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= 0020.0068.p
         (340 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309754|ref|YP_003773846.1| tRNA-dihydrouridine synthase or...   699   0.0  
gi|300312882|ref|YP_003776974.1| hypothetical protein Hsero_3587...    80   2e-16

>gi|300309754|ref|YP_003773846.1| tRNA-dihydrouridine synthase or
           NifR3-like protein [Herbaspirillum seropedicae SmR1]
          Length = 340

 Score =  699 bits (1805), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 338/340 (99%), Positives = 339/340 (99%)

Query: 1   VNIGPYSLRNNVFVAPMAGVTDRPFRQLCKQLGAGYAVSEMAASDPRLWQSEKTSRRINH 60
           +NIGPYSLRNNVFVAPMAGVTDRPFRQLCKQLGAGYAVSEMAASDPRLWQSEKTSRRINH
Sbjct: 1   MNIGPYSLRNNVFVAPMAGVTDRPFRQLCKQLGAGYAVSEMAASDPRLWQSEKTSRRINH 60

Query: 61  DGEMEPKAVQIAGADPVMLADCAKYNVERGAQIIDINMGCPVKKVCNSWCGSALLQDEEL 120
           DGEMEPKAVQIAGADPVMLADCAKYNVERGAQIIDINMGCPVKKVCNSWCGSALLQDEEL
Sbjct: 61  DGEMEPKAVQIAGADPVMLADCAKYNVERGAQIIDINMGCPVKKVCNSWCGSALLQDEEL 120

Query: 121 VARILDAVVSAVDVPVTLKFRTGWNRANKNALKIAARAEAAGIAMLTLHGRTRADGYSGE 180
           VARILDAVVSAVDVPVTLKFRTGWNRANKNALKIAARAEAAGIAMLTLHGRTRADGYSGE
Sbjct: 121 VARILDAVVSAVDVPVTLKFRTGWNRANKNALKIAARAEAAGIAMLTLHGRTRADGYSGE 180

Query: 181 AEYETIAAVKAAVKIPVVANGDITTPEKARDVLLLTKADAVMVGRAAQGRPWIFREIDHF 240
           AEYETIAAVKAAVKIPVVANGDITTPEKARDVLLLTKADAVMVGRAAQGRPWIFREIDHF
Sbjct: 181 AEYETIAAVKAAVKIPVVANGDITTPEKARDVLLLTKADAVMVGRAAQGRPWIFREIDHF 240

Query: 241 LRTGEHLPAPLVSEVEHLMDEHLQAHYAFYGDYLGVRTARKHIGWYVRDLPGGEQFRRSM 300
           LRTGEHLPAPLVSEVE LMDEHLQAHYAFYGDYLGVRTARKHIGWYVRDLPGGEQFRRSM
Sbjct: 241 LRTGEHLPAPLVSEVEQLMDEHLQAHYAFYGDYLGVRTARKHIGWYVRDLPGGEQFRRSM 300

Query: 301 NRIEDCAQQLQAVRQFFASQAAFGERLQYGLAVDEVALAA 340
           NRIEDCAQQLQAVRQFFASQAAFGERLQYGLAVDEVALAA
Sbjct: 301 NRIEDCAQQLQAVRQFFASQAAFGERLQYGLAVDEVALAA 340


>gi|300312882|ref|YP_003776974.1| hypothetical protein Hsero_3587
           [Herbaspirillum seropedicae SmR1]
          Length = 357

 Score = 80.5 bits (197), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 85/332 (25%), Positives = 141/332 (42%), Gaps = 27/332 (8%)

Query: 14  VAPMAGVTDRPFRQLCKQLG-AGYAVSEMAASDPRLWQSEKTSRRINHDGEMEPKAVQIA 72
           VAPM   TDR  R   +Q+    +  +EM  +   L       R ++ D +  P A+Q+ 
Sbjct: 29  VAPMMDWTDRHCRVFHRQITRHTWLYTEMVTTGALLHGD--VPRHLDFDEQEHPVALQLG 86

Query: 73  GADPVMLADCAKYNVERGAQIIDINMGCPVKKVCNSWCGSALLQDEELVARILDAVVSAV 132
           G++P  LA  AK   + G   I++N GCP ++V     G+ L+ +  LVA  + A+  AV
Sbjct: 87  GSEPADLAHSAKLGEQWGYDEINLNCGCPSERVQKGAFGACLMGEPTLVADCVKAMRDAV 146

Query: 133 DVPVTLKFRTGWNRANKNAL--KIAARAEAAGIAMLTLHGRTRADGYSGEAEYETIAAVK 190
            + VT+K R G +             +   AG     +H R          E   I  +K
Sbjct: 147 SIDVTVKHRIGIDEVESYDFVRDFVGQIAEAGCQTFIVHARNAILKGLSPKENREIPPLK 206

Query: 191 AAV---------KIPVVANGDITT-PEKARDVLLLTKADAVMVGRAAQGRPWIFREID-H 239
                        + ++ NG I T PE       L   D VM+GR A   P++    D  
Sbjct: 207 YDYAYQLKKDFPSLEILINGGIKTLPEIDEH---LKHVDGVMLGREAYHNPYLMAGFDAR 263

Query: 240 FLRTGEHLPAPLVSEVEHLMDEHLQAHYAFYGDY---LGVRTARKHIGWYVRDLPGGEQF 296
           +    E       +EV   M  +++     +GD    L + +  +H+   +  +PG   F
Sbjct: 264 YYAALEGGLQRSRAEVIEAMLPYIKRQLELHGDNGRGLRLNSITRHMLGLMAGMPGARAF 323

Query: 297 RRSMNR-----IEDCAQQLQAVRQFFASQAAF 323
           R++++      + D A  L+A+++  A+QAA 
Sbjct: 324 RQTLSDSKRLALGDPALLLEALQRTQAAQAAL 355


  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
   0.321    0.134    0.402 

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: 993,183
Number of extensions: 38192
Number of successful extensions: 128
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 127
Number of HSP's successfully gapped: 2
Length of query: 340
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 254
Effective length of database: 1,212,660
Effective search space: 308015640
Effective search space used: 308015640
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 (21.9 bits)
S2: 131 (55.1 bits)