RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780250|ref|YP_003064663.1| 50S ribosomal protein L24
[Candidatus Liberibacter asiaticus str. psy62]
(102 letters)
>2j01_Y 50S ribosomal protein L24; ribosome, tRNA, paromomycin,
mRNA, translation; 2.8A {Thermus thermophilus} (Y:1-78)
Length = 78
Score = 76.6 bits (189), Expect = 1e-15
Identities = 30/71 (42%), Positives = 42/71 (59%), Gaps = 1/71 (1%)
Query: 3 KIRTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQGVNIVKRHQRQTP-NKEAGIISKEA 61
++ GD VLV +GK KG+ G+V V+ K V+GVNIVK+ R +P + G I KEA
Sbjct: 6 HVKKGDTVLVASGKYKGRVGKVKEVLPKKYAVIVEGVNIVKKAVRVSPKYPQGGFIEKEA 65
Query: 62 SIHLSNLSLID 72
+H S + I
Sbjct: 66 PLHASKVRPIC 76
>2zjr_R 50S ribosomal protein L24; ribosome, large ribosomal
subunit, ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} (R:1-87)
Length = 87
Score = 76.3 bits (188), Expect = 1e-15
Identities = 22/73 (30%), Positives = 46/73 (63%), Gaps = 1/73 (1%)
Query: 3 KIRTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQGVNIVKRHQRQTP-NKEAGIISKEA 61
+ GD V+VL+GK KG+ G+V+ + + + V+GVN++ ++ + + N + G +E
Sbjct: 15 HFKKGDTVIVLSGKHKGQTGKVLLALPRDQKVVVEGVNVITKNVKPSMTNPQGGQEQREL 74
Query: 62 SIHLSNLSLIDKD 74
++H S ++L+D +
Sbjct: 75 ALHASKVALVDPE 87
>3bbo_W Ribosomal protein L24; large ribosomal subunit, spinach
chloroplast ribosome, ribonucleoprotein particle,
macromolecular complex; 9.40A {Spinacea oleracea}
(W:1-140)
Length = 140
Score = 71.1 bits (174), Expect = 5e-14
Identities = 22/73 (30%), Positives = 42/73 (57%), Gaps = 1/73 (1%)
Query: 3 KIRTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQGVNIVKRHQRQTP-NKEAGIISKEA 61
++ GD V V++G +KGK G++ + + + ++ +N +H + ++ II EA
Sbjct: 68 HVKVGDTVKVISGGEKGKIGEISKIHKHNSTVIIKDLNFKTKHVKSKEEGEQGQIIKIEA 127
Query: 62 SIHLSNLSLIDKD 74
+IH SN+ LI K+
Sbjct: 128 AIHSSNVMLILKE 140
>1vq8_T 50S ribosomal protein L24P; 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} (T:20-120)
Length = 101
Score = 69.0 bits (169), Expect = 2e-13
Identities = 17/87 (19%), Positives = 30/87 (34%), Gaps = 11/87 (12%)
Query: 3 KIRTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQGVNIVKRHQRQTPNKEAGIISKEAS 62
++ GD V VL G G+ G+V+ V V+ V + K +
Sbjct: 23 RVNAGDTVEVLRGDFAGEEGEVINVDLDKAVIHVEDVTLEKTDGEE----------VPRP 72
Query: 63 IHLSNLSLID-KDGKQVRVGFSFVDGK 88
+ SN+ + D + R +
Sbjct: 73 LDTSNVRVTDLDLEDEKREARLESEDD 99
>3i1n_U 50S ribosomal protein L24; ribosome structure, protein-RNA
complex, acetylation, ribonucleoprotein, ribosomal
protein, RNA-binding, rRNA- binding, methylation; 3.19A
{Escherichia coli k-12} PDB: 1vs8_U 1vs6_U 3i1p_U 3i1r_U
3i1t_U 3i20_U 3i22_U 3e1b_O 3e1d_O 2qam_U* 1p85_S 1p86_S
2awb_U 2aw4_U 2i2v_U 2i2t_U* 2qao_U* 2qba_U* 2qbc_U*
2qbe_U ... (U:1-25,U:67-104)
Length = 63
Score = 51.9 bits (125), Expect = 3e-08
Identities = 32/101 (31%), Positives = 41/101 (40%), Gaps = 41/101 (40%)
