RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780253|ref|YP_003064666.1| ribosomal protein L29
[Candidatus Liberibacter asiaticus str. psy62]
(67 letters)
>3jyw_X 60S ribosomal protein L35; eukaryotic ribosome, RACK1 protein,
flexible fitting; 8.90A {Thermomyces lanuginosus}
Length = 86
Score = 67.3 bits (165), Expect = 8e-13
Identities = 17/59 (28%), Positives = 32/59 (54%), Gaps = 2/59 (3%)
Query: 1 MLKFKDISVMSIDQLTEKLIQLKKDQMSLRFQKASGQIEKPFRMREVSRDIARIKTMMN 59
+K ++ S +QL +L+ LKK+ L+ QK S +++ V + IA + T++N
Sbjct: 2 GVKAYELRTKSKEQLASQLVDLKKELAELKVQKLSRP--SLPKIKTVRKSIACVLTVIN 58
>3bbo_Z Ribosomal protein L29; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Arabidopsis thaliana}
Length = 173
Score = 64.2 bits (156), Expect = 7e-12
Identities = 17/61 (27%), Positives = 32/61 (52%)
Query: 1 MLKFKDISVMSIDQLTEKLIQLKKDQMSLRFQKASGQIEKPFRMREVSRDIARIKTMMNS 60
+ K+I + +QL E+++ LK + LR QK++ K R + + +AR+ T+
Sbjct: 64 EAELKEIRSKTTEQLQEEVVDLKGELFMLRLQKSARNEFKSSDFRRMKKQVARMLTVKRE 123
Query: 61 R 61
R
Sbjct: 124 R 124
>3i1n_Y 50S ribosomal protein L29; ribosome structure, protein-RNA
complex, acetylation, ribonucleoprotein, ribosomal
protein, RNA-binding, rRNA- binding, methylation; 3.19A
{Escherichia coli k-12} PDB: 1p85_W 1p86_W 1vs8_X
2aw4_X 2awb_X 1vs6_X 2i2v_Y 2j28_X 2i2t_Y* 2qao_X*
2qba_X* 2qbc_X* 2qbe_X 2qbg_X 2qbi_X* 2qbk_X* 2qov_X
2qox_X 2qoz_X* 2qp1_X* ...
Length = 63
Score = 62.7 bits (153), Expect = 2e-11
Identities = 22/59 (37%), Positives = 43/59 (72%)
Query: 3 KFKDISVMSIDQLTEKLIQLKKDQMSLRFQKASGQIEKPFRMREVSRDIARIKTMMNSR 61
K K++ S+++L +L+ L ++Q +LR Q ASGQ+++ +++V RD+AR+KT++N +
Sbjct: 2 KAKELREKSVEELNTELLNLLREQFNLRMQAASGQLQQSHLLKQVRRDVARVKTLLNEK 60
>3ofq_Y 50S ribosomal protein L29; protein biosynthesis, ribosomes, RNA,
tRNA, transfer, antibi EXIT, peptidyl, ribosomal
subunit, large; 3.10A {Escherichia coli} PDB: 1p85_W
1p86_W 1vs8_X 1vs6_X 2aw4_X 2awb_X 1vt2_Y 2i2v_Y 2j28_X
2i2t_Y* 2qao_X* 2qba_X* 2qbc_X* 2qbe_X 2qbg_X 2qbi_X*
2qbk_X* 2qov_X 2qox_X 2qoz_X* ...
