RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddB 
           21,608 sequences; 5,994,473 total letters

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

Query= gi|254780862|ref|YP_003065275.1| NADH dehydrogenase subunit J
[Candidatus Liberibacter asiaticus str. psy62]
         (199 letters)



>gnl|CDD|180642 PRK06638, PRK06638, NADH:ubiquinone oxidoreductase subunit J;
           Provisional.
          Length = 198

 Score =  166 bits (422), Expect = 4e-42
 Identities = 74/199 (37%), Positives = 124/199 (62%), Gaps = 3/199 (1%)

Query: 1   MVMQSLFFYLFSFMAIISSFLVVTVRNPIYSVFSLIFAFVNAAGLFLLLGAEFVAMITLV 60
           M  +++ FY+ + +A++++  VVT RNP++S   LI  F++ AGL+ LLGAEF+ ++ ++
Sbjct: 1   MTGEAIAFYILALLAVLAALGVVTSRNPVHSALFLILTFLSIAGLYFLLGAEFLGVVQII 60

Query: 61  VYVGAVIVFFLFIIMMLDIDIEVAEPRKKRGFLGSFFIG--ILAAELIVCASNFMVFSAE 118
           VYVGAV+V FLF++MMLD+D    E + +    G   IG  IL   L++     ++ ++ 
Sbjct: 61  VYVGAVMVLFLFVVMMLDVDFSERE-QLREWLPGGVLIGLVILLGLLLLLIVGAIIAASG 119

Query: 119 GELSRLVFKGNNVENIGKVLYTQYAYPLEISGFILLLSMIGAIVLMLRHRRDIKRQDISK 178
                +     N + IG +L+T Y  P E++  +LL++M+GAIVL  R R  +KRQD+  
Sbjct: 120 VNAQGIAAGEGNTKAIGILLFTDYLLPFELASVLLLVAMVGAIVLARRERARVKRQDVPA 179

Query: 179 QLESNPDNSIVMVKVKSGK 197
           QL    ++++ +VKV+ GK
Sbjct: 180 QLPDGREDALSVVKVEEGK 198


>gnl|CDD|180562 PRK06433, PRK06433, NADH dehydrogenase subunit J; Provisional.
          Length = 88

 Score = 61.5 bits (150), Expect = 1e-10
 Identities = 26/85 (30%), Positives = 48/85 (56%)

Query: 1  MVMQSLFFYLFSFMAIISSFLVVTVRNPIYSVFSLIFAFVNAAGLFLLLGAEFVAMITLV 60
          M+ +++ F LF+ + +  S  VV  R+  +S   L  A  + A L+++L AEF+A + ++
Sbjct: 1  MMYETIAFALFALVTVAFSLGVVLSRDVWHSALYLGVALFSVAVLYVMLNAEFLAAVQVL 60

Query: 61 VYVGAVIVFFLFIIMMLDIDIEVAE 85
          VYVGAV++   F +M+   +     
Sbjct: 61 VYVGAVLILITFAVMLTKGEEGEES 85


>gnl|CDD|183161 PRK11492, hyfE, hydrogenase 4 membrane subunit; Provisional.
          Length = 216

 Score = 29.9 bits (68), Expect = 0.49
 Identities = 27/109 (24%), Positives = 42/109 (38%), Gaps = 20/109 (18%)

Query: 16  IISSFLVVTVRNPIYSVFSLIFAFVNAAGLFLLLGAEF----------VAMITLVVYVGA 65
           I++S LV++VR+   S        +    +FL L   F           A IT V+ V  
Sbjct: 15  ILTSLLVISVRSYRLSAGFYALQSLVLVSIFLTLSCLFAAEELLIWSITAFITKVLLVPL 74

Query: 66  VIVFFLFIIMMLDIDIEVAEPRKKRGFLGSFFIGILAAELIVCASNFMV 114
           ++    +    L  +IE          +    + IL A LIV    F+V
Sbjct: 75  IM---TYAARKLGDNIEE-------EPVFGPAMSILLAALIVLLCAFVV 113


>gnl|CDD|184993 PRK15033, PRK15033, tricarballylate utilization protein B;
           Provisional.
          Length = 389

 Score = 29.6 bits (67), Expect = 0.57
 Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 1/40 (2%)

Query: 33  FSLIFAFVNAAGLFLLLGAEFVAM-ITLVVYVGAVIVFFL 71
           F  +    +A+GL LL G +  AM + L +++G V+  FL
Sbjct: 315 FIALLFLTSASGLALLAGRDTSAMALLLALHLGVVMALFL 354


>gnl|CDD|179608 PRK03612, PRK03612, spermidine synthase; Provisional.
          Length = 521

 Score = 28.7 bits (65), Expect = 0.93
 Identities = 10/39 (25%), Positives = 17/39 (43%), Gaps = 3/39 (7%)

Query: 34  SLIFAFVNAAGLFLLLGAEFVAMITLVVYVGAVIVFFLF 72
            L F F+    L L+  A     + L+    A++  +LF
Sbjct: 162 GLAFPFLLLPRLGLIRTAALTGSLNLLA---ALVFLWLF 197


>gnl|CDD|148040 pfam06197, DUF998, Protein of unknown function (DUF998).  Family of
           conserved archaeal proteins.
          Length = 146

 Score = 28.4 bits (64), Expect = 1.2
 Identities = 21/121 (17%), Positives = 43/121 (35%), Gaps = 7/121 (5%)

Query: 6   LFFYLFSFMAIISSFLVVTVRNPIYSVFSLIFAFVNAAGLFLLLGAEFVAMITLVVYVGA 65
               L   + ++ + L+      +  +  +  A +  AG+FL L   F           A
Sbjct: 27  TGLILTGLLVLLYALLL------LRKIERVGAALLILAGVFLALVGIFPEGTGYPHLFVA 80