Query: 1 MEKIRTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQGVNIVKRHQRQTPNKEAGIISKE 60
KIR D V+VL GKDKGK G+V
Sbjct: 2 AAKIRRDDEVIVLTGKDKGKRGKV------------------------------------ 25
Query: 61 ASIHLSNLSLID-KDGKQVRVGFSFVDGKKIRIAKRSGEPI 100
+SN+++ + GK RVGF F DGKK+R K + E I
Sbjct: 26 ----VSNVAIFNAATGKADRVGFRFEDGKKVRFFKSNSETI 62
>3i1n_U 50S ribosomal protein L24; ribosome structure, protein-RNA
complex, acetylation, ribonucleoprotein, ribosomal
protein, RNA-binding, rRNA- binding, methylation; 3.19A
{Escherichia coli k-12} PDB: 1vs8_U 1vs6_U 3i1p_U
3i1r_U 3i1t_U 3i20_U 3i22_U 3e1b_O 3e1d_O 2qam_U*
1p85_S 1p86_S 2awb_U 2aw4_U 2i2v_U 2i2t_U* 2qao_U*
2qba_U* 2qbc_U* 2qbe_U ... (U:26-66)
Length = 41
Score = 48.4 bits (116), Expect = 3e-07
Identities = 18/40 (45%), Positives = 27/40 (67%), Gaps = 2/40 (5%)
Query: 27 VVRKSGRAFVQGVNIVKRHQRQTP--NKEAGIISKEASIH 64
V SG+ V+G+N+VK+HQ+ P N+ GI+ KEA+I
Sbjct: 2 NVLSSGKVIVEGINLVKKHQKPVPALNQPGGIVEKEAAIQ 41
>1kwg_A Beta-galactosidase; TIM barrel, glycoside hydrolase family
42, trimer; 1.60A {Thermus thermophilus} (A:1-394)
Length = 394
Score = 32.7 bits (72), Expect = 0.018
Identities = 3/29 (10%), Positives = 7/29 (24%)
Query: 70 LIDKDGKQVRVGFSFVDGKKIRIAKRSGE 98
+Q+ G D + +
Sbjct: 354 QAPFAQEQMHAGLHRPDSAPDQGFFEAKR 382
>2ftc_N Mitochondrial ribosomal protein L24; mitochondrial
ribosome, large ribosomal subunit, ribosomal RNA;
12.10A {Bos taurus} PDB: 3iy9_N (N:1-31)
Length = 31
Score = 29.8 bits (67), Expect = 0.14
Identities = 13/23 (56%), Positives = 17/23 (73%)
Query: 7 GDRVLVLAGKDKGKAGQVMGVVR 29
GD V +L GKD GK G+V+ V+R
Sbjct: 1 GDTVEILEGKDAGKQGKVVQVIR 23
>1qd6_C Protein (outer membrane phospholipase (ompla));
anti-parallel beta barrel dimer, membrane protein; HET:
HDS; 2.10A {Escherichia coli} (C:)
Length = 240
Score = 25.8 bits (57), Expect = 2.1
Identities = 9/20 (45%), Positives = 10/20 (50%), Gaps = 2/20 (10%)
Query: 69 SLIDKDGKQ--VRVGFSFVD 86
SLID + Q V VG D
Sbjct: 219 SLIDYNFNQTRVGVGVMLND 238
>1qd5_A Outer membrane phospholipase A; anti-parallel beta barrel,
membrane protein; HET: BOG; 2.17A {Escherichia coli}
(A:)
Length = 275
Score = 25.5 bits (56), Expect = 2.4
Identities = 9/20 (45%), Positives = 10/20 (50%), Gaps = 2/20 (10%)
Query: 69 SLIDKDGKQ--VRVGFSFVD 86
SLID + Q V VG D
Sbjct: 254 SLIDYNFNQTRVGVGVMLND 273
>3gqh_A Preneck appendage protein; beta barrel, viral protein; 1.80A
{Bacillus phage PHI29} PDB: 3gqk_A* (A:1-109)
Length = 109
Score = 25.5 bits (56), Expect = 2.7
Identities = 7/28 (25%), Positives = 14/28 (50%), Gaps = 1/28 (3%)
Query: 74 DGKQVRVG-FSFVDGKKIRIAKRSGEPI 100
G+ + G ++ KIR A++ + I
Sbjct: 10 GGQVIETGYLVTLEKGKIRKAEKGEKII 37
>3gqn_A Preneck appendage protein; coiled coil, beta helix, beta
barrel, ATP binding, viral protein; HET: ATP; 2.15A
{Bacillus phage PHI29} (A:605-772)
Length = 168
Score = 25.2 bits (55), Expect = 3.1
