RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780147|ref|YP_003064560.1| 50S ribosomal protein L11
[Candidatus Liberibacter asiaticus str. psy62]
(142 letters)
>3egv_B 50S ribosomal protein L11, ribosomal protein L11
methyltransferase; post-translational modification,
multiple methyltransferase, cytoplasm; HET: SAH 4MM;
1.75A {Thermus thermophilus} (B:)
Length = 146
Score = 137 bits (346), Expect = 6e-34
Identities = 68/139 (48%), Positives = 91/139 (65%), Gaps = 1/139 (0%)
Query: 3 KVVSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCY 62
K V +VKLQ+ +G+A P+PPVGPA+GQ G IM F KAFNAAT M +P +T Y
Sbjct: 1 KKVVAVVKLQLPAGAATPAPPVGPALGQHGANIMEFVKAFNAATANM-GDAIVPVEITIY 59
Query: 63 KDKSFTFTMSQPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDI 122
D+SFTF PP S+ ++K G++ G+ PG+E G IT E + +IA+ KM D+ D+
Sbjct: 60 ADRSFTFVTKTPPASYLIRKAAGLEKGAHKPGREKVGRITWEQVLEIAKQKMPDLNTTDL 119
Query: 123 EGAMRMVEGSACSMGISVV 141
E A RM+ GSA SMG+ VV
Sbjct: 120 EAAARMIAGSARSMGVEVV 138
>1vq8_I 50S ribosomal protein L11P; 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} (I:)
Length = 162
Score = 136 bits (345), Expect = 9e-34
Identities = 36/137 (26%), Positives = 71/137 (51%), Gaps = 1/137 (0%)
Query: 5 VSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCYKD 64
++ +++ + G A P PP+GP +G + + A + N T G +P TV D
Sbjct: 1 MAGTIEVLVPGGEANPGPPLGPELGPTPVDVQAVVQEINDQTAAF-DGTEVPVTVKYDDD 59
Query: 65 KSFTFTMSQPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEG 124
SF + PP + +K E G ++GS P ++ ++ + +++IA+ K D+ + D+
Sbjct: 60 GSFEIEVGVPPTAELIKDEAGFETGSGEPQEDFVADLSVDQVKQIAEQKHPDLLSYDLTN 119
Query: 125 AMRMVEGSACSMGISVV 141
A + V G+ S+G+++
Sbjct: 120 AAKEVVGTCTSLGVTIE 136
>2zkr_i 60S ribosomal protein L12; protein-RNA complex, 60S
ribosomal subunit, ribosomal protein/RNA complex; 8.70A
{Canis familiaris} PDB: 1s1i_K (i:)
Length = 165
Score = 125 bits (314), Expect = 3e-30
Identities = 28/144 (19%), Positives = 53/144 (36%), Gaps = 5/144 (3%)
Query: 1 MAKVVS----RIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIP 56
M ++V L+ G + + P IG G+ AT KG+ I
Sbjct: 1 MPPKFDPNEIKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGDDIAKATGDW-KGLRIT 59
Query: 57 TTVTCYKDKSFTFTMSQPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQD 116
+T ++ + + + K + G+IT + I IA+
Sbjct: 60 VKLTIQNRQAQIEVVPSASALIIKALKEPPRDRKKQKNIKHSGNITFDEIVNIARQMRHR 119
Query: 117 MGAIDIEGAMRMVEGSACSMGISV 140
A ++ G ++ + G+A S+G +V
Sbjct: 120 SLARELSGTIKEILGTAQSVGCNV 143
>3i1n_I 50S ribosomal protein L11; ribosome structure, protein-RNA
complex, acetylation, ribonucleoprotein, ribosomal
protein, RNA-binding, rRNA- binding, methylation; 3.19A
{Escherichia coli k-12} PDB: 1vs8_I 3e1b_5 3e1d_5
1vs6_I 3i1p_I 3i1r_I 3i1t_I 3i20_I 3i22_I 2qam_I*
1p85_G 1p86_G 2awb_I 2aw4_I 2i2v_I 2j28_I 2i2t_I*
2qao_I* 2qba_I* 2qbc_I* ... (I:1-84)
Length = 84
Score = 121 bits (305), Expect = 4e-29
Identities = 49/83 (59%), Positives = 59/83 (71%)
Query: 1 MAKVVSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVT 60
MAK V VKLQ+ +G A PSPPVGPA+GQ G+ IM FCKAFNA T+ +EKG+PIP +T
Sbjct: 1 MAKKVQAYVKLQVAAGMANPSPPVGPALGQQGVNIMEFCKAFNAKTDSIEKGLPIPVVIT 60
Query: 61 CYKDKSFTFTMSQPPVSFFLKKE 83
Y D+SFTF PP + LKK
Sbjct: 61 VYADRSFTFVTKTPPAAVLLKKA 83
>2ftc_G L11MT, MRP-L11, 39S ribosomal protein L11, mitochondrial;
mitochondrial ribosome, large ribosomal subunit,
ribosomal RNA; 12.10A {Bos taurus} PDB: 3iy9_G (G:1-84)
Length = 84
Score = 117 bits (295), Expect = 5e-28
