RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781003|ref|YP_003065416.1| hypothetical protein
CLIBASIA_04520 [Candidatus Liberibacter asiaticus str. psy62]
         (304 letters)



>gnl|CDD|183128 PRK11423, PRK11423, methylmalonyl-CoA decarboxylase; Provisional.
          Length = 261

 Score = 31.5 bits (72), Expect = 0.30
 Identities = 17/35 (48%), Positives = 23/35 (65%), Gaps = 3/35 (8%)

Query: 113 AIAVRKKNVRVLQQSYPLLGAKDSFSR-AGNRRAV 146
           AIAV K+ +RVL +++P+    D F R  G RRAV
Sbjct: 205 AIAVIKEQLRVLGEAHPM--NPDEFERIQGLRRAV 237


>gnl|CDD|180068 PRK05421, PRK05421, hypothetical protein; Provisional.
          Length = 263

 Score = 29.9 bits (68), Expect = 0.88
 Identities = 43/202 (21%), Positives = 72/202 (35%), Gaps = 52/202 (25%)

Query: 25  RLVSWNINTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNLDADIVFLQEMGSYNAVAKVF 84
           RL+ WNI           +K       S    L+   K  DAD+V LQE  +   + +  
Sbjct: 45  RLLVWNI-----------YKQQRAGWLSV---LKNLGK--DADLVLLQEAQTTPELVQFA 88

Query: 85  PKNTWCIFYSTERLINHSKRDSNNDIHTAIAVRKKNVRVLQQSYPLLG-AKDSFSRAGNR 143
             N      +             + + T           L++  P L   K +       
Sbjct: 89  TANYLAADQAP----AFVLPQHPSGVMTLSKAHPVYCCPLREREPWLRLPKSA------- 137

Query: 144 RAVELLVE---INGKKIWVLDIHLKSFCFLDSLENTYSPSCSLLSQQAQWLKDWITQKKE 200
               L+ E    NG+ + V++IH  +F     ++  YS       +Q + + D I     
Sbjct: 138 ----LITEYPLPNGRTLLVVNIHAINFSL--GVDV-YS-------KQLEPIGDQIAHHSG 183

Query: 201 SLVPFVIAGDFN----RKINYL 218
              P ++AGDFN    +++N L
Sbjct: 184 ---PVILAGDFNTWSRKRMNAL 202


>gnl|CDD|162323 TIGR01371, met_syn_B12ind,
           5-methyltetrahydropteroyltriglutamate--homocysteine
           S-methyltransferase.  This model describes the
           cobalamin-independent methionine synthase. A family of
           uncharacterized archaeal proteins is homologous to the
           C-terminal region of this family. That family is
           excluded from this model but, along with this family,
           belongs to pfam model pfam01717.
          Length = 750

 Score = 28.9 bits (65), Expect = 1.9
 Identities = 14/38 (36%), Positives = 17/38 (44%), Gaps = 6/38 (15%)

Query: 152 INGKKIWVLDIHLKSFCFLDSLEN-----TYSPSCSLL 184
           I+G+ IW  D+   S   L  L         S SCSLL
Sbjct: 283 IDGRNIWRNDL-EASLSLLKKLLAHVGKLVVSTSCSLL 319


>gnl|CDD|179415 PRK02362, PRK02362, ski2-like helicase; Provisional.
          Length = 737

 Score = 27.6 bits (62), Expect = 3.6
 Identities = 11/28 (39%), Positives = 18/28 (64%)

Query: 209 GDFNRKINYLGNNDDFWKTIDPNDSLIR 236
           GD++ +  +LG+ND    T +  DSL+R
Sbjct: 102 GDYDSRDEWLGDNDIIVATSEKVDSLLR 129


>gnl|CDD|180840 PRK07105, PRK07105, pyridoxamine kinase; Validated.
          Length = 284

 Score = 27.6 bits (62), Expect = 3.8
 Identities = 9/29 (31%), Positives = 18/29 (62%)

