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= 0001.0023.p
         (548 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311774|ref|YP_003775866.1| two component sensor histidine ...   377   e-105
gi|300311497|ref|YP_003775589.1| undecaprenyl pyrophosphate synt...   333   3e-92
gi|300311910|ref|YP_003776002.1| transmembrane sensor histidine ...    99   7e-22

>gi|300311774|ref|YP_003775866.1| two component sensor histidine
           kinase [Herbaspirillum seropedicae SmR1]
          Length = 460

 Score =  377 bits (967), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 183/248 (73%), Positives = 209/248 (84%)

Query: 20  AGHKNMLQLIQLRWIAVFGQITTIIVVIFGFDIHLPLPHMLEVLACLIAFNIGSHLRWHE 79
           AGH+NML LIQLRW+AV GQ++TI  V+  FD+HLPLPHMLEVL+CL+AFNI SHLRWHE
Sbjct: 28  AGHQNMLLLIQLRWLAVLGQVSTIAFVVLVFDLHLPLPHMLEVLSCLVAFNIASHLRWHE 87

Query: 80  RPFVTNRELFLALLVDVATLTAQLYLSGGASNPFAFLYLLQVILSAVLLEAWSTWTIVCI 139
           R   TN ELFLALLVDVA LT QLYLSGG +NPFAFLYL+Q+ILSAVLL+ WS+W IV +
Sbjct: 88  RRIATNAELFLALLVDVAVLTFQLYLSGGITNPFAFLYLMQIILSAVLLKPWSSWAIVGV 147

Query: 140 TGLCFAGLSQFFMPLSLPPDHDEGLFSLYVEGMLISFLLIAALLAIFITRISSNRRAGDA 199
           T LC AGL+ F  PL+LPPDH+ GL SLYVEG LI FLL A L+  FITRISSN RAGDA
Sbjct: 148 TMLCLAGLALFSEPLALPPDHNAGLLSLYVEGTLICFLLNAGLMVFFITRISSNLRAGDA 207

Query: 200 QLAALRQRAAEEDHIVRMGLLASGAAHELGTPLATLAVILGDWKRMPEFSSNPVLIEEIS 259
            LA LRQRAAEEDHIVRMGLLASGAAHELGTPLAT++VILGDWKRMPE S    ++++I+
Sbjct: 208 LLADLRQRAAEEDHIVRMGLLASGAAHELGTPLATVSVILGDWKRMPEISQRQDMLDDIA 267

Query: 260 EMQIQLQR 267
           EM+ QLQR
Sbjct: 268 EMEAQLQR 275


>gi|300311497|ref|YP_003775589.1| undecaprenyl pyrophosphate
           synthetase [Herbaspirillum seropedicae SmR1]
          Length = 252

 Score =  333 bits (853), Expect = 3e-92,   Method: Compositional matrix adjust.
 Identities = 159/205 (77%), Positives = 184/205 (89%)

Query: 344 AVRDIVEACSQRGIEYLTLFAFSSENWRRPADEVSLLMRLFMTALEREVSKMHANDIRLR 403
           AVR IVEAC++RGIE+LTLFAFSSENWRRPADEVS+LMRLFMT LEREV KM AN IRL+
Sbjct: 48  AVRSIVEACAERGIEFLTLFAFSSENWRRPADEVSVLMRLFMTVLEREVGKMAANGIRLK 107

Query: 404 VVGDLSRFDAKLQDMVTKAEAQTAGNKGLTLTICANYGGRWDIMQAIGKMLREQPGATDF 463
           +VGD+SRFD KLQ+M  KAEAQTA N  LTLT+CANYGGRWD+MQA+ KM++++PG  DF
Sbjct: 108 IVGDMSRFDPKLQEMAAKAEAQTAANSRLTLTVCANYGGRWDVMQAVSKMIKDKPGHADF 167

Query: 464 SEEQLTPHLAMAYAPEPDLFVRTGGEERISNFLLWQLAYSELYFTETYWPDFDGAELDKA 523
           +EE+L P+LAMAYAPEPDLF+RTGGE+RISNFLLWQLAYSELYFTET+WPDFD   LD A
Sbjct: 168 TEEELAPYLAMAYAPEPDLFIRTGGEQRISNFLLWQLAYSELYFTETFWPDFDAKALDLA 227

Query: 524 IDSYRQRERRFGRTSEQLVEQKKAS 548
           I SY+QRERRFGRTS Q+++QKKAS
Sbjct: 228 IASYQQRERRFGRTSAQVLDQKKAS 252


>gi|300311910|ref|YP_003776002.1| transmembrane sensor histidine
           kinase transcription regulator protein [Herbaspirillum
           seropedicae SmR1]
          Length = 443

 Score = 99.4 bits (246), Expect = 7e-22,   Method: Compositional matrix adjust.
 Identities = 83/245 (33%), Positives = 132/245 (53%), Gaps = 10/245 (4%)

Query: 22  HKNMLQLIQLRWIAVFGQITTIIVVIFGFDIHLPLPHMLEVLACLIAFNIGS--HLRWHE 79
           H  + +L  LRW  V G++  +        I LP+P +L ++      N  +   LRW  
Sbjct: 18  HVLLSRLFWLRWAMVAGELLVLAGAHGWLHIALPVPQLLALIGLQALLNGATWLRLRW-T 76

Query: 80  RPFVTNRELFLALLVDVATLTAQLYLSGGASNPFAFLYLLQVILSAVLLEAWSTWTIVCI 139
           RP    RELFL LL+D+A LTA LY SGG++NPF   YL  +   A  L       +   
Sbjct: 77  RP-AEQRELFLQLLLDLAVLTALLYFSGGSTNPFVSFYLPALAAGAASLAWPYALLLALC 135

Query: 140 TGLCFAGLSQFFMPLSLPPDHDEG-LFSLYVEGMLISFLLIAALLAIFITRISSNRRAGD 198
               ++GL   + PL +   HD+G   + ++ GM I+F + A L+  F++RI++  R+ +
Sbjct: 136 ALGAYSGLVYVYEPLHI---HDQGQAMAYHLAGMWINFSISALLITWFVSRIAAAVRSRE 192

Query: 199 AQLAALRQRAAEEDHIVRMGLLASGAAHELGTPLATLAVILGDWKRMPEFSSNPVLIEEI 258
            +LA  R+R  +   I+ +G  A+GAAH L TPL+T+AVI G+ +R  + ++ P L    
Sbjct: 193 TELARARERQLQSQRILALGTQAAGAAHALNTPLSTVAVIAGELRR--DMATQPALAAYD 250

Query: 259 SEMQI 263
            E+++
Sbjct: 251 EELRV 255


  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
   0.324    0.136    0.410 

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: 1,433,401
Number of extensions: 51748
Number of successful extensions: 222
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 221
Number of HSP's successfully gapped: 3
Length of query: 548
Length of database: 1,619,870
Length adjustment: 90
Effective length of query: 458
Effective length of database: 1,193,720
Effective search space: 546723760
Effective search space used: 546723760
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 133 (55.8 bits)