RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy216
(650 letters)
>d1mu2a1 c.55.3.1 (A:430-555) HIV RNase H (Domain of reverse
transcriptase) {Human immunodeficiency virus type 2
[TaxId: 11709]}
Length = 126
Score = 51.8 bits (123), Expect = 1e-08
Identities = 27/126 (21%), Positives = 48/126 (38%), Gaps = 15/126 (11%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEYIF 257
YTDGS + + Y+T+ K + + +E +
Sbjct: 11 YTDGSCNRQSKEGKAGYVTDRGKDKVKKLEQTTNQQAE-----------LEAFAMALTDS 59
Query: 258 RDSVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQ 317
V I DS+ + + + + + + I+ +I E I + W+P+H GI GN +
Sbjct: 60 GPKVNIIVDSQYVMGIVASQPTESE--SKIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQE 117
Query: 318 VDELAK 323
VD L
Sbjct: 118 VDHLVS 123
Score = 41.0 bits (95), Expect = 5e-05
Identities = 25/118 (21%), Positives = 46/118 (38%), Gaps = 15/118 (12%)
Query: 516 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
YTDGS + + Y+T+ K + + +EL A +
Sbjct: 11 YTDGSCNRQSKEGKAGYVTDRGKDKVKKLEQTTNQQAELEAF-----------AMALTDS 59
Query: 574 RDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGN 631
+ I DS+ + + + + + + I+ +I E I + W+P+H GI GN
Sbjct: 60 GPKVNIIVDSQYVMGIVASQPTESE--SKIVNQIIEEMIKKEAIYVAWVPAHKGIGGN 115
>d1jl1a_ c.55.3.1 (A:) RNase H (RNase HI) {Escherichia coli [TaxId:
562]}
Length = 152
Score = 43.1 bits (100), Expect = 2e-05
Identities = 20/139 (14%), Positives = 39/139 (28%), Gaps = 7/139 (5%)
Query: 200 YTDGS----KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEY 255
+T GS G + F + + L ++ +
Sbjct: 6 FTAGSALGNPGPGGYGAILRYRGREKTFSAGYTRTTNNRMELMAAIVALEALKEHAEVIL 65
Query: 256 IFRDSVFICTDSKSSLLALKNIM---SPNHLVNNILVKINELKILNITVKFLWIPSHLGI 312
++ K + N L + + + +K+ W+ H G
Sbjct: 66 STDSQYVRQGITQWIHNWKKRGWKTADKKPVKNVDLWQRLDAALGQHQIKWEWVKGHAGH 125
Query: 313 AGNVQVDELAKNSQNAPLL 331
N + DELA+ + P L
Sbjct: 126 PENERADELARAAAMNPTL 144
Score = 31.9 bits (71), Expect = 0.12
Identities = 14/123 (11%), Positives = 30/123 (24%), Gaps = 7/123 (5%)
Query: 516 YTDGS----KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEY 571
+T GS G + F + + L ++ +
Sbjct: 6 FTAGSALGNPGPGGYGAILRYRGREKTFSAGYTRTTNNRMELMAAIVALEALKEHAEVIL 65
Query: 572 IFRDSIFICTDSKSSLLALKNIM---SPNHLVNNILVKINELKILNITVKFLWIPSHLGI 628
++ K + N L + + + +K+ W+ H G
Sbjct: 66 STDSQYVRQGITQWIHNWKKRGWKTADKKPVKNVDLWQRLDAALGQHQIKWEWVKGHAGH 125
Query: 629 AGN 631
N
Sbjct: 126 PEN 128
>d1s1ta1 c.55.3.1 (A:430-539) HIV RNase H (Domain of reverse
transcriptase) {Human immunodeficiency virus type 1
[TaxId: 11676]}
Length = 110
Score = 36.5 bits (84), Expect = 0.001
Identities = 24/112 (21%), Positives = 43/112 (38%), Gaps = 15/112 (13%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEYIF 257
Y DG+ + Y+T Q + + +EL AI++ L
Sbjct: 12 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD-----------S 60
Query: 258 RDSVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSH 309
V I TDS+ +L ++ + + ++ +I E I V W+P+H
