RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780262|ref|YP_003064675.1| 30S ribosomal protein S10
[Candidatus Liberibacter asiaticus str. psy62]
(104 letters)
>3bbn_J Ribosomal protein S10; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Mesembryanthemum crystallinum} SCOP:
i.1.1.1
Length = 197
Score = 126 bits (319), Expect = 8e-31
Identities = 38/98 (38%), Positives = 67/98 (68%)
Query: 7 RICICLKAFDSRILDSSMREIVLTTKKSGSQIVGPIPFPRSIRRFTVNRSPHVDKKSRDQ 66
+I I L+++ +++ S ++I+ + + ++ +GP+P P R F V +SPHV K +R
Sbjct: 100 KIRIKLRSYWVPLIEDSCKQIMDAARTTNAKTMGPVPLPTKKRIFCVLKSPHVHKDARFH 159
Query: 67 LEMRIYKRLLYIIKPTPQTVDALMKLDIAAGVNVVIKL 104
E+R ++RL+ I+ PT QT+D+LM+LD+ AGV+V +KL
Sbjct: 160 FEIRTHQRLIDILYPTAQTIDSLMQLDLPAGVDVEVKL 197
>3i1m_J 30S ribosomal protein S10; ribosome structure, protein-RNA complex,
ribonucleoprotein, ribosomal protein, RNA-binding,
rRNA-binding, antibiotic resistance; 3.19A {Escherichia
coli k-12} PDB: 1p6g_J 1p87_J* 1vs7_J* 2avy_J 2aw7_J
1vs5_J 2i2u_J 2i2p_J* 2qan_J* 2qb9_J* 2qbb_J* 2qbd_J
2qbf_J 2qbh_J* 2qbj_J* 2qou_J* 2qow_J* 2qoy_J* 2qp0_J*
2vho_J ...
Length = 103
Score = 123 bits (311), Expect = 7e-30
Identities = 56/98 (57%), Positives = 74/98 (75%)
Query: 7 RICICLKAFDSRILDSSMREIVLTTKKSGSQIVGPIPFPRSIRRFTVNRSPHVDKKSRDQ 66
RI I LKAFD R++D + EIV T K++G+Q+ GPIP P RFTV SPHV+K +RDQ
Sbjct: 5 RIRIRLKAFDHRLIDQATAEIVETAKRTGAQVRGPIPLPTRKERFTVLISPHVNKDARDQ 64
Query: 67 LEMRIYKRLLYIIKPTPQTVDALMKLDIAAGVNVVIKL 104
E+R + RL+ I++PT +TVDALM+LD+AAGV+V I L
Sbjct: 65 YEIRTHLRLVDIVEPTEKTVDALMRLDLAAGVDVQISL 102
>3ofo_J 30S ribosomal protein S10; protein biosynthesis, ribosomes, RNA,
tRNA, transfer, eryThr ketolide, macrolide, antibiotic,
EXIT, peptidyl; 3.10A {Escherichia coli} PDB: 3fih_J*
2wwl_J 3ofp_J 3i1m_J 1p6g_J 1p87_J* 1vs7_J* 2avy_J
2aw7_J 1vs5_J 2i2u_J 2i2p_J* 2qan_J* 2qb9_J* 2qbb_J*
2qbd_J 2qbf_J 2qbh_J* 2qbj_J* 2qou_J* ...
Length = 98
Score = 118 bits (298), Expect = 2e-28
Identities = 56/98 (57%), Positives = 74/98 (75%)
Query: 7 RICICLKAFDSRILDSSMREIVLTTKKSGSQIVGPIPFPRSIRRFTVNRSPHVDKKSRDQ 66
RI I LKAFD R++D + EIV T K++G+Q+ GPIP P RFTV SPHV+K +RDQ
Sbjct: 1 RIRIRLKAFDHRLIDQATAEIVETAKRTGAQVRGPIPLPTRKERFTVLISPHVNKDARDQ 60
Query: 67 LEMRIYKRLLYIIKPTPQTVDALMKLDIAAGVNVVIKL 104
E+R + RL+ I++PT +TVDALM+LD+AAGV+V I L
Sbjct: 61 YEIRTHLRLVDIVEPTEKTVDALMRLDLAAGVDVQISL 98
>2vqe_J 30S ribosomal protein S10, 30S ribosomal protein S6; tRNA-binding,
rRNA-binding, metal-binding, zinc-finger, translation;
HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP:
d.58.15.1 PDB: 1gix_M* 1hnw_J* 1hnx_J* 1hnz_J* 1hr0_J
1ibk_J* 1ibl_J* 1ibm_J 1jgo_M* 1jgp_M* 1jgq_M* 1ml5_M*
1xmo_J* 1xmq_J* 1xnq_J* 1xnr_J* 1yl4_M 2b64_J* 2b9m_J*
2b9o_J* ...
