BLASTP 2.2.18 [Mar-02-2008]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 0412.0005.p
         (315 letters)

Database: COG 
           115,334 sequences; 38,378,431 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

ypdB [KT] COG3279 Response regulator of the LytR/AlgR family           69   8e-12
Z3646 [KT] COG3279 Response regulator of the LytR/AlgR family          69   8e-12
ECs3261 [KT] COG3279 Response regulator of the LytR/AlgR family        69   8e-12
CAC1670 [KT] COG3279 Response regulator of the LytR/AlgR family        64   2e-10
BS_lytT [KT] COG3279 Response regulator of the LytR/AlgR family        61   2e-09

>ypdB [KT] COG3279 Response regulator of the LytR/AlgR family
          Length = 244

 Score = 69.3 bits (168), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 35/102 (34%), Positives = 58/102 (56%), Gaps = 1/102 (0%)

Query: 213 DEKMILFDPPEIDYIESQDGKAMIVINNEKYAMDATMLETEKKLEAYGFYRCHRSYIVNL 272
           DE++I+    +I Y E+ +    +    E Y M   + E   KL    F+RCHRS+ VNL
Sbjct: 144 DERIIVTPINDIYYAEAHEKMTFVYTRRESYVMPMNITEFCSKLPPSHFFRCHRSFCVNL 203

Query: 273 QKVREIITWSKNAYSLRIDNKIQSTIPLSRTKIQDIQEKFNL 314
            K+REI  W  N Y LR+ + +   +P+SR+K+++ ++  +L
Sbjct: 204 NKIREIEPWFNNTYILRLKD-LDFEVPVSRSKVKEFRQLMHL 244


>Z3646 [KT] COG3279 Response regulator of the LytR/AlgR family
          Length = 244

 Score = 69.3 bits (168), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 35/102 (34%), Positives = 58/102 (56%), Gaps = 1/102 (0%)

Query: 213 DEKMILFDPPEIDYIESQDGKAMIVINNEKYAMDATMLETEKKLEAYGFYRCHRSYIVNL 272
           DE++I+    +I Y E+ +    +    E Y M   + E   KL    F+RCHRS+ VNL
Sbjct: 144 DERIIVTPINDIYYAEAHEKMTFVYTRRESYVMPMNITEFCSKLPPSHFFRCHRSFCVNL 203

Query: 273 QKVREIITWSKNAYSLRIDNKIQSTIPLSRTKIQDIQEKFNL 314
            K+REI  W  N Y LR+ + +   +P+SR+K+++ ++  +L
Sbjct: 204 NKIREIEPWFNNTYILRLKD-LDFEVPVSRSKVKEFRQLMHL 244


>ECs3261 [KT] COG3279 Response regulator of the LytR/AlgR family
          Length = 244

 Score = 69.3 bits (168), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 35/102 (34%), Positives = 58/102 (56%), Gaps = 1/102 (0%)

Query: 213 DEKMILFDPPEIDYIESQDGKAMIVINNEKYAMDATMLETEKKLEAYGFYRCHRSYIVNL 272
           DE++I+    +I Y E+ +    +    E Y M   + E   KL    F+RCHRS+ VNL
Sbjct: 144 DERIIVTPINDIYYAEAHEKMTFVYTRRESYVMPMNITEFCSKLPPSHFFRCHRSFCVNL 203

Query: 273 QKVREIITWSKNAYSLRIDNKIQSTIPLSRTKIQDIQEKFNL 314
            K+REI  W  N Y LR+ + +   +P+SR+K+++ ++  +L
Sbjct: 204 NKIREIEPWFNNTYILRLKD-LDFEVPVSRSKVKEFRQLMHL 244


>CAC1670 [KT] COG3279 Response regulator of the LytR/AlgR family
          Length = 253

 Score = 64.3 bits (155), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 36/108 (33%), Positives = 61/108 (56%), Gaps = 3/108 (2%)

Query: 207 KISAKVDEKMILFDPPEIDYIESQDGKAMIVINNEKYAMDATMLETEKKLEAYGFYRCHR 266
           KI  +   K++L D  +I +   +  K  + +N+  Y   +T+ + EKK    GF+R HR
Sbjct: 149 KIPCENKGKIVLVDVNDIYFFYIKSEKTYVKLNDIIYVTSSTLNDMEKKT---GFFRAHR 205

Query: 267 SYIVNLQKVREIITWSKNAYSLRIDNKIQSTIPLSRTKIQDIQEKFNL 314
           SY+VNL K+ EI +W    Y L + +  +S IP+SR  ++ ++E  N+
Sbjct: 206 SYLVNLNKIFEIYSWFNGTYKLIMSDYRKSEIPVSRGNVRKLKEIINI 253


>BS_lytT [KT] COG3279 Response regulator of the LytR/AlgR family
          Length = 241

 Score = 61.2 bits (147), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 33/104 (31%), Positives = 60/104 (57%), Gaps = 2/104 (1%)

Query: 207 KISAKVDEKMILFDPPEIDYIESQDGKAMIVINNEKYAMDATMLETEKKLEAYGFYRCHR 266
           K++  V E +++ D  +I Y  ++DG   +   +  Y +  T++  EKKL    F R HR
Sbjct: 136 KLALSVGESIVIVDTKDIIYAGTEDGHVNVKTFDHSYTVSDTLVVIEKKLPDSDFIRVHR 195

Query: 267 SYIVNLQKVREIITWSKNAYSLRIDNKIQSTIPLSRTKIQDIQE 310
           S++VN + ++EI  W  + Y+L +  K  S IP+SRT  +++++
Sbjct: 196 SFVVNTEYIKEIQPWFNSTYNLIM--KDGSKIPVSRTYAKELKK 237


  Database: COG
    Posted date:  Aug 3, 2010  9:58 AM
  Number of letters in database: 38,378,431
  Number of sequences in database:  115,334
  
Lambda     K      H
   0.321    0.137    0.400 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 115334
Number of Hits to DB: 20,610,430
Number of extensions: 748562
Number of successful extensions: 1747
Number of sequences better than 1.0e-05: 6
Number of HSP's gapped: 1762
Number of HSP's successfully gapped: 6
Length of query: 315
Length of database: 38,378,431
Length adjustment: 106
Effective length of query: 209
Effective length of database: 26,153,027
Effective search space: 5465982643
Effective search space used: 5465982643
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: 116 (49.3 bits)