RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780243|ref|YP_003064656.1| 50S ribosomal protein L30
[Candidatus Liberibacter asiaticus str. psy62]
(64 letters)
>3ofq_Z 50S ribosomal protein L30; protein biosynthesis, ribosomes, RNA,
tRNA, transfer, antibi EXIT, peptidyl, ribosomal
subunit, large; 3.10A {Escherichia coli} PDB: 1p85_X
1p86_X 2awb_Y 2aw4_Y 2i2v_Z 2j28_Y 2i2t_Z* 2qao_Y*
2qba_Y* 2qbc_Y* 2qbe_Y 2qbg_Y 2qbi_Y* 2qbk_Y* 2qov_Y
2qox_Y 2qoz_Y* 2qp1_Y* 2rdo_Y 2vhm_Y ...
Length = 58
Score = 72.2 bits (178), Expect = 3e-14
Identities = 20/57 (35%), Positives = 33/57 (57%)
Query: 8 QKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE 64
+ I + Q S I R + L+GLGL ++ +DTP++RGMI+ V +V++ E
Sbjct: 2 KTIKITQTRSAIGRLPKHKATLLGLGLRRIGHTVEREDTPAIRGMINAVSFMVKVEE 58
>1bxy_A Protein (ribosomal protein L30); X-RAY crystallography,
conformational changes; 1.90A {Thermus thermophilus}
SCOP: d.59.1.1 PDB: 1giy_X 1ml5_x* 1vsa_X 1vsp_X 1yl3_X
2b66_3 2b9n_3 2b9p_3 2hgj_2 2hgq_2 2hgu_2 2j01_3 2j03_3
2jl6_3 2jl8_3 2v47_3 2v49_3 2wdi_3 2wdj_3 2wdl_3 ...
Length = 60
Score = 71.5 bits (176), Expect = 4e-14
Identities = 24/58 (41%), Positives = 37/58 (63%)
Query: 7 MQKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE 64
M ++ V+ + SPI P Q+ L LGL ++ + RVL+DTP++RG + V HLVR+
Sbjct: 1 MPRLKVKLVKSPIGYPKDQKAALKALGLRRLQQERVLEDTPAIRGNVEKVAHLVRVEV 58
>3i1n_Z 50S ribosomal protein L30; ribosome structure, protein-RNA
complex, acetylation, ribonucleoprotein, ribosomal
protein, RNA-binding, rRNA- binding, methylation; 3.19A
{Escherichia coli k-12} PDB: 1vs8_Y 3e1b_R 3e1d_R
1vs6_Y 3i1p_Z 3i1r_Z 3i1t_Z 3i20_Z 3i22_Z 2qam_Y*
1p85_X 1p86_X 2awb_Y 2aw4_Y 2i2v_Z 2j28_Y 2i2t_Z*
2qao_Y* 2qba_Y* 2qbc_Y* ...
Length = 59
Score = 68.8 bits (169), Expect = 2e-13
Identities = 20/58 (34%), Positives = 33/58 (56%)
Query: 7 MQKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE 64
+ I + Q S I R + L+GLGL ++ +DTP++RGMI+ V +V++ E
Sbjct: 2 AKTIKITQTRSAIGRLPKHKATLLGLGLRRIGHTVEREDTPAIRGMINAVSFMVKVEE 59
>2zjr_W 50S ribosomal protein L30; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: d.59.1.1 PDB: 1nwx_X* 1nwy_X* 1pnu_X
1pny_X 1sm1_X* 1vor_Z 1vou_Z 1vow_Z 1voy_Z 1vp0_Z
1xbp_X* 2zjp_W* 2zjq_W 1nkw_X 3cf5_W* 3dll_W*
Length = 55
Score = 68.0 bits (167), Expect = 5e-13
Identities = 23/55 (41%), Positives = 34/55 (61%)
Query: 10 ITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE 64
+ ++ + S I RP Q K + LGL K+ R + DTP+VRGM+ TV HL+ + E
Sbjct: 1 MKIKLVRSVIGRPGNQVKTVQALGLRKIGDSREVSDTPAVRGMVKTVKHLLEVQE 55
>1vq8_W 50S ribosomal protein L30P; 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: d.59.1.1 PDB:
1jj2_V 1k73_X* 1k8a_X* 1k9m_X* 1kc8_X* 1kd1_X* 1kqs_V*
1m1k_X* 1m90_X* 1n8r_X* 1nji_X* 1q7y_X* 1q81_X* 1q82_X*
1q86_X* 1qvf_V 1qvg_V 1s72_W* 1vq4_W* 1vq5_W* ...
Length = 154
Score = 44.8 bits (106), Expect = 4e-06
Identities = 13/58 (22%), Positives = 28/58 (48%), Gaps = 2/58 (3%)
Query: 7 MQKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE 64
M + Q+ + + + L L ++ +N C ++ +T + RGM++ V+ V E
Sbjct: 1 MHALV--QLRGEVNMHTDIQDTLEMLNIHHVNHCTLVPETDAYRGMVAKVNDFVAFGE 56
>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 = 33.0 bits (75), Expect = 0.015
Identities = 12/48 (25%), Positives = 20/48 (41%), Gaps = 11/48 (22%)
Query: 15 IGSPIRRPSVQRKVLIGLG--LNKMNRCRVLDDTPS-VRGMIS--TVH 57
+ PI P LIG+ + + ++L TP +R + T H
Sbjct: 232 LSIPISCP------LIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGH 273
>2zkr_w 60S ribosomal protein L7; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 270
Score = 27.9 bits (62), Expect = 0.52
Identities = 10/49 (20%), Positives = 17/49 (34%)
Query: 12 VQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLV 60
V +I RKVL L L ++ + + M+ V +
Sbjct: 114 VIRIRGINGVSPKVRKVLQLLRLRQIFNGTFVKLNKASINMLRIVEPYI 162
>3ik4_A Mandelate racemase/muconate lactonizing protein; structural
genomics, enolase, epimerase, PSI-2; 2.10A
{Herpetosiphon aurantiacus atcc 23779}
Length = 365
Score = 24.8 bits (52), Expect = 4.5
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 1 MSSSLKMQKITVQQIGSPIRRP 22
MS +Q I+ + I P+ P
Sbjct: 1 MSLPTTIQAISAEAINLPLTEP 22
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 0.136 0.377
Gapped
Lambda K H
0.267 0.0807 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 516,766
Number of extensions: 17727
Number of successful extensions: 69
Number of sequences better than 10.0: 1
Number of HSP's gapped: 69
Number of HSP's successfully gapped: 9
Length of query: 64
Length of database: 5,693,230
Length adjustment: 35
Effective length of query: 29
Effective length of database: 4,844,690
Effective search space: 140496010
Effective search space used: 140496010
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 (21.5 bits)
S2: 50 (22.9 bits)