RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy7230
(306 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 = 44.9 bits (105), Expect = 9e-07
Identities = 25/119 (21%), Positives = 44/119 (36%), Gaps = 8/119 (6%)
Query: 73 YTDGS--KTPTTTGCAYSVGNVVRSTLLNPVNSIFSAELIAIFLCLEAILDSPSGEFLVV 130
YTDGS + Y + AEL A + L + ++
Sbjct: 11 YTDGSCNRQSKEGKAGYVTDRGKDKVKKLEQTTNQQAELEAFAMALT----DSGPKVNII 66
Query: 131 TDSRSSLAALSNVRFTNPLITKVYSTWNYLKLCKKDITFMWCPSHCGIKGNEIVDVAAR 189
DS+ + +++ + +K+ + + K+ I W P+H GI GN+ VD
Sbjct: 67 VDSQYVMGIVASQPTESE--SKIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQEVDHLVS 123
>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 = 36.1 bits (83), Expect = 0.001
Identities = 21/107 (19%), Positives = 39/107 (36%), Gaps = 12/107 (11%)
Query: 73 YTDGS--KTPTTTGCAYSVGNVVRSTLLNPVNSIFSAELIAIFLCLEAILDSPSGEFLVV 130
Y DG+ + Y + + + EL AI+L L+ E +V
Sbjct: 12 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQDS----GLEVNIV 67
Query: 131 TDSRSSLAALSNVRFTNPLITKVYSTWNYLKLC--KKDITFMWCPSH 175
TDS+ +L + P ++ ++ K+ + W P+H
Sbjct: 68 TDSQYALGIIQA----QPDQSESELVNQIIEQLIKKEKVYLAWVPAH 110
>d1jl1a_ c.55.3.1 (A:) RNase H (RNase HI) {Escherichia coli [TaxId:
562]}
Length = 152
Score = 36.5 bits (83), Expect = 0.001
Identities = 13/40 (32%), Positives = 15/40 (37%), Gaps = 4/40 (10%)
Query: 157 WNYLKLCKKDITFMWCPSHCGIKGNEIVD----VAARNPT 192
L + I + W H G NE D AA NPT
Sbjct: 104 RLDAALGQHQIKWEWVKGHAGHPENERADELARAAAMNPT 143
>d1rila_ c.55.3.1 (A:) RNase H (RNase HI) {Thermus thermophilus
[TaxId: 274]}
Length = 147
Score = 34.5 bits (78), Expect = 0.006
Identities = 11/47 (23%), Positives = 16/47 (34%)
Query: 144 RFTNPLITKVYSTWNYLKLCKKDITFMWCPSHCGIKGNEIVDVAARN 190
P+ + L + + F + H G NE VD AR
Sbjct: 93 AEGKPVKNRDLWEALLLAMAPHRVRFHFVKGHTGHPENERVDREARR 139
>d1tuga1 c.78.1.1 (A:1-150,A:151-310) Aspartate carbamoyltransferase
catalytic subunit {Escherichia coli [TaxId: 562]}
Length = 310
Score = 29.9 bits (66), Expect = 0.38
Identities = 6/32 (18%), Positives = 12/32 (37%), Gaps = 4/32 (12%)
Query: 160 LKLCKKDITFMWCPSHCGIKGNEIVDVAARNP 191
L K ++ + H + +EI + P
Sbjct: 254 LHNAKANMKVL----HPLPRVDEIATDVDKTP 281
>d1l8ka_ c.45.1.2 (A:) Tyrosine phosphatase {Human (Homo sapiens),
T-cell [TaxId: 9606]}
Length = 273
Score = 28.6 bits (63), Expect = 0.87
Identities = 12/48 (25%), Positives = 23/48 (47%), Gaps = 4/48 (8%)
Query: 247 DKRFQELAGNRRERPYHKSVKAPNSKKRASIAS---NRKKARYR-ILC 290
++ F+EL RR +P + ++ + +A NR + RYR +
Sbjct: 2 EREFEELDTQRRWQPLYLEIRNESHDYPHRVAKFPENRNRNRYRDVSP 49
>d1ud2a2 c.1.8.1 (A:1-390) Bacterial alpha-amylase {Bacillus sp.,
ksm-k38 [TaxId: 1409]}
Length = 390
Score = 28.1 bits (61), Expect = 1.4
Identities = 7/77 (9%), Positives = 24/77 (31%)
