RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy15438
(358 letters)
>d3dssb1 a.102.4.3 (B:7-331) Rab geranylgeranyltransferase, beta
subunit {Rat (Rattus norvegicus) [TaxId: 10116]}
Length = 325
Score = 333 bits (856), Expect = e-114
Identities = 199/353 (56%), Positives = 237/353 (67%), Gaps = 39/353 (11%)
Query: 3 DVDLTDNLPKEFLGTKHAEYIKKYSDNKEDYEYCMSEYLRMSGMYWGITTLSLLDQLDDM 62
DV + + P L KHA+YI Y K+DYEYCMSEYLRMSG+YWG+T + L+ QL M
Sbjct: 1 DVTIKSDAPDTLLLEKHADYIASYGSKKDDYEYCMSEYLRMSGVYWGLTVMDLMGQLHRM 60
Query: 63 PQDTIFDFITQCIHPCGGVSASISHDPHILYTLSAVQIACLINREHELPVDKIVAYVSKL 122
++ I FI C H CGGVSASI HDPH+LYTLSAVQI L + H + VDK+VAYV L
Sbjct: 61 NKEEILVFIKSCQHECGGVSASIGHDPHLLYTLSAVQILTLYDSIHVINVDKVVAYVQSL 120
Query: 123 QQPDGSFFGDMYGEVDTRFSFCAVACLSLLGKLDAINLSKAVEFILSCCNFDGGFGSRPG 182
Q+ DGSF GD++GE+DTRFSFCAVA L+LLGKLDAIN+ KA+EF+LSC NFDGGFG RPG
Sbjct: 121 QKEDGSFAGDIWGEIDTRFSFCAVATLALLGKLDAINVEKAIEFVLSCMNFDGGFGCRPG 180
Query: 183 SESHAGLTYCCVGFLSITGHLHEIDADKLAWWLAERQLPSGGLNGRPEKLPDVCYSWWVL 242
SESHAG YCC GFL+IT LH++++D L WWL ERQLPSGGLNGRPEKLPDVCYSWWVL
Sbjct: 181 SESHAGQIYCCTGFLAITSQLHQVNSDLLGWWLCERQLPSGGLNGRPEKLPDVCYSWWVL 240
Query: 243 ASLHMLGRGTWINSAALRKFILASQVRNTFYFEMGVFSDKIPVCGVHYVDYCTQVRNRIE 302
ASL ++GR WI+ LR FILA Q E G F+D+
Sbjct: 241 ASLKIIGRLHWIDREKLRSFILACQ-----DEETGGFADR-------------------- 275
Query: 303 QGCSVRTCISDRPLDIPDPFHTLFGVAALTMLDPPTPDVLPVDPTYCMPVRTF 355
P D+ DPFHTLFG+A L++L + PV P +CMP
Sbjct: 276 ------------PGDMVDPFHTLFGIAGLSLLG--EEQIKPVSPVFCMPEEVL 314
>d1n4qb_ a.102.4.3 (B:) Protein farnesyltransferase, beta-subunit
{Rat (Rattus norvegicus) [TaxId: 10116]}
Length = 346
Score = 272 bits (697), Expect = 3e-90
Identities = 84/376 (22%), Positives = 147/376 (39%), Gaps = 74/376 (19%)
Query: 13 EFLGTKHAEYIKKYSDNKEDYEYCMSEYLRMSGMYWGITTLSLLDQLDDMPQDTIFDFIT 72
+FL +H + ++ + Y E R++ ++ ++ L +LD LD + +D I ++I
Sbjct: 2 DFLRDRHVRFFQRCLQVLPE-RYSSLETSRLTIAFFALSGLDMLDSLDVVNKDDIIEWIY 60
Query: 73 QCIHPCGGVSASIS--------------------------HDPHILYTLSAVQIACLINR 106
+++ HI T + + ++
Sbjct: 61 SLQVLPTEDRSNLDRCGFRGSSYLGIPFNPSKNPGTAHPYDSGHIAMTYTGLSCLIILGD 120
Query: 107 E-HELPVDKIVAYVSKLQQPDGSFFGDMYG-EVDTRFSFCAVACLSLLGKLDAINLSKAV 164
