RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780647|ref|YP_003065060.1| 50S ribosomal protein L27
[Candidatus Liberibacter asiaticus str. psy62]
         (90 letters)



>2zjr_T 50S ribosomal protein L27; ribosome, large ribosomal
          subunit, ribonucleoprotein, RNA-binding, rRNA-binding,
          tRNA-binding, methylation; 2.91A {Deinococcus
          radiodurans} (T:)
          Length = 91

 Score =  125 bits (315), Expect = 3e-30
 Identities = 45/84 (53%), Positives = 61/84 (72%), Gaps = 1/84 (1%)

Query: 1  MAHKKSGGSTQNGRDSAGQRLGLKKSGGQSVIAGNIIIRQRGTRYHPGLNVGLGKDHTIY 60
          MAHKK  GS++NGRDS  + LG+KK GG+ V AGNI++RQRGT++  G  VG+G+DHT++
Sbjct: 1  MAHKKGVGSSKNGRDSNPKYLGVKKFGGEVVKAGNILVRQRGTKFKAGQGVGMGRDHTLF 60

Query: 61 ALVDGHVRFFKKFSKGRAYVSVIP 84
          AL DG V F  K  KG  ++S+  
Sbjct: 61 ALSDGKVVFINK-GKGARFISIEA 83


>1v8q_A TT0826; structural genomics, proteomics, riken structural
          genomics/proteomics initiative, RSGI, translation;
          2.80A {Thermus thermophilus} (A:)
          Length = 85

 Score =  124 bits (313), Expect = 5e-30
 Identities = 49/84 (58%), Positives = 62/84 (73%), Gaps = 1/84 (1%)

Query: 1  MAHKKSGGSTQNGRDSAGQRLGLKKSGGQSVIAGNIIIRQRGTRYHPGLNVGLGKDHTIY 60
          MAHKK  GST+NGRDS  +RLG+K+  GQ V AGNI++RQRGTR+ PG NVG+G+D T++
Sbjct: 1  MAHKKGLGSTRNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLF 60

Query: 61 ALVDGHVRFFKKFSKGRAYVSVIP 84
          ALVDG V F  +  +   YV V P
Sbjct: 61 ALVDGVVEFQDR-GRLGRYVHVRP 83


>2qam_W 50S ribosomal protein L27; RNA-protein complex, ribosome;
          HET: NMY; 3.21A {Escherichia coli} (W:)
          Length = 84

 Score =  124 bits (312), Expect = 5e-30
 Identities = 48/84 (57%), Positives = 67/84 (79%)

Query: 2  AHKKSGGSTQNGRDSAGQRLGLKKSGGQSVIAGNIIIRQRGTRYHPGLNVGLGKDHTIYA 61
          AHKK+GGST+NGRDS  +RLG+K+ GG+SV+AG+II+RQRGT++H G NVG G+DHT++A
Sbjct: 1  AHKKAGGSTRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFA 60

Query: 62 LVDGHVRFFKKFSKGRAYVSVIPK 85
            DG V+F  K  K R ++S+  +
Sbjct: 61 KADGKVKFEVKGPKNRKFISIEAE 84


>2ftc_O L27MT, MRP-L27, mitochondrial 39S ribosomal protein L27;
          mitochondrial ribosome, large ribosomal subunit,
          ribosomal RNA; 12.10A {Bos taurus} PDB: 3iy9_O (O:)
          Length = 69

 Score =  104 bits (262), Expect = 4e-24
 Identities = 38/69 (55%), Positives = 50/69 (72%), Gaps = 1/69 (1%)

Query: 2  AHKKSGGSTQN-GRDSAGQRLGLKKSGGQSVIAGNIIIRQRGTRYHPGLNVGLGKDHTIY 60
          A KKSGGS++N G  S+G+R G+KK  G  V AGNII  QR  R+HPG +VG+GK+  +Y
Sbjct: 1  ASKKSGGSSKNLGGKSSGRRQGIKKMEGHYVHAGNIIATQRHFRWHPGAHVGVGKNKCLY 60

