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= 0097.0012.p
         (272 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312737|ref|YP_003776829.1| transcription regulator protein...   285   4e-78
gi|300311599|ref|YP_003775691.1| transcription regulator protein...    64   1e-11
gi|300311761|ref|YP_003775853.1| GntR family transcription regul...    61   9e-11
gi|300311999|ref|YP_003776091.1| GntR family transcription regul...    60   1e-10

>gi|300312737|ref|YP_003776829.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 234

 Score =  285 bits (728), Expect = 4e-78,   Method: Compositional matrix adjust.
 Identities = 143/185 (77%), Positives = 162/185 (87%), Gaps = 1/185 (0%)

Query: 32  PVLSLSLSLSLSXITHATLSQRVYEDVRELLLAGQVRPGQKLTLKSLSEALGTSQMPVRE 91
           P L   LS ++  I HATLS+RVY+D+ EL+ AGQVRPGQKLTLK L++ALGTS MPVRE
Sbjct: 3   PTLIADLS-TMRKIQHATLSERVYQDLCELIQAGQVRPGQKLTLKGLADALGTSPMPVRE 61

Query: 92  AIRQLSAEGALEILPNRAVRVPLMTKDKFRELLKIRLALEGLAVEHAAQNISAEGLQAVA 151
           A+RQL+AEGALEILPNRA+RVPLMTK KFRELLKIRLALEGLA+EHAA++I A GL+ VA
Sbjct: 62  AVRQLAAEGALEILPNRAMRVPLMTKGKFRELLKIRLALEGLAIEHAARHIDAVGLEQVA 121

Query: 152 DLHDTLCIEMHRKKPNVDLIIRLNKQLHFAAYEGSGMATLVGLIESLWLQVGPVINLDLR 211
            LHDTL +EM RK+PNVDL+IRLNKQLHFAAY+GSGM TLV LI  LWLQVGPVINLDLR
Sbjct: 122 RLHDTLSVEMKRKRPNVDLVIRLNKQLHFAAYQGSGMPTLVDLIAGLWLQVGPVINLDLR 181

Query: 212 AGSRR 216
           AGSRR
Sbjct: 182 AGSRR 186


>gi|300311599|ref|YP_003775691.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 243

 Score = 63.9 bits (154), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 38/110 (34%), Positives = 64/110 (58%), Gaps = 3/110 (2%)

Query: 49  TLSQRVYEDVRELLLAGQVRPGQKLTLKSLSEALGTSQMPVREAIRQLSAEGALEILPNR 108
           TLS+ V+  ++  ++ G++ PG K++   L+   G S+ P+REAI +L  +  L  +P+ 
Sbjct: 16  TLSEHVFRKIQSAIVQGEIAPGSKISEPELARTYGISRGPLREAIHRLEGQNLLVRVPHV 75

Query: 109 AVRVPLMTKDKFRELLKIRLALEGLAVEHAAQNISA---EGLQAVADLHD 155
             RV  +T +   EL +IR +LEG+A   AAQ +S    + L+ V D H+
Sbjct: 76  GARVVSLTLEGLVELFQIRESLEGMACRLAAQRMSRAELDELRRVLDTHE 125


>gi|300311761|ref|YP_003775853.1| GntR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 213

 Score = 61.2 bits (147), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 34/93 (36%), Positives = 56/93 (60%)

Query: 53  RVYEDVRELLLAGQVRPGQKLTLKSLSEALGTSQMPVREAIRQLSAEGALEILPNRAVRV 112
           R+ E +R  ++ G++  G  L    +++   +S +PVREA RQL AEG +  LP R VRV
Sbjct: 14  RIAEVLRLRIIRGEIAGGAALRQDHVAQEFQSSHVPVREAFRQLEAEGLVLTLPRRGVRV 73

Query: 113 PLMTKDKFRELLKIRLALEGLAVEHAAQNISAE 145
            ++ +   +E  ++R +LE LA+ H+A+   AE
Sbjct: 74  TMVDRATVKENAEMRGSLEILALRHSARKFGAE 106


>gi|300311999|ref|YP_003776091.1| GntR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 222

 Score = 60.5 bits (145), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 48/180 (26%), Positives = 76/180 (42%), Gaps = 22/180 (12%)

Query: 46  THATLSQRVYEDVRELLLAGQVRPGQKLTLKSLSEALGTSQMPVREAIRQLSAEGALEIL 105
           T  T ++ + E + EL+   ++ PGQ L   SL+E  G S+ P+REA+ QL++ G +E+ 
Sbjct: 3   TPKTRAEALRESIEELIAVSKLSPGQHLDETSLAEEFGVSRTPIREALIQLASMGIVEMR 62

Query: 106 PNRAVRVPLMTKDKFRELLKIRLALEGLA----------VEHAAQNISAEGLQAVADLHD 155
           P R   V  +   +  E+ ++    E +            EHA    + +  QA  D +D
Sbjct: 63  PRRGAIVAEIGPQQLIEMFEVMAEFEAMCGRLAARRMTPAEHAELLAAHQACQAARDAND 122

Query: 156 TLCIEMHRKKPNVDLIIRLNKQLHFAAYEGSGMATLVGLIESLWLQVGPVINLDLRAGSR 215
                        D    LN+  H   Y GS    L     +L  ++ P   L LR   R
Sbjct: 123 P------------DAYFYLNEAFHDHIYAGSHNGFLADQARALHRRLRPYRRLQLRVRDR 170


  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    0.133    0.366 

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: 689,606
Number of extensions: 24668
Number of successful extensions: 134
Number of sequences better than 1.0e-08: 7
Number of HSP's gapped: 135
Number of HSP's successfully gapped: 7
Length of query: 272
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 188
Effective length of database: 1,222,130
Effective search space: 229760440
Effective search space used: 229760440
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: 130 (54.7 bits)