Identities = 33/83 (39%), Positives = 51/83 (61%)
Query: 3 KVVSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCY 62
V +++ + +G A P PP+GP +GQ G+ I FCK FN T+ +++GIP+PT +
Sbjct: 2 PEVGGVIRAIVRAGLAMPGPPLGPVLGQRGVSINQFCKEFNERTKDIKEGIPLPTKILVK 61
Query: 63 KDKSFTFTMSQPPVSFFLKKEVG 85
D++F + QP VS+FLK G
Sbjct: 62 PDRTFEIKIGQPTVSYFLKAAAG 84
>1mms_A Protein (ribosomal protein L11); RNA-protein complex, RNA,
ribosome, translocation, thiostrepton; 2.57A
{Thermotoga maritima} (A:1-72)
Length = 72
Score = 98.2 bits (245), Expect = 4e-22
Identities = 38/73 (52%), Positives = 51/73 (69%), Gaps = 1/73 (1%)
Query: 2 AKVVSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTC 61
AK V+ +KLQ+ +G A P+PPVGPA+GQ G+ IM FCK FNA T + G+ +P +T
Sbjct: 1 AKKVAAQIKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAETA-DKAGMILPVVITV 59
Query: 62 YKDKSFTFTMSQP 74
Y+DKSFTF + P
Sbjct: 60 YEDKSFTFIIKTP 72
>3cjs_B 50S ribosomal protein L11, ribosomal protein L11
methyltransferase; S-adenosyl-L-methionine dependent
methyltransferase; 1.37A {Thermus thermophilus} (B:)
Length = 72
Score = 96.3 bits (240), Expect = 1e-21
Identities = 38/72 (52%), Positives = 46/72 (63%), Gaps = 1/72 (1%)
Query: 3 KVVSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCY 62
K V +VKLQ+ +G A P+PPVGPA+GQ G IM F KAFNAAT M +P +T Y
Sbjct: 2 KKVVAVVKLQLPAGKATPAPPVGPALGQHGANIMEFVKAFNAATANM-GDAIVPVEITIY 60
Query: 63 KDKSFTFTMSQP 74
D+SFTF P
Sbjct: 61 ADRSFTFVTKTP 72
>1hc8_A Ribosomal protein L11; ribosome, ribosomal RNA, tertiary
structure, RNA-protein; HET: GTP; 2.8A {Bacillus
stearothermophilus} (A:)
Length = 76
Score = 95.5 bits (238), Expect = 2e-21
Identities = 38/76 (50%), Positives = 50/76 (65%)
Query: 67 FTFTMSQPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGAM 126
FTF PP + LKK GI+SGS P + +I R+ +R+IA+LKM D+ A IE AM
Sbjct: 1 FTFITKTPPAAVLLKKAAGIESGSGEPNRNKVATIKRDKVREIAELKMPDLNAASIEAAM 60
Query: 127 RMVEGSACSMGISVVD 142
RM+EG+A SMGI V +
Sbjct: 61 RMIEGTARSMGIVVEN 76
>3bbo_K Ribosomal protein L11; large ribosomal subunit, spinach
chloroplast ribosome, ribonucleoprotein particle,
macromolecular complex; 9.40A {Spinacea oleracea}
(K:1-144)
Length = 144
Score = 93.5 bits (232), Expect = 1e-20
Identities = 37/73 (50%), Positives = 49/73 (67%), Gaps = 1/73 (1%)
Query: 2 AKVVSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTC 61
AK V ++KL +E+G A P+PPVGPA+G G+ IMAFCK +NA T + G IP +T
Sbjct: 73 AKKVIGVIKLALEAGKATPAPPVGPALGSKGVNIMAFCKDYNARTA-DKPGFVIPVEITV 131
Query: 62 YKDKSFTFTMSQP 74
+ DKSFTF + P
Sbjct: 132 FDDKSFTFILKTP 144
>1mms_A Protein (ribosomal protein L11); RNA-protein complex, RNA,
ribosome, translocation, thiostrepton; 2.57A {Thermotoga
maritima} (A:73-140)
Length = 68
Score = 86.9 bits (216), Expect = 1e-18
Identities = 34/68 (50%), Positives = 47/68 (69%)
Query: 75 PVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGAMRMVEGSAC 134
P SF LKK GI+ GS P ++ G +TR+ I +IA+ KM D+ A +E AM+++EG+A
Sbjct: 1 PASFLLKKAAGIEKGSSEPKRKIVGKVTRKQIEEIAKTKMPDLNANSLEAAMKIIEGTAK 60
Query: 135 SMGISVVD 142
SMGI VVD
Sbjct: 61 SMGIEVVD 68
>1qa6_A Ribosomal protein L11; ribosomal RNA, tertiary structur,E
RNA-protein interaction, minor groove binding,
antibiotic binding; 2.80A {Geobacillus
stearothermophilus} (A:)
Length = 67
Score = 86.2 bits (214), Expect = 2e-18
Identities = 34/66 (51%), Positives = 45/66 (68%)
Query: 73 QPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGAMRMVEGS 132
PP + LKK GI+SGS P + +I R+ +R+IA+LKM D+ A IE AMRM+EG+
