RPS-BLAST 2.2.22 [Sep-27-2009]

Database: pdb70 
           24,244 sequences; 5,693,230 total letters

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

Query= gi|254780418|ref|YP_003064831.1| 50S ribosomal protein
L25/general stress protein Ctc [Candidatus Liberibacter asiaticus str.
psy62]
         (191 letters)



>1feu_A 50S ribosomal protein L25; general stress protein CTC, 5S
           rRNA-protein complex, cadmium IONS, ribosome; 2.30A
           {Thermus thermophilus} SCOP: b.53.1.1 PDB: 2j01_Z 1vsp_T
           2hgj_Y 2hgq_Y 2hgu_Y 1vsa_T 2j03_Z 2jl6_Z 2jl8_Z 2v47_Z
           2v49_Z 2wdi_Z 2wdj_Z 2wdl_Z 2wdn_Z 2wh2_Z 2wh4_Z 2wrj_Z
           2wrl_Z 2wro_Z ...
          Length = 206

 Score =  155 bits (394), Expect = 4e-39
 Identities = 46/183 (25%), Positives = 82/183 (44%), Gaps = 7/183 (3%)

Query: 5   ECKLSAVMRDKVGKGSARLLRKNGQIPAIIYGNMSDPKPIALSAKDISKRLYSKNFMTTI 64
           E +L A  R+     +   LR+ G++P ++Y      + + +   +  K     +    I
Sbjct: 2   EYRLKAYYREGEKPSA---LRRAGKLPGLMYNR-HLNRKVYVDLVEFDKVFRQASIHHVI 57

Query: 65  LTLDIGKELVHVIPKDYQLDPVSDILIHADFLQVSEGSTVTVHVPVRFINENKSPGIKQG 124
           +      + +  + +   LD       H DF  V     V ++VP+RF+      G++ G
Sbjct: 58  VLELPDGQSLPTLVRQVNLDKRRRRPEHVDF-FVLSDEPVEMYVPLRFVGTP--AGVRAG 114

Query: 125 GKLNVVCHEVSLLCPANNIPDSITVDLNDLKIGDSIHMEDIRLPEKTSSMSQLNITIATI 184
           G L  +  ++ +     NIP+ I VD++ L+IGDS+H  D++LP           TIA +
Sbjct: 115 GVLQEIHRDILVKVSPRNIPEFIEVDVSGLEIGDSLHASDLKLPPGVELAVSPEETIAAV 174

Query: 185 VAP 187
           V P
Sbjct: 175 VPP 177


>2zjr_S 50S ribosomal protein L25; ribosome, large ribosomal subunit,
           ribonucleoprotein, RNA-binding, rRNA-binding,
           tRNA-binding, methylation; 2.91A {Deinococcus
           radiodurans} SCOP: b.53.1.1 PDB: 1njm_T* 1nwx_T* 1njp_T*
           1xbp_T* 2zjp_S* 2zjq_S 1nwy_T 3cf5_S* 3dll_S* 1nkw_T
           1sm1_T* 1yl3_V 2b66_Z 2b9n_Z 2b9p_Z 1pnu_T 1pny_T 1vor_W
           1vou_W 1vow_W ...
          Length = 237

 Score =  116 bits (291), Expect = 4e-27
 Identities = 44/174 (25%), Positives = 72/174 (41%), Gaps = 4/174 (2%)

Query: 15  KVGKGSARLLRKNGQIPAIIYGNMSDPKPIALSAKDISKRLYSKNFMTTILTLDIGKELV 74
                + +       I A+ Y    +    AL  K   +    ++          G E  
Sbjct: 4   TAKPRTPKQKLDESMIAAVAYNKE-NNVSFALDRKAFDRAFRQQSTTGLFDITVEGGETF 62

Query: 75  HVIPKDYQLDPVSDILIHADFLQVSEGSTVTVHVPVRFINENKSPGIKQGGKLNVVCHEV 134
             + K  Q+D      IH DF  V+ G  V V VPV     +   G  QGG +++V H +
Sbjct: 63  PALVKAVQMDKRKRAPIHVDFYMVTYGEPVEVSVPVHTTGRS--QGEVQGGLVDIVVHNL 120

Query: 135 SLLCPA-NNIPDSITVDLNDLKIGDSIHMEDIRLPEKTSSMSQLNITIATIVAP 187
            ++ P    IP  + VD+  + IGD I   DI+LPE  +  +   +T+ +++ P
Sbjct: 121 QIVAPGPRRIPQELVVDVTKMNIGDHITAGDIKLPEGCTLAADPELTVVSVLPP 174


>1b75_A Protein (50S ribosomal protein L25); RNA-binding protein; NMR
          {Escherichia coli} SCOP: b.53.1.1 PDB: 1d6k_A 1dfu_P
          1giy_V 1ml5_v* 1p85_T 1p86_T 1vs6_V 1vs8_V 2aw4_V
          2awb_V 2gya_T 2gyc_T 2i2t_V 2i2v_V 2j28_V 2qam_V*
          2qao_V* 2qba_V* 2qbc_V* 2qbe_V ...
          Length = 94

