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= 0020.0013.p
         (539 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309989|ref|YP_003774081.1| transcription regulator protein...  1038   0.0  
gi|300311339|ref|YP_003775431.1| CheY chemotaxis protein [Herbas...    73   5e-14
gi|300310884|ref|YP_003774976.1| chemotaxis regulator protein [H...    60   6e-10

>gi|300309989|ref|YP_003774081.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 542

 Score = 1038 bits (2683), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 510/539 (94%), Positives = 529/539 (98%)

Query: 1   VPFSHISALRCLVIDDMPTMRQNIRMHLGQLGVTKVDQAATPDEAIRFVQSGTYDLIICD 60
           VPFSHISALR L+IDDMPTMRQNIRMHLGQLGVTKVDQAATPDEAIRFVQSG YDLIICD
Sbjct: 4   VPFSHISALRSLIIDDMPTMRQNIRMHLGQLGVTKVDQAATPDEAIRFVQSGNYDLIICD 63

Query: 61  YNLNKESNGQQLLEFFRTQNMLSPTCMFIMVTAESGYNLVASAAEFQPDAYMLKPLTASR 120
           YNLNKESNGQQLLEFFRTQNMLSPTCMFIMVTAESGYNLVASAAEFQPDAYMLKPLTASR
Sbjct: 64  YNLNKESNGQQLLEFFRTQNMLSPTCMFIMVTAESGYNLVASAAEFQPDAYMLKPLTASR 123

Query: 121 IAERVDRLLEKQHAMLPVTEKMKRKDITGAIIECDNVLKSAPKWIVEIMKTKGTLLIEQR 180
           IAERVDRLLEKQHAMLPVTEKMKRKDI+GAI ECDNVLK+APKWIVEIMKTKGTLLIEQR
Sbjct: 124 IAERVDRLLEKQHAMLPVTEKMKRKDISGAIAECDNVLKAAPKWIVEIMKTKGTLLIEQR 183

Query: 181 RIDEAREVYKQALAMRDDLVWAKIGLARCNIVAGQMDDARVIVQDVLAQNKQFIAAYDLM 240
           R+DEAREVYKQAL MRDDLVWAKIGLARCNIVAGQMDDAR IV+DVLAQNKQFIAAYDL+
Sbjct: 184 RVDEAREVYKQALGMRDDLVWAKIGLARCNIVAGQMDDARAIVEDVLAQNKQFIAAYDLL 243

Query: 241 AQIDEAQGNQEGALEALTKSSEIIPSARRSRLVGDVAYRSGHLDQAREAYDKVLKHTKGS 300
           AQIDEAQGNQEGALEALT+SSEIIPSARRSRLVGDVAYRSGHLDQAREAYDKVLKHTKGS
Sbjct: 244 AQIDEAQGNQEGALEALTRSSEIIPSARRSRLVGDVAYRSGHLDQAREAYDKVLKHTKGS 303

Query: 301 LTAQPTDLLSLAQVHIDSGDPDAALRLLESAPRRYEESNIFVSAQAAVQAQAYVQLGDTI 360
           LTAQPTDLLSLAQVHIDSGD DAALRLLESAPRRYEES +F+SAQAAVQAQAYVQLGDTI
Sbjct: 304 LTAQPTDLLSLAQVHIDSGDADAALRLLESAPRRYEESKLFISAQAAVQAQAYVQLGDTI 363

Query: 361 SAQQAFETARQAAGKEASDTATLALAKAAFSMGKDEEGAKLIAEAVKSDHENKTLQMLAR 420
           SAQQAFETARQAAG+E SD ATLALAKAAFSMG+DEEG+KLIA+AVKSDHENKTL MLAR
Sbjct: 364 SAQQAFETARQAAGEETSDMATLALAKAAFSMGRDEEGSKLIADAVKSDHENKTLLMLAR 423

Query: 421 KVLADTGRANLAEELIDGAVKHCMSIIAEANALMRSAKPDESLARLEEALASMPENTGVL 480
           KVLADTGRANLA+EL+DGAVKHCMS+IAEANALMRSAKPDESLA+LEEALASMPENTGVL
Sbjct: 424 KVLADTGRANLADELVDGAVKHCMSVIAEANALMRSAKPDESLAKLEEALASMPENTGVL 483

Query: 481 LAAAQLHLLWMSQRGWNEEYVKRVRRYLATLDRLIPGNDRVAKMHKFLRDTLTKVAPKS 539
           LA+AQLHLLWMSQRGWNEEYVKRVRRYLATLDRLIPGNDRVAKMHKFLRDTL+KVAPKS
Sbjct: 484 LASAQLHLLWMSQRGWNEEYVKRVRRYLATLDRLIPGNDRVAKMHKFLRDTLSKVAPKS 542


>gi|300311339|ref|YP_003775431.1| CheY chemotaxis protein
           [Herbaspirillum seropedicae SmR1]
          Length = 131

 Score = 73.2 bits (178), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 41/125 (32%), Positives = 75/125 (60%), Gaps = 2/125 (1%)

Query: 10  RCLVIDDMPTMRQNIRMHLGQLGVTKVDQAATPDEAIRFVQSGTYDLIICDYNLNKESNG 69
           + LV+DD  TMR+ +R  L +LG T VD+A    +A++ ++S  +D ++ D+N+    +G
Sbjct: 7   KFLVVDDFSTMRRIVRNLLKELGYTNVDEAEDGVQALQKLRSDQFDFVVSDWNM-PNMDG 65

Query: 70  QQLLEFFRTQNMLSPTCMFIMVTAESGYNLVASAAEFQPDAYMLKPLTASRIAERVDRLL 129
             +L+  R    LS   + +MVTAE+    + +AA+   + Y++KP TA+ + E++ ++ 
Sbjct: 66  LTMLQEIRKDPALSKLPV-LMVTAEAKKENIVAAAQAGANGYVVKPFTAATLDEKLGKIF 124

Query: 130 EKQHA 134
           EK  A
Sbjct: 125 EKMAA 129


>gi|300310884|ref|YP_003774976.1| chemotaxis regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 133

 Score = 59.7 bits (143), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 37/126 (29%), Positives = 73/126 (57%), Gaps = 4/126 (3%)

Query: 12  LVIDDMPTMRQNIRMHLGQLGVTKVDQAATPDEAIRFVQSGTYDL--IICDYNLNKESNG 69
           LV+DD  TMR+ +   L +L  TK+ +A     A++ ++SG  ++  ++ D+N+    +G
Sbjct: 9   LVVDDFSTMRRIVSGLLKELEYTKIVEADDGSSALKILESGASNITFVLTDWNM-PVMDG 67

Query: 70  QQLLEFFRTQNMLSPTCMFIMVTAESGYNLVASAAEFQPDAYMLKPLTASRIAERVDRLL 129
             LL+  R+   LS   + +M+TAE+    +  AA+   D Y++KP  A+ + E+++++L
Sbjct: 68  LTLLKKIRSTPALSHLPV-LMITAEAKKENIVMAAQEGADGYIVKPFNATTLKEKIEKIL 126

Query: 130 EKQHAM 135
            ++  M
Sbjct: 127 ARRAHM 132


  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    0.130    0.361 

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: 1,470,112
Number of extensions: 56086
Number of successful extensions: 321
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 323
Number of HSP's successfully gapped: 3
Length of query: 539
Length of database: 1,619,870
Length adjustment: 90
Effective length of query: 449
Effective length of database: 1,193,720
Effective search space: 535980280
Effective search space used: 535980280
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: 133 (55.8 bits)