RPS-BLAST 2.2.22 [Sep-27-2009]

Database: mmdb70 
           33,805 sequences; 4,956,049 total letters

Searching..................................................done

Query= gi|254780266|ref|YP_003064679.1| 30S ribosomal protein S12
[Candidatus Liberibacter asiaticus str. psy62]
         (124 letters)



>2vqe_L 30S ribosomal protein S12, 30S ribosomal protein S6;
           tRNA-binding, rRNA-binding, metal-binding, zinc-finger,
           translation; HET: TM2 PAR; 2.5A {Thermus thermophilus}
           (L:23-135)
          Length = 113

 Score =  141 bits (358), Expect = 2e-35
 Identities = 75/104 (72%), Positives = 89/104 (85%)

Query: 21  KVTALRGNPQKRGVCLRVYTVTPKKPNSALRKVIKARLTSGVEVIAYVPGEGHNLQEHSV 80
           KV AL+G P +RGVC  V TVTPKKPNSALRKV K RLTSG EV AY+PGEGHNLQEHSV
Sbjct: 1   KVPALKGAPFRRGVCTVVRTVTPKKPNSALRKVAKVRLTSGYEVTAYIPGEGHNLQEHSV 60

Query: 81  VMLCGGRVKDLPGVKYRVIRGVLDAQGVKNRKQARSRYGAERPK 124
           V++ GGRVKDLPGV+Y ++RGV DA GVK+RK++RS+YG ++PK
Sbjct: 61  VLIRGGRVKDLPGVRYHIVRGVYDAAGVKDRKKSRSKYGTKKPK 104


>2zkq_l 40S ribosomal protein S23E; protein-RNA complex, 40S
           ribosomal subunit, ribosomal protein/RNA complex; 8.70A
           {Canis familiaris} PDB: 1s1h_L (l:)
          Length = 143

 Score =  106 bits (266), Expect = 1e-24
 Identities = 32/132 (24%), Positives = 60/132 (45%), Gaps = 20/132 (15%)

Query: 6   QLIRKPRK-----------GSFRACAKVTALRGNPQKRGVCLRVYTVTPKKPNSALRKVI 54
           + +R  R+                  K     G    +G+ L    V  K+PNSA+RK +
Sbjct: 11  RKLRSHRRDQKWHDKQYKKAHLGTALKANPFGGASHAKGIVLEKVGVEAKQPNSAIRKCV 70

Query: 55  KARLTS-GVEVIAYVPGEG--HNLQEHSVVMLCG-----GRVKDLPGVKYRVIRGVLD-A 105
           + +L   G ++ A+VP +G  + ++E+  V++ G       V D+PGV+++V++      
Sbjct: 71  RVQLIKNGKKITAFVPNDGCLNFIEENDEVLVAGFGRKGHAVGDIPGVRFKVVKVANVSL 130

Query: 106 QGVKNRKQARSR 117
             +   K+ R R
Sbjct: 131 LALYKGKKERPR 142


>1ju2_A HydroxynitrIle lyase; flavin, GMC oxidoreductase, almond,
          cyanogenesis; HET: NAG NDG FUC BMA MAN FAD; 1.47A
          {Prunus dulcis} (A:258-298,A:366-472)
          Length = 148

 Score = 28.3 bits (63), Expect = 0.38
 Identities = 4/18 (22%), Positives = 8/18 (44%)

Query: 61 GVEVIAYVPGEGHNLQEH 78
           + V+   P  G  L ++
Sbjct: 24 NIPVVLSHPYVGQFLHDN 41


>3fim_B ARYL-alcohol oxidase; AAO, lignin degradation,
           oxidoreductase, flavoprotein; HET: FAD; 2.55A {Pleurotus
           eryngii} (B:119-214,B:273-507)
          Length = 331

 Score = 26.8 bits (58), Expect = 0.96
 Identities = 7/23 (30%), Positives = 12/23 (52%)

Query: 61  GVEVIAYVPGEGHNLQEHSVVML 83
           G++ I   P  G NL +H ++  
Sbjct: 120 GIDTIVNNPSVGRNLSDHLLLPA 142


>2jbv_A Choline oxidase; alcohol oxidation, flavoenyzme oxidase,
           covalently linked FAD, C4A-adduct, flavoprotein,
           oxidoreductase; HET: FAO; 1.86A {Arthrobacter
           globiformis} (A:59-215,A:270-482)
          Length = 370

 Score = 26.3 bits (57), Expect = 1.3
 Identities = 9/24 (37%), Positives = 15/24 (62%)

Query: 61  GVEVIAYVPGEGHNLQEHSVVMLC 84
           G+EV+   PG G +LQ+H   ++ 
Sbjct: 181 GIEVLVDSPGVGEHLQDHPEGVVQ 204


>1yi9_A PAM, peptidyl-glycine alpha-amidating monooxygenase;
          bioactive peptide activation, copper, ascorbate,
          oxidoreductase; 1.70A {Rattus norvegicus} (A:)
          Length = 309

 Score = 25.4 bits (55), Expect = 3.0
 Identities = 10/58 (17%), Positives = 22/58 (37%)

