BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 006042
(663 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1W6J|A Chain A, Structure Of Human Osc In Complex With Ro 48-8071
Length = 732
Score = 498 bits (1282), Expect = e-141, Method: Compositional matrix adjust.
Identities = 263/662 (39%), Positives = 393/662 (59%), Gaps = 28/662 (4%)
Query: 7 YFSAIQASDGHWPAENAGPMYFLPPFVFCLYITGHLNTV-FTVEHRREILRYLYNHQHED 65
++ +QA DGHW G + L IT H+ + +R EI+RYL + Q D
Sbjct: 83 FYVGLQAEDGHW----TGDYGGPLFLLPGLLITCHVARIPLPAGYREEIVRYLRSVQLPD 138
Query: 66 GGWGVHVEAPSSMFGTVFSYLCMRLLGLGPNDGENNACARARKWIRDHGGVTYIPSWGKN 125
GGWG+H+E S++FGT +Y+ +R+LG+GP+D + RAR + GG IPSWGK
Sbjct: 139 GGWGLHIEDKSTVFGTALNYVSLRILGVGPDDPD---LVRARNILHKKGGAVAIPSWGKF 195
Query: 126 WLSILGIFEWSGTNPMPPEFWILPSFVPLHPSKMWCYCRLVYMPVSYLYGKRFVGPITPL 185
WL++L ++ W G N + PE W+ P + P HPS +WC+CR VY+P+SY Y R PL
Sbjct: 196 WLAVLNVYSWEGLNTLFPEMWLFPDWAPAHPSTLWCHCRQVYLPMSYCYAVRLSAAEDPL 255
Query: 186 IQQLREELHTQPYNEINWRKVRHLCSKEDLYYPHPFVQELLWDTLYLASEPLLTRWPLNK 245
+Q LR+EL+ + + I+W R+ + ++LY PH ++ +++ L L +
Sbjct: 256 VQSLRQELYVEDFASIDWLAQRNNVAPDELYTPHSWLLRVVYALLNLYEH------HHSA 309
Query: 246 LIRQKALKETMKFIHYEDHNSRYITIGCVEKPLCMLACW-VEDPNGIAFKKHLNRIADYI 304
+RQ+A+++ + I +D ++ I+IG + K + ML W V+ P AF++H++RI DY+
Sbjct: 310 HLRQRAVQKLYEHIVADDRFTKSISIGPISKTINMLVRWYVDGPASTAFQEHVSRIPDYL 369
Query: 305 WLGEDGMKVQ-TFGSQTWDTALGLQALMAC--NIADEVESVLGKGHDYLKKAQIRDNPVG 361
W+G DGMK+Q T GSQ WDTA +QAL+ + E S L K H++L+ +Q+ DNP
Sbjct: 370 WMGLDGMKMQGTNGSQIWDTAFAIQALLEAGGHHRPEFSSCLQKAHEFLRLSQVPDNPP- 428
Query: 362 DYKGNFRHFSKGAWTFSDQDHGWQVSDCTAEGLKCVLQLSLMPPEIVGEKMEPERLYDAV 421
DY+ +R KG ++FS D GW VSDCTAE LK VL L P + E + ERL DAV
Sbjct: 429 DYQKYYRQMRKGGFSFSTLDCGWIVSDCTAEALKAVLLLQEKCPHVT-EHIPRERLCDAV 487
Query: 422 NFLLSLQDEKTGGLAVWERAGASLLLEWLNPVEFLEDLIVEHTYVECTASAIEAFMLFKK 481
LL++++ GG A +E LLE LNP E D+++++TYVECT++ ++A F K
Sbjct: 488 AVLLNMRNPD-GGFATYETKRGGHLLELLNPSEVFGDIMIDYTYVECTSAVMQALKYFHK 546
Query: 482 LYPHHRKKEIENFIVKAVHYIEDEQTADGSWYGNWGICFIYGTCFALGGLQVAGKTYNN- 540
+P HR EI + + + + +Q ADGSW G+WG+CF YGT F L G+TY +
Sbjct: 547 RFPEHRAAEIRETLTQGLEFCRRQQRADGSWEGSWGVCFTYGTWFGLEAFACMGQTYRDG 606
Query: 541 --CLAIRRAVDFLLNAQSDDGGWGESYKSCPNKIYTPLEGKRSTVVHTALAVLSLISAGQ 598
C + RA DFLL+ Q DGGWGE ++SC + Y L+ +S + +T A++ L++
Sbjct: 607 TACAEVSRACDFLLSRQMADGGWGEDFESCEERRY--LQSAQSQIHNTCWAMMGLMAVRH 664
Query: 599 ADRDPTPIHRGVKLLINSQLENGDFPQQEIMGVFMRNCMLHYAEYRNIFPLRALAEYRKR 658
D + RGV+ L+ QL NGD+PQ+ I GVF ++C + Y YRNIFP+ AL + +
Sbjct: 665 PDIEAQ--ERGVRCLLEKQLPNGDWPQENIAGVFNKSCAISYTSYRNIFPIWALGRFSQL 722
Query: 659 VP 660
P
Sbjct: 723 YP 724
>pdb|1W6K|A Chain A, Structure Of Human Osc In Complex With Lanosterol
Length = 732
Score = 497 bits (1280), Expect = e-141, Method: Compositional matrix adjust.
