RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= 019903
(334 letters)
>d1rqja_ a.128.1.1 (A:) Farnesyl diphosphate synthase
(geranyltranstransferase) {Escherichia coli [TaxId:
562]}
Length = 299
Score = 158 bits (400), Expect = 7e-47
Identities = 94/299 (31%), Positives = 140/299 (46%), Gaps = 14/299 (4%)
Query: 41 DLKTYWTTLITEIDQNLEKAITV--KYPEQIYESMRYSVLAKGTKRAPPVMCVAACELFG 98
D + + +Q L + I + E+M+Y L G KR P + A +FG
Sbjct: 2 DFPQQLEACVKQANQALSRFIAPLPFQNTPVVETMQYGALLGG-KRLRPFLVYATGHMFG 60
Query: 99 VNRIAAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDALFPL 158
V+ A A+E +HA SLIHDDLP MDDD RRG P+ H +G AILAGDAL L
Sbjct: 61 VSTNTLDAPAAAVECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEANAILAGDALQTL 120
Query: 159 GFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGEPNLV-----EFVQE 213
F + P + + +I+E+A A G GM GQ LDL+ E V E +
Sbjct: 121 AFSILSDADMPEVSDR-DRISMISELASASGIAGMCGGQALDLDAEGKHVPLDALERIHR 179
Query: 214 KKFGEMSECSAVCGGFLAGADDDEIQSL-RRYGRAVGVLYQVVDDILEAKAQTP---RDE 269
K G + + G AG + +Y ++G+ +QV DDIL+ T + +
Sbjct: 180 HKTGALIRAAVRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATLGKRQ 239
Query: 270 EKKKKKGK-SYVAFYGVEKAMEVAEELRAKAKEELDRFKKYGDNVLPLYSFIDYAADRE 327
++ GK +Y A G+E+A + A +L A++ L + + + L + DY R
Sbjct: 240 GADQQLGKSTYPALLGLEQARKKARDLIDDARQSLKQLAEQSLDTSALEALADYIIQRN 298
>d1rtra_ a.128.1.1 (A:) Farnesyl diphosphate synthase
(geranyltranstransferase) {Staphylococcus aureus [TaxId:
1280]}
Length = 290
Score = 135 bits (341), Expect = 2e-38
Identities = 91/288 (31%), Positives = 139/288 (48%), Gaps = 15/288 (5%)
Query: 49 LITEIDQNLEKAITVKYPE-QIYESMRYSVLAKGTKRAPPVMCVAACELFGVNRIAAFPT 107
LI E++ L AI + Q+ ESM YS+ A G KR PV+ + + +
Sbjct: 8 LIDEVNNELSVAINKSVMDTQLEESMLYSLNAGG-KRIRPVLLLLTLDSLNTEYELGMKS 66
Query: 108 ACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDALFPLGFQHIVSHT 167
A ALEM+H SLIHDDLP MD+D RRG+ +NH VYG AILAGDAL F+ I S
Sbjct: 67 AIALEMIHTYSLIHDDLPAMDNDDYRRGKLTNHKVYGEWTAILAGDALLTKAFELISSDD 126
Query: 168 PPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGEPNLV-----EFVQEKKFGEMSEC 222
+ ++V+ ++ A G GM GQ LD++ E + E + + K G +
Sbjct: 127 RLT---DEVKIKVLQRLSIASGHVGMVGGQMLDMQSEGQPIDLETLEMIHKTKTGALLTF 183
Query: 223 SAVCGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDILEAKAQTPRDEEKK---KKKGK-S 278
+ + +A DD + L Y +G+++Q+ DD+L+ + +K + K +
Sbjct: 184 AVMSAADIANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVGSDLENNKST 243
Query: 279 YVAFYGVEKAMEVAEELRAKAKEELDRFKKYGDNVLPLYSFIDYAADR 326