Sbjct: 2 TPPAAVLLKKAAGIESGSGEPNRNKVATIKRDKVREIAELKMPDLNAASIEAAMRMIEGT 61
Query: 133 ACSMGI 138
A SMGI
Sbjct: 62 ARSMGI 67
>3bbo_K Ribosomal protein L11; large ribosomal subunit, spinach
chloroplast ribosome, ribonucleoprotein particle,
macromolecular complex; 9.40A {Spinacea oleracea}
(K:145-224)
Length = 80
Score = 85.0 bits (211), Expect = 4e-18
Identities = 28/67 (41%), Positives = 38/67 (56%)
Query: 75 PVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGAMRMVEGSAC 134
P S L K G + GSK P E G IT + +R IA K+ D+ IE AMR++ G+A
Sbjct: 1 PASVLLLKASGAEKGSKDPQMEKVGKITIDQLRGIATEKLPDLNCTTIESAMRIIAGTAA 60
Query: 135 SMGISVV 141
+MGI +
Sbjct: 61 NMGIDID 67
>3i1n_I 50S ribosomal protein L11; ribosome structure, protein-RNA
complex, acetylation, ribonucleoprotein, ribosomal
protein, RNA-binding, rRNA- binding, methylation; 3.19A
{Escherichia coli k-12} PDB: 1vs8_I 3e1b_5 3e1d_5 1vs6_I
3i1p_I 3i1r_I 3i1t_I 3i20_I 3i22_I 2qam_I* 1p85_G 1p86_G
2awb_I 2aw4_I 2i2v_I 2j28_I 2i2t_I* 2qao_I* 2qba_I*
2qbc_I* ... (I:85-142)
Length = 58
Score = 82.7 bits (205), Expect = 2e-17
Identities = 29/58 (50%), Positives = 37/58 (63%)
Query: 85 GIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGAMRMVEGSACSMGISVVD 142
GIKSGS P K+ G I+R +++IAQ K DM DIE R +EG+A SMG+ V D
Sbjct: 1 GIKSGSGKPNKDKVGKISRAQLQEIAQTKAADMTGADIEAMTRSIEGTARSMGLVVED 58
>1wib_A 60S ribosomal protein L12; N-terminal domain, structural
genomics, riken structural genomics/proteomics
initiative, RSGI, ribosome; NMR {Mus musculus} (A:)
Length = 92
Score = 82.1 bits (203), Expect = 3e-17
Identities = 16/83 (19%), Positives = 27/83 (32%), Gaps = 3/83 (3%)
Query: 3 KVVSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCY 62
++V L+ G + + P IG G+ AT KG+ I +T
Sbjct: 13 PNEVKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGDDIAKATGDW-KGLRITVKLTIQ 71
Query: 63 KDKSFTFTMSQPPVSFFLKKEVG 85
++ + P S G
Sbjct: 72 -NRQAQIEVV-PSASALSGPSSG 92
>2ftc_G L11MT, MRP-L11, 39S ribosomal protein L11, mitochondrial;
mitochondrial ribosome, large ribosomal subunit,
ribosomal RNA; 12.10A {Bos taurus} PDB: 3iy9_G
(G:85-145)
Length = 61
Score = 71.2 bits (175), Expect = 5e-14
Identities = 21/60 (35%), Positives = 37/60 (61%), Gaps = 4/60 (6%)
Query: 86 IKSGSKLPGKESCGSITRENIRKIAQLKMQD----MGAIDIEGAMRMVEGSACSMGISVV 141
I+ G++ GKE G +T +++ +IA++K QD + + + +R + GSA S+GI VV
Sbjct: 1 IEKGARQTGKEVAGLVTLKHVYEIARIKAQDEAFALQDVPLSSVVRSIIGSARSLGIRVV 60
>1jlx_A Agglutinin, amaranthin, ACA; complex (lectin/saccharide),
T-disaccharide homodimer, bivalent, lectin; HET: GAL
A2G; 2.20A {Amaranthus caudatus} (A:160-303)
Length = 144
Score = 26.0 bits (57), Expect = 2.1
Identities = 7/27 (25%), Positives = 16/27 (59%)
Query: 93 PGKESCGSITRENIRKIAQLKMQDMGA 119
PG +C + +N+ + A L++ ++G
Sbjct: 116 PGFINCMNAATQNVDETAILEIIELGQ 142
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
0.317 0.133 0.379
Gapped
Lambda K H
0.267 0.0770 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 1,019,450
Number of extensions: 42366
Number of successful extensions: 97
Number of sequences better than 10.0: 1
Number of HSP's gapped: 88
Number of HSP's successfully gapped: 20
Length of query: 142
Length of database: 4,956,049
Length adjustment: 80
Effective length of query: 62
Effective length of database: 2,251,649
Effective search space: 139602238
Effective search space used: 139602238
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 (21.7 bits)
S2: 50 (23.0 bits)