RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy3877
(145 letters)
>d2q80a1 a.128.1.1 (A:6-296) Geranylgeranyl pyrophosphate synthetase
{Human (Homo sapiens) [TaxId: 9606]}
Length = 291
Score = 75.5 bits (184), Expect = 7e-18
Identities = 71/112 (63%), Positives = 86/112 (76%)
Query: 24 LGLYFQVRDDYCNLCSKEYSENKSFCEDLTEGKFSFPIIHAIQSRPDDRQVIQILRQRTR 83
LGL+FQ+RDDY NL SKEYSENKSFCEDLTEGKFSFP IHAI SRP+ QV ILRQRT
Sbjct: 175 LGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAIWSRPESTQVQNILRQRTE 234
Query: 84 DVEVKKYCISLLDRFGSFEHTREVLKELDVSARTEVARLGGNPLLEAILDEL 135
++++KKYC+ L+ GSFE+TR LKEL+ A ++ GGNP L A++ L
Sbjct: 235 NIDIKKYCVHYLEDVGSFEYTRNTLKELEAKAYKQIDARGGNPELVALVKHL 286
>d1v4ea_ a.128.1.1 (A:) Octoprenyl-diphosphate synthase {Thermotoga
maritima [TaxId: 2336]}
Length = 280
Score = 53.1 bits (126), Expect = 9e-10
Identities = 29/123 (23%), Positives = 50/123 (40%), Gaps = 10/123 (8%)
Query: 1 MMAIRLMQLFSDTKSDFTTLAGI-LGLYFQVRDDYCNLCSKEYSENKSFCEDLTEGKFSF 59
+A++L L + G+ +G +Q+ DD + E DL G SF
Sbjct: 164 GLALQLPALLEGELGEDLYNLGVTIGTIYQMFDDIMDFAGMEKIGKD-GFLDLKNGVASF 222
Query: 60 PIIHAIQSRPDDRQVIQILRQRTRDVEVKKYCISLLDRFGSFEHTREVLKELDVSARTEV 119
P++ A++ P+ RQ+ + RD +S + G + E LK L + E
Sbjct: 223 PLVTAMEKFPEARQMFE-----NRDWS---GLMSFMREKGILKECEETLKVLVKNVIIEN 274
Query: 120 ARL 122
+ L
Sbjct: 275 SWL 277
>d1rqja_ a.128.1.1 (A:) Farnesyl diphosphate synthase
(geranyltranstransferase) {Escherichia coli [TaxId:
562]}
Length = 299
Score = 45.4 bits (106), Expect = 5e-07
Identities = 20/84 (23%), Positives = 37/84 (44%), Gaps = 1/84 (1%)
Query: 24 LGLYFQVRDDYCNLCSKEYSENKSFCEDLTEGKFSFPIIHAIQ-SRPDDRQVIQILRQRT 82
+GL FQV+DD ++ + K D GK ++P + ++ +R R +I RQ
Sbjct: 215 IGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALLGLEQARKKARDLIDDARQSL 274
Query: 83 RDVEVKKYCISLLDRFGSFEHTRE 106
+ + + S L+ + R
Sbjct: 275 KQLAEQSLDTSALEALADYIIQRN 298
>d1rtra_ a.128.1.1 (A:) Farnesyl diphosphate synthase
(geranyltranstransferase) {Staphylococcus aureus [TaxId:
1280]}
Length = 290
Score = 38.1 bits (87), Expect = 1e-04
Identities = 12/85 (14%), Positives = 25/85 (29%), Gaps = 13/85 (15%)
Query: 27 YFQVRDDYCNLCSKEYSENKSFCEDLTEGKFSFPIIHAIQSRPDDRQVIQILRQRTRDVE 86
FQ++DD + E K DL K ++ + +
Sbjct: 212 MFQIKDDLLDCYGDEAKLGKKVGSDLENNKSTYVSLLGKD------------GAEDKLTY 259
Query: 87 VKKYCISLLDRFGSFEHTREVLKEL 111
+ + L + + + L E+
Sbjct: 260 HRDAAVDELTQIDE-QFNTKHLLEI 283
>d2vjma1 c.123.1.1 (A:2-428) Formyl-CoA transferase {Oxalobacter
formigenes [TaxId: 847]}
Length = 427
Score = 30.7 bits (68), Expect = 0.054
Identities = 10/21 (47%), Positives = 13/21 (61%), Gaps = 1/21 (4%)
Query: 102 EHTREVLKELDVSARTEVARL 122
EHT EVLKEL + ++ L
Sbjct: 402 EHTDEVLKELGLDD-AKIKEL 421
>d1xk7a1 c.123.1.1 (A:4-405) Crotonobetainyl-CoA:carnitine
CoA-transferase, CaiB {Escherichia coli [TaxId: 562]}
Length = 402
Score = 30.4 bits (67), Expect = 0.057
Identities = 5/21 (23%), Positives = 9/21 (42%), Gaps = 1/21 (4%)
Query: 102 EHTREVLKELDVSARTEVARL 122
T +LK + S ++ L
Sbjct: 373 MDTAAILKNIGYSE-NDIQEL 392
>d1q7ea_ c.123.1.1 (A:) Hypothetical protein YfdW {Escherichia coli
[TaxId: 562]}
Length = 417
Score = 30.7 bits (68), Expect = 0.062
Identities = 10/21 (47%), Positives = 13/21 (61%), Gaps = 1/21 (4%)
Query: 102 EHTREVLKELDVSARTEVARL 122
EHT VL+EL S E+A +
Sbjct: 391 EHTAAVLQELGYSD-DEIAAM 410
