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= 0001.0526.p
         (261 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309880|ref|YP_003773972.1| IclR family transcription regul...   346   1e-96
gi|300309881|ref|YP_003773973.1| transcription regulator protein...   125   4e-30
gi|300310493|ref|YP_003774585.1| transcription regulator protein...    63   2e-11

>gi|300309880|ref|YP_003773972.1| IclR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 257

 Score =  346 bits (888), Expect = 1e-96,   Method: Compositional matrix adjust.
 Identities = 182/252 (72%), Positives = 211/252 (83%)

Query: 1   MTASPAKTQRGIQSVEVAGRLLQALAQARQPLPLVELAAAAELSSAQAHTYLVSLLRLGL 60
           M   PAKTQRGIQSVEVAGRLLQALA ARQP+PLV LAAAA L+SAQAHTYLVSLLRLGL
Sbjct: 1   MPQPPAKTQRGIQSVEVAGRLLQALAAARQPMPLVALAAAAGLTSAQAHTYLVSLLRLGL 60

Query: 61  IKRTPGDGRYEAGPLALRLGMARLAQEPAYRLALPQVQQLSQETGLSVALTLPTPEGPTI 120
           IKRTP +G YEAGPLALRLG+ARL+Q+PAYRLA+ Q Q LS  TG SVA++LPTPEGPTI
Sbjct: 61  IKRTPAEGHYEAGPLALRLGVARLSQQPAYRLAIAQAQHLSAATGCSVAVSLPTPEGPTI 120

Query: 121 VHYAHAGKPLHVNLHVGTVMALSETATGRTYCAYTDPAAWQGLWEAQHPGQSRARLKAFH 180
           VHYAHAGK LH+NLHVG+VMAL++TATGRT CA+  P  W   WE QHP  SRAR++ F 
Sbjct: 121 VHYAHAGKSLHLNLHVGSVMALADTATGRTCCAFQPPQQWLPAWERQHPEASRARIRQFQ 180

Query: 181 EELETIRKRGMERAVDLPSPGVTSLCMPLLEETQQLLLLVTVIGSSGVIDPAWRGSLARQ 240
            ELE IR+RG+ERA+D PSPGV+SLCMPLL++ Q L LL+TVIG SG ID  WRG++AR+
Sbjct: 181 AELEAIRQRGLERAIDAPSPGVSSLCMPLLDQDQVLSLLLTVIGPSGSIDTGWRGAVARE 240

Query: 241 LRECIEAIATTL 252
           LR CI +I++ L
Sbjct: 241 LRACIASISSQL 252


>gi|300309881|ref|YP_003773973.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 282

 Score =  125 bits (313), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 100/258 (38%), Positives = 149/258 (57%), Gaps = 14/258 (5%)

Query: 4   SPAKTQRGIQSVEVAGRLLQALAQARQPLPLVELAAAAELSSAQAHTYLVSLLRLGLIKR 63
           S A+ QRGIQS++  G+LL AL  A +PL L +LA  A + +A+A  +LVSL ++GL+ R
Sbjct: 13  SDARGQRGIQSLDNTGQLLDALLAAGRPLALGDLARLAGMPAAKAFPHLVSLQKIGLLMR 72

Query: 64  TPGDGRYEAGPLALRLGMARLAQEPAYRLALPQVQQLSQETGLSVALTLPTPEGPTIVHY 123
               G +  G L L LG+A L +    R A  +V  L+QETGLSVAL +  P GPT+V  
Sbjct: 73  D-AQGNFLPGALGLELGLAALQRLSPLREAEAEVAALAQETGLSVALAVAGPLGPTVVRL 131

Query: 124 AHAGKPLHVNLHVGTVMALSETATGRTYCAYTDPA-------AWQGLWEAQHPGQSRARL 176
             + +P HV+L +GTV+++  TA GR  CA   PA       A  G+       +S    
Sbjct: 132 EESSRPQHVSLRIGTVLSMVHTAIGRV-CAACAPADGLPGALALDGIRMEGAALESVCHA 190

Query: 177 K-----AFHEELETIRKRGMERAVDLPSPGVTSLCMPLLEETQQLLLLVTVIGSSGVIDP 231
                 A+  +L  IR +GM++A+  P PG+ +L  P+     QL L++ V+GSSG  D 
Sbjct: 191 DGSLHAAYAAQLAKIRAQGMDQALGHPVPGINTLAAPVFNHAGQLALVMAVMGSSGSYDT 250

Query: 232 AWRGSLARQLRECIEAIA 249
           A +G++A++LR   +A++
Sbjct: 251 ALQGAVAQRLRSAAQAVS 268


>gi|300310493|ref|YP_003774585.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 263

 Score = 63.2 bits (152), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 61/253 (24%), Positives = 113/253 (44%), Gaps = 17/253 (6%)

Query: 13  QSVEVAGRLLQALAQARQPLPLVELAAAAELSSAQAHTYLVSLLRLGLIKRTPGDGRYEA 72
           QS+E    +L+A     + + L ++A+A  +S + A   + +L  LG I + P   RY+ 
Sbjct: 15  QSLEKGLAVLRAFNAQHRTMTLGDVASATGISKSSAQRMVHTLETLGYICKHPKTRRYQL 74

Query: 73  GPLALRLGMARLAQEPAYRLALPQVQQLSQETGLSVALTLPTPEGPTIVHYAHAGKPLHV 132
            P  + +G   LA +    +A P + +L+  TG +V LT P       V    A K + +
Sbjct: 75  TPKVMEVGYNYLAADILVDVANPFLSELANITGETVNLTEPYDGEMVYVARFVASKFIPI 134

Query: 133 NLHVGTVMALSETATGRTYCAYTDPAAWQGLWEAQ----HPGQSRARLKAFHEELETIRK 188
           ++ +G+ + +  TA+GR Y +  +P   Q + E+     H   +R  ++   + L   R+
Sbjct: 135 HMPIGSRIPMYCTASGRAYLSALEPEEAQAILESSERTVHTPHTRTDVEDIMQLLAASRE 194

Query: 189 RGMERAVDLPSPGVTSLCMPLLEETQQLLLLVTVIGSSGVIDPAWRGSLARQLR------ 242
           RG     +    G  S+  P+    ++       + S  V+ P  R S+    +      
Sbjct: 195 RGFASNREELFLGDMSIASPVFNSERK------PVASVHVVAPTSRWSVEEAEKKLGPLV 248

Query: 243 -ECIEAIATTLAT 254
            EC  AI+ ++ T
Sbjct: 249 LECARAISNSVRT 261


  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
   0.318    0.131    0.380 

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: 719,175
Number of extensions: 27402
Number of successful extensions: 127
Number of sequences better than 1.0e-08: 5
Number of HSP's gapped: 126
Number of HSP's successfully gapped: 5
Length of query: 261
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 178
Effective length of database: 1,226,865
Effective search space: 218381970
Effective search space used: 218381970
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: 129 (54.3 bits)