RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780584|ref|YP_003064997.1| 50S ribosomal protein L28
[Candidatus Liberibacter asiaticus str. psy62]
(97 letters)
>3bbo_Y Ribosomal protein L28; large ribosomal subunit, spinach
chloroplast ribosome, ribonucleoprotein particle,
macromolecular complex; 9.40A {Nicotiana tabacum} (Y:)
Length = 151
Score = 73.4 bits (180), Expect = 9e-15
Identities = 22/78 (28%), Positives = 40/78 (51%), Gaps = 1/78 (1%)
Query: 1 MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
R+C T K NKVSH+N+KT++ NL + + ++ +LR+S A++++E
Sbjct: 74 ARRICPFTGKKSNRANKVSHSNHKTKKLQFVNLQYKRIWWEAGKRYVKLRLSTKAIKTIE 133
Query: 61 RQGGLDRFLSNSKKENLS 78
+ GLD + +
Sbjct: 134 K-NGLDAVAKKAGIDLSK 150
>2jz6_A 50S ribosomal protein L28; structure, NESG,
ribonucleoprotein, structural genomics, PSI-2, protein
structure initiative; NMR {Thermotoga maritima MSB8}
(A:)
Length = 77
Score = 73.1 bits (180), Expect = 1e-14
Identities = 19/66 (28%), Positives = 36/66 (54%), Gaps = 1/66 (1%)
Query: 1 MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
M++ CE+ K SGN VSH++ K+ R F PNL ++ ++ ++R+ L+S +
Sbjct: 6 MAKRCEVCGKAPRSGNTVSHSDKKSERWFRPNLQKVRVVLPD-GTIKRMRVCTSCLKSGK 64
Query: 61 RQGGLD 66
+ +
Sbjct: 65 VKKYVG 70
>2jl6_1 50S ribosomal protein L28, 50S ribosomal protein L25;
methylation, translation, paromomycin, tRNA-binding,
tRNA, zinc, mRNA, ribosome, repressor, RNA-binding;
3.45A {Thermus thermophilus} PDB: 2jl8_1 (1:)
Length = 89
Score = 71.0 bits (174), Expect = 5e-14
Identities = 15/91 (16%), Positives = 32/91 (35%), Gaps = 15/91 (16%)
Query: 1 MSRVCELTKKTVMSGNKVS-------------HANNKTRRRFLPNLCRITLISDIMEQKY 47
MS+VCE++ K + N + ++RR PNL ++ + Q+
Sbjct: 1 MSKVCEISGKRPIVANSIQRRGKAKREGGVGKKTTGISKRRQYPNLQKVRVRVA--GQEI 58
Query: 48 QLRISKCALRSVERQGGLDRFLSNSKKENLS 78
R++ + V + + +
Sbjct: 59 TFRVAASHIPKVYELVERAAAAAAAAAAAAA 89
>3i1n_X 50S ribosomal protein L28; ribosome structure, protein-RNA
complex, acetylation, ribonucleoprotein, ribosomal
protein, RNA-binding, rRNA- binding, methylation; 3.19A
{Escherichia coli k-12} PDB: 2qao_Z* 2qba_Z* 2qbc_Z*
2qbe_Z 2qbg_Z 2qbi_Z* 2qbk_Z* 2qov_Z 2qox_Z 2qoz_Z*
2qp1_Z* 2z4l_Z* 2z4n_Z* 3df2_Z 3df4_Z 2qam_Z 3i1p_X
3i1r_X 3i1t_X 3i20_X ... (X:1-33)
Length = 33
Score = 57.7 bits (140), Expect = 5e-10
Identities = 21/33 (63%), Positives = 26/33 (78%)
Query: 1 MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNL 33
MSRVC++T K ++GN SHA N T+RRFLPNL
Sbjct: 1 MSRVCQVTGKRPVTGNNRSHALNATKRRFLPNL 33
>2zjr_U 50S ribosomal protein L28; ribosome, large ribosomal
subunit, ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} (U:1-47)
Length = 47
Score = 44.5 bits (105), Expect = 5e-06
Identities = 13/46 (28%), Positives = 15/46 (32%), Gaps = 13/46 (28%)
Query: 1 MSRVCELTKKTVMSGNKVS-------------HANNKTRRRFLPNL 33
MSR C LT K + N V T+R NL
