RPS-BLAST 2.2.22 [Sep-27-2009]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= gi|254780636|ref|YP_003065049.1| ribonuclease D [Candidatus
Liberibacter asiaticus str. psy62]
(207 letters)
>d2hbka2 c.55.3.5 (A:129-420) Exosome complex exonuclease RRP6
{Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Length = 292
Score = 94.9 bits (235), Expect = 5e-21
Identities = 39/170 (22%), Positives = 61/170 (35%), Gaps = 3/170 (1%)
Query: 21 DAIAVDTETLGLMPRRDRLCIVQLSPGDGTVDIIRIAAGQKNAPNLVGMLVDEKREKIFH 80
IAVD E +C++Q+S + ++ ++N L + + K+FH
Sbjct: 105 KEIAVDLEHHDYRSYYGIVCLMQISTRERDY-LVDTLKLRENLHILNEVFTNPSIVKVFH 163
Query: 81 YGRFDIAVLFYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDNLKELLGINISKAQQSSDW 140
DI L G+ V +F T AS+ +H L L+ SK Q +DW
Sbjct: 164 GAFMDIIWLQRDLGLYVVGLFDTYHASKAIGLP--RHSLAYLLENFANFKTSKKYQLADW 221
Query: 141 SADDLSDEQLQYAASDVVHLHALRLQFTEKLQRLGRSDLATSCCNFLMDR 190
LS A +D L + Q KL + + R
Sbjct: 222 RIRPLSKPMTAAARADTHFLLNIYDQLRNKLIESNKLAGVLYESRNVAKR 271
>d1vk0a_ c.55.3.5 (A:) Hypothetical protein AT5G06450 {Thale-cress
(Arabidopsis thaliana) [TaxId: 3702]}
Length = 206
Score = 88.5 bits (219), Expect = 3e-19
Identities = 25/161 (15%), Positives = 56/161 (34%), Gaps = 14/161 (8%)
Query: 22 AIAVDTETLGLMPRRD--------RLCIVQLSPGDGTVDIIRI-AAGQKNAPNLVGMLVD 72
A+ D P + L V+LS + + +R+ N +L
Sbjct: 48 AVIFDVYWDVGFPETETKTKTSGWSLSSVKLSTRNLCL-FLRLPKPFHDNLKDLYRFFAS 106
Query: 73 EKREKIFHYGRFDIAVLFYTFGVRVRPVF-CTKIASRLT-RTYTNQHGLKDNLKELLGIN 130
+ + D+ +L G+ +R K+A+ G ++ +L +
Sbjct: 107 KFVTFVGVQIEEDLDLLRENHGLVIRNAINVGKLAAEARGTLVLEFLGTRELAHRVLWSD 166
Query: 131 ISKA-QQSSDWSADDLSDEQLQYAASDVVHLHALRLQFTEK 170
+ + + W +EQL+ AA + + + Q +++
Sbjct: 167 LGQLDSIEAKWE-KAGPEEQLEAAAIEGWLIVNVWDQLSDE 206
>d1yt3a3 c.55.3.5 (A:1-193) Ribonuclease D, catalytic domain
{Escherichia coli [TaxId: 562]}
Length = 193
Score = 87.3 bits (215), Expect = 9e-19
Identities = 43/170 (25%), Positives = 73/170 (42%), Gaps = 3/170 (1%)
Query: 21 DAIAVDTETLGLMPRRDRLCIVQLSPGDGTVDIIRIAAGQKNAPNLVGMLVDEKREKIFH 80
AIA+DTE + +L ++Q DG + G + L +L D K H
Sbjct: 23 PAIALDTEFVRTRTYYPQLGLIQ--LFDGEHLALIDPLGITDWSPLKAILRDPSITKFLH 80
Query: 81 YGRFDIAVLFYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDNLKELLGINISKAQQSSDW 140
G D+ V FG +P+ T+I + G ++E G+ + K++ +DW
Sbjct: 81 AGSEDLEVFLNVFGELPQPLIDTQILAA-FCGRPMSWGFASMVEEYSGVTLDKSESRTDW 139
Query: 141 SADDLSDEQLQYAASDVVHLHALRLQFTEKLQRLGRSDLATSCCNFLMDR 190
A L++ Q +YAA+DV +L + + + + G A C + R
Sbjct: 140 LARPLTERQCEYAAADVWYLLPITAKLMVETEASGWLPAALDECRLMQMR 189
>d2hhva1 c.55.3.5 (A:298-468) Exonuclease domain of prokaryotic DNA
