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.
Query= Dr_sW_023_F02
(680 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|Q88QP1|RPOC_PSEPK DNA-directed RNA polymerase beta' chai... 39 0.010
sp|P19176|RPOC_PSEPU DNA-directed RNA polymerase beta' chai... 38 0.021
sp|Q9HWC9|RPOC_PSEAE DNA-directed RNA polymerase beta' chai... 37 0.048
sp|Q889X7|RPOC_PSESM DNA-directed RNA polymerase beta' chai... 35 0.14
sp|Q87KQ5|RPOC_VIBPA DNA-directed RNA polymerase beta' chai... 33 0.90
sp|Q9LW85|MFP1_ARATH MAR binding filament-like protein 1 32 1.5
sp|Q8XUZ9|RPOC_RALSO DNA-directed RNA polymerase beta' chai... 30 4.5
sp|Q7MGS0|RPOC_VIBVY DNA-directed RNA polymerase beta' chai... 30 7.6
sp|Q09780|KIME_SCHPO Putative mevalonate kinase (MK) 29 10.0
sp|P07207|NOTCH_DROME Neurogenic locus Notch protein precursor 29 10.0
>sp|Q88QP1|RPOC_PSEPK DNA-directed RNA polymerase beta' chain (RNAP beta' subunit)
(Transcriptase beta' chain) (RNA polymerase beta'
subunit)
Length = 1399
Score = 39.3 bits (90), Expect = 0.010
Identities = 25/119 (21%), Positives = 53/119 (44%)
Frame = +3
Query: 3 NLSGDEEFDDDMKEFIKPRRMGKRSLNNMLEEWSNEQIIDEDLIEAVNTKLTDRLKSTCQ 182
N G+ D++E + R G+ +L+ ++ NE + + D NT++ D
Sbjct: 519 NAKGEGRVFADLQEVDRVFRAGEAALHAKIKVRINETVKERDGSVVKNTRIVDT------ 572
Query: 183 KVTENECTCRRLVCFDESVCKLPVDATKQPLLQSNTNNILNKTFQEIRCRQTIIYDQRL 359
T R + F LP D QP+ + + ++N+ ++ + ++T+I+ +L
Sbjct: 573 -------TVGRALLFQVVPAGLPYDVVNQPMKKKAISKLINQCYRVVGLKETVIFADQL 624
>sp|P19176|RPOC_PSEPU DNA-directed RNA polymerase beta' chain (RNAP beta' subunit)
(Transcriptase beta' chain) (RNA polymerase beta'
subunit)
Length = 1398
Score = 38.1 bits (87), Expect = 0.021
Identities = 25/119 (21%), Positives = 53/119 (44%)
Frame = +3
Query: 3 NLSGDEEFDDDMKEFIKPRRMGKRSLNNMLEEWSNEQIIDEDLIEAVNTKLTDRLKSTCQ 182
N G+ D++E + R G+ +L+ ++ NE + + D NT++ D
Sbjct: 519 NAKGEGRVFADLQEVDRVFRAGEAALHAKIKVRINETVKERDGSVVKNTRIVDT------ 572
Query: 183 KVTENECTCRRLVCFDESVCKLPVDATKQPLLQSNTNNILNKTFQEIRCRQTIIYDQRL 359
T R + F LP D QP+ + + ++N+ ++ + ++T+I+ +L
Sbjct: 573 -------TVGRALLFQVVPGGLPYDVVNQPMKKKAISKLINQCYRVVGLKETVIFADQL 624
>sp|Q9HWC9|RPOC_PSEAE DNA-directed RNA polymerase beta' chain (RNAP beta' subunit)
(Transcriptase beta' chain) (RNA polymerase beta'
subunit)
Length = 1399
Score = 37.0 bits (84), Expect = 0.048
Identities = 27/119 (22%), Positives = 51/119 (42%)
Frame = +3
Query: 3 NLSGDEEFDDDMKEFIKPRRMGKRSLNNMLEEWSNEQIIDEDLIEAVNTKLTDRLKSTCQ 182
N G+ D++E + R G+ SL+ ++ NE+I ED NT++ D
Sbjct: 519 NAKGEGMAFADLQEVDRAYRSGQASLHARVKVRINEKIKGEDGQLTANTRIVD------- 571
Query: 183 KVTENECTCRRLVCFDESVCKLPVDATKQPLLQSNTNNILNKTFQEIRCRQTIIYDQRL 359