Length = 63
Score = 62.3 bits (152), Expect = 3e-11
Identities = 22/59 (37%), Positives = 43/59 (72%)
Query: 3 KFKDISVMSIDQLTEKLIQLKKDQMSLRFQKASGQIEKPFRMREVSRDIARIKTMMNSR 61
K K++ S+++L +L+ L ++Q +LR Q ASGQ+++ +++V RD+AR+KT++N +
Sbjct: 2 KAKELREKSVEELNTELLNLLREQFNLRMQAASGQLQQSHLLKQVRRDVARVKTLLNEK 60
>1r73_A TM1492, 50S ribosomal protein L29; ribosome, structural genomics,
PSI, protein structure initiative, joint center for
structural genomics; NMR {Thermotoga maritima} SCOP:
a.2.2.1
Length = 66
Score = 62.3 bits (152), Expect = 3e-11
Identities = 21/59 (35%), Positives = 34/59 (57%)
Query: 3 KFKDISVMSIDQLTEKLIQLKKDQMSLRFQKASGQIEKPFRMREVSRDIARIKTMMNSR 61
K ++ + ++L L + K+ M LRFQ A GQ++ ++ RDIARIKT++ R
Sbjct: 2 KASELRNYTDEELKNLLEEKKRQLMELRFQLAMGQLKNTSLIKLTKRDIARIKTILRER 60
>2zjr_V 50S ribosomal protein L29; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: a.2.2.1 PDB: 1nwx_W* 1nwy_W* 1sm1_W*
1xbp_W* 2aar_W 2d3o_W 2zjp_V* 2zjq_V 1nkw_W 3cf5_V*
3dll_V* 1pnu_W 1pny_W 1vor_Y 1vou_Y 1vow_Y 1voy_Y
1vp0_Y
Length = 67
Score = 60.4 bits (147), Expect = 1e-10
Identities = 17/60 (28%), Positives = 36/60 (60%)
Query: 2 LKFKDISVMSIDQLTEKLIQLKKDQMSLRFQKASGQIEKPFRMREVSRDIARIKTMMNSR 61
+K ++ + +++ KK+ M LRFQ A+GQ+ +P R+R++ R++A++ T+
Sbjct: 1 MKPSEMRNLQATDFAKEIDARKKELMELRFQAAAGQLAQPHRVRQLRREVAQLNTVKAEL 60
>2j01_2 50S ribosomal protein L29; ribosome, tRNA, paromomycin, mRNA,
translation; 2.8A {Thermus thermophilus} SCOP: a.2.2.1
PDB: 1vsp_W 1vsa_W 2j03_2 2jl6_2 2jl8_2 2v47_2 2v49_2
2wdi_2 2wdj_2 2wdl_2 2wdn_2 2wh2_2 2wh4_2 3d5b_2 3d5d_2
3f1f_2 3f1h_2 3hux_2 3huz_2 2hgu_1 ...
Length = 72
Score = 59.3 bits (144), Expect = 2e-10
Identities = 17/61 (27%), Positives = 38/61 (62%)
Query: 1 MLKFKDISVMSIDQLTEKLIQLKKDQMSLRFQKASGQIEKPFRMREVSRDIARIKTMMNS 60
+ ++ +S +L + + + K++ M LRFQ + GQ+ + ++R++ R IAR+ T++N
Sbjct: 7 RKQLEEARKLSPVELEKLVREKKRELMELRFQASIGQLSQNHKIRDLKRQIARLLTVLNE 66
Query: 61 R 61
+
Sbjct: 67 K 67
>2go5_5 Ribosomal protein L35; SR, SRP, ribosome, translation/RNA
complex; 7.40A {Triticum SP} PDB: 2j37_5
Length = 124
Score = 57.8 bits (140), Expect = 6e-10
Identities = 19/61 (31%), Positives = 36/61 (59%)
Query: 1 MLKFKDISVMSIDQLTEKLIQLKKDQMSLRFQKASGQIEKPFRMREVSRDIARIKTMMNS 60
+K ++ S D LT++L +LK + LR QK + K R+ ++ + IAR+ T++N+
Sbjct: 5 KVKAGELWNKSKDDLTKQLAELKTELGQLRIQKVASSGSKLNRIHDIRKSIARVLTVINA 64
Query: 61 R 61
+
Sbjct: 65 K 65
>1vq8_V 50S ribosomal protein L29P; 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} SCOP: a.2.2.1 PDB:
1vq4_V* 1vq5_V* 1vq6_V* 1vq7_V* 1s72_V* 1vq9_V* 1vqk_V*
1vql_V* 1vqm_V* 1vqn_V* 1vqo_V* 1vqp_V* 1yhq_V* 1yi2_V*
1yij_V* 1yit_V* 1yj9_V* 1yjn_V* 1yjw_V* 2otj_V* ...
