BLASTX 2.0.8 [Jan-05-1999]
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= 12VII5R
(812 letters)
Database: Non-redundant GenBank CDS
translations+PDB+SwissProt+SPupdate+PIR
369,800 sequences; 113,023,754 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
gi|2370478|emb|CAB11506| (Z98849) putative dna repair helicase [... 89 5e-17
gi|267033|sp|Q00578|RA25_YEAST DNA REPAIR HELICASE RAD25 >gi|320... 85 7e-16
gi|172327 (L01414) DNA helicase [Saccharomyces cerevisiae] 85 7e-16
gi|2058508 (U77065) RepB [Dictyostelium discoideum] 82 5e-15
gi|1351441|sp|P49135|XPB_MOUSE DNA-REPAIR PROTEIN COMPLEMENTING ... 75 6e-13
gi|4557563|oth|NP_000113|PERCC3 excision repair cross-complement... 75 8e-13
gi|1764011|emb|CAB06045| (Z83760) COS41.1 [Ciona intestinalis] 71 1e-11
gi|2129575|pir||S71206 DNA repair protein homolog XPBara - Arabi... 68 8e-11
gi|2072393 (U29168) similar to human Xeroderma pigmentosum group... 68 8e-11
gi|4150989|emb|CAA76655| (Y17148) XPB protein [Geodia cydonium] 64 1e-09
gi|401426|sp|Q02870|XPB_DROME DNA EXCISION REPAIR PROTEIN HAYWIR... 62 4e-09
gi|345491|pir||A44223 haywire protein - fruit fly (Drosophila me... 62 4e-09
gi|904101 (L02965) helicase [Drosophila melanogaster] 55 5e-07
gi|3322660 (AE001217) DNA repair helicase, putative [Treponema p... 37 0.15
gi|2916920|emb|CAA17667| (AL022004) hypothetical protein Rv0861c... 32 3.8
gi|3482974|emb|CAA20530| (AL031369) ATP-dependent Clp proteinase... 31 8.5
>gi|2370478|emb|CAB11506| (Z98849) putative dna repair helicase [Schizosaccharomyces pombe]
Length = 804
Score = 88.5 bits (216), Expect = 5e-17
Identities = 53/123 (43%), Positives = 71/123 (57%), Gaps = 23/123 (18%)
Query: 3 ILRAKRRNDPGFKVHFYTLVSKDTDEMFYSNKRQQFLIDQGYSFKILTDIPEIYKNENRT 182
ILRAKRRND GF FY+LVSKDT EM+YS+KRQ FLIDQGY+FK++T++ + N
Sbjct: 652 ILRAKRRNDEGFNAFFYSLVSKDTQEMYYSSKRQAFLIDQGYAFKVITNLKGMENLPNLA 711
Query: 183 LKNKLEQKELLA-------------TXXXXXXXXXXXXXXXXXXXYCKGTLRDITGVGDV 323
+K E+ ELL G+L + G ++
Sbjct: 712 YASKAERLELLQEVLLQNEEAADLDDGEDTSFGSRSLSRAPAKAKRSSGSLSTLAGADNM 771
Query: 324 AYMEKKKT----------RRHTLFKK 371
AY+E K+ H LF+K
Sbjct: 772 AYVEYNKSANKQLKKDSKEHHALFRK 797
>gi|267033|sp|Q00578|RA25_YEAST DNA REPAIR HELICASE RAD25 >gi|320659|pir||S31272 DNA helicase -
yeast (Saccharomyces cerevisiae) >gi|172724 (M94176)
encodes human ERCC-3 homologue [Saccharomyces
cerevisiae] >gi|557780|emb|CAA86135| (Z38059) DNA repair
helicase [Saccharomyces cerevisiae]
Length = 843
Score = 84.7 bits (206), Expect = 7e-16
Identities = 40/71 (56%), Positives = 51/71 (71%)
