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= 0267.0017.p
         (84 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

B3K8W5.1 B3K8W5_9BACI Transcriptional regulator, AbrB family          168   1e-40
B1DIJ5.1 B1DIJ5_9BACL Transcriptional regulator, AbrB family          160   3e-38
C0ZHC1.1 C0ZHC1_BREBN Transition state regulatory protein             144   3e-33
A4J0L1.1 A4J0L1_DESRM Transcriptional regulator, AbrB family          137   3e-31
Q3A8W9.1 Q3A8W9_CARHZ Transcriptional regulator, AbrB family          134   3e-30

>B3K8W5.1 B3K8W5_9BACI Transcriptional regulator, AbrB family
          Length = 84

 Score =  168 bits (426), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 82/84 (97%), Positives = 83/84 (98%)

Query: 1  MMKSTGIVRKVDELGRVVIPIELRRTLGIGEKDALEIYVDGERIMLKKYEPACIFCGNAE 60
          MMKSTGIVRKVDELGRVVIPIELRRTLGIGEKDALEIYVDGERIMLKKYEPACIFCGNAE
Sbjct: 1  MMKSTGIVRKVDELGRVVIPIELRRTLGIGEKDALEIYVDGERIMLKKYEPACIFCGNAE 60

Query: 61 NVTYFKGKIVCHDCISAIPTPVTN 84
          NVTYFKGKIVCH+CIS IPTPVTN
Sbjct: 61 NVTYFKGKIVCHECISEIPTPVTN 84


>B1DIJ5.1 B1DIJ5_9BACL Transcriptional regulator, AbrB family
          Length = 84

 Score =  160 bits (405), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 77/84 (91%), Positives = 81/84 (96%)

Query: 1  MMKSTGIVRKVDELGRVVIPIELRRTLGIGEKDALEIYVDGERIMLKKYEPACIFCGNAE 60
          MMKSTGIVRKVDELGRVVIPIELRRTLGIGEKDALEIYVDGERIMLKKYEPACIFCGNAE
Sbjct: 1  MMKSTGIVRKVDELGRVVIPIELRRTLGIGEKDALEIYVDGERIMLKKYEPACIFCGNAE 60

Query: 61 NVTYFKGKIVCHDCISAIPTPVTN 84
          NV+YFKGKIVCH C+S +P+PVT 
Sbjct: 61 NVSYFKGKIVCHICLSEMPSPVTK 84


>C0ZHC1.1 C0ZHC1_BREBN Transition state regulatory protein
          Length = 82

 Score =  144 bits (363), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 68/79 (86%), Positives = 75/79 (94%)

Query: 1  MMKSTGIVRKVDELGRVVIPIELRRTLGIGEKDALEIYVDGERIMLKKYEPACIFCGNAE 60
          MMKSTGIVRKVDELGRVVIPIELRRTLGI EKDALEIYVDGERI+LKKYEPACIFCGNA+
Sbjct: 1  MMKSTGIVRKVDELGRVVIPIELRRTLGIAEKDALEIYVDGERIILKKYEPACIFCGNAD 60

Query: 61 NVTYFKGKIVCHDCISAIP 79
           V++FKGKIVC DC++ +P
Sbjct: 61 KVSHFKGKIVCQDCLTEMP 79


>A4J0L1.1 A4J0L1_DESRM Transcriptional regulator, AbrB family
          Length = 86

 Score =  137 bits (345), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 64/81 (79%), Positives = 75/81 (92%)

Query: 2  MKSTGIVRKVDELGRVVIPIELRRTLGIGEKDALEIYVDGERIMLKKYEPACIFCGNAEN 61
          MKSTGIVRKVDELGRVVIPIELRRTLGI EKDALEIYVD E+I+L+KYEPAC+FCGNA +
Sbjct: 1  MKSTGIVRKVDELGRVVIPIELRRTLGIDEKDALEIYVDNEKIILRKYEPACVFCGNASD 60

Query: 62 VTYFKGKIVCHDCISAIPTPV 82
          VT++KGK+VCH+CI+A+   V
Sbjct: 61 VTHYKGKMVCHECIAAMGESV 81


>Q3A8W9.1 Q3A8W9_CARHZ Transcriptional regulator, AbrB family
          Length = 84

 Score =  134 bits (336), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 63/78 (80%), Positives = 71/78 (91%)

Query: 2  MKSTGIVRKVDELGRVVIPIELRRTLGIGEKDALEIYVDGERIMLKKYEPACIFCGNAEN 61
          MKSTGIVRKVDELGRVVIPIELRRTLGI EKDALEIYVD E+I+LKKYEPACIFCGNA N
Sbjct: 1  MKSTGIVRKVDELGRVVIPIELRRTLGIEEKDALEIYVDNEKIILKKYEPACIFCGNAAN 60

Query: 62 VTYFKGKIVCHDCISAIP 79
          V ++KGK++C DC+ A+ 
Sbjct: 61 VHHYKGKLICTDCLKALS 78


  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
   0.323    0.142    0.429 

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: 499,964,676
Number of extensions: 17575882
Number of successful extensions: 36705
Number of sequences better than 1.0e-05: 598
Number of HSP's gapped: 36712
Number of HSP's successfully gapped: 600
Length of query: 84
Length of database: 3,060,696,203
Length adjustment: 54
Effective length of query: 30
Effective length of database: 2,551,961,393
Effective search space: 76558841790
Effective search space used: 76558841790
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 126 (53.1 bits)