RPS-BLAST 2.2.16 [Mar-25-2007]

Database: 95pdb09Oct16_0000; 95pdb09Oct16_0001; 95pdb09Oct16_0002;
95pdb09Oct16_0003 
           66,450 sequences; 15,983,541 total letters

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

Query= ACV54563.1 elen0 ACV54563.1 GIB01015CH01 "transcriptional
regulator, LuxR family"
         (474 letters)



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

3cloA [x.x.x] TRANSCRIPTIONAL REGULATOR                                62   4e-12
3c3wB [x.x.x] TWO COMPONENT TRANSCRIPTIONAL REGULATORY PROTEIN         52   4e-09
3c57A [x.x.x] TWO COMPONENT TRANSCRIPTIONAL REGULATORY PROTEIN         52   4e-09
3c3wA [x.x.x] TWO COMPONENT TRANSCRIPTIONAL REGULATORY PROTEIN         50   1e-08
3c57B [x.x.x] TWO COMPONENT TRANSCRIPTIONAL REGULATORY PROTEIN         50   1e-08
1co0A [a.4.12] TRP OPERON REPRESSOR                                    49   3e-08
3cloC [x.x.x] TRANSCRIPTIONAL REGULATOR                                47   9e-08
2d9sA [x.x.x] CBL E3 UBIQUITIN PROTEIN LIGASE                          43   2e-06
2cg4A [x.x.x] REGULATORY PROTEIN ASNC                                  40   1e-05
3boqA [x.x.x] TRANSCRIPTIONAL REGULATOR, MARR FAMILY                   39   3e-05
1dpuA [a.4.5] REPLICATION PROTEIN A (RPA32) C-TERMINAL DOMAIN          38   6e-05
1a04A [c.23.1 - a.4.6] NITRATE/NITRITE RESPONSE REGULATOR PROTEI...    37   2e-04
3boqB [x.x.x] TRANSCRIPTIONAL REGULATOR, MARR FAMILY                   36   3e-04
2efnA [x.x.x] 150AA LONG HYPOTHETICAL TRANSCRIPTIONAL                  34   7e-04

>3cloA [x.x.x] TRANSCRIPTIONAL REGULATOR
          Length = 249

 Score = 61.9 bits (149), Expect = 4e-12
 Identities = 17/88 (19%), Positives = 31/88 (35%)

Query: 383 MLGRIGLKAPAERERESTPAAAAHALAERYGLTAREAEVLELVAQGRNMTYVQKALCISP 442
                        +        + +   R  L+ RE E+L  + +G +   +   L IS 
Sbjct: 159 DQRPEQGIYATITQERGEVETLSLSEEHRNILSEREKEILRCIRKGLSSKEIAATLYISV 218

Query: 443 GTSSTHINHIHQKLDVHSREELIDLVQE 470
            T + H  +I +KL V +  E     + 
Sbjct: 219 NTVNRHRQNILEKLSVGNSIEACRAAEL 246


>3c3wB [x.x.x] TWO COMPONENT TRANSCRIPTIONAL REGULATORY PROTEIN
          Length = 210

 Score = 51.7 bits (123), Expect = 4e-09
 Identities = 13/65 (20%), Positives = 28/65 (43%)

Query: 404 AAHALAERYGLTAREAEVLELVAQGRNMTYVQKALCISPGTSSTHINHIHQKLDVHSREE 463
           AA       GLT +E  +L L+++G     +   + ++  T   +++ +  KL +  R +
Sbjct: 140 AAEKQDPLSGLTDQERTLLGLLSEGLTNKQIADRMFLAEKTVKNYVSRLLAKLGMERRTQ 199

Query: 464 LIDLV 468
                
Sbjct: 200 AAVFA 204


>3c57A [x.x.x] TWO COMPONENT TRANSCRIPTIONAL REGULATORY PROTEIN
          Length = 51

 Score = 51.7 bits (124), Expect = 4e-09
 Identities = 11/51 (21%), Positives = 26/51 (50%)