Query: 269 FLIQESFSEILYNEDDIKSRGKRLSDHCP 297
            L+ + + E  Y+E++IK   ++L+D  P
Sbjct: 150 LLLDKPYLEKSYSEEEIKQLLRKLADLGP 178


>gnl|CDD|181809 PRK09376, rho, transcription termination factor Rho; Provisional.
          Length = 416

 Score = 27.8 bits (63), Expect = 3.8
 Identities = 9/22 (40%), Positives = 11/22 (50%)

Query: 159 VLDIHLKSFCFLDSLENTYSPS 180
           VL+I    F FL S +  Y P 
Sbjct: 54  VLEILPDGFGFLRSPDANYLPG 75


>gnl|CDD|140318 PTZ00297, PTZ00297, pantothenate kinase; Provisional.
          Length = 1452

 Score = 27.5 bits (61), Expect = 4.6
 Identities = 19/62 (30%), Positives = 32/62 (51%), Gaps = 12/62 (19%)

Query: 156 KIWVLDIHLKSFCFLDSLENTYSPSCSLLSQQAQWLKDWITQKKE-----SLVPFVIAGD 210
           +I   ++HL+     DSL +T S     + +  ++++  I    E     + +PFVIAGD
Sbjct: 151 RIVFFNVHLRQ---EDSLPSTSSQ----VQETRRFVESVIANVYEQNNDGAEIPFVIAGD 203

Query: 211 FN 212
           FN
Sbjct: 204 FN 205


>gnl|CDD|180921 PRK07306, PRK07306, ribonucleotide-diphosphate reductase subunit
           alpha; Validated.
          Length = 720

 Score = 27.0 bits (60), Expect = 5.8
 Identities = 12/27 (44%), Positives = 18/27 (66%), Gaps = 1/27 (3%)

Query: 38  EGVSLWKN-SVKRTTSDYTLLRQYAKN 63
           +G+  WK+ + K TT D ++LR YA N
Sbjct: 665 KGLYEWKDRTNKMTTRDLSILRNYAFN 691


>gnl|CDD|161970 TIGR00633, xth, exodeoxyribonuclease III (xth).  This family is
           based on the phylogenomic analysis of JA Eisen (1999,
           Ph.D. Thesis, Stanford University).
          Length = 255

 Score = 26.9 bits (60), Expect = 6.1
 Identities = 18/56 (32%), Positives = 24/56 (42%), Gaps = 15/56 (26%)

Query: 248 NKNLRNKIPIDYFVMDQNAYKFLIQESFSEILYNEDDIKSRGKRLSDHCPISIDYD 303
           N+  R    IDYF         L+ E  +E +   D       R SDHCPI ++ D
Sbjct: 215 NRGWR----IDYF---------LVSEPLAERV--VDSYIDSEIRGSDHCPIVLELD 255


>gnl|CDD|179966 PRK05222, PRK05222,
           5-methyltetrahydropteroyltriglutamate--homocysteine
           S-methyltransferase; Provisional.
          Length = 758

 Score = 26.6 bits (60), Expect = 8.7
 Identities = 13/38 (34%), Positives = 19/38 (50%), Gaps = 6/38 (15%)

Query: 152 INGKKIWVLDIHLKSFCFLDSLENTY-----SPSCSLL 184
           I+G+ IW  D+   +   L+ L         +PSCSLL
Sbjct: 289 IDGRNIWRADLE-AALALLEPLAAKVDRLWVAPSCSLL 325


  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
   0.321    0.135    0.408 

Gapped
Lambda     K      H
   0.267   0.0711    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 4,838,391
Number of extensions: 297711
Number of successful extensions: 565
Number of sequences better than 10.0: 1
Number of HSP's gapped: 565
Number of HSP's successfully gapped: 20
Length of query: 304
Length of database: 5,994,473
Length adjustment: 93
Effective length of query: 211
Effective length of database: 3,984,929
Effective search space: 840820019
Effective search space used: 840820019
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (25.8 bits)