Query: 198 SKLCTPEDFKPFVASIMQSEWQSLWDNIPNTNKLKNIRPSIKAWKTSDQDKRFQELAGNR 257
+K T + + S+ ++ D + N + +++A + + ++
Sbjct: 75 TKYGTKAQLERAIGSLKSNDINVYGDVVMNHKMGADFTEAVQAVQVNPTNRWQDISGAYT 134
Query: 258 RERPYHKSVKAPNSKKR 274
+ N+
Sbjct: 135 IDAWTGFDFSGRNNAYS 151
>d2o9ca2 d.110.3.9 (A:4-130) Bacteriophytochrome BphP {Deinococcus
radiodurans [TaxId: 1299]}
Length = 127
Score = 26.7 bits (59), Expect = 2.2
Identities = 5/20 (25%), Positives = 8/20 (40%)
Query: 24 VRFIPPWSNSSPPVDLSLCD 43
+ F PP P + C+
Sbjct: 3 LPFFPPLYLGGPEITTENCE 22
>d1mxga2 c.1.8.1 (A:1-361) Bacterial alpha-amylase {Archaeon
Pyrococcus woesei [TaxId: 2262]}
Length = 361
Score = 27.2 bits (59), Expect = 2.8
Identities = 8/72 (11%), Positives = 21/72 (29%), Gaps = 14/72 (19%)
Query: 193 TGTTPSKLCTPEDFKPFVASIMQSEWQSLWDNIPNTNKLKNIRPSIKAWKTSDQDKRFQE 252
GT ++ + E+ + + + + D + N + D +
Sbjct: 76 KGTVETRFGSKEELVRLIQTAHAYGIKVIADVVINH--------------RAGGDLEWNP 121
Query: 253 LAGNRRERPYHK 264
G+ + K
Sbjct: 122 FVGDYTWTDFSK 133
>d1vqob1 b.43.3.2 (B:1-337) Ribosomal protein L3 {Archaeon
Haloarcula marismortui [TaxId: 2238]}
Length = 337
Score = 26.6 bits (58), Expect = 3.8
Identities = 6/24 (25%), Positives = 9/24 (37%)
Query: 232 KNIRPSIKAWKTSDQDKRFQELAG 255
+ P +W + D Q AG
Sbjct: 20 TSETPRFNSWPSDDGQPGVQGFAG 43
>d3c9fa1 d.114.1.1 (A:338-561) 5'-nucleotidase (syn. UDP-sugar
hydrolase), C-terminal domain {Candida albicans [TaxId:
5476]}
Length = 224
Score = 26.1 bits (57), Expect = 5.6
Identities = 15/70 (21%), Positives = 25/70 (35%), Gaps = 1/70 (1%)
Query: 31 SNSSPPVDLSLCDGKKCDSAPVVFQSLFRDVINSKYTNHTICYTDGSKTPTTTGCAYSVG 90
S PP L + ++P ++ + Y H DG T + V
Sbjct: 103 SRLKPPHQYDL-QVQDLSTSPHQAHFEMQEKLPKGYVTHDDFGADGDDTLHRAVVNFPVP 161
Query: 91 NVVRSTLLNP 100
NV++S +N
Sbjct: 162 NVIQSVEIND 171
>d1qrva_ a.21.1.1 (A:) HMG-D {Drosophila melanogaster [TaxId: 7227]}
Length = 73
Score = 24.4 bits (53), Expect = 6.3
Identities = 8/59 (13%), Positives = 22/59 (37%), Gaps = 1/59 (1%)
Query: 214 MQSEWQSLWDNIPNTNKLKNIRPSIKAWKTSDQDKRFQELAGNRRERPYHKSVKAPNSK 272
+ S +S+ P + + + W+ ++ A ++ Y ++VK +
Sbjct: 15 LNSARESIKRENPGIKVTEVAKRGGELWRAMKDKSEWEAKAAKAKDD-YDRAVKEFEAN 72
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
0.318 0.131 0.406
Gapped
Lambda K H
0.267 0.0566 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,141,833
Number of extensions: 51375
Number of successful extensions: 136
Number of sequences better than 10.0: 1
Number of HSP's gapped: 136
Number of HSP's successfully gapped: 19
Length of query: 306
Length of database: 2,407,596
Length adjustment: 85
Effective length of query: 221
Effective length of database: 1,240,546
Effective search space: 274160666
Effective search space used: 274160666
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (24.6 bits)