RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= 020845
(320 letters)
>d1rqja_ a.128.1.1 (A:) Farnesyl diphosphate synthase
(geranyltranstransferase) {Escherichia coli [TaxId:
562]}
Length = 299
Score = 67.7 bits (164), Expect = 1e-13
Identities = 44/231 (19%), Positives = 81/231 (35%), Gaps = 12/231 (5%)
Query: 43 KSYWTSVHEDIGAHLRQAV--VVKEPVEVYEPMRHFVFAAPVNMAPALCVAACELVGGHR 100
+ + L + + + + V E M++ + P L A + G
Sbjct: 4 PQQLEACVKQANQALSRFIAPLPFQNTPVVETMQYGALLGGKRLRPFLVYATGHMFGVST 63
Query: 101 EQAIVAAAALHVMHAASFIHENLPLSDRTSLIPKSKPTMYHAFKPNTELLVADAMLPFGL 160
AAA+ +HA S IH++LP D L + PT + F +L DA+
Sbjct: 64 NTLDAPAAAVECIHAYSLIHDDLPAMDDDDL-RRGLPTCHVKFGEANAILAGDALQTLAF 122
Query: 161 ELLASSDNPAGNNSGRILRVMVEMTRAMGSQGVVEGQYNELQCSQCDDDDRKLNGITDVE 220
+L+ +D P ++ + ++ E+ A G G+ GQ +L L I
Sbjct: 123 SILSDADMPEVSDR-DRISMISELASASGIAGMCGGQALDLDAEGKHVPLDALERI---- 177
Query: 221 MTYETYKKKEGRLHACGAACGAILGGGSEKEIELLRRYGFYVGMIQGIVSR 271
K + A G + + +L +Y +G+ +
Sbjct: 178 ----HRHKTGALIRAAVRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDD 224
>d1rtra_ a.128.1.1 (A:) Farnesyl diphosphate synthase
(geranyltranstransferase) {Staphylococcus aureus [TaxId:
1280]}
Length = 290
Score = 63.9 bits (154), Expect = 3e-12
Identities = 53/240 (22%), Positives = 99/240 (41%), Gaps = 16/240 (6%)
Query: 49 VHEDIGAHLRQAVVVKEPVEVYEPMRHFVFAAPVNMAPALCVAACELVGGHREQAIVAAA 108
V+ ++ + ++V+ ++ E M + + A + P L + + + E + +A
Sbjct: 12 VNNELSVAINKSVM---DTQLEESMLYSLNAGGKRIRPVLLLLTLDSLNTEYELGMKSAI 68
Query: 109 ALHVMHAASFIHENLPLSDRTSLIPKSKPTMYHAFKPNTELLVADAMLPFGLELLASSDN 168
AL ++H S IH++LP D + K T + + T +L DA+L EL++S D
Sbjct: 69 ALEMIHTYSLIHDDLPAMDNDD-YRRGKLTNHKVYGEWTAILAGDALLTKAFELISSDDR 127
Query: 169 PAGNNSGRILRVMVEMTRAMGSQGVVEGQYNELQCSQCDDDDRKLNGITDVEMTYETYKK 228
++V+ ++ A G G+V GQ ++Q D+E +K
Sbjct: 128 LTDE---VKIKVLQRLSIASGHVGMVGGQMLDMQSE---------GQPIDLETLEMIHKT 175
Query: 229 KEGRLHACGAACGAILGGGSEKEIELLRRYGFYVGMIQGIVSRRLGPTEEIEELKKLAFK 288
K G L A + + E L Y +++GM+ I L + +L K
Sbjct: 176 KTGALLTFAVMSAADIANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVGS 235
>d2q80a1 a.128.1.1 (A:6-296) Geranylgeranyl pyrophosphate synthetase
{Human (Homo sapiens) [TaxId: 9606]}
Length = 291
Score = 54.3 bits (129), Expect = 4e-09