Length = 71
Score = 57.0 bits (138), Expect = 9e-10
Identities = 20/62 (32%), Positives = 34/62 (54%), Gaps = 1/62 (1%)
Query: 1 MLKFKDISVMSIDQLTEKLIQLKKDQMSLR-FQKASGQIEKPFRMREVSRDIARIKTMMN 59
+L ++I M+ + +L LK + ++ R Q A G E P R++E+ + IARIKT+
Sbjct: 3 VLHVQEIRDMTPAEREAELDDLKTELLNARAVQAAGGAPENPGRIKELRKAIARIKTIQG 62
Query: 60 SR 61
Sbjct: 63 EE 64
>2zkr_v 60S ribosomal protein L35; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 123
Score = 55.5 bits (134), Expect = 3e-09
Identities = 18/61 (29%), Positives = 33/61 (54%), Gaps = 1/61 (1%)
Query: 2 LKFKDISVMSIDQLTEKLIQLKKDQMSLRFQKASGQIE-KPFRMREVSRDIARIKTMMNS 60
+K +D+ ++L ++L LK + LR K +G K ++R V + IAR+ T++N
Sbjct: 4 IKARDLRGKKKEELLKQLDDLKVELSQLRVAKVTGGAASKLSKIRVVRKSIARVLTVINQ 63
Query: 61 R 61
Sbjct: 64 T 64
>2wwb_N 60S ribosomal protein L35; ribosome, protein EXIT tunnel,
cotranslational protein translocation, protein
conducting channel; 6.48A {Triticum aestivum} PDB:
1s1i_X 2wwa_N 2ww9_N
Length = 120
Score = 54.7 bits (132), Expect = 5e-09
Identities = 17/60 (28%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 2 LKFKDISVMSIDQLTEKLIQLKKDQMSLRFQKASGQIEKPFRMREVSRDIARIKTMMNSR 61
+K ++ S +QL +L+ LKK+ L+ QK S +++ V + IA + T++N +
Sbjct: 4 VKAYELRTKSKEQLASQLVDLKKELAELKVQKLSRP--SLPKIKTVRKSIACVLTVINEQ 61
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 31.9 bits (71), Expect = 0.039
Identities = 16/44 (36%), Positives = 19/44 (43%), Gaps = 18/44 (40%)
Query: 17 EKLIQ-LKKDQMSLR-FQKASGQIEKPFRMREVSRDIARIK-TM 57
EK Q LKK Q SL+ + S P +A IK TM
Sbjct: 18 EK--QALKKLQASLKLYADDSA----P--------ALA-IKATM 46
>3bcy_A Protein YER067W; mixed alpha-helix/beta-sheet fold, UBL
conjugation, unknown function; 1.70A {Saccharomyces
cerevisiae}
Length = 155
Score = 24.4 bits (53), Expect = 5.7
Identities = 8/28 (28%), Positives = 12/28 (42%), Gaps = 2/28 (7%)
Query: 41 PFRMREVSRDIARIKTMMN--SRVFKNN 66
PF + E D +I N S+ F +
Sbjct: 50 PFVLHESHEDPEKISDAANSHSKKFVRH 77
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.322 0.132 0.338
Gapped
Lambda K H
0.267 0.0728 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 501,407
Number of extensions: 17421
Number of successful extensions: 145
Number of sequences better than 10.0: 1
Number of HSP's gapped: 141
Number of HSP's successfully gapped: 38
Length of query: 67
Length of database: 5,693,230
Length adjustment: 37
Effective length of query: 30
Effective length of database: 4,796,202
Effective search space: 143886060
Effective search space used: 143886060
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 (23.0 bits)