YV+ G + A + R A +EL + + N L +D R
Sbjct: 244 YVSLLGKDGAEDKLTYHRDAAVDELTQIDEQF-NTKHLLEIVDLFYSR 290
>d2q80a1 a.128.1.1 (A:6-296) Geranylgeranyl pyrophosphate synthetase
{Human (Homo sapiens) [TaxId: 9606]}
Length = 291
Score = 80.9 bits (198), Expect = 4e-18
Identities = 42/272 (15%), Positives = 78/272 (28%), Gaps = 39/272 (14%)
Query: 69 IYESMRYSVLAKGTKRAPPVMCVAACELFGVNRIAAFPTACALEMVHAASLIHDDLPCMD 128
+ E +Y + G K+ + A V EM+H ASL+ DD+ D
Sbjct: 7 LLEPYKYLLQLPG-KQVRTKLSQAFNHWLKVPEDKLQIIIEVTEMLHNASLLIDDI--ED 63
Query: 129 DDPSRRGQPSNHTVYGVDIAILAGDALFPLGFQHIVSHTPPHLVPEPRVLRVIAEIARAV 188
+ RRG P H++YG+ I + + ++ LG + +++ P R + E+ +
Sbjct: 64 NSKLRRGFPVAHSIYGIPSVINSANYVYFLGLEKVLTLDHPD--AVKLFTRQLLELHQGQ 121
Query: 189 GSTGMAAGQFLDLEGEP----NLVEFVQEKKFGEMSECSAVCGGFLAGADDDEIQSLRRY 244
G + E L + + + +
Sbjct: 122 GLDIYWRDNYTCPTEEEYKAMVLQKTGGLFGLAVGLMQLFSDYKEDLKPLLNTLGLFFQI 181
Query: 245 GRAVGVLY------------------------------QVVDDILEAKAQTPRDEEKKKK 274
L+ + Q + + KK
Sbjct: 182 RDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAIWSRPESTQVQNILRQRTENIDIKKY 241
Query: 275 KGKSYVAFYGVEKAMEVAEELRAKAKEELDRF 306
E +EL AKA +++D
Sbjct: 242 CVHYLEDVGSFEYTRNTLKELEAKAYKQIDAR 273
>d1v4ea_ a.128.1.1 (A:) Octoprenyl-diphosphate synthase {Thermotoga
maritima [TaxId: 2336]}
Length = 280
Score = 75.8 bits (185), Expect = 2e-16
Identities = 44/266 (16%), Positives = 91/266 (34%), Gaps = 21/266 (7%)
Query: 50 ITEIDQNLEKAITVKYPEQIYESMRYSVLAKGTKRAPPVMCVAACELFGVNRI-AAFPTA 108
+ ++ + +E+ ++ +PEQ + + G K + + + + GV A +
Sbjct: 5 LEKVKERIEQILSQFFPEQ----IMKDLPLYG-KMLRVRLSILSFKNRGVEIGEDAISSL 59
Query: 109 CALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDALFPLGFQHIVSHTP 168
ALE+VH ASL+HDD+ + + +A + + +
Sbjct: 60 AALELVHLASLLHDDVIDGARFRRGKETINFMYGDKAAVAAGDLVLVSAFHTVEEIGNNK 119
Query: 169 PHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGEPNLVEFVQEKKFGEMSECSAVCGG 228
+ ++ S + L + E K G + +
Sbjct: 120 LRRAFLNVIGKMSEAELIEQLSRYKPITKEEYLR--------IVEGKSGALFGLALQLPA 171
Query: 229 FLAGADDDEIQSLRRYGRAVGVLYQVVDDILEAKAQTPRDEE--KKKKKGK-SYVAFYGV 285
L G ++ L G +G +YQ+ DDI++ ++ K G S+ +
Sbjct: 172 LLEGELGED---LYNLGVTIGTIYQMFDDIMDFAGMEKIGKDGFLDLKNGVASFPLVTAM 228
Query: 286 EKAMEVAEELRAKAKEEL-DRFKKYG 310
EK E + + L ++ G
Sbjct: 229 EKFPEARQMFENRDWSGLMSFMREKG 254
>d1fpsa_ a.128.1.1 (A:) Farnesyl diphosphate synthase
(geranyltranstransferase) {Chicken (Gallus gallus)
[TaxId: 9031]}
Length = 348
Score = 69.7 bits (169), Expect = 5e-14
Identities = 41/342 (11%), Positives = 94/342 (27%), Gaps = 60/342 (17%)
