RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780318|ref|YP_003064731.1| ribosomal protein L20
[Candidatus Liberibacter asiaticus str. psy62]
(123 letters)
>3ofq_Q 50S ribosomal protein L20; protein biosynthesis, ribosomes, RNA,
tRNA, transfer, antibi EXIT, peptidyl, ribosomal
subunit, large; 3.10A {Escherichia coli} PDB: 1p85_O
1p86_O 2awb_Q 2aw4_Q 2i2v_Q 2j28_Q 2i2t_Q* 2qao_Q*
2qba_Q* 2qbc_Q* 2qbe_Q 2qbg_Q 2qbi_Q* 2qbk_Q* 2qov_Q
2qox_Q 2qoz_Q* 2qp1_Q* 2rdo_Q 2vhm_Q ...
Length = 117
Score = 144 bits (366), Expect = 5e-36
Identities = 62/115 (53%), Positives = 84/115 (73%)
Query: 3 RVKRGVVSSAKHKKVLKSAKGFYGRRKNTIRAAKAAVDRSQQYAYRDRRVKKRDFRSLWI 62
RVKRGV++ A+HKK+LK AKG+YG R R A AV ++ QYAYRDRR +KR FR LWI
Sbjct: 2 RVKRGVIARARHKKILKQAKGYYGARSRVYRVAFQAVIKAGQYAYRDRRQRKRQFRQLWI 61
Query: 63 QRINAAVRVYDLNYSQFINGLHKAGIVLDRKVLSDLAITQLDSFKKIVELSRSRL 117
RINAA R ++YS+FINGL KA + +DRK+L+D+A+ +F +VE +++ L
Sbjct: 62 ARINAAARQNGISYSKFINGLKKASVEIDRKILADIAVFDKVAFTALVEKAKAAL 116
>2zjr_N 50S ribosomal protein L20; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: a.144.2.1 PDB: 1nwx_O* 1nwy_O*
1sm1_O* 1xbp_O* 1yl3_1 2b66_U 2b9n_U 2b9p_U 2zjp_N*
2zjq_N 1nkw_O 3cf5_N* 3dll_N* 1pnu_O 1pny_O 1vor_R
1vou_R 1vow_R 1voy_R 1vp0_R
Length = 118
Score = 142 bits (361), Expect = 1e-35
Identities = 62/117 (52%), Positives = 80/117 (68%)
Query: 1 MTRVKRGVVSSAKHKKVLKSAKGFYGRRKNTIRAAKAAVDRSQQYAYRDRRVKKRDFRSL 60
M R K G+V +HKKVLK AKGF+G R R A + + Y YRDRR KKRDFR L
Sbjct: 1 MPRAKTGIVRRRRHKKVLKRAKGFWGSRSKQYRNAFQTLLNAATYEYRDRRNKKRDFRRL 60
Query: 61 WIQRINAAVRVYDLNYSQFINGLHKAGIVLDRKVLSDLAITQLDSFKKIVELSRSRL 117
WIQRINA R++ +NYS FINGL +A I L+RKVL+D+A + ++FK +V+ SR+
Sbjct: 61 WIQRINAGARLHGMNYSTFINGLKRANIDLNRKVLADIAAREPEAFKALVDASRNAR 117
>3i1n_Q 50S ribosomal protein L20; ribosome structure, protein-RNA complex,
acetylation, ribonucleoprotein, ribosomal protein,
RNA-binding, rRNA- binding, methylation; 3.19A
{Escherichia coli k-12} PDB: 1vs8_Q 3e1b_J 3e1d_J 1vs6_Q
3i1p_Q 3i1r_Q 3i1t_Q 3i20_Q 3i22_Q 2qam_Q* 1p85_O 1p86_O
2awb_Q 2aw4_Q 2i2v_Q 2j28_Q 2i2t_Q* 2qao_Q* 2qba_Q*
2qbc_Q* ...
Length = 118
Score = 141 bits (356), Expect = 5e-35
Identities = 63/117 (53%), Positives = 85/117 (72%)
Query: 1 MTRVKRGVVSSAKHKKVLKSAKGFYGRRKNTIRAAKAAVDRSQQYAYRDRRVKKRDFRSL 60
M RVKRGV++ A+HKK+LK AKG+YG R R A AV ++ QYAYRDRR +KR FR L
Sbjct: 1 MARVKRGVIARARHKKILKQAKGYYGARSRVYRVAFQAVIKAGQYAYRDRRQRKRQFRQL 60
Query: 61 WIQRINAAVRVYDLNYSQFINGLHKAGIVLDRKVLSDLAITQLDSFKKIVELSRSRL 117
WI RINAA R ++YS+FINGL KA + +DRK+L+D+A+ +F +VE +++ L
Sbjct: 61 WIARINAAARQNGISYSKFINGLKKASVEIDRKILADIAVFDKVAFTALVEKAKAAL 117
>2j01_U 50S ribosomal protein L20; ribosome, tRNA, paromomycin, mRNA,
translation; 2.8A {Thermus thermophilus} SCOP: a.144.2.1
PDB: 1vsp_O 2hgj_T 2hgq_T 2hgu_T 1vsa_O 2j03_U 2jl6_U
2jl8_U 2v47_U 2v49_U 2wdi_U 2wdj_U 2wdl_U 2wdn_U 2wh2_U
2wh4_U 3d5b_U 3d5d_U 3f1f_U 3f1h_U ...
