RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780367|ref|YP_003064780.1| ribonuclease protein
[Candidatus Liberibacter asiaticus str. psy62]
         (281 letters)



>gnl|CDD|129848 TIGR00765, yihY_not_rbn, YihY family protein (not ribonuclease BN).
            Members of this subfamily include the largely
           uncharacterized BrkB (Bordetella resist killing by serum
           B) from Bordetella pertussis. Some members have an
           additional C-terminal domain. Paralogs from E. coli
           (yhjD) and Mycobactrium tuberculosis (Rv3335c) are part
           of a smaller, related subfamily that form their own
           cluster.
          Length = 259

 Score = 72.0 bits (177), Expect = 2e-13
 Identities = 51/256 (19%), Positives = 107/256 (41%), Gaps = 9/256 (3%)

Query: 18  HFVEEDGWAMASHISLSALLSVFPFIVFGANLAGFLGAHQ-FVPTVIDVVFGAWPEVIAK 76
            F E++ +  A  ++   LLS+ P +    +L       Q     + + +F  +   +  
Sbjct: 9   RFDEDELFQYAGSLAFYTLLSLVPLLAVMFSLFAAFPVFQDVSGELEEFIFPNFAPSLGD 68

Query: 77  PITDEILQVLAVPAKGLFTISALAAAYFSSNGVEALRISLNRAYRVVEMRSWYITRLISF 136
            I D I Q +   +  L  +  ++    +   +  +  +LN+ +RV   RS   +  I +
Sbjct: 69  MIKDYIEQFVK-NSNKLTAVGIVSLIVTALLLINNIDSTLNKIWRVKPRRSAIFSFAIYW 127

Query: 137 GYVLLASVTLVIMSFVFVAIPLALAYVRKFFPALGNLLLIIWNGRIYATMLALFIGLIFV 196
             + L  +       V V++ ++   +     A    L +         +L  +I    +
Sbjct: 128 TILTLGPL------LVGVSLAISSVVI-FDVFAQSFFLSVNAALLSVVPLLFTWIFFWLL 180

Query: 197 HLFLPAAKSKIMSILPGVIFTWISWVVGAVLFTHYIVTFSTYSTMYAGLASIMTCLVFLY 256
           +  +P  K K      G  F  + + +   LFT Y+ TF+TY  +Y  LA +   ++++Y
Sbjct: 181 YTIVPNKKVKHRHAFVGAFFAAVLFELAKWLFTFYVSTFATYQLIYGALAVLPFLMLWVY 240

Query: 257 MLGVFFILGAELNASM 272
           +  +  +LGAE+ +S+
Sbjct: 241 LSWLVVLLGAEITSSL 256


>gnl|CDD|179791 PRK04214, rbn, ribonuclease BN/unknown domain fusion protein;
           Reviewed.
          Length = 412

 Score = 48.2 bits (115), Expect = 2e-06
 Identities = 45/167 (26%), Positives = 73/167 (43%), Gaps = 9/167 (5%)

Query: 115 SLNRAYRVVEMRSWYITRLISFGYVLLASVTLVIMSFVFVAIPLALAYVRKFFPALGNLL 174
           + NR +RV   R W +TR + +  VL     L+  S  F A   AL  +    P     L
Sbjct: 123 TFNRIWRVNSARPW-LTRFLVYWTVLTLGPLLLGASIAFSAGVFALPLLATTAPQWLAEL 181

Query: 175 LIIWNGRIYATMLALFIGLIFVHLFLPAAKSKIMSILPGVIFTWISWVVGAVLFTHYIVT 234
                    A +    + L  ++  +P     +   LPG + T +   +    F  Y+  
Sbjct: 182 ------ARLAPLAFETVCLTLLYRVVPNHFVPLRHALPGALLTAVLLELVKWGFGFYLGN 235

Query: 235 FSTYSTMYAGLASIMTCLVFLYMLGVFFILGAELNASMIIYYWRKKP 281
           F TY  +Y   A++   L+++Y+L V  +LGA L +S+   YWR +P
Sbjct: 236 FQTYQRIYGAFAAVPILLLWIYLLWVLVLLGASLTSSL--SYWRGQP 280


>gnl|CDD|179313 PRK01637, PRK01637, hypothetical protein; Reviewed.
          Length = 286

 Score = 36.0 bits (84), Expect = 0.012
 Identities = 36/163 (22%), Positives = 67/163 (41%), Gaps = 16/163 (9%)

