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= Os12g0139500 Os12g0139500|AK063339
(227 letters)
Database: rap3
52,214 sequences; 17,035,801 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Os12g0139500 RNA polymerase Rpb5, N-terminal domain contain... 432 e-121
Os11g0143400 RNA polymerase Rpb5, N-terminal domain contain... 429 e-121
Os01g0805800 RNA polymerase Rpb5, N-terminal domain contain... 141 5e-34
>Os12g0139500 RNA polymerase Rpb5, N-terminal domain containing protein
Length = 227
Score = 432 bits (1110), Expect = e-121, Method: Compositional matrix adjust.
Identities = 210/210 (100%), Positives = 210/210 (100%)
Query: 18 CIASMIDRGSVESHRLFLARRTAMEMLRDRGYSVPEAEIARTLPEFRAWWAEKPGIERLA 77
CIASMIDRGSVESHRLFLARRTAMEMLRDRGYSVPEAEIARTLPEFRAWWAEKPGIERLA
Sbjct: 18 CIASMIDRGSVESHRLFLARRTAMEMLRDRGYSVPEAEIARTLPEFRAWWAEKPGIERLA 77
Query: 78 FTTTLVSDPSKKVQLVFCPPEPVKIATIREIYLQTKEENLSRLVLILQSKILSRAREAIK 137
FTTTLVSDPSKKVQLVFCPPEPVKIATIREIYLQTKEENLSRLVLILQSKILSRAREAIK
Sbjct: 78 FTTTLVSDPSKKVQLVFCPPEPVKIATIREIYLQTKEENLSRLVLILQSKILSRAREAIK 137
Query: 138 EIFKFKVDIFQATDLLVNITKHVLKPKHEVLSADQKAKLLKEYNVEDSQLPRMLETDAVA 197
EIFKFKVDIFQATDLLVNITKHVLKPKHEVLSADQKAKLLKEYNVEDSQLPRMLETDAVA
Sbjct: 138 EIFKFKVDIFQATDLLVNITKHVLKPKHEVLSADQKAKLLKEYNVEDSQLPRMLETDAVA 197
Query: 198 RYYGFDKGTVVKVTYDGELTGKRVAYRCVF 227
RYYGFDKGTVVKVTYDGELTGKRVAYRCVF
Sbjct: 198 RYYGFDKGTVVKVTYDGELTGKRVAYRCVF 227
>Os11g0143400 RNA polymerase Rpb5, N-terminal domain containing protein
Length = 227
Score = 429 bits (1104), Expect = e-121, Method: Compositional matrix adjust.
Identities = 209/210 (99%), Positives = 209/210 (99%)
Query: 18 CIASMIDRGSVESHRLFLARRTAMEMLRDRGYSVPEAEIARTLPEFRAWWAEKPGIERLA 77
CIASMIDRGSVESHRLFLARRTAMEMLRDRGYSVPEAEIARTLPEFRAWWAEKPGIERLA
Sbjct: 18 CIASMIDRGSVESHRLFLARRTAMEMLRDRGYSVPEAEIARTLPEFRAWWAEKPGIERLA 77
Query: 78 FTTTLVSDPSKKVQLVFCPPEPVKIATIREIYLQTKEENLSRLVLILQSKILSRAREAIK 137
FTTTLVSDPSKKVQLVFCPPEPVKIATIREIYLQTKEENLSRLVLILQSKILSRAREAIK
Sbjct: 78 FTTTLVSDPSKKVQLVFCPPEPVKIATIREIYLQTKEENLSRLVLILQSKILSRAREAIK 137
Query: 138 EIFKFKVDIFQATDLLVNITKHVLKPKHEVLSADQKAKLLKEYNVEDSQLPRMLETDAVA 197
EIFKFKVDIFQATDLLVNITKHVLKPKHEVLSADQKAKLLKEYNVEDSQLPRMLETDAVA
Sbjct: 138 EIFKFKVDIFQATDLLVNITKHVLKPKHEVLSADQKAKLLKEYNVEDSQLPRMLETDAVA 197
Query: 198 RYYGFDKGTVVKVTYDGELTGKRVAYRCVF 227
RYYGFDKGTVVKV YDGELTGKRVAYRCVF
Sbjct: 198 RYYGFDKGTVVKVIYDGELTGKRVAYRCVF 227
>Os01g0805800 RNA polymerase Rpb5, N-terminal domain containing protein
Length = 210
Score = 141 bits (355), Expect = 5e-34, Method: Compositional matrix adjust.
Identities = 79/196 (40%), Positives = 117/196 (59%), Gaps = 1/196 (0%)
Query: 32 RLFLARRTAMEMLRDRGYSVPEAEIARTLPEFRAWWAEKPGIERLAFTTTLVSDPSKKVQ 91
RL RRT M+MLRDRGY V E E+A +F + E E L +DPS ++
Sbjct: 14 RLVRIRRTVMQMLRDRGYLVVEHELAMGRRDFLRKYGESFHREDLLINKYKKNDPSDQIY 73
Query: 92 LVFCPPEPVKIATIREIYLQTKEENLSRLVLILQSKILSRAREAIKEIF-KFKVDIFQAT 150
+ F + V + I++ K EN+SR VL+LQ + AR ++E+ K ++IFQ
Sbjct: 74 VFFPNDDKVGMKHIKKYVEMMKAENVSRAVLVLQQNLTPFARSFLQELEPKIHLEIFQEA 133
Query: 151 DLLVNITKHVLKPKHEVLSADQKAKLLKEYNVEDSQLPRMLETDAVARYYGFDKGTVVKV 210
+LL+NI +HVL P+H+VL+ ++K LL+ Y ++++QLPR+ TD +ARYYG +G VVK+
Sbjct: 134 ELLINIKEHVLVPEHQVLNNEEKKTLLERYTLKETQLPRIQITDPIARYYGLRRGQVVKI 193
Query: 211 TYDGELTGKRVAYRCV 226
E G+ V YR V
Sbjct: 194 IRPSETAGRYVTYRYV 209
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
0.322 0.135 0.386
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: 6,281,856
Number of extensions: 229104
Number of successful extensions: 602
Number of sequences better than 1.0e-10: 3
Number of HSP's gapped: 601
Number of HSP's successfully gapped: 3
Length of query: 227
Length of database: 17,035,801
Length adjustment: 97
Effective length of query: 130
Effective length of database: 11,971,043
Effective search space: 1556235590
Effective search space used: 1556235590
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: 154 (63.9 bits)