Sbjct: 1 MSRECYLTGKKNLVVNSVIRRGKARADGGVGRKTTGITKRVQRANL 46
>2j01_1 50S ribosomal protein L28; ribosome, tRNA, paromomycin,
mRNA, translation; 2.8A {Thermus thermophilus} (1:1-46)
Length = 46
Score = 30.6 bits (69), Expect = 0.078
Identities = 12/46 (26%), Positives = 19/46 (41%), Gaps = 13/46 (28%)
Query: 1 MSRVCELTKKTVMSGNKVS-------------HANNKTRRRFLPNL 33
MS+VCE++ K + N + ++RR PNL
Sbjct: 1 MSKVCEISGKRPIVANSIQRRGKAKREGGVGKKTTGISKRRQYPNL 46
>1su1_A Hypothetical protein YFCE; structural genomics,
phosphoesterase, PSI, protein structure initiative,
midwest center for structural genomics, MCSG; 2.25A
{Escherichia coli} (A:)
Length = 208
Score = 25.8 bits (55), Expect = 2.3
Identities = 4/22 (18%), Positives = 8/22 (36%), Gaps = 2/22 (9%)
Query: 23 NKTRRRFL--PNLCRITLISDI 42
T + + ++ SDI
Sbjct: 13 LGTENLYFQSNAMMKLMFASDI 34
>2j0j_A Focal adhesion kinase 1; cell migration, phosphorylation,
FERM, transferase, ATP-binding, integrin signaling,
nucleotide-binding; HET: 4ST; 2.8A {Gallus gallus} PDB:
2j0k_A* (A:132-221)
Length = 90
Score = 25.0 bits (55), Expect = 3.4
Identities = 11/40 (27%), Positives = 20/40 (50%), Gaps = 1/40 (2%)
Query: 53 KCALRSVERQGGLDRFLSNSKKENLSAR-MRTLRSQILKK 91
K +E+ GL RF S +++ A+ +R L Q ++
Sbjct: 30 KSNYEVLEKDVGLRRFFPKSLLDSVKAKTLRKLIQQTFRQ 69
>2al6_A Focal adhesion kinase 1; transferase; 2.35A {Gallus
gallus} (A:132-221)
Length = 90
Score = 25.0 bits (55), Expect = 3.4
Identities = 11/40 (27%), Positives = 20/40 (50%), Gaps = 1/40 (2%)
Query: 53 KCALRSVERQGGLDRFLSNSKKENLSAR-MRTLRSQILKK 91
K +E+ GL RF S +++ A+ +R L Q ++
Sbjct: 30 KSNYEVLEKDVGLRRFFPKSLLDSVKAKTLRKLIQQTFRQ 69
>3k7x_A LIN0763 protein; Q92DQ0, LKR23, NESG, structural genomics,
PSI-2, protein structure initiative, northeast
structural genomics consortium; 1.89A {Listeria
innocua} (A:1-28,A:284-349)
Length = 94
Score = 25.1 bits (54), Expect = 3.8
Identities = 14/41 (34%), Positives = 21/41 (51%), Gaps = 1/41 (2%)
Query: 9 KKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQL 49
+K ++ K NNKT R F+ N C+I L+ + Y L
Sbjct: 15 EKFYLADTKEQFLNNKTYRDFVLNSCQI-LVENAKLDGYLL 54
Database: mmdb70
Posted date: Jun 20, 2010 3:12 AM
Number of letters in database: 4,956,049
Number of sequences in database: 33,805
Lambda K H
0.319 0.128 0.342
Gapped
Lambda K H
0.267 0.0517 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 603,860
Number of extensions: 21450
Number of successful extensions: 76
Number of sequences better than 10.0: 1
Number of HSP's gapped: 71
Number of HSP's successfully gapped: 12
Length of query: 97
Length of database: 4,956,049
Length adjustment: 57
Effective length of query: 40
Effective length of database: 3,029,164
Effective search space: 121166560
Effective search space used: 121166560
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.5 bits)