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= 0234.0020.p
         (599 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312655|ref|YP_003776747.1| C4-dicarboxylate transport sens...   761   0.0  
gi|300310177|ref|YP_003774269.1| C4-dicarboxylate transport sens...   128   1e-30
gi|300313806|ref|YP_003777898.1| PAS/PAC HisKA ATPase_c domains ...   106   4e-24
gi|300313027|ref|YP_003777119.1| two component transmembrane sen...   103   3e-23
gi|300311768|ref|YP_003775860.1| PAS/PAC sensor hybrid histidine...    89   1e-18

>gi|300312655|ref|YP_003776747.1| C4-dicarboxylate transport sensor
           kinase transcription regulator protein [Herbaspirillum
           seropedicae SmR1]
          Length = 600

 Score =  761 bits (1965), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 390/571 (68%), Positives = 452/571 (79%), Gaps = 5/571 (0%)

Query: 8   AAEKARSDLHAAGERQLQIVALDLQSILDKFEIMPYALGALADVDQVLHHPGDAAAVQRL 67
           A  KA  D    G  QLQI ALDL+SIL K+E +P+ALG  ADV QVL HP D  AV RL
Sbjct: 28  ALRKAEVDQKTQGAAQLQIAALDLESILQKYEALPFALGFQADVRQVLQHPDDVLAVDRL 87

Query: 68  NLSLQAIQMQSKVLAIYMMDARGMTLAASNWNEETSFVGRDFGFRPYFAEALAGGSGRFY 127
           N + + IQ QS+ ++I+M+D RG+TLA+SNW++E SFVGRDFGFRPYF+EA+ G +GRFY
Sbjct: 88  NRAFKTIQQQSQAVSIFMLDRRGLTLASSNWDDEFSFVGRDFGFRPYFSEAVQGRAGRFY 147

Query: 128 GIGNISSEPGYFMAQPIYPAGTPRGEGK-PIGVMTVKVDLSEFEHTWRSNEDPITLADHS 186
           GIGNISSEPGYF+AQPIY     + EG  PIGVM VKVDL+EFEHTWRS+ DPITL D  
Sbjct: 148 GIGNISSEPGYFIAQPIYRR-QDQAEGDLPIGVMVVKVDLAEFEHTWRSSADPITLTDAG 206

Query: 187 GVVFLSNRPEWKYHSLRPLDGKLQQELAGTHQYADQPITPVAEMPKPLRRGFGDHVSRSI 246
           GVVFLSNRPEWKYHSL+ L   +QQ LAGTHQYAD PITPV+ +P  L+ GFG HVSR +
Sbjct: 207 GVVFLSNRPEWKYHSLQALSPPMQQALAGTHQYADLPITPVSALPPALQSGFGSHVSRPV 266

Query: 247 DKQDWQLMLFPSQSRINRIAMLWAMWVALIMAIAAISLWAIYQRRRRLQERLESRDALRR 306
            +  WQLMLFPSQ+R+ R AMLW M  AL+M   AISL A YQ RRRL+ER+ SRDALRR
Sbjct: 267 GRLGWQLMLFPSQARMQRTAMLWTMACALLMLALAISLLAWYQHRRRLEERMASRDALRR 326

Query: 307 AAQELDATIAVRTQELRVANQALEGKYVTLQQTESLLRSTQNELVQAGKLAMLGQMAAGV 366
           AA EL+  IA RT +L  ANQALE +Y  LQQTESLLR+TQNELVQAGKLAMLGQMAAGV
Sbjct: 327 AAAELEQRIAERTGQLTAANQALEARYEKLQQTESLLRTTQNELVQAGKLAMLGQMAAGV 386

Query: 367 THELNQPLAAIRAFADNAVQFMRRGQLPQVEENLEHISGASAHMGKIIAQLKGFARKSGD 426
           THELNQPL AIRAFADNAV+F+ RGQ  Q  ENLE+IS ASA MGKIIAQLKGFARKSG+
Sbjct: 387 THELNQPLTAIRAFADNAVKFLARGQSAQAVENLEYISSASATMGKIIAQLKGFARKSGE 446

Query: 427 AIAVVDVAQTVEAAVLLLRNEFRQQAVAIEIDVRSPVQVMGDVVRTEQVLINLLRNAIDA 486
           A+A VD++Q +EA+ LLL +E ++    I ID+R+   V GDVVRTEQVL+NLLRNA+DA
Sbjct: 447 AVACVDLSQAIEASSLLLASECQKLGATISIDIRAAACVTGDVVRTEQVLVNLLRNALDA 506

Query: 487 VETVEYVADKRVTVIVGHEAGEAVIRIRDSGPGIPDEVAPHLFEPFFTTKPSGKGLGLGL 546
           VE  E+   KR+ V++    G A++RIRDSG GI DEVAPHLFEPFFTTK S KGLGLGL
Sbjct: 507 VEEAEH---KRIAVVLEVAGGYALVRIRDSGGGIADEVAPHLFEPFFTTKSSSKGLGLGL 563