Query: 413 GLTAREAEVLELVAQGRNMTYVQKALCISPGTSSTHINHIHQKLDVHSREE 463
           GLT +E  +L L+++G     +   + ++  T   +++ +  KL +  R +
Sbjct: 1   GLTDQERTLLGLLSEGLTNKQIADRMFLAEKTVKNYVSRLLAKLGMERRTQ 51


>3c3wA [x.x.x] TWO COMPONENT TRANSCRIPTIONAL REGULATORY PROTEIN
          Length = 211

 Score = 50.2 bits (119), Expect = 1e-08
 Identities = 13/65 (20%), Positives = 28/65 (43%)

Query: 404 AAHALAERYGLTAREAEVLELVAQGRNMTYVQKALCISPGTSSTHINHIHQKLDVHSREE 463
           AA       GLT +E  +L L+++G     +   + ++  T   +++ +  KL +  R +
Sbjct: 140 AAEKQDPLSGLTDQERTLLGLLSEGLTNKQIADRMFLAEKTVKNYVSRLLAKLGMERRTQ 199

Query: 464 LIDLV 468
                
Sbjct: 200 AAVFA 204


>3c57B [x.x.x] TWO COMPONENT TRANSCRIPTIONAL REGULATORY PROTEIN
          Length = 49

 Score = 50.1 bits (120), Expect = 1e-08
 Identities = 9/49 (18%), Positives = 24/49 (48%)

Query: 415 TAREAEVLELVAQGRNMTYVQKALCISPGTSSTHINHIHQKLDVHSREE 463
           T +E  +L L+++G     +   + ++  T   +++ +  KL +  R +
Sbjct: 1   TDQERTLLGLLSEGLTNKQIADRMFLAEKTVKNYVSRLLAKLGMERRTQ 49


>1co0A [a.4.12] TRP OPERON REPRESSOR
          Length = 105

 Score = 48.7 bits (116), Expect = 3e-08
 Identities = 13/62 (20%), Positives = 25/62 (40%), Gaps = 1/62 (1%)

Query: 409 AERYGLTAREAEVLELVAQGRNMTYVQKALCISPGTSSTHINHIHQKLDVHSREELIDLV 468
            ER  L  R   V EL+    +   ++  L     T +   N + +   V  R+ L +++
Sbjct: 43  DEREALGTRVRIVEELLRGEMSQRELKNELGAGIATITRGSNSL-KAAPVELRQWLEEVL 101

Query: 469 QE 470
            +
Sbjct: 102 LK 103


>3cloC [x.x.x] TRANSCRIPTIONAL REGULATOR
          Length = 248

 Score = 47.3 bits (110), Expect = 9e-08
 Identities = 11/44 (25%), Positives = 19/44 (43%)

Query: 427 QGRNMTYVQKALCISPGTSSTHINHIHQKLDVHSREELIDLVQE 470
           +G +   +   L IS  T + H  +I +KL V +  E     + 
Sbjct: 202 KGLSSKEIAATLYISVNTVNRHRQNILEKLSVGNSIEACRAAEL 245


>2d9sA [x.x.x] CBL E3 UBIQUITIN PROTEIN LIGASE
          Length = 53

 Score = 42.9 bits (101), Expect = 2e-06
 Identities = 12/43 (27%), Positives = 21/43 (48%), Gaps = 1/43 (2%)

Query: 419 AEVLELVAQGRNMTYVQKALCISPGTSSTHINHIHQKLDVHSR 461
           +E+  L++QG +   +QKAL I+        N I ++    S 
Sbjct: 11  SEIERLMSQGYSYQDIQKALVIAHNNIEMAKN-ILREFSGPSS 52


>2cg4A [x.x.x] REGULATORY PROTEIN ASNC
          Length = 149

 Score = 40.2 bits (93), Expect = 1e-05
 Identities = 9/57 (15%), Positives = 19/57 (33%), Gaps = 2/57 (3%)

Query: 412 YGLTAREAEVLELVAQGRNMTYVQ--KALCISPGTSSTHINHIHQKLDVHSREELID 466
           Y +   +  +LE +       Y +  K   +SP T    +  + Q   +      + 
Sbjct: 1   YLIDNLDRGILEALMGNARTAYAELAKQFGVSPETIHVRVEKMKQAGIITGARIDVS 57


