RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy2212
(267 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 = 39.5 bits (91), Expect = 7e-05
Identities = 23/106 (21%), Positives = 40/106 (37%), Gaps = 7/106 (6%)
Query: 5 CAYIIDKTSIYSFVLNNVNSVFTSELIAVLLCLKHLKFLPKEKFVIISDSKSTLLALSNP 64
Y+ D+ L + +EL A + L K II DS+ + +++
Sbjct: 25 AGYVTDRGKDKVKKLEQT-TNQQAELEAFAMALTD----SGPKVNIIVDSQYVMGIVAS- 78
Query: 65 SNINPIVSLIHSCWSDLLCCGKQLAFLWCPSHTGIQGNEAVDRAAR 110
S I + + + + + W P+H GI GN+ VD
Sbjct: 79 -QPTESESKIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQEVDHLVS 123
>d1jl1a_ c.55.3.1 (A:) RNase H (RNase HI) {Escherichia coli [TaxId:
562]}
Length = 152
Score = 35.8 bits (81), Expect = 0.002
Identities = 11/47 (23%), Positives = 18/47 (38%)
Query: 64 PSNINPIVSLIHSCWSDLLCCGKQLAFLWCPSHTGIQGNEAVDRAAR 110
++ P+ ++ D Q+ + W H G NE D AR
Sbjct: 90 TADKKPVKNVDLWQRLDAALGQHQIKWEWVKGHAGHPENERADELAR 136
>d1rila_ c.55.3.1 (A:) RNase H (RNase HI) {Thermus thermophilus
[TaxId: 274]}
Length = 147
Score = 35.3 bits (80), Expect = 0.003
Identities = 12/37 (32%), Positives = 15/37 (40%)
Query: 75 HSCWSDLLCCGKQLAFLWCPSHTGIQGNEAVDRAARN 111
L ++ F + HTG NE VDR AR
Sbjct: 103 LWEALLLAMAPHRVRFHFVKGHTGHPENERVDREARR 139
>d1sx5a_ c.52.1.2 (A:) Restriction endonuclease EcoRV {Escherichia
coli [TaxId: 562]}
Length = 244
Score = 27.9 bits (62), Expect = 1.2
Identities = 15/72 (20%), Positives = 25/72 (34%), Gaps = 14/72 (19%)
Query: 3 TSCAYIIDKTSIYSFVLNNVNSVFTSELIAVLLCLKHLKFLPKEKFVIISDSKSTLLALS 62
T A Y+ +EL + K +K ++K+VI D +
Sbjct: 138 TRVATRKSSLKTYNI----------NELNEIPKPYKGVKVFLQDKWVIAGDLAGS----G 183
Query: 63 NPSNINPIVSLI 74
N +NI I +
Sbjct: 184 NTTNIGSIHAHY 195
>d1x9fa_ a.1.1.2 (A:) Extracellular dodecameric hemoglobin
(erythrocruorin), subunit IV (globin A) {Common
earthworm (Lumbricus terrestris) [TaxId: 6398]}
Length = 147
Score = 26.3 bits (57), Expect = 2.6
Identities = 10/30 (33%), Positives = 14/30 (46%), Gaps = 5/30 (16%)
Query: 122 CSPEDFKPFIRKLIKDLWQQSWSSIPNSNK 151
CS ED R+ I+ +W WSS +
Sbjct: 3 CSYED-----RREIRHIWDDVWSSSFTDRR 27
>d1nw1a_ d.144.1.8 (A:) Choline kinase {Caenorhabditis elegans
[TaxId: 6239]}
Length = 395
Score = 26.0 bits (56), Expect = 5.0
Identities = 7/35 (20%), Positives = 12/35 (34%), Gaps = 2/35 (5%)
Query: 126 DFKPFIRKLIKDLWQQSWSSIPNSNKLKSIKPIIG 160
+ K L +W ++P + I I G
Sbjct: 20 ELKERAHMLCARFLGGAWKTVPLEH--LRISRIKG 52
>d2ba0g1 d.14.1.4 (G:3-178) Exosome complex exonuclease 2,ECX2
{Archaeoglobus fulgidus [TaxId: 2234]}
Length = 176
Score = 25.8 bits (56), Expect = 5.2
Identities = 8/40 (20%), Positives = 20/40 (50%), Gaps = 1/40 (2%)