Query: 3 ILRAKRRNDPGFKVHFYTLVSKDTDEMFYSNKRQQFLIDQGYSFKILTDIPEIYKNENRT 182
ILRAKRRND GF FY+LVSKDT EM+YS KRQ FL+DQGY+FK++T + + N
Sbjct: 690 ILRAKRRNDEGFNAFFYSLVSKDTQEMYYSTKRQAFLVDQGYAFKVITHLHGMENIPNLA 749
Query: 183 LKNKLEQKELL 215
+ E++ELL
Sbjct: 750 YASPRERRELL 760
>gi|172327 (L01414) DNA helicase [Saccharomyces cerevisiae]
Length = 843
Score = 84.7 bits (206), Expect = 7e-16
Identities = 40/71 (56%), Positives = 51/71 (71%)
Query: 3 ILRAKRRNDPGFKVHFYTLVSKDTDEMFYSNKRQQFLIDQGYSFKILTDIPEIYKNENRT 182
ILRAKRRND GF FY+LVSKDT EM+YS KRQ FL+DQGY+FK++T + + N
Sbjct: 690 ILRAKRRNDEGFNAFFYSLVSKDTQEMYYSTKRQAFLVDQGYAFKVITHLHGMENIPNLA 749
Query: 183 LKNKLEQKELL 215
+ E++ELL
Sbjct: 750 YASPRERRELL 760
>gi|2058508 (U77065) RepB [Dictyostelium discoideum]
Length = 800
Score = 81.9 bits (199), Expect = 5e-15
Identities = 39/72 (54%), Positives = 53/72 (73%)
Query: 3 ILRAKRRNDPGFKVHFYTLVSKDTDEMFYSNKRQQFLIDQGYSFKILTDIPEIYKNENRT 182
ILR K ++D + FY+LVSKDT EM+YS KRQQFLIDQGYSFK+++++P I + N
Sbjct: 647 ILRPKPKSDGLYNAFFYSLVSKDTQEMYYSTKRQQFLIDQGYSFKVISELPGIDQEVNLK 706
Query: 183 LKNKLEQKELLA 218
+K +Q +LLA
Sbjct: 707 YSSKQDQLDLLA 718
>gi|1351441|sp|P49135|XPB_MOUSE DNA-REPAIR PROTEIN COMPLEMENTING XP-B CELLS HOMOLOG (XERODERMA
PIGMENTOSUM GROUP B COMPLEMENTING PROTEIN HOMOLOG) (DNA
EXCISION REPAIR PROTEIN ERCC-3) (BASAL TRANSCRIPTION
FACTOR 2 89 KD SUBUNIT) (BTF2-P89) (TFIIH 89 KD S...
>gi|477426|pir||A48994 DNA repair gene XPBC/ERCC-3 -
mouse >gi|240583|bbs|71188 (S71186) XPBC/ERCC-3=DNA
repair gene [mice, Peptide, 783 aa] [Mus sp.]
Length = 783
Score = 74.9 bits (181), Expect = 6e-13
Identities = 49/126 (38%), Positives = 70/126 (54%), Gaps = 14/126 (11%)
Query: 3 ILRAKRRN-DPGFKVHFYTLVSKDTDEMFYSNKRQQFLIDQGYSFKILTDIPEIYKNE-- 173
+LRAK+ + FY+LVS+DT EM YS KRQ+FL+DQGYSFK++T + + + E
Sbjct: 644 VLRAKKGMVAEEYNAFFYSLVSQDTQEMAYSTKRQRFLVDQGYSFKVITKLAGMEEEELA 703
Query: 174 --NRTLKNKLEQKELLATXXXXXXXXXXXXXXXXXXXYCK--GTLRDITGVGDVAYMEKK 341
+ + +L QK L AT + GT+ ++G D YME
Sbjct: 704 FSTKEEQQQLLQKVLAATDLDAEEEVVAGEFGSRSGQASRRCGTMSSLSGADDTVYMEYH 763
Query: 342 KTRR-------HTLFKKFEK 380
+R H LFK+F K
Sbjct: 764 SSRSKASSKHVHPLFKRFRK 783
>gi|4557563|oth|NP_000113|PERCC3 excision repair cross-complementing rodent repair deficiency,
complementation group 3 (xeroderma pigmentosum group B
complementing) >gi|119541|sp|P19447|XPB_HUMAN DNA-REPAIR
PROTEIN COMPLEMENTING XP-B CELLS (XERODERMA PIGMENTOSUM
GROUP B COMPLEMENTING PROTEIN) (DNA EXCISION REPAIR
PROTEIN ERCC-3) (BASAL TRANSCRIPTION FACTOR 2 89 KD
SUBUNIT) (BTF2-P89) (TFIIH 89 KD SUBUNIT)
>gi|105955|pir||A35661 XPBC/ERCC-3 protein - human
>gi|182179 (M31899) DNA repair helicase [Homo sapiens]
Length = 782
Score = 74.5 bits (180), Expect = 8e-13
Identities = 50/126 (39%), Positives = 71/126 (55%), Gaps = 15/126 (11%)
Query: 3 ILRAKRRN-DPGFKVHFYTLVSKDTDEMFYSNKRQQFLIDQGYSFKILTDIPEIYKNENR 179
+LRAK+ + FY+LVS+DT EM YS KRQ+FL+DQGYSFK++T + + + E+
Sbjct: 643 VLRAKKGMVAEEYNAFFYSLVSQDTQEMAYSTKRQRFLVDQGYSFKVITKLAGM-EEEDL 701
Query: 180 TLKNKLEQKELL-----ATXXXXXXXXXXXXXXXXXXXYCK--GTLRDITGVGDVAYMEK 338
K EQ++LL AT + GT+ ++G D YME
Sbjct: 702 AFSTKEEQQQLLQKVLAATDLDAEEEVVAGEFGSRSSQASRRFGTMSSMSGADDTVYMEY 761
Query: 339 KKTRR-------HTLFKKFEK 380
+R H LFK+F K
Sbjct: 762 HSSRSKAPSKHVHPLFKRFRK 782
>gi|1764011|emb|CAB06045| (Z83760) COS41.1 [Ciona intestinalis]
Length = 793
Score = 70.6 bits (170), Expect = 1e-11
Identities = 48/124 (38%), Positives = 66/124 (52%), Gaps = 14/124 (11%)
Query: 3 ILRAKRRN-DPGFKVHFYTLVSKDTDEMFYSNKRQQFLIDQGYSFKILTDIPEIYKNENR 179
ILRAK+ + + FY+LVS+DT E+ YS KRQ+FL+DQGYSFK +T + I + E
Sbjct: 655 ILRAKKGSLAEEYNAFFYSLVSQDTVEVAYSTKRQRFLVDQGYSFKAITHLTGIDEEEQL 714
Query: 180 TLKNKLEQKELLATXXXXXXXXXXXXXXXXXXXYCK---------GTLRDITGVGDVAYM 332
K EQ LL G + ++G D YM
Sbjct: 715 AFTTKDEQHALLQKVLAASDLDAEEEMVPGEFGVGDKGKGGFRRAGAMSSMSGADDSVYM 774
Query: 333 EKKKTRR----HTLFKKF 374
E +KT++ H LFK+F
Sbjct: 775 EYRKTKQRKGVHDLFKQF 792
>gi|2129575|pir||S71206 DNA repair protein homolog XPBara - Arabidopsis thaliana
Length = 757
Score = 67.9 bits (163), Expect = 8e-11
Identities = 44/112 (39%), Positives = 60/112 (53%), Gaps = 23/112 (20%)
Query: 36 FKVHFYTLVSKDTDEMFYSNKRQQFLIDQGYSFKILTDIPEIYKNENRTLKNKLEQKELL 215
+ FY+LVS DT EM+YS KRQQFLIDQGYSFK++T +P + + ++ EQ LL
Sbjct: 620 YNAFFYSLVSTDTQEMYYSTKRQQFLIDQGYSFKVITSLPPPDAGSSLSYHSQEEQLSLL 679
Query: 216 ATXXXX--------XXXXXXXXXXXXXXXYCKGTLRDITGVGDVAYME------------ 335
G++ ++G + YME
Sbjct: 680 GKVMNAGDDLVGLEQLEEDTDGMALQKARRSMGSMSVMSGSKGMVYMEYNSGRHKSGQQF 739
Query: 336 ---KKKTRRHTLFKK 371
K T+RH LFKK
Sbjct: 740 KKPKDPTKRHNLFKK 754
>gi|2072393 (U29168) similar to human Xeroderma pigmentosum group B DNA repair
protein, Swiss-Prot Accession Number P19447 [Arabidopsis
thaliana]
Length = 755
Score = 67.9 bits (163), Expect = 8e-11
Identities = 44/112 (39%), Positives = 60/112 (53%), Gaps = 23/112 (20%)
Query: 36 FKVHFYTLVSKDTDEMFYSNKRQQFLIDQGYSFKILTDIPEIYKNENRTLKNKLEQKELL 215
+ FY+LVS DT EM+YS KRQQFLIDQGYSFK++T +P + + ++ EQ LL
Sbjct: 618 YNAFFYSLVSTDTQEMYYSTKRQQFLIDQGYSFKVITSLPPPDAGSSLSYHSQEEQLSLL 677
