RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780715|ref|YP_003065128.1| 50S ribosomal protein L19
[Candidatus Liberibacter asiaticus str. psy62]
(141 letters)
>3bbo_R Ribosomal protein L19; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 233
Score = 151 bits (382), Expect = 7e-38
Identities = 38/115 (33%), Positives = 66/115 (57%), Gaps = 1/115 (0%)
Query: 1 MNIIDELDHEEMVRIESKRSLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGIN 60
+I+ L+ + + E R +P GD + ++ + E K R+ Y+G+ I+R GI+
Sbjct: 120 GDIMGILNKKAVHAAEELRPVPGIRTGDIVQIRLEVPEN-KRRLSVYKGIVISRQNAGIH 178
Query: 61 KNFTVRKISYGEGMNRLFPLYSPMIQDITVIRRGKVRRSKLYYLQDLRGKAARIK 115
+R+I G G+ +FPLYSP I++I V+ KVR+++LYYL+D + + K
Sbjct: 179 TTIRIRRIIAGVGVEIVFPLYSPNIKEIKVVSHRKVRKARLYYLRDKLPRLSTFK 233
>3ofq_P 50S ribosomal protein L19; protein biosynthesis, ribosomes, RNA,
tRNA, transfer, antibi EXIT, peptidyl, ribosomal
subunit, large; 3.10A {Escherichia coli} PDB: 1p85_N
1p86_N 2awb_P 2gya_N 2gyc_N 2aw4_P 2i2v_P 2j28_P 2i2t_P*
2qao_P* 2qba_P* 2qbc_P* 2qbe_P 2qbg_P 2qbi_P* 2qbk_P*
2qov_P 2qox_P 2qoz_P* 2qp1_P* ...
Length = 114
Score = 138 bits (350), Expect = 4e-34
Identities = 62/115 (53%), Positives = 83/115 (72%), Gaps = 5/115 (4%)
Query: 2 NIIDELDHEEMVRIESKRSLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINK 61
NII +L+ E+M K+ +P F PGDT+ VK + EG K R+QA+EGV IA RG++
Sbjct: 2 NIIKQLEQEQM-----KQDVPSFRPGDTVEVKVWVVEGSKKRLQAFEGVVIAIRNRGLHS 56
Query: 62 NFTVRKISYGEGMNRLFPLYSPMIQDITVIRRGKVRRSKLYYLQDLRGKAARIKE 116
FTVRKIS GEG+ R+F +SP++ I+V RRG VR++KLYYL++ GKAARIKE
Sbjct: 57 AFTVRKISNGEGVERVFQTHSPVVDSISVKRRGAVRKAKLYYLRERTGKAARIKE 111
>3i1n_P 50S ribosomal protein L19; ribosome structure, protein-RNA complex,
acetylation, ribonucleoprotein, ribosomal protein,
RNA-binding, rRNA- binding, methylation; 3.19A
{Escherichia coli k-12} PDB: 1vs8_P 3e1b_I 3e1d_I 1vs6_P
3i1p_P 3i1r_P 3i1t_P 3i20_P 3i22_P 2qam_P* 1p85_N 1p86_N
2awb_P 2gya_N 2gyc_N 2aw4_P 2i2v_P 2j28_P 2i2t_P*
2qao_P* ...
Length = 115
Score = 134 bits (339), Expect = 6e-33
Identities = 62/116 (53%), Positives = 83/116 (71%), Gaps = 5/116 (4%)
Query: 1 MNIIDELDHEEMVRIESKRSLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGIN 60
NII +L+ E+M K+ +P F PGDT+ VK + EG K R+QA+EGV IA RG++
Sbjct: 2 SNIIKQLEQEQM-----KQDVPSFRPGDTVEVKVWVVEGSKKRLQAFEGVVIAIRNRGLH 56
Query: 61 KNFTVRKISYGEGMNRLFPLYSPMIQDITVIRRGKVRRSKLYYLQDLRGKAARIKE 116
FTVRKIS GEG+ R+F +SP++ I+V RRG VR++KLYYL++ GKAARIKE
Sbjct: 57 SAFTVRKISNGEGVERVFQTHSPVVDSISVKRRGAVRKAKLYYLRERTGKAARIKE 112
>2j01_T 50S ribosomal protein L19; ribosome, tRNA, paromomycin, mRNA,
translation; 2.8A {Thermus thermophilus} SCOP: b.34.5.6
PDB: 2hgq_S 2hgj_S 2hgu_S 2j03_T 2jl6_T 2jl8_T 2v47_T
2v49_T 2wdi_T 2wdj_T 2wdl_T 2wdn_T 2wh2_T 2wh4_T 3hux_T
3huz_T 3f1f_T 1vsp_N 1vsa_N 3d5d_T ...