Query: 115 SLNRAYRVVEMRSWYIT-----RLISFGYVLLASVTLVIMSFVFVAIPLALAYVRKFFPA 169
           +LN  +R    R    +      +++ G  LLA  +L I S++        + +      
Sbjct: 115 ALNTIWRSKRKRPKVYSFAVYWMILTLG-PLLAGASLAISSYLLSLRWFEASDLSGVIDN 173

Query: 170 LGNLLLIIWNGRIYATMLALFIGLIFVHLFLPAAKSKIMSILPGVIFTWISWVVGAVLFT 229
           L  +L           +L  ++    ++  +P  K      L G +   + + +G   F 
Sbjct: 174 LLRIL----------PLLLSWLSFWLLYSVVPNKKVPFRHALVGALVAALLFELGKKGFA 223

Query: 230 HYIVTFSTYSTMYAGLASIMTCLVFLYMLGVFFILGAELNASM 272
            YI TF +Y  +Y  LA I    V++Y+     +LGAE+ A++
Sbjct: 224 LYITTFPSYQLIYGALAVIPILFVWVYLSWCIVLLGAEITATL 266


>gnl|CDD|179881 PRK04813, PRK04813, D-alanine--poly(phosphoribitol) ligase
          subunit 1; Provisional.
          Length = 503

 Score = 30.6 bits (70), Expect = 0.45
 Identities = 19/48 (39%), Positives = 24/48 (50%), Gaps = 10/48 (20%)

Query: 26 AMASHISLSALLSVFPFIVFGAN----LAGFLGA----HQFVPTVIDV 65
          A+A+ I    L    P IVFG      LA FLGA    H ++P  +DV
Sbjct: 39 ALAAFIDSLKLPDKSPIIVFGHMSPEMLATFLGAVKAGHAYIP--VDV 84


>gnl|CDD|177570 PHA03261, PHA03261, Capsid triplex subunit 1; Provisional.
          Length = 469

 Score = 30.4 bits (69), Expect = 0.57
 Identities = 18/51 (35%), Positives = 21/51 (41%), Gaps = 4/51 (7%)

Query: 94  FTISALAAAYFSSNGVEALRISLNRAYRVVEMRSWYITRLISFGYVLLASV 144
           F ++A AA Y      EALR  +   Y    M      RL  FG  L A V
Sbjct: 192 FLVAARAAEYRDKCAAEALRAHVIANYGDRRME----ARLDRFGECLQAMV 238


>gnl|CDD|162113 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger. 
          Length = 1096

 Score = 29.6 bits (66), Expect = 1.1
 Identities = 38/125 (30%), Positives = 57/125 (45%), Gaps = 19/125 (15%)

Query: 149 MSFVFVAIPLALAYVRKFFPALGNLL--LIIWNGRIYATMLA-------LFIGLIFVHLF 199
           M +VFVA  LA+     F PALG +   L I      AT +A       LF  LI V  F
Sbjct: 464 MMYVFVA--LAIVCDEYFVPALGVITDKLQISEDVAGATFMAAGGSAPELFTSLIGV--F 519

Query: 200 LPAAKSKIMSILPGVIFTWISWVVGA-VLFTHYIVTFSTYSTMYAGLASIMTCLVFLYML 258
           +  +   I +I+   +F  I +V+G   LF+  I+      T +     +   ++ L ML
Sbjct: 520 ISHSNVGIGTIVGSAVFN-ILFVIGTCALFSREILNL----TWWPLFRDVSFYILDLMML 574

Query: 259 GVFFI 263
            +FF+
Sbjct: 575 ILFFL 579


>gnl|CDD|180293 PRK05857, PRK05857, acyl-CoA synthetase; Validated.
          Length = 540

 Score = 28.4 bits (63), Expect = 1.8
 Identities = 20/59 (33%), Positives = 27/59 (45%), Gaps = 18/59 (30%)

Query: 218 WISWVVGAVLFTHYIVTFSTYSTMYA----GLASIMTCLVFLYMLGVFFILGAELNASM 272
           W++WVVG           +TYS + A    GL  I+TCL    M G   + G E   S+
Sbjct: 208 WVTWVVGE----------TTYSPLPATHIGGLWWILTCL----MHGGLCVTGGENTTSL 252


>gnl|CDD|172503 PRK14002, PRK14002, potassium-transporting ATPase subunit C;
           Provisional.
          Length = 186

 Score = 28.5 bits (64), Expect = 2.0
 Identities = 14/40 (35%), Positives = 18/40 (45%)

Query: 144 VTLVIMSFVFVAIPLALAYVRKFFPALGNLLLIIWNGRIY 183
           +TLV   F  V   LAL    +  P  GN   I  NG++ 
Sbjct: 10  LTLVFCVFFSVFYILALWGFAQLAPNKGNGETITLNGKVV 49


