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= 0028.0071.p
         (194 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312791|ref|YP_003776883.1| transcription regulator protein...    94   9e-21
gi|300312793|ref|YP_003776885.1| TetR family transcription regul...    60   1e-10

>gi|300312791|ref|YP_003776883.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 190

 Score = 93.6 bits (231), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 66/179 (36%), Positives = 96/179 (53%), Gaps = 7/179 (3%)

Query: 6   RSDAVQNRERILTVALAELI-RSAEVPLSAIAKKAGVGQGTFYRHFPTREALVMEVYRHE 64
           R+DA +NRERIL  A    + R A+  L  IAK+A VG GT YR FPTREAL+       
Sbjct: 14  RADAARNRERILAAAEEVFLERGADASLDDIAKRAKVGIGTLYRRFPTREALLAATNDER 73

Query: 65  MSQVVEFAKYLLETRAPDQALREWMNRLAEYAITKAGLAEAIRLASVSKECAPGTGGYAS 124
           +  + E ++   +   PD ++R ++  L  +A    GLA A  L +V K   PG    AS
Sbjct: 74  LMALTEASRRRDDKLDPDASVRAFIKDLVAHACHYRGLAAA--LGTVLKSGTPGC--RAS 129

Query: 125 VIAAAQMLLDANEKAGTIRAGITADDFFLAIAGI-WQIDANADWRPRLAWLMDLVMEGL 182
              A ++LL A +KAG IR  ++ DD    +  I   I+  +  + R+A L DL ++G+
Sbjct: 130 GEEARRLLLRA-QKAGAIRKDVSVDDLVCMVTAISLSIEQGSTTKSRIAHLTDLFLDGV 187


>gi|300312793|ref|YP_003776885.1| TetR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 188

 Score = 59.7 bits (143), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 46/154 (29%), Positives = 72/154 (46%), Gaps = 2/154 (1%)

Query: 6   RSDAVQNRERILTVALAELI-RSAEVPLSAIAKKAGVGQGTFYRHFPTREALVMEVYRHE 64
           R+DA +N + +L VA    + + ++  L  IA++A VG GT YRHFPTREAL+  + R  
Sbjct: 2   RADAKKNYDHLLNVARTVFMEQGSDASLRDIARRAEVGLGTLYRHFPTREALLEALLRSS 61

Query: 65  MSQVVEFAKYLLETRAPDQALREWMNRLAEYAITKAGLAEAIRLASVSKECAPGTGGYAS 124
              + E A  L        AL EW+  +  +     G+  A  ++ +    +       S
Sbjct: 62  FEALAERADELQAADDSAAALMEWLQEIIAFTHEHRGVI-APMVSVIEDHESALHASCVS 120

Query: 125 VIAAAQMLLDANEKAGTIRAGITADDFFLAIAGI 158
           + AA   LL   +  G  RA +   + F  IA +
Sbjct: 121 LRAAGAALLSRAQADGKARADLDGAELFDLIAAL 154


  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    0.132    0.384 

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: 628,665
Number of extensions: 24838
Number of successful extensions: 86
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 84
Number of HSP's successfully gapped: 2
Length of query: 194
Length of database: 1,619,870
Length adjustment: 80
Effective length of query: 114
Effective length of database: 1,241,070
Effective search space: 141481980
Effective search space used: 141481980
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: 128 (53.9 bits)