Identities = 7/56 (12%), Positives = 22/56 (39%)
Query: 69 VYEPMRHFVFAAPVNMAPALCVAACELVGGHREQAIVAAAALHVMHAASFIHENLP 124
+ EP ++ + + L A + ++ + ++H AS + +++
Sbjct: 7 LLEPYKYLLQLPGKQVRTKLSQAFNHWLKVPEDKLQIIIEVTEMLHNASLLIDDIE 62
>d1v4ea_ a.128.1.1 (A:) Octoprenyl-diphosphate synthase {Thermotoga
maritima [TaxId: 2336]}
Length = 280
Score = 43.5 bits (101), Expect = 1e-05
Identities = 31/224 (13%), Positives = 60/224 (26%), Gaps = 27/224 (12%)
Query: 69 VYEPMRHFVFAAPVNMAPALCVAACELVGGH-REQAIVAAAALHVMHAASFIHENLPLSD 127
E + + + L + + + G E AI + AAL ++H AS +H+++
Sbjct: 20 FPEQIMKDLPLYGKMLRVRLSILSFKNRGVEIGEDAISSLAALELVHLASLLHDDVI--- 76
Query: 128 RTSLIPKSKPTMYHAFKPNTELLVADAMLPFGLELLASSDNPAGNNSGRILRVMVEMTRA 187
F+ E + + A + I +
Sbjct: 77 -----------DGARFRRGKETINFMYGDKAAVAAGDLVLVSAFHTVEEIGNNKLRRAFL 125
Query: 188 MGSQGVVEGQYNELQCSQCDDDDRKLNGITDVEMTYETYKKKEGRLHACGAACGAILGGG 247
+ E + E + + K G L A+L
Sbjct: 126 NVIGKMSEAELIEQLSRYKPITKEEY---------LRIVEGKSGALFGLALQLPALL--- 173
Query: 248 SEKEIELLRRYGFYVGMIQGIVSRRLGPTEEIEELKKLAFKLRE 291
+ E L G +G I + + + K L+
Sbjct: 174 EGELGEDLYNLGVTIGTIYQMFDDIMDFAGMEKIGKDGFLDLKN 217
>d1fpsa_ a.128.1.1 (A:) Farnesyl diphosphate synthase
(geranyltranstransferase) {Chicken (Gallus gallus)
[TaxId: 9031]}
Length = 348
Score = 42.3 bits (98), Expect = 4e-05
Identities = 14/164 (8%), Positives = 45/164 (27%), Gaps = 12/164 (7%)
Query: 86 PALCVAACELVGGHREQ-------AIVAAAALHVMHAASFIHENLPLSDRTSLIPKSKPT 138
VAA + G ++ A+ + + A + +++ D++ + +
Sbjct: 56 GLTVVAAYRELSGPGQKDAESLRCALAVGWCIELFQAFFLVADDIM--DQSL-TRRGQLC 112
Query: 139 MYHAFKPNTELLVADAMLPFGLELLASSDNPAGNNSGRILRVMVEMTRAMGSQGVVE--G 196
Y + + +L + + +L + ++ +++
Sbjct: 113 WYKKEGVGLDAINDSFLLESSVYRVLKKYCRQRPYYVHLLELFLQTAYQTELGQMLDLIT 172
Query: 197 QYNELQCSQCDDDDRKLNGITDVEMTYETYKKKEGRLHACGAAC 240
++R + Y Y ++ G
Sbjct: 173 APVSKVDLSHFSEERYKAIVKYKTAFYSFYLPVAAAMYMVGIDS 216
>d1vmga_ a.204.1.2 (A:) Hypothetical protein SSo12199 (SSo3215)
{Sulfolobus solfataricus [TaxId: 2287]}
Length = 83
Score = 30.2 bits (68), Expect = 0.074
Identities = 18/71 (25%), Positives = 34/71 (47%), Gaps = 4/71 (5%)
Query: 250 KEI-ELLRRYGFYVGMIQGIVSRRLGPTEEIEELKKLAFKLREVNSFNDENAEVIFSLVD 308
KE+ ++ F +GI + EE+ EL + A ++S +E A+VI V
Sbjct: 6 KELQSKMKEMYFEKDSQRGIYATFTWLVEEVGELAE-ALLSNNLDSIQEELADVIAWTV- 63