Identities = 7/28 (25%), Positives = 14/28 (50%), Gaps = 1/28 (3%)
Query: 74 DGKQVRVG-FSFVDGKKIRIAKRSGEPI 100
G+ + G ++ KIR A++ + I
Sbjct: 15 GGQVIETGYLVTLEKGKIRKAEKGEKII 42
>2wwb_L 60S ribosomal protein L26-A; ribosome, protein EXIT
tunnel, cotranslational protein translocation, protein
conducting channel; 6.48A {Triticum aestivum} PDB:
2wwa_L 2ww9_L 1s1i_U (L:26-70,L:100-112)
Length = 58
Score = 24.7 bits (54), Expect = 5.0
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 4 IRTGDRVLVLAGKDKGKAGQV 24
IR D VLV+ G KG+ G++
Sbjct: 25 IRRDDEVLVVRGSKKGQEGKI 45
>1xdn_A RNA editing ligase MP52; HET: MSE ATP; 1.20A {Trypanosoma
brucei} (A:43-194)
Length = 152
Score = 24.5 bits (53), Expect = 5.1
Identities = 8/21 (38%), Positives = 10/21 (47%), Gaps = 5/21 (23%)
Query: 82 FSFV-----DGKKIRIAKRSG 97
F D + +R AKRSG
Sbjct: 4 FGIYLINQGDHEVVRFAKRSG 24
>1ygy_A PGDH, D-3-phosphoglycerate dehydrogenase; oxidoreductase,
serine biosynthesis, structural genomics, PSI, protein
structure initiative; HET: TAR; 2.30A {Mycobacterium
tuberculosis} (A:323-452)
Length = 130
Score = 23.9 bits (52), Expect = 7.3
Identities = 13/69 (18%), Positives = 24/69 (34%), Gaps = 11/69 (15%)
Query: 34 AFVQGVNIVKRHQRQTPNKEAGIISKEASIHLSNLSLIDKDGKQVRV-GFSFVDGKKIRI 92
A +GV ++PN + + + + DG V V G + +I
Sbjct: 69 AAERGVTAEICKASESPNHRSVVD----------VRAVGADGSVVTVSGTLYGPQLSQKI 118
Query: 93 AKRSGEPID 101
+ +G D
Sbjct: 119 VQINGRHFD 127
>1lkf_A LUKF, HLGB, leukocidin F subunit; leukotoxin, hemolysin,
pore-forming toxin; 1.90A {Staphylococcus aureus} (A:)
Length = 299
Score = 23.7 bits (51), Expect = 8.5
Identities = 5/55 (9%), Positives = 17/55 (30%), Gaps = 8/55 (14%)
Query: 48 QTPNKEAGIISKEASIHLSNLSLIDKDG--------KQVRVGFSFVDGKKIRIAK 94
++ +K+ ++ +I+ + D + V S + +
Sbjct: 44 KSYDKDTLVLKATGNINSGFVKPNPNDYDFSKLYWGAKYNVSISSQSNDSVNVVD 98
>1lpl_A Hypothetical 25.4 kDa protein F53F4.3 in chromosome V;
structural genomics, CAP-Gly domain, cytoskeleton,
tubulin, PSI; 1.77A {Caenorhabditis elegans} (A:)
Length = 95
Score = 23.6 bits (51), Expect = 9.0
Identities = 8/27 (29%), Positives = 12/27 (44%)
Query: 1 MEKIRTGDRVLVLAGKDKGKAGQVMGV 27
+ I G+R V G + G+V V
Sbjct: 9 AKNIMVGNRCEVTVGAQMARRGEVAYV 35
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
0.317 0.137 0.373
Gapped
Lambda K H
0.267 0.0623 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 739,785
Number of extensions: 29773
Number of successful extensions: 175
Number of sequences better than 10.0: 1
Number of HSP's gapped: 169
Number of HSP's successfully gapped: 36
Length of query: 102
Length of database: 4,956,049
Length adjustment: 60
Effective length of query: 42
Effective length of database: 2,927,749
Effective search space: 122965458
Effective search space used: 122965458
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 (21.6 bits)
S2: 50 (23.3 bits)