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= 0019.0201.p
         (259 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313027|ref|YP_003777119.1| two component transmembrane sen...   325   2e-90
gi|300312318|ref|YP_003776410.1| diguanylate cyclase with PAS/PA...    59   5e-10
gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies...    55   7e-09

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

 Score =  325 bits (834), Expect = 2e-90,   Method: Compositional matrix adjust.
 Identities = 152/185 (82%), Positives = 164/185 (88%)

Query: 1   MGHSEALMANECASQRTHADDAPDTRALVKANARYRHIIGNTPAIIYSSVPSGDFQLTFV 60
           MGH +    ++        ++APD  AL+KANARYRHIIGNTPAIIYSSVPSGDF+LTFV
Sbjct: 1   MGHCDVFEVSQVCPLPAAKEEAPDFCALIKANARYRHIIGNTPAIIYSSVPSGDFRLTFV 60

Query: 61  SENATRLLGYEPSEMLDDPNFWFNHIHPDDTAAIFSSLAMLFVEDQKIYEYRFRTQDGSY 120
           SENA+R+LGYEP EMLDDPNFWFNHIHPDDTA IFSSLAMLFVEDQKIYEYRFRT +GSY
Sbjct: 61  SENASRVLGYEPCEMLDDPNFWFNHIHPDDTAQIFSSLAMLFVEDQKIYEYRFRTSNGSY 120

Query: 121 LWMHDTLRLIRDAEGTPLEVIGLMTDITGRKQMEDTLQRQAEEQRALIEQLKMAQAQLMQ 180
           LWMHDTLRLIRD +GTP EVIGLMTDITGRK+MEDTLQRQAEEQR LIEQLKMAQAQLMQ
Sbjct: 121 LWMHDTLRLIRDPDGTPQEVIGLMTDITGRKEMEDTLQRQAEEQRKLIEQLKMAQAQLMQ 180

Query: 181 SEKLA 185
           SEKLA
Sbjct: 181 SEKLA 185


>gi|300312318|ref|YP_003776410.1| diguanylate cyclase with PAS/PAC
           sensor protein [Herbaspirillum seropedicae SmR1]
          Length = 611

 Score = 58.5 bits (140), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 35/96 (36%), Positives = 52/96 (54%), Gaps = 3/96 (3%)

Query: 67  LLGYEPSEMLDDPNFWFNHIHPDDTAAIFSSLAMLFV--EDQKIYEYRFRTQDGSYLWMH 124
           +LGYE  E+       +  IHPDD A +  ++   F    D    E+R R QDGSY W+ 
Sbjct: 213 ILGYEDWELSSHLADAYQRIHPDDLAYVQQTIRQHFEARSDHYEVEHRIRCQDGSYKWIS 272

Query: 125 DTLRLI-RDAEGTPLEVIGLMTDITGRKQMEDTLQR 159
              +++ RDA+G  L +IG  TDIT  K++ + L +
Sbjct: 273 SRGKVVARDAQGNALRMIGTTTDITEIKRLTEKLGK 308


>gi|300312904|ref|YP_003776996.1| diguanylate
           cyclase/phosphodiesterase with PAS/PAC sensor domains
           protein [Herbaspirillum seropedicae SmR1]
          Length = 701

 Score = 54.7 bits (130), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 35/134 (26%), Positives = 61/134 (45%), Gaps = 2/134 (1%)

Query: 38  IIGNTPAIIYSSVPSGDFQLTFVSENATRLLGYEPSEMLDDPNFWFNHI-HPDDTAAIFS 96
           ++ N   ++Y       + + FVSE    L GY P ++L +    F  + HP+D   + +
Sbjct: 13  LLVNLDGVVYRCRDDAQWTMEFVSEGCLALTGYLPEDLLLNQRLSFLELTHPEDRTLVRN 72

Query: 97  SLAMLFVEDQKI-YEYRFRTQDGSYLWMHDTLRLIRDAEGTPLEVIGLMTDITGRKQMED 155
            +     E ++I  EYR    DG+  W+ +    I +A G    + G + D+T RK+   
Sbjct: 73  HVDACMRERRRIDIEYRIVRADGAVRWVWERGVGIYNANGQVEAIEGFLQDVTERKEAAQ 132

Query: 156 TLQRQAEEQRALIE 169
            LQ      R++ E
Sbjct: 133 ALQEAERRYRSIFE 146


  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
   0.316    0.127    0.390 

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: 672,774
Number of extensions: 24349
Number of successful extensions: 118
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 117
Number of HSP's successfully gapped: 3
Length of query: 259
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 176
Effective length of database: 1,226,865
Effective search space: 215928240
Effective search space used: 215928240
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)