Query: 547 AISSSIVQAMNGRLSAHNLPEGGAEFIVRLP 577
           AISSSIVQAMNG+LSAHN  EGGAEF+VRLP
Sbjct: 564 AISSSIVQAMNGQLSAHNHEEGGAEFVVRLP 594


>gi|300310177|ref|YP_003774269.1| C4-dicarboxylate transport sensor
           histidine kinase [Herbaspirillum seropedicae SmR1]
          Length = 674

 Score =  128 bits (322), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 86/254 (33%), Positives = 140/254 (55%), Gaps = 10/254 (3%)

Query: 337 QQTESLLRSTQNELVQAGKLAMLGQMAAGVTHELNQPLAAIRAFADNAVQFMRRGQL-PQ 395
           ++ E L R+ + +L  + +LA +G++A+ + HELNQPLAAI ++   A+  M++GQ  P+
Sbjct: 423 KRAEDLNRTQEEKLQASARLASMGEIASTLAHELNQPLAAISSYTTGALNLMQQGQADPK 482

Query: 396 -VEENLEHISGASAHMGKIIAQLKGFARKSGDAIAVVDVAQTVEAAVLLLRNEFRQQAVA 454
            ++  LE I   +   G +I  +  F +K   A   V + Q ++    L+  + +Q  V 
Sbjct: 483 ALQPALEKIHAQAQRAGHVIRSVHQFVKKREPARQRVQMRQLIDNVAPLIELQAQQFFVV 542

Query: 455 IEIDV-RSPVQVMGDVVRTEQVLINLLRNAID---AVETVEYVADKRVTVIVGHEAGEAV 510
           +++ V RS   V+GD +  EQV++NL RN I    AV +   +      V    +  E+V
Sbjct: 543 LQLQVPRSLPPVLGDQILLEQVILNLTRNGIQAMAAVPSARRILRVAAEVTRNEDGAESV 602

Query: 511 -IRIRDSGPGIPDEVAPHLFEPFFTTKPSGKGLGLGLAISSSIVQAMNGRLSAHNLPEGG 569
            + + D G GIPD+VA  LF PFF+TK   +G+G+GL I  + ++   G L+  + P GG
Sbjct: 603 TVSVTDQGHGIPDDVAARLFSPFFSTK--AEGMGMGLNICRTTIEFHGGTLTYTDNPAGG 660

Query: 570 AEFIVRLPAPA-PD 582
             F   LPA + PD
Sbjct: 661 TIFRFSLPAQSGPD 674


>gi|300313806|ref|YP_003777898.1| PAS/PAC HisKA ATPase_c domains
           containing sensor signal transduction histidine kinase
           [Herbaspirillum seropedicae SmR1]
          Length = 524

 Score =  106 bits (265), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 78/248 (31%), Positives = 132/248 (53%), Gaps = 13/248 (5%)

Query: 337 QQTESLLRSTQNELVQAGKLAMLGQMAAGVTHELNQPLAAIRAFADNAVQFMRRGQLPQV 396
           +Q E  +R+ Q ++ +  +   +GQ+ A + HE+NQPL +I A A  +++++ R  +P +
Sbjct: 280 RQNEYAIRAAQIDMERVSRANTVGQLTASIAHEINQPLMSIVANAGASLRWLDR-PVPDL 338

Query: 397 EE---NLEHISGASAHMGKIIAQLKGFARKSGDAIAVVDVAQTVEAAVLLLRNEFRQQAV 453
           E     L  I       G II+ L+   R +      V++   +   + L R+E  ++ V
Sbjct: 339 EHARTGLRDIIAEGQRAGGIISGLRDLTRNAAPVCERVNLHAVIRHILTLSRSELERREV 398

Query: 454 AIEIDVRSPVQ--VMGDVVRTEQVLINLLRNAIDAVETVEYVADKRVTVIVGHEAGEAVI 511
           ++ + + +P    V+GD V+ +QV++NL+ NAI+A+ ++   A  RV  I      E  I
Sbjct: 399 SLLLSL-TPADAFVLGDQVQLQQVMLNLVVNAIEAMSSMPEHA--RVLSITASSCDEQRI 455

Query: 512 --RIRDSGPGIPDEVAPHLFEPFFTTKPSGKGLGLGLAISSSIVQAMNGRLSAHNLPEGG 569
             +++DSG GI  E    +F+ F+TTK SG  +G+GLAI  SI++   GRL        G
Sbjct: 456 EVKVQDSGEGIAPEAMRRVFDAFYTTKDSG--MGMGLAICRSIIENHRGRLRVAAAQPHG 513

Query: 570 AEFIVRLP 577
           A F   LP
Sbjct: 514 ALFSFDLP 521


>gi|300313027|ref|YP_003777119.1| two component transmembrane sensor
           histidine kinase [Herbaspirillum seropedicae SmR1]
          Length = 454

