RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780331|ref|YP_003064744.1| 50S ribosomal protein L9
[Candidatus Liberibacter asiaticus str. psy62]
(179 letters)
>3bbo_J Ribosomal protein L9; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Arabidopsis thaliana} SCOP: i.1.1.1
Length = 197
Score = 132 bits (333), Expect = 4e-32
Identities = 43/161 (26%), Positives = 80/161 (49%), Gaps = 3/161 (1%)
Query: 2 YDTQKNKKGKKIMEVILLQNVTNLGPMGEVVKVKNGYARNYLLPKKKALRANKEN-KILF 60
++ KK KK+ +VIL ++VT+LG G+++ VK G+ RN+LLP KA K L
Sbjct: 38 FEVVSQKKAKKLRKVILKEDVTDLGKQGQLLDVKAGFFRNFLLPTGKAQLMTPLLLKELK 97
Query: 61 ESQRSVLEAANLEKKAKYEGISKDLAKKNFSLIRAAGDTGYLYGSVSSRDIADLL-IEEG 119
+ K+ + F + R G ++GSV+++D+ D++ +
Sbjct: 98 MEDERIEAEKQRVKEEAQQLAMVFQTVGAFKVKRKGGKGKLIFGSVTAQDLVDIIKSQLQ 157
Query: 120 FDVNRGQINLKSPIKSVGIHNIMISLHADVSTTITLNVARS 160
D+++ ++L I+ G + + LH DV+ + +NV +
Sbjct: 158 KDIDKRLVSLP-EIRETGEYIAELKLHPDVTARVKINVFAN 197
>3ofq_H 50S ribosomal protein L9; protein biosynthesis, ribosomes, RNA,
tRNA, transfer, antibi EXIT, peptidyl, ribosomal
subunit, large; 3.10A {Escherichia coli} PDB: 1p85_F
1p86_F 1vs8_H 1vs6_H 2aw4_H 2awb_H 2gya_F 2gyc_F 1vt2_H
2i2v_H 2j28_H 2i2t_H* 2qao_H* 2qba_H* 2qbc_H* 2qbe_H
2qbg_H 2qbi_H* 2qbk_H* 2qov_H ...
Length = 149
Score = 132 bits (332), Expect = 7e-32
Identities = 55/146 (37%), Positives = 86/146 (58%), Gaps = 2/146 (1%)
Query: 14 MEVILLQNVTNLGPMGEVVKVKNGYARNYLLPKKKALRANKENKILFESQRSVLEA-ANL 72
M+VILL V NLG +G+ V VK GYARN+L+P+ KA+ A K+N FE++R+ LEA
Sbjct: 1 MQVILLDKVANLGSLGDQVNVKAGYARNFLVPQGKAVPATKKNIEFFEARRAELEAKLAE 60
Query: 73 EKKAKYEGISKDLAKKNFSLIRAAGDTGYLYGSVSSRDIADLLIEEGFDVNRGQINL-KS 131
A K A + ++ AGD G L+GS+ +RDIAD + G +V + ++ L
Sbjct: 61 VLAAANARAEKINALETVTIASKAGDEGKLFGSIGTRDIADAVTAAGVEVAKSEVRLPNG 120
Query: 132 PIKSVGIHNIMISLHADVSTTITLNV 157
+++ G H + +H++V + +NV
Sbjct: 121 VLRTTGEHEVSFQVHSEVFAKVIVNV 146
>1nkw_F 50S ribosomal protein L9; ribosome, large subunit, X- RAY
structure, peptidyl-transferase, peptide bond formation;
3.10A {Deinococcus radiodurans} SCOP: i.1.1.2 PDB:
1nwx_F* 1nwy_F* 1sm1_F* 1xbp_F* 1pnu_F 1pny_F 1vor_I
1vou_I 1vow_I 1voy_I 1vp0_I
Length = 146
Score = 128 bits (322), Expect = 1e-30
Identities = 54/144 (37%), Positives = 86/144 (59%), Gaps = 2/144 (1%)
Query: 14 MEVILLQNVTNLGPMGEVVKVKNGYARNYLLPKKKALRANKENKILFESQRSVLEAANLE 73
M+VILL+ LG GEVV VK+GYARN+L+P+ A+ A + N E+Q +E +
Sbjct: 1 MQVILLEPS-RLGKTGEVVSVKDGYARNWLIPQGLAVSATRTNMKTLEAQLRSIEKRQAQ 59
Query: 74 KKAKYEGISKDLAKKNFSLIRAAGDTGYLYGSVSSRDIADLLIEEGFDVNRGQINLKSPI 133
+KA E ++ L L AG+ G +YG+V+ +D+A+ L + GFDV+R +I++ +
Sbjct: 60 EKAVAEDLASRLNGVAVELSVRAGE-GKIYGAVTHQDVANSLDQLGFDVDRRKIDMPKTV 118
Query: 134 KSVGIHNIMISLHADVSTTITLNV 157
K VG ++I H +V+ + L V
Sbjct: 119 KEVGEYDIAYRAHPEVTIPMKLVV 142
>3i1n_H 50S ribosomal protein L9; ribosome structure, protein-RNA complex,
acetylation, ribonucleoprotein, ribosomal protein,
RNA-binding, rRNA- binding, methylation; 3.19A
{Escherichia coli k-12} PDB: 1p85_F 1p86_F 1vs8_H 2aw4_H
2awb_H 2gya_F 2gyc_F 1vs6_H 2i2v_H 2j28_H 2i2t_H*
2qao_H* 2qba_H* 2qbc_H* 2qbe_H 2qbg_H 2qbi_H* 2qbk_H*
2qov_H 2qox_H ...