 Score = 95.8 bits (238), Expect = 5e-21
 Identities = 28/91 (30%), Positives = 45/91 (49%)

Query: 7  KLSAVMRDKVGKGSARLLRKNGQIPAIIYGNMSDPKPIALSAKDISKRLYSKNFMTTILT 66
           ++A +R + GKG++R LR   + PAIIYG    P  I L    +        F + +LT
Sbjct: 3  TINAEVRKEQGKGASRRLRAANKFPAIIYGGKEAPLAIELDHDKVMNMQAKAEFYSEVLT 62

Query: 67 LDIGKELVHVIPKDYQLDPVSDILIHADFLQ 97
          + +  + + V  +D Q  P    L H DF++
Sbjct: 63 IVVDGKEIKVKAQDVQRHPYKPKLQHIDFVR 93


>3ic8_A Uncharacterized GST-like proteinprotein; glutathione, transferase,
           PSI, MCSG, structural genomics; 2.40A {Pseudomonas
           syringae PV}
          Length = 310

 Score = 31.1 bits (69), Expect = 0.16
 Identities = 9/46 (19%), Positives = 16/46 (34%), Gaps = 6/46 (13%)

Query: 72  ELVHVIPKDYQLDPVSDILIHADFLQVS------EGSTVTVHVPVR 111
           + V +   DY ++ V   L+     ++           V VH P  
Sbjct: 258 DKVAIAAVDYGVEAVEGELMFTGREELILRREDNRAGVVHVHFPRL 303


>3dmk_A DOWN syndrome cell adhesion molecule (dscam) isoform 1.30.30,
           N-terminal eight IG...; IG domains, immunoglobulin
           domain; HET: NAG NDG; 4.19A {Drosophila melanogaster}
          Length = 816

 Score = 27.6 bits (59), Expect = 2.0
 Identities = 10/30 (33%), Positives = 13/30 (43%)

Query: 103 TVTVHVPVRFINENKSPGIKQGGKLNVVCH 132
            + V+VP R+I E       QG    V C 
Sbjct: 708 PLNVYVPPRWILEPTDKAFAQGSDAKVECK 737


>3b43_A Titin; I-SET IG fold, extended poly-IG filament, elastic filament,
           structural protein; 3.30A {Oryctolagus cuniculus}
          Length = 570

 Score = 26.9 bits (57), Expect = 3.4
 Identities = 12/79 (15%), Positives = 23/79 (29%), Gaps = 8/79 (10%)

Query: 103 TVTVHVPVRFINENKSPGIKQGGKLNVVCHEVSLLCPANNIPD-SITVDLNDLKIGDSIH 161
           ++T+  P RF+ +        G        EV L          S+    +  +I     
Sbjct: 471 SITLKAPPRFVKKLSDISTVVG-------EEVQLQATIEGAEPISVAWFKDKGEIVRESD 523

Query: 162 MEDIRLPEKTSSMSQLNIT 180
              I   E  +++      
Sbjct: 524 NIWISYSENIATLQFSRAE 542


>2o8s_A AGR_C_984P; all alpha-helical protein, structural genomics, PSI-2,
           protein structure initiative; 2.40A {Agrobacterium
           tumefaciens str} SCOP: a.295.1.1
          Length = 323

 Score = 26.8 bits (59), Expect = 3.5
 Identities = 10/34 (29%), Positives = 16/34 (47%), Gaps = 2/34 (5%)

Query: 38  MSDPK--PIALSAKDISKRLYSKNFMTTILTLDI 69
           M+D +    AL A  +    Y+K F+  +LT   
Sbjct: 102 MADTRLYNYALKAHGLEDMAYAKAFIRKVLTEGA 135


>1gr0_A MYO-inositol-1-phosphate synthase; oxidoreductase, PSI, protein
           structure initiative, TB structural genomics consortium,
           TB, TBSGC; HET: NAD; 1.95A {Mycobacterium tuberculosis}
           SCOP: c.2.1.3 d.81.1.3
          Length = 367

 Score = 26.7 bits (59), Expect = 3.8
 Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 7/52 (13%)

Query: 37  NMSDPKPIALSAKDISKRLYSKNFMTTILTLDIGKELVHVIPKDYQLDPVSD 88
           NM + +   L +K ISK       +T+ L  +   + VH+ P D+ +  + D
Sbjct: 238 NMLERE--RLESKKISK----TQAVTSNLKREFKTKDVHIGPSDH-VGWLDD 282


  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
   0.317    0.135    0.379 

Gapped
Lambda     K      H
   0.267   0.0449    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,575,128
Number of extensions: 70474
Number of successful extensions: 243
Number of sequences better than 10.0: 1
Number of HSP's gapped: 237
Number of HSP's successfully gapped: 13
Length of query: 191
Length of database: 5,693,230
Length adjustment: 87
Effective length of query: 104
Effective length of database: 3,584,002
Effective search space: 372736208
Effective search space used: 372736208
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 (21.6 bits)
S2: 54 (25.3 bits)