Query: 61 ALVDGHVRF 69
          AL +G VR+
Sbjct: 61 ALEEGIVRY 69


>3bbo_X Ribosomal protein L27; large ribosomal subunit, spinach
           chloroplast ribosome, ribonucleoprotein particle,
           macromolecular complex; 9.40A {Arabidopsis thaliana}
           (X:)
          Length = 198

 Score = 99.7 bits (248), Expect = 1e-22
 Identities = 49/90 (54%), Positives = 62/90 (68%), Gaps = 1/90 (1%)

Query: 1   MAHKKSGGSTQNGRDSAGQRLGLKKSGGQSVIAGNIIIRQRGTRYHPGLNVGLGKDHTIY 60
            AHKK  GST+NGRDS GQRLG+K  G Q    G II+RQRGT++H G NVG+GKDHTI+
Sbjct: 58  SAHKKGAGSTKNGRDSPGQRLGVKIYGDQVAKPGAIIVRQRGTKFHAGKNVGIGKDHTIF 117

Query: 61  ALVDGHVRFFKKFSKGRAYVSVIPKIEDTQ 90
           +L+DG V+F K     R  +SV P+    +
Sbjct: 118 SLIDGLVKFEKF-GPDRKKISVYPREIVPE 146


>2ogj_A Dihydroorotase; TIM barrel, binuclear zinc, imidazole
          complex, amido hydrolase, structural genomics, PSI-2;
          HET: KCX; 2.62A {Agrobacterium tumefaciens str}
          (A:1-72,A:341-417)
          Length = 149

 Score = 24.4 bits (53), Expect = 5.2
 Identities = 10/18 (55%), Positives = 13/18 (72%)

Query: 47 PGLNVGLGKDHTIYALVD 64
          PGL+VG   D T++ LVD
Sbjct: 71 PGLDVGQRADFTVFDLVD 88


>2gu1_A Zinc peptidase; alpha/beta, beta barrel, structural
          genomics, PSI, protein structure initiative; 1.90A
          {Vibrio cholerae} (A:206-361)
          Length = 156

 Score = 23.9 bits (51), Expect = 7.3
 Identities = 8/42 (19%), Positives = 14/42 (33%)

Query: 41 RGTRYHPGLNVGLGKDHTIYALVDGHVRFFKKFSKGRAYVSV 82
               H G +        +Y+  DG V   +K      Y+ +
Sbjct: 22 GRVVPHNGTDFATPIGAPVYSTGDGKVIVVRKHPYAGNYLVI 63


>1qwy_A Peptidoglycan hydrolase; LYTM lysostaphin metalloprotease
           asparagine switch; 1.30A {Staphylococcus aureus subsp}
           (A:83-291)
          Length = 209

 Score = 23.8 bits (50), Expect = 8.1
 Identities = 10/43 (23%), Positives = 18/43 (41%)

Query: 41  RGTRYHPGLNVGLGKDHTIYALVDGHVRFFKKFSKGRAYVSVI 83
            G   H G++  + ++  +Y+L DG V      + G      I
Sbjct: 98  HGGGAHYGVDYAMPENSPVYSLTDGTVVQAGWSNYGGGNQVTI 140


  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
   0.318    0.137    0.397 

Gapped
Lambda     K      H
   0.267   0.0566    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 674,012
Number of extensions: 24975
Number of successful extensions: 61
Number of sequences better than 10.0: 1
Number of HSP's gapped: 58
Number of HSP's successfully gapped: 11
Length of query: 90
Length of database: 4,956,049
Length adjustment: 52
Effective length of query: 38
Effective length of database: 3,198,189
Effective search space: 121531182
Effective search space used: 121531182
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 (21.7 bits)
S2: 50 (23.4 bits)