RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= 016097
(395 letters)
>d2q80a1 a.128.1.1 (A:6-296) Geranylgeranyl pyrophosphate synthetase
{Human (Homo sapiens) [TaxId: 9606]}
Length = 291
Score = 118 bits (295), Expect = 4e-31
Identities = 60/312 (19%), Positives = 110/312 (35%), Gaps = 33/312 (10%)
Query: 83 LASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEI 142
L +Y ++ GK+ R + L V + Q I E+
Sbjct: 7 LLEPYKYLLQLP--GKQVRTKLSQAFNHWLKVP-----------------EDKLQIIIEV 47
Query: 143 TEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVV 202
TEM+H ASLL DD+ D++ RRG + + G + + +++ + +L + + V
Sbjct: 48 TEMLHNASLLIDDIEDNSKLRRGFPVAHSIYGIPSVINSANYVYFLGLEKVLTLDHPDAV 107
Query: 203 TLLATV-VEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAE 261
L +E + + + Y KT L + + L + +
Sbjct: 108 KLFTRQLLELHQGQGLDIYWRDNYTCPTEEEYKAMVLQKTGGLFGLAVGLMQLFSDYKED 167
Query: 262 VAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAME---EFP 318
+ LGL +Q+ DD + S K D+ G + P + A+ E
Sbjct: 168 L----KPLLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAIWSRPEST 223
Query: 319 QLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDEDVTK 378
Q++ ++ Q E+ + YL + TR + A ID+ N
Sbjct: 224 QVQNILRQRTENIDIKKYCVHYLEDVGSFEYTRNTLKELEAKAYKQIDARGGN------P 277
Query: 379 SRRALLDLTHRV 390
AL+ ++
Sbjct: 278 ELVALVKHLSKM 289
>d1v4ea_ a.128.1.1 (A:) Octoprenyl-diphosphate synthase {Thermotoga
maritima [TaxId: 2336]}
Length = 280
Score = 101 bits (251), Expect = 4e-25
Identities = 70/309 (22%), Positives = 132/309 (42%), Gaps = 31/309 (10%)
Query: 62 ADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLH 121
+ EL + +R+ ++ P+ + GK R + +L V + E
Sbjct: 2 SYELEKVKERIEQILSQFFPE---QIMKDLPLY--GKMLRVRLSILSFKNRGVEIGEDAI 56
Query: 122 DGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLA 181
E++H+ASLLHDDV+D A RRG ++NF+ G+K AV A
Sbjct: 57 S----------------SLAALELVHLASLLHDDVIDGARFRRGKETINFMYGDKAAVAA 100
Query: 182 GDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKT 241
GD +L A + + N ++ V+ + E + S + + + Y++ K+
Sbjct: 101 GDLVLVSAFHTVEEIGNNKLRRAFLNVIGKMSEAE-LIEQLSRYKPITKEEYLRIVEGKS 159
Query: 242 ASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDI 301
+L + + ALL G+ E ++ G +G YQ+ DD++DF G G D+
Sbjct: 160 GALFGLALQLPALLEGELGED---LYNLGVTIGTIYQMFDDIMDFAGMEKIGKDGF-LDL 215
Query: 302 RHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLA 361
++G+ + P++ AME+FP+ R + E + + ++ + +++ E
Sbjct: 216 KNGVASFPLVTAMEKFPEARQMFEN-----RDWSGLMSFMREKGILKECEETLKVLVKNV 270
Query: 362 AAAIDSLPE 370
L +
Sbjct: 271 IIENSWLRD 279
>d1rqja_ a.128.1.1 (A:) Farnesyl diphosphate synthase
(geranyltranstransferase) {Escherichia coli [TaxId:
562]}
Length = 299
Score = 100 bits (250), Expect = 8e-25
Identities = 81/359 (22%), Positives = 135/359 (37%), Gaps = 74/359 (20%)
Query: 50 DSQEQLDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMA 109
D +QL+ + V L++ + + P + +Y +G GKR RP ++
