RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780514|ref|YP_003064927.1| type II restriction
endonuclease [Candidatus Liberibacter asiaticus str. psy62]
         (110 letters)



>gnl|CDD|151046 pfam10483, Hap2_elong, Histone acetylation protein 2.  Hap2 is one
           of three histone acetyltransferases proteins that, in
           yeasts, are found associated with elongating forms of
           RNA polymerase II (Elongator). The Haps can be isolated
           in two forms, as a six-subunit complex with Elongator
           and as a complex of the three proteins on their own. The
           role of the Hap complex in transcription is still
           speculative, being possibly to keep the HAT activity of
           free Elongator in check, allowing histone acetylation
           only in the presence of a transcribing polymerase, or
           the interaction with Haps might render Elongator
           susceptible to modifications thereby altering its
           activity.
          Length = 286

 Score = 28.5 bits (64), Expect = 0.34
 Identities = 9/36 (25%), Positives = 16/36 (44%)

Query: 71  RSRDGQEFEYIIYSLYNINTFVTHLMHKKKSGKALS 106
             R   E  + +    N    V  L +++KSG+ L+
Sbjct: 169 LDRSLSEPVFPLEEGLNGVGIVLELENRRKSGRGLT 204


>gnl|CDD|163018 TIGR02784, addA_alphas, double-strand break repair helicase AddA,
           alphaproteobacterial type.  AddAB, also called RexAB,
           substitutes for RecBCD in several bacterial lineages.
           These DNA recombination proteins act before synapse and
           are particularly important for DNA repair of
           double-stranded breaks by homologous recombination. The
           term AddAB is used broadly, with AddA homologous between
           the alphaproteobacteria (as modeled here) and the
           Firmicutes, while the partner AddB proteins show no
           strong homology across the two groups of species.
          Length = 1141

 Score = 28.1 bits (63), Expect = 0.48
 Identities = 12/33 (36%), Positives = 16/33 (48%), Gaps = 4/33 (12%)

Query: 54  KITPY-LYEWVLSNTQSRR---SRDGQEFEYII 82
            ITP+  Y  +L     RR   +R G E E I+
Sbjct: 701 FITPFEFYARLLGGDGGRRKLLARLGAEAEDIL 733


>gnl|CDD|148092 pfam06277, EutA, Ethanolamine utilisation protein EutA.  This
          family consists of several bacterial EutA ethanolamine
          utilisation proteins. The EutA protein is thought to
          protect the lyase (EutBC) from inhibition by CNB12.
          Length = 473

 Score = 28.3 bits (64), Expect = 0.49
 Identities = 6/22 (27%), Positives = 15/22 (68%)

Query: 3  FNEIILKNISNNYEVPKMLITE 24
          F+ + L+N ++ + VP++ I +
Sbjct: 19 FSRLTLENRASVFSVPRIEIVD 40


>gnl|CDD|172778 PRK14290, PRK14290, chaperone protein DnaJ; Provisional.
          Length = 365

 Score = 27.2 bits (60), Expect = 0.84
 Identities = 13/35 (37%), Positives = 21/35 (60%), Gaps = 3/35 (8%)

Query: 10  NISNNYEVPKMLIT---ELSTELFNLKTANQNFFH 41
            +  N EVPK L +   EL  E F++K  ++++FH
Sbjct: 331 LVRINVEVPKRLTSKQKELIREFFDIKENHKSWFH 365


>gnl|CDD|178785 PRK00002, aroB, 3-dehydroquinate synthase; Reviewed.
          Length = 358

 Score = 27.4 bits (62), Expect = 0.85
 Identities = 8/27 (29%), Positives = 14/27 (51%)

Query: 57  PYLYEWVLSNTQSRRSRDGQEFEYIIY 83
           P  +EW+ +N  +  + DG+  E  I 
Sbjct: 191 PEFFEWLEANVDALLALDGEALEEAIA 217


>gnl|CDD|149925 pfam09019, EcoRII-C, EcoRII C terminal.  The C-terminal catalytic
          domain of the Restriction Endonuclease EcoRII has a
          restriction endonuclease-like fold with a central
          five-stranded mixed beta-sheet surrounded on both sides
          by alpha-helices. It cleaves DNA specifically at single
          5' CCWGG sites.
          Length = 164