+ + + +A + LQ DGSF G E D RF +CA +L +++ KA+
Sbjct: 121 DLSRVDKEACLAGLRALQLEDGSFCAVPEGSENDMRFVYCASCICYMLNNWSGMDMKKAI 180
Query: 165 EFILSCCNFDGGFGSRPGSESHAGLTYCCVGFLSITGHLHEI----DADKLAWWLAERQL 220
+I ++D G G ESH G T+C + L + G L E+ + +++ W RQ
Sbjct: 181 SYIRRSMSYDNGLAQGAGLESHGGSTFCGIASLCLMGKLEEVFSEKELNRIKRWCIMRQ- 239
Query: 221 PSGGLNGRPEKLPDVCYSWWVLASLHMLGRGTWINSAALRKFILASQVRNTFYFEMGVFS 280
G +GRP K D CYS+WV A+L +L + N R +IL++Q R +G F+
Sbjct: 240 -QNGYHGRPNKPVDTCYSFWVGATLKLLKIFQYTNFEKNRNYILSTQDR-----LVGGFA 293
Query: 281 DKIPVCGVHYVDYCTQVRNRIEQGCSVRTCISDRPLDIPDPFHTLFGVAALTMLDPPTPD 340
P PD H FG+ L++++
Sbjct: 294 KW--------------------------------PDSHPDALHAYFGICGLSLME--ESG 319
Query: 341 VLPVDPTYCMPVRTFH 356
+ V P + RT
Sbjct: 320 ICKVHPALNVSTRTSE 335
>d2h6fb1 a.102.4.3 (B:521-921) Protein farnesyltransferase,
beta-subunit {Human (Homo sapiens) [TaxId: 9606]}
Length = 401
Score = 266 bits (681), Expect = 4e-87
Identities = 94/377 (24%), Positives = 141/377 (37%), Gaps = 70/377 (18%)
Query: 13 EFLGTKHAEYIKKYSDNKEDYEYCMSEYLRMSGMYWGITTLSLLDQ-LDDMPQDTIFDFI 71
KH Y+K+ D Y + R YW + +L LLD+ + + + F+
Sbjct: 52 VLQREKHFHYLKRGLRQLTDA-YECLDASRPWLCYWILHSLELLDEPIPQIVATDVCQFL 110
Query: 72 TQCIHPCGGVSASISHDPHILYTLSAVQIACLINREHEL---PVDKIVAYVSKLQQPDGS 128
C P GG PH+ T +AV C+I E +K++ Y+ L+QPDGS
Sbjct: 111 ELCQSPEGGFGGGPGQYPHLAPTYAAVNALCIIGTEEAYDIINREKLLQYLYSLKQPDGS 170
Query: 129 FFGDMYGEVDTRFSFCAVACLSLLGKLDAINLSKAVEFILSCCNFDGGFGSRPGSESHAG 188
F + GEVD R ++CA + SL + E+I C N++GG G PG E+H G
Sbjct: 171 FLMHVGGEVDVRSAYCAASVASLTNIITPDLFEGTAEWIARCQNWEGGIGGVPGMEAHGG 230
Query: 189 LTYCCVGFLSITGHLHEIDADKLAWWLAERQLP-SGGLNGRPEKLPDVCYSWWVLASLHM 247
T+C + L I ++ L W+ RQ+ GG GR KL D CYS+W L +
Sbjct: 231 YTFCGLAALVILKRERSLNLKSLLQWVTSRQMRFEGGFQGRCNKLVDGCYSFWQAGLLPL 290
Query: 248 LGR-------------GTWINSAALRKFILASQVRNTFYFEMGVFSDKIPVCGVHYVDYC 294
L R + AL+++IL G DK
Sbjct: 291 LHRALHAQGDPALSMSHWMFHQQALQEYILMCC-----QCPAGGLLDK------------ 333
Query: 295 TQVRNRIEQGCSVRTCISDRPLDIPDPFHTLFGVAALTMLD--------------PPTPD 340
P D +HT + ++ L++ P
Sbjct: 334 --------------------PGKSRDFYHTCYCLSGLSIAQHFGSGAMLHDVVLGVPENA 373
Query: 341 VLPVDPTYCMPVRTFHS 357
+ P P Y +
Sbjct: 374 LQPTHPVYNIGPDKVIQ 390