Sbjct: 61 GLEVNIVTDSQYALGIIQAQPDQSE--SELVNQIIEQLIKKEKVYLAWVPAH 110
Score = 36.1 bits (83), Expect = 0.002
Identities = 23/112 (20%), Positives = 43/112 (38%), Gaps = 15/112 (13%)
Query: 516 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
Y DG+ + Y+T Q + + +EL AI++ L
Sbjct: 12 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD-----------S 60
Query: 574 RDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSH 625
+ I TDS+ +L ++ + + ++ +I E I V W+P+H
Sbjct: 61 GLEVNIVTDSQYALGIIQAQPDQSE--SELVNQIIEQLIKKEKVYLAWVPAH 110
>d1rila_ c.55.3.1 (A:) RNase H (RNase HI) {Thermus thermophilus
[TaxId: 274]}
Length = 147
Score = 35.7 bits (81), Expect = 0.006
Identities = 23/133 (17%), Positives = 39/133 (29%), Gaps = 8/133 (6%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKL---YNENSVFSSELLAIFMLLS---HICNTRS 251
+TDG+ G A + + L + EL A L C
Sbjct: 7 FTDGACLGNPGPGGWAALLRFHAHEKLLSGGEACTTNNRMELKAAIEGLKALKEPCEVDL 66
Query: 252 RPEYIFRDSVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLG 311
+ + F + + N L + L + V+F ++ H G
Sbjct: 67 YTDSHYLKKAFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMAPHRVRFHFVKGHTG 126
Query: 312 IAGNVQVDELAKN 324
N +VD A+
Sbjct: 127 HPENERVDREARR 139
Score = 28.8 bits (63), Expect = 1.1
Identities = 21/130 (16%), Positives = 35/130 (26%), Gaps = 8/130 (6%)
Query: 516 YTDGS--KTAANSGCAYITETESQVFKL---YNENSVFSSELLAIFMLLSHIYSTSSRTE 570
+TDG+ G A + + L + EL A L +
Sbjct: 7 FTDGACLGNPGPGGWAALLRFHAHEKLLSGGEACTTNNRMELKAAIEGLKALKEPCEVDL 66
Query: 571 YIFRDSIFICTDSKSSLLALKNIMSPNH---LVNNILVKINELKILNITVKFLWIPSHLG 627
Y + K + N L + L + V+F ++ H G
Sbjct: 67 YTDSHYLKKAFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMAPHRVRFHFVKGHTG 126
Query: 628 IAGNVQVPFL 637
N +V
Sbjct: 127 HPENERVDRE 136
>d1g8ma2 c.97.1.4 (A:201-593) AICAR transformylase domain of
bifunctional purine biosynthesis enzyme ATIC {Chicken
(Gallus gallus) [TaxId: 9031]}
Length = 393
Score = 27.5 bits (60), Expect = 6.2
Identities = 19/88 (21%), Positives = 29/88 (32%), Gaps = 17/88 (19%)
Query: 134 SRLEDLQIFDRISAQVIKRDEYIAPWELSVPEIIYLTS--EKKENLS----SVAVKNAFF 187
R E D+ I DE + W+ E+ + EKK+ ++ +AFF
Sbjct: 284 KRAEVSNAIDQYVTGTIGEDEDLVKWQAMFEEVPAQLTEAEKKQWIAKLTAVSLSSDAFF 343
Query: 188 QFKGENQNSLFCYTDGSKTAANSGCAYI 215
F D A G +I
Sbjct: 344 PF-----------RDNVDRAKRIGVQFI 360
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.320 0.134 0.392
Gapped
Lambda K H
0.267 0.0411 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 2,272,744
Number of extensions: 102891
Number of successful extensions: 176
Number of sequences better than 10.0: 1
Number of HSP's gapped: 176
Number of HSP's successfully gapped: 11
Length of query: 650
Length of database: 2,407,596
Length adjustment: 91
Effective length of query: 559
Effective length of database: 1,158,166
Effective search space: 647414794
Effective search space used: 647414794
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 (21.8 bits)
S2: 56 (26.2 bits)