Length = 149
Score = 120 bits (303), Expect = 1e-28
Identities = 55/146 (37%), Positives = 88/146 (60%), Gaps = 2/146 (1%)
Query: 14 MEVILLQNVTNLGPMGEVVKVKNGYARNYLLPKKKALRANKENKILFESQRSVLEAANLE 73
M+VILL V NLG +G+ V VK GYARN+L+P+ KA+ A K+N FE++R+ LEA E
Sbjct: 1 MQVILLDKVANLGSLGDQVNVKAGYARNFLVPQGKAVPATKKNIEFFEARRAELEAKLAE 60
Query: 74 KKAKYEGISKD-LAKKNFSLIRAAGDTGYLYGSVSSRDIADLLIEEGFDVNRGQINL-KS 131
A ++ A + ++ AGD G L+GS+ +RDIAD + G +V + ++ L
Sbjct: 61 VLAAANARAEKINALETVTIASKAGDEGKLFGSIGTRDIADAVTAAGVEVAKSEVRLPNG 120
Query: 132 PIKSVGIHNIMISLHADVSTTITLNV 157
+++ G H + +H++V + +NV
Sbjct: 121 VLRTTGEHEVSFQVHSEVFAKVIVNV 146
>1div_A Ribosomal protein L9; rRNA-binding; 2.60A {Bacillus
stearothermophilus} SCOP: d.99.1.1 d.100.1.1 PDB: 1giy_K
1yl3_K 2b66_I 2b9n_I 2b9p_I 487d_K
Length = 149
Score = 120 bits (301), Expect = 2e-28
Identities = 44/145 (30%), Positives = 81/145 (55%), Gaps = 1/145 (0%)
Query: 14 MEVILLQNVTNLGPMGEVVKVKNGYARNYLLPKKKALRANKENKILFESQRSVLEAANLE 73
M+VI L++V G GE+ V +GYA N+L + A+ A N E+Q+ + E
Sbjct: 1 MKVIFLKDVKGKGKKGEIKNVADGYANNFLFKQGLAIEATPANLKALEAQKQKEQRQAAE 60
Query: 74 KKAKYEGISKDLAKKNFSLIRAAGDTGYLYGSVSSRDIADLLIE-EGFDVNRGQINLKSP 132
+ A + + + L K ++ AG+ G L+GS++S+ IA+ L G +++ +I L
Sbjct: 61 ELANAKKLKEQLEKLTVTIPAKAGEGGRLFGSITSKQIAESLQAQHGLKLDKRKIELADA 120
Query: 133 IKSVGIHNIMISLHADVSTTITLNV 157
I+++G N+ + LH +V+ T+ ++V
Sbjct: 121 IRALGYTNVPVKLHPEVTATLKVHV 145
>2j01_I 50S ribosomal protein L9; ribosome, tRNA, paromomycin, mRNA,
translation; 2.8A {Thermus thermophilus} SCOP: d.99.1.1
d.100.1.1 PDB: 2j03_I 2jl6_I 2jl8_I 2v47_I 2v49_I 2wdi_I
2wdj_I 2wdl_I 2wdn_I 2wh2_I 3hux_I 3huz_I 3f1f_I 1vsp_G
1vsa_G 2wh4_I 3d5d_I 3d5b_I 3f1h_I 2hgu_K ...