Length = 118
Score = 140 bits (355), Expect = 8e-35
Identities = 59/117 (50%), Positives = 79/117 (67%)
Query: 1 MTRVKRGVVSSAKHKKVLKSAKGFYGRRKNTIRAAKAAVDRSQQYAYRDRRVKKRDFRSL 60
M R K GVV KHKK+LK AKG++G R + R A+ + + YAY R+ +KRDFR L
Sbjct: 1 MPRAKTGVVRRRKHKKILKLAKGYWGLRSKSFRKARETLFAAGNYAYAHRKRRKRDFRRL 60
Query: 61 WIQRINAAVRVYDLNYSQFINGLHKAGIVLDRKVLSDLAITQLDSFKKIVELSRSRL 117
WI RINAA R + LNYS FI+GL KAGI +DRK L+DLA+ + F ++VE +++
Sbjct: 61 WIVRINAACRQHGLNYSTFIHGLKKAGIEVDRKNLADLAVREPQVFAELVERAKAAQ 117
>2ftc_L MRPL20 protein; mitochondrial ribosome, large ribosomal subunit,
ribosomal RNA; 12.10A {Bos taurus}
Length = 118
Score = 129 bits (326), Expect = 2e-31
Identities = 41/111 (36%), Positives = 61/111 (54%)
Query: 6 RGVVSSAKHKKVLKSAKGFYGRRKNTIRAAKAAVDRSQQYAYRDRRVKKRDFRSLWIQRI 65
R + ++VLK A+ F GR+ R A V R+ + R +KK++ R+LWI RI
Sbjct: 6 RVTDRYFRIQEVLKHARHFRGRKNRCYRLAVRTVIRAFVKCTKARYLKKKNMRTLWINRI 65
Query: 66 NAAVRVYDLNYSQFINGLHKAGIVLDRKVLSDLAITQLDSFKKIVELSRSR 116
AA + + L Y I L K + L+RKVL+DLAI + +FK + L+ R
Sbjct: 66 TAASQEHGLKYPALIGNLVKCQVELNRKVLADLAIYEPKTFKSLAALASRR 116
>3bbo_S Ribosomal protein L20; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 119
Score = 128 bits (324), Expect = 3e-31
Identities = 45/113 (39%), Positives = 64/113 (56%), Gaps = 2/113 (1%)
Query: 1 MTRVKRGVVSSAKHKKVLKSAKGFYGRRKNTIRAAKAAVDRSQQYAYRDRRVKKRDFRSL 60
MTRVKRG ++ + KK+ A F G R R+ A+RDR +KRDFR L
Sbjct: 1 MTRVKRGYIARRRRKKIRFFASSFRGAHSRLTRTIAQQKIRALVSAHRDRDRQKRDFRRL 60
Query: 61 WIQRINAAVRVYDLN--YSQFINGLHKAGIVLDRKVLSDLAITQLDSFKKIVE 111
WI RINAA+R + YS+FI+ L+K ++L+RK+L+ +AI + I
Sbjct: 61 WITRINAAIRERGVYYNYSKFIHDLYKRQLLLNRKILAQIAILNPNCIYMIYN 113
>2ghj_A 50S ribosomal protein L20; folding intermediate, ribosomal protein
extension, structural protein; 2.90A {Aquifex aeolicus}
PDB: 1gyz_A
Length = 118
Score = 127 bits (321), Expect = 6e-31
Identities = 61/112 (54%), Positives = 80/112 (71%)
Query: 6 RGVVSSAKHKKVLKSAKGFYGRRKNTIRAAKAAVDRSQQYAYRDRRVKKRDFRSLWIQRI 65
+G S K KK+LK AKG+ G+R + R AK AV R+ Y YRDR+++KR+FR LWI RI
Sbjct: 4 KGPSSRRKKKKILKLAKGYRGQRSRSYRRAKEAVMRALYYQYRDRKLRKREFRRLWIARI 63
Query: 66 NAAVRVYDLNYSQFINGLHKAGIVLDRKVLSDLAITQLDSFKKIVELSRSRL 117
NAAVR Y LNYS FINGL KAGI LDRK+L+D+A+ +F+++V + L
Sbjct: 64 NAAVRAYGLNYSTFINGLKKAGIELDRKILADMAVRDPQAFEQVVNKVKEAL 115
>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 = 25.0 bits (53), Expect = 4.3
Identities = 3/13 (23%), Positives = 11/13 (84%), Gaps = 1/13 (7%)
Query: 62 IQRINAAVRVY-D 73
++++ A++++Y D
Sbjct: 22 LKKLQASLKLYAD 34
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
0.323 0.134 0.366
Gapped
Lambda K H
0.267 0.0737 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 967,484
Number of extensions: 40489
Number of successful extensions: 140
Number of sequences better than 10.0: 1
Number of HSP's gapped: 139
Number of HSP's successfully gapped: 16
Length of query: 123
Length of database: 5,693,230
Length adjustment: 81
Effective length of query: 42
Effective length of database: 3,729,466
Effective search space: 156637572
Effective search space used: 156637572
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.4 bits)