Query: 216 ATXXXX--------XXXXXXXXXXXXXXXYCKGTLRDITGVGDVAYME------------ 335
G++ ++G + YME
Sbjct: 678 GKVMNAGDDLVGLEQLEEDTDGMALQKARRSMGSMSVMSGSKGMVYMEYNSGRHKSGQQF 737
Query: 336 ---KKKTRRHTLFKK 371
K T+RH LFKK
Sbjct: 738 KKPKDPTKRHNLFKK 752
>gi|4150989|emb|CAA76655| (Y17148) XPB protein [Geodia cydonium]
Length = 810
Score = 64.0 bits (153), Expect = 1e-09
Identities = 45/122 (36%), Positives = 69/122 (55%), Gaps = 23/122 (18%)
Query: 3 ILRAKRRN-DPGFKVHFYTLVSKDTDEMFYSNKRQQFLIDQGYSFKILTDIPEIYKNENR 179
ILRAK+ + + FY+LVS+DT+EM +S KRQ+FL++QGYSFK+++ + I +
Sbjct: 663 ILRAKKDSVSEEYNAFFYSLVSQDTEEMHFSTKRQRFLVNQGYSFKVVSKL-GIEDEPSL 721
Query: 180 TLKNKLEQKELLATXXXXXXXXX---------------------XXXXXXXXXXYCKGTL 296
+L K EQ ELL G++
Sbjct: 722 SLATKKEQAELLQEVLSASDADAEEEGSSGAGKQGGSGMAGALLSSSSSGGGVSRRAGSM 781
Query: 297 RDITGVGDVAYMEKKKTR-RHTLFK 368
++G D+ YME + +R +H LFK
Sbjct: 782 ASMSGGDDMVYMEYRTSRPQHPLFK 806
>gi|401426|sp|Q02870|XPB_DROME DNA EXCISION REPAIR PROTEIN HAYWIRE (ERCC-3 HOMOLOG PROTEIN)
>gi|283659|pir||S26719 ERCC3 protein - fruit fly
(Drosophila melanogaster) >gi|11079|emb|CAA48386|
(X68309) ERCC3 [Drosophila melanogaster]
Length = 802
Score = 62.5 bits (149), Expect = 4e-09
Identities = 46/124 (37%), Positives = 64/124 (51%), Gaps = 14/124 (11%)
Query: 3 ILRAKRRN-DPGFKVHFYTLVSKDTDEMFYSNKRQQFLIDQGYSFKILTDIPEIYKNENR 179
ILRAK+ + FYTLVS+DT EM YS KRQ+FL++QGYS+K++T + + + +
Sbjct: 663 ILRAKKGAIAEEYNAFFYTLVSQDTMEMSYSRKRQRFLVNQGYSYKVITHLKGMDTDSDL 722
Query: 180 TLKNKLEQKELLATXXXXXXXXXXXXXXXXXXXYCK----------GTLRDITGVGDVAY 329
+ EQ +LL Y G L ++G D Y
Sbjct: 723 MYGTQEEQGQLLQLVLSASDLDCEDEKLPGEPGYRPSGSGGIVRRVGGLSSMSGGDDAIY 782
Query: 330 MEKKKTR---RHTLFKKF 374
E +K H LFKKF
Sbjct: 783 YEHRKKNIGSVHPLFKKF 800
>gi|345491|pir||A44223 haywire protein - fruit fly (Drosophila melanogaster)
Length = 802
Score = 62.5 bits (149), Expect = 4e-09
Identities = 46/124 (37%), Positives = 64/124 (51%), Gaps = 14/124 (11%)
Query: 3 ILRAKRRN-DPGFKVHFYTLVSKDTDEMFYSNKRQQFLIDQGYSFKILTDIPEIYKNENR 179
ILRAK+ + FYTLVS+DT EM YS KRQ+FL++QGYS+K++T + + + +
Sbjct: 663 ILRAKKGAIAEEYNAFFYTLVSQDTMEMSYSRKRQRFLVNQGYSYKVITHLKGMDTDSDL 722
Query: 180 TLKNKLEQKELLATXXXXXXXXXXXXXXXXXXXYCK----------GTLRDITGVGDVAY 329
+ EQ +LL Y G L ++G D Y
Sbjct: 723 MYGTQEEQGQLLQLVLSASDLDCEDEKLPGEPGYRPSGSGGIVRRVGGLSSMSGGDDAIY 782
Query: 330 MEKKKTR---RHTLFKKF 374
E +K H LFKKF
Sbjct: 783 YEHRKKNIGSVHPLFKKF 800
>gi|904101 (L02965) helicase [Drosophila melanogaster]
Length = 801
Score = 55.4 bits (131), Expect = 5e-07
Identities = 43/124 (34%), Positives = 61/124 (48%), Gaps = 14/124 (11%)
