RPS-BLAST 2.2.22 [Sep-27-2009]

Database: mmdb70 
           33,805 sequences; 4,956,049 total letters

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

Query= gi|254781090|ref|YP_003065503.1| hypothetical protein
CLIBASIA_04960 [Candidatus Liberibacter asiaticus str. psy62]
         (71 letters)



>3fxq_A LYSR type regulator of TSAMBCD; transcriptional regulator,
          LTTR, TSAR, WHTH, DNA- binding, plasmid, transcription;
          1.85A {Comamonas testosteroni} PDB: 3fxr_A* 3fxu_A*
          3fzj_A (A:92-305)
          Length = 214

 Score = 29.6 bits (65), Expect = 0.13
 Identities = 5/24 (20%), Positives = 13/24 (54%)

Query: 48 LADFIKDYPDCDLELENLVTDDIL 71
          LA F +++PD  + + + +   + 
Sbjct: 20 LASFAREFPDVTVNVRDGMYPAVS 43


>2esn_A Probable transcriptional regulator; PA0477,
          APC5828,transcription, PSI, protein structure
          initiative, MCSG; 2.10A {Pseudomonas aeruginosa}
          (A:95-310)
          Length = 216

 Score = 29.3 bits (64), Expect = 0.18
 Identities = 4/24 (16%), Positives = 6/24 (25%)

Query: 48 LADFIKDYPDCDLELENLVTDDIL 71
          +       P   L L N      +
Sbjct: 26 MNRLQHSAPGVRLRLVNAERKLSV 49


>2ql3_A Probable transcriptional regulator, LYSR family protein;
          APC7314, rhodococcus SP. RHA1, structural genomics,
          PSI-2, protein structure initiative; HET: MSE; 2.05A
          {Rhodococcus SP} (A:1-78,A:178-209)
          Length = 110

 Score = 28.3 bits (63), Expect = 0.32
 Identities = 5/24 (20%), Positives = 9/24 (37%)

Query: 48 LADFIKDYPDCDLELENLVTDDIL 71
          L  F  +YP   +E      + + 
Sbjct: 24 LYAFTAEYPRASVEFREDTQNRLR 47


>3fzv_A Probable transcriptional regulator; LYSR, structural
          genomics, PSI-2, protein structure initiative; 2.71A
          {Pseudomonas aeruginosa PA01} (A:89-169,A:267-306)
          Length = 121

 Score = 27.9 bits (62), Expect = 0.46
 Identities = 4/24 (16%), Positives = 13/24 (54%)

Query: 48 LADFIKDYPDCDLELENLVTDDIL 71
          +A F + YP  ++ + +    +++
Sbjct: 26 IAGFRQAYPGVEIRIRDGEQQELV 49


>2fyi_A HTH-type transcriptional regulator CBL; Lys-R family,
          cofactor-binding domain, cysteine biosynthesis; 2.80A
          {Escherichia coli K12} (A:1-88,A:185-228)
          Length = 132

 Score = 26.7 bits (59), Expect = 1.2
 Identities = 6/24 (25%), Positives = 11/24 (45%)

Query: 48 LADFIKDYPDCDLELENLVTDDIL 71
          +  F + +P+  LEL      +I 
Sbjct: 33 IKAFRELFPEVRLELIQGTPQEIA 56


>1ixc_A CBNR, LYSR-type regulatory protein; long alpha helix
          connecting DNA binding and regulatory domains, DNA
          binding protein; 2.20A {Cupriavidus necator} (A:89-294)
          Length = 206

 Score = 26.5 bits (57), Expect = 1.3
 Identities = 5/24 (20%), Positives = 10/24 (41%)

Query: 48 LADFIKDYPDCDLELENLVTDDIL 71
          L  F+   P   + L +   D+ +
Sbjct: 22 LRAFLTSTPTATVSLTHXTKDEQV 45


>2hxr_A HTH-type transcriptional regulator CYNR; CYNR
          transcriptional regulator LYSR structural genomics,
          PSI-2, protein structure initiative; 2.05A {Escherichia
          coli K12} PDB: 3hfu_A (A:1-104,A:199-238)
          Length = 144

 Score = 26.4 bits (58), Expect = 1.5
 Identities = 8/23 (34%), Positives = 11/23 (47%)

Query: 49 ADFIKDYPDCDLELENLVTDDIL 71
          ADF   YP   L+L+    + I 
Sbjct: 50 ADFYARYPSITLQLQEXSQEKIE 72


>3hsq_A Acyl-[acyl-carrier-protein]--UDP-N- acetylglucosamine
          O-acyltransferase; L.interrogans LPXA, LPXA, LPXA
          acyltransferase; 2.10A {Leptospira interrogans} PDB:
          3i3a_A* 3i3x_A* (A:203-259)
          Length = 57

 Score = 25.7 bits (57), Expect = 2.2
 Identities = 7/39 (17%), Positives = 19/39 (48%), Gaps = 3/39 (7%)

Query: 15 FRFLLDGYRSGKTSKDKYQKIVKIGDHAESIKTLADFIK 53
          ++ +   Y SG +++    ++   G+  E +K +  F +
Sbjct: 12 YKVI---YHSGISTRKALDELEASGNLIEQVKYIIKFFR 47


>1j2z_A Acyl-[acyl-carrier-protein]--UDP-N- acetylglucosamine
          O-acyltransferase; UDP-N-acetylglucosamine
          acyltransferase, LPXA; HET: SOG TLA; 2.10A
          {Helicobacter pylori} (A:204-270)
          Length = 67

 Score = 25.0 bits (55), Expect = 3.7
 Identities = 5/39 (12%), Positives = 17/39 (43%), Gaps = 3/39 (7%)

Query: 15 FRFLLDGYRSGKTSKDKYQKIVKIGDHAESIKTLADFIK 53
          ++ L   +R   + ++  +  ++   +   +K +  FI 
Sbjct: 11 YKRL---FRPIPSLRESAKLELEEHANNPFVKEICSFIL 46


  Database: mmdb70
    Posted date:  Jun 20, 2010  3:12 AM
  Number of letters in database: 4,956,049
  Number of sequences in database:  33,805
  
Lambda     K      H
   0.321    0.144    0.434 

Gapped
Lambda     K      H
   0.267   0.0735    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 570,325
Number of extensions: 20405
Number of successful extensions: 76
Number of sequences better than 10.0: 1
Number of HSP's gapped: 76
Number of HSP's successfully gapped: 13
Length of query: 71
Length of database: 4,956,049
Length adjustment: 38
Effective length of query: 33
Effective length of database: 3,671,459
Effective search space: 121158147
Effective search space used: 121158147
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 (23.0 bits)