BLASTP 2.2.23 [Feb-03-2010]


Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer, 
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. Schäffer, and Yi-Kuo Yu (2005) "Protein database
searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= Os08g0520100 Os08g0520100|AK120052
         (475 letters)

Database: rap3 
           52,214 sequences; 17,035,801 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os08g0520100  Pseudouridine synthase domain containing protein    852   0.0  
Os09g0103500  Pseudouridine synthase domain containing protein    201   1e-51
Os09g0502300                                                      100   4e-21

>Os08g0520100 Pseudouridine synthase domain containing protein
          Length = 475

 Score =  852 bits (2200), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 432/475 (90%), Positives = 432/475 (90%)

Query: 1   MLCRRRRVGAAVRWLSRLXXXXXXXXXXXXXXXDGSNVARLXXXXXXXXXXQXXXXXXXX 60
           MLCRRRRVGAAVRWLSRL               DGSNVARL          Q        
Sbjct: 1   MLCRRRRVGAAVRWLSRLAPPAPAEADPVVVRVDGSNVARLGKPKPGPRPRQLLSLPPFP 60

Query: 61  XXXXXXXXXXRKAAAPRRVTAVSWVKHYLADVPQEVVQAHFNKRLVYSECSDHEVSVETI 120
                     RKAAAPRRVTAVSWVKHYLADVPQEVVQAHFNKRLVYSECSDHEVSVETI
Sbjct: 61  GGGDGDPLPGRKAAAPRRVTAVSWVKHYLADVPQEVVQAHFNKRLVYSECSDHEVSVETI 120

Query: 121 KSQKHHLKKIKHNDVMEPGMRIHLPVSVAEGEIKKRYETIPTATLHPNKDEIEYLRRLVI 180
           KSQKHHLKKIKHNDVMEPGMRIHLPVSVAEGEIKKRYETIPTATLHPNKDEIEYLRRLVI
Sbjct: 121 KSQKHHLKKIKHNDVMEPGMRIHLPVSVAEGEIKKRYETIPTATLHPNKDEIEYLRRLVI 180

Query: 181 HKDSAILVLNKPPKVPMKGNLPVHNSMDVLAAAALSYGNEEGPKLVHRLDRESSGLLLFG 240
           HKDSAILVLNKPPKVPMKGNLPVHNSMDVLAAAALSYGNEEGPKLVHRLDRESSGLLLFG
Sbjct: 181 HKDSAILVLNKPPKVPMKGNLPVHNSMDVLAAAALSYGNEEGPKLVHRLDRESSGLLLFG 240

Query: 241 RTKESFTRLHWLFTSVNLAKTNSQVWNAACEAYMQRYWALVIGTPKEREGIISAPLSKVL 300
           RTKESFTRLHWLFTSVNLAKTNSQVWNAACEAYMQRYWALVIGTPKEREGIISAPLSKVL
Sbjct: 241 RTKESFTRLHWLFTSVNLAKTNSQVWNAACEAYMQRYWALVIGTPKEREGIISAPLSKVL 300

Query: 301 LDDGKAERVILAHPSGIDGAQEAVTAYRVMGPTIHGCSWIELRPLTGRKHQLRVHCAEAL 360
           LDDGKAERVILAHPSGIDGAQEAVTAYRVMGPTIHGCSWIELRPLTGRKHQLRVHCAEAL
Sbjct: 301 LDDGKAERVILAHPSGIDGAQEAVTAYRVMGPTIHGCSWIELRPLTGRKHQLRVHCAEAL 360

Query: 361 GTPIVGDYKYGWFVHQRWKQNPQPDFEPFTGEPYKLRRPEGLEIQKGSVLSKVPLLHLHC 420
           GTPIVGDYKYGWFVHQRWKQNPQPDFEPFTGEPYKLRRPEGLEIQKGSVLSKVPLLHLHC
Sbjct: 361 GTPIVGDYKYGWFVHQRWKQNPQPDFEPFTGEPYKLRRPEGLEIQKGSVLSKVPLLHLHC 420

