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)