polymerase {Bacillus stearothermophilus, newly
identified strain as yet unnamed [TaxId: 1422]}
Length = 171
Score = 75.6 bits (185), Expect = 3e-15
Identities = 20/155 (12%), Positives = 40/155 (25%), Gaps = 5/155 (3%)
Query: 21 DAIAVDTETLGLMPRRDRLCIVQLSPGDGTVDIIRIAAGQKNAPNLVGMLVDEKREKIFH 80
D A+ E + IV ++ + P V L DE ++K
Sbjct: 17 DKAALVVEVVEENYHDAP--IVGIAVVNEHGRFFLRPETALADPQFVAWLGDETKKKSMF 74
Query: 81 YGRFDIAVLFYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDNLKELLGINISKAQQSSDW 140
+ L + F +A+ L + K + +
Sbjct: 75 DSKRAAVALKWKGIELCGVSFDLLLAAYLLDPAQGVDDVAAAAKMKQYEAVRPDEAVYGK 134
Query: 141 SADDLS---DEQLQYAASDVVHLHALRLQFTEKLQ 172
A ++ + L F ++L+
Sbjct: 135 GAKRAVPDEPVLAEHLVRKAAAIWELERPFLDELR 169
>d1kfsa1 c.55.3.5 (A:324-518) Exonuclease domain of prokaryotic DNA
polymerase {Escherichia coli [TaxId: 562]}
Length = 195
Score = 65.1 bits (157), Expect = 4e-12
Identities = 34/169 (20%), Positives = 59/169 (34%), Gaps = 16/169 (9%)
Query: 21 DAIAVDTETLGLMPRRDRLCIVQLSPGDGTVDIIRIAAGQKNAPNLVGM----------L 70
A DTET L L + + G I +A +AP+ + L
Sbjct: 27 PVFAFDTETDSLDNISANLVGLSFAIEPGVAAYIPVAHDYLDAPDQISRERALELLKPLL 86
Query: 71 VDEKREKIFHYGRFDIAVLFYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDNLKELLGIN 130
DEK K+ ++D +L F T + S + + +H + + L
Sbjct: 87 EDEKALKVGQNLKYDRGILANYGIELRGIAFDTMLESYILNSVAGRHDMDSLAERWLKHK 146
Query: 131 ISKAQQSSDWSADDLS------DEQLQYAASDVVHLHALRLQFTEKLQR 173
++ + + L+ +E +YAA D L L+ LQ+
Sbjct: 147 TITFEEIAGKGKNQLTFNQIALEEAGRYAAEDADVTLQLHLKMWPDLQK 195
>d1wlja_ c.55.3.5 (A:) Interferon-stimulated gene 20 kDa protein,
ISG20 {Human (Homo sapiens) [TaxId: 9606]}
Length = 173
Score = 29.2 bits (64), Expect = 0.29
Identities = 21/144 (14%), Positives = 46/144 (31%), Gaps = 3/144 (2%)
Query: 21 DAIAVDTETLGLMPRRDR-LCIVQLSPGDGTVDIIRIAAGQKNAPNLVGMLVDEKREKIF 79
+ +A+D E +GL P R+ L L G V + + + + + +
Sbjct: 1 EVVAMDCEMVGLGPHRESGLARCSLVNVHGAVLYDKFIRPEGEITDYRTRVSGVTPQHMV 60
Query: 80 HYGRF--DIAVLFYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDNLKELLGINISKAQQS 137
F + ++ K + + + + + D + L +K
Sbjct: 61 GATPFAVARLEILQLLKGKLVVGHDLKHDFQALKEDMSGYTIYDTSTDRLLWREAKLDHC 120
Query: 138 SDWSADDLSDEQLQYAASDVVHLH 161
S LS+ L + + + H
Sbjct: 121 RRVSLRVLSERLLHKSIQNSLLGH 144
>d1y97a1 c.55.3.5 (A:1-228) Three prime repair exonuclease 2,
TREX2 {Human (Homo sapiens) [TaxId: 9606]}
Length = 228
Score = 28.0 bits (61), Expect = 0.56
Identities = 7/23 (30%), Positives = 10/23 (43%), Gaps = 2/23 (8%)
Query: 23 IAVDTETLGLMPRRDRLCIVQLS 45
+ +D E GL I +LS
Sbjct: 11 VFLDLEATGLPSVEPE--IAELS 31