Length = 105
Score = 117 bits (295), Expect = 6e-28
Identities = 44/98 (44%), Positives = 64/98 (65%)
Query: 7 RICICLKAFDSRILDSSMREIVLTTKKSGSQIVGPIPFPRSIRRFTVNRSPHVDKKSRDQ 66
+I I L+ FD + LD+S ++IV ++SG+Q+ GPIP P +RRFTV R P K SR+
Sbjct: 3 KIRIKLRGFDHKTLDASAQKIVEAARRSGAQVSGPIPLPTRVRRFTVIRGPFKHKDSREH 62
Query: 67 LEMRIYKRLLYIIKPTPQTVDALMKLDIAAGVNVVIKL 104
E+R + RL+ II P +T++ LM LD+ GV + IK
Sbjct: 63 FELRTHNRLVDIINPNRKTIEQLMTLDLPTGVEIEIKT 100
>3jyv_J 40S ribosomal protein S20; eukaryotic ribosome, RACK1 protein,
flexible fitting; HET: 2MG H2U M2G OMC OMG YYG PSU 5MC
7MG 5MU 1MA; 8.90A {Thermomyces lanuginosus} PDB: 1s1h_J
Length = 96
Score = 104 bits (260), Expect = 7e-24
Identities = 24/97 (24%), Positives = 49/97 (50%), Gaps = 2/97 (2%)
Query: 7 RICICLKAFDSRILDSSMREIVLTTKKSGSQIVGPIPFPRSIRRFTVNRSPHVD-KKSRD 65
+I I L + + L++ IV ++ GP+ P + + + ++P+ + K+ +
Sbjct: 1 KIRITLTSTKVKQLENVSSNIVKNAEQHNLVKKGPVRLPTKVLKISTRKTPNGEGSKTWE 60
Query: 66 QLEMRIYKRLLYIIKPTPQTVDALMKLDIAAGVNVVI 102
EMRI+KR + + P Q V + ++ I GV+V +
Sbjct: 61 TYEMRIHKRYIDLEAPV-QIVKRITQITIEPGVDVEV 96
>2zkq_j 40S ribosomal protein S20E; protein-RNA complex, 40S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 119
Score = 100 bits (251), Expect = 8e-23
Identities = 26/99 (26%), Positives = 52/99 (52%), Gaps = 2/99 (2%)
Query: 7 RICICLKAFDSRILDSSMREIVLTTKKSGSQIVGPIPFPRSIRRFTVNRSPHVD-KKSRD 65
RI I L + + + L+ +++ K+ ++ GP+ P R T ++P + K+ D
Sbjct: 19 RIRITLTSRNVKSLEKVCADLIRGAKEKNLKVKGPVRMPTKTLRITTRKTPCGEGSKTWD 78
Query: 66 QLEMRIYKRLLYIIKPTPQTVDALMKLDIAAGVNVVIKL 104
+ +MRI+KRL+ + P+ + V + + I GV V + +
Sbjct: 79 RFQMRIHKRLIDLHSPS-EIVKQITSISIEPGVEVEVTI 116
>3d3b_J 30S ribosomal protein S10, N utilization substance protein B; NUSB,
NUSE, NUT site, phage lambda, lambdan antitermination;
HET: NHE; 1.30A {Escherichia coli K12} PDB: 3imq_J
3d3c_J
Length = 87
Score = 88.6 bits (220), Expect = 3e-19
Identities = 44/104 (42%), Positives = 61/104 (58%), Gaps = 23/104 (22%)
Query: 1 MTSRNIRICICLKAFDSRILDSSMREIVLTTKKSGSQIVGPIPFPRSIRRFTVNRSPHVD 60
M ++ IRI LKAFD R++D + EIV T K++G+Q+ GPIP P
Sbjct: 6 MQNQRIRIR--LKAFDHRLIDQATAEIVETAKRTGAQVRGPIPLPT-------------- 49
Query: 61 KKSRDQLEMRIYKRLLYIIKPTPQTVDALMKLDIAAGVNVVIKL 104
R + RL+ I++PT +TVDALM+LD+AAGV+V I L
Sbjct: 50 -------RSRTHLRLVDIVEPTEKTVDALMRLDLAAGVDVQISL 86
>3d3c_J 30S ribosomal protein S10, N utilization substance protein B; NUSB,
NUSE, phage lambda, lambda N antitermination, RRN
antitermination; 2.60A {Escherichia coli K12} PDB:
2kvq_E 3d3b_J* 3imq_J
Length = 87
Score = 88.2 bits (219), Expect = 4e-19
Identities = 43/104 (41%), Positives = 60/104 (57%), Gaps = 23/104 (22%)
