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_011_G21
(833 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|Q9EPU4|CPSF1_MOUSE Cleavage and polyadenylation specific... 241 2e-63
sp|Q10569|CPSF1_BOVIN Cleavage and polyadenylation specific... 239 5e-63
sp|Q10570|CPSF1_HUMAN Cleavage and polyadenylation specific... 239 5e-63
sp|Q9V726|CPSF1_DROME Cleavage and polyadenylation specific... 224 3e-58
sp|Q9N4C2|CPSF1_CAEEL Probable cleavage and polyadenylation... 200 5e-51
sp|Q9FGR0|CPSF1_ARATH Probable cleavage and polyadenylation... 97 5e-20
sp|Q9M0V3|DB1A_ARATH DNA damage binding protein 1a (UV-dama... 47 5e-05
sp|O49552|DDB1B_ARATH DNA damage binding protein 1b (UV-dam... 46 1e-04
sp|Q6QNU4|DDB1_LYCES DNA damage binding protein 1 (UV-damag... 45 2e-04
sp|Q6E7D1|DDB1_LYCCS DNA damage binding protein 1 (UV-damag... 45 2e-04
>sp|Q9EPU4|CPSF1_MOUSE Cleavage and polyadenylation specificity factor, 160 kDa subunit
(CPSF 160 kDa subunit)
Length = 1441
Score = 241 bits (614), Expect = 2e-63
Identities = 115/250 (46%), Positives = 174/250 (69%)
Frame = +3
Query: 33 KEEEPIERDSDIIRAPLPIYTLEFYANESNGMWELVPHAKVVFEDWDKVSCMTTVQLFSQ 212
KE E IERD I ++++ + S WE +P+A++ E+W+ V+CM TV L S+
Sbjct: 1053 KEFEAIERDDRYIHPQQEAFSIQLISPVS---WEAIPNARIELEEWEHVTCMKTVSLRSE 1109
Query: 213 VTYSGTKDFLAVGSNMSYGEEIPVRGKIMIVDIIDVVPEPGQVLTRHKMKIIYDVEQKGP 392
T SG K ++A G+ + GEE+ RG+I+I+D+I+VVPEPGQ LT++K K++Y+ EQKGP
Sbjct: 1110 ETVSGLKGYVAAGTCLMQGEEVTCRGRILIMDVIEVVPEPGQPLTKNKFKVLYEKEQKGP 1169
Query: 393 VTALTSCKGYLVSAIGQKMYIWELKDNELVGVAFVDSEIYVQQLHCMRNLILTGDFLKSI 572
VTAL C G+LVSAIGQK+++W L+ +EL G+AF+D+++Y+ Q+ ++N IL D +KSI
Sbjct: 1170 VTALCHCNGHLVSAIGQKIFLWSLRASELTGMAFIDTQLYIHQMISVKNFILAADVMKSI 1229
Query: 573 QLLRFQSDLRVLSLVSKDSHSRGVTCSNFFVDNDNLGFMLADMHANIIIYSYNPLIEESR 752
LLR+Q + + LSLVS+D+ V +F VDN LGF+++D N+++Y Y P +ES
Sbjct: 1230 SLLRYQEESKTLSLVSRDAKPLEVYSVDFMVDNAQLGFLVSDRDRNLMVYMYLPEAKESF 1289
Query: 753 NGKQLVRNAD 782
G +L+R AD
Sbjct: 1290 GGMRLLRRAD 1299
>sp|Q10569|CPSF1_BOVIN Cleavage and polyadenylation specificity factor, 160 kDa subunit
(CPSF 160 kDa subunit)
Length = 1444
Score = 239 bits (611), Expect = 5e-63
Identities = 114/250 (45%), Positives = 173/250 (69%)