Query: 421 REMVIPNIAKFLSSNGEWHENGAPWSKEKPNLLRFIAPMPAHMKISWNIMSSYLV 475
           REMVIPNIAKFLSSNGEWHENGAPWSKEKPNLLRFIAPMPAHMKISWNIMSSYLV
Sbjct: 421 REMVIPNIAKFLSSNGEWHENGAPWSKEKPNLLRFIAPMPAHMKISWNIMSSYLV 475



>Os09g0103500 Pseudouridine synthase domain containing protein
          Length = 448

 Score =  201 bits (510), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 105/272 (38%), Positives = 163/272 (59%), Gaps = 11/272 (4%)

Query: 80  TAVSWVKHYLADVPQEVVQAHFNKRLVYSECSDHEVSVETIKSQKHHLKKIKHNDVMEPG 139
           TA+ WV+    D+P  +VQ  F  R V       E+S     +++H L+++   D + PG
Sbjct: 85  TAIKWVRRCCPDLPTSLVQKLFRLRKVKKNVVTAEISSADASAEQHRLRRVSAKDQLMPG 144

Query: 140 MRIHLPVSVAEGEIKKRYETIPTATLHPNKDEIEYLRRLVIHKDSAILVLNKPPKVPMKG 199
             + LPV++ E  + ++ +         N++EI +LR L I+KD AI+V+NKPP +P++G
Sbjct: 145 DILFLPVNLKESSVAEKTKKFD------NRNEINFLRGLEIYKDEAIIVVNKPPGMPVQG 198

Query: 200 NLPVHNSMDVLAAAALSYGNEEGPKLVHRLDRESSGLLLFGRTKESFTRLHWLFTSVNLA 259
            + + NS+DVLA+      + E P+LVHRLDR+ SG+L+ GR + S + LH +F      
Sbjct: 199 GVGIKNSIDVLASM-FEENSSEAPRLVHRLDRDCSGILVLGRNQLSTSMLHAIFRE---- 253

Query: 260 KTNSQVWNAACEAYMQRYWALVIGTPKEREGIISAPLSKVLLDDGKAERVILAHPSGIDG 319
           KT   + +       ++Y ALVIGTP+  +G++SAPL+K+LL DGK+ER+ +   S    
Sbjct: 254 KTADALADGTQHVLQRKYVALVIGTPRHPKGLLSAPLAKILLQDGKSERLTIRASSNAAS 313

Query: 320 AQEAVTAYRVMGPTIHGCSWIELRPLTGRKHQ 351
            Q+A+T YRV+     G +W+EL P TGRKHQ
Sbjct: 314 VQDALTEYRVIESCPQGYTWLELFPRTGRKHQ 345



>Os09g0502300 
          Length = 102

 Score = 99.8 bits (247), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 50/54 (92%), Positives = 50/54 (92%)

Query: 175 LRRLVIHKDSAILVLNKPPKVPMKGNLPVHNSMDVLAAAALSYGNEEGPKLVHR 228
           LRR VIHKDSAILVLNKP KVPMKGNLPVHNSMDVLAAAAL YGNEEG KLVHR
Sbjct: 3   LRRPVIHKDSAILVLNKPTKVPMKGNLPVHNSMDVLAAAALLYGNEEGSKLVHR 56



  Database: rap3
    Posted date:  Nov 19, 2010  6:03 PM
  Number of letters in database: 17,035,801
  Number of sequences in database:  52,214
  
Lambda     K      H
   0.320    0.135    0.419 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 52214
Number of Hits to DB: 16,118,707
Number of extensions: 688279
Number of successful extensions: 1597
Number of sequences better than 1.0e-10: 3
Number of HSP's gapped: 1594
Number of HSP's successfully gapped: 3
Length of query: 475
Length of database: 17,035,801
Length adjustment: 105
Effective length of query: 370
Effective length of database: 11,553,331
Effective search space: 4274732470
Effective search space used: 4274732470
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: 158 (65.5 bits)