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= 0001.4470.p
         (244 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313880|ref|YP_003777972.1| transcription regulator protein...   457   e-130
gi|300312279|ref|YP_003776371.1| GntR family transcription regul...   136   2e-33

>gi|300313880|ref|YP_003777972.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 244

 Score =  457 bits (1176), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 224/244 (91%), Positives = 233/244 (95%)

Query: 1   MLDQTGVDARLPLYLQLRDQLAAQIRAQKWQPGQAIPSEAELSQTFQVAVGTVRRAIETL 60
           MLDQTGVDARLPLYLQLRD LA QIRAQKWQPGQ IPSEAELSQT+QVAVGTVRRAIETL
Sbjct: 1   MLDQTGVDARLPLYLQLRDLLATQIRAQKWQPGQPIPSEAELSQTYQVAVGTVRRAIETL 60

Query: 61  MSEGLVERTHGRGTFVRRARFDNSLFRFFRFEAADGRPLAPKSVIVSRKIIEAPRQVAEA 120
           M+EGLVERTHGRGTFVR+ARFDNSLFRFFRFE+ADGRPLAPKSVIVSRK++EAP Q AEA
Sbjct: 61  MAEGLVERTHGRGTFVRKARFDNSLFRFFRFESADGRPLAPKSVIVSRKLVEAPAQAAEA 120

Query: 121 LHLKPHGKVIELLRLRTVDGQPVLAENIYLCAQRFKALADKAPEQFGDLLYPLYERECGL 180
           L LKPH KVIEL RLR VDGQPVLAENIYLCAQRFKALADKAPE+FGDLLYPLYERECGL
Sbjct: 121 LQLKPHAKVIELHRLRMVDGQPVLAENIYLCAQRFKALADKAPEEFGDLLYPLYERECGL 180

Query: 181 IVASARETLTVETVTAAQARLLGLKEKTPVVVIERIAFGSDGQPLEWRQSRGAGSKFRYS 240
           IVASARETLTVETVTAAQA+LLGL EKTPVV+IERIAFGSDGQPLEWRQSRGA SKFRYS
Sbjct: 181 IVASARETLTVETVTAAQAKLLGLTEKTPVVMIERIAFGSDGQPLEWRQSRGAASKFRYS 240

Query: 241 AEIR 244
           AEIR
Sbjct: 241 AEIR 244


>gi|300312279|ref|YP_003776371.1| GntR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 334

 Score =  136 bits (342), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 78/232 (33%), Positives = 126/232 (54%)

Query: 12  PLYLQLRDQLAAQIRAQKWQPGQAIPSEAELSQTFQVAVGTVRRAIETLMSEGLVERTHG 71
           PLY Q++  +  ++ A +W+PG+ IPSE EL   F+V+ GTVR+AI+ L +E LV R  G
Sbjct: 102 PLYQQIKALIMQRLEAGEWKPGELIPSEVELGSRFKVSQGTVRKAIDELAAENLVVRRQG 161

Query: 72  RGTFVRRARFDNSLFRFFRFEAADGRPLAPKSVIVSRKIIEAPRQVAEALHLKPHGKVIE 131
           +GTFV       + FRF R  A    P  P++ I+  K + A  +VA  L +K    VI 
Sbjct: 162 KGTFVATHHETQAQFRFLRLMADSDEPQRPENKIIEVKRVRASAEVARQLDMKSGDSVIF 221

Query: 132 LLRLRTVDGQPVLAENIYLCAQRFKALADKAPEQFGDLLYPLYERECGLIVASARETLTV 191
           + R+++ +G P++ E+I+L    FK L  +   ++   LY L+E E G  +  A E +  
Sbjct: 222 IRRVKSFNGVPIILEDIWLPGAIFKGLTAERLVEYRGPLYGLFESEFGTRMIRAEERIRA 281

Query: 192 ETVTAAQARLLGLKEKTPVVVIERIAFGSDGQPLEWRQSRGAGSKFRYSAEI 243
                  A  LG+  +TP++ +ER +F    +P+E R+     +   Y +E+
Sbjct: 282 VGADPDAAEFLGVTPQTPLLSVERASFTYGDKPVEMRRGLYLTTNHHYQSEL 333


  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
   0.322    0.136    0.390 

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: 750,944
Number of extensions: 29572
Number of successful extensions: 117
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 117
Number of HSP's successfully gapped: 2
Length of query: 244
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 161
Effective length of database: 1,226,865
Effective search space: 197525265
Effective search space used: 197525265
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)