Length = 146
Score = 116 bits (291), Expect = 2e-27
Identities = 51/141 (36%), Positives = 85/141 (60%), Gaps = 5/141 (3%)
Query: 1 MNIIDELDHEEMVRIESKRSLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGIN 60
+I ++ + + LP+F PGDT+ V + EG+++RIQ +EG+ I G N
Sbjct: 4 GALIKLVESRYV-----RTDLPEFRPGDTVRVSYKVKEGNRTRIQDFEGIVIRIRRNGFN 58
Query: 61 KNFTVRKISYGEGMNRLFPLYSPMIQDITVIRRGKVRRSKLYYLQDLRGKAARIKENTGK 120
FTVRK+SYG G+ R+FPL+SP+IQ I +++RG+ RR+KLY++++L + R K +
Sbjct: 59 TTFTVRKVSYGVGVERIFPLHSPLIQKIDIVQRGRARRAKLYFIRNLSDREIRRKLRADR 118
Query: 121 RAKALNEEVRRAALPEKEMSK 141
+ + RAA E + ++
Sbjct: 119 KRIDQDRAAERAAKEEAQKAQ 139
>2zjr_M 50S ribosomal protein L19; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: b.34.5.6 PDB: 1nwx_N* 1nwy_N* 1sm1_N*
1xbp_N* 2zjp_M* 2zjq_M 1nkw_N 3cf5_M* 3dll_M* 1pnu_N
1pny_N 1vor_Q 1vou_Q 1vow_Q 1voy_Q 1vp0_Q
Length = 166
Score = 115 bits (289), Expect = 4e-27
Identities = 64/141 (45%), Positives = 92/141 (65%), Gaps = 3/141 (2%)
Query: 1 MNIIDELDHEEMVRI---ESKRSLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGR 57
M +++ E++R + R LP F PGDT+ V T + EG+++R QA+EGV IA +G
Sbjct: 1 MQTHIKINRGELLRGIEQDHTRQLPDFRPGDTVRVDTKVREGNRTRSQAFEGVVIAINGS 60
Query: 58 GINKNFTVRKISYGEGMNRLFPLYSPMIQDITVIRRGKVRRSKLYYLQDLRGKAARIKEN 117
G K+FTVRKIS+GEG+ R+FP SP++ +T++ RGKVRR+KLYYL++LRGKAARIK +
Sbjct: 61 GSRKSFTVRKISFGEGVERVFPFASPLVNQVTIVERGKVRRAKLYYLRELRGKAARIKSD 120
Query: 118 TGKRAKALNEEVRRAALPEKE 138
+ K + A
Sbjct: 121 RSRVMKDAARAQQDKANASAS 141
>2ftc_K 39S ribosomal protein L19, mitochondrial; mitochondrial ribosome,
large ribosomal subunit, ribosomal RNA; 12.10A {Bos
taurus}
Length = 98
Score = 111 bits (280), Expect = 4e-26
Identities = 32/97 (32%), Positives = 50/97 (51%), Gaps = 1/97 (1%)
Query: 21 LPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKISYGEGMNRLFPL 80
+P+F G L V T +I + G+CI RSGRG+ F +R + G+G+ F L
Sbjct: 1 IPEFYVGSILRVTTADPYA-SGKISQFLGICIQRSGRGLGATFILRNVIEGQGVEICFEL 59
Query: 81 YSPMIQDITVIRRGKVRRSKLYYLQDLRGKAARIKEN 117
Y+P +Q+I V++ K L YL+D + + N
Sbjct: 60 YNPRVQEIQVVKLEKRLDDSLLYLRDALPEYSTFDVN 96
>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 = 32.2 bits (73), Expect = 0.042
Identities = 19/100 (19%), Positives = 34/100 (34%), Gaps = 31/100 (31%)
Query: 14 RIESKRSLPKFSPGDTL-CVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKISYGE 72
RI +KR K S V +++ A G G+G + Y E
Sbjct: 130 RIMAKRPFDKKSNSALFRAVGE-----GNAQLVAIFG------GQGNTDD-------YFE 171
Query: 73 GMNRLFPLYSPMIQDITVIR----------RGKVRRSKLY 102
+ L+ Y ++ D+ I+ R + K++
Sbjct: 172 ELRDLYQTYHVLVGDL--IKFSAETLSELIRTTLDAEKVF 209
Score = 29.9 bits (67), Expect = 0.19
Identities = 35/228 (15%), Positives = 57/228 (25%), Gaps = 123/228 (53%)
Query: 5 DELDHEE-----MVRIESKRSLPKFSPGDTLCVKTIITEGDK--SRIQAYEGVCIA---- 53
D L++ E M+ I +L + + + + +K S + A + V I+
Sbjct: 326 DSLENNEGVPSPMLSI---SNLTQ----EQV-QDYV----NKTNSHLPAGKQVEISLVNG 373
Query: 54 ----------RSGRGINKN----------------FTVRK--ISYGEGMNRLFPLYSP-- 83
+S G+N F+ RK S NR P+ SP
Sbjct: 374 AKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFS-----NRFLPVASPFH 428
Query: 84 ----------MIQDITVIRRGKVRRSKL----YYL---QDLRG----------------- 109
+ +D+ + Y DLR