>gnl|CDD|107029 PHA01351, PHA01351, putative minor structural protein.
          Length = 1070

 Score = 28.4 bits (63), Expect = 2.3
 Identities = 15/54 (27%), Positives = 20/54 (37%), Gaps = 1/54 (1%)

Query: 162 YVRKFFPALGNLLLIIWNGRIYA-TMLALFIGLIFVHLFLPAAKSKIMSILPGV 214
            +  F    G  +  I N        L+ FI  I +  FLP    K+  ILP  
Sbjct: 142 VISDFLNFFGANMKHISNAISQLSQFLSPFIAPITIGKFLPVIVDKLAEILPEF 195


>gnl|CDD|180646 PRK06654, fliL, flagellar basal body-associated protein FliL;
           Reviewed.
          Length = 181

 Score = 27.8 bits (62), Expect = 3.0
 Identities = 13/49 (26%), Positives = 22/49 (44%), Gaps = 3/49 (6%)

Query: 202 AAKSKIMSILPGVIFTWISWV---VGAVLFTHYIVTFSTYSTMYAGLAS 247
           A   + + +LP VI   + WV   + AV+F   +V F +   +    A 
Sbjct: 17  APDGRKVGLLPDVIIKILQWVAIGLFAVIFIVTVVYFVSKMVVSQSGAP 65


>gnl|CDD|106738 PRK13797, PRK13797, putative bifunctional allantoicase/OHCU
           decarboxylase; Provisional.
          Length = 516

 Score = 27.6 bits (61), Expect = 3.7
 Identities = 22/74 (29%), Positives = 34/74 (45%), Gaps = 10/74 (13%)

Query: 44  VFGANLAGFLGAHQFVPTVIDVVFGA--WPEVIAK-PITDEILQVLAVPAKGLFTISALA 100
           + GA LAG+       P+  DV   +  W E++ + PI  + + VL V + G   I+ L 
Sbjct: 103 IHGATLAGY-------PSAEDVADDSVHWVELVPRTPIAADAVNVLPVASSGRLRITHLR 155

Query: 101 AAYFSSNGVEALRI 114
                  GV  LR+
Sbjct: 156 LTIHPDGGVARLRV 169


>gnl|CDD|162661 TIGR02016, BchX, chlorophyllide reductase iron protein subunit X.
           This model represents the X subunit of the three-subunit
           enzyme, (bacterio)chlorophyllide reductase. This enzyme
           is responsible for the reduction of the chlorin B-ring
           and is closely related to the protochlorophyllide
           reductase complex which reduces the D-ring. Both of
           these complexes in turn are homologous to nitrogenase.
           This subunit is homologous to the nitrogenase component
           II, or "iron" protein.
          Length = 296

 Score = 26.7 bits (59), Expect = 6.1
 Identities = 21/86 (24%), Positives = 40/86 (46%), Gaps = 10/86 (11%)

Query: 43  IVFGANLAGFLGAHQFVPTVI------DVVFGAWPEVIAKPITDEILQVLAVPAKGLFTI 96
           I+ G +L   LG H +    +      DVV G +   +A+ + +E++ + +   + L+  
Sbjct: 106 IIHGFDLLEKLGFHDWDFDFVLMDFLGDVVCGGFATPLARSLAEEVIVIGSNDRQSLYVA 165

Query: 97  SALAAA--YFSSNG--VEALRISLNR 118
           + +  A  YF   G  V  L + +NR
Sbjct: 166 NNICNAVEYFRKLGGRVGLLGLVVNR 191


>gnl|CDD|181653 PRK09108, PRK09108, type III secretion system protein HrcU;
           Validated.
          Length = 353

 Score = 26.2 bits (58), Expect = 9.3
 Identities = 14/30 (46%), Positives = 15/30 (50%), Gaps = 1/30 (3%)

Query: 25  WAMASHISLSALLSVFPFIVFGANLAGFLG 54
            A   H    ALL + PF V  A LAG LG
Sbjct: 74  LAALHHFGAQALLLMLPF-VAAAALAGILG 102


  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    0.144    0.449 

Gapped
Lambda     K      H
   0.267   0.0744    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 4,818,868
Number of extensions: 328178
Number of successful extensions: 1663
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1638
Number of HSP's successfully gapped: 192
Length of query: 281
Length of database: 5,994,473
Length adjustment: 92
Effective length of query: 189
Effective length of database: 4,006,537
Effective search space: 757235493
Effective search space used: 757235493
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: 39 (21.5 bits)
S2: 56 (25.3 bits)