Length = 148
Score = 110 bits (275), Expect = 2e-25
Identities = 49/148 (33%), Positives = 82/148 (55%), Gaps = 2/148 (1%)
Query: 14 MEVILLQNVTNLGPMGEVVKVKNGYARNYLLPKKKALRANKENKILFESQRSVLEAANLE 73
M+VILL+ + NLG +G+VV VK GYARNYLLP+ A+ A + N E++ E
Sbjct: 1 MKVILLEPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAE 60
Query: 74 KKAKYEGISKDLAKKNFSLIRAAGDTGYLYGSVSSRDIADLLIEE-GFDVNRGQINLKSP 132
+KA+ E + + L + I +YGSV+++DIA+ L + G ++ ++ L+ P
Sbjct: 61 RKAEAERLKEILENLTLT-IPVRAGETKIYGSVTAKDIAEALSRQHGVTIDPKRLALEKP 119
Query: 133 IKSVGIHNIMISLHADVSTTITLNVARS 160
IK +G + + H +V + ++V
Sbjct: 120 IKELGEYVLTYKPHPEVPIQLKVSVVAQ 147
>2hba_A BL17, 50S ribosomal protein L9; NTL9, K12M, RNA binding protein;
1.25A {Geobacillus stearothermophilus} SCOP: d.100.1.1
PDB: 1cqu_A 2hbb_A 2hvf_A
Length = 52
Score = 72.7 bits (179), Expect = 5e-14
Identities = 19/51 (37%), Positives = 30/51 (58%)
Query: 14 MEVILLQNVTNLGPMGEVVKVKNGYARNYLLPKKKALRANKENKILFESQR 64
M+VI L++V +G GE+ V +GYA N+L + A+ A N E+Q+
Sbjct: 1 MKVIFLKDVKGMGKKGEIKNVADGYANNFLFKQGLAIEATPANLKALEAQK 51
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 47.6 bits (113), Expect = 2e-06
Identities = 38/167 (22%), Positives = 54/167 (32%), Gaps = 64/167 (38%)
Query: 4 TQKNK---KGKKIMEVILLQNVTNLGPMGEVVKVKNG-----YARNYLLPKKKALRANKE 55
+ N GK++ I L N G VV +G Y N L K KA +
Sbjct: 354 NKTNSHLPAGKQV--EISLVN----GAKNLVV---SGPPQSLYGLNLTLRKAKAPSGLDQ 404
Query: 56 NKILFESQR-----------SV------LEAANLEKKAKYEGISKDLAKKNFSLIRAAGD 98
++I F S+R + L A + I+KDL K N S A
Sbjct: 405 SRIPF-SERKLKFSNRFLPVASPFHSHLLVPA-------SDLINKDLVKNNVS-FNA--- 452
Query: 99 TGYLYGSVSSRDIADLLIEEGFDVNRGQINLKSPIKSVGIHNI--MI 143
D+ I +D G +L+ S+ I I
Sbjct: 453 -------------KDIQIPV-YDTFDGS-DLRVLSGSI-SERIVDCI 483
>3kea_A K1L; tropism, ANK repeat, viral protein; 2.30A {Vaccinia virus}
Length = 285
Score = 28.4 bits (63), Expect = 0.96
Identities = 11/66 (16%), Positives = 21/66 (31%), Gaps = 7/66 (10%)
Query: 108 SRDIADLLIEEGFDVNRGQINLKSPI-------KSVGIHNIMISLHADVSTTITLNVARS 160
D+ LL++ N L P K + + + ++ + NV
Sbjct: 173 HVDMMILLLDYMTSTNTNNSLLFIPDIKLAIDNKDIEMLQALFKYDINIYSANLENVLLD 232
Query: 161 TEEMVK 166
E+ K
Sbjct: 233 DAEIAK 238
>3a2k_A TRNA(Ile)-lysidine synthase; ligase, pseudo-knot, ligase/RNA
complex; 3.65A {Geobacillus kaustophilus}
Length = 464
Score = 27.3 bits (59), Expect = 1.8
Identities = 12/50 (24%), Positives = 21/50 (42%), Gaps = 3/50 (6%)
Query: 73 EKKAKYEGISKDLAKKNFSLI---RAAGDTGYLYGSVSSRDIADLLIEEG 119
K+A + D A + L R GD L G+ ++ + ++ IE
Sbjct: 365 RKQAGNDWFVVDPASVSLPLRVRTRRRGDRMVLKGTGGTKKLKEIFIEAK 414
>2vge_A RELA-associated inhibitor; iaspp, nucleus, apoptosis, repressor,
cytoplasm, phosphorylation, P53 binding protein, ANK
repeat, SH3 domain; 2.10A {Homo sapiens}
Length = 229
Score = 27.4 bits (59), Expect = 1.8