Frame = +3
Query: 33 KEEEPIERDSDIIRAPLPIYTLEFYANESNGMWELVPHAKVVFEDWDKVSCMTTVQLFSQ 212
KE E IERD + + ++ + S WE +P+A++ E+W+ V+CM TV L S+
Sbjct: 1056 KEFETIERDERYVHPQQEAFCIQLISPVS---WEAIPNARIELEEWEHVTCMKTVSLRSE 1112
Query: 213 VTYSGTKDFLAVGSNMSYGEEIPVRGKIMIVDIIDVVPEPGQVLTRHKMKIIYDVEQKGP 392
T SG K ++A G+ + GEE+ RG+I+I+D+I+VVPEPGQ LT++K K++Y+ EQKGP
Sbjct: 1113 ETVSGLKGYVAAGTCLMQGEEVTCRGRILIMDVIEVVPEPGQPLTKNKFKVLYEKEQKGP 1172
Query: 393 VTALTSCKGYLVSAIGQKMYIWELKDNELVGVAFVDSEIYVQQLHCMRNLILTGDFLKSI 572
VTAL C G+LVSAIGQK+++W L+ +EL G+AF+D+++Y+ Q+ ++N IL D +KSI
Sbjct: 1173 VTALCHCNGHLVSAIGQKIFLWSLRASELTGMAFIDTQLYIHQMISVKNFILAADVMKSI 1232
Query: 573 QLLRFQSDLRVLSLVSKDSHSRGVTCSNFFVDNDNLGFMLADMHANIIIYSYNPLIEESR 752
LLR+Q + + LSLVS+D+ V +F VDN LGF+++D N+++Y Y P +ES
Sbjct: 1233 SLLRYQEESKTLSLVSRDAKPLEVYSVDFMVDNAQLGFLVSDRDRNLMVYMYLPEAKESF 1292
Query: 753 NGKQLVRNAD 782
G +L+R AD
Sbjct: 1293 GGMRLLRRAD 1302
>sp|Q10570|CPSF1_HUMAN Cleavage and polyadenylation specificity factor, 160 kDa subunit
(CPSF 160 kDa subunit)
Length = 1443
Score = 239 bits (611), Expect = 5e-63
Identities = 114/250 (45%), Positives = 174/250 (69%)
Frame = +3
Query: 33 KEEEPIERDSDIIRAPLPIYTLEFYANESNGMWELVPHAKVVFEDWDKVSCMTTVQLFSQ 212
KE E IERD I ++++ + S WE +P+A++ ++W+ V+CM TV L S+
Sbjct: 1055 KEFETIERDERYIHPQQEAFSIQLISPVS---WEAIPNARIELQEWEHVTCMKTVSLRSE 1111
Query: 213 VTYSGTKDFLAVGSNMSYGEEIPVRGKIMIVDIIDVVPEPGQVLTRHKMKIIYDVEQKGP 392
T SG K ++A G+ + GEE+ RG+I+I+D+I+VVPEPGQ LT++K K++Y+ EQKGP
Sbjct: 1112 ETVSGLKGYVAAGTCLMQGEEVTCRGRILIMDVIEVVPEPGQPLTKNKFKVLYEKEQKGP 1171
Query: 393 VTALTSCKGYLVSAIGQKMYIWELKDNELVGVAFVDSEIYVQQLHCMRNLILTGDFLKSI 572
VTAL C G+LVSAIGQK+++W L+ +EL G+AF+D+++Y+ Q+ ++N IL D +KSI
Sbjct: 1172 VTALCHCNGHLVSAIGQKIFLWSLRASELTGMAFIDTQLYIHQMISVKNFILAADVMKSI 1231
Query: 573 QLLRFQSDLRVLSLVSKDSHSRGVTCSNFFVDNDNLGFMLADMHANIIIYSYNPLIEESR 752
LLR+Q + + LSLVS+D+ V +F VDN LGF+++D N+++Y Y P +ES
Sbjct: 1232 SLLRYQEESKTLSLVSRDAKPLEVYSVDFMVDNAQLGFLVSDRDRNLMVYMYLPEAKESF 1291
Query: 753 NGKQLVRNAD 782
G +L+R AD
Sbjct: 1292 GGMRLLRRAD 1301
>sp|Q9V726|CPSF1_DROME Cleavage and polyadenylation specificity factor, 160 kDa subunit
(CPSF 160 kDa subunit) (CPSF-160) (dCPSF)
Length = 1455
