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= 0011.0004.p
         (150 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310934|ref|YP_003775026.1| Pb-specific transcription regul...   232   1e-62
gi|300310936|ref|YP_003775028.1| transcription regulator protein...    77   6e-16

>gi|300310934|ref|YP_003775026.1| Pb-specific transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 150

 Score =  232 bits (591), Expect = 1e-62,   Method: Compositional matrix adjust.
 Identities = 120/150 (80%), Positives = 134/150 (89%)

Query: 1   MDALKIGELAARTDCPVETIRYYEREALLPAPTRSQGNYRLYGDRHVERLQFIRHCRSLD 60
           MD LKIGELAA+ DCPVET+RYYE+EALLP PTRSQ NYRLYG+RHVERLQFIRHCRSLD
Sbjct: 1   MDTLKIGELAAKADCPVETVRYYEKEALLPEPTRSQANYRLYGERHVERLQFIRHCRSLD 60

Query: 61  MTLDEVRSLLQFRDAPEENCGEVNALLDKHIGHVAQRIAELKKLQAQLKSLRAQCDTAQA 120
           MTLDEVR LL+ RDAPE++CG VNALLDKHIGHVA+RIA+L+ LQAQL+ LRAQC+ AQ 
Sbjct: 61  MTLDEVRELLRLRDAPEQDCGGVNALLDKHIGHVAERIAQLQALQAQLRQLRAQCEVAQP 120

Query: 121 TRDCGILQGLANMSDDSKPVNLGSHGSGCH 150
            RDCGILQGLA++ DD KP NLGSHG GCH
Sbjct: 121 ARDCGILQGLASLPDDLKPANLGSHGGGCH 150


>gi|300310936|ref|YP_003775028.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 141

 Score = 77.0 bits (188), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 44/132 (33%), Positives = 67/132 (50%), Gaps = 1/132 (0%)

Query: 4   LKIGELAARTDCPVETIRYYEREALLPAPTRSQGNYRLYGDRHVERLQFIRHCRSLDMTL 63
           + IGE A+ +    + IR+YE   L+P  +R+   YR+YG R V  L+FIR  R L  ++
Sbjct: 1   MNIGEAASASGVSAKMIRHYEETGLIPRASRTDAGYRVYGQRDVHLLRFIRQARQLGFSM 60

Query: 64  DEVRSLLQFRDAPEENCGEVNALLDKHIGHVAQRIAELKKLQAQLKSLRAQCDTAQATRD 123
            +V  L+           +V  L   HI  + QRI+EL+ ++A L+ L   C       D
Sbjct: 61  AQVSDLIGLWLDQSRPSRKVKQLAQTHIAELEQRISELQGMKATLEQLVQGCH-GDNRPD 119

Query: 124 CGILQGLANMSD 135
           C IL+ L   +D
Sbjct: 120 CPILEALGGDAD 131


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.320    0.135    0.401 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 430,651
Number of extensions: 15419
Number of successful extensions: 63
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 63
Number of HSP's successfully gapped: 2
Length of query: 150
Length of database: 1,619,870
Length adjustment: 77
Effective length of query: 73
Effective length of database: 1,255,275
Effective search space: 91635075
Effective search space used: 91635075
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: 126 (53.1 bits)