RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780475|ref|YP_003064888.1| 50S ribosomal protein L33
[Candidatus Liberibacter asiaticus str. psy62]
(55 letters)
>1nkw_1 50S ribosomal protein L33; ribosome, large subunit, X- RAY
structure, peptidyl-transferase, peptide bond
formation; 3.10A {Deinococcus radiodurans} SCOP:
i.1.1.2 PDB: 1sm1_1* 1yl3_6 2b66_6 2b9n_6 2b9p_6
Length = 82
Score = 70.6 bits (173), Expect = 8e-14
Identities = 28/55 (50%), Positives = 35/55 (63%), Gaps = 1/55 (1%)
Query: 1 MAK-AATIKIKLISSAGTGSFYVTKKNSRTMSGKMVKNKYDPVIRKHVEFKEGKI 54
MAK I +K+ SSAGTG +Y T KN R K+ KYDPV +KHV F+E K+
Sbjct: 28 MAKDGPRIIVKMESSAGTGFYYTTTKNRRNTQAKLELKKYDPVAKKHVVFREKKV 82
>3i1n_1 50S ribosomal protein L33; ribosome structure, protein-RNA
complex, acetylation, ribonucleoprotein, ribosomal
protein, RNA-binding, rRNA- binding, methylation; 3.19A
{Escherichia coli k-12} PDB: 1vs8_1 1vs6_1 3i1p_1
3i1r_1 3i1t_1 3i20_1 3i22_1 2qam_1* 1p85_1 1p86_1
2awb_1 2aw4_1 2i2v_1 2j28_1 2i2t_1* 2qao_1* 2qba_1*
2qbc_1* 2qbe_1 2qbg_1 ...
Length = 55
Score = 69.6 bits (171), Expect = 1e-13
Identities = 33/55 (60%), Positives = 39/55 (70%)
Query: 1 MAKAATIKIKLISSAGTGSFYVTKKNSRTMSGKMVKNKYDPVIRKHVEFKEGKIK 55
MAK KIKL+SSAGTG FY T KN RT K+ K+DPV+R+HV +KE KIK
Sbjct: 1 MAKGIREKIKLVSSAGTGHFYTTTKNKRTKPEKLELKKFDPVVRQHVIYKEAKIK 55
>2zjr_1 50S ribosomal protein L33; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: g.41.8.6 PDB: 1nwx_1* 1xbp_1*
2zjp_1* 2zjq_1 1nwy_1 3cf5_1* 3dll_1* 1pnu_1 1pny_1
1vor_3 1vou_3 1vow_3 1voy_3 1vp0_3
Length = 55
Score = 65.4 bits (160), Expect = 3e-12
Identities = 28/55 (50%), Positives = 35/55 (63%), Gaps = 1/55 (1%)
Query: 1 MAK-AATIKIKLISSAGTGSFYVTKKNSRTMSGKMVKNKYDPVIRKHVEFKEGKI 54
MAK I +K+ SSAGTG +Y T KN R K+ KYDPV +KHV F+E K+
Sbjct: 1 MAKDGPRIIVKMESSAGTGFYYTTTKNRRNTQAKLELKKYDPVAKKHVVFREKKV 55
>3ofq_1 50S ribosomal protein L33; protein biosynthesis, ribosomes, RNA,
tRNA, transfer, antibi EXIT, peptidyl, ribosomal
subunit, large; 3.10A {Escherichia coli} PDB: 3fik_1
2wwq_4 3ofr_1* 3i1n_1 1vs8_1 1vs6_1 1vt2_1 3i1p_1
3i1r_1 3i1t_1 3i20_1 3i22_1 3kcr_1 3orb_1* 2gya_1
2gyc_1 2qam_1* 1p85_1 1p86_1 2awb_1 ...