Identities = 262/662 (39%), Positives = 393/662 (59%), Gaps = 28/662 (4%)
Query: 7 YFSAIQASDGHWPAENAGPMYFLPPFVFCLYITGHLNTV-FTVEHRREILRYLYNHQHED 65
++ +QA DGHW G + L IT H+ + +R EI+RYL + Q D
Sbjct: 83 FYVGLQAEDGHW----TGDYGGPLFLLPGLLITCHVARIPLPAGYREEIVRYLRSVQLPD 138
Query: 66 GGWGVHVEAPSSMFGTVFSYLCMRLLGLGPNDGENNACARARKWIRDHGGVTYIPSWGKN 125
GGWG+H+E S++FGT +Y+ +R+LG+GP+D + RAR + GG IPSWGK
Sbjct: 139 GGWGLHIEDKSTVFGTALNYVSLRILGVGPDDPD---LVRARNILHKKGGAVAIPSWGKF 195
Query: 126 WLSILGIFEWSGTNPMPPEFWILPSFVPLHPSKMWCYCRLVYMPVSYLYGKRFVGPITPL 185
WL++L ++ W G N + PE W+ P + P HPS +WC+CR VY+P+SY Y R PL
Sbjct: 196 WLAVLNVYSWEGLNTLFPEMWLFPDWAPAHPSTLWCHCRQVYLPMSYCYAVRLSAAEDPL 255
Query: 186 IQQLREELHTQPYNEINWRKVRHLCSKEDLYYPHPFVQELLWDTLYLASEPLLTRWPLNK 245
+Q LR+EL+ + + I+W R+ + ++LY PH ++ +++ L L +
Sbjct: 256 VQSLRQELYVEDFASIDWLAQRNNVAPDELYTPHSWLLRVVYALLNLYEH------HHSA 309
Query: 246 LIRQKALKETMKFIHYEDHNSRYITIGCVEKPLCMLACW-VEDPNGIAFKKHLNRIADYI 304
+RQ+A+++ + I +D ++ I+IG + K + ML W V+ P AF++H++RI DY+
Sbjct: 310 HLRQRAVQKLYEHIVADDRFTKSISIGPISKTINMLVRWYVDGPASTAFQEHVSRIPDYL 369
Query: 305 WLGEDGMKVQ-TFGSQTWDTALGLQALMAC--NIADEVESVLGKGHDYLKKAQIRDNPVG 361
W+G DGMK+Q T GSQ WDTA +QAL+ + E S L K H++L+ +Q+ DNP
Sbjct: 370 WMGLDGMKMQGTNGSQIWDTAFAIQALLEAGGHHRPEFSSCLQKAHEFLRLSQVPDNPP- 428
Query: 362 DYKGNFRHFSKGAWTFSDQDHGWQVSDCTAEGLKCVLQLSLMPPEIVGEKMEPERLYDAV 421
DY+ +R KG ++FS D GW VSDCTAE LK VL L P + E + ERL DAV
Sbjct: 429 DYQKYYRQMRKGGFSFSTLDCGWIVSDCTAEALKAVLLLQEKCPHVT-EHIPRERLCDAV 487
Query: 422 NFLLSLQDEKTGGLAVWERAGASLLLEWLNPVEFLEDLIVEHTYVECTASAIEAFMLFKK 481
LL++++ GG A +E LLE LNP E D+++++TYVECT++ ++A F K
Sbjct: 488 AVLLNMRNPD-GGFATYETKRGGHLLELLNPSEVFGDIMIDYTYVECTSAVMQALKYFHK 546
Query: 482 LYPHHRKKEIENFIVKAVHYIEDEQTADGSWYGNWGICFIYGTCFALGGLQVAGKTYNN- 540
+P HR EI + + + + +Q ADGSW G+WG+CF YGT F L G+TY +
Sbjct: 547 RFPEHRAAEIRETLTQGLEFCRRQQRADGSWEGSWGVCFTYGTWFGLEAFACMGQTYRDG 606
Query: 541 --CLAIRRAVDFLLNAQSDDGGWGESYKSCPNKIYTPLEGKRSTVVHTALAVLSLISAGQ 598
C + RA DFLL+ Q DGGWGE ++SC + Y ++ +S + +T A++ L++
Sbjct: 607 TACAEVSRACDFLLSRQMADGGWGEDFESCEERRY--VQSAQSQIHNTCWAMMGLMAVRH 664
Query: 599 ADRDPTPIHRGVKLLINSQLENGDFPQQEIMGVFMRNCMLHYAEYRNIFPLRALAEYRKR 658
D + RGV+ L+ QL NGD+PQ+ I GVF ++C + Y YRNIFP+ AL + +
Sbjct: 665 PDIEAQ--ERGVRCLLEKQLPNGDWPQENIAGVFNKSCAISYTSYRNIFPIWALGRFSQL 722
Query: 659 VP 660
P
Sbjct: 723 YP 724
>pdb|1GSZ|A Chain A, Crystal Structure Of A Squalene Cyclase In Complex With
The Potential Anticholesteremic Drug Ro48-8071
pdb|1GSZ|B Chain B, Crystal Structure Of A Squalene Cyclase In Complex With
The Potential Anticholesteremic Drug Ro48-8071
pdb|1GSZ|C Chain C, Crystal Structure Of A Squalene Cyclase In Complex With
The Potential Anticholesteremic Drug Ro48-8071