T R + F LP D Q + + + ++N ++ + + T+I+ +L
Sbjct: 572 ------TTVGRALLFQVVPAGLPFDVVNQSMKKKAISKLINHCYRVVGLKDTVIFADQL 624
>sp|Q889X7|RPOC_PSESM DNA-directed RNA polymerase beta' chain (RNAP beta' subunit)
(Transcriptase beta' chain) (RNA polymerase beta'
subunit)
Length = 1399
Score = 35.4 bits (80), Expect = 0.14
Identities = 24/119 (20%), Positives = 52/119 (43%)
Frame = +3
Query: 3 NLSGDEEFDDDMKEFIKPRRMGKRSLNNMLEEWSNEQIIDEDLIEAVNTKLTDRLKSTCQ 182
N G+ D++E + R G+ +L+ ++ +E + D D NT++ D
Sbjct: 519 NAKGEGRVFADLQEVDRVFRAGEAALHAKVKVRIHETVNDRDGGSVKNTRIVDT------ 572
Query: 183 KVTENECTCRRLVCFDESVCKLPVDATKQPLLQSNTNNILNKTFQEIRCRQTIIYDQRL 359
T R + F L D QP+ + + ++N+ ++ + ++T+I+ +L
Sbjct: 573 -------TVGRALLFQVVPAGLSYDVVNQPMKKKAISKLINQCYRVVGLKETVIFADQL 624
>sp|Q87KQ5|RPOC_VIBPA DNA-directed RNA polymerase beta' chain (RNAP beta' subunit)
(Transcriptase beta' chain) (RNA polymerase beta'
subunit)
Length = 1400
Score = 32.7 bits (73), Expect = 0.90
Identities = 24/119 (20%), Positives = 49/119 (41%)
Frame = +3
Query: 3 NLSGDEEFDDDMKEFIKPRRMGKRSLNNMLEEWSNEQIIDEDLIEAVNTKLTDRLKSTCQ 182
N+ G+ + E K R + L+ ++ E ++DED TK+ D
Sbjct: 519 NVKGEGMYLSGPAEAEKAYRTKQAELHARVKVRITETVVDEDGNSTTETKMVDT------ 572
Query: 183 KVTENECTCRRLVCFDESVCKLPVDATKQPLLQSNTNNILNKTFQEIRCRQTIIYDQRL 359
T R + + LP Q L + +N+LN+ ++++ + T+I+ ++
Sbjct: 573 -------TVGRAMLWQIVPAGLPYSIVNQKLGKKQISNLLNEAYRKLGLKDTVIFADQI 624
>sp|Q9LW85|MFP1_ARATH MAR binding filament-like protein 1
Length = 727
Score = 32.0 bits (71), Expect = 1.5
Identities = 28/124 (22%), Positives = 55/124 (44%), Gaps = 6/124 (4%)
Frame = +3
Query: 123 EDLIEAVNTKLTDRLKSTCQKVTENECTCRRLVCFDESVCKLPVDATKQPLLQSNTNNIL 302
E+ IE++ +L DR ++ K + E + ++ K V+ K+ L S N +
Sbjct: 156 EETIESLKNQLKDRERALVLKEKDFEAKLQH----EQEERKKEVEKAKEEQL-SLINQLN 210
Query: 303 NKTFQEIRCRQTIIYDQRLCECKKYTIESIKQATQSVGTDSR------NKKLDSIQSVGD 464
+ + + +++LCE K IES++ + G D +KLD ++ + D
Sbjct: 211 SAKDLVTELGRELSSEKKLCEKLKDQIESLENSLSKAGEDKEALETKLREKLDLVEGLQD 270
Query: 465 RFRI 476
R +
Sbjct: 271 RINL 274
>sp|Q8XUZ9|RPOC_RALSO DNA-directed RNA polymerase beta' chain (RNAP beta' subunit)
(Transcriptase beta' chain) (RNA polymerase beta'
subunit)
Length = 1409
Score = 30.4 bits (67), Expect = 4.5
Identities = 20/105 (19%), Positives = 46/105 (43%), Gaps = 9/105 (8%)
Frame = +3
Query: 78 LNNMLEEWSNEQIIDEDLIEAVNTKLT---------DRLKSTCQKVTENECTCRRLVCFD 230
++ ++ + N+++ +L VN ++T D K+T T R + +
Sbjct: 531 ISEVIRAYENKEV---ELASRVNVRITEYDLVNPEADGDARFAPKITLQATTVGRAILSE 587
Query: 231 ESVCKLPVDATKQPLLQSNTNNILNKTFQEIRCRQTIIYDQRLCE 365
LP +PL + + ++N F++ R+T+I+ +L +
Sbjct: 588 ILPKGLPFSVLNKPLKKKEISRLINTAFRKCGLRETVIFADKLLQ 632