Query: 1 MTSRNIRICICLKAFDSRILDSSMREIVLTTKKSGSQIVGPIPFPRSIRRFTVNRSPHVD 60
M ++ IRI LKAFD R++D + EIV T K++G+Q+ GPIP P
Sbjct: 6 MQNQRIRIR--LKAFDHRLIDQATAEIVETAKRTGAQVRGPIPLPT-------------- 49
Query: 61 KKSRDQLEMRIYKRLLYIIKPTPQTVDALMKLDIAAGVNVVIKL 104
R + RL+ I++PT +TVD LM+LD+AAGV+V I L
Sbjct: 50 -------RSRTHLRLVDIVEPTEKTVDDLMRLDLAAGVDVQISL 86
>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 = 38.8 bits (90), Expect = 3e-04
Identities = 16/108 (14%), Positives = 34/108 (31%), Gaps = 39/108 (36%)
Query: 16 DSRI---LDSSMREIVLTTKKSGSQIVGPIPFPRSIRRFTV-------------NRSPHV 59
++ L + + +V++ GP P+S+ + +R P
Sbjct: 363 GKQVEISLVNGAKNLVVS---------GP---PQSLYGLNLTLRKAKAPSGLDQSRIPFS 410
Query: 60 DKKSRDQLEMRIYKRLLYIIKP--TP--QTVDALMKLDIAAGVNVVIK 103
++K + R L + P + L+ D+ NV
Sbjct: 411 ERKL------KFSNRFLPVASPFHSHLLVPASDLINKDLVK-NNVSFN 451
>3kx6_A Fructose-bisphosphate aldolase; ssgcid, NIH, niaid, SBRI, UW,
emerald biostructures, glycolysis, lyase, structural
genomics; HET: CIT; 2.10A {Babesia bovis}
Length = 379
Score = 30.3 bits (68), Expect = 0.098
Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 6/56 (10%)
Query: 11 CLKAFDSRILDSS------MREIVLTTKKSGSQIVGPIPFPRSIRRFTVNRSPHVD 60
K FD+ ++++ R I+ TTK G I G I F ++ + N VD
Sbjct: 58 IQKRFDNVGVENTEKNRAEYRSILFTTKGLGKYISGCILFEETLFQQAPNGQNMVD 113
>2pc4_A 41 kDa antigen, fructose-bisphosphate aldolase; invasion machinery,
structural genomics, PSI, protein structure initiative;
2.40A {Plasmodium falciparum} PDB: 2eph_A 1a5c_A
Length = 369
Score = 29.2 bits (65), Expect = 0.20
Identities = 14/57 (24%), Positives = 25/57 (43%), Gaps = 6/57 (10%)
Query: 11 CLKAFDSRILDSS------MREIVLTTKKSGSQIVGPIPFPRSIRRFTVNRSPHVDK 61
K FD+ L+++ R+++ TK G I G I F ++ + P V+
Sbjct: 46 IKKRFDNIKLENTIENRASYRDLLFGTKGLGKFISGAILFEETLFQKNEAGVPMVNL 102
>3mbd_A Fructose-bisphosphate aldolase; glycolysis, lyase, schiff base,
structural genomics; 2.00A {Encephalitozoon cuniculi}
PDB: 3mbf_A*
Length = 342
Score = 28.8 bits (64), Expect = 0.31
Identities = 10/54 (18%), Positives = 22/54 (40%), Gaps = 6/54 (11%)
Query: 13 KAFDSRILDSS------MREIVLTTKKSGSQIVGPIPFPRSIRRFTVNRSPHVD 60
+ F+ + ++ REI+ +TK I G I + + + + P +
Sbjct: 40 RRFEKLGITNTEENRRKFREILFSTKGIERYIGGVILNQETFEQTSGSGVPLTE 93
>1y7l_A O-acetylserine sulfhydrylase, O-acetylserine (thiol)-lyase; X-RAY
crystallography, sulfhydrylase; HET: LLP; 1.55A
{Haemophilus influenzae} SCOP: c.79.1.1 PDB: 1fcj_A*
1oas_A* 1d6s_A*
Length = 316
Score = 28.0 bits (61), Expect = 0.58
Identities = 13/37 (35%), Positives = 17/37 (45%), Gaps = 6/37 (16%)
Query: 69 MRIYKRLLYIIKPTPQTVDALMKLD-IAAGVNVVIKL 104
M IY Y I TP L++L NVV+K+
Sbjct: 1 MAIYADNSYSIGNTP-----LVRLKHFGHNGNVVVKI 32