Sbjct: 2 DFPQQLE--ACVKQANQALSRFIAPLPFQNTP-VVETMQYGALLG--GKRLRPFLVYATG 56
Query: 110 TALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRR--GIG 167
V A E IH SL+HDD+ D G+
Sbjct: 57 HMFGVS-----------------TNTLDAPAAAVECIHAYSLIHDDLPAMDDDDLRRGLP 99
Query: 168 SLNFVMGNKLAVLAGDFLLSRACVALASLKNTEV----------VTLLATVVEHLVTGET 217
+ + G A+LAGD L + A L+ EV A+ + + G+
Sbjct: 100 TCHVKFGEANAILAGDALQTLAFSILSDADMPEVSDRDRISMISELASASGIAGMCGGQA 159
Query: 218 MQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFD-YGKNLGLA 276
+ + + + +D + +KT +LI + + AL AG A+ D Y +++GLA
Sbjct: 160 LDLD-AEGKHVPLDALERIHRHKTGALIRAAVRLGALSAGDKGRRALPVLDKYAESIGLA 218
Query: 277 YQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDI 336
+Q+ DD+LD G +A+LGK +D + G T P L +E
Sbjct: 219 FQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALLGLE--------------------- 257
Query: 337 ALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDEDVTKSRRALLDLTHRVITRNK 395
+ R+ A + A ++ L E + + AL L +I RNK
Sbjct: 258 ------------QARKKARDLIDDARQSLKQLAEQSLD-----TSALEALADYIIQRNK 299
>d1fpsa_ a.128.1.1 (A:) Farnesyl diphosphate synthase
(geranyltranstransferase) {Chicken (Gallus gallus)
[TaxId: 9031]}
Length = 348
Score = 101 bits (251), Expect = 1e-24
Identities = 63/367 (17%), Positives = 118/367 (32%), Gaps = 39/367 (10%)
Query: 46 VKDTDSQEQLDPFSLVADELSILAKRLRSMVVAEVPK-LASAAEYFFKMGVEGKRFRPTV 104
V + + +E + F + +L + V + L +Y GK R
Sbjct: 4 VVEREREEFVGFFPQIVRDL--TEDGIGHPEVGDAVARLKEVLQYNA---PGGKCNRGLT 58
Query: 105 LLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRR 164
++ L+ + + + ALA + E+ L+ DD++D + TRR
Sbjct: 59 VVAAYRELSGP-GQKDAESLRCALA---------VGWCIELFQAFFLVADDIMDQSLTRR 108
Query: 165 GIGSLNFVMGNKLAVLAGDFLLSRA-----------CVALASLKNTEVVTLLATVVEHLV 213
G G L + FLL + L + T T + ++
Sbjct: 109 GQLCWYKKEGVGLDAINDSFLLESSVYRVLKKYCRQRPYYVHLLELFLQTAYQTELGQML 168
Query: 214 TGETMQMTTSSDQRCSMDYYMQKTYYKTASLI--SNSCKAIALLAGQTAEVAILAFDYGK 271
T ++ S + Y YKTA A+ ++ + E A
Sbjct: 169 DLITAPVSKVDLSHFSEERYKAIVKYKTAFYSFYLPVAAAMYMVGIDSKEEHENAKAILL 228
Query: 272 NLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEEF-PQLRTVVEQGFE- 329
+G +Q+ DD LD G A GK +DI+ + ++ ++ P+ R ++E +
Sbjct: 229 EMGEYFQIQDDYLDCFGDPALTGKVG-TDIQDNKCSWLVVQCLQRVTPEQRQLLEDNYGR 287
Query: 330 -DSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDEDVTKSRRALLDLTH 388
+ V E ++ I+ + L L
Sbjct: 288 KEPEKVAKVKELYEAVGMRAAFQQYEESSYRRLQELIEKHSNR------LPKEIFLGLAQ 341
Query: 389 RVITRNK 395
++ R K
Sbjct: 342 KIYKRQK 348
>d1rtra_ a.128.1.1 (A:) Farnesyl diphosphate synthase
(geranyltranstransferase) {Staphylococcus aureus [TaxId:
1280]}
Length = 290
Score = 80.5 bits (197), Expect = 9e-18
Identities = 69/323 (21%), Positives = 112/323 (34%), Gaps = 69/323 (21%)
Query: 81 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 140
+L + Y G GKR RP +LLL +LN A
Sbjct: 27 TQLEESMLYSLNAG--GKRIRPVLLLLTLDSLNTE-----------------YELGMKSA 67