Query: 14 IYSFVLNNVNSVFTSELIAVLLCLKHLKFLPKEKFVIISD 53
+ L++ ++ + +A + L + K +P E+F + D
Sbjct: 135 VDIHALDDDGNLLDASALAAIAALMNTK-VPAERFDLGED 173
>d1hg4a_ a.123.1.1 (A:) Ultraspiracle protein, usp {Drosophila
melanogaster [TaxId: 7227]}
Length = 265
Score = 25.9 bits (56), Expect = 6.2
Identities = 29/164 (17%), Positives = 45/164 (27%), Gaps = 26/164 (15%)
Query: 71 VSLIHSCWSDLL---CCGKQLAFLWCPSHTGIQGNEAVDRAARNPSASLPPLKLCSPEDF 127
V L+ + W +LL + L G G D + S L P +L + F
Sbjct: 74 VILLKAAWIELLIANVAWCSIVSLDDGGAGGGGGGLGHDGSFERRSPGLQPQQLFLNQSF 133
Query: 128 KPFIRKLIKDLWQQSWSSIPN--SNKLKSIKPIIGPWPSSDRQNRYEEVVICRMRIGHTR 185
IK + I + S K+K + E+ + I
Sbjct: 134 SYHRNSAIKAGVSAIFDRILSELSVKMKRLNL------------DRRELSCLKAII---- 177
Query: 186 ATHGHLFKRAPPSTCGCGEILSVQHILTCALHGHIRASLPTPPA 229
L+ EI + + L H R P
Sbjct: 178 -----LYNPDIRGIKSRAEIEMCREKVYACLDEHCRLEHPGDDG 216
>d1vqob1 b.43.3.2 (B:1-337) Ribosomal protein L3 {Archaeon
Haloarcula marismortui [TaxId: 2238]}
Length = 337
Score = 25.4 bits (55), Expect = 7.8
Identities = 5/34 (14%), Positives = 8/34 (23%)
Query: 175 VICRMRIGHTRATHGHLFKRAPPSTCGCGEILSV 208
+ R + + H R G V
Sbjct: 214 PVKRWGVQKRKGKHARQGWRRRIGNLGPWNPSRV 247
>d1lvmb_ b.47.1.3 (B:) TEV protease (nucleat inclusion protein A,
NIA) {Tobacco etch virus, TEV [TaxId: 12227]}
Length = 219
Score = 25.1 bits (54), Expect = 8.0
Identities = 7/39 (17%), Positives = 13/39 (33%), Gaps = 5/39 (12%)
Query: 124 PEDFKPFIRKLIKDLWQQSWSSIPN-----SNKLKSIKP 157
P++F + W W + +K+ KP
Sbjct: 181 PKNFMELLTNQEAQQWVSGWRLNADSVLWGGHKVFMDKP 219
>d1x9fb_ a.1.1.2 (B:) Extracellular dodecameric hemoglobin
(erythrocruorin), subunit II (globin B) {Common
earthworm (Lumbricus terrestris) [TaxId: 6398]}
Length = 145
Score = 24.7 bits (53), Expect = 8.6
Identities = 4/27 (14%), Positives = 10/27 (37%), Gaps = 5/27 (18%)
Query: 122 CSPEDFKPFIRKLIKDLWQQSWSSIPN 148
C + +K W +++ S +
Sbjct: 4 CGVLE-----GLKVKSEWGRAYGSGHD 25
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 0.135 0.420
Gapped
Lambda K H
0.267 0.0531 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,014,654
Number of extensions: 46147
Number of successful extensions: 142
Number of sequences better than 10.0: 1
Number of HSP's gapped: 142
Number of HSP's successfully gapped: 15
Length of query: 267
Length of database: 2,407,596
Length adjustment: 84
Effective length of query: 183
Effective length of database: 1,254,276
Effective search space: 229532508
Effective search space used: 229532508
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: 52 (24.3 bits)