 Score = 26.9 bits (60), Expect = 1.1
 Identities = 7/19 (36%), Positives = 10/19 (52%)

Query: 64 LSNTQSRRSRDGQEFEYII 82
          LS    R+SR G+  E  +
Sbjct: 28 LSVQNRRKSRAGKSLENHL 46


>gnl|CDD|161848 TIGR00381, cdhD, CO dehydrogenase/acetyl-CoA synthase, delta
           subunit.  This is the small subunit of a heterodimer
           which catalyzes the reaction CO + H2O + Acceptor = CO2 +
           Reduced acceptor and is involved in the synthesis of
           acetyl-CoA from CO2 and H2.
          Length = 389

 Score = 25.3 bits (55), Expect = 3.4
 Identities = 8/22 (36%), Positives = 10/22 (45%), Gaps = 3/22 (13%)

Query: 42  NTLTKKFGDYMSKITPYLYEWV 63
           NTLT   G  +S       EW+
Sbjct: 371 NTLT---GPKVSGGVADPGEWI 389


>gnl|CDD|180899 PRK07233, PRK07233, hypothetical protein; Provisional.
          Length = 434

 Score = 24.8 bits (55), Expect = 4.9
 Identities = 15/64 (23%), Positives = 24/64 (37%), Gaps = 12/64 (18%)

Query: 22  ITELSTELFNLKTANQNFFHNTLTKKFGDYMSKITPYLYEWVLSN----TQSRRSRDGQE 77
           +   S E        + F+   L  KFGDY   ++     W+ S        R S  G++
Sbjct: 138 LRRWSGE-----GVYEVFWEPLLESKFGDYADDVS---AAWLWSRIKRRGNRRYSLFGEK 189

Query: 78  FEYI 81
             Y+
Sbjct: 190 LGYL 193


>gnl|CDD|114900 pfam06208, BDV_G, Borna disease virus G protein.  This family
           consists of Borna disease virus G glycoprotein
           sequences. Borna disease virus (BDV) infection produces
           a variety of clinical diseases, from behavioural
           illnesses to classical fatal encephalitis. G protein is
           important for viral entry into the host cell.
          Length = 503

 Score = 24.3 bits (52), Expect = 6.9
 Identities = 9/16 (56%), Positives = 12/16 (75%)

Query: 70  RRSRDGQEFEYIIYSL 85
           RR RD Q+ EY+I+ L
Sbjct: 246 RRRRDTQQIEYLIHKL 261


>gnl|CDD|182674 PRK10719, eutA, reactivating factor for ethanolamine ammonia
          lyase; Provisional.
          Length = 475

 Score = 24.1 bits (53), Expect = 7.5
 Identities = 6/22 (27%), Positives = 16/22 (72%)

Query: 3  FNEIILKNISNNYEVPKMLITE 24
          F+ + L+N ++ ++VP++ I +
Sbjct: 22 FSRLELENRASVFQVPRIEIID 43


>gnl|CDD|115538 pfam06888, Put_Phosphatase, Putative Phosphatase.  This family
           contains a number of putative eukaryotic acid
           phosphatases. Some family members represent the products
           of the PSI14 phosphatase family in Lycopersicon
           esculentum (Tomato).
          Length = 234

 Score = 23.9 bits (52), Expect = 9.4
 Identities = 7/21 (33%), Positives = 13/21 (61%)

Query: 63  VLSNTQSRRSRDGQEFEYIIY 83
           VL    + ++R+G  +E +IY
Sbjct: 154 VLDEIVASQAREGVRYERVIY 174


  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
   0.319    0.132    0.375 

Gapped
Lambda     K      H
   0.267   0.0690    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 1,644,433
Number of extensions: 85362
Number of successful extensions: 161
Number of sequences better than 10.0: 1
Number of HSP's gapped: 160
Number of HSP's successfully gapped: 24
Length of query: 110
Length of database: 5,994,473
Length adjustment: 76
Effective length of query: 34
Effective length of database: 4,352,265
Effective search space: 147977010
Effective search space used: 147977010
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 (21.8 bits)
S2: 50 (23.1 bits)