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= Os03g0815900 Os03g0815900|AK119756
         (367 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os03g0815900  Similar to DNA-directed RNA polymerase              725   0.0  
Os07g0229700  Similar to DNA-directed RNA polymerase I subun...   485   e-137

>Os03g0815900 Similar to DNA-directed RNA polymerase
          Length = 367

 Score =  725 bits (1871), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 353/367 (96%), Positives = 353/367 (96%)

Query: 1   MERELLETFEXXXXXXXXXXXXXXSPEADRCLDAMRRLRGLRVTTDVLVSTQVGKRLRYL 60
           MERELLETFE              SPEADRCLDAMRRLRGLRVTTDVLVSTQVGKRLRYL
Sbjct: 1   MERELLETFEAAKKAADAAAGADDSPEADRCLDAMRRLRGLRVTTDVLVSTQVGKRLRYL 60

Query: 61  TKHPHSDIQSMATDLLGYWKKVVIEEGKKNGTTENVGSTNSAARAEKAQPMKVDKSSASG 120
           TKHPHSDIQSMATDLLGYWKKVVIEEGKKNGTTENVGSTNSAARAEKAQPMKVDKSSASG
Sbjct: 61  TKHPHSDIQSMATDLLGYWKKVVIEEGKKNGTTENVGSTNSAARAEKAQPMKVDKSSASG 120

Query: 121 SVKPEKREVNVRGQKPESIKVEKITNNDSKNQQVKVERAPKEATRTPDTKKPSSVPNGPP 180
           SVKPEKREVNVRGQKPESIKVEKITNNDSKNQQVKVERAPKEATRTPDTKKPSSVPNGPP
Sbjct: 121 SVKPEKREVNVRGQKPESIKVEKITNNDSKNQQVKVERAPKEATRTPDTKKPSSVPNGPP 180

Query: 181 KLTSLVKCNDPTRDKIRELLADAFSRVHGETSKDDREEVRNILDEVDARDPFRVAVTVES 240
           KLTSLVKCNDPTRDKIRELLADAFSRVHGETSKDDREEVRNILDEVDARDPFRVAVTVES
Sbjct: 181 KLTSLVKCNDPTRDKIRELLADAFSRVHGETSKDDREEVRNILDEVDARDPFRVAVTVES 240

Query: 241 ALFERLGRSTGAHKAKYRSIMFNLRADNNTDFRRRVLLGQVRPERLVDISPEEMASDARK 300
           ALFERLGRSTGAHKAKYRSIMFNLRADNNTDFRRRVLLGQVRPERLVDISPEEMASDARK
Sbjct: 241 ALFERLGRSTGAHKAKYRSIMFNLRADNNTDFRRRVLLGQVRPERLVDISPEEMASDARK 300

Query: 301 LENKQIKEKALFDCERGGAPKATTDQFKCGRCGQRKTTYYQLQTRSADEPMTTFVTCVNC 360
           LENKQIKEKALFDCERGGAPKATTDQFKCGRCGQRKTTYYQLQTRSADEPMTTFVTCVNC
Sbjct: 301 LENKQIKEKALFDCERGGAPKATTDQFKCGRCGQRKTTYYQLQTRSADEPMTTFVTCVNC 360

Query: 361 NNHWKFC 367
           NNHWKFC
Sbjct: 361 NNHWKFC 367



>Os07g0229700 Similar to DNA-directed RNA polymerase I subunit 12 (EC 2.7.7.6)
           (Nuclear RNA polymerase I small specific subunit Rpa12)
           (Zinc ribbon domain containing protein 1)
          Length = 379

 Score =  485 bits (1248), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 235/375 (62%), Positives = 283/375 (75%), Gaps = 10/375 (2%)

Query: 1   MERELLETFEXXXXXXXXXXXXXX--------SPEADRCLDAMRRLRGLRVTTDVLVSTQ 52
           MERELLE FE                      SPEA RC+DA+RRLRG RVTT  LVSTQ
Sbjct: 7   MERELLEAFEAARKAADAVGEAAAAAGAGEGESPEAARCVDALRRLRGARVTTAALVSTQ 66

Query: 53  VGKRLRYLTKHPHSDIQSMATDLLGYWKKVVIEEGKKNGTTENVGSTNSAARAEKAQPMK 112
           +G+R+RYLTKHPHS I++ A+DLLG+WKKVVIEE KKNG  +N  S+++  + EK +PMK
Sbjct: 67  IGRRIRYLTKHPHSSIKATASDLLGHWKKVVIEEDKKNGALQNGKSSSTVVKVEKVEPMK 126

Query: 113 VDKSSASGSVKPEKREVNVRGQKPESIKVEKITNNDSKNQQVKVERAPKEATRTPDTKKP 172
           V+K+S   +V     +  V   K    KVEK +N + + Q +KVE+  K   +    +KP
Sbjct: 127 VEKASPRATVNNNNMDTRVVNHK--GGKVEKFSNAELRTQSIKVEKVQKVVHKVSSVEKP 184

Query: 173 SSVPNGPPKLTSLVKCNDPTRDKIRELLADAFSRVHGETSKDDREEVRNILDEVDARDPF 232
           S V  GPP+LTS+VKC D +RD+IR +L DAFSRV  ET KDDREEVRNI++EV A DPF
Sbjct: 185 SPVQGGPPRLTSVVKCGDASRDRIRAILGDAFSRVSEETRKDDREEVRNIIEEVKACDPF 244

Query: 233 RVAVTVESALFERLGRSTGAHKAKYRSIMFNLRADNNTDFRRRVLLGQVRPERLVDISPE 292
           R+AV VE ALF++LG   G +K +YRS+MFNL+ D+NTDFRRRVLLGQV+PER+ D++P 
Sbjct: 245 RIAVMVECALFQKLGNFNGPNKQRYRSLMFNLKDDHNTDFRRRVLLGQVQPERIADLTPT 304

Query: 293 EMASDARKLENKQIKEKALFDCERGGAPKATTDQFKCGRCGQRKTTYYQLQTRSADEPMT 352
           EMASD RKLENK+I+EKALF+CERGGAPKATTDQFKCGRCGQRKTTYYQLQTRSADEPMT
Sbjct: 305 EMASDTRKLENKKIEEKALFECERGGAPKATTDQFKCGRCGQRKTTYYQLQTRSADEPMT 364

Query: 353 TFVTCVNCNNHWKFC 367
           TFVTCVNCNNHWKFC
Sbjct: 365 TFVTCVNCNNHWKFC 379



  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
   0.314    0.129    0.368 

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: 11,753,292
Number of extensions: 480034
Number of successful extensions: 1501
Number of sequences better than 1.0e-10: 2
Number of HSP's gapped: 1499
Number of HSP's successfully gapped: 2
Length of query: 367
Length of database: 17,035,801
Length adjustment: 102
Effective length of query: 265
Effective length of database: 11,709,973
Effective search space: 3103142845
Effective search space used: 3103142845
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 157 (65.1 bits)