Score = 224 bits (570), Expect = 3e-58
Identities = 109/231 (47%), Positives = 154/231 (66%)
Frame = +3
Query: 129 WELVPHAKVVFEDWDKVSCMTTVQLFSQVTYSGTKDFLAVGSNMSYGEEIPVRGKIMIVD 308
WE+VP A + FE W+ V+ V+L + T SG K++L +G+N +Y E+I RG I I D
Sbjct: 1097 WEIVPDASITFEPWEHVTAFKIVKLSYEGTRSGLKEYLCIGTNFNYSEDITSRGNIHIYD 1156
Query: 309 IIDVVPEPGQVLTRHKMKIIYDVEQKGPVTALTSCKGYLVSAIGQKMYIWELKDNELVGV 488
II+VVPEPG+ +T+ K+K I+ EQKGPV+A++ G+LV+ +GQK+YIW+L+D +L+GV
Sbjct: 1157 IIEVVPEPGKPMTKFKIKEIFKKEQKGPVSAISDVLGFLVTGLGQKIYIWQLRDGDLIGV 1216
Query: 489 AFVDSEIYVQQLHCMRNLILTGDFLKSIQLLRFQSDLRVLSLVSKDSHSRGVTCSNFFVD 668
AF+D+ IYV Q+ +++LI D KSI LLRFQ + R LSL S+D + V F VD
Sbjct: 1217 AFIDTNIYVHQIITVKSLIFIADVYKSISLLRFQEEYRTLSLASRDFNPLEVYGIEFMVD 1276
Query: 669 NDNLGFMLADMHANIIIYSYNPLIEESRNGKQLVRNADIKLPIPVTCSLRI 821
N NLGF++ D NII+Y Y P ES G++L+R AD L V R+
Sbjct: 1277 NSNLGFLVTDAERNIIVYMYQPEARESLGGQKLLRKADYHLGQVVNTMFRV 1327
>sp|Q9N4C2|CPSF1_CAEEL Probable cleavage and polyadenylation specificity factor, 160 kDa
subunit (CPSF 160 kDa subunit)
Length = 1454
Score = 200 bits (508), Expect = 5e-51
Identities = 99/267 (37%), Positives = 166/267 (62%), Gaps = 2/267 (0%)
Frame = +3
Query: 27 NSKEEEPIERDSDIIRAPLPIYTLEFYANESNGMWELVPHAKVVFEDWDKVSCMTTVQLF 206
+ K+EE E+D + + P YTL ++++ W VP+ ++ FED + V+ V L
Sbjct: 1059 DDKQEEIHEKDENFVLPAPPKYTLNLFSSQD---WAAVPNTEISFEDMEAVTACEDVALK 1115
Query: 207 SQVTYSGTKDFLAVGSNMSYGEEIPVRGKIMIVDIIDVVPEPGQVLTRHKMKIIYDVEQK 386
S+ T SG + LA+G+ +YGEE+ VRG+I++ ++I+VVPEP Q + K+K+++D EQK
Sbjct: 1116 SESTISGLETLLAMGTVNNYGEEVLVRGRIILCEVIEVVPEPDQPTSNRKIKVLFDKEQK 1175
Query: 387 GPVTALTSCKGYLVSAIGQKMYIWELKDNELVGVAFVDSEIYVQQLHCMRNLILTGDFLK 566
GPVT L + G L+ +GQK++IW+ KDN+L+G++F+D YV QLH +R + + D +
Sbjct: 1176 GPVTGLCAINGLLLCGMGQKVFIWQFKDNDLMGISFLDMHYYVYQLHSLRTIAIACDARE 1235
Query: 567 SIQLLRFQSDLRVLSLVSKDSH--SRGVTCSNFFVDNDNLGFMLADMHANIIIYSYNPLI 740
S+ L+RFQ D + +S+ S+D ++ S VD ++GF+L+D NI +++Y P
Sbjct: 1236 SMSLIRFQEDNKAMSIASRDDRKCAQPPMASQLVVDGAHVGFLLSDETGNITMFNYAPEA 1295
Query: 741 EESRNGKQLVRNADIKLPIPVTCSLRI 821
ES G++L A I + + +R+
Sbjct: 1296 PESNGGERLTVRAAINIGTNINAFVRL 1322
>sp|Q9FGR0|CPSF1_ARATH Probable cleavage and polyadenylation specificity factor, 160 kDa
subunit (CPSF 160 kDa subunit)
