RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780245|ref|YP_003064658.1| 50S ribosomal protein L18
[Candidatus Liberibacter asiaticus str. psy62]
(120 letters)
>3i1n_O 50S ribosomal protein L18; ribosome structure, protein-RNA
complex, acetylation, ribonucleoprotein, ribosomal
protein, RNA-binding, rRNA- binding, methylation; 3.19A
{Escherichia coli k-12} PDB: 1p85_M 1p86_M 1vs8_O 2aw4_O
2awb_O 1vs6_O 2i2v_O 2j28_O 2i2t_O* 2qao_O* 2qba_O*
2qbc_O* 2qbe_O 2qbg_O 2qbi_O* 2qbk_O* 2qov_O 2qox_O
2qoz_O* 2qp1_O* ... (O:)
Length = 117
Score = 105 bits (263), Expect = 2e-24
Identities = 46/117 (39%), Positives = 69/117 (58%), Gaps = 4/117 (3%)
Query: 8 LARRISRIRRHLKSVSR----GRLRLSVCRSSKHIYGQIIDDSIGHTLVSASSLNEPLRS 63
+ ++ +RIRR ++ + G RL V R+ +HIY Q+I + LV+AS++ + +
Sbjct: 1 MDKKSARIRRATRARRKLQELGATRLVVHRTPRHIYAQVIAPNGSEVLVAASTVEKAIAE 60
Query: 64 SLKTGANIVAATAVGNLLVERAVKVGVKSVYFDRGKHLYCGRIAALADAVRKGGVSF 120
LK N AA AVG + ERA++ G+K V FDR Y GR+ ALADA R+ G+ F
Sbjct: 61 QLKYTGNKDAAAAVGKAVAERALEKGIKDVSFDRSGFQYHGRVQALADAAREAGLQF 117
>1ovy_A 50S ribosomal protein L18; ribosome; NMR {Geobacillus
stearothermophilus} (A:)
Length = 120
Score = 104 bits (261), Expect = 4e-24
Identities = 58/125 (46%), Positives = 77/125 (61%), Gaps = 10/125 (8%)
Query: 1 MATKKKVLARRISRIRRHLK-----SVSRGRLRLSVCRSSKHIYGQIIDDSIGHTLVSAS 55
M TK R R +RH + + R RLSV RS+KHIY QIIDD+ T+VSAS
Sbjct: 1 MITKVD---RNAVRKKRHARIRKKIFGTTERPRLSVFRSNKHIYAQIIDDTKSATIVSAS 57
Query: 56 SLNEPLRSSLKTGANIVAATAVGNLLVERAVKVGVKSVYFDRGKHLYCGRIAALADAVRK 115
+L++ L + NI AA VG L+ +RA++ G+K V FDRG +LY GR+ ALADA R+
Sbjct: 58 TLDKEFG--LDSTNNIEAAKKVGELVAKRALEKGIKQVVFDRGGYLYHGRVKALADAARE 115
Query: 116 GGVSF 120
G+ F
Sbjct: 116 AGLEF 120
>1vq8_N 50S ribosomal protein L18P; ribosome 50S, protein-protein
complex, RNA-RNA complex, protein-RNA complex, peptidyl
transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS;
2.20A {Haloarcula marismortui} (N:)
Length = 187
Score = 99 bits (249), Expect = 1e-22
Identities = 33/130 (25%), Positives = 55/130 (42%), Gaps = 10/130 (7%)
Query: 1 MAT--KKKVLARRISRIR----RHLKSVSRGRLRLSVCRSSKHIYGQII--DDSIGHTLV 52
MAT + KV RR R + L+ + G+ RL +S+KH+ Q++ + TL
Sbjct: 1 MATGPRYKVPMRRRREARTDYHQRLRLLKSGKPRLVARKSNKHVRAQLVTLGPNGDDTLA 60
Query: 53 SASSLNEPLRSSLKTGANIVAATAVGNLLVERAVKVGVKSVYFDRGKH--LYCGRIAALA 110
SA S + N+ +A G L RA + GV+ D G + ++ A+
Sbjct: 61 SAHSSDLAEYGWEAPTGNMPSAYLTGLLAGLRAQEAGVEEAVLDIGLNSPTPGSKVFAIQ 120
Query: 111 DAVRKGGVSF 120
+ G+
Sbjct: 121 EGAIDAGLDI 130
>3bbo_Q Ribosomal protein L18; large ribosomal subunit, spinach