>d1x74a1 c.123.1.1 (A:2-360) 2-methylacyl-CoA racemase Mcr
{Mycobacterium tuberculosis [TaxId: 1773]}
Length = 359
Score = 26.3 bits (57), Expect = 1.7
Identities = 3/11 (27%), Positives = 4/11 (36%)
Query: 102 EHTREVLKELD 112
VL + D
Sbjct: 348 IDIEAVLTDWD 358
>d2drpa1 g.37.1.1 (A:103-139) Tramtrack protein (two zinc-finger
peptide) {Drosophila melanogaster [TaxId: 7227]}
Length = 37
Score = 23.8 bits (51), Expect = 1.9
Identities = 6/15 (40%), Positives = 10/15 (66%)
Query: 35 CNLCSKEYSENKSFC 49
C +CS+ Y+ +FC
Sbjct: 11 CKVCSRVYTHISNFC 25
>d1twfa_ e.29.1.2 (A:) RBP1 {Baker's yeast (Saccharomyces cerevisiae)
[TaxId: 4932]}
Length = 1449
Score = 26.0 bits (56), Expect = 2.0
Identities = 11/53 (20%), Positives = 18/53 (33%), Gaps = 17/53 (32%)
Query: 70 DDRQVIQILRQRTRDVEVKKYCISLLDRFG------------SFEHTREVLKE 110
+ R + ++ T + + R G SFE T E+L E
Sbjct: 1363 NYRHMALLVDVMTTQGGLTS-----VTRHGFNRSNTGALMRCSFEETVEILFE 1410
>d2qrra1 d.58.18.13 (A:2-98) Methionine import ATP-binding protein
MetN {Vibrio parahaemolyticus [TaxId: 670]}
Length = 97
Score = 23.6 bits (51), Expect = 5.8
Identities = 11/41 (26%), Positives = 16/41 (39%)
Query: 50 EDLTEGKFSFPIIHAIQSRPDDRQVIQILRQRTRDVEVKKY 90
+ KF + + DD I+ LR+ VEV Y
Sbjct: 55 DYAGGVKFGMMVAELFGNEQDDSAAIEYLRENNVKVEVLGY 95
>d3dhxa1 d.58.18.13 (A:2-100) Methionine import ATP-binding
protein MetN {Escherichia coli [TaxId: 562]}
Length = 99
Score = 23.6 bits (51), Expect = 5.9
Identities = 9/41 (21%), Positives = 16/41 (39%)
Query: 50 EDLTEGKFSFPIIHAIQSRPDDRQVIQILRQRTRDVEVKKY 90
+ KF + ++ D + I L++ VEV Y
Sbjct: 56 DYAGGVKFGIMLTEMHGTQQDTQAAIAWLQEHHVKVEVLGY 96
>d1v9ca_ c.23.17.1 (A:) Precorrin-8x methylmutase {Thermus
thermophilus [TaxId: 274]}
Length = 204
Score = 24.0 bits (52), Expect = 7.1
Identities = 11/39 (28%), Positives = 16/39 (41%)
Query: 98 FGSFEHTREVLKELDVSARTEVARLGGNPLLEAILDELL 136
F + + L E V R GG+ L+ A L L+
Sbjct: 158 FVNVLEAKRALMEAPVPWIVTEGRKGGSTLVVAALHALI 196
>d1ou0a_ c.23.17.1 (A:) Precorrin-8x methylmutase related protein
{Archaeon Thermoplasma acidophilum [TaxId: 2303]}
Length = 190
Score = 23.6 bits (51), Expect = 8.8
Identities = 7/39 (17%), Positives = 16/39 (41%)
Query: 98 FGSFEHTREVLKELDVSARTEVARLGGNPLLEAILDELL 136
F + +E L + + GG+P+ +I++
Sbjct: 149 FINASKAKEGLVSSHIEYISVEGHRGGSPIAASIVNGFG 187
>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus
thermophilus [TaxId: 274]}
Length = 387
Score = 23.9 bits (51), Expect = 8.9
Identities = 16/43 (37%), Positives = 24/43 (55%), Gaps = 10/43 (23%)
Query: 46 KSFCEDLTE----GKFSFPIIHAIQSRPDD-RQVIQILRQRTR 83
+ + DLT GK P+I R ++ R+VIQIL +RT+
Sbjct: 6 EQYGIDLTRLAAEGKLD-PVI----GRDEEIRRVIQILLRRTK 43
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
0.322 0.138 0.405
Gapped
Lambda K H
0.267 0.0664 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 540,957
Number of extensions: 23415
Number of successful extensions: 68
Number of sequences better than 10.0: 1
Number of HSP's gapped: 68
Number of HSP's successfully gapped: 20
Length of query: 145
Length of database: 2,407,596
Length adjustment: 77
Effective length of query: 68
Effective length of database: 1,350,386
Effective search space: 91826248
Effective search space used: 91826248
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 (21.9 bits)
S2: 49 (22.8 bits)