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= 0475.0001.p
         (224 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

C3A8J3.1 C3A8J3_BACMY DNA-binding response regulator                  416   e-115
C2XWM0.1 C2XWM0_BACCE DNA-binding response regulator                  416   e-114
C2PYI2.1 C2PYI2_BACCE DNA-binding response regulator                  412   e-113
B3KBY2.1 B3KBY2_9BACI Response regulator receiver                     411   e-113
C3FVV9.1 C3FVV9_BACTB DNA-binding response regulator                  410   e-113

>C3A8J3.1 C3A8J3_BACMY DNA-binding response regulator
          Length = 233

 Score =  416 bits (1069), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 204/224 (91%), Positives = 209/224 (93%)

Query: 1   MPTILVADDDANIRELVSLFLRNDGFQTAEAADGEEALNVYASTQADLVVLDIMMPVMDG 60
           MPTILVADDDANIRELV LFLRNDGF TAEAADG+EAL VY ST  DLVVLDIMMP+MDG
Sbjct: 10  MPTILVADDDANIRELVCLFLRNDGFATAEAADGKEALAVYISTNVDLVVLDIMMPIMDG 69

Query: 61  WTLCKELRRINPDLPLLMLTARGETWEKVKGFELGTDDYLTKPFDPLELTARVRALLKRY 120
           WTL KELRR NPDLPLLMLTARGETWEKVKGFELGTDDYLTKPFDPLELT RVRALLKRY
Sbjct: 70  WTLSKELRRANPDLPLLMLTARGETWEKVKGFELGTDDYLTKPFDPLELTVRVRALLKRY 129

Query: 121 RIGSAQKIQFGNVILDRQTYKVMRGTESLTLPLKEFELLYKLAGTPGQVYTRGQLIDQIW 180
           +IGS QKI FGNVILDRQTYKVM GTESLTLPLKEFELLYKLAGTPGQVYTR QLIDQIW
Sbjct: 130 KIGSTQKIHFGNVILDRQTYKVMNGTESLTLPLKEFELLYKLAGTPGQVYTRVQLIDQIW 189

Query: 181 GIDYAGDDRTIDVHIKRLRERFADTPDFRIETVRGLGYRLEAHE 224
           GIDYAGDDRT+DVHIKRLRERFA TPDFRIETVRGLGYRLE +E
Sbjct: 190 GIDYAGDDRTVDVHIKRLRERFATTPDFRIETVRGLGYRLEVYE 233


>C2XWM0.1 C2XWM0_BACCE DNA-binding response regulator
          Length = 236

 Score =  416 bits (1068), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 204/224 (91%), Positives = 209/224 (93%)

Query: 1   MPTILVADDDANIRELVSLFLRNDGFQTAEAADGEEALNVYASTQADLVVLDIMMPVMDG 60
           MPTILVADDDANIRELV LFLRNDGF TAEAADG+EAL VY ST  DLVVLDIMMP+MDG
Sbjct: 13  MPTILVADDDANIRELVCLFLRNDGFATAEAADGKEALAVYISTNVDLVVLDIMMPIMDG 72

Query: 61  WTLCKELRRINPDLPLLMLTARGETWEKVKGFELGTDDYLTKPFDPLELTARVRALLKRY 120
           WTL KELRR NPDLPLLMLTARGETWEKVKGFELGTDDYLTKPFDPLELT RVRALLKRY
Sbjct: 73  WTLSKELRRANPDLPLLMLTARGETWEKVKGFELGTDDYLTKPFDPLELTVRVRALLKRY 132

Query: 121 RIGSAQKIQFGNVILDRQTYKVMRGTESLTLPLKEFELLYKLAGTPGQVYTRGQLIDQIW 180
           +IGS QKI FGNVILDRQTYKVM GTESLTLPLKEFELLYKLAGTPGQVYTR QLIDQIW
Sbjct: 133 KIGSTQKIHFGNVILDRQTYKVMNGTESLTLPLKEFELLYKLAGTPGQVYTRVQLIDQIW 192

Query: 181 GIDYAGDDRTIDVHIKRLRERFADTPDFRIETVRGLGYRLEAHE 224
           GIDYAGDDRT+DVHIKRLRERFA TPDFRIETVRGLGYRLE +E
Sbjct: 193 GIDYAGDDRTVDVHIKRLRERFATTPDFRIETVRGLGYRLEVYE 236


>C2PYI2.1 C2PYI2_BACCE DNA-binding response regulator
          Length = 233

 Score =  412 bits (1059), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 202/224 (90%), Positives = 208/224 (92%)

Query: 1   MPTILVADDDANIRELVSLFLRNDGFQTAEAADGEEALNVYASTQADLVVLDIMMPVMDG 60
           MPTILVADDDANIRELV LFLRNDGF TAEAADG+EAL VY ST  DLVVLDIMMP+MDG
Sbjct: 10  MPTILVADDDANIRELVCLFLRNDGFATAEAADGKEALAVYISTNVDLVVLDIMMPIMDG 69

Query: 61  WTLCKELRRINPDLPLLMLTARGETWEKVKGFELGTDDYLTKPFDPLELTARVRALLKRY 120
           WTL KELRR NPDLPLLMLTARGETWEKVKGFELGTDDYLTKPFDPLELT RVRALLKRY
Sbjct: 70  WTLSKELRRANPDLPLLMLTARGETWEKVKGFELGTDDYLTKPFDPLELTVRVRALLKRY 129