>d2sqca1 a.102.4.2 (A:8-36,A:308-630) Squalene-hopene cyclase
{Alicyclobacillus acidocaldarius [TaxId: 405212]}
Length = 352
Score = 61.7 bits (149), Expect = 3e-11
Identities = 32/131 (24%), Positives = 52/131 (39%), Gaps = 12/131 (9%)
Query: 105 NREHELPVDKIVAYVSKLQQPDGSFFGDMYGEVDTRFSFCAVACLSLLGK-LDAINLSKA 163
+ + + V Y+ + Q+PDGS+FG +G + V+ L +G + KA
Sbjct: 183 YDDAWKVIRRAVEYLKREQKPDGSWFG-RWGVNYLYGTGAVVSALKAVGIDTREPYIQKA 241
Query: 164 VEFILSCCNFDGGFGSRPGS----------ESHAGLTYCCVGFLSITGHLHEIDADKLAW 213
++++ N DGG+G S S T + L G A +
Sbjct: 242 LDWVEQHQNPDGGWGEDCRSYEDPAYAGKGASTPSQTAWALMALIAGGRAESEAARRGVQ 301
Query: 214 WLAERQLPSGG 224
+L E Q P GG
Sbjct: 302 YLVETQRPDGG 312
Score = 31.3 bits (70), Expect = 0.15
Identities = 24/159 (15%), Positives = 55/159 (34%), Gaps = 19/159 (11%)
Query: 37 MSEYLRMSGMYWGITTLSLLDQLDDMPQDTI-------FDFITQCIHPCGGVSASISHDP 89
S++ ++ T +L+ D +++ + P G
Sbjct: 156 FSDFGEVTDPPSEDVTAHVLECFGSFGYDDAWKVIRRAVEYLKREQKPDGSWFGR-WGVN 214
Query: 90 HILYTLSAVQI-ACLINREHELPVDKIVAYVSKLQQPDGSFFGDMYGEVDTRFSF----- 143
++ T + V + E + K + +V + Q PDG + D D ++
Sbjct: 215 YLYGTGAVVSALKAVGIDTREPYIQKALDWVEQHQNPDGGWGEDCRSYEDPAYAGKGAST 274
Query: 144 -----CAVACLSLLGKLDAINLSKAVEFILSCCNFDGGF 177
A+ L G+ ++ + V++++ DGG+
Sbjct: 275 PSQTAWALMALIAGGRAESEAARRGVQYLVETQRPDGGW 313
Score = 30.9 bits (69), Expect = 0.23
Identities = 23/150 (15%), Positives = 44/150 (29%), Gaps = 22/150 (14%)
Query: 112 VDKIVAYVSKLQQPDGSFFGDMYGEV-DTRFSFCAVACLSLLGKLDAINLSKAVEFIL-- 168
+D+ V Y+ Q+ +G ++G + V DT +A + D L KA E++L
Sbjct: 8 LDRAVEYLLSCQKDEGYWWGPLISPVWDT--GLAVLALRAAGLPADHDRLVKAGEWLLDR 65
Query: 169 --------SCCNFDGGFGSRPGSESHAGLTYCCVGFLSITGHLH------EIDADKLAW- 213
+ + G + C + + D +
Sbjct: 66 QITVPGDWAVKRPNLKPGGFAFQFDNVYYPDVCDTAVVVWALNTLRLPDERRRRDAMTKG 125
Query: 214 --WLAERQLPSGGLNGRPEKLPDVCYSWWV 241
W+ Q +GG +
Sbjct: 126 FRWIVGMQSSNGGWGAYDVDNTSDLPNHIP 155
>d1w6ka1 a.102.4.2 (A:6-99,A:379-732) Lanosterol synthase {Human
(Homo sapiens) [TaxId: 9606]}
Length = 448
Score = 46.6 bits (110), Expect = 3e-06
Identities = 28/134 (20%), Positives = 54/134 (40%), Gaps = 16/134 (11%)
Query: 106 REHELPVDKIVAYVSKLQQPDGSFFGDMYGEVDTRFSFCAVACLSLLGK-----LDAINL 160