Query: 66  VIVFFLFIIMMLDIDIEVAEPRKKRGFLGSFF-IGILAAELIVCASNFMVFSAEGELSRL 124
           ++ F L  I +L + I +    + + F      + + +  L +         A  EL  +
Sbjct: 81  LLFFLLGFIAVLILGIGLLLSGRFKKFGILIGALALASLFLFIGGLKTWPGLAIPELEGI 140

Query: 125 V 125
           V
Sbjct: 141 V 141


>gnl|CDD|182669 PRK10714, PRK10714, undecaprenyl phosphate
           4-deoxy-4-formamido-L-arabinose transferase;
           Provisional.
          Length = 325

 Score = 27.0 bits (60), Expect = 3.1
 Identities = 16/62 (25%), Positives = 29/62 (46%)

Query: 3   MQSLFFYLFSFMAIISSFLVVTVRNPIYSVFSLIFAFVNAAGLFLLLGAEFVAMITLVVY 62
           + SL   + +      + L+V +R      ++    F+  A LF  +GA+F+ M  L  Y
Sbjct: 233 LLSLLGSIIAIGGFSLAVLLVVLRLTFGPQWAAEGVFMLFAVLFTFIGAQFIGMGLLGEY 292

Query: 63  VG 64
           +G
Sbjct: 293 IG 294


>gnl|CDD|183647 PRK12647, PRK12647, putative monovalent cation/H+ antiporter
           subunit A; Reviewed.
          Length = 761

 Score = 26.8 bits (60), Expect = 3.5
 Identities = 16/60 (26%), Positives = 31/60 (51%), Gaps = 2/60 (3%)

Query: 13  FMAIISSFLVVTVRNPIYSVFSL-IFAFVNAAGLFLLLGAEFVAMITLVVYVGAVIVFFL 71
            + +  +   VT R+ + ++ SL +  F   A +F+L GA  +AM   ++   +VI+  L
Sbjct: 594 LIIVAGALATVTTRSRLTAIVSLGVQGF-AVALIFILFGAPDLAMTQFLIETLSVILLVL 652


>gnl|CDD|182070 PRK09776, PRK09776, putative diguanylate cyclase; Provisional.
          Length = 1092

 Score = 26.9 bits (60), Expect = 3.7
 Identities = 16/79 (20%), Positives = 28/79 (35%), Gaps = 6/79 (7%)

Query: 5   SLFFYLFSFMAIISSFLVVTVRNPIYSVFSLIF------AFVNAAGLFLLLGAEFVAMIT 58
           +L +  + F  II   +   VR P    F +        + + AA   LL       M  
Sbjct: 189 ALLYLPWPFTFIIVLLMWSAVRLPRMEAFLIFLTTVMMVSLMMAADPSLLATPRTYLMSH 248

Query: 59  LVVYVGAVIVFFLFIIMML 77
           +      +I+    I+ M+
Sbjct: 249 MPWLPFLLILLPANIMTMV 267


>gnl|CDD|180520 PRK06299, rpsA, 30S ribosomal protein S1; Reviewed.
          Length = 565

 Score = 25.5 bits (57), Expect = 8.3
 Identities = 17/57 (29%), Positives = 25/57 (43%), Gaps = 18/57 (31%)

Query: 157 MIGAIVLMLRHRRDIKRQDIS---KQLESNP---------DNSIVMVKVKS--GKGI 199
            + A+VL +    D++++ IS   KQLE +P           SIV   V     KG 
Sbjct: 424 EVEAVVLKV----DVEKERISLGIKQLEEDPFEEFAKKHKKGSIVTGTVTEVKDKGA 476


>gnl|CDD|129983 TIGR00905, 2A0302, transporter, basic amino acid/polyamine
           antiporter (APA) family.  This family includes several
           families of antiporters that, rather commonly, are
           encoded next to decarboxylases that convert one of the
           antiporter substrates into the other. This arrangement
           allows a cycle that can remove proteins from the
           cytoplasm and thereby protect against acidic conditions.
          Length = 473

 Score = 25.8 bits (57), Expect = 8.8
 Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 6/44 (13%)

Query: 31  SVFSLIFAFVNAAGLFLLLGAEFVAMITLVVYVGAVIVFFLFII 74
           SV   +F F+       L G    A I  +  +  +I  FLFII
Sbjct: 134 SVLLWVFTFLV------LRGVRQAAFINTITTIAKLIPLFLFII 171


>gnl|CDD|181860 PRK09440, avtA, valine--pyruvate transaminase; Provisional.
          Length = 416

 Score = 25.6 bits (57), Expect = 9.7
 Identities = 8/12 (66%), Positives = 9/12 (75%)

Query: 4   QSLFFYLFSFMA 15
           QS FFYLF+  A
Sbjct: 107 QSAFFYLFNLFA 118


  Database: CddB
    Posted date:  Feb 4, 2011  9:54 PM
  Number of letters in database: 5,994,473
  Number of sequences in database:  21,608
  
Lambda     K      H
   0.333    0.147    0.408 

Gapped
Lambda     K      H
   0.267   0.0734    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 3,248,675
Number of extensions: 216602
Number of successful extensions: 1033
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1013
Number of HSP's successfully gapped: 162
Length of query: 199
Length of database: 5,994,473
Length adjustment: 89
Effective length of query: 110
Effective length of database: 4,071,361
Effective search space: 447849710
Effective search space used: 447849710
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (22.0 bits)
S2: 55 (25.0 bits)