RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780194|ref|YP_003064607.1| 50S ribosomal protein L31
[Candidatus Liberibacter asiaticus str. psy62]
(74 letters)
>2j01_4 50S ribosomal protein L31; ribosome, tRNA, paromomycin,
mRNA, translation; 2.8A {Thermus thermophilus} (4:)
Length = 71
Score = 88.6 bits (220), Expect = 2e-19
Identities = 19/72 (26%), Positives = 35/72 (48%), Gaps = 5/72 (6%)
Query: 1 MKKNIHPETHLITVVMTDGTQYQTRSTWKEEGAVMKLDIDPLSHFAWIGGRQKITDRGGQ 60
MK+ IHP+ ++ G +T ST E + +++ H + G+Q+ D G+
Sbjct: 1 MKEGIHPKLVPARIICGCGNVIETYSTKPE----IYVEVCSKCHPFYT-GQQRFVDTEGR 55
Query: 61 VSRFKKRFAGLS 72
V RF++R+
Sbjct: 56 VERFQRRYGDSY 67
>3f1f_4 50S ribosomal protein L31; RF2, ribosome, termination,
tRNA; 3.00A {Thermus thermophilus} PDB: 3d5d_4 3d5b_4
3f1h_4 (4:)
Length = 97
Score = 82.2 bits (203), Expect = 2e-17
Identities = 18/72 (25%), Positives = 35/72 (48%), Gaps = 5/72 (6%)
Query: 1 MKKNIHPETHLITVVMTDGTQYQTRSTWKEEGAVMKLDIDPLSHFAWIGGRQKITDRGGQ 60
+K+ IHP+ ++ G +T ST E + +++ H + G+Q+ D G+
Sbjct: 27 VKEGIHPKLVPARIICGCGNVIETYSTKPE----IYVEVCSKCHPFYT-GQQRFVDTEGR 81
Query: 61 VSRFKKRFAGLS 72
V RF++R+
Sbjct: 82 VERFQRRYGDSY 93
>3bbo_1 Ribosomal protein L31; large ribosomal subunit, spinach
chloroplast ribosome, ribonucleoprotein particle,
macromolecular complex; 9.40A {Arabidopsis thaliana}
(1:)
Length = 144
Score = 79.3 bits (195), Expect = 2e-16
Identities = 25/73 (34%), Positives = 34/73 (46%), Gaps = 5/73 (6%)
Query: 1 MKKNIHPETH-LITVVMTDGTQYQTRSTWKEEGAVMKLDIDPLSHFAWIGGRQKITDRGG 59
KK +HPE H V T T KE +D+ +H ++G R +
Sbjct: 49 RKKELHPEFHEDAKVYCNGELVMTTGGTKKE----YVVDVWSGNHPFYLGNRSALMVDAD 104
Query: 60 QVSRFKKRFAGLS 72
QV +F+KRFAGLS
Sbjct: 105 QVEKFRKRFAGLS 117
>1nkw_Y 50S ribosomal protein L31; ribosome, large subunit, X- RAY
structure, peptidyl-transferase, peptide bond
formation; 3.10A {Deinococcus radiodurans} (Y:1-56)
Length = 56
Score = 71.6 bits (176), Expect = 4e-14
Identities = 15/61 (24%), Positives = 28/61 (45%), Gaps = 5/61 (8%)
Query: 1 MKKNIHPETHLITVVMTDGTQYQTRSTWKEEGAVMKLDIDPLSHFAWIGGRQKITDRGGQ 60
M+K++HP+ ++ +T ST E + +D+ H W G ++ D G+
Sbjct: 1 MQKDLHPKAVPCKIIYQGQVVMETMSTRPE----IHVDVWSGVHPFWT-GEERFLDTEGR 55
Query: 61 V 61
V
Sbjct: 56 V 56
>1vs6_Z 50S ribosomal protein L31; ribosome, kasugamycin; 3.46A
{Escherichia coli} (Z:1-28)
Length = 28
Score = 50.4 bits (121), Expect = 9e-08
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 1 MKKNIHPETHLITVVMTDGTQYQTRST 27
MKK+IHP+ IT + G + RST
Sbjct: 1 MKKDIHPKYEEITASCSCGNVMKIRST 27
>1vs6_Z 50S ribosomal protein L31; ribosome, kasugamycin; 3.46A
{Escherichia coli} (Z:29-70)
Length = 42