E + + + + + Q+ DGS+ G +G T ++ + + +G+ +
Sbjct: 270 AEIRETLTQGLEFCRRQQRADGSWEG-SWGVCFTYGTWFGLEAFACMGQTYRDGTACAEV 328
Query: 161 SKAVEFILSCCNFDGGFGSR----------PGSESHAGLTYCCVGFLSITGHLHEIDADK 210
S+A +F+LS DGG+G ++S T + L H ++
Sbjct: 329 SRACDFLLSRQMADGGWGEDFESCEERRYVQSAQSQIHNTCWAMMGLMAVRHPDIEAQER 388
Query: 211 LAWWLAERQLPSGG 224
L E+QLP+G
Sbjct: 389 GVRCLLEKQLPNGD 402
Score = 39.3 bits (91), Expect = 5e-04
Identities = 34/197 (17%), Positives = 60/197 (30%), Gaps = 41/197 (20%)
Query: 129 FFGDMYGEVDTRFSFCAVACLSLLGKL-----------DAINLSKAVEFILSCCNFDGGF 177
FGD+ +D + C A + L L++ +EF DG +
Sbjct: 236 VFGDI--MIDYTYVECTSAVMQALKYFHKRFPEHRAAEIRETLTQGLEFCRRQQRADGSW 293
Query: 178 GSRPGSESHAGLTYCCVGFLSITGHLHEIDA-----DKLAWWLAERQLPSGGLNGRPEKL 232
G T+ + + G + + +L RQ+ GG E
Sbjct: 294 EGSWG-VCFTYGTWFGLEAFACMGQTYRDGTACAEVSRACDFLLSRQMADGGWGEDFESC 352
Query: 233 PDVCYSW----------WVLASLHMLGRGTWINSAALRK---FILASQVRNTFYFE---M 276
+ Y W + L + + A + +L Q+ N + +
Sbjct: 353 EERRYVQSAQSQIHNTCWAMMGLMAVRHP---DIEAQERGVRCLLEKQLPNGDWPQENIA 409
Query: 277 GVFSDKIPVCGVHYVDY 293
GVF+ C + Y Y
Sbjct: 410 GVFN---KSCAISYTSY 423
Score = 30.4 bits (68), Expect = 0.38
Identities = 16/72 (22%), Positives = 22/72 (30%), Gaps = 8/72 (11%)
Query: 128 SFFGDMYGEVDTRFSFCAVACLSLLGKLDAIN-------LSKAVEFILSCCNFDGGFGSR 180
S + D + A L L K + L AV +L+ N DGGF +
Sbjct: 161 STLDCGWIVSDCT-AEALKAVLLLQEKCPHVTEHIPRERLCDAVAVLLNMRNPDGGFATY 219
Query: 181 PGSESHAGLTYC 192
L
Sbjct: 220 ETKRGGHLLELL 231
Score = 28.1 bits (62), Expect = 1.8
Identities = 12/76 (15%), Positives = 24/76 (31%), Gaps = 10/76 (13%)
Query: 112 VDKIVAYVSKLQQPDGSFFGDMYGEVDTRFSFC--------AVACLSLL--GKLDAINLS 161
V + ++ Q DG + D + R+ A + L+ D
Sbjct: 328 VSRACDFLLSRQMADGGWGEDFESCEERRYVQSAQSQIHNTCWAMMGLMAVRHPDIEAQE 387
Query: 162 KAVEFILSCCNFDGGF 177
+ V +L +G +
Sbjct: 388 RGVRCLLEKQLPNGDW 403
>d2sqca2 a.102.4.2 (A:37-307) Squalene-hopene cyclase
{Alicyclobacillus acidocaldarius [TaxId: 405212]}
Length = 271
Score = 32.7 bits (74), Expect = 0.049
Identities = 13/78 (16%), Positives = 24/78 (30%), Gaps = 1/78 (1%)
Query: 189 LTYCCVGFLSITGHLHEIDADKLAWWLAERQLPSGGLNGRPEKLPDVCYSWWVLASLHML 248
+ V I + +K+ +L Q G P PD+ + +L +
