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= 0019.0001.p
         (243 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312093|ref|YP_003776185.1| hypothetical protein Hsero_2782...    64   1e-11
gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei...    57   1e-09
gi|300313074|ref|YP_003777166.1| GGDEF domain-containing protein...    55   4e-09
gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodies...    55   4e-09
gi|300312843|ref|YP_003776935.1| response regulator containing a...    54   9e-09

>gi|300312093|ref|YP_003776185.1| hypothetical protein Hsero_2782
           [Herbaspirillum seropedicae SmR1]
          Length = 601

 Score = 63.9 bits (154), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 30/63 (47%), Positives = 39/63 (61%)

Query: 174 LIEQLEKEKTRAYQLASHDYLTGIPNRMLFSELAGAELSRAKRSPNLYALFFIDLDGFKP 233
           L+ +L+  +      A HD LTG+PNRM+ +E   A L+ A R  N   L F+DLDGFKP
Sbjct: 395 LLARLKLHQAELQHQAHHDVLTGLPNRMMLAERMQAALTHACRERNGVGLLFLDLDGFKP 454

Query: 234 IND 236
           IND
Sbjct: 455 IND 457


>gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 695

 Score = 57.0 bits (136), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 35/100 (35%), Positives = 52/100 (52%), Gaps = 10/100 (10%)

Query: 137 IVISIAVVTLTLILIGISYHRKKLYERLARSEREKICLIEQLEKEKTRAYQLASHDYLTG 196
           IV+++A +T+ L+    S    +L  R A+  R      E+L        Q+  HD LT 
Sbjct: 224 IVVTLAALTIALL---TSVLDARLESRTAKLARSLAAANEELT-------QMVLHDQLTR 273

Query: 197 IPNRMLFSELAGAELSRAKRSPNLYALFFIDLDGFKPIND 236
           +PNR L  +     +++A R    +AL F+DLDGFK IND
Sbjct: 274 LPNRTLLEDRLNQAINKAAREQGHFALMFMDLDGFKAIND 313


>gi|300313074|ref|YP_003777166.1| GGDEF domain-containing protein
           [Herbaspirillum seropedicae SmR1]
          Length = 738

 Score = 55.5 bits (132), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 27/50 (54%), Positives = 34/50 (68%)

Query: 187 QLASHDYLTGIPNRMLFSELAGAELSRAKRSPNLYALFFIDLDGFKPIND 236
           +LA  D LT +PNR  FS+     + RA+R+  L ALFF+DLDGFK IND
Sbjct: 567 ELALTDVLTSLPNRRAFSDRLPEGMMRARRAHQLLALFFMDLDGFKGIND 616


>gi|300310170|ref|YP_003774262.1| diguanylate
           cyclase/phosphodiesterase A protein [Herbaspirillum
           seropedicae SmR1]
          Length = 1002

 Score = 55.5 bits (132), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 29/61 (47%), Positives = 41/61 (67%), Gaps = 2/61 (3%)

Query: 178 LEKEKTRA--YQLASHDYLTGIPNRMLFSELAGAELSRAKRSPNLYALFFIDLDGFKPIN 235
           +E+E  RA  +QLA +D LTG+PNR L    AG  ++ A+R+ +  A+ FIDLD FK +N
Sbjct: 545 IEREDARARIHQLAFYDSLTGLPNRSLLLVQAGQAIAAAERNCSTVAVMFIDLDRFKQVN 604

Query: 236 D 236
           D
Sbjct: 605 D 605


>gi|300312843|ref|YP_003776935.1| response regulator containing a
           CheY-like receiver and a GGDEF domains protein
           [Herbaspirillum seropedicae SmR1]
          Length = 525

 Score = 54.3 bits (129), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 63/220 (28%), Positives = 92/220 (41%), Gaps = 34/220 (15%)

Query: 42  GYLVAILDLGRFLHDYQ--QIGDGYLIAVNGGTGAPLVAL------------NDRRLLVG 87
           G L+A LD+  F   Y+  +IG G  IA+    G  L  +              R  L G
Sbjct: 184 GVLLATLDINHFNQLYRTVEIGKGGSIALLLRDGTLLTRMPFDPGYINRDFSQGRLFLEG 243

Query: 88  DNSAAFTSASSVTNL---------QKLSAYPLSVSVTIDPDAIVSDLTRSHYEYVRYAIV 138
              + F     V+ L         Q +  YPL + VT+  +  ++D  +  + Y      
Sbjct: 244 LPHSPFGYLEVVSPLDARQRFLSYQAVDKYPLVLVVTLAREEALADWKQQTFVYG----- 298

Query: 139 ISIAVVTLTLILIGISYHR--KKLYERLARSEREKICLIEQLEKEKTRAYQLASHDYLTG 196
              A V L L +IG+   R   ++  RL R+E   +  + +L+    R   LA  D LTG
Sbjct: 299 ---AAVLLLLAIIGVFGWRLVGQIELRL-RAEDRALQAMGELQMANHRLEMLAHQDGLTG 354

Query: 197 IPNRMLFSELAGAELSRAKRSPNLYALFFIDLDGFKPIND 236
           + NR     +   E  RA+RS    AL  ID+D FK  ND
Sbjct: 355 LANRRHLDTMLETEFKRAERSGAALALIMIDVDFFKQYND 394


  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    0.139    0.404 

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: 685,277
Number of extensions: 25555
Number of successful extensions: 102
Number of sequences better than 1.0e-08: 7
Number of HSP's gapped: 106
Number of HSP's successfully gapped: 7
Length of query: 243
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 160
Effective length of database: 1,226,865
Effective search space: 196298400
Effective search space used: 196298400
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: 41 (22.0 bits)
S2: 129 (54.3 bits)