RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy14503
(230 letters)
>d2guia1 c.55.3.5 (A:7-180) N-terminal exonuclease domain of the
epsilon subunit of DNA polymerase III {Escherichia coli
[TaxId: 562]}
Length = 174
Score = 131 bits (329), Expect = 4e-39
Identities = 93/173 (53%), Positives = 122/173 (70%), Gaps = 5/173 (2%)
Query: 3 RHIVLDIETTGLN----IIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIH 58
R IVLD ETTG+N +GH+IIEIG VE+ NR++TGNN H Y+ P R + A +H
Sbjct: 1 RQIVLDTETTGMNQIGAHYEGHKIIEIGAVEVVNRRLTGNNFHVYLKPDRLVDPEAFGVH 60
Query: 59 GLTTKFLKNKLKFSEIVDNFLNYVSNSEIIIHNAAFDVGFLDMELSLLGYS-NFTKYIYR 117
G+ +FL +K F+E+ D F++Y+ +E++IHNAAFD+GF+D E SLL T +
Sbjct: 61 GIADEFLLDKPTFAEVADEFMDYIRGAELVIHNAAFDIGFMDYEFSLLKRDIPKTNTFCK 120
Query: 118 ITDTLLMARKIHTGKRNSLDALCDRYNISKIHRTLHGGLLDAELLAEVYLAMT 170
+TD+L +ARK+ GKRNSLDALC RY I RTLHG LLDA++LAEVYLAMT
Sbjct: 121 VTDSLAVARKMFPGKRNSLDALCARYEIDNSKRTLHGALLDAQILAEVYLAMT 173
>d1y97a1 c.55.3.5 (A:1-228) Three prime repair exonuclease 2, TREX2
{Human (Homo sapiens) [TaxId: 9606]}
Length = 228
Score = 86.6 bits (213), Expect = 2e-21
Identities = 38/200 (19%), Positives = 60/200 (30%), Gaps = 37/200 (18%)
Query: 5 IVLDIETTGLNIIDGHRIIEIGCVEIKNRQITG---------------NNLHYYINPGRD 49
+ LD+E TGL I E+ + + + L + P R
Sbjct: 11 VFLDLEATGLPS-VEPEIAELSLFAVHRSSLENPEHDESGALVLPRVLDKLTLCMCPERP 69
Query: 50 SEKSALAIHGLTTKFLKNKLKFS------EIVDNFLNYVSNSEIIIHNAA--FDVGFLDM 101
A I GL+++ L K + FL+ + ++ + +D L
Sbjct: 70 FTAKASEITGLSSEGLARCRKAGFDGAVVRTLQAFLSRQAGPICLVAHNGFDYDFPLLCA 129
Query: 102 ELSLLGYSNFTKYIYRITDTLLMARKIHTG----------KRNSLDALCDRYNISKIHRT 151
EL LG DTL R + + SL +L RY
Sbjct: 130 ELRRLGARLPRD--TVCLDTLPALRGLDRAHSHGTRARGRQGYSLGSLFHRYFR-AEPSA 186
Query: 152 LHGGLLDAELLAEVYLAMTR 171
H D L ++L
Sbjct: 187 AHSAEGDVHTLLLIFLHRAA 206
>d2f96a1 c.55.3.5 (A:19-220) Ribonuclease T {Pseudomonas aeruginosa
[TaxId: 287]}
Length = 202
Score = 83.6 bits (205), Expect = 2e-20
Identities = 35/181 (19%), Positives = 67/181 (37%), Gaps = 19/181 (10%)
Query: 5 IVLDIETTGLNIIDGHRIIEIGCVEIK----NRQITGNNLHYYI--NPGRDSEKSALAIH 58
+V+D+ET G N ++EI + + + I G + E +AL
Sbjct: 14 VVVDVETGGFNS-ATDALLEIAATTVGMDEKGFLFPEHTYFFRIEPFEGANIEPAALEFT 72
Query: 59 GLTTKFLKNK-----LKFSEIVDNFLNYVSN-----SEIIIHNAAFDVGFLDMELSLLGY 108
G+ +EI + + ++ HN++FD+GFL+ ++ G
Sbjct: 73 GIKLDHPLRMAVQEEAALTEIFRGIRKALKANGCKRAILVGHNSSFDLGFLNAAVARTGI 132
Query: 109 SNFTKYIYRITDTLLMARKIHTGKRNSLDALCDRYNISKIHRTLHGGLLDAELLAEVYLA 168
+ + DT +A + + L C + +R H D E AE++
Sbjct: 133 KRNPFHPFSSFDTATLAGLAY--GQTVLAKACQAAGMEFDNREAHSARYDTEKTAELFCG 190
Query: 169 M 169
+
Sbjct: 191 I 191
>d1w0ha_ c.55.3.5 (A:) Exonuclease ERI1 {Human (Homo sapiens)
[TaxId: 9606]}
Length = 200
Score = 79.2 bits (194), Expect = 8e-19
Identities = 29/196 (14%), Positives = 68/196 (34%), Gaps = 20/196 (10%)
Query: 5 IVLDIETT---GLNIIDGHRIIEIGCVEIKNRQI-TGNNLHYYINPGRDSEKS--ALAIH 58
++D E T G H IIE V + + + Y+ P +++ S +++
Sbjct: 9 CIIDFEATCEEGNPPEFVHEIIEFPVVLLNTHTLEIEDTFQQYVRPEINTQLSDFCISLT 68