Length = 1448
Score = 97.1 bits (240), Expect = 5e-20
Identities = 68/236 (28%), Positives = 117/236 (49%), Gaps = 1/236 (0%)
Frame = +3
Query: 117 SNGMWELVPHAKVVFEDWDKVSCMTTVQLFSQVTYSGTKDFLAVGSNMSYGEEIPVRGKI 296
S G WE AK+ + + + V L + T + LAVG+ GE++ RG++
Sbjct: 1099 SGGPWET--KAKIPMQTSEHALTVRVVTLLNAST-GENETLLAVGTAYVQGEDVAARGRV 1155
Query: 297 MIVDIIDVVPEPGQVLTRHKMKIIYDVEQKGPVTALTSCKGYLVSAIGQKMYIWELKDNE 476
++ V+T +Y E KG ++A+ S +G+L+ + G K+ + + E
Sbjct: 1156 LLFSFGKNGDNSQNVVTE-----VYSRELKGAISAVASIQGHLLISSGPKIILHKWNGTE 1210
Query: 477 LVGVAFVDSE-IYVQQLHCMRNLILTGDFLKSIQLLRFQSDLRVLSLVSKDSHSRGVTCS 653
L GVAF D+ +YV ++ +++ IL GD KSI L ++ LSL++KD S +
Sbjct: 1211 LNGVAFFDAPPLYVVSMNVVKSFILLGDVHKSIYFLSWKEQGSQLSLLAKDFESLDCFAT 1270
Query: 654 NFFVDNDNLGFMLADMHANIIIYSYNPLIEESRNGKQLVRNADIKLPIPVTCSLRI 821
F +D L ++D NI ++ Y P + ES G +L+ A+ + V+ LR+
Sbjct: 1271 EFLIDGSTLSLAVSDEQKNIQVFYYAPKMIESWKGLKLLSRAEFHVGAHVSKFLRL 1326
>sp|Q9M0V3|DB1A_ARATH DNA damage binding protein 1a (UV-damaged DNA-binding protein 1a)
(DDB1a)
Length = 1088
Score = 47.4 bits (111), Expect = 5e-05
Identities = 39/159 (24%), Positives = 75/159 (47%), Gaps = 5/159 (3%)
Frame = +3
Query: 270 EEIPVRGKIMIVDIIDVVPEPGQVLTRHKMKIIYDVEQKGPVTALTSCKGYLVSAIGQK- 446
E P +G+I++ + D ++++I + E KG V +L + G L++AI QK
Sbjct: 795 ENEPTKGRILVFIVED-----------GRLQLIAEKETKGAVYSLNAFNGKLLAAINQKI 843
Query: 447 -MYIWELKDN---ELVGVAFVDSEIYVQQLHCMRNLILTGDFLKSIQLLRFQSDLRVLSL 614
+Y W L+D+ EL I + + I+ GD +KSI LL ++ + +
Sbjct: 844 QLYKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLLLYKHEEGAIEE 903
Query: 615 VSKDSHSRGVTCSNFFVDNDNLGFMLADMHANIIIYSYN 731
++D ++ ++ D+ LG A+ + N++ N
Sbjct: 904 RARDYNANWMSAVEILDDDIYLG---AENNFNLLTVKKN 939
>sp|O49552|DDB1B_ARATH DNA damage binding protein 1b (UV-damaged DNA-binding protein 1b)
(DDB1b)
Length = 1088
Score = 46.2 bits (108), Expect = 1e-04
Identities = 35/143 (24%), Positives = 67/143 (46%), Gaps = 5/143 (3%)
Frame = +3
Query: 270 EEIPVRGKIMIVDIIDVVPEPGQVLTRHKMKIIYDVEQKGPVTALTSCKGYLVSAIGQK- 446
E P +G+I++ ++ ++++I + E KG V +L + G L+++I QK
Sbjct: 795 ENEPTKGRILVF-----------IVEEGRLQLITEKETKGAVYSLNAFNGKLLASINQKI 843
Query: 447 -MYIWELKDN---ELVGVAFVDSEIYVQQLHCMRNLILTGDFLKSIQLLRFQSDLRVLSL 614