Sbjct: 6 MEAEYVLLCHILDRVDRDRMEKIRRYLLHEQREDGTWALYPGGPPDLDTTIEAYVALKYI 65
Query: 249 GRGTWINSAA-LRKFILA 265
G +FI +
Sbjct: 66 GMSRDEEPMQKALRFIQS 83
Score = 32.7 bits (74), Expect = 0.053
Identities = 20/108 (18%), Positives = 33/108 (30%), Gaps = 12/108 (11%)
Query: 146 VACLSLLGKLDAINLSKAVEFILSCCNFDGGFGSRPGSESHAGLTYCCVGFLSITGHLHE 205
V +L ++D + K ++L DG + PG T +
Sbjct: 11 VLLCHILDRVDRDRMEKIRRYLLHEQREDGTWALYPGGPPDLDTTIEAY----VALKYIG 66
Query: 206 IDADKLAWWLAERQLPSGGLNGRPEKLPDVCYSWWVLASLHMLGRGTW 253
+ D+ A R + S G E W L ++G W
Sbjct: 67 MSRDEEPMQKALRFIQS---QGGIESSRVFTRMW-----LALVGEYPW 106
Score = 26.5 bits (58), Expect = 5.2
Identities = 19/80 (23%), Positives = 33/80 (41%), Gaps = 5/80 (6%)
Query: 94 TLSAVQIACL--INREHELPVDKIVAYVSKLQQPDGSFFGDMYGEVDTRFSFC-AVACLS 150
T+ A + ++R ++KI Y+ Q+ DG+ + G + A L
Sbjct: 5 TMEAEYVLLCHILDRVDRDRMEKIRRYLLHEQREDGT-WALYPGGPPDLDTTIEAYVALK 63
Query: 151 LLG-KLDAINLSKAVEFILS 169
+G D + KA+ FI S
Sbjct: 64 YIGMSRDEEPMQKALRFIQS 83
>d1w6ka2 a.102.4.2 (A:100-378) Lanosterol synthase {Human (Homo
sapiens) [TaxId: 9606]}
Length = 279
Score = 29.1 bits (65), Expect = 0.74
Identities = 19/111 (17%), Positives = 31/111 (27%), Gaps = 13/111 (11%)
Query: 189 LTYCCVGFLSITGH-LHEIDADKLAWWLAERQLPSGGLNGRPEKLPDVCYSWWVLASLHM 247
L + + L +++ +L QLP GG E V + SL +
Sbjct: 5 LLPGLLITCHVARIPLPAGYREEIVRYLRSVQLPDGGWGLHIEDKSTVFGTALNYVSLRI 64
Query: 248 LGRGTWINSAAL-RKFILASQVRNTFYFEMGVFSDKIPVCGVHYVDYCTQV 297
LG G R + + IP G ++
Sbjct: 65 LGVGPDDPDLVRARNILHKKGG-----------AVAIPSWGKFWLAVLNVY 104
Score = 28.7 bits (64), Expect = 0.91
Identities = 16/72 (22%), Positives = 28/72 (38%), Gaps = 6/72 (8%)
Query: 104 INREHELPVDKIVAYVSKLQQPDGSFFGDMYGEVDTRFSFC-AVACLSLLG-KLDAINLS 161
+ + ++IV Y+ +Q PDG +G + T F L +LG D +L
Sbjct: 20 LPAGYR---EEIVRYLRSVQLPDGG-WGLHIEDKSTVFGTALNYVSLRILGVGPDDPDLV 75
Query: 162 KAVEFILSCCNF 173
+A +
Sbjct: 76 RARNILHKKGGA 87
>g1k2x.1 d.153.1.5 (A:,B:) Glycosylasparaginase
(aspartylglucosaminidase, AGA) {Escherichia coli [TaxId:
562]}
Length = 291
Score = 28.5 bits (63), Expect = 1.2
Identities = 10/40 (25%), Positives = 18/40 (45%), Gaps = 2/40 (5%)
Query: 155 LDAINLSKAVEFILSCCNFDGGFGSRPGSESHAGLTYCCV 194
LD + ++AV + C F+ G G+ + L C +