Query: 59 GLTTKFLKNKLKFSEIVDNFLNYVSNSEIIIH--------NAAFDVGFLDMELSLLGYSN 110
G+T + F +++ ++++ E+ + FL+++ L
Sbjct: 69 GITQDQVDRADTFPQVLKKVIDWMKLKELGTKYKYSLLTDGSWDMSKFLNIQCQLSRLKY 128
Query: 111 FTKYIYRI-TDTLLMARKIHTGKRNSLDALCDRYNISKIHRTLHGGLLDAELLAEVYLAM 169
I + L + ++ + H GL D++ +A + + M
Sbjct: 129 PPFAKKWINIRKSYGNFYKVPRSQTKLTIMLEKLGM-DYDGRPHCGLDDSKNIARIAVRM 187
Query: 170 TRGQSNLNFKPKINNS 185
+ + +IN
Sbjct: 188 LQ----DGCELRINEK 199
>d3b6oa1 c.55.3.5 (A:9-234) Three prime repair exonuclease 1, TREX1
{Mouse (Mus musculus) [TaxId: 10090]}
Length = 226
Score = 77.3 bits (189), Expect = 7e-18
Identities = 33/203 (16%), Positives = 62/203 (30%), Gaps = 36/203 (17%)
Query: 1 MHRHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITG------------------NNLHY 42
M I LD+E TGL + E+ + + R + + L
Sbjct: 3 MQTLIFLDLEATGLPS-SRPEVTELCLLAVHRRALENTSISQGHPPPVPRPPRVVDKLSL 61
Query: 43 YINPGRDSEKSALAIHGLTTKFLKNKLKFS------EIVDNFLNYVSNSEIII--HNAAF 94
I PG+ A I GL+ L+ + + ++ FL ++ + +
Sbjct: 62 CIAPGKACSPGASEITGLSKAELEVQGRQRFDDNLAILLRAFLQRQPQPCCLVAHNGDRY 121
Query: 95 DVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKRNSLDALCDRYNISKIHRTLHG 154
D L EL+ L D++ + + S + Y++ I+ L+
Sbjct: 122 DFPLLQTELARLST-PSPLDGTFCVDSIAALKALEQASSPSGNGSRKSYSLGSIYTRLYW 180
Query: 155 --------GLLDAELLAEVYLAM 169
D L +
Sbjct: 181 QAPTDSHTAEGDVLTLLSICQWK 203
>d1wlja_ c.55.3.5 (A:) Interferon-stimulated gene 20 kDa protein,
ISG20 {Human (Homo sapiens) [TaxId: 9606]}
Length = 173
Score = 73.5 bits (179), Expect = 5e-17
Identities = 31/169 (18%), Positives = 54/169 (31%), Gaps = 11/169 (6%)
Query: 5 IVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKF 64
+ +D E GL + V + + +I P + + G+T +
Sbjct: 3 VAMDCEMVGLGPHRESGLARCSLVNVHGAVL----YDKFIRPEGEITDYRTRVSGVTPQH 58
Query: 65 LKNKLKFSEIVDNFLNYVSNSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLM 124
+ F+ L + ++ H+ D L + S +T Y L
Sbjct: 59 MVGATPFAVARLEILQLLKGKLVVGHDLKHDFQALKED-----MSGYTIYDTSTDRLLWR 113
Query: 125 ARKIHTGKRNSLDALCDRYNISKI--HRTLHGGLLDAELLAEVYLAMTR 171
K+ +R SL L +R I H + DA E+Y R
Sbjct: 114 EAKLDHCRRVSLRVLSERLLHKSIQNSLLGHSSVEDARATMELYQISQR 162
>d2qxfa1 c.55.3.5 (A:8-474) Exonuclease I {Escherichia coli K12
(Escherichia coli K-12) [TaxId: 83333]}
Length = 467
Score = 56.9 bits (136), Expect = 3e-10
Identities = 28/219 (12%), Positives = 57/219 (26%), Gaps = 24/219 (10%)
Query: 5 IVLDIETTGLNIIDGHRIIEIGCVEI-KNRQITG--NNLHYYINPGRDSEKSALAIHGLT 61
+ D ET G + R + + + G + + A+ I G+T
Sbjct: 5 LFHDYETFGTHP-ALDRPAQFAAIRTDSEFNVIGEPEVFYCKPADDYLPQPGAVLITGIT 63
Query: 62 TKFLKNKLK----FSEIVDNFLNYVSNSEIIIHNAAFDVGFLDMELSLLG---YSNFTKY 114
+ + K + F+ + + + +N FD Y+ ++
Sbjct: 64 PQEARAKGENEAAFAARIHSLFTVPKTCILGYNNVRFDDEVTRNIFYRNFYDPYAWSWQH 123
Query: 115 IYRITDTLLMA------------RKIHTGKRNSLDALCDRYNISKIHRTLHGGLLDAELL 162
D L + + S H H + D
Sbjct: 124 DNSRWDLLDVMRACYALRPEGINWPENDDGLPSFRLEHLTKANGIEHSNAHDAMADVYAT 183
Query: 163 AEVYLAMTRGQSNLNFKP-KINNSNNIETKIKIPNNIPI 200
+ + Q L N + + I +P P+
Sbjct: 184 IAMAKLVKTRQPRLFDYLFTHRNKHKLMALIDVPQMKPL 222
