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= 0001.3493.p
         (354 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312882|ref|YP_003776974.1| hypothetical protein Hsero_3587...   703   0.0  
gi|300309754|ref|YP_003773846.1| tRNA-dihydrouridine synthase or...    79   5e-16

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

 Score =  703 bits (1815), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 337/354 (95%), Positives = 343/354 (96%)

Query: 1   VKSEVVNKAAESRVSAGNSPSLPPRTISVAPMMDWTDRHCRVFHRQITRHTWLYTEMVTT 60
           +KSEV NKA ESRVSAGNSPSLPPRT+SVAPMMDWTDRHCRVFHRQITRHTWLYTEMVTT
Sbjct: 1   MKSEVANKAVESRVSAGNSPSLPPRTLSVAPMMDWTDRHCRVFHRQITRHTWLYTEMVTT 60

Query: 61  GALLHGDVPRHLDFDEQEHPVALQLGGSEPADLAHSAKLGEQWGYDEINLNCGCPSERVQ 120
           GALLHGDVPRHLDFDEQEHPVALQLGGSEPADLAHSAKLGEQWGYDEINLNCGCPSERVQ
Sbjct: 61  GALLHGDVPRHLDFDEQEHPVALQLGGSEPADLAHSAKLGEQWGYDEINLNCGCPSERVQ 120

Query: 121 KGAFGACLMGEPALVADCVKAMRDAVSIDVTVKHRIGIDDVQSYDFVRDFVGQIAEAGCQ 180
           KGAFGACLMGEP LVADCVKAMRDAVSIDVTVKHRIGID+V+SYDFVRDFVGQIAEAGCQ
Sbjct: 121 KGAFGACLMGEPTLVADCVKAMRDAVSIDVTVKHRIGIDEVESYDFVRDFVGQIAEAGCQ 180

Query: 181 TFIVHARNAILKGLSPKENREIPPLKYHYAYQLKKDFPQLEILINGGIKTLPEIDEHLQH 240
           TFIVHARNAILKGLSPKENREIPPLKY YAYQLKKDFP LEILINGGIKTLPEIDEHL+H
Sbjct: 181 TFIVHARNAILKGLSPKENREIPPLKYDYAYQLKKDFPSLEILINGGIKTLPEIDEHLKH 240

Query: 241 VDGVMLGREAYHNPYLMASFDARYYGDLEGGRQPSRAEVIAAMLPYIKRQLELHGDNGRG 300
           VDGVMLGREAYHNPYLMA FDARYY  LEGG Q SRAEVI AMLPYIKRQLELHGDNGRG
Sbjct: 241 VDGVMLGREAYHNPYLMAGFDARYYAALEGGLQRSRAEVIEAMLPYIKRQLELHGDNGRG 300

Query: 301 LRLNSITRHMLGLLAGMPGARAFRQTLSDSKRLALGDPALLLEALQRTQAAQAA 354
           LRLNSITRHMLGL+AGMPGARAFRQTLSDSKRLALGDPALLLEALQRTQAAQAA
Sbjct: 301 LRLNSITRHMLGLMAGMPGARAFRQTLSDSKRLALGDPALLLEALQRTQAAQAA 354


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

 Score = 79.3 bits (194), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 86/334 (25%), Positives = 144/334 (43%), Gaps = 27/334 (8%)

Query: 26  TISVAPMMDWTDRHCRVFHRQITRHTWLYTEMVTTGALL--HGDVPRHLDFDEQEHPVAL 83
            + VAPM   TDR  R   +Q+    +  +EM  +   L       R ++ D +  P A+
Sbjct: 11  NVFVAPMAGVTDRPFRQLCKQLG-AGYAVSEMAASDPRLWQSEKTSRRINHDGEMEPKAV 69

Query: 84  QLGGSEPADLAHSAKLGEQWGYDEINLNCGCPSERVQKGAFGACLMGEPALVADCVKAMR 143
           Q+ G++P  LA  AK   + G   I++N GCP ++V     G+ L+ +  LVA  + A+ 
Sbjct: 70  QIAGADPVMLADCAKYNVERGAQIIDINMGCPVKKVCNSWCGSALLQDEELVARILDAVV 129

Query: 144 DAVSIDVTVKHRIGIDDVQSYDFVRDFVGQIAEAGCQTFIVHARNAILKGLSPKENREIP 203
            AV + VT+K R G +             +   AG     +H R          E   I 
Sbjct: 130 SAVDVPVTLKFRTGWNRANKNAL--KIAARAEAAGIAMLTLHGRTRADGYSGEAEYETIA 187

Query: 204 PLKYHYAYQLKKDFPQLEILINGGIKTLPEIDEH---LQHVDGVMLGREAYHNPYLMASF 260
            +K            ++ ++ NG I T PE       L   D VM+GR A   P++    
Sbjct: 188 AVKAAV---------KIPVVANGDITT-PEKARDVLLLTKADAVMVGRAAQGRPWIFREI 237

Query: 261 DARYYGDLEGGRQPSRAEVIAAMLPYIKRQLELHGDNGRGLRLNSITRHMLGLLAGMPGA 320
           D  +    E    P  +EV   M  +++     +GD    L + +  +H+   +  +PG 
Sbjct: 238 D-HFLRTGEHLPAPLVSEVEQLMDEHLQAHYAFYGDY---LGVRTARKHIGWYVRDLPGG 293

Query: 321 RAFRQTLSDSKRLALGDPALLLEALQRTQAAQAA 354
             FR++++      + D A  L+A+++  A+QAA
Sbjct: 294 EQFRRSMNR-----IEDCAQQLQAVRQFFASQAA 322


  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    0.137    0.412 

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: 1,157,539
Number of extensions: 50172
Number of successful extensions: 126
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 125
Number of HSP's successfully gapped: 2
Length of query: 354
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 268
Effective length of database: 1,212,660
Effective search space: 324992880
Effective search space used: 324992880
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)