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= 0010.0015.p
         (396 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...   470   e-134
gi|300312881|ref|YP_003776973.1| bifunctional GTP cyclohydrolase...   193   2e-50
gi|300309754|ref|YP_003773846.1| tRNA-dihydrouridine synthase or...    62   6e-11

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

 Score =  470 bits (1210), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 214/241 (88%), Positives = 231/241 (95%)

Query: 1   MDWTDRHCRLFHRQITRHTWLYTEMVTTGALLHGDVPRHLNFNEEEHPVALQLGGSEPDD 60
           MDWTDRHCR+FHRQITRHTWLYTEMVTTGALLHGDVPRHL+F+E+EHPVALQLGGSEP D
Sbjct: 33  MDWTDRHCRVFHRQITRHTWLYTEMVTTGALLHGDVPRHLDFDEQEHPVALQLGGSEPAD 92

Query: 61  LAKSARLGRQWGYDEINLNCGCPSERVQKGAFGACLMAEPKLVADCVKAMRDAVDIDVTV 120
           LA SA+LG QWGYDEINLNCGCPSERVQKGAFGACLM EP LVADCVKAMRDAV IDVTV
Sbjct: 93  LAHSAKLGEQWGYDEINLNCGCPSERVQKGAFGACLMGEPTLVADCVKAMRDAVSIDVTV 152

Query: 121 KHRIGIDDVESYDFVRDFVGTIAEAGCKTFIVHARNAVLKGLSPKENREIPPLRYEYAYR 180
           KHRIGID+VESYDFVRDFVG IAEAGC+TFIVHARNA+LKGLSPKENREIPPL+Y+YAY+
Sbjct: 153 KHRIGIDEVESYDFVRDFVGQIAEAGCQTFIVHARNAILKGLSPKENREIPPLKYDYAYQ 212

Query: 181 LKKDFPALEILINGGIKTVAEIDLHLQHVDGVMLGREAYHNPFLMAGFDARYYSQLDGGL 240
           LKKDFP+LEILINGGIKT+ EID HL+HVDGVMLGREAYHNP+LMAGFDARYY+ L+GGL
Sbjct: 213 LKKDFPSLEILINGGIKTLPEIDEHLKHVDGVMLGREAYHNPYLMAGFDARYYAALEGGL 272

Query: 241 Q 241
           Q
Sbjct: 273 Q 273


>gi|300312881|ref|YP_003776973.1| bifunctional GTP cyclohydrolase
           II/3,4-dihydroxy-2-butanone-4-phosphate synthase
           [Herbaspirillum seropedicae SmR1]
          Length = 373

 Score =  193 bits (490), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 95/105 (90%), Positives = 100/105 (95%)

Query: 268 MPIATTEEIVAELRAGRMVILVDEEDRENEGDLVLATDFVTPEAINFMVKHARGLVCLTL 327
           MP+ATTEEIVAELRAGRMVILVDEEDRENEGDLVLATDFVTPEAINFMV HARGLVCLTL
Sbjct: 1   MPLATTEEIVAELRAGRMVILVDEEDRENEGDLVLATDFVTPEAINFMVTHARGLVCLTL 60

Query: 328 TEEHCDRLDLSMMSTRNGTQFGTNFTVSIEAAEGVTTGISAADXA 372
           TEEH D+LDL +M+TRNGT +GTNFTVSIEAAEGVTTGISAAD A
Sbjct: 61  TEEHVDQLDLPLMATRNGTPYGTNFTVSIEAAEGVTTGISAADRA 105


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

 Score = 62.4 bits (150), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 64/230 (27%), Positives = 99/230 (43%), Gaps = 16/230 (6%)

Query: 4   TDRHCRLFHRQITRHTWLYTEMVTTGALLHGD--VPRHLNFNEEEHPVALQLGGSEPDDL 61
           TDR  R   +Q+    +  +EM  +   L       R +N + E  P A+Q+ G++P  L
Sbjct: 21  TDRPFRQLCKQLG-AGYAVSEMAASDPRLWQSEKTSRRINHDGEMEPKAVQIAGADPVML 79

Query: 62  AKSARLGRQWGYDEINLNCGCPSERVQKGAFGACLMAEPKLVADCVKAMRDAVDIDVTVK 121
           A  A+   + G   I++N GCP ++V     G+ L+ + +LVA  + A+  AVD+ VT+K
Sbjct: 80  ADCAKYNVERGAQIIDINMGCPVKKVCNSWCGSALLQDEELVARILDAVVSAVDVPVTLK 139

Query: 122 HRIGIDDVESYDFVRDFVGTIAEAGCKTFIVHARNAVLKGLSPKENREIPPLRYEYAYRL 181
            R G +                 AG     +H R     G S +         YE    +
Sbjct: 140 FRTGWNRANKNAL--KIAARAEAAGIAMLTLHGRTRA-DGYSGEAE-------YETIAAV 189

Query: 182 KKDFPALEILINGGIKT--VAEIDLHLQHVDGVMLGREAYHNPFLMAGFD 229
           K     + ++ NG I T   A   L L   D VM+GR A   P++    D
Sbjct: 190 KAAV-KIPVVANGDITTPEKARDVLLLTKADAVMVGRAAQGRPWIFREID 238


  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    0.137    0.417 

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: 1,224,780
Number of extensions: 50958
Number of successful extensions: 113
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 113
Number of HSP's successfully gapped: 3
Length of query: 396
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 309
Effective length of database: 1,207,925
Effective search space: 373248825
Effective search space used: 373248825
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)