>3boqA [x.x.x] TRANSCRIPTIONAL REGULATOR, MARR FAMILY
          Length = 131

 Score = 39.2 bits (91), Expect = 3e-05
 Identities = 10/61 (16%), Positives = 22/61 (36%), Gaps = 1/61 (1%)

Query: 402 AAAAHALAERYGLTAREAEVLELVAQG-RNMTYVQKALCISPGTSSTHINHIHQKLDVHS 460
                 L +  GL+  + +  +L          +  AL ++ G  S  +N + +   V +
Sbjct: 24  GDLNRQLLDETGLSLAKFDAAQLARNPDGLSGKLSGALKVTNGNVSGLVNRLIKDGVVKA 83

Query: 461 R 461
            
Sbjct: 84  F 84


>1dpuA [a.4.5] REPLICATION PROTEIN A (RPA32) C-TERMINAL DOMAIN
          Length = 69

 Score = 37.9 bits (88), Expect = 6e-05
 Identities = 10/66 (15%), Positives = 24/66 (36%), Gaps = 6/66 (9%)

Query: 412 YGLTAREAEVLELVAQ-GRNMTYVQKALC-----ISPGTSSTHINHIHQKLDVHSREELI 465
            GLT  + +VL L+    R      + L      +S  +    ++ +  +  ++S  +  
Sbjct: 2   NGLTVAQNQVLNLIKACPRPEGLNFQDLKNQLKHMSVSSIKQAVDFLSNEGHIYSTVDDD 61

Query: 466 DLVQEE 471
                +
Sbjct: 62  HFKSTD 67


>1a04A [c.23.1 - a.4.6] NITRATE/NITRITE RESPONSE REGULATOR PROTEIN
           NARL
          Length = 205

 Score = 36.6 bits (83), Expect = 2e-04
 Identities = 16/49 (32%), Positives = 28/49 (57%)

Query: 417 REAEVLELVAQGRNMTYVQKALCISPGTSSTHINHIHQKLDVHSREELI 465
           RE ++L+L+AQG     + + L I+  T   H+ H+ +K+ + SR E  
Sbjct: 148 RERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAA 196


>3boqB [x.x.x] TRANSCRIPTIONAL REGULATOR, MARR FAMILY
          Length = 133

 Score = 35.7 bits (82), Expect = 3e-04
 Identities = 9/60 (15%), Positives = 20/60 (33%), Gaps = 1/60 (1%)

Query: 403 AAAHALAERYGLTAREAEVL-ELVAQGRNMTYVQKALCISPGTSSTHINHIHQKLDVHSR 461
                L +  GL+  + +              +  AL ++ G  S  +N + +   V + 
Sbjct: 25  DLNRQLLDETGLSLAKFDAAQLARNPDGLSGKLSGALKVTNGNVSGLVNRLIKDGVVKAS 84


>2efnA [x.x.x] 150AA LONG HYPOTHETICAL TRANSCRIPTIONAL
          Length = 150

 Score = 34.4 bits (78), Expect = 7e-04
 Identities = 6/55 (10%), Positives = 20/55 (36%), Gaps = 2/55 (3%)

Query: 414 LTAREAEVLELVAQGRNMTYVQ--KALCISPGTSSTHINHIHQKLDVHSREELID 466
           +   +  +L+++      +  +  + + I   T S  I  + +   +      I+
Sbjct: 1   MDEIDLRILKILQYNAKYSLDEIAREIRIPKATLSYRIKKLEKDGVIKGYYAYIN 55


  Database: 95pdb09Oct16_0000
    Posted date:  Oct 27, 2009  4:27 PM
  Number of letters in database: 15,983,541
  Number of sequences in database:  66,450
  
Lambda     K      H
   0.319    0.136    0.368 

Gapped
Lambda     K      H
   0.267   0.0355    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 66450
Number of Hits to DB: 24,491,951
Number of extensions: 1470423
Number of successful extensions: 16338
Number of sequences better than 1.0e-03: 10
Number of HSP's gapped: 6597
Number of HSP's successfully gapped: 362
Length of database: 100,000
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 6.9 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.3 bits)