>sp|Q7MGS0|RPOC_VIBVY DNA-directed RNA polymerase beta' chain (RNAP beta' subunit)
(Transcriptase beta' chain) (RNA polymerase beta'
subunit)
sp|Q8DD19|RPOC_VIBVU DNA-directed RNA polymerase beta' chain (RNAP beta' subunit)
(Transcriptase beta' chain) (RNA polymerase beta'
subunit)
Length = 1400
Score = 29.6 bits (65), Expect = 7.6
Identities = 24/119 (20%), Positives = 48/119 (40%)
Frame = +3
Query: 3 NLSGDEEFDDDMKEFIKPRRMGKRSLNNMLEEWSNEQIIDEDLIEAVNTKLTDRLKSTCQ 182
N G+ + E K R +L+ ++ E ++DED TK+ D
Sbjct: 519 NAKGEGMYLAGPAEAEKAYRTKTAALHARVKVRITETVVDEDGHSTTETKMVDT------ 572
Query: 183 KVTENECTCRRLVCFDESVCKLPVDATKQPLLQSNTNNILNKTFQEIRCRQTIIYDQRL 359
T R + + LP Q L + +N+LN+ ++++ + T+I+ ++
Sbjct: 573 -------TIGRAMLWQIVPKGLPFSIVNQKLGKKQISNLLNEAYRKLGLKDTVIFADQI 624
>sp|Q09780|KIME_SCHPO Putative mevalonate kinase (MK)
Length = 404
Score = 29.3 bits (64), Expect = 10.0
Identities = 33/130 (25%), Positives = 58/130 (44%), Gaps = 3/130 (2%)
Frame = +3
Query: 36 MKEFIKPRRMGKRSLNNMLEEWSNEQIIDEDLIEAVNTKLTDRLKSTCQKVTENECTCRR 215
MKEF+KP K +L+ M+ + TK K Q V E + R
Sbjct: 217 MKEFLKP----KDTLSVMITD----------------TKQPKSTKKLVQGVFELK---ER 253
Query: 216 LVCFDESVCKLPVDATKQPLLQSNTNNILNKTFQEIRCRQTIIYDQRLCEC---KKYTIE 386
L +S+ +K +L + + N + +++ + I+ +Q+L EC Y+I+
Sbjct: 254 LPTVIDSIIDAIDGISKSAVLALTSESDKNSSAKKLG--EFIVLNQKLLECLGVSHYSID 311
Query: 387 SIKQATQSVG 416
+ QAT+S+G
Sbjct: 312 RVLQATKSIG 321
>sp|P07207|NOTCH_DROME Neurogenic locus Notch protein precursor
Length = 2703
Score = 29.3 bits (64), Expect = 10.0
Identities = 21/75 (28%), Positives = 29/75 (38%), Gaps = 3/75 (4%)
Frame = +3
Query: 174 TCQKVTENE---CTCRRLVCFDESVCKLPVDATKQPLLQSNTNNILNKTFQEIRCRQTII 344
TCQ N +C+ + FDES+C++ V + N KT +E C
Sbjct: 110 TCQVTFRNGRPGISCKCPLGFDESLCEIAVPNACDHVTCLNGGTCQLKTLEEYTCACANG 169
Query: 345 YDQRLCECKKYTIES 389
Y CE K S
Sbjct: 170 YTGERCETKNLCASS 184
Database: Non-redundant SwissProt sequences
Posted date: Dec 6, 2005 7:40 AM
Number of letters in database: 68,354,980
Number of sequences in database: 184,735
Database: swissprot.01
Posted date: Dec 6, 2005 8:18 AM
Number of letters in database: 66,202,850
Number of sequences in database: 184,431
Lambda K H
0.318 0.134 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: 67,699,830
Number of Sequences: 369166
Number of extensions: 1257933
Number of successful extensions: 3246
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 3148
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): 3243
length of database: 68,354,980
effective HSP length: 107
effective length of database: 48,588,335
effective search space used: 5782011865
frameshift window, decay const: 40, 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)