Query: 309 DNITHVLGFNL 319
+I ++ G ++
Sbjct: 64 -SIANLEGIDI 73
>d1wera_ a.116.1.2 (A:) p120GAP domain {Human (Homo sapiens) [TaxId:
9606]}
Length = 324
Score = 28.4 bits (63), Expect = 1.1
Identities = 10/58 (17%), Positives = 19/58 (32%), Gaps = 6/58 (10%)
Query: 66 PVEVYEPMRHFVFAAPVNMAPALCVAACELVGGHREQAIVAAAALHVMHAASFIHENL 123
P E Y + + +++ AL + G R +A+ L + L
Sbjct: 2 PEEEYSEFKELILQKELHVVYAL----SHVCGQDRTL--LASILLRIFLHEKLESLLL 53
>d1t56a1 a.4.1.9 (A:22-94) Ethr repressor {Mycobacterium
tuberculosis [TaxId: 1773]}
Length = 73
Score = 26.3 bits (58), Expect = 1.2
Identities = 17/76 (22%), Positives = 31/76 (40%), Gaps = 6/76 (7%)
Query: 97 GGHREQAIVAAAALHVMHAASFIHENLPLSDRTSLIPKSKPTMYHAFKPNTELLVA---D 153
G RE AI+A A +++ ++ + D S+PT Y F +L+
Sbjct: 1 GDDRELAILATA-ENLLEDRPL--ADISVDDLAKGAGISRPTFYFYFPSKEAVLLTLLDR 57
Query: 154 AMLPFGLELLASSDNP 169
+ + L ++NP
Sbjct: 58 VVNQADMALQTLAENP 73
>d1vhka2 c.116.1.5 (A:74-253) Hypothetical protein YqeU {Bacillus
subtilis [TaxId: 1423]}
Length = 180
Score = 27.4 bits (60), Expect = 1.9
Identities = 17/94 (18%), Positives = 30/94 (31%), Gaps = 13/94 (13%)
Query: 183 EMTRAMGSQGVVEGQYNELQCSQCDDDDRKLNGITDVEMTYETYKKKEGRLHACGAACGA 242
+ Q +++ + +C ++ K I+ + K L G
Sbjct: 77 RVMDVHSFQQLLQRMQDFDKCVVAYEESSKQGEISAFSAIVSSLPKGSSLLIVFGPE--- 133
Query: 243 ILGGGSEKEIELLRRYGFYVGMIQGIVSRRLGPT 276
GG +E E+E L V+ LGP
Sbjct: 134 --GGLTEAEVERLTEQDG--------VTCGLGPR 157
>d2fq4a1 a.4.1.9 (A:9-77) Transcriptional regulator BC3163 {Bacillus
cereus [TaxId: 1396]}
Length = 69
Score = 25.4 bits (56), Expect = 2.1
Identities = 15/68 (22%), Positives = 29/68 (42%), Gaps = 4/68 (5%)
Query: 100 REQAIVAAAALHVMHAASFIHENLPLSDRTSLIPKSKPTMYHAFKPNTELLVADAMLPFG 159
++AI++A+ ++ + F + + + SK T+Y + PN +V D L
Sbjct: 5 TQKAILSAS-YELLLESGF--KAVTVDKIAERAKVSKATIYKWW-PNKAAVVMDGFLSAA 60
Query: 160 LELLASSD 167
L D
Sbjct: 61 AARLPVPD 68
>d2obba1 c.108.1.25 (A:1-122) Hypothetical protein BT0820
{Bacteroides thetaiotaomicron [TaxId: 818]}
Length = 122
Score = 26.8 bits (59), Expect = 2.1
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 209 DDRKLNGITDVEMTYETYKKK 229
DDR + GI D + YE K+K
Sbjct: 93 DDRNVGGIPDWGIIYEMIKEK 113
>d1vi0a1 a.4.1.9 (A:6-77) Hypothetical transcriptional regulator
YsiA {Bacillus subtilis [TaxId: 1423]}
Length = 72