Query: 41 DLKTYWTTLITEI-DQNLEKAITVKYPEQIYESMRYSVLAKGTKRAPPVMCVAACELFG- 98
+ ++ ++ ++ + + ++ E ++Y+ G K + VAA
Sbjct: 11 EFVGFFPQIVRDLTEDGIGHPEVGDAVARLKEVLQYNAP--GGKCNRGLTVVAAYRELSG 68
Query: 99 ------VNRIAAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAG 152
+ A +E+ A L+ DD+ MD +RRGQ + GV + +
Sbjct: 69 PGQKDAESLRCALAVGWCIELFQAFFLVADDI--MDQSLTRRGQLCWYKKEGVGLDAIND 126
Query: 153 DALFPLGFQHI------VSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGEPN 206
L + HL+ E+ + + +
Sbjct: 127 SFLLESSVYRVLKKYCRQRPYYVHLLELFLQTAYQTELGQMLDLITAPVSKVDLSHFSEE 186
Query: 207 LVEFVQEKKFGEMSECSAVCGGFLAGADDDEIQS--LRRYGRAVGVLYQVVDD------- 257
+ + + K S V D + + + +G +Q+ DD
Sbjct: 187 RYKAIVKYKTAFYSFYLPVAAAMYMVGIDSKEEHENAKAILLEMGEYFQIQDDYLDCFGD 246
Query: 258 -------------------ILEAKAQTP-------------RDEEKKKKKGKSYVAFYGV 285
+++ + ++ EK K + Y A
Sbjct: 247 PALTGKVGTDIQDNKCSWLVVQCLQRVTPEQRQLLEDNYGRKEPEKVAKVKELYEAVGMR 306
Query: 286 EKAMEVAEELRAKAKEELDRFKKYGDNVLPLYSFIDYAADRE 327
+ E + +E +++ R+
Sbjct: 307 AAFQQYEESSYRRLQELIEKHSN-RLPKEIFLGLAQKIYKRQ 347
>d1jeyb1 b.131.1.2 (B:242-545) Ku80 subunit middle domain {Human
(Homo sapiens) [TaxId: 9606]}
Length = 304
Score = 30.7 bits (69), Expect = 0.19
Identities = 9/56 (16%), Positives = 20/56 (35%), Gaps = 8/56 (14%)
Query: 253 QVVDDILEAKAQTPRDEEKKKKKGKSYVAFYGVEKAMEVAEELRAKAKEELDRFKK 308
Q + L +A PR+ ++ + + E+ K++ L + K
Sbjct: 247 QRLFQCLLHRALHPREPLPPIQQH--------IWNMLNPPAEVTTKSQIPLSKIKT 294
>d1eg7a_ c.37.1.10 (A:) Formyltetrahydrofolate synthetase {Moorella
thermoacetica [TaxId: 1525]}
Length = 549
Score = 29.8 bits (67), Expect = 0.55
Identities = 17/68 (25%), Positives = 31/68 (45%), Gaps = 9/68 (13%)
Query: 93 ACELFGVNRIAAFPTACALEMVHAASLIHDDLP-CM-------DDDPSRRGQPSNHTVYG 144
A E++G + + A + SL + +LP M DD ++ G+P N T+
Sbjct: 447 ATEIYGADGVNYTAEADK-AIQRYESLGYGNLPVVMAKTQYSFSDDMTKLGRPRNFTITV 505
Query: 145 VDIAILAG 152
++ + AG
Sbjct: 506 REVRLSAG 513
>d1wj7a1 a.5.2.1 (A:8-98) Ubiquitin-associated protein 2-like Ubap2l
{Mouse (Mus musculus) [TaxId: 10090]}
Length = 91
Score = 26.8 bits (59), Expect = 1.3
Identities = 10/30 (33%), Positives = 15/30 (50%)
Query: 249 GVLYQVVDDILEAKAQTPRDEEKKKKKGKS 278
G + + ++ +LE T E KKKG S
Sbjct: 59 GDVNRAINVLLEGNPDTHSWEMVGKKKGVS 88
>d1okkd1 a.24.13.1 (D:21-78) Signal recognition particle receptor,
FtsY {Thermus aquaticus [TaxId: 271]}
Length = 58
Score = 25.4 bits (56), Expect = 1.9
Identities = 6/20 (30%), Positives = 13/20 (65%)
Query: 284 GVEKAMEVAEELRAKAKEEL 303
G+ E+ +E+RA +++L