pdb|1H35|A Chain A, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H35|B Chain B, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H35|C Chain C, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H36|A Chain A, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H36|B Chain B, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H36|C Chain C, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H37|A Chain A, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H37|B Chain B, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H37|C Chain C, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H39|A Chain A, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H39|B Chain B, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H39|C Chain C, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H3A|A Chain A, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H3A|B Chain B, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H3A|C Chain C, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H3B|A Chain A, Squalene-Hopene Cyclase
pdb|1H3B|B Chain B, Squalene-Hopene Cyclase
pdb|1H3B|C Chain C, Squalene-Hopene Cyclase
pdb|1H3C|A Chain A, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H3C|B Chain B, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H3C|C Chain C, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1O6H|A Chain A, Squalene-Hopene Cyclase
pdb|1O6H|B Chain B, Squalene-Hopene Cyclase
pdb|1O6H|C Chain C, Squalene-Hopene Cyclase
pdb|1O6Q|A Chain A, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1O6Q|B Chain B, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1O6Q|C Chain C, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1O6R|A Chain A, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1O6R|B Chain B, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1O6R|C Chain C, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1O79|A Chain A, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1O79|B Chain B, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1O79|C Chain C, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1UMP|A Chain A, Geometry Of Triterpene Conversion To Pentacarbocyclic
Hopene
pdb|1UMP|B Chain B, Geometry Of Triterpene Conversion To Pentacarbocyclic
Hopene
pdb|1UMP|C Chain C, Geometry Of Triterpene Conversion To Pentacarbocyclic
Hopene
pdb|1SQC|A Chain A, Squalene-Hopene-Cyclase From Alicyclobacillus
Acidocaldarius
Length = 631
Score = 109 bits (272), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 94/352 (26%), Positives = 162/352 (46%), Gaps = 26/352 (7%)
Query: 310 GMKVQTFGSQTWDTALGLQALMACNIADEVESVLGKGHDYLKKAQIRDNPVGDYKGNFRH 369
G Q S WDT L + AL A + + + ++ K ++L QI GD+ +
Sbjct: 301 GWMFQASISPVWDTGLAVLALRAAGLPADHDRLV-KAGEWLLDRQI--TVPGDWAVKRPN 357
Query: 370 FSKGAWTFSDQDHGWQVSDCTAEGLKCVLQLSLMPPEIVGEKMEPERLYDAVNFLLSLQD 429
G + F + + D TA V+ +L + E+ + + +++ +Q
Sbjct: 358 LKPGGFAFQFDNVYYPDVDDTA-----VVVWALNTLRLPDERRRRDAMTKGFRWIVGMQ- 411
Query: 430 EKTGGLAVWERAGASLLLEWLNPVEFLEDLIVEHTYVECTASAIEAFMLFKKLYPHHRKK 489
GG ++ S L + +F E + + + TA +E F F
Sbjct: 412 SSNGGWGAYDVDNTSDLPNHIPFCDFGE--VTDPPSEDVTAHVLECFGSFGY-------D 462
Query: 490 EIENFIVKAVHYIEDEQTADGSWYGNWGICFIYGTCFALGGLQVAGKTYNNCLAIRRAVD 549
+ I +AV Y++ EQ DGSW+G WG+ ++YGT + L+ G I++A+D
Sbjct: 463 DAWKVIRRAVEYLKREQKPDGSWFGRWGVNYLYGTGAVVSALKAVGIDTREPY-IQKALD 521
Query: 550 FLLNAQSDDGGWGESYKSCPNKIYTPLEGK-RSTVVHTALAVLSLISAGQADRDPTPIHR 608
++ Q+ DGGWGE +S + Y GK ST TA A+++LI+ G+A+ + R
Sbjct: 522 WVEQHQNPDGGWGEDCRSYEDPAYA---GKGASTPSQTAWALMALIAGGRAESEAA--RR 576
Query: 609 GVKLLINSQLENGDFPQQEIMGV-FMRNCMLHYAEYRNIFPLRALAEYRKRV 659
GV+ L+ +Q +G + + G F + L Y YR++FP AL Y++ +
Sbjct: 577 GVQYLVETQRPDGGWDEPYYTGTGFPGDFYLGYTMYRHVFPTLALGRYKQAI 628
Score = 68.2 bits (165), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 41/190 (21%), Positives = 89/190 (46%), Gaps = 10/190 (5%)
Query: 1 MKRAAHYFSAIQASDGHWPAENAGPMYFLPPFVFCLYITGHLNTVFTVEHRREILRYLYN 60
+ RA Y + Q +G+W + +V +I ++ + +I RYL +
Sbjct: 15 LDRAVEYLLSCQKDEGYWWGPLLSNVTMEAEYVLLCHILDRVDR----DRMEKIRRYLLH 70
Query: 61 HQHEDGGWGVHVEAPSSMFGTVFSYLCMRLLGLGPNDGENNACARARKWIRDHGGVTYIP 120
Q EDG W ++ P + T+ +Y+ ++ +G+ ++ +A ++I+ GG+
Sbjct: 71 EQREDGTWALYPGGPPDLDTTIEAYVALKYIGMSRDE---EPMQKALRFIQSQGGIESSR 127
Query: 121 SWGKNWLSILGIFEWSGTNPMPPEFWILPSFVPLHPSKMWCYCRLVYMPVSYLYGKRFVG 180
+ + WL+++G + W +PPE L +PL+ + + R + +S + ++
Sbjct: 128 VFTRMWLALVGEYPWEKVPMVPPEIMFLGKRMPLNIYEFGSWARATVVALSIVMSRQ--- 184
Query: 181 PITPLIQQLR 190
P+ PL ++ R
Sbjct: 185 PVFPLPERAR 194
Score = 29.3 bits (64), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 52/213 (24%), Positives = 82/213 (38%), Gaps = 34/213 (15%)
Query: 399 QLSLMPPEI--VGEKMEPERLYD------AVNFLLSLQDEKTGGLAVWERAGASLLLEWL 450
++ ++PPEI +G++M P +Y+ A LS+ + + ERA L E
Sbjct: 144 KVPMVPPEIMFLGKRM-PLNIYEFGSWARATVVALSIVMSRQPVFPLPERARVPELYETD 202
Query: 451 NPVEFLEDLIVEHTYVECTASAIEAFMLFKKLYPHHRKKEIENFIVKAVHYIEDEQTADG 510
P + A+ + ++P R EI +A+ ++ + Q DG
Sbjct: 203 VPPRRRGAKGGGGWIFDALDRALHGYQKLS-VHPFRRAAEI-----RALDWLLERQAGDG 256
Query: 511 SWYGNWGICFIYGTCFALGGLQVAGKTYNNCLAIRRAVDFLLNAQSDDGGWGESYKSCPN 570
SW G F +AL L++ T + L + D GGW
Sbjct: 257 SWGGIQPPWF-----YALIALKILDMTQHPAFIKGWEGLELYGVELDYGGWM-------- 303
Query: 571 KIYTPLEGKRSTVVHTALAVLSLISAG-QADRD 602
+ S V T LAVL+L +AG AD D
Sbjct: 304 -----FQASISPVWDTGLAVLALRAAGLPADHD 331
>pdb|3SQC|A Chain A, Squalene-Hopene Cyclase
pdb|3SQC|B Chain B, Squalene-Hopene Cyclase
pdb|3SQC|C Chain C, Squalene-Hopene Cyclase
Length = 631
Score = 107 bits (268), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 93/352 (26%), Positives = 160/352 (45%), Gaps = 26/352 (7%)
Query: 310 GMKVQTFGSQTWDTALGLQALMACNIADEVESVLGKGHDYLKKAQIRDNPVGDYKGNFRH 369
G Q S WDT L + AL A + + + ++ K ++L QI GD+ +
Sbjct: 301 GWMFQASISPVWDTGLAVLALRAAGLPADHDRLV-KAGEWLLDRQI--TVPGDWAVKRPN 357
Query: 370 FSKGAWTFSDQDHGWQVSDCTAEGLKCVLQLSLMPPEIVGEKMEPERLYDAVNFLLSLQD 429
G + F D+ + C + L +P E+ + + +++ +Q
Sbjct: 358 LKPGGFAFQ-FDNVYYPDVCDTAVVVWALNTLRLP----DERRRRDAMTKGFRWIVGMQ- 411
Query: 430 EKTGGLAVWERAGASLLLEWLNPVEFLEDLIVEHTYVECTASAIEAFMLFKKLYPHHRKK 489
GG ++ S L + +F E + + + TA +E F F
Sbjct: 412 SSNGGWGAYDVDNTSDLPNHIPFCDFGE--VTDPPSEDVTAHVLECFGSFGY-------D 462
Query: 490 EIENFIVKAVHYIEDEQTADGSWYGNWGICFIYGTCFALGGLQVAGKTYNNCLAIRRAVD 549
+ I +AV Y++ EQ DGSW+G WG+ ++YGT + L+ G I++A+D
Sbjct: 463 DAWKVIRRAVEYLKREQKPDGSWFGRWGVNYLYGTGAVVSALKAVGIDTREPY-IQKALD 521
Query: 550 FLLNAQSDDGGWGESYKSCPNKIYTPLEGK-RSTVVHTALAVLSLISAGQADRDPTPIHR 608
++ Q+ DGGWGE +S + Y GK ST TA A+++LI+ G+A+ + R
Sbjct: 522 WVEQHQNPDGGWGEDCRSYEDPAYA---GKGASTPSQTAWALMALIAGGRAESEAA--RR 576
Query: 609 GVKLLINSQLENGDFPQQEIMGV-FMRNCMLHYAEYRNIFPLRALAEYRKRV 659
GV+ L+ +Q +G + + G F + L Y YR++FP AL Y++ +
Sbjct: 577 GVQYLVETQRPDGGWDEPYYTGTGFPGDFYLGYTMYRHVFPTLALGRYKQAI 628
Score = 68.2 bits (165), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 41/190 (21%), Positives = 89/190 (46%), Gaps = 10/190 (5%)
Query: 1 MKRAAHYFSAIQASDGHWPAENAGPMYFLPPFVFCLYITGHLNTVFTVEHRREILRYLYN 60
+ RA Y + Q +G+W + +V +I ++ + +I RYL +
Sbjct: 15 LDRAVEYLLSCQKDEGYWWGPLLSNVTMEAEYVLLCHILDRVDR----DRMEKIRRYLLH 70
Query: 61 HQHEDGGWGVHVEAPSSMFGTVFSYLCMRLLGLGPNDGENNACARARKWIRDHGGVTYIP 120
Q EDG W ++ P + T+ +Y+ ++ +G+ ++ +A ++I+ GG+
Sbjct: 71 EQREDGTWALYPGGPPDLDTTIEAYVALKYIGMSRDE---EPMQKALRFIQSQGGIESSR 127
Query: 121 SWGKNWLSILGIFEWSGTNPMPPEFWILPSFVPLHPSKMWCYCRLVYMPVSYLYGKRFVG 180
+ + WL+++G + W +PPE L +PL+ + + R + +S + ++
Sbjct: 128 VFTRMWLALVGEYPWEKVPMVPPEIMFLGKRMPLNIYEFGSWARATVVALSIVMSRQ--- 184
Query: 181 PITPLIQQLR 190
P+ PL ++ R
Sbjct: 185 PVFPLPERAR 194
Score = 29.3 bits (64), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 52/213 (24%), Positives = 82/213 (38%), Gaps = 34/213 (15%)
Query: 399 QLSLMPPEI--VGEKMEPERLYD------AVNFLLSLQDEKTGGLAVWERAGASLLLEWL 450
++ ++PPEI +G++M P +Y+ A LS+ + + ERA L E
Sbjct: 144 KVPMVPPEIMFLGKRM-PLNIYEFGSWARATVVALSIVMSRQPVFPLPERARVPELYETD 202
Query: 451 NPVEFLEDLIVEHTYVECTASAIEAFMLFKKLYPHHRKKEIENFIVKAVHYIEDEQTADG 510
P + A+ + ++P R EI +A+ ++ + Q DG
Sbjct: 203 VPPRRRGAKGGGGWIFDALDRALHGYQKLS-VHPFRRAAEI-----RALDWLLERQAGDG 256
Query: 511 SWYGNWGICFIYGTCFALGGLQVAGKTYNNCLAIRRAVDFLLNAQSDDGGWGESYKSCPN 570
SW G F +AL L++ T + L + D GGW
Sbjct: 257 SWGGIQPPWF-----YALIALKILDMTQHPAFIKGWEGLELYGVELDYGGWM-------- 303
Query: 571 KIYTPLEGKRSTVVHTALAVLSLISAG-QADRD 602
+ S V T LAVL+L +AG AD D
Sbjct: 304 -----FQASISPVWDTGLAVLALRAAGLPADHD 331
>pdb|2SQC|A Chain A, Squalene-Hopene Cyclase From Alicyclobacillus
Acidocaldarius
pdb|2SQC|B Chain B, Squalene-Hopene Cyclase From Alicyclobacillus
Acidocaldarius
Length = 631
Score = 107 bits (267), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 93/352 (26%), Positives = 160/352 (45%), Gaps = 26/352 (7%)
Query: 310 GMKVQTFGSQTWDTALGLQALMACNIADEVESVLGKGHDYLKKAQIRDNPVGDYKGNFRH 369
G Q S WDT L + AL A + + + ++ K ++L QI GD+ +
Sbjct: 301 GWMFQASISPVWDTGLAVLALRAAGLPADHDRLV-KAGEWLLDRQI--TVPGDWAVKRPN 357
Query: 370 FSKGAWTFSDQDHGWQVSDCTAEGLKCVLQLSLMPPEIVGEKMEPERLYDAVNFLLSLQD 429
G + F D+ + C + L +P E+ + + +++ +Q
Sbjct: 358 LKPGGFAFQ-FDNVYYPDVCDTAVVVWALNTLRLP----DERRRRDAMTKGFRWIVGMQ- 411
Query: 430 EKTGGLAVWERAGASLLLEWLNPVEFLEDLIVEHTYVECTASAIEAFMLFKKLYPHHRKK 489
GG ++ S L + +F E + + + TA +E F F
Sbjct: 412 SSNGGWGAYDVDNTSDLPNHIPFSDFGE--VTDPPSEDVTAHVLECFGSFGY-------D 462
Query: 490 EIENFIVKAVHYIEDEQTADGSWYGNWGICFIYGTCFALGGLQVAGKTYNNCLAIRRAVD 549
+ I +AV Y++ EQ DGSW+G WG+ ++YGT + L+ G I++A+D
Sbjct: 463 DAWKVIRRAVEYLKREQKPDGSWFGRWGVNYLYGTGAVVSALKAVGIDTREPY-IQKALD 521
Query: 550 FLLNAQSDDGGWGESYKSCPNKIYTPLEGK-RSTVVHTALAVLSLISAGQADRDPTPIHR 608
++ Q+ DGGWGE +S + Y GK ST TA A+++LI+ G+A+ + R
Sbjct: 522 WVEQHQNPDGGWGEDCRSYEDPAYA---GKGASTPSQTAWALMALIAGGRAESEAA--RR 576
Query: 609 GVKLLINSQLENGDFPQQEIMGV-FMRNCMLHYAEYRNIFPLRALAEYRKRV 659
GV+ L+ +Q +G + + G F + L Y YR++FP AL Y++ +
Sbjct: 577 GVQYLVETQRPDGGWDEPYYTGTGFPGDFYLGYTMYRHVFPTLALGRYKQAI 628
Score = 68.2 bits (165), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 41/190 (21%), Positives = 89/190 (46%), Gaps = 10/190 (5%)
Query: 1 MKRAAHYFSAIQASDGHWPAENAGPMYFLPPFVFCLYITGHLNTVFTVEHRREILRYLYN 60
+ RA Y + Q +G+W + +V +I ++ + +I RYL +
Sbjct: 15 LDRAVEYLLSCQKDEGYWWGPLLSNVTMEAEYVLLCHILDRVDR----DRMEKIRRYLLH 70
Query: 61 HQHEDGGWGVHVEAPSSMFGTVFSYLCMRLLGLGPNDGENNACARARKWIRDHGGVTYIP 120
Q EDG W ++ P + T+ +Y+ ++ +G+ ++ +A ++I+ GG+
Sbjct: 71 EQREDGTWALYPGGPPDLDTTIEAYVALKYIGMSRDE---EPMQKALRFIQSQGGIESSR 127
Query: 121 SWGKNWLSILGIFEWSGTNPMPPEFWILPSFVPLHPSKMWCYCRLVYMPVSYLYGKRFVG 180
+ + WL+++G + W +PPE L +PL+ + + R + +S + ++
Sbjct: 128 VFTRMWLALVGEYPWEKVPMVPPEIMFLGKRMPLNIYEFGSWARATVVALSIVMSRQ--- 184
Query: 181 PITPLIQQLR 190
P+ PL ++ R
Sbjct: 185 PVFPLPERAR 194
Score = 29.3 bits (64), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 52/213 (24%), Positives = 82/213 (38%), Gaps = 34/213 (15%)
Query: 399 QLSLMPPEI--VGEKMEPERLYD------AVNFLLSLQDEKTGGLAVWERAGASLLLEWL 450
++ ++PPEI +G++M P +Y+ A LS+ + + ERA L E
Sbjct: 144 KVPMVPPEIMFLGKRM-PLNIYEFGSWARATVVALSIVMSRQPVFPLPERARVPELYETD 202
Query: 451 NPVEFLEDLIVEHTYVECTASAIEAFMLFKKLYPHHRKKEIENFIVKAVHYIEDEQTADG 510
P + A+ + ++P R EI +A+ ++ + Q DG
Sbjct: 203 VPPRRRGAKGGGGWIFDALDRALHGYQKLS-VHPFRRAAEI-----RALDWLLERQAGDG 256
Query: 511 SWYGNWGICFIYGTCFALGGLQVAGKTYNNCLAIRRAVDFLLNAQSDDGGWGESYKSCPN 570
SW G F +AL L++ T + L + D GGW
Sbjct: 257 SWGGIQPPWF-----YALIALKILDMTQHPAFIKGWEGLELYGVELDYGGWM-------- 303
Query: 571 KIYTPLEGKRSTVVHTALAVLSLISAG-QADRD 602
+ S V T LAVL+L +AG AD D
Sbjct: 304 -----FQASISPVWDTGLAVLALRAAGLPADHD 331
>pdb|1DCE|B Chain B, Crystal Structure Of Rab Geranylgeranyltransferase From
Rat Brain
pdb|1DCE|D Chain D, Crystal Structure Of Rab Geranylgeranyltransferase From
Rat Brain
pdb|1LTX|B Chain B, Structure Of Rab Escort Protein-1 In Complex With Rab
Geranylgeranyl Transferase And Isoprenoid
pdb|3C72|B Chain B, Engineered Rabggtase In Complex With A Peptidomimetic
Inhibitor
pdb|3DSS|B Chain B, Crystal Structure Of Rabggtase(Delta Lrr; Delta Ig)
pdb|3DST|B Chain B, Crystal Structure Of Rabggtase(Delta Lrr; Delta Ig)in
Complex With Geranylgeranyl Pyrophosphate
pdb|3DSU|B Chain B, Crystal Structure Of Rabggtase(Delta Lrr; Delta Ig)in
Complex With Farnesyl Pyrophosphate
pdb|3DSV|B Chain B, Crystal Structure Of Rabggtase(Delta Lrr; Delta Ig)in
Complex With Mono-Prenylated Peptide Ser-Cys-Ser-Cys(Gg)
Derivated From Rab7
pdb|3DSW|B Chain B, Crystal Structure Of Rabggtase(Delta Lrr; Delta Ig)in
Complex With Mono-Prenylated Peptide Ser-Cys(Gg)-Ser-Cys
Derivated From Rab7
pdb|3DSX|B Chain B, Crystal Structure Of Rabggtase(Delta Lrr; Delta Ig)in
Complex With Di-Prenylated Peptide
Ser-Cys(Gg)-Ser-Cys(Gg) Derivated From Rab7
pdb|3HXB|B Chain B, Engineered Rabggtase In Complex With A Peptidomimetic
Inhibitor (Compound 6)
pdb|3HXC|B Chain B, Engineered Rabggtase In Complex With A Peptidomimetic
Inhibitor (compound 8)
pdb|3HXD|B Chain B, Engineered Rabggtase In Complex With A Peptidomimetic
Inhibitor (Compound 9)
pdb|3HXE|B Chain B, Engineered Rabggtase In Complex With A Peptidomimetic
Inhibitor (compound 37)
pdb|3HXF|B Chain B, Engineered Rabggtase In Complex With A Peptidomimetic
Inhibitor (compound 32)
Length = 331
Score = 37.0 bits (84), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 49/95 (51%), Gaps = 11/95 (11%)
Query: 469 TASAIEAFMLFKKLYPHHRKKEIENFIVKAVHYIEDEQTADGSWYGN-WGICFIYGTCFA 527
T SA++ L+ ++ + + K V Y++ Q DGS+ G+ WG + A
Sbjct: 98 TLSAVQILTLYDSIHVIN--------VDKVVAYVQSLQKEDGSFAGDIWGEIDTRFSFCA 149
Query: 528 LGGLQVAGKTYNNCLAIRRAVDFLLNAQSDDGGWG 562
+ L + GK + + + +A++F+L+ + DGG+G
Sbjct: 150 VATLALLGKL--DAINVEKAIEFVLSCMNFDGGFG 182
>pdb|3PZ1|B Chain B, Crystal Structure Of Rabggtase(Delta Lrr; Delta Ig) In
Complex With Bms3
pdb|3PZ2|B Chain B, Crystal Structure Of Rabggtase(Delta Lrr; Delta Ig) In
Complex With Bms3 And Lipid Substrate Ggpp
pdb|3PZ3|B Chain B, Crystal Structure Of Rabggtase(Delta Lrr; Delta Ig) In
Complex With Bms-Analogue 14
pdb|4EHM|B Chain B, Rabggtase In Complex With Covalently Bound Psoromic Acid
pdb|4GTS|B Chain B, Engineered Rabggtase In Complex With Bms Analogue 16
pdb|4GTT|B Chain B, Engineered Rabggtase In Complex With Bms Analogue 12
pdb|4GTV|B Chain B, Engineered Rabggtase In Complex With Bms Analogue 13
Length = 330
Score = 37.0 bits (84), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 49/95 (51%), Gaps = 11/95 (11%)
Query: 469 TASAIEAFMLFKKLYPHHRKKEIENFIVKAVHYIEDEQTADGSWYGN-WGICFIYGTCFA 527
T SA++ L+ ++ + + K V Y++ Q DGS+ G+ WG + A
Sbjct: 97 TLSAVQILTLYDSIHVIN--------VDKVVAYVQSLQKEDGSFAGDIWGEIDTRFSFCA 148
Query: 528 LGGLQVAGKTYNNCLAIRRAVDFLLNAQSDDGGWG 562
+ L + GK + + + +A++F+L+ + DGG+G
Sbjct: 149 VATLALLGKL--DAINVEKAIEFVLSCMNFDGGFG 181
>pdb|1RQ5|A Chain A, Structural Basis For The Exocellulase Activity Of The
Cellobiohydrolase Cbha From C. Thermocellum
Length = 610
Score = 32.7 bits (73), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 32/60 (53%), Gaps = 7/60 (11%)
Query: 481 KLYPHHRKKEIENFIVKAVHYIE------DEQTADGSWYGNWGICFIYGTCFALGGLQVA 534
+LY K E +N+++ + HY+E + A+G G WG CF +GT LG + +A
Sbjct: 363 ELYVTTGKDEYKNYLMNSPHYLEMPAKMGENGGANGEDNGLWG-CFTWGTTQGLGTITLA 421
>pdb|1UT9|A Chain A, Structural Basis For The Exocellulase Activity Of The
Cellobiohydrolase Cbha From C. Thermocellum
Length = 609
Score = 32.7 bits (73), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 32/60 (53%), Gaps = 7/60 (11%)
Query: 481 KLYPHHRKKEIENFIVKAVHYIE------DEQTADGSWYGNWGICFIYGTCFALGGLQVA 534
+LY K E +N+++ + HY+E + A+G G WG CF +GT LG + +A
Sbjct: 363 ELYVTTGKDEYKNYLMNSPHYLEMPAKMGENGGANGEDNGLWG-CFTWGTTQGLGTITLA 421
>pdb|3SMA|A Chain A, A New N-Acetyltransferase Fold In The Structure And
Mechanism Of The Phosphonate Biosynthetic Enzyme Frbf
pdb|3SMA|B Chain B, A New N-Acetyltransferase Fold In The Structure And
Mechanism Of The Phosphonate Biosynthetic Enzyme Frbf
pdb|3SMA|C Chain C, A New N-Acetyltransferase Fold In The Structure And
Mechanism Of The Phosphonate Biosynthetic Enzyme Frbf
pdb|3SMA|D Chain D, A New N-Acetyltransferase Fold In The Structure And
Mechanism Of The Phosphonate Biosynthetic Enzyme Frbf
Length = 286
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 18/32 (56%), Gaps = 2/32 (6%)
Query: 632 FMRNCMLHYAEYRNIFPLRALAEYRKRVPLPN 663
F N H AEYR +P R +R+RVP+P
Sbjct: 186 FESNTSFHLAEYRTAYPGR--RSHRRRVPVPE 215
>pdb|1VR5|A Chain A, Crystal Structure Of Oligopeptide Abc Transporter,
Periplasmic Oligopeptide-Binding (Tm1223) From
Thermotoga Maritima At 1.73 A Resolution
pdb|1VR5|B Chain B, Crystal Structure Of Oligopeptide Abc Transporter,
Periplasmic Oligopeptide-Binding (Tm1223) From
Thermotoga Maritima At 1.73 A Resolution
Length = 547
Score = 28.9 bits (63), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 44/105 (41%), Gaps = 10/105 (9%)
Query: 147 ILPSFVPLHPSKMWCYCRLVYMPVS----YLYGKRFVGPITPLIQQLREELHTQPYNEIN 202
IL +F + +W Y V+ P + Y Y F P ++ L +EL+ +
Sbjct: 420 ILNNFTTGVSATIWSYFNGVFYPDAVESEYSYSGNFGKYANPEVETLLDELNRSNDD--- