RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddA 
           21,609 sequences; 6,263,737 total letters

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

Query= gi|254780244|ref|YP_003064657.1| 30S ribosomal protein S5
[Candidatus Liberibacter asiaticus str. psy62]
         (199 letters)



>gnl|CDD|30447 COG0098, RpsE, Ribosomal protein S5 [Translation, ribosomal
           structure and biogenesis].
          Length = 181

 Score =  191 bits (487), Expect = 1e-49
 Identities = 84/177 (47%), Positives = 117/177 (66%)

Query: 3   QKERSQRDNWQNREERDNSIVDRIVAINRVSTALPGGRRFAFSVLVVVGDTKSKVGFAHS 62
                 +     +E   + +++++V INRVS  + GGRRF FS LVVVGD   +VGF   
Sbjct: 5   IATIEFKSGLPIKEPEVDELLEKVVDINRVSKVVKGGRRFRFSALVVVGDRNGRVGFGIG 64

Query: 63  TAREVPEAVRKATEAAKRNMISVSLLDGRTLHHDGVGRHGAGKVIMRSAMAGTGVIAGGA 122
            A+EVPEA+RKA E AK+N+I V   +G T+ H+ +G+HGA KV+++ A  GTG+IAGGA
Sbjct: 65  KAKEVPEAIRKAIEDAKKNIIEVPRGNGHTIPHEVIGKHGAVKVLLKPAPEGTGIIAGGA 124

Query: 123 IRAVCEVLGMHDVVAKSIGSSNPHNVIRATFEVLRSQSHPRDVANRRGIKHSLLQAR 179
           +RAV E+ G+ DV+AKS+GS NP NV+RATF+ L+    P DVA +RG K   +   
Sbjct: 125 VRAVLELAGIKDVLAKSLGSRNPINVVRATFDALKKLRTPEDVAAKRGKKVEDILGA 181


>gnl|CDD|177060 CHL00138, rps5, ribosomal protein S5; Validated.
          Length = 143

 Score =  110 bits (277), Expect = 2e-25
 Identities = 50/141 (35%), Positives = 86/141 (60%), Gaps = 5/141 (3%)

Query: 1   MAQKERSQRDNWQNREERDNSIVDRIVAINRVSTALPGGRRFAFSVLVVVGDTKSKVGFA 60
           M  K+++++ N +      N   +R++ I RVS  + GG++ +F  +VV+G+    VG  
Sbjct: 8   MYNKKKNRKSNIKE-----NKWEERVIQIKRVSKVVKGGKKLSFRAIVVIGNENGWVGVG 62

Query: 61  HSTAREVPEAVRKATEAAKRNMISVSLLDGRTLHHDGVGRHGAGKVIMRSAMAGTGVIAG 120
              A +V  AV+KA   AK+N+I++ L    ++ H+  G  GA KVI+R +  G+GVIAG
Sbjct: 63  VGKADDVQNAVKKAVTDAKKNLITIPLTKSNSIPHNITGIFGAAKVILRPSAPGSGVIAG 122

Query: 121 GAIRAVCEVLGMHDVVAKSIG 141
           G++R V E+ G+ +++AK +G
Sbjct: 123 GSVRIVLELAGIKNILAKQLG 143


>gnl|CDD|146383 pfam03719, Ribosomal_S5_C, Ribosomal protein S5, C-terminal domain.
           
          Length = 74

 Score =  110 bits (277), Expect = 4e-25
 Identities = 39/73 (53%), Positives = 54/73 (73%)

Query: 98  VGRHGAGKVIMRSAMAGTGVIAGGAIRAVCEVLGMHDVVAKSIGSSNPHNVIRATFEVLR 157
            G+ GA KV+++ A  GTG+IAGGA+RAV E+ G+ DV+AKS+GS NP NV++ATF+ L+
Sbjct: 2   TGKFGAVKVLLKPAPPGTGIIAGGAVRAVLELAGIKDVLAKSLGSRNPINVVKATFDALK 61

Query: 158 SQSHPRDVANRRG 170
               P +VA  RG
Sbjct: 62  KLRTPEEVAALRG 74


>gnl|CDD|37857 KOG2646, KOG2646, KOG2646, Ribosomal protein S5 [Translation,
           ribosomal structure and biogenesis].
          Length = 396

 Score = 74.7 bits (183), Expect = 1e-14
 Identities = 42/162 (25%), Positives = 71/162 (43%), Gaps = 3/162 (1%)

Query: 12  WQNREERDNSIVDRIVAINRVSTALPGGRRFAFSVLVVVGDTKSKVGFAHSTARE-VPEA 70
             N  + +   ++  +   RV      G+  +   LVVVG+     G     A +    A
Sbjct: 176 GMNYLDFELRHLE--LVRRRVENQNRKGKIASMYALVVVGNGNGAAGLGEGKAADPNSPA 233

Query: 71  VRKATEAAKRNMISVSLLDGRTLHHDGVGRHGAGKVIMRSAMAGTGVIAGGAIRAVCEVL 130
           + KA   A RN+  +   + RT++ D   R    ++ M+S   G G+     +  +CE  
Sbjct: 234 IYKAIGRAVRNLGYIERYERRTIYGDIDDRFHEVRLDMKSRPDGFGLRCNPILIKICECA 293

Query: 131 GMHDVVAKSIGSSNPHNVIRATFEVLRSQSHPRDVANRRGIK 172
           G+ D+  K  GS N  N+ +A FE L  Q   + +A R+G+ 
Sbjct: 294 GIKDISGKVKGSRNEMNITKAAFEALALQETHQQLAYRKGLH 335


>gnl|CDD|144065 pfam00333, Ribosomal_S5, Ribosomal protein S5, N-terminal domain.
          
          Length = 67

 Score = 71.5 bits (176), Expect = 1e-13
 Identities = 32/64 (50%), Positives = 40/64 (62%)

Query: 24 DRIVAINRVSTALPGGRRFAFSVLVVVGDTKSKVGFAHSTAREVPEAVRKATEAAKRNMI 83
          ++++ INRV     GGRRF+F  LVVVGD    VG     A+EVP A+RKA E AK N+I
Sbjct: 4  EKVLVINRVQKVTKGGRRFSFRALVVVGDKNGHVGLGEGKAKEVPGAIRKAIEDAKLNLI 63

Query: 84 SVSL 87
           V  
Sbjct: 64 EVPR 67


>gnl|CDD|36095 KOG0877, KOG0877, KOG0877, 40S ribosomal protein S2/30S ribosomal
           protein S5 [Translation, ribosomal structure and
           biogenesis].
          Length = 213

 Score = 63.1 bits (153), Expect = 4e-11
 Identities = 35/142 (24%), Positives = 59/142 (41%), Gaps = 8/142 (5%)

Query: 20  NSIVDRIVAINRVSTALPGGRRFAFSVLVVVGDTKSKVGFAHSTAREVPEAVRKATEAAK 79
            S+ D ++ I  V      G+R  F   V +GD    VG     ++EV  A+R A   AK
Sbjct: 49  ASLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDYNGHVGLGVKCSKEVATAIRGAIILAK 108

Query: 80  RNMISVSLLDGR-------TLHHDGVGRHGAGKVIMRSAMAGTGVIAGGAIRAVCEVLGM 132
            +++ V             T+     G  G+  V +  A  GTG+++    + +  + G+
Sbjct: 109 LSIVPVRRGYWGNKIGKPHTVPCKVTGDCGSVLVRLIPAPRGTGIVSAPVPKKLLMMAGI 168

Query: 133 HDVVAKSIGSSNPH-NVIRATF 153
            D    + G +    N  +ATF
Sbjct: 169 DDCYTSARGCTATLGNFAKATF 190


>gnl|CDD|37668 KOG2457, KOG2457, KOG2457, A/G-specific adenine DNA glycosylase
           [Replication, recombination and repair].
          Length = 555

 Score = 27.4 bits (60), Expect = 2.9
 Identities = 12/37 (32%), Positives = 20/37 (54%)

Query: 97  GVGRHGAGKVIMRSAMAGTGVIAGGAIRAVCEVLGMH 133
           GVG++ AG +   +    TG++ G  IR +   L +H
Sbjct: 213 GVGQYTAGAIASIAFNQVTGIVDGNVIRVLSRALAIH 249


>gnl|CDD|145697 pfam02678, Pirin, Pirin.  This family consists of Pirin proteins
           from both eukaryotes and prokaryotes. The function of
           Pirin is unknown but the gene coding for this protein is
           known to be expressed in all tissues in the human body
           although it is expressed most strongly in the liver and
           heart. Pirin is known to be a nuclear protein,
           exclusively localized within the nucleoplasma and
           predominantly concentrated within dot-like subnuclear
           structures. A tomato homologue of human Pirin has been
           found to be induced during programmed cell death. Human
           Pirin interacts with Bcl-3 and NFI and hence is probably
           involved in the regulation of DNA transcription and
           replication. It appears to be an Fe(II)-containing
           member of the Cupin superfamily.
          Length = 107

 Score = 26.5 bits (59), Expect = 5.0
 Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 8/44 (18%)

Query: 80  RNMISVS-LLDGRTLHHDGVGRHG---AGKV-IMRSAMAGTGVI 118
           R   +V+ LL+G   H D +G HG    G V  M    AG G++
Sbjct: 48  RGFETVTYLLEGEIEHRDSLGNHGVIRPGDVQWMT---AGRGIV 88


>gnl|CDD|113202 pfam04421, Mss4, Mss4 protein. 
          Length = 92

 Score = 26.3 bits (58), Expect = 5.4
 Identities = 9/43 (20%), Positives = 15/43 (34%), Gaps = 1/43 (2%)

Query: 1  MAQKERSQRDNWQNREERDNSIVDRIVAINRVSTALP-GGRRF 42
          M QK   + DN       D  +V  + A   V  +      ++
Sbjct: 19 MEQKTMRESDNVGVEPLIDFFLVKDMFAFENVGFSKKVKNLKY 61


>gnl|CDD|32700 COG2873, MET17, O-acetylhomoserine sulfhydrylase [Amino acid
           transport and metabolism].
          Length = 426

 Score = 26.0 bits (57), Expect = 6.9
 Identities = 14/45 (31%), Positives = 23/45 (51%), Gaps = 2/45 (4%)

Query: 44  FSVLVVVGDTKSKVGF-AHSTAREVPEAVRKATEAAKRNMISVSL 87
           FS L  +GD +S V   A +T R++ E  + A       +I +S+
Sbjct: 364 FSHLANIGDARSLVIHPASTTHRQLSEEEQAAAGVTPD-LIRLSV 407


  Database: CddA
    Posted date:  Feb 4, 2011  9:38 PM
  Number of letters in database: 6,263,737
  Number of sequences in database:  21,609
  
Lambda     K      H
   0.316    0.129    0.359 

Gapped
Lambda     K      H
   0.267   0.0636    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 2,173,701
Number of extensions: 107492
Number of successful extensions: 363
Number of sequences better than 10.0: 1
Number of HSP's gapped: 362
Number of HSP's successfully gapped: 20
Length of query: 199
Length of database: 6,263,737
Length adjustment: 89
Effective length of query: 110
Effective length of database: 4,340,536
Effective search space: 477458960
Effective search space used: 477458960
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: 55 (25.2 bits)