>2k4m_A TR8_protein, UPF0146 protein MTH_1000; alpha+beta, rossman fold,
structural genomics, PSI-2; NMR
{Methanothermobacterthermautotrophicus str}
Length = 153
Score = 27.1 bits (60), Expect = 0.90
Identities = 13/38 (34%), Positives = 22/38 (57%), Gaps = 2/38 (5%)
Query: 68 EMRIYK--RLLYIIKPTPQTVDALMKLDIAAGVNVVIK 103
M IY+ L+Y I+P + +LM++ A G ++IK
Sbjct: 83 RMEIYRGAALIYSIRPPAEIHSSLMRVADAVGARLIIK 120
>2q3b_A Cysteine synthase A; pyridoxal-5'-phosphate, sulphur metabolism,
cysteine biosynthesis, transferase; HET: LLP; 1.80A
{Mycobacterium tuberculosis} PDB: 2q3c_A* 2q3d_A*
Length = 313
Score = 27.1 bits (59), Expect = 1.1
Identities = 10/37 (27%), Positives = 18/37 (48%), Gaps = 2/37 (5%)
Query: 68 EMRIYKRLLYIIKPTPQTVDALMKLDIAAGVNVVIKL 104
M I + + +I TP + L ++ A ++V KL
Sbjct: 3 HMSIAEDITQLIGRTP--LVRLRRVTDGAVADIVAKL 37
>2qap_A Fructose-1,6-bisphosphate aldolase; beta barrel, C-teminal tail,
lyase; 1.59A {Leishmania mexicana} SCOP: c.1.10.1 PDB:
2qdg_A* 2qdh_A* 1epx_A 1f2j_A
Length = 391
Score = 25.7 bits (56), Expect = 2.2
Identities = 11/73 (15%), Positives = 22/73 (30%), Gaps = 8/73 (10%)
Query: 11 CLKAFDSRILDSS------MREIVLTTKKSGSQIVGPIPFPRSIRRFTVNRSPHVDK--K 62
C K F L ++ R ++L + I G I ++ + N +
Sbjct: 69 CTKRFQPIGLSNTEEHRRQYRALMLEAEGFEQYISGVILHDETVGQKASNGQTFPEYLTA 128
Query: 63 SRDQLEMRIYKRL 75
++ L
Sbjct: 129 RGVVPGIKTDMGL 141
>3hhc_A Interleukin-28B; interferon, IL-22, antiviral, antiviral defense,
cytokine, secreted; 2.80A {Homo sapiens}
Length = 196
Score = 24.0 bits (52), Expect = 7.9
Identities = 12/50 (24%), Positives = 20/50 (40%), Gaps = 1/50 (2%)
Query: 27 IVLTTKKSGSQIVGPIPFPRSIRRFTVNRSPHVDK-KSRDQLEMRIYKRL 75
VL + + G +P R R H+ + KS E++ +KR
Sbjct: 7 PVLVLMAAVLTVTGAVPVARLRGALPDARGCHIAQFKSLSPQELQAFKRA 56
>1mqs_A SLY1 protein, SLY1P; SM-protein, snare, syntaxin,
endocytosis/exocytosis complex; 3.00A {Saccharomyces
cerevisiae} SCOP: e.25.1.1
Length = 671
Score = 23.9 bits (51), Expect = 9.9
Identities = 4/16 (25%), Positives = 10/16 (62%)
Query: 76 LYIIKPTPQTVDALMK 91
+Y + PT + +D ++
Sbjct: 104 IYFVSPTKENIDIIVN 119
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
0.326 0.139 0.393
Gapped
Lambda K H
0.267 0.0679 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 867,019
Number of extensions: 35484
Number of successful extensions: 129
Number of sequences better than 10.0: 1
Number of HSP's gapped: 123
Number of HSP's successfully gapped: 26
Length of query: 104
Length of database: 5,693,230
Length adjustment: 69
Effective length of query: 35
Effective length of database: 4,020,394
Effective search space: 140713790
Effective search space used: 140713790
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 50 (23.1 bits)