>d2igia1 c.55.3.5 (A:1-180) Oligoribonuclease {Escherichia coli
[TaxId: 562]}
Length = 180
Score = 42.6 bits (99), Expect = 8e-06
Identities = 25/158 (15%), Positives = 43/158 (27%), Gaps = 15/158 (9%)
Query: 5 IVLDIETTGLNIIDGHRIIEIGCVEIKNRQI--------TGNNLHYYINPGRDSEKSALA 56
I +D+E TGL+ + RIIEI + + + D
Sbjct: 8 IWIDLEMTGLD-PERDRIIEIATLVTDANLNILAEGPTIAVHQSDEQLALMDDWNVRTHT 66
Query: 57 IHGLTTKFLKNKLKFSEIVDNFLNYVSNSEI--IIHNAAFDVGFLDMELSLLGYSNFTKY 114
GL + + + E L ++ +G L +
Sbjct: 67 ASGLVERVKASTMGDREAELATLEFLKQWVPAGKSPICGNSIGQDRRFLFKYMPELEAYF 126
Query: 115 IYRITDTLLMARKIHTGKRNSLDALCDRYNISKIHRTL 152
YR D + K LD + H+ +
Sbjct: 127 HYRYLDVSTLKELARRWKPEILDGFTKQGT----HQAM 160
>d1x9ma1 c.55.3.5 (A:1-210) Exonuclease domain of T7 DNA
polymerase {Bacteriophage T7 [TaxId: 10760]}
Length = 204
Score = 28.0 bits (61), Expect = 0.84
Identities = 6/32 (18%), Positives = 9/32 (28%), Gaps = 1/32 (3%)
Query: 5 IVLDIETTGLNIIDGHRIIEIGCVEIKNRQIT 36
IV DIE L + + +
Sbjct: 2 IVSDIEANALL-ESVTKFHCGVIYDYSTAEYV 32
>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 = 26.3 bits (57), Expect = 2.6
Identities = 16/154 (10%), Positives = 32/154 (20%), Gaps = 40/154 (25%)
Query: 4 HIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTK 63
L +E N D I+ I + + +++ P L
Sbjct: 18 KAALVVEVVEENYHDA-PIVGI--------AVVNEHGRFFLRP----------ETALADP 58
Query: 64 FLKNKLKFSEIVDNFLNYVSNSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLL 123
L + + ++ L + D LL
Sbjct: 59 QFVAWLGDETK-----------KKSMFDSKRAAVAL--------KWKGIELCGVSFDLLL 99
Query: 124 MARKIHTG-KRNSLDALCDRY-NISKIHRTLHGG 155
A + + + A + G
Sbjct: 100 AAYLLDPAQGVDDVAAAAKMKQYEAVRPDEAVYG 133
>d1kfsa1 c.55.3.5 (A:324-518) Exonuclease domain of prokaryotic
DNA polymerase {Escherichia coli [TaxId: 562]}
Length = 195
Score = 26.2 bits (56), Expect = 2.7
Identities = 11/57 (19%), Positives = 18/57 (31%)
Query: 2 HRHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIH 58
D ET L+ I + + +E Y P + S + AL +
Sbjct: 26 APVFAFDTETDSLDNISANLVGLSFAIEPGVAAYIPVAHDYLDAPDQISRERALELL 82
>d1dxea_ c.1.12.5 (A:) 2-dehydro-3-deoxy-galactarate aldolase
{Escherichia coli [TaxId: 562]}
Length = 253
Score = 25.5 bits (55), Expect = 5.5
Identities = 12/53 (22%), Positives = 20/53 (37%), Gaps = 2/53 (3%)
Query: 65 LKNKLKFSEIVDNFLNYVSNSEI--IIHNAAFDVGFLDMELSLLGYSNFTKYI 115
K L ++ + +SN ++ A FD LD E + S F +
Sbjct: 7 FKAALAAKQVQIGCWSALSNPISTEVLGLAGFDWLVLDGEHAPNDISTFIPQL 59
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
0.321 0.138 0.399
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: 851,131
Number of extensions: 38096
Number of successful extensions: 132
Number of sequences better than 10.0: 1
Number of HSP's gapped: 115
Number of HSP's successfully gapped: 16
Length of query: 230
Length of database: 2,407,596
Length adjustment: 82
Effective length of query: 148
Effective length of database: 1,281,736
Effective search space: 189696928
Effective search space used: 189696928
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: 51 (24.2 bits)