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= 0535.0005.p
         (116 letters)

Database: pfamseq 
           9,421,015 sequences; 3,060,696,203 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

C4IH78.1 C4IH78_CLOBU Regulatory protein VanR                         150   4e-35
B1QXZ9.1 B1QXZ9_CLOBU Regulatory protein VanR                         150   4e-35
Q183F8.1 Q183F8_CLOD6 Two-component response regulator                127   4e-28
A8S367.1 A8S367_9CLOT Putative uncharacterized protein (Fragment)     126   6e-28
C5EK34.1 C5EK34_9FIRM Two-component response regulator                125   1e-27

>C4IH78.1 C4IH78_CLOBU Regulatory protein VanR
          Length = 229

 Score =  150 bits (379), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 71/91 (78%), Positives = 84/91 (92%)

Query: 6  NILIADDNDEIREIVRVLLKSEGFHIIEAVDGDDAVHKADETIDLFILDIMMPGKSGFKA 65
          NILIADDNDEIREIVR+LL+SEGF++ EA++G+DAV+K ++  DL ILDIMMP KSGFKA
Sbjct: 3  NILIADDNDEIREIVRILLESEGFNVSEAINGEDAVNKVNDNTDLIILDIMMPIKSGFKA 62

Query: 66 CVEIREKSSAPILFLTAKTQDSDKYMAFSAG 96
          C+EIREK+SAPILFLTAK+QDSDK MAFSAG
Sbjct: 63 CIEIREKTSAPILFLTAKSQDSDKCMAFSAG 93


>B1QXZ9.1 B1QXZ9_CLOBU Regulatory protein VanR
          Length = 229

 Score =  150 bits (379), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 71/91 (78%), Positives = 84/91 (92%)

Query: 6  NILIADDNDEIREIVRVLLKSEGFHIIEAVDGDDAVHKADETIDLFILDIMMPGKSGFKA 65
          NILIADDNDEIREIVR+LL+SEGF++ EA++G+DAV+K ++  DL ILDIMMP KSGFKA
Sbjct: 3  NILIADDNDEIREIVRILLESEGFNVSEAINGEDAVNKVNDNTDLIILDIMMPIKSGFKA 62

Query: 66 CVEIREKSSAPILFLTAKTQDSDKYMAFSAG 96
          C+EIREK+SAPILFLTAK+QDSDK MAFSAG
Sbjct: 63 CIEIREKTSAPILFLTAKSQDSDKCMAFSAG 93


>Q183F8.1 Q183F8_CLOD6 Two-component response regulator
          Length = 234

 Score =  127 bits (318), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 60/90 (66%), Positives = 74/90 (82%)

Query: 7  ILIADDNDEIREIVRVLLKSEGFHIIEAVDGDDAVHKADETIDLFILDIMMPGKSGFKAC 66
          IL+ADDN EIREIV +LL  EG+ +I A +G++AV+  D TIDL ILD++MP K+GF AC
Sbjct: 9  ILVADDNPEIREIVEILLTGEGYEVIMATNGEEAVNLVDSTIDLIILDVVMPVKTGFVAC 68

Query: 67 VEIREKSSAPILFLTAKTQDSDKYMAFSAG 96
           EIREK++APILFLTAKTQDSDK + FSAG
Sbjct: 69 NEIREKTTAPILFLTAKTQDSDKVIGFSAG 98


>A8S367.1 A8S367_9CLOT Putative uncharacterized protein (Fragment)
          Length = 174

 Score =  126 bits (317), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 57/90 (63%), Positives = 72/90 (80%)

Query: 7  ILIADDNDEIREIVRVLLKSEGFHIIEAVDGDDAVHKADETIDLFILDIMMPGKSGFKAC 66
          IL ADD+ EIRE+VR+LL+SEG+ ++EA +G+ A   AD+T DL ILD+MMPG++GF AC
Sbjct: 6  ILFADDDPEIREVVRILLESEGYQVVEAENGEQAASAADDTFDLIILDVMMPGRNGFSAC 65

Query: 67 VEIREKSSAPILFLTAKTQDSDKYMAFSAG 96
           EIR K + PILFLTA+TQDSDK M F AG
Sbjct: 66 AEIRRKLNTPILFLTARTQDSDKTMGFGAG 95


>C5EK34.1 C5EK34_9FIRM Two-component response regulator
          Length = 243

 Score =  125 bits (314), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 56/90 (62%), Positives = 72/90 (80%)

Query: 7   ILIADDNDEIREIVRVLLKSEGFHIIEAVDGDDAVHKADETIDLFILDIMMPGKSGFKAC 66
           IL ADD+ EIRE+VR+LL+SEG+ ++EA +G+ A   AD+T DL ILD+MMPG++GF AC
Sbjct: 19  ILFADDDPEIREVVRILLESEGYQVVEAENGEQAASMADDTFDLIILDVMMPGRNGFSAC 78

Query: 67  VEIREKSSAPILFLTAKTQDSDKYMAFSAG 96
            EIR + + PILFLTA+TQDSDK M F AG
Sbjct: 79  AEIRRRLNTPILFLTARTQDSDKTMGFGAG 108


  Database: pfamseq
    Posted date:  Aug 5, 2010  3:22 PM
  Number of letters in database: 3,060,696,203
  Number of sequences in database:  9,421,015
  
Lambda     K      H
   0.321    0.137    0.393 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 9421015
Number of Hits to DB: 617,217,564
Number of extensions: 23025137
Number of successful extensions: 108827
Number of sequences better than 1.0e-05: 10575
Number of HSP's gapped: 112941
Number of HSP's successfully gapped: 10578
Length of query: 116
Length of database: 3,060,696,203
Length adjustment: 83
Effective length of query: 33
Effective length of database: 2,278,751,958
Effective search space: 75198814614
Effective search space used: 75198814614
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: 125 (52.8 bits)