Sbjct: 49 LDVV--TEAVRLLEECPLFNAGIGAVFTRDETHELDACVM 86
>d1lf6a1 a.102.1.5 (A:288-684) Bacterial glucoamylase, C-terminal
domain {Thermoanaerobacterium thermosaccharolyticum
[TaxId: 1517]}
Length = 397
Score = 27.1 bits (59), Expect = 3.7
Identities = 19/154 (12%), Positives = 43/154 (27%), Gaps = 18/154 (11%)
Query: 92 LYTLSAVQIACLINREHELPVDKIVA--YVSKLQQPDGSFFGDMYGEVDTRFSFCAVACL 149
LY S + + ++ ++ +A + G Y V +R +
Sbjct: 10 LYYNSMMILKASEDKTNK---GAYIASLSIPWGDGQRDDNTGG-YHLVWSRDLYHVANAF 65
Query: 150 SLLGKLDAINLSKAVEFILSCCNFDGGFGSRP---GSESHAGLTYCCVGFLSITGHLHEI 206
G +D+ N ++++++ +G G G+ I +
Sbjct: 66 IAAGDVDSAN--RSLDYLAKVVKDNGMIPQNTWISGKPYWTGIQLDEQADPIILSYRL-- 121
Query: 207 DADKLAWWLAERQLPSGGLNGRPEKLPDVCYSWW 240
L L + + + P W
Sbjct: 122 KRYDLYDSLVKP-----LADFIIKIGPKTGQERW 150
>d1w30a_ c.61.1.1 (A:) Pyrimidine operon regulator PyrR
{Mycobacterium tuberculosis [TaxId: 1773]}
Length = 182
Score = 25.4 bits (55), Expect = 8.4
Identities = 16/79 (20%), Positives = 27/79 (34%), Gaps = 6/79 (7%)
Query: 35 YCMSEYLRMSGMYWGITTLSLLDQLDDMPQDTIFDFITQCIHPCGGVSASISHDPHILYT 94
+ L + +T +DD + D + + A
Sbjct: 75 TLYRDDLMIKPPRPLASTSIPAGGIDDALVILVDDVLYSGRSVRSALDALRDVGR----- 129
Query: 95 LSAVQIACLINREH-ELPV 112
AVQ+A L++R H ELP+
Sbjct: 130 PRAVQLAVLVDRGHRELPL 148
>d1nffa_ c.2.1.2 (A:) Putative oxidoreductase Rv2002 {Mycobacterium
tuberculosis [TaxId: 1773]}
Length = 244
Score = 25.8 bits (56), Expect = 9.1
Identities = 5/21 (23%), Positives = 9/21 (42%), Gaps = 1/21 (4%)
Query: 69 DFIT-QCIHPCGGVSASISHD 88
+ T GG A ++H+
Sbjct: 224 SYSTGAEFVVDGGTVAGLAHN 244
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
0.324 0.140 0.456
Gapped
Lambda K H
0.267 0.0525 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,458,151
Number of extensions: 70459
Number of successful extensions: 303
Number of sequences better than 10.0: 1
Number of HSP's gapped: 251
Number of HSP's successfully gapped: 27
Length of query: 358
Length of database: 2,407,596
Length adjustment: 86
Effective length of query: 272
Effective length of database: 1,226,816
Effective search space: 333693952
Effective search space used: 333693952
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 53 (24.7 bits)