Nr search
BLASTX 2.2.2 [Dec-14-2001]
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.
Query= KMC002718A_C01 KMC002718A_c01
(503 letters)
Database: nr
1,393,205 sequences; 448,689,247 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
dbj|BAB01854.1| DNA-directed RNA polymerase, subunit B [Arabidop... 117 7e-26
ref|NP_189020.1| DNA-directed RNA polymerase subunit, putative; ... 117 7e-26
dbj|BAB02021.1| DNA-dependent RNA polymerase II [Arabidopsis tha... 116 1e-25
ref|NP_188437.1| DNA-directed RNA polymerase II second largest c... 116 1e-25
sp|Q42877|RPB2_LYCES DNA-directed RNA polymerase II 135 kDa poly... 58 7e-08
>dbj|BAB01854.1| DNA-directed RNA polymerase, subunit B [Arabidopsis thaliana]
Length = 1172
Score = 117 bits (293), Expect = 7e-26
Identities = 67/120 (55%), Positives = 74/120 (60%), Gaps = 4/120 (3%)
Frame = -3
Query: 501 PLTRQPVADRKRFGGIKFGEMERDCLIAHGRISKPV*TPLHSE*LV----PDTHLP*MPK 334
PLTRQPVADRKRFGGIKFGEMERDCLIAHG + LH H+ K
Sbjct: 1058 PLTRQPVADRKRFGGIKFGEMERDCLIAHGASAN-----LHERLFTLSDSSQMHICRKCK 1112
Query: 333 MLQM*S*GRWPGGRKIRGPYCRFCESADDLVVANVPYGAKLLSPELFSMGLNLKFETELC 154
GRKIRGPYCR C S+D +V VPYGAKLL ELFSMG+ L F+T+LC
Sbjct: 1113 TYANVIERTPSSGRKIRGPYCRVCVSSDHVVRVYVPYGAKLLCQELFSMGITLNFDTKLC 1172
Score = 50.1 bits (118), Expect = 1e-05
Identities = 22/25 (88%), Positives = 25/25 (100%)
Frame = -1
Query: 410 ASANLYERLFTLSDSSQIHICRKCQ 336
ASANL+ERLFTLSDSSQ+HICRKC+
Sbjct: 1088 ASANLHERLFTLSDSSQMHICRKCK 1112
>ref|NP_189020.1| DNA-directed RNA polymerase subunit, putative; protein id:
At3g23780.1 [Arabidopsis thaliana]
Length = 946
Score = 117 bits (293), Expect = 7e-26
Identities = 67/120 (55%), Positives = 74/120 (60%), Gaps = 4/120 (3%)
Frame = -3
Query: 501 PLTRQPVADRKRFGGIKFGEMERDCLIAHGRISKPV*TPLHSE*LV----PDTHLP*MPK 334
PLTRQPVADRKRFGGIKFGEMERDCLIAHG + LH H+ K
Sbjct: 832 PLTRQPVADRKRFGGIKFGEMERDCLIAHGASAN-----LHERLFTLSDSSQMHICRKCK 886
Query: 333 MLQM*S*GRWPGGRKIRGPYCRFCESADDLVVANVPYGAKLLSPELFSMGLNLKFETELC 154
GRKIRGPYCR C S+D +V VPYGAKLL ELFSMG+ L F+T+LC
Sbjct: 887 TYANVIERTPSSGRKIRGPYCRVCVSSDHVVRVYVPYGAKLLCQELFSMGITLNFDTKLC 946
Score = 50.1 bits (118), Expect = 1e-05
Identities = 22/25 (88%), Positives = 25/25 (100%)
Frame = -1
Query: 410 ASANLYERLFTLSDSSQIHICRKCQ 336
ASANL+ERLFTLSDSSQ+HICRKC+
Sbjct: 862 ASANLHERLFTLSDSSQMHICRKCK 886
>dbj|BAB02021.1| DNA-dependent RNA polymerase II [Arabidopsis thaliana]
Length = 1119
Score = 116 bits (291), Expect = 1e-25
Identities = 66/120 (55%), Positives = 74/120 (61%), Gaps = 4/120 (3%)
Frame = -3
Query: 501 PLTRQPVADRKRFGGIKFGEMERDCLIAHGRISKPV*TPLHSE*LV----PDTHLP*MPK 334
PLTRQPVADRKRFGGI+FGEMERDCLIAHG + LH H+ K
Sbjct: 1005 PLTRQPVADRKRFGGIRFGEMERDCLIAHGASAN-----LHERLFTLSDSSQMHICRKCK 1059
Query: 333 MLQM*S*GRWPGGRKIRGPYCRFCESADDLVVANVPYGAKLLSPELFSMGLNLKFETELC 154
GRKIRGPYCR C S+D +V VPYGAKLL ELFSMG+ L F+T+LC
Sbjct: 1060 TYANVIERTPSSGRKIRGPYCRVCASSDHVVRVYVPYGAKLLCQELFSMGITLNFDTKLC 1119
Score = 50.1 bits (118), Expect = 1e-05
Identities = 22/25 (88%), Positives = 25/25 (100%)
Frame = -1
Query: 410 ASANLYERLFTLSDSSQIHICRKCQ 336
ASANL+ERLFTLSDSSQ+HICRKC+
Sbjct: 1035 ASANLHERLFTLSDSSQMHICRKCK 1059
>ref|NP_188437.1| DNA-directed RNA polymerase II second largest chain, putative;
protein id: At3g18090.1 [Arabidopsis thaliana]
Length = 1038
Score = 116 bits (291), Expect = 1e-25
Identities = 66/120 (55%), Positives = 74/120 (61%), Gaps = 4/120 (3%)
Frame = -3
Query: 501 PLTRQPVADRKRFGGIKFGEMERDCLIAHGRISKPV*TPLHSE*LV----PDTHLP*MPK 334
PLTRQPVADRKRFGGI+FGEMERDCLIAHG + LH H+ K
Sbjct: 924 PLTRQPVADRKRFGGIRFGEMERDCLIAHGASAN-----LHERLFTLSDSSQMHICRKCK 978
Query: 333 MLQM*S*GRWPGGRKIRGPYCRFCESADDLVVANVPYGAKLLSPELFSMGLNLKFETELC 154
GRKIRGPYCR C S+D +V VPYGAKLL ELFSMG+ L F+T+LC
Sbjct: 979 TYANVIERTPSSGRKIRGPYCRVCASSDHVVRVYVPYGAKLLCQELFSMGITLNFDTKLC 1038
Score = 50.1 bits (118), Expect = 1e-05
Identities = 22/25 (88%), Positives = 25/25 (100%)
Frame = -1
Query: 410 ASANLYERLFTLSDSSQIHICRKCQ 336
ASANL+ERLFTLSDSSQ+HICRKC+
Sbjct: 954 ASANLHERLFTLSDSSQMHICRKCK 978
>sp|Q42877|RPB2_LYCES DNA-directed RNA polymerase II 135 kDa polypeptide (RNA polymerase II
subunit 2) gi|2129929|pir||S65068 DNA-directed RNA
polymerase (EC 2.7.7.6) II second largest chain - tomato
gi|1049068|gb|AAC49273.1| RNA polymerase II subunit 2
Length = 1191
Score = 57.8 bits (138), Expect = 7e-08
Identities = 37/106 (34%), Positives = 54/106 (50%)
Frame = -3
Query: 498 LTRQPVADRKRFGGIKFGEMERDCLIAHGRISKPV*TPLHSE*LVPDTHLP*MPKMLQM* 319
LTRQP R R GG++FGEMERDC+IAHG + + L + H+ ++ +
Sbjct: 1074 LTRQPAEGRSRDGGLRFGEMERDCMIAHG-AAHFLKERLFDQSDAYRVHVCERCGLIAI- 1131
Query: 318 S*GRWPGGRKIRGPYCRFCESADDLVVANVPYGAKLLSPELFSMGL 181
K CR C++ D+V ++PY KLL EL +M +
Sbjct: 1132 ------ANLKKNSFECRGCKNKTDIVQVHIPYACKLLFQELMAMAI 1171
Database: nr
Posted date: Apr 1, 2003 2:05 AM
Number of letters in database: 448,689,247
Number of sequences in database: 1,393,205
Lambda K H
0.318 0.135 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 410,912,021
Number of Sequences: 1393205
Number of extensions: 7837415
Number of successful extensions: 21951
Number of sequences better than 10.0: 337
Number of HSP's better than 10.0 without gapping: 20846
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 21945
length of database: 448,689,247
effective HSP length: 114
effective length of database: 289,863,877
effective search space used: 15362785481
frameshift window, decay const: 50, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
