RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780259|ref|YP_003064672.1| 50S ribosomal protein L23
[Candidatus Liberibacter asiaticus str. psy62]
         (110 letters)



>d2j01x1 d.12.1.1 (X:3-95) Ribosomal protein L23 {Thermus
           thermophilus [TaxId: 274]}
          Length = 93

 Score = 93.6 bits (233), Expect = 4e-21
 Identities = 40/104 (38%), Positives = 56/104 (53%), Gaps = 13/104 (12%)

Query: 7   YDTIISPVIAEKSTLLAGQNQVVFNVKKDSSKSEIKSAVEALFSVKVVSVNTLIRKGKVK 66
           YD I++PV++EK+     + +  F V   ++K+EIK+AVE  F VKVV VNTL  +GK K
Sbjct: 3   YDVILAPVLSEKAYAGFAEGKYTFWVHPKATKTEIKNAVETAFKVKVVKVNTLHVRGKKK 62

Query: 67  RLSRISAARSRVRSSRDMYVSRKDVKRAFVTLAKGYSIDISAGV 110
           RL R                 R D K+A V +A G  I+   G+
Sbjct: 63  RLGRY-------------LGKRPDRKKAIVQVAPGQKIEALEGL 93


>d2zjrq1 d.12.1.1 (Q:2-94) Ribosomal protein L23 {Deinococcus
           radiodurans [TaxId: 1299]}
          Length = 93

 Score = 92.8 bits (231), Expect = 7e-21
 Identities = 35/103 (33%), Positives = 54/103 (52%), Gaps = 13/103 (12%)

Query: 7   YDTIISPVIAEKSTLLAGQNQVVFNVKKDSSKSEIKSAVEALFSVKVVSVNTLIRKGKVK 66
           YD + +PVI+EK+     +    F V   ++K+EIK A++  F V+V+ ++T+   GK K
Sbjct: 3   YDILQAPVISEKAYSAMERGVYSFWVSPKATKTEIKDAIQQAFGVRVIGISTMNVPGKRK 62

Query: 67  RLSRISAARSRVRSSRDMYVSRKDVKRAFVTLAKGYSIDISAG 109
           R+ R                 R D K+A V LA+G SI+  AG
Sbjct: 63  RVGRF-------------IGQRNDRKKAIVRLAEGQSIEALAG 92


>d2qamt1 d.12.1.1 (T:1-93) Ribosomal protein L23 {Escherichia coli
           [TaxId: 562]}
          Length = 93

 Score = 87.9 bits (218), Expect = 2e-19
 Identities = 37/105 (35%), Positives = 59/105 (56%), Gaps = 14/105 (13%)

Query: 1   MINIRFYDTIISPVIAEKST-LLAGQNQVVFNVKKDSSKSEIKSAVEALFSVKVVSVNTL 59
           +   R    + +P ++EK++  +   N +V  V KD++K+EIK+AV+ LF V+V  VNTL
Sbjct: 2   IREERLLKVLRAPHVSEKASTAMEKSNTIVLKVAKDATKAEIKAAVQKLFEVEVEVVNTL 61

Query: 60  IRKGKVKRLSRISAARSRVRSSRDMYVSRKDVKRAFVTLAKGYSI 104
           + KGKVKR  +                 R D K+A+VTL +G ++
Sbjct: 62  VVKGKVKRHGQR-------------IGRRSDWKKAYVTLKEGQNL 93


>d1vqos1 d.12.1.1 (S:1-81) Ribosomal protein L23 {Archaeon
          Haloarcula marismortui [TaxId: 2238]}
          Length = 81

 Score = 67.4 bits (165), Expect = 3e-13
 Identities = 21/62 (33%), Positives = 30/62 (48%), Gaps = 1/62 (1%)

Query: 7  YDTIISPVIAEKSTLLAG-QNQVVFNVKKDSSKSEIKSAVEALFSVKVVSVNTLIRKGKV 65
          +D I  P + EK+      QN++ F V   +SK E+  AVE  + V V  VNT       
Sbjct: 2  WDVIKHPHVTEKAMNDMDFQNKLQFAVDDRASKGEVADAVEEQYDVTVEQVNTQNTMDGE 61

Query: 66 KR 67
          K+
Sbjct: 62 KK 63


>d2g9hd1 b.40.2.2 (D:4-86) Enterotoxin type I, SEI {Staphylococcus
          aureus [TaxId: 1280]}
          Length = 83

 Score = 28.6 bits (64), Expect = 0.14
 Identities = 12/59 (20%), Positives = 23/59 (38%), Gaps = 3/59 (5%)

Query: 1  MINIRFYDTIISPVIAE--KSTLLAGQNQVVFNVKKDSSKSEIKSAVEA-LFSVKVVSV 56
          + N+R + T    +  +      L   NQ+ F+   +   SE  +  E   F  K + +
Sbjct: 3  VGNLRNFYTKHDYIDLKGLIDKNLPSANQLEFSTGINDLISESNNWDEISKFKGKKLDI 61


>d1iura_ a.2.3.1 (A:) Hypothetical protein KIAA0730 {Human (Homo
          sapiens) [TaxId: 9606]}
          Length = 88

 Score = 28.5 bits (63), Expect = 0.18
 Identities = 9/62 (14%), Positives = 18/62 (29%), Gaps = 2/62 (3%)