Length = 50
Score = 63.8 bits (156), Expect = 8e-12
Identities = 28/47 (59%), Positives = 34/47 (72%)
Query: 7 IKIKLISSAGTGSFYVTKKNSRTMSGKMVKNKYDPVIRKHVEFKEGK 53
KIKL+SSAGTG FY T KN RT K+ K+DPV+R+HV +KE K
Sbjct: 4 EKIKLVSSAGTGHFYTTTKNKRTKPEKLELKKFDPVVRQHVIYKEAK 50
>2ftc_P Mitochondrial ribosomal protein L33 isoform A, mitochondrial 39S
ribosomal protein L27; mitochondrial ribosome, large
ribosomal subunit, ribosomal RNA; 12.10A {Bos taurus}
PDB: 3iy9_P
Length = 52
Score = 56.2 bits (136), Expect = 2e-09
Identities = 19/53 (35%), Positives = 32/53 (60%), Gaps = 2/53 (3%)
Query: 1 MAKAATIKIKLISSAGTGSFYVTKKNSRTMSGKMVKNKYDPVIRKHVEFKEGK 53
+K+ I ++++S AGTG + TK+N + K+ YDPV+++ V F E K
Sbjct: 2 KSKSKNILVRMVSEAGTGFCFNTKRN--RLREKLTLLHYDPVVKQRVLFVEKK 52
>2j01_6 50S ribosomal protein L33; ribosome, tRNA, paromomycin, mRNA,
translation; 2.8A {Thermus thermophilus} SCOP: g.41.8.6
PDB: 2hgq_5 2hgj_5 2hgu_5 2j03_6 2jl6_6 2jl8_6 2v47_6
2v49_6 2wdi_6 2wdj_6 2wdl_6 2wdn_6 2wh2_6 2wh4_6 3d5b_6
3d5d_6 3f1f_6 3f1h_6 3hux_6 3huz_6 ...
Length = 54
Score = 54.7 bits (132), Expect = 5e-09
Identities = 20/54 (37%), Positives = 25/54 (46%)
Query: 1 MAKAATIKIKLISSAGTGSFYVTKKNSRTMSGKMVKNKYDPVIRKHVEFKEGKI 54
MA IK+ L + Y T+KN R K+ KY P RKH +E KI
Sbjct: 1 MASEVRIKLLLECTECKRRNYATEKNKRNTPNKLELRKYCPWCRKHTVHREVKI 54
>3bbo_3 Ribosomal protein L33; large ribosomal subunit, spinach
chloroplast ribosome, ribonucleoprotein particle,
macromolecular complex; 9.40A {Spinacea oleracea}
Length = 66
Score = 37.5 bits (87), Expect = 7e-04
Identities = 11/41 (26%), Positives = 17/41 (41%)
Query: 13 SSAGTGSFYVTKKNSRTMSGKMVKNKYDPVIRKHVEFKEGK 53
+ S Y+T+KN ++ K+ P KH E K
Sbjct: 25 KGSRGVSRYITQKNRHNTPSRLELRKFCPYCYKHTIHGEIK 65
>3haz_A Proline dehydrogenase; proline utilization A, PUTA, flavoenzyme,
1-pyrroline-5-carboxylate dehydrogenase, oxidoreductase;
HET: FAD NAD; 2.10A {Bradyrhizobium japonicum usda 110}
Length = 1001
Score = 25.3 bits (55), Expect = 3.3
Identities = 7/44 (15%), Positives = 14/44 (31%), Gaps = 5/44 (11%)
Query: 4 AATIKIKLISSAGTGSFYVTKKNSRTMSGKMVKNKYDPVIRKHV 47
A+ + L + + G++VK P +R
Sbjct: 120 ASAWALGL-----SARVIQPGETPDGTIGRLVKRLGAPAVRTAT 158
>3cmg_A Putative beta-galactosidase; structural genomics, PSI-2, protein
structure initiative; 1.90A {Bacteroides fragilis nctc
9343}
Length = 667
Score = 25.2 bits (54), Expect = 3.3
Identities = 7/24 (29%), Positives = 12/24 (50%)
Query: 32 GKMVKNKYDPVIRKHVEFKEGKIK 55
GK + Y V+ K+V+ G+
Sbjct: 613 GKQKADTYSTVVWKNVKLTSGENI 636
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
0.314 0.127 0.338
Gapped
Lambda K H
0.267 0.0749 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 443,636
Number of extensions: 14698
Number of successful extensions: 40
Number of sequences better than 10.0: 1
Number of HSP's gapped: 39
Number of HSP's successfully gapped: 11
Length of query: 55
Length of database: 5,693,230
Length adjustment: 27
Effective length of query: 28
Effective length of database: 5,038,642
Effective search space: 141081976
Effective search space used: 141081976
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 (22.0 bits)
S2: 50 (23.0 bits)