Score = 25.1 bits (55), Expect = 3.0
Identities = 10/53 (18%), Positives = 22/53 (41%), Gaps = 3/53 (5%)
Query: 100 REQAIVAAAALHVMHAASFIHENLPLSDRTSLIPKSKPTMYHAFKPNTELLVA 152
+ I+ AA + V+ + +S + T+Y FK ++L++
Sbjct: 2 KYMQIIDAA-VEVIAENGY--HQSQVSKIAKQAGVADGTIYLYFKNKEDILIS 51
>d2i10a1 a.4.1.9 (A:10-78) Putative transcriptional regulator
RHA1_ro09068 {Rhodococcus sp. [TaxId: 1831]}
Length = 69
Score = 25.0 bits (55), Expect = 3.4
Identities = 11/53 (20%), Positives = 21/53 (39%), Gaps = 4/53 (7%)
Query: 100 REQAIVAAAALHVMHAASFIHENLPLSDRTSLIPKSKPTMYHAFKPNTELLVA 152
+ A+ A L +E ++D T + + P++Y AF +L
Sbjct: 2 DQVALQTAMELFWRQG----YEGTSITDLTKALGINPPSLYAAFGSKRDLFEK 50
>d2nrac2 a.4.5.10 (C:152-268) Replication initiation protein PI
{Escherichia coli [TaxId: 562]}
Length = 117
Score = 26.1 bits (57), Expect = 3.6
Identities = 6/22 (27%), Positives = 11/22 (50%)
Query: 211 RKLNGITDVEMTYETYKKKEGR 232
++ T++ T +KEGR
Sbjct: 82 AEIKKKTEISFVGFTVHEKEGR 103
>d2o7ta1 a.4.1.9 (A:1-78) Transcriptional regulator Cgl1640/Cg1846
{Corynebacterium glutamicum [TaxId: 1718]}
Length = 78
Score = 25.2 bits (55), Expect = 4.0
Identities = 8/53 (15%), Positives = 18/53 (33%), Gaps = 3/53 (5%)
Query: 100 REQAIVAAAALHVMHAASFIHENLPLSDRTSLIPKSKPTMYHAFKPNTELLVA 152
R + I+ ++ ++L + + T+Y F L +A
Sbjct: 8 RREHIITTT-CNLYRTHHH--DSLTMENIAEQAGVGVATLYRNFPDRFTLDMA 57
>d2jnea1 g.41.18.1 (A:1-71) Hypothetical protein YfgJ {Escherichia
coli [TaxId: 562]}
Length = 71
Score = 24.8 bits (54), Expect = 4.4
Identities = 10/49 (20%), Positives = 15/49 (30%), Gaps = 7/49 (14%)
Query: 191 QGVVEGQYNELQCSQCDDDDRKLNGITDVEMTYETYKKKEGRLHACGAA 239
Q V++ +C C + D + L ACGA
Sbjct: 9 QHVLDQDNGHARCRSCGEFIEMKALCPDCHQPLQ-------VLKACGAV 50
>d2hkua1 a.4.1.9 (A:18-87) Putative transcriptional regulator
RHA1_ro03468 {Rhodococcus sp. RHA1 [TaxId: 101510]}
Length = 70
Score = 24.6 bits (53), Expect = 4.5
Identities = 9/53 (16%), Positives = 18/53 (33%), Gaps = 5/53 (9%)
Query: 100 REQAIVAAAALHVMHAASFIHENLPLSDRTSLIPKSKPTMYHAFKPNTELLVA 152
R+ AA L + H E +P++ + + + + L V
Sbjct: 3 RDALFTAATELFLEH-----GEGVPITQICAAAGAHPNQVTYYYGSKERLFVE 50
>d2jdqd1 d.361.1.1 (D:688-756) Polymerase basic protein 2, BP2
{Influenza A virus [TaxId: 11320]}
Length = 69
Score = 24.6 bits (53), Expect = 4.6