+Y W L+D+ EL I + + I GD +KSI LL ++ + +
Sbjct: 844 QLYKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIAVGDLMKSISLLIYKHEEGAIEE 903
Query: 615 VSKDSHSRGVTCSNFFVDNDNLG 683
++D ++ +T D+ LG
Sbjct: 904 RARDYNANWMTAVEILNDDIYLG 926
>sp|Q6QNU4|DDB1_LYCES DNA damage binding protein 1 (UV-damaged DNA-binding protein 1) (High
pigmentation protein 1)
Length = 1090
Score = 45.4 bits (106), Expect = 2e-04
Identities = 37/147 (25%), Positives = 70/147 (47%), Gaps = 9/147 (6%)
Frame = +3
Query: 270 EEIPVRGKIMIVDIIDVVPEPGQVLTRHKMKIIYDVEQKGPVTALTSCKGYLVSAIGQKM 449
E P +G+I++ + D K+++I + E KG V +L + G L++AI QK+
Sbjct: 796 ENEPTKGRILVFIVED-----------GKLQLIAEKETKGAVYSLNAFNGKLLAAINQKI 844
Query: 450 YIWELKDNELVGVAFVDSE---------IYVQQLHCMRNLILTGDFLKSIQLLRFQSDLR 602
+++ E G + +E +YVQ + I+ GD +KSI LL F+ +
Sbjct: 845 QLYKWASREDGGSRELQTECGHHGHILALYVQT---RGDFIVVGDLMKSISLLIFKHEEG 901
Query: 603 VLSLVSKDSHSRGVTCSNFFVDNDNLG 683
+ ++D ++ ++ D+ LG
Sbjct: 902 AIEERARDYNANWMSAVEILDDDIYLG 928
>sp|Q6E7D1|DDB1_LYCCS DNA damage binding protein 1 (UV-damaged DNA-binding protein 1)
Length = 1095
Score = 45.4 bits (106), Expect = 2e-04
Identities = 37/147 (25%), Positives = 70/147 (47%), Gaps = 9/147 (6%)
Frame = +3
Query: 270 EEIPVRGKIMIVDIIDVVPEPGQVLTRHKMKIIYDVEQKGPVTALTSCKGYLVSAIGQKM 449
E P +G+I++ + D K+++I + E KG V +L + G L++AI QK+
Sbjct: 801 ENEPTKGRILVFIVED-----------GKLQLIAEKETKGAVYSLNAFNGKLLAAINQKI 849
Query: 450 YIWELKDNELVGVAFVDSE---------IYVQQLHCMRNLILTGDFLKSIQLLRFQSDLR 602
+++ E G + +E +YVQ + I+ GD +KSI LL F+ +
Sbjct: 850 QLYKWASREDGGSRELQTECGHHGHILALYVQT---RGDFIVVGDLMKSISLLIFKHEEG 906
Query: 603 VLSLVSKDSHSRGVTCSNFFVDNDNLG 683
+ ++D ++ ++ D+ LG
Sbjct: 907 AIEERARDYNANWMSAVEILDDDIYLG 933
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: 100,536,711
Number of Sequences: 369166
Number of extensions: 2161970
Number of successful extensions: 5134
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 4977
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): 5128
length of database: 68,354,980
effective HSP length: 109
effective length of database: 48,218,865
effective search space used: 8100769320
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)