 Score =  103 bits (258), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 83/281 (29%), Positives = 128/281 (45%), Gaps = 46/281 (16%)

Query: 343 LRSTQNELVQAGKLAMLGQMAAGVTHELNQPLAAIRAFAD---NAV----------QFMR 389
           L+  Q +L+Q+ KLA +GQ+AAGV HE+N P+  + A  +   N V          Q ++
Sbjct: 171 LKMAQAQLMQSEKLASIGQLAAGVAHEINNPIGFVSANLNTLGNYVATLLEGIQLHQCLQ 230

Query: 390 RGQLP----------------------QVEENLEHISGASAHMGKIIAQLKGFARKSGDA 427
            G LP                       V E L   +     +  I+  LK F+R     
Sbjct: 231 GGALPAAMAQEQLRSFEARADLAFLSEDVTELLAESNEGLQRVRNIVQSLKDFSRIGESN 290

Query: 428 IAVVDVAQTVEAAVLLLRNEFRQQAVAIEIDVRSPVQVMGDVVRTEQVLINLLRNAIDAV 487
             + D+ + +++ + +  NE + +   ++     P+ V        QV +NLL NA  A+
Sbjct: 291 WQMTDLHRGLDSTLNIANNELKYKVSIVKQYGELPL-VKCLASELNQVFMNLLVNAAQAI 349

Query: 488 ETVEYVADKRVTVIVGHEAGEAV-IRIRDSGPGIPDEVAPHLFEPFFTTKPSGKGLGLGL 546
                 +++    I    AG+ V + I D+G GI  E    +FEPFFTTKP G G GLGL
Sbjct: 350 ------SERGTVTICTARAGDKVSVSISDTGHGIAPENLNRIFEPFFTTKPVGSGTGLGL 403

Query: 547 AISSSIVQAMNGRLSAHNLPEGGAEFIVRLPAPAPDPASAI 587
           ++S  IV+   G +   + P  G  F + LP    DPAS +
Sbjct: 404 SLSYGIVKKHGGDIRVSSAPGCGTTFTIELPI---DPASVL 441


>gi|300311768|ref|YP_003775860.1| PAS/PAC sensor hybrid histidine
           kinase [Herbaspirillum seropedicae SmR1]
          Length = 552

 Score = 89.0 bits (219), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 79/261 (30%), Positives = 115/261 (44%), Gaps = 15/261 (5%)

Query: 332 KYVTLQQTE-SLLRSTQNELVQAGKLAMLGQMAAGVTHELNQPLAAIRAFADNAVQFMRR 390
           KY    Q + S  R  +  L QA K+  LGQ+  G+ H+ N  L  I  + D     +R 
Sbjct: 148 KYFFSSQLDISRRRDAEQALGQARKMEALGQLTGGIAHDFNNLLQVITGYLDMINLALRS 207

Query: 391 GQ--LPQVEENLEHISGASAHMGKIIAQLKGFARKSGDAIAVVDVAQTVEAAV-LLLRNE 447
            +  L +V  + + I  AS     +  QL  FARK       +++    E    L+ R  
Sbjct: 208 DKPDLARVARSADSIRKASGKAAMLTQQLLAFARKQRLEGRTINLNSLTEGFTDLVSRTL 267

Query: 448 FRQQAVAIEIDVRSPVQVMGDVVRTEQVLINLLRNAIDAVE---------TVEYVADKRV 498
                V  E+  R       D  + E  L+N+L NA DA+            E +AD   
Sbjct: 268 GGDITVQTEL-ARGLWNCRLDPTQMEVALLNVLINARDAMNGRGRVRIRTANEDLADPDR 326

Query: 499 TVIVGHEAGEAV-IRIRDSGPGIPDEVAPHLFEPFFTTKPSGKGLGLGLAISSSIVQAMN 557
            V +G + G  V I + D GPGI  ++ P + +PFFTTK  GKG GLGL++    V+   
Sbjct: 327 AVQLGLKEGLYVSIAVTDDGPGIAPDILPRVMDPFFTTKDEGKGTGLGLSMVYGFVKQSG 386

Query: 558 GRLSAHNLPEGGAEFIVRLPA 578
           G +   +  EGG    +  PA
Sbjct: 387 GSVRITSGAEGGTTVTIYFPA 407


  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
   0.319    0.134    0.385 

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: 1,877,464
Number of extensions: 83132
Number of successful extensions: 432
Number of sequences better than 1.0e-08: 38
Number of HSP's gapped: 391
Number of HSP's successfully gapped: 38
Length of query: 599
Length of database: 1,619,870
Length adjustment: 91
Effective length of query: 508
Effective length of database: 1,188,985
Effective search space: 604004380
Effective search space used: 604004380
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: 133 (55.8 bits)