chloroplast ribosome, ribonucleoprotein particle,
macromolecular complex; 9.40A {Vitis vinifera} (Q:)
Length = 161
Score = 99.6 bits (248), Expect = 1e-22
Identities = 48/125 (38%), Positives = 68/125 (54%), Gaps = 7/125 (5%)
Query: 3 TKKKVLARRISRIRRHLKSVSR-----GRLRLSVCRSSKHIYGQIIDDSIGHTLVSASSL 57
+ K RR R RH++ + R RL V RS+KH+Y Q+IDDS HTL SAS++
Sbjct: 37 IEAKAKTRREDRTARHVRIRKKVEGTPERPRLCVFRSNKHLYVQVIDDSKMHTLASASTM 96
Query: 58 NEPLRSSLKT--GANIVAATAVGNLLVERAVKVGVKSVYFDRGKHLYCGRIAALADAVRK 115
+ + L I A VG ++ ++ G+ V FDRG + Y GR+ ALADA R+
Sbjct: 97 QKSISEELDYSSSPTIEVAKKVGEVIASACLEKGITKVAFDRGGYPYHGRVKALADAARE 156
Query: 116 GGVSF 120
G+ F
Sbjct: 157 KGLQF 161
>2j01_S 50S ribosomal protein L18; ribosome, tRNA, paromomycin,
mRNA, translation; 2.8A {Thermus thermophilus} (S:)
Length = 112
Score = 96.3 bits (240), Expect = 1e-21
Identities = 56/118 (47%), Positives = 70/118 (59%), Gaps = 7/118 (5%)
Query: 3 TKKKVLARRISRIRRHLKSVSRGRLRLSVCRSSKHIYGQIIDDSIGHTLVSASSLNEPLR 62
+ RR R+R +K GRLRLSV RS KHIY QIIDD G TLVSASSL L+
Sbjct: 2 ARLTAYERRKFRVRNRIKR--TGRLRLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLK 59
Query: 63 SSLKTGANIVAATAVGNLLVERAVKVGVKSVYFDRGKHLYCGRIAALADAVRKGGVSF 120
+ A VG L E+A+ +G+K V FDRG + Y GR+ ALA+ R+GG+ F
Sbjct: 60 GN-----KTEVARQVGRALAEKALALGIKQVAFDRGPYKYHGRVKALAEGAREGGLEF 112
>2zjr_L 50S ribosomal protein L18; ribosome, large ribosomal
subunit, ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} (L:23-114)
Length = 92
Score = 95.9 bits (239), Expect = 2e-21
Identities = 51/96 (53%), Positives = 59/96 (61%), Gaps = 6/96 (6%)
Query: 25 GRLRLSVCRSSKHIYGQIIDDSIGHTLVSASSLNEPLRSSLKTGANIVAATAVGNLLVER 84
GRLRLSV RSSKHIY QIIDDS G TL +ASS + A AVG L
Sbjct: 3 GRLRLSVYRSSKHIYAQIIDDSRGQTLAAASSAALKSGNKTD------TAAAVGKALAAA 56
Query: 85 AVKVGVKSVYFDRGKHLYCGRIAALADAVRKGGVSF 120
A + G+K V FDRG + Y GR+ ALADA R+GG+ F
Sbjct: 57 AAEKGIKQVVFDRGSYKYHGRVKALADAAREGGLDF 92
>3jyw_E 60S ribosomal protein L5; eukaryotic ribosome, RACK1
protein, flexible fitting; 8.90A {Thermomyces
lanuginosus} PDB: 1s1i_E (E:)
Length = 237
Score = 91.9 bits (228), Expect = 3e-20
Identities = 24/119 (20%), Positives = 38/119 (31%), Gaps = 3/119 (2%)
Query: 4 KKKVLARRISRIRRHLKSVSRGRLRLSVCRSSKHIYGQIIDDSI--GHTLVSASSLNEPL 61
K +R + +H + + RL V ++K I QII +I L +A S P
Sbjct: 16 GKTDYYQRKRLVTQHKAKYNTPKYRLVVRFTNKDIICQIISSTITGDVVLAAAYSHELPR 75
Query: 62 RSSLKTGANIVAATAVGNLLVERAVKVGVKSVYFDRGKHLYCGRIAALADAVRKGGVSF 120
N AA A G L+ R ++ + + G
Sbjct: 76 YGITHGLTNWAAAYATGLLIARRTLQRLGLDETYKGVEE-VEGEYELTEAVEDGPRPFK 133
>2zkr_n 60S ribosomal protein L5; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris} (n:)
