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= 0298.0005.p
         (137 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

B1D759.1 B1D759_9BACL Transcriptional regulator, MerR family          178   2e-43
B1DCH6.1 B1DCH6_9BACL Transcriptional regulator, MerR family          170   4e-41
A6LV08.1 A6LV08_CLOB8 Putative transcriptional regulator, MerR f...    81   3e-14
B4X260.1 B4X260_9GAMM MerR, DNA binding family                         71   4e-11
Q6XN14.1 Q6XN14_RHOER Putative MerR-family regulator                   69   1e-10

>B1D759.1 B1D759_9BACL Transcriptional regulator, MerR family
          Length = 137

 Score =  178 bits (451), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 87/128 (67%), Positives = 100/128 (78%)

Query: 1   MKIQELADKMGLTIHTIRFYEKEGLLDDRHVRRESNNYRNYSEEAVGRLKLIKKFQSIGC 60
           MKIQELAD MGLT HTIRFYEKEGLLD RH++RE NNYRNYS+EA+GRLKLIKKFQ IGC
Sbjct: 1   MKIQELADLMGLTPHTIRFYEKEGLLDSRHIQREKNNYRNYSDEAIGRLKLIKKFQGIGC 60

Query: 61  SLAELKEVLQDHDTNAHTNLQIIDWIRGXXXXXXXXXXXYDQMLDTLNKMLEYRTLLMDD 120
           SLAELK +LQD+DTNA TN ++I+WI             YD ML TLN ML YR LL +D
Sbjct: 61  SLAELKTILQDYDTNARTNQEVIEWILQKINEIERKKDEYDHMLVTLNWMLTYRKLLTED 120

Query: 121 PQKAQEML 128
           PQ+A+ M+
Sbjct: 121 PQEAEAMM 128


>B1DCH6.1 B1DCH6_9BACL Transcriptional regulator, MerR family
          Length = 137

 Score =  170 bits (430), Expect = 4e-41,   Method: Compositional matrix adjust.
 Identities = 79/133 (59%), Positives = 101/133 (75%)

Query: 1   MKIQELADKMGLTIHTIRFYEKEGLLDDRHVRRESNNYRNYSEEAVGRLKLIKKFQSIGC 60
           MKIQELA+ MGL++H IRFYEKEGLLD+RHV+RE NNYR+Y+E+A+ RL++IKKFQ +GC
Sbjct: 1   MKIQELAEMMGLSVHAIRFYEKEGLLDNRHVQREKNNYRSYTEDAIERLRMIKKFQGLGC 60

Query: 61  SLAELKEVLQDHDTNAHTNLQIIDWIRGXXXXXXXXXXXYDQMLDTLNKMLEYRTLLMDD 120
           SL ELKE+ QD DTN  TN QII+WI             YDQ+L+TL+ M+EYR +LM D
Sbjct: 61  SLTELKELFQDQDTNTKTNQQIIEWIGQKKVEIERKKAEYDQILETLDWMIEYRKVLMKD 120

Query: 121 PQKAQEMLNTWHA 133
           P++A+ ML    A
Sbjct: 121 PEQAEAMLKALKA 133


>A6LV08.1 A6LV08_CLOB8 Putative transcriptional regulator, MerR family
          Length = 130

 Score = 80.9 bits (198), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 37/73 (50%), Positives = 54/73 (73%)

Query: 1  MKIQELADKMGLTIHTIRFYEKEGLLDDRHVRRESNNYRNYSEEAVGRLKLIKKFQSIGC 60
          MKI E++ K GL+I TIRFYEKEGL+ +++V R +NNYR+YS + +  L +IK   S+G 
Sbjct: 1  MKINEVSKKTGLSISTIRFYEKEGLIPEKYVSRNANNYRSYSVDIIDYLLMIKTVHSVGF 60

Query: 61 SLAELKEVLQDHD 73
          SL E+KE+ + +D
Sbjct: 61 SLREIKEIQKSND 73


>B4X260.1 B4X260_9GAMM MerR, DNA binding family
          Length = 127

 Score = 70.9 bits (172), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 33/69 (47%), Positives = 53/69 (76%), Gaps = 2/69 (2%)

Query: 1  MKIQELADKMGLTIHTIRFYEKEGLLDDRHVRRESNNYRNYSEEAVGRLKLIKKFQSIGC 60
          M+I EL  + G++ HT+R+YEKEGLL +  V R  NNYR+YS++AV R+ ++++ +++G 
Sbjct: 1  MRIAELEQRTGVSRHTLRYYEKEGLLLE--VGRRGNNYRDYSDKAVQRVGMVRQLKALGF 58

Query: 61 SLAELKEVL 69
          SL E++EVL
Sbjct: 59 SLKEIREVL 67


>Q6XN14.1 Q6XN14_RHOER Putative MerR-family regulator
          Length = 152

 Score = 68.9 bits (167), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 32/84 (38%), Positives = 52/84 (61%), Gaps = 2/84 (2%)

Query: 1  MKIQELADKMGLTIHTIRFYEKEGLLDDRHVRRESNNYRNYSEEAVGRLKLIKKFQSIGC 60
          +KI ELA + G+   T+RFYE  G++      R+SN YR+Y  E++ RL+ ++  QS G 
Sbjct: 13 VKIGELAARSGVAPKTLRFYEDSGVIPVPV--RKSNGYRDYGPESLARLRFVRSAQSAGF 70

Query: 61 SLAELKEVLQDHDTNAHTNLQIID 84
          +L E++E+L  HD  A    Q+++
Sbjct: 71 TLREIREILTTHDRGAAPCEQVVE 94


  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
   0.318    0.134    0.389 

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: 682,958,825
Number of extensions: 21339890
Number of successful extensions: 66614
Number of sequences better than 1.0e-05: 410
Number of HSP's gapped: 69626
Number of HSP's successfully gapped: 410
Length of query: 137
Length of database: 3,060,696,203
Length adjustment: 101
Effective length of query: 36
Effective length of database: 2,109,173,688
Effective search space: 75930252768
Effective search space used: 75930252768
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 125 (52.8 bits)