Query: 29 VFNVKKDSSKSEIKSAVEALFSVKVVSVNTLIRKGKVKRLSRISAARSRV--RSSRDMYV 86
          V        +SE K  +  L+       N        +    +    +R+  ++  D   
Sbjct: 21 VVEQAWKLPESERKKIIRRLYLKWHPDKNPENHDIANEVFKHLQNEINRLEKQAFLDQNA 80

Query: 87 SR 88
           R
Sbjct: 81 DR 82


>d1usga_ c.93.1.1 (A:) Leucine-binding protein {Escherichia coli
           [TaxId: 562]}
          Length = 346

 Score = 25.5 bits (54), Expect = 1.4
 Identities = 10/36 (27%), Positives = 18/36 (50%)

Query: 7   YDTIISPVIAEKSTLLAGQNQVVFNVKKDSSKSEIK 42
            +T+I P+  ++   L G +  VF    D S ++ K
Sbjct: 311 ANTVIGPLNWDEKGDLKGFDFGVFQWHADGSSTKAK 346


>d1whua_ a.4.9.1 (A:) Polynucleotide phosphorylase/guanosine
           pentaphosphate synthase (PNPase/GPSI), domain 3 {Mouse
           (Mus musculus) [TaxId: 10090]}
          Length = 104

 Score = 24.8 bits (54), Expect = 2.0
 Identities = 13/64 (20%), Positives = 25/64 (39%), Gaps = 3/64 (4%)

Query: 40  EIKSAVEALFSVKVVSVNTLIRKGKVKRLSRISAARSRVRSS---RDMYVSRKDVKRAFV 96
           EI    + +   K+ +V T     KV R   ++  R         +   V + ++  +F 
Sbjct: 17  EIVKYTKIIAMEKLYAVFTDYEHDKVSRDEAVNKIRLDTEEHLKEKFPEVDQFEIIESFN 76

Query: 97  TLAK 100
            +AK
Sbjct: 77  IVAK 80


>d1f7ca_ a.116.1.1 (A:) Graf {Chicken (Gallus gallus) [TaxId: 9031]}
          Length = 191

 Score = 24.0 bits (51), Expect = 3.7
 Identities = 11/63 (17%), Positives = 22/63 (34%), Gaps = 1/63 (1%)

Query: 49  FSVKVVSVNTLIRKG-KVKRLSRISAARSRVRSSRDMYVSRKDVKRAFVTLAKGYSIDIS 107
           FS+    ++ +  +G   + L RI    SRV+    + +  K        +   + I   
Sbjct: 8   FSIIKKCIHAVETRGINEQGLYRIVGVNSRVQKLLSILMDPKTATETETEICAEWEIKTI 67

Query: 108 AGV 110
              
Sbjct: 68  TSA 70


>d1c1ka_ a.120.1.1 (A:) gene 59 helicase assembly protein
           {Bacteriophage T4 [TaxId: 10665]}
          Length = 217

 Score = 23.2 bits (50), Expect = 6.3
 Identities = 9/29 (31%), Positives = 14/29 (48%), Gaps = 1/29 (3%)

Query: 77  RVRSSRDMYVSRKDVKRAFVTLAKGYSID 105
            +R S   Y  R+D K  F  L++ Y + 
Sbjct: 42  CMRVSDAAYQKRRD-KYFFQKLSEKYKLK 69


>d1hkqa_ a.4.5.10 (A:) Replication protein A, repA {Pseudomonas
           syringae pv. savastanoi [TaxId: 29438]}
          Length = 125

 Score = 22.8 bits (49), Expect = 7.1
 Identities = 12/74 (16%), Positives = 22/74 (29%), Gaps = 5/74 (6%)

Query: 30  FNVKKDSSKSEIKSAVEALFSVKVVSVNTLIRKGKVKRLSR-ISAARSRVRSSRDMYVSR 88
           F +    + + +  A   LF+  +        KGKV    R +   + R           
Sbjct: 50  FGIDVKHAYAALDDAATKLFNRDI----RRYVKGKVVERMRWVFHVKYREGQGCVELGFS 105

Query: 89  KDVKRAFVTLAKGY 102
             +      L K +
Sbjct: 106 PTIIPHLTMLHKEF 119


>d1xbla_ a.2.3.1 (A:) DnaJ chaperone, N-terminal (J) domain
          {Escherichia coli [TaxId: 562]}
          Length = 75

 Score = 22.7 bits (48), Expect = 9.6
 Identities = 7/29 (24%), Positives = 12/29 (41%)

Query: 29 VFNVKKDSSKSEIKSAVEALFSVKVVSVN 57
          +  V K + + EI+ A + L        N
Sbjct: 8  ILGVSKTAEEREIRKAYKRLAMKYHPDRN 36


  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
   0.318    0.130    0.329 

Gapped
Lambda     K      H
   0.267   0.0686    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 341,421
Number of extensions: 12796
Number of successful extensions: 54
Number of sequences better than 10.0: 1
Number of HSP's gapped: 48
Number of HSP's successfully gapped: 24
Length of query: 110
Length of database: 2,407,596
Length adjustment: 69
Effective length of query: 41
Effective length of database: 1,460,226
Effective search space: 59869266
Effective search space used: 59869266
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 (21.8 bits)
S2: 47 (22.0 bits)