Identities = 14/60 (23%), Positives = 26/60 (43%), Gaps = 13/60 (21%)
Query: 64 RSVLEAANLEKKAKYEGISKDLAKKNFSLIRAAGDTGYLYGSVSSRDIADLLIEEGFDVN 123
RSVL A +KA+ ++ + L+ AA L G + ++ ++E D +
Sbjct: 2 RSVLRKAGSPRKARRARLNPLVL-----LLDAA-----LTGEL---EVVQQAVKEMNDPS 48
>3ljn_A Hypothetical protein; ankyrin, structural genomics, PSI, structural
genomics of pathogenic protozoa consortium, SGPP, ANK
repeat; 2.90A {Leishmania major}
Length = 364
Score = 27.6 bits (60), Expect = 1.8
Identities = 12/101 (11%), Positives = 31/101 (30%), Gaps = 13/101 (12%)
Query: 72 LEKKAKYEGISKDLAKKNFSLIRAAGDTGYLYGSVS--SRDIADLLIEEGFDVNRGQINL 129
L+K + + L ++ + +++ LL E+ +V R
Sbjct: 264 LQKTDVFLIQACPYHNGTTVLPDRVVWLDFVPAAADPSKQEVLQLLQEKLDEVVRSLNTG 323
Query: 130 KSPI------KSVGIHNIMISLHADV-----STTITLNVAR 159
+ + + ++ A V S + V++
Sbjct: 324 AGGAVKRKKKAAPAVKRMKLAPSAPVRTRSRSRARSSAVSK 364
>3h7l_A Endoglucanase; dehydrogenase, PSI-2, NYSGXRC, structural genomics,
protein structure initiative; 2.30A {Vibrio
parahaemolyticus}
Length = 586
Score = 26.3 bits (57), Expect = 4.6
Identities = 8/39 (20%), Positives = 13/39 (33%)
Query: 71 NLEKKAKYEGISKDLAKKNFSLIRAAGDTGYLYGSVSSR 109
KKA + L+ LI A + +V +
Sbjct: 14 LGPKKAIIQTEQPHLSSYTAQLICATSEQTVATFAVEEQ 52
>3mc6_A Sphingosine-1-phosphate lyase; carboxy-lyase activity, pyridoxyl
phosphate; HET: LLP; 3.15A {Saccharomyces cerevisiae}
Length = 497
Score = 25.9 bits (56), Expect = 5.8
Identities = 18/105 (17%), Positives = 37/105 (35%), Gaps = 12/105 (11%)
Query: 63 QRSVLEAANLEKKAKYEGISKDLAKKNFSLIRAAGDTGYLYGSVSSRDIADLLIEEGFDV 122
Q V A +K + D+ + + + +++D L ++G+
Sbjct: 348 QEIVGAAMKFKKYIQENIPDLDIMGNPRYSVISFSSKTL-----NIHELSDRLSKKGWHF 402
Query: 123 NRGQINLKSPIKSVGIHNIMISLHADVSTTITLNVARSTEEMVKQ 167
N L+ P V +H L A V I + + +E+ +
Sbjct: 403 NA----LQKP---VALHMAFTRLSAHVVDEICDILRTTVQELKSE 440
>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis,
nucleotide- binding, transferase; HET: MSE; 2.01A
{Staphylococcus aureus}
Length = 219
Score = 25.5 bits (56), Expect = 7.8
Identities = 7/25 (28%), Positives = 11/25 (44%)
Query: 86 AKKNFSLIRAAGDTGYLYGSVSSRD 110
AK+ + + A D Y V S +
Sbjct: 55 AKQKVVVFKPAIDDRYHKEKVVSHN 79
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
0.312 0.131 0.345
Gapped
Lambda K H
0.267 0.0570 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,405,202
Number of extensions: 61027
Number of successful extensions: 220
Number of sequences better than 10.0: 1
Number of HSP's gapped: 210
Number of HSP's successfully gapped: 23
Length of query: 179
Length of database: 5,693,230
Length adjustment: 86
Effective length of query: 93
Effective length of database: 3,608,246
Effective search space: 335566878
Effective search space used: 335566878
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 53 (24.5 bits)