Identities = 11/23 (47%), Positives = 12/23 (52%)
Query: 264 MIQGIVSRRLGPTEEIEELKKLA 286
+I G RR GP I EL LA
Sbjct: 8 LILGKEDRRYGPALSINELSNLA 30
>d2gfna1 a.4.1.9 (A:4-80) Probable transcriptional regulator
RHA1_ro04631 {Rhodococcus sp. rha1 [TaxId: 101510]}
Length = 77
Score = 24.7 bits (54), Expect = 5.7
Identities = 11/53 (20%), Positives = 18/53 (33%), Gaps = 3/53 (5%)
Query: 100 REQAIVAAAALHVMHAASFIHENLPLSDRTSLIPKSKPTMYHAFKPNTELLVA 152
R +A+ A L ++ + S + H F ELL+A
Sbjct: 7 RRRALADAV-LALIAREGI--SAVTTRAVAEESGWSTGVLNHYFGSRHELLLA 56
>d2gena1 a.4.1.9 (A:6-75) Probable transcriptional regulator PA1836
{Pseudomonas aeruginosa [TaxId: 287]}
Length = 70
Score = 23.9 bits (52), Expect = 7.4
Identities = 9/53 (16%), Positives = 16/53 (30%), Gaps = 3/53 (5%)
Query: 100 REQAIVAAAALHVMHAASFIHENLPLSDRTSLIPKSKPTMYHAFKPNTELLVA 152
R+ I+ AA L + + S ++YH F +
Sbjct: 1 RKDEILQAA-LACFSEHGV--DATTIEMIRDRSGASIGSLYHHFGNKERIHGE 50
>d2fu0a1 b.62.1.1 (A:5-159) Putative cyclophilin PFE0505w
{Plasmodium falciparum [TaxId: 5833]}
Length = 155
Score = 25.3 bits (54), Expect = 7.8
Identities = 11/50 (22%), Positives = 19/50 (38%), Gaps = 3/50 (6%)
Query: 27 YRPMMVTMAMSTPNKNKSYWTSVHEDIGAHLRQAVV---VKEPVEVYEPM 73
+P MV+MA PN N S + + V V + ++ +
Sbjct: 83 SKPFMVSMANCGPNTNGSQFFITTVPCPWLDFKHTVFGKVTQGSKIVLDI 132
>d1a33a_ b.62.1.1 (A:) Cyclophilin (eukaryotic) {Nematode (Brugia
malayi) [TaxId: 6279]}
Length = 174
Score = 25.1 bits (54), Expect = 9.7
Identities = 13/58 (22%), Positives = 18/58 (31%), Gaps = 3/58 (5%)
Query: 19 NHSRPSLSYRPMMVTMAMSTPNKNKSYWTSVHEDIGAHLRQAVV---VKEPVEVYEPM 73
+ P +V+MA PN N S + VV V EV +
Sbjct: 93 DEEFVMKHDEPFVVSMANKGPNTNGSQFFITTTPAPHLNNIHVVFGKVVSGQEVVTKI 150
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
0.319 0.134 0.390
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: 1,178,454
Number of extensions: 55714
Number of successful extensions: 210
Number of sequences better than 10.0: 1
Number of HSP's gapped: 209
Number of HSP's successfully gapped: 34
Length of query: 320
Length of database: 2,407,596
Length adjustment: 85
Effective length of query: 235
Effective length of database: 1,240,546
Effective search space: 291528310
Effective search space used: 291528310
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 (25.0 bits)