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= 0184.0001.p
         (329 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311073|ref|YP_003775165.1| GGDEF family protein [Herbaspir...   373   e-104

>gi|300311073|ref|YP_003775165.1| GGDEF family protein
           [Herbaspirillum seropedicae SmR1]
          Length = 502

 Score =  373 bits (957), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 174/236 (73%), Positives = 204/236 (86%)

Query: 1   MWLEDFSGVKKLLDAWREAGVTDLRSYLQADLSRVHECTLNIRVLQVNSKTLQLFEADNL 60
           +W ED+SG+K+L D WR AGVTDLRSYL+ D +R H C + IRV+ VN +TL+ +EA +L
Sbjct: 34  LWKEDYSGLKRLFDQWRAAGVTDLRSYLRQDHARAHACAMQIRVVDVNRRTLEWYEARDL 93

Query: 61  EHLIANLDRVFRDDMLHTHIEELLQVWEGKHEFSSHSVNYTLSGKRLDIQLNARILPGHE 120
           EHL+ANLD+VFRDDML T I+E+ Q+WEG+  FSS++VNYTL GKRLDIQL+ RI+PG E
Sbjct: 94  EHLVANLDKVFRDDMLETFIDEMAQLWEGRSHFSSYTVNYTLGGKRLDIQLSGRIMPGSE 153

Query: 121 DSWERVLLAVENVTERETARRKLTHSEDYARGLFEYSPISLWVEDFSAVKRLFGDLRQIG 180
           +SWE VLLA+ENVTERETAR+KL+ SE+YARGLFEYSPISLWVEDFS VKRLF DL +IG
Sbjct: 154 ESWEYVLLAIENVTERETARKKLSRSENYARGLFEYSPISLWVEDFSQVKRLFNDLHRIG 213

Query: 181 IKDFRVFTDVHPEFVERCMQEIRVIDVNQQTLTMFHAPDKQTLLSRLSEVFRDDMR 236
           I DFR FTDVHPEFVERCMQEIRVIDVN QTL+MF APDK TLLSRLS+VFRDDMR
Sbjct: 214 ITDFRTFTDVHPEFVERCMQEIRVIDVNLQTLSMFCAPDKATLLSRLSDVFRDDMR 269



 Score =  216 bits (551), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 131/332 (39%), Positives = 182/332 (54%), Gaps = 33/332 (9%)

Query: 1   MWLEDFSGVKKLLDAWREAGVTDLRSYLQADLSRVHECTLNIRVLQVNSKTLQLFEADNL 60
           +W+EDFS VK+L +     G+TD R++       V  C   IRV+ VN +TL +F A + 
Sbjct: 194 LWVEDFSQVKRLFNDLHRIGITDFRTFTDVHPEFVERCMQEIRVIDVNLQTLSMFCAPDK 253

Query: 61  EHLIANLDRVFRDDMLHTHIEELLQVWEGKHEFSSHSVNYTLSGKRLDIQLNARILPGHE 120
             L++ L  VFRDDM     E+L+++W G        VNY L+G+ L + L   + PGHE
Sbjct: 254 ATLLSRLSDVFRDDMRQHFNEQLIELWNGNLLHQREVVNYALNGETLHVHLQFSVFPGHE 313

Query: 121 DSWERVLLAVENVTERETARRKL----THSEDYARGLFEYSPISLWVEDFSAVKRLFGDL 176
           + W+ VL+A+ ++T R+ A   L     H E     L +    +  V++ + ++R     
Sbjct: 314 EHWDLVLVALTDITARKKAEAYLEFLGKHDE-----LTKLHNRAYMVDELNRLERKGPFP 368

Query: 177 RQIGIKDFRVFTDVHPEFVERCMQEIRVIDVNQQTLTMFHAPDKQTLLSRLSEVFRDDM- 235
             + + D      V+ E                    + HA     LL R+ EV    + 
Sbjct: 369 VSVIVADLNGLKQVNDE--------------------LGHAA-GDALLRRVGEVLDKAVE 407

Query: 236 RP--XARIGGDEFAILMPATDERGVAAMMENIQSLIDINNQYYSGSPLSLSMGSATSQHG 293
           RP   AR GGDEFAIL+PATDERG   +ME +Q L+++NNQYYSG PLSLSMG+AT+  G
Sbjct: 408 RPCSVARTGGDEFAILLPATDERGCVLLMEQVQKLLEVNNQYYSGVPLSLSMGAATALPG 467

Query: 294 ERLEATVQRADALMYEDKRSYYAKTPGHERRQ 325
           ERLE  VQRAD+LMYE KR YYA +P  ERR 
Sbjct: 468 ERLEQVVQRADSLMYEAKRQYYATSPTLERRH 499



 Score = 75.5 bits (184), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 35/82 (42%), Positives = 51/82 (62%)

Query: 154 FEYSPISLWVEDFSAVKRLFGDLRQIGIKDFRVFTDVHPEFVERCMQEIRVIDVNQQTLT 213
           F+ +P+SLW ED+S +KRLF   R  G+ D R +          C  +IRV+DVN++TL 
Sbjct: 27  FDLTPVSLWKEDYSGLKRLFDQWRAAGVTDLRSYLRQDHARAHACAMQIRVVDVNRRTLE 86

Query: 214 MFHAPDKQTLLSRLSEVFRDDM 235
            + A D + L++ L +VFRDDM
Sbjct: 87  WYEARDLEHLVANLDKVFRDDM 108


  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
   0.320    0.134    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: 963,366
Number of extensions: 35729
Number of successful extensions: 136
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 139
Number of HSP's successfully gapped: 5
Length of query: 329
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 243
Effective length of database: 1,212,660
Effective search space: 294676380
Effective search space used: 294676380
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: 131 (55.1 bits)