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/690/690 
           3295 sequences; 1,000,347 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|134095593|ref|YP_001100668.1| tRNA-dihydrouridine synthase A ...   575   e-165
gi|134093535|ref|YP_001098610.1| tRNA-dihydrouridine synthase B ...    57   1e-09

>gi|134095593|ref|YP_001100668.1| tRNA-dihydrouridine synthase A
           [Herminiimonas arsenicoxydans]
          Length = 338

 Score =  575 bits (1481), Expect = e-165,   Method: Compositional matrix adjust.
 Identities = 272/327 (83%), Positives = 296/327 (90%), Gaps = 4/327 (1%)

Query: 25  RTISVAPMMDWTDRHCRVFHRQITRHTWLYTEMVTTGALLHGDVPRHLDFDEQEHPVALQ 84
           R +SVAPMMDWTDRHCR+FHRQITRHTW YTEMVTTGALLHGDV RHLDF+ +EHPVALQ
Sbjct: 9   RRVSVAPMMDWTDRHCRMFHRQITRHTWFYTEMVTTGALLHGDVSRHLDFNHEEHPVALQ 68

Query: 85  LGGSEPADLAHSAKLGEQWGYDEINLNCGCPSERVQKGAFGACLMGEPALVADCVKAMRD 144
           LGGSEPADLA SAKLGEQWGYDEINLNCGCPSERVQKGAFGACLM E ALVADCVKAMRD
Sbjct: 69  LGGSEPADLAKSAKLGEQWGYDEINLNCGCPSERVQKGAFGACLMNEAALVADCVKAMRD 128

Query: 145 AVSIDVTVKHRIGIDDVQSYDFVRDFVGQIAEAGCQTFIVHARNAILKGLSPKENREIPP 204
           AV IDVTVKHRIGIDD+ SYDFVRDFVG +AEAGC TFIVHARNA+LKGLSPKENREIPP
Sbjct: 129 AVQIDVTVKHRIGIDDIASYDFVRDFVGTVAEAGCNTFIVHARNAVLKGLSPKENREIPP 188

Query: 205 LKYHYAYQLKKDFPQLEILINGGIKTLPEIDEHLQHVDGVMLGREAYHNPYLMASFDARY 264
           L+Y +AYQLK+DFPQLEI+INGGIKTL EID HL HVDGVMLGREAYHNPYLM++FDARY
Sbjct: 189 LRYEFAYQLKQDFPQLEIIINGGIKTLAEIDTHLVHVDGVMLGREAYHNPYLMSAFDARY 248

Query: 265 YGDLEGGRQPSRAEVIAAMLPYIKRQLELHG--DNGRGLRLNSITRHMLGLLAGMPGARA 322
           YGD+   +  SRA+V+ AMLPYI+ QLELHG  + G GLRLNSITRHMLGL+AG+P AR 
Sbjct: 249 YGDIAAPK--SRAQVLHAMLPYIRAQLELHGKSEKGGGLRLNSITRHMLGLMAGLPNARG 306

Query: 323 FRQTLSDSKRLALGDPALLLEALQRTQ 349
           FRQ+LSDSK+LALGDP LLL+AL R Q
Sbjct: 307 FRQSLSDSKKLALGDPDLLLQALARMQ 333


>gi|134093535|ref|YP_001098610.1| tRNA-dihydrouridine synthase B
           [Herminiimonas arsenicoxydans]
          Length = 322

 Score = 57.4 bits (137), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 65/263 (24%), Positives = 113/263 (42%), Gaps = 21/263 (7%)

Query: 70  RHLDFDEQEHPVALQLGGSEPADLAHSAKLGEQWGYDEINLNCGCPSERVQKGAFGACLM 129
           R  + D +  P A+Q+ G++P  LA  AK     G   I++N GCP ++V     G+ L+
Sbjct: 40  RRTNHDGEVEPKAVQIAGADPLMLAECAKFNVDRGAQIIDINMGCPVKKVCNSWCGSALL 99

Query: 130 GEPALVADCVKAMRDAVSIDVTVKHRIGIDDVQSYDFVRDFVGQIAE-AGCQTFIVHARN 188
              +LVA+ ++A+  AV + VT+K R G D           + +IAE +G     +H R 
Sbjct: 100 QHESLVAEILQAVVAAVDVPVTLKFRTGWDRAHKNAL---NIARIAEQSGIAMLTLHGRT 156

Query: 189 AILKGLSPKENREIPPLKYHYAYQLKKDFPQLEILINGGIKTLPEIDEHLQH---VDGVM 245
                    E   I  +K   +         + ++ NG I T PE  + +      D +M
Sbjct: 157 RADGYSGEAEYEMIAAVKAAVS---------IPVVANGDITT-PEKAKFVLEATGADAIM 206

Query: 246 LGREAYHNPYLMASFDARYYGDLEGGRQPSRAEVIAAMLPYIKRQLELHGDNGRGLRLNS 305
           +GR A   P++       Y         P  +EV   M  +++     +G+    L + +
Sbjct: 207 IGRAAQGRPWIFREI-VHYLRTGTHLPAPLISEVRTLMDEHLRAHYAFYGEY---LGVRT 262

Query: 306 ITRHMLGLLAGMPGARAFRQTLS 328
             +H+   +  +    AFRQ ++
Sbjct: 263 ARKHIGWYVRELIDGEAFRQQMN 285


  Database: BlastDatabases/690/690
    Posted date:  Apr 9, 2011  4:48 AM
  Number of letters in database: 1,000,347
  Number of sequences in database:  3295
  
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: 3295
Number of Hits to DB: 694,245
Number of extensions: 29354
Number of successful extensions: 83
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 81
Number of HSP's successfully gapped: 2
Length of query: 354
Length of database: 1,000,347
Length adjustment: 83
Effective length of query: 271
Effective length of database: 726,862
Effective search space: 196979602
Effective search space used: 196979602
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: 129 (54.3 bits)