Score = 48.8 bits (117), Expect = 2e-07
Identities = 14/41 (34%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 32 GAVMKLDIDPLSHFAWIGGRQKITDRGGQVSRFKKRFAGLS 72
G + LD+ H + G Q+ GG+V RF KRF
Sbjct: 1 GHDLNLDVCSKCHPFFTGK-QRDVATGGRVDRFNKRFNIPG 40
>1nsc_A Neuraminidase; hydrolase(O-glycosyl); HET: NAG SIA; 1.70A
{Influenza b virus} (A:31-190)
Length = 160
Score = 24.4 bits (53), Expect = 5.0
Identities = 7/27 (25%), Positives = 14/27 (51%), Gaps = 3/27 (11%)
Query: 13 TVVMTDGT---QYQTRSTWKEEGAVMK 36
+++TDG+ + R EG ++K
Sbjct: 131 YLMITDGSASGISKCRFLKIREGRIIK 157
>1v0z_A Neuraminidase; glycosidase, hydrolase; HET: NAG MAN BMA;
1.84A {Influenza a virus} PDB: 1w1x_A* 1w20_A* 1w21_A*
2cml_A* (A:30-188)
Length = 159
Score = 24.4 bits (53), Expect = 5.4
Identities = 10/27 (37%), Positives = 15/27 (55%), Gaps = 3/27 (11%)
Query: 13 TVVMTDGT---QYQTRSTWKEEGAVMK 36
VVMTDG + T+ + +EG + K
Sbjct: 129 PVVMTDGPANNRAATKIIYFKEGKIQK 155
>1nmb_N N9 neuraminidase; complex (hydrolase/immunoglobulin); HET:
NAG BMA MAN; 2.20A {Influenza a virus} (N:112-274)
Length = 163
Score = 24.4 bits (53), Expect = 5.5
Identities = 12/34 (35%), Positives = 20/34 (58%), Gaps = 5/34 (14%)
Query: 13 TVVMTDGT---QYQTRSTWKEEGAVMKLDIDPLS 43
VV TDG+ +TR + +EG ++K +PL+
Sbjct: 129 PVVFTDGSATGPAETRIYYFKEGKILK--WEPLT 160
>1ivd_A Influenza A subtype N2 neuraminidase; hydrolase
(O-glycosyl); HET: NAG BMA FUL MAN FUC ST1; 1.90A
{Influenza a virus} (A:97-264)
Length = 168
Score = 24.4 bits (53), Expect = 6.4
Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 3/27 (11%)
Query: 13 TVVMTDGT---QYQTRSTWKEEGAVMK 36
TVVMTDG+ + TR + EEG ++
Sbjct: 61 TVVMTDGSASGRADTRILFIEEGKIVH 87
>3d85_D IL-12B, interleukin-12 subunit P40, cytotoxic lymphocyte;
FAB, immune system/cytokine complex; 1.90A {Homo
sapiens} (D:1-99)
Length = 99
Score = 24.0 bits (52), Expect = 6.6
Identities = 7/27 (25%), Positives = 12/27 (44%)
Query: 6 HPETHLITVVMTDGTQYQTRSTWKEEG 32
+P+ VV+T T + TW +
Sbjct: 16 YPDAPGEMVVLTCDTPEEDGITWTLDQ 42
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 0.134 0.407
Gapped
Lambda K H
0.267 0.0668 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 577,270
Number of extensions: 20593
Number of successful extensions: 43
Number of sequences better than 10.0: 1
Number of HSP's gapped: 34
Number of HSP's successfully gapped: 14
Length of query: 74
Length of database: 4,956,049
Length adjustment: 40
Effective length of query: 34
Effective length of database: 3,603,849
Effective search space: 122530866
Effective search space used: 122530866
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 (23.2 bits)