Sbjct: 25 GLSATEEILQEVRASGRKDL 44
>d1vl6a1 c.2.1.7 (A:155-376) Malate oxidoreductase (malic enzyme)
{Thermotoga maritima [TaxId: 2336]}
Length = 222
Score = 26.6 bits (58), Expect = 4.3
Identities = 6/25 (24%), Positives = 11/25 (44%)
Query: 164 VSHTPPHLVPEPRVLRVIAEIARAV 188
P ++PE ++V + AV
Sbjct: 194 CEPEPERIIPEAFDMKVHLNVYTAV 218
>d1nu9c2 a.8.6.1 (C:146-281) Staphylocoagulase {Staphylococcus
aureus [TaxId: 1280]}
Length = 136
Score = 25.9 bits (57), Expect = 4.4
Identities = 8/20 (40%), Positives = 10/20 (50%)
Query: 279 YVAFYGVEKAMEVAEELRAK 298
Y AF + A EL+AK
Sbjct: 27 YFAFVRDTQHKTEALELKAK 46
>d1u5ha_ c.1.12.5 (A:) Citrate lyase, beta subunit {Mycobacterium
tuberculosis [TaxId: 1773]}
Length = 223
Score = 26.0 bits (56), Expect = 6.1
Identities = 13/102 (12%), Positives = 22/102 (21%), Gaps = 8/102 (7%)
Query: 94 CELFGVNRIAAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGD 153
IAA + + + H + +A A
Sbjct: 115 RGAVCAAEIAAADPTVGMMWGAEDLIATLGGSSSRRADGAYRDVARHVRSTILLAASA-- 172
Query: 154 ALFPLGFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAA 195
F + + + L+ A A AVG
Sbjct: 173 ------FGRLALDAVHLDILDVEGLQEEARDAAAVGFDVTVC 208
>d2ywqa1 d.204.1.1 (A:1-95) Ribosome binding protein Y (YfiA
homologue) {Thermus thermophilus [TaxId: 274]}
Length = 95
Score = 24.8 bits (54), Expect = 7.3
Identities = 6/27 (22%), Positives = 15/27 (55%)
Query: 287 KAMEVAEELRAKAKEELDRFKKYGDNV 313
+ +E+ + +R +++L R +Y D
Sbjct: 9 RNLEITDAIRDYVEKKLARLDRYQDGE 35
>d1v63a_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream
binding factor 1, UBF-1) {Mouse (Mus musculus) [TaxId:
10090]}
Length = 101
Score = 24.5 bits (53), Expect = 8.5
Identities = 10/51 (19%), Positives = 21/51 (41%), Gaps = 2/51 (3%)
Query: 260 EAKAQTPRDEEKKKKKGKSYVAFYGVEKA--MEVAEELRAKAKEELDRFKK 308
+ +E+ + G + +K ++AEE + + K LD + K
Sbjct: 26 NGELNHLPLKERMVEIGSRWQRISQSQKEHYKKLAEEQQRQYKVHLDLWVK 76
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 0.136 0.399
Gapped
Lambda K H
0.267 0.0642 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,264,552
Number of extensions: 60204
Number of successful extensions: 233
Number of sequences better than 10.0: 1
Number of HSP's gapped: 223
Number of HSP's successfully gapped: 21
Length of query: 334
Length of database: 2,407,596
Length adjustment: 86
Effective length of query: 248
Effective length of database: 1,226,816
Effective search space: 304250368
Effective search space used: 304250368
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: 53 (24.4 bits)