>d3b6oa1 c.55.3.5 (A:9-234) Three prime repair exonuclease 1,
TREX1 {Mouse (Mus musculus) [TaxId: 10090]}
Length = 226
Score = 28.0 bits (61), Expect = 0.63
Identities = 7/23 (30%), Positives = 10/23 (43%), Gaps = 2/23 (8%)
Query: 23 IAVDTETLGLMPRRDRLCIVQLS 45
I +D E GL R + +L
Sbjct: 7 IFLDLEATGLPSSRPE--VTELC 27
>d2qxfa1 c.55.3.5 (A:8-474) Exonuclease I {Escherichia coli K12
(Escherichia coli K-12) [TaxId: 83333]}
Length = 467
Score = 27.6 bits (60), Expect = 0.72
Identities = 18/104 (17%), Positives = 25/104 (24%), Gaps = 35/104 (33%)
Query: 23 IAVDTETLGLMPRRDRLCIVQLSPGDGTVDIIRIAAGQKNAPNLVGMLVDEKREKIFHYG 82
+ D ET G P DR + AA + D + I G
Sbjct: 5 LFHDYETFGTHPALDR--------------PAQFAA----------IRTDSEFNVI---G 37
Query: 83 RFDIAVLFYTFGVRVRP-VFCTKIASRLTRTYTNQHGLKDNLKE 125
+ F + A +T T Q E
Sbjct: 38 EPE------VFYCKPADDYLPQPGAVLITGI-TPQEARAKGENE 74
>d2f96a1 c.55.3.5 (A:19-220) Ribonuclease T {Pseudomonas
aeruginosa [TaxId: 287]}
Length = 202
Score = 27.3 bits (59), Expect = 0.90
Identities = 7/18 (38%), Positives = 8/18 (44%)
Query: 23 IAVDTETLGLMPRRDRLC 40
+ VD ET G D L
Sbjct: 14 VVVDVETGGFNSATDALL 31
>d2igia1 c.55.3.5 (A:1-180) Oligoribonuclease {Escherichia coli
[TaxId: 562]}
Length = 180
Score = 26.8 bits (58), Expect = 1.2
Identities = 9/18 (50%), Positives = 11/18 (61%)
Query: 23 IAVDTETLGLMPRRDRLC 40
I +D E GL P RDR+
Sbjct: 8 IWIDLEMTGLDPERDRII 25
>d2j8ga2 c.1.8.8 (A:2-190) N-terminal domain of endolysin
{Bacteriophage cp-1 [TaxId: 10747]}
Length = 189
Score = 25.1 bits (54), Expect = 5.0
Identities = 3/19 (15%), Positives = 6/19 (31%)
Query: 124 KELLGINISKAQQSSDWSA 142
K L +++S
Sbjct: 3 KNDLFVDVSSHNGYDITGI 21
>d1wtea_ c.52.1.29 (A:) Restriction endonuclease EcoO109IR
{Escherichia coli [TaxId: 562]}
Length = 272
Score = 23.9 bits (51), Expect = 9.4
Identities = 10/18 (55%), Positives = 11/18 (61%)
Query: 113 YTNQHGLKDNLKELLGIN 130
Y N HGL D + L GIN
Sbjct: 164 YGNSHGLTDKYRILRGIN 181
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
0.323 0.137 0.408
Gapped
Lambda K H
0.267 0.0436 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 777,140
Number of extensions: 34052
Number of successful extensions: 78
Number of sequences better than 10.0: 1
Number of HSP's gapped: 74
Number of HSP's successfully gapped: 15
Length of query: 207
Length of database: 2,407,596
Length adjustment: 81
Effective length of query: 126
Effective length of database: 1,295,466
Effective search space: 163228716
Effective search space used: 163228716
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 51 (24.2 bits)