RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780553|ref|YP_003064966.1| Holliday junction DNA helicase
RuvA [Candidatus Liberibacter asiaticus str. psy62]
         (207 letters)



>gnl|CDD|30977 COG0632, RuvA, Holliday junction resolvasome, DNA-binding subunit
           [DNA replication, recombination, and repair].
          Length = 201

 Score =  171 bits (435), Expect = 1e-43
 Identities = 72/206 (34%), Positives = 117/206 (56%), Gaps = 5/206 (2%)

Query: 1   MIGKIKGNIEGLYEDYVLIDVQGVCYIIYCPIRTLSCLGKIGDFCTLFVETHMRQDQIRL 60
           MIG ++G +     DY++I+V GV Y I  P+RTL+ L ++G+   LF    +R+D   L
Sbjct: 1   MIGYLRGKVTEKNPDYIVIEVNGVGYEINVPMRTLAELPEVGEEVKLFTHLVVREDAHLL 60

Query: 61  FGFLSDLDRQWFMLLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKI 120
           +GFL++ +R+ F LL SV G+G ++A+ +LS +   EL ++I  ++ K +++IPGI  K 
Sbjct: 61  YGFLTEEERELFRLLISVNGIGPKLALAILSNLDPEELAQAIANEDVKALSKIPGIGKKT 120

Query: 121 ASRIMTELKGKAISLSSVVQQDMSCVNKEQAHICSMPSFAINAISALVNLGYGQDQATTA 180
           A RI+ ELKGK  +      +       E   +         A+ ALV LGY + +   A
Sbjct: 121 AERIVLELKGKLAAFL----KGDGGSPAEDLSLDESSPALEEAVEALVALGYKEKEIKKA 176

Query: 181 VVSVLKKEKNIADDSQIIRLALRAIS 206
           V  VLK+  + AD  ++I+ AL+ + 
Sbjct: 177 VKKVLKENPD-ADVEELIKEALKLLL 201


>gnl|CDD|110340 pfam01330, RuvA_N, RuvA N terminal domain.  The N terminal domain
          of RuvA has an OB-fold structure. This domain forms the
          RuvA tetramer contacts.
          Length = 61

 Score = 64.5 bits (158), Expect = 2e-11
 Identities = 21/62 (33%), Positives = 36/62 (58%), Gaps = 1/62 (1%)

Query: 1  MIGKIKGNIEGLYEDYVLIDVQGVCYIIYCPIRTLSCLGKIGDFCTLFVETHMRQDQIRL 60
          MI  ++G +  +  DY++++V GV Y I    RTL+ L + G+   LF    +R+D + L
Sbjct: 1  MIAYLRGKVTEVGPDYIVVEVNGVGYEINVSARTLAELPEGGE-VKLFTHLIVREDALLL 59

Query: 61 FG 62
          +G
Sbjct: 60 YG 61


>gnl|CDD|37729 KOG2518, KOG2518, KOG2518, 5'-3' exonuclease [Replication,
           recombination and repair].
          Length = 556

 Score = 28.0 bits (62), Expect = 2.1
 Identities = 15/55 (27%), Positives = 23/55 (41%), Gaps = 5/55 (9%)

Query: 55  QDQIRLFGFLSDLDRQWFMLLQSVQGVGARVAMGVLSRITATELVESIILQNSKV 109
           +++ R    LS  D      L S+ GVG   A  +LS+    + V    L   K+
Sbjct: 212 EEKFRRMCILSGCD-----YLSSLPGVGLATAHKLLSKYNTPDRVIISHLLKKKL 261


>gnl|CDD|32395 COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC
           component [Carbohydrate transport and metabolism].
          Length = 472

 Score = 27.9 bits (62), Expect = 2.2
 Identities = 21/80 (26%), Positives = 35/80 (43%), Gaps = 3/80 (3%)

Query: 74  LLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTELKGKAI 133
           L  + +G    V  GVL     + +V S+IL+ SK         ++ A+  M E+KG++ 
Sbjct: 305 LAMTPKGAYLGVIAGVLVAALVSFVVSSLILKTSKT---ESEDDLEAATAKMKEMKGESK 361

Query: 134 SLSSVVQQDMSCVNKEQAHI 153
             SS +  D+         I
Sbjct: 362 GQSSALAADVKNDLSNVKKI 381


>gnl|CDD|39457 KOG4256, KOG4256, KOG4256, Kinetochore component [Cell cycle
           control, cell division, chromosome partitioning].
          Length = 2209

 Score = 27.9 bits (61), Expect = 2.2
 Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 2/49 (4%)

Query: 158 SFAINAISALVNLGYGQDQATTAVVSVLKKEKNIADDSQIIRLALRAIS 206
            FA+++ S+L     G D     +++   KE   AD+    ++ LR +S
Sbjct: 349 CFALDSSSSLTLFAIGGD--DIVLIAGECKEDPKADEDDGSQIVLRCLS 395


  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
   0.324    0.137    0.390 

Gapped
Lambda     K      H
   0.267   0.0801    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 2,201,012
Number of extensions: 104875
Number of successful extensions: 300
Number of sequences better than 10.0: 1
Number of HSP's gapped: 297
Number of HSP's successfully gapped: 9
Length of query: 207
Length of database: 6,263,737
Length adjustment: 89
Effective length of query: 118
Effective length of database: 4,340,536
Effective search space: 512183248
Effective search space used: 512183248
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (24.8 bits)