Query: 36 LRVYTVTPKKPNSALRKVIKARLTSGVEVIAYVPGEGHNLQEHSVVMLCGGRVKDLPG 93
          +R+  VTPK+ ++     ++  +     VI + P    +   H ++  C         
Sbjct: 20 IRMPGVTPKESDTYFCMSMRLPVDEEAFVIDFKPRASMDTVHHMLLFGCNMPSSTGSY 77


>1vqs_A Hypothetical protein AGR_L_1239; NP_356412.1, structural
          genomics, joint center for structural genomics, JCSG;
          HET: MSE SO4; 1.50A {Agrobacterium tumefaciens str}
          (A:)
          Length = 116

 Score = 24.4 bits (53), Expect = 5.3
 Identities = 7/53 (13%), Positives = 16/53 (30%), Gaps = 7/53 (13%)

Query: 29 PQKRG--VCLRVYTVTPKKPNSAL----RKVIKARLTSGVEVIAY-VPGEGHN 74
                   +R Y +      + L     + I+ + +   E++ Y     G  
Sbjct: 8  HHHHHXFYEIRTYRLKNGAIPAYLKVVEDEGIEIQKSHLGELVGYFFSEIGPI 60


>2hly_A AGR_C_4178P, hypothetical protein ATU2299; ATC2257, MCSG,
           structural genomics, PSI-2, protein structure
           initiative; 1.60A {Agrobacterium tumefaciens str} (A:)
          Length = 207

 Score = 24.5 bits (53), Expect = 5.5
 Identities = 6/17 (35%), Positives = 8/17 (47%)

Query: 96  YRVIRGVLDAQGVKNRK 112
           YRVI  +L +Q      
Sbjct: 17  YRVINSLLISQNADPAS 33


>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-;
           fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
           reductase, beta-ketoacyl synthase, dehydratase; 4.00A
           {Saccharomyces cerevisiae} (A:1221-1330,A:1541-1688)
          Length = 258

 Score = 24.1 bits (52), Expect = 7.1
 Identities = 12/102 (11%), Positives = 33/102 (32%), Gaps = 29/102 (28%)

Query: 32  RGV--CLRVYTVTPKKPNSAL------RKVIKARLTSGVEVIAYVPGEGHNLQEHSVVML 83
           +G+    R +  + K   S        ++ +  R     ++  +V  E   L+       
Sbjct: 4   KGILTTAREHHSSVKYA-SPNLNMKYRKRQLVTREA---QIKDWVENELEALKLE----- 54

Query: 84  CGGRVKDLPG------VKYRVIRGVLDAQGVKNRKQARSRYG 119
                +++P       +  R     +  +     + A+ ++G
Sbjct: 55  ----AEEIPSEDQNEFLLERTRE--IHNEAESQLRAAQQQWG 90


>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase,
           translation termination, ATP-binding, cytoplasm,
           hydrolase, membrane; 2.80A {Schizosaccharomyces pombe}
           (A:1-326)
          Length = 326

 Score = 24.0 bits (51), Expect = 8.1
 Identities = 4/19 (21%), Positives = 10/19 (52%)

Query: 76  QEHSVVMLCGGRVKDLPGV 94
           QE ++ +L     +++ G 
Sbjct: 146 QEKALPLLLSNPPRNMIGQ 164


>1q16_A Respiratory nitrate reductase 1 alpha chain; membrane
           protein, electron-transfer, oxidoreductase; HET: FME MD1
           HEM AGA 3PH; 1.90A {Escherichia coli}
           (A:94-232,A:592-791)
          Length = 339

 Score = 23.7 bits (51), Expect = 8.1
 Identities = 4/36 (11%), Positives = 10/36 (27%), Gaps = 2/36 (5%)

Query: 84  CGGR--VKDLPGVKYRVIRGVLDAQGVKNRKQARSR 117
                 +     +KY ++R  L     + +      
Sbjct: 4   ASYSWYLYSANRLKYPMMRKRLMKMWREAKALHSDP 39


>2e4t_A Endoglucanase, xyloglucanase; TIM barrel, TIM-like barrel,
           composite domain of glycosyl hydrolase families 5, 30,
           39 and 51; 0.96A {Clostridium thermocellum} PDB: 2e0p_A
           2eo7_A* 2ej1_A* 2eex_A* 2eqd_A* (A:1-25,A:413-519)
          Length = 132

 Score = 23.7 bits (51), Expect = 9.1
 Identities = 7/48 (14%), Positives = 14/48 (29%), Gaps = 1/48 (2%)

Query: 59  TSGVEVIAYVPGEGHNLQEHSVVMLCGGRVK-DLPGVKYRVIRGVLDA 105
            +   V A+  G  +  Q   +V +        +P +    I      
Sbjct: 84  YTIGNVWAFDRGSSNITQRTPIVNIKDNTFTYTVPALTACHIVLEAAE 131


  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
   0.320    0.136    0.400 

Gapped
Lambda     K      H
   0.267   0.0581    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 915,798
Number of extensions: 37920
Number of successful extensions: 94
Number of sequences better than 10.0: 1
Number of HSP's gapped: 89
Number of HSP's successfully gapped: 16
Length of query: 124
Length of database: 4,956,049
Length adjustment: 74
Effective length of query: 50
Effective length of database: 2,454,479
Effective search space: 122723950
Effective search space used: 122723950
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 (23.4 bits)