Sbjct: 429 SHLLVPASDLINKDLVKNNV-SFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLP 487
Query: 110 ----KA-----------------------ARIKENTGKR---AKALNE 127
R K+ TG R A L+
Sbjct: 488 VKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDI 535
>3a8g_B NitrIle hydratase subunit beta; Fe, iron, lyase, metal-binding,
oxidation; 1.11A {Rhodococcus erythropolis} PDB: 2ahj_B
2cyz_B* 2cz0_B 2cz6_B 2cz7_B 2d0q_B 2cz1_B 2zcf_B 2zpb_B
2zpe_B 2zpf_B 2zpg_B 2zph_B 2zpi_B 2qdy_B 3a8h_B 3a8l_B
3a8o_B 3a8m_B 1ahj_B
Length = 212
Score = 27.6 bits (61), Expect = 0.95
Identities = 13/70 (18%), Positives = 19/70 (27%), Gaps = 8/70 (11%)
Query: 17 SKRSLPKFSPGDTLCVKTIITEGDKSRIQAY----EGVCIARSGRGINKNFTVRKISYGE 72
+ F G + V+ G R+ AY G I+ I +G
Sbjct: 116 APVETTTFEVGQRVRVRDEYVPG-HIRMPAYCRGRVGT-ISHRTTEKWPFPD--AIGHGR 171
Query: 73 GMNRLFPLYS 82
P Y
Sbjct: 172 NDAGEEPTYH 181
>1ugp_B NitrIle hydratase beta subunit; complex, N-butyric acid, non-corrin
cobalt, hydration, lyase; HET: BUA; 1.63A
{Pseudonocardia thermophila} SCOP: b.34.4.4 PDB: 1ire_B
1ugq_B 1ugr_B 1ugs_B
Length = 226
Score = 26.4 bits (58), Expect = 2.6
Identities = 11/39 (28%), Positives = 15/39 (38%), Gaps = 5/39 (12%)
Query: 22 PKFSPGDTLCVKTIITEGDKSRIQAY----EGVCIARSG 56
PKF GD + T +G +R Y G + G
Sbjct: 137 PKFKEGDVVRFSTASPKG-HARRARYVRGKTGTVVKHHG 174
>2qdy_B NitrIle hydratase subunit beta; post translation, lyase; 1.30A
{Rhodococcus erythropolis} SCOP: b.34.4.4 PDB: 2ahj_B
2cyz_B* 2cz0_B 2cz6_B 2cz7_B 2d0q_B 2cz1_B 2zcf_B 2zpb_B
2zpe_B 2zpf_B 2zpg_B 2zph_B 2zpi_B 1ahj_B
Length = 212
Score = 26.4 bits (58), Expect = 2.6
Identities = 12/71 (16%), Positives = 21/71 (29%), Gaps = 10/71 (14%)
Query: 17 SKRSLPKFSPGDTLCVKTIITEGDKSRIQAY----EG-VCIARSGRGINKNFTVRKISYG 71
+ F G + V+ G R+ AY G + + + + I +G
Sbjct: 116 APVETTTFEVGQRVRVRDEYVPG-HIRMPAYCRGRVGTISHRTTEKWPFPD----AIGHG 170
Query: 72 EGMNRLFPLYS 82
P Y
Sbjct: 171 RNDAGEEPTYH 181
>3hht_B NitrIle hydratase beta subunit; alpha and beta proteins (A+B),
lyase; 1.16A {Geobacillus pallidus} PDB: 2dpp_B 1v29_B
Length = 229
Score = 24.9 bits (54), Expect = 6.0
Identities = 8/26 (30%), Positives = 12/26 (46%), Gaps = 1/26 (3%)
Query: 22 PKFSPGDTLCVKTIITEGDKSRIQAY 47
P+F G+ + K I G +R Y
Sbjct: 140 PRFKVGERIKTKNIHPTG-HTRFPRY 164
>1l2p_A ATP synthase B chain; alpha helix, hydrolase; 1.55A {Escherichia
coli} SCOP: f.23.21.1
Length = 61
Score = 24.6 bits (54), Expect = 8.1
Identities = 9/35 (25%), Positives = 16/35 (45%)
Query: 104 LQDLRGKAARIKENTGKRAKALNEEVRRAALPEKE 138
L+ + +A I E KR + +E + A E+
Sbjct: 4 LKKAKAEAQVIIEQANKRRSQILDEAKAEAEQERT 38
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
0.318 0.136 0.377
Gapped
Lambda K H
0.267 0.0645 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,220,565
Number of extensions: 54339
Number of successful extensions: 131
Number of sequences better than 10.0: 1
Number of HSP's gapped: 129
Number of HSP's successfully gapped: 13
Length of query: 141
Length of database: 5,693,230
Length adjustment: 83
Effective length of query: 58
Effective length of database: 3,680,978
Effective search space: 213496724
Effective search space used: 213496724
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: 52 (24.0 bits)