFLLRQDISSQQIKDTIGQYQSLIQEN-GGEVRLVNELGMRTIAYRIRKNRKAY 59
++YE +F++ ++ ++ ++ + + + +I+E G++ V +GMR AY I+K +
Sbjct: 18 ERIYESMFIIAPNVPEEERENLVERVKKIIEERVKGKIDKVERMGMRKFAYEIKKFNEGD 77
Query: 60 YVFMNIASPPAAIHEMKRKMRIDENVLRSLTLLVDSHEQSP 100
Y + + E++ R+ ++R T E+
Sbjct: 78 YTVIYFRCDGQNLQELENFYRVTPEIIRWQTFRRFDLEKKE 118
>2kjw_A TS9, 30S ribosomal protein S6; S6 permutant, solution
structure, backbone dynamics, folding,
ribonucleoprotein, RNA-binding, rRNA-binding; NMR
{Thermus thermophilus} (A:)
Length = 96
Score = 60.9 bits (148), Expect = 6e-11
Identities = 16/54 (29%), Positives = 24/54 (44%)
Query: 1 MKLYEHVFLLRQDISSQQIKDTIGQYQSLIQENGGEVRLVNELGMRTIAYRIRK 54
YE +L ++ Q+ Q ++ G V V ELG+R +AY I K
Sbjct: 43 PGRYEVNIVLNPNLDQSQLALEKEIIQRALENYGARVEKVEELGLRRLAYPIAK 96
>1wza_A Alpha-amylase A; hydrolase, halophilic, thermophilic;
1.60A {Halothermothrix orenii} (A:408-488)
Length = 81
Score = 25.0 bits (54), Expect = 3.3
Identities = 10/38 (26%), Positives = 23/38 (60%), Gaps = 1/38 (2%)
Query: 35 GEVRLVNELGMRTIAYRIRKNRKAYYVFMNIASPPAAI 72
G++ ++N G+ +A+R +++ YV+ N+ + P I
Sbjct: 3 GKIEIING-GLNVVAFRRYNDKRDLYVYHNLVNRPVKI 39
>3kcq_A Phosphoribosylglycinamide formyltransferase; structural
genomics, niaid, seattle structural genomics center for
infectious disease; 2.20A {Anaplasma phagocytophilum
HZ} (A:)
Length = 215
Score = 25.1 bits (54), Expect = 4.1
Identities = 3/11 (27%), Positives = 7/11 (63%)
Query: 71 AIHEMKRKMRI 81
MK+++R+
Sbjct: 1 GPGSMKKELRV 11
>2fji_1 Exocyst complex component SEC6; exocytosis, tandem helical
bundles, endocytosis/exocytosis complex; 2.40A
{Saccharomyces cerevisiae} (1:210-399)
Length = 190
Score = 24.5 bits (53), Expect = 5.3
Identities = 9/49 (18%), Positives = 18/49 (36%)
Query: 5 EHVFLLRQDISSQQIKDTIGQYQSLIQENGGEVRLVNELGMRTIAYRIR 53
+ R+D+SS + K + Q ++ E + T+ R
Sbjct: 136 VGILKCRKDVSSSERKKIVQQATEMLHEYRRNMEANGVDREPTLMRRFV 184
>2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase
class II, ligase; 3.23A {Methanococcus maripaludis S2}
(C:359-648)
Length = 290
Score = 24.0 bits (52), Expect = 6.9
Identities = 8/47 (17%), Positives = 19/47 (40%), Gaps = 9/47 (19%)
Query: 48 IAYRI----RKNRKAYYVFMNIASPPAAIHEMKRKMRIDENVLRSLT 90
I ++ N + V + I + I+ ++ID+ L+ +
Sbjct: 136 ITSKLEEAFVSNTTEFKVKVPIVRSLSDIN-----LKIDDIALKQIM 177
>2odr_D Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase
class II, ligase; 3.23A {Methanococcus maripaludis S2}
(D:363-647)
Length = 285
Score = 24.0 bits (52), Expect = 6.9
Identities = 8/47 (17%), Positives = 19/47 (40%), Gaps = 9/47 (19%)
Query: 48 IAYRI----RKNRKAYYVFMNIASPPAAIHEMKRKMRIDENVLRSLT 90
I ++ N + V + I + I+ ++ID+ L+ +
Sbjct: 132 ITSKLEEAFVSNTTEFKVKVPIVRSLSDIN-----LKIDDIALKQIM 173
>2fef_A Hypothetical protein PA2201; SAD, structural genomics, PSI,
protein structure initiative, MCSG; 1.90A {Pseudomonas
aeruginosa PAO1} (A:)
Length = 294
Score = 23.7 bits (51), Expect = 9.2
Identities = 7/34 (20%), Positives = 13/34 (38%)
Query: 102 LTIQRHDRDDRNDRFPRDRNVDRKQHVSEEKPLS 135
+ R DR R + D D ++ ++ S
Sbjct: 20 RNLARTDRAPRRNIDLADWKADWRELIAALDRFS 53
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
0.320 0.135 0.375
Gapped
Lambda K H
0.267 0.0517 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 957,710
Number of extensions: 39171
Number of successful extensions: 100
Number of sequences better than 10.0: 1
Number of HSP's gapped: 96
Number of HSP's successfully gapped: 13
Length of query: 135
Length of database: 4,956,049
Length adjustment: 79
Effective length of query: 56
Effective length of database: 2,285,454
Effective search space: 127985424
Effective search space used: 127985424
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: 50 (23.5 bits)