Query: 3 ILRAKRRN-DPGFKVHFYTLVSKDTDEMFYSNKRQQFLIDQGYSFKILTDIPEIYKNENR 179
ILRAK+ + FYTLVS+DT EM YS KR +FL++QG +K++T + + + +
Sbjct: 662 ILRAKKGAIAEEYNAFFYTLVSQDTMEMSYSRKRHRFLVNQGICYKVITHLKGMDTDSDL 721
Query: 180 TLKNKLEQKELLATXXXXXXXXXXXXXXXXXXXYCK----------GTLRDITGVGDVAY 329
+ EQ +LL Y G L ++G D Y
Sbjct: 722 MYGTQEEQGQLLQLVLSASDLDCEDEKLPGEPGYRPSGSGGIVRRVGGLSSMSGGDDAIY 781
Query: 330 MEKKKTR---RHTLFKKF 374
E +K H LFKKF
Sbjct: 782 YEHRKKNIGSVHPLFKKF 799
>gi|3322660 (AE001217) DNA repair helicase, putative [Treponema pallidum]
Length = 606
Score = 37.1 bits (84), Expect = 0.15
Identities = 15/33 (45%), Positives = 26/33 (78%)
Query: 45 HFYTLVSKDTDEMFYSNKRQQFLIDQGYSFKIL 143
HFY+LV++ T E + +RQ+FL++QGY+++ L
Sbjct: 567 HFYSLVTEQTVEEDCALRRQRFLVEQGYTYETL 599
>gi|2916920|emb|CAA17667| (AL022004) hypothetical protein Rv0861c [Mycobacterium
tuberculosis]
Length = 542
Score = 32.5 bits (72), Expect = 3.8
Identities = 13/31 (41%), Positives = 23/31 (73%)
Query: 48 FYTLVSKDTDEMFYSNKRQQFLIDQGYSFKI 140
FY++V++D+ + Y+ RQ+FL +QGY + I
Sbjct: 501 FYSVVARDSLDAEYAAHRQRFLAEQGYGYII 531
>gi|3482974|emb|CAA20530| (AL031369) ATP-dependent Clp proteinase-like protein [Arabidopsis
thaliana]
Length = 874
Score = 31.3 bits (69), Expect = 8.5
Identities = 21/64 (32%), Positives = 37/64 (57%), Gaps = 4/64 (6%)
Query: 21 RNDPGFKVHFYTLVSKDTDEMFYSNKRQQFL--IDQGYSFKIL--TDIPEIYKNENRTLK 188
RN+ K Y ++ + E+ N R +F+ ID+ F+ L +I +I + + R +K
Sbjct: 725 RNNEDSKEAVYEIMKRQVVELARQNFRPEFMNRIDEYIVFQPLDSNEISKIVELQMRRVK 784
Query: 189 NKLEQKEL 212
N LEQK++
Sbjct: 785 NSLEQKKI 792
Database: Non-redundant GenBank CDS
translations+PDB+SwissProt+SPupdate+PIR
Posted date: Apr 17, 1999 5:33 AM
Number of letters in database: 113,023,754
Number of sequences in database: 369,800
Lambda K H
0.318 0.135 0.00
Gapped
Lambda K H
0.270 0.0470 4.94e-324
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 104684928
Number of Sequences: 369800
Number of extensions: 1468985
Number of successful extensions: 3217
Number of sequences better than 10.0: 32
Number of HSP's better than 10.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 3197
Number of HSP's gapped (non-prelim): 19
length of query: 270
length of database: 113023754
effective HSP length: 54
effective length of query: 216
effective length of database: 93054554
effective search space: 20099783664
effective search space used: 20099783664
frameshift window, decay const: 50, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.8 bits)
X3: 64 (24.9 bits)
S1: 41 (21.7 bits)
S2: 69 (31.3 bits)