Length = 297
Score = 35.2 bits (81), Expect = 0.003
Identities = 20/94 (21%), Positives = 38/94 (40%), Gaps = 5/94 (5%)
Query: 5 KKVLARRISRIRRHLKSVSRGRLRLSVCRSSKHIYGQIIDDSIG--HTLVSASSLNEPLR 62
K R + + + + R+ V +++ I QI I + + + +E +
Sbjct: 27 KTDYYARKRLVIQDKNKYNTPKYRMIVRVTNRDIICQIAYARIEGDMIVCARYA-HELPK 85
Query: 63 SSLKTG-ANIVAATAVGNLLVERAV-KVGVKSVY 94
+K G N AA G LL R + + G+ +Y
Sbjct: 86 YGVKVGLTNYAAAYCTGLLLARRLLNRFGMDKIY 119
>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels,
nucleotide-binding, nucleotide binding protein; 2.00A
{Sulfolobus solfataricus P2} PDB: 2qth_A* (A:1-171)
Length = 171
Score = 25.1 bits (55), Expect = 3.2
Identities = 6/22 (27%), Positives = 13/22 (59%)
Query: 5 KKVLARRISRIRRHLKSVSRGR 26
K RRI+++ + L+S+ +
Sbjct: 146 IKFYKRRINKLMKELESIKIFK 167
>2ftc_E Mitochondrial ribosomal protein L7/12, mitochondrial 39S
ribosomal protein L3; mitochondrial ribosome, large
ribosomal subunit, ribosomal RNA; 12.10A {Bos taurus}
(E:1-65)
Length = 65
Score = 24.8 bits (54), Expect = 3.9
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 41 QIIDDSIGHTLVSASSLNEPLRSSLK 66
Q++ D TL+ S LNE L+ +LK
Sbjct: 5 QLVQDIASLTLLEISDLNELLKKTLK 30
>2gnr_A Conserved hypothetical protein; 13815350, structural
genomics, PSI, protein structure initiative; 1.80A
{Sulfolobus solfataricus P2} (A:)
Length = 145
Score = 23.7 bits (51), Expect = 8.3
Identities = 3/25 (12%), Positives = 9/25 (36%)
Query: 15 IRRHLKSVSRGRLRLSVCRSSKHIY 39
+ + + ++ S C I+
Sbjct: 33 GEQFFNGLKQNKIIGSKCSKCGRIF 57
>1vg0_A RAB proteins geranylgeranyltransferase component A 1; RAB
prenylation, post-translational modification, protein
binding/protein transport complex; HET: GER GDP PG4;
2.20A {Rattus norvegicus} (A:273-365)
Length = 93
Score = 23.5 bits (51), Expect = 9.9
Identities = 2/13 (15%), Positives = 7/13 (53%)
Query: 12 ISRIRRHLKSVSR 24
+ ++ L+ + R
Sbjct: 80 LKATKKFLQCLGR 92
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
0.322 0.134 0.371
Gapped
Lambda K H
0.267 0.0602 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 833,380
Number of extensions: 30461
Number of successful extensions: 104
Number of sequences better than 10.0: 1
Number of HSP's gapped: 95
Number of HSP's successfully gapped: 21
Length of query: 120
Length of database: 4,956,049
Length adjustment: 72
Effective length of query: 48
Effective length of database: 2,522,089
Effective search space: 121060272
Effective search space used: 121060272
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 (22.0 bits)
S2: 50 (23.3 bits)