Query: 141 EITEMIHVASLLHDDVLDDADTRRG--IGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 198
EMIH SL+HDD+ + + + V G A+LAGD LL++A ++S
Sbjct: 68 IALEMIHTYSLIHDDLPAMDNDDYRRGKLTNHKVYGEWTAILAGDALLTKAFELISSDDR 127
Query: 199 TEVVTL--------LATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCK 250
+A+ +V G+ + M S Q ++ KT +L++ +
Sbjct: 128 LTDEVKIKVLQRLSIASGHVGMVGGQMLDMQ-SEGQPIDLETLEMIHKTKTGALLTFAVM 186
Query: 251 AIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPI 310
+ A +A Y +LG+ +Q+ DD+LD G A LGK SD+ + T
Sbjct: 187 SAADIANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVGSDLENNKSTYVS 246
Query: 311 LFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPE 370
L G + H + A + + E
Sbjct: 247 LL---------------------------------GKDGAEDKLTYHRDAAVDELTQIDE 273
Query: 371 NNDEDVTKSRRALLDLTHRVITR 393
+ + LL++ +R
Sbjct: 274 QFN------TKHLLEIVDLFYSR 290
>d1vrga2 c.14.1.4 (A:252-515) Propionyl-CoA carboxylase complex B
subunit, PccB {Thermotoga maritima [TaxId: 2336]}
Length = 264
Score = 27.0 bits (59), Expect = 4.2
Identities = 9/48 (18%), Positives = 19/48 (39%), Gaps = 1/48 (2%)
Query: 121 HDGVEDALATELRTRQQCIAEITEMIHVASLLHDD-VLDDADTRRGIG 167
+ + T + ++ + AS + D V+D +TR+ I
Sbjct: 194 IEASSNPEETRRKLIEEYKQQFANPYIAASRGYVDMVIDPRETRKYIM 241
>d1l8na2 d.92.2.2 (A:4-142) alpha-D-glucuronidase, N-terminal domain
{Bacillus stearothermophilus [TaxId: 1422]}
Length = 139
Score = 26.1 bits (57), Expect = 4.3
Identities = 14/104 (13%), Positives = 30/104 (28%), Gaps = 8/104 (7%)
Query: 276 AYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFE---DSS 332
+L + + + + E + V +G+ D
Sbjct: 36 VEELQKGLRSMMEIEPQVVQEVNETANSIWLGTLEDEEFERPLEGTLVHPEGYVIRSDVD 95
Query: 333 NVDIALEYLGKSR-----GIQKTRELAVKHANLAAAAIDSLPEN 371
+ + +GK+ G+ L N+A +I P+N
Sbjct: 96 DGPFRIYIIGKTDAGVLYGVFHFLRLLQMGENIAQLSIIEQPKN 139
>d1xnya2 c.14.1.4 (A:268-530) Propionyl-CoA carboxylase complex B
subunit, PccB {Streptomyces coelicolor [TaxId: 1902]}
Length = 263
Score = 26.3 bits (57), Expect = 7.5
Identities = 17/58 (29%), Positives = 26/58 (44%), Gaps = 1/58 (1%)
Query: 111 ALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDD-VLDDADTRRGIG 167
A+N+ + D +DA AT R Q+ + A + D V+ +DTRR I
Sbjct: 183 AVNILHRRTIADAGDDAEATRARLIQEYEDALLNPYTAAERGYVDAVIMPSDTRRHIV 240
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 0.132 0.361
Gapped
Lambda K H
0.267 0.0403 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,323,131
Number of extensions: 57850
Number of successful extensions: 127
Number of sequences better than 10.0: 1
Number of HSP's gapped: 120
Number of HSP's successfully gapped: 13
Length of query: 395
Length of database: 2,407,596
Length adjustment: 87
Effective length of query: 308
Effective length of database: 1,213,086
Effective search space: 373630488
Effective search space used: 373630488
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: 54 (25.4 bits)