RPS-BLAST 2.2.22 [Sep-27-2009]

Database: scop70_1_75 
           13,730 sequences; 2,407,596 total letters

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

Query= gi|254780584|ref|YP_003064997.1| 50S ribosomal protein L28
[Candidatus Liberibacter asiaticus str. psy62]
         (97 letters)



>d2qamz1 d.325.1.1 (Z:2-78) Ribosomal protein L28 (L28p)
          {Escherichia coli [TaxId: 562]}
          Length = 77

 Score = 76.6 bits (189), Expect = 5e-16
 Identities = 27/75 (36%), Positives = 43/75 (57%), Gaps = 1/75 (1%)

Query: 2  SRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVER 61
          SRVC++T K  ++GN  SHA N T+RRFLPNL       +  ++   LR+S   +R +++
Sbjct: 1  SRVCQVTGKRPVTGNNRSHALNATKRRFLPNLHSHRFWVESEKRFVTLRVSAKGMRVIDK 60

Query: 62 QGGLDRFLSNSKKEN 76
            G+D  L+  +   
Sbjct: 61 -KGIDTVLAELRARG 74


>d2jz6a1 d.325.1.1 (A:6-75) Ribosomal protein L28 (L28p)
          {Thermotoga maritima [TaxId: 2336]}
          Length = 70

 Score = 69.7 bits (171), Expect = 7e-14
 Identities = 20/74 (27%), Positives = 39/74 (52%), Gaps = 5/74 (6%)

Query: 1  MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
          M++ CE+  K   SGN VSH++ K+ R F PNL ++ ++        ++R+    L+S  
Sbjct: 1  MAKRCEVCGKAPRSGNTVSHSDKKSERWFRPNLQKVRVVLPD-GTIKRMRVCTSCLKS-- 57

Query: 61 RQGGLDRFLSNSKK 74
            G + +++    +
Sbjct: 58 --GKVKKYVGQVSE 69


>d2zjru1 d.325.1.1 (U:8-79) Ribosomal protein L28 (L28p)
          {Deinococcus radiodurans [TaxId: 1299]}
          Length = 72

 Score = 58.9 bits (143), Expect = 1e-10
 Identities = 11/63 (17%), Positives = 21/63 (33%), Gaps = 2/63 (3%)

Query: 1  MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
          +        K    G         T+R    NL +  +  +   Q   + +S  ALR++ 
Sbjct: 7  VVNSVIRRGKARADGGVGRKTTGITKRVQRANLHKKAIREN--GQVKTVWLSANALRTLS 64

Query: 61 RQG 63
          +  
Sbjct: 65 KGP 67


>d2j0111 d.325.1.1 (1:8-96) Ribosomal protein L28 (L28p) {Thermus
          thermophilus [TaxId: 274]}
          Length = 89

 Score = 54.0 bits (130), Expect = 3e-09
 Identities = 15/80 (18%), Positives = 29/80 (36%), Gaps = 5/80 (6%)

Query: 1  MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
          ++   +   K    G         ++RR  PNL ++ +      Q+   R++   +  V 
Sbjct: 7  VANSIQRRGKAKREGGVGKKTTGISKRRQYPNLQKVRVRVA--GQEITFRVAASHIPKVY 64

Query: 61 RQGGLDRFLSNSKKENLSAR 80
                + L   K E LS +
Sbjct: 65 ELVERAKGL---KLEGLSPK 81


  Database: scop70_1_75
    Posted date:  Mar 27, 2010  6:21 PM
  Number of letters in database: 2,407,596
  Number of sequences in database:  13,730
  
Lambda     K      H
   0.319    0.128    0.342 

Gapped
Lambda     K      H
   0.267   0.0691    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 300,212
Number of extensions: 11160
Number of successful extensions: 26
Number of sequences better than 10.0: 1
Number of HSP's gapped: 23
Number of HSP's successfully gapped: 5
Length of query: 97
Length of database: 2,407,596
Length adjustment: 59
Effective length of query: 38
Effective length of database: 1,597,526
Effective search space: 60705988
Effective search space used: 60705988
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: 47 (22.0 bits)