Query: 121 RIGSAQKIQFGNVILDRQTYKVMRGTESLTLPLKEFELLYKLAGTPGQVYTRGQLIDQIW 180
           +IGS Q I  GNVILDRQTYKVM+GTESLTLPLKEFELLYKLAGTPGQVYTR QLIDQIW
Sbjct: 130 KIGSTQTIHLGNVILDRQTYKVMKGTESLTLPLKEFELLYKLAGTPGQVYTRVQLIDQIW 189

Query: 181 GIDYAGDDRTIDVHIKRLRERFADTPDFRIETVRGLGYRLEAHE 224
           GIDYAGDDRT+DVHIKRLRERFA TPDFRIETVRGLGYRLE +E
Sbjct: 190 GIDYAGDDRTVDVHIKRLRERFATTPDFRIETVRGLGYRLEVYE 233


>B3KBY2.1 B3KBY2_9BACI Response regulator receiver
          Length = 224

 Score =  411 bits (1056), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 201/224 (89%), Positives = 208/224 (92%)

Query: 1   MPTILVADDDANIRELVSLFLRNDGFQTAEAADGEEALNVYASTQADLVVLDIMMPVMDG 60
           MPTILVADDDANIRELV LFLRNDGF T EAADG+EAL+VY ST  DLVVLDIMMP+MDG
Sbjct: 1   MPTILVADDDANIRELVCLFLRNDGFTTVEAADGKEALSVYGSTPVDLVVLDIMMPMMDG 60

Query: 61  WTLCKELRRINPDLPLLMLTARGETWEKVKGFELGTDDYLTKPFDPLELTARVRALLKRY 120
           WTLCKELRR NPDLPLLMLTARGETWEKVKGFELGTDDYLTKPFDPLELT RV+ALLKRY
Sbjct: 61  WTLCKELRRANPDLPLLMLTARGETWEKVKGFELGTDDYLTKPFDPLELTVRVKALLKRY 120

Query: 121 RIGSAQKIQFGNVILDRQTYKVMRGTESLTLPLKEFELLYKLAGTPGQVYTRGQLIDQIW 180
           RIGS Q IQFGNVILDRQTYKV  G E+LTLPLKEFELLYKLAGTPGQVYTR QLIDQIW
Sbjct: 121 RIGSTQTIQFGNVILDRQTYKVSSGPETLTLPLKEFELLYKLAGTPGQVYTREQLIDQIW 180

Query: 181 GIDYAGDDRTIDVHIKRLRERFADTPDFRIETVRGLGYRLEAHE 224
           GIDYAGDDRT+DVHIKRLRERFA TPDFRIETVRGLGYRLE +E
Sbjct: 181 GIDYAGDDRTVDVHIKRLRERFATTPDFRIETVRGLGYRLEVYE 224


>C3FVV9.1 C3FVV9_BACTB DNA-binding response regulator
          Length = 233

 Score =  410 bits (1055), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 201/224 (89%), Positives = 207/224 (92%)

Query: 1   MPTILVADDDANIRELVSLFLRNDGFQTAEAADGEEALNVYASTQADLVVLDIMMPVMDG 60
           MPTILVADDDANIRELV LFLRNDGF TAEAADG+EAL VY S   DLVVLDIMMP+MDG
Sbjct: 10  MPTILVADDDANIRELVCLFLRNDGFATAEAADGKEALAVYISKNIDLVVLDIMMPIMDG 69

Query: 61  WTLCKELRRINPDLPLLMLTARGETWEKVKGFELGTDDYLTKPFDPLELTARVRALLKRY 120
           WTL KELRR NPDLPLLMLTARGETWEKVKGFELGTDDYLTKPFDPLELT RVRALLKRY
Sbjct: 70  WTLSKELRRANPDLPLLMLTARGETWEKVKGFELGTDDYLTKPFDPLELTVRVRALLKRY 129

Query: 121 RIGSAQKIQFGNVILDRQTYKVMRGTESLTLPLKEFELLYKLAGTPGQVYTRGQLIDQIW 180
           +IGS Q I  GNVILDRQTYKVM+GTESLTLPLKEFELLYKLAGTPGQVYTR QLIDQIW
Sbjct: 130 KIGSTQTIHLGNVILDRQTYKVMKGTESLTLPLKEFELLYKLAGTPGQVYTRVQLIDQIW 189

Query: 181 GIDYAGDDRTIDVHIKRLRERFADTPDFRIETVRGLGYRLEAHE 224
           GIDYAGDDRT+DVHIKRLRERFA TPDFRIETVRGLGYRLE +E
Sbjct: 190 GIDYAGDDRTVDVHIKRLRERFATTPDFRIETVRGLGYRLEVYE 233


  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
   0.322    0.140    0.413 

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: 1,346,070,995
Number of extensions: 55498909
Number of successful extensions: 237803
Number of sequences better than 1.0e-05: 34212
Number of HSP's gapped: 202893
Number of HSP's successfully gapped: 34498
Length of query: 224
Length of database: 3,060,696,203
Length adjustment: 131
Effective length of query: 93
Effective length of database: 1,826,543,238
Effective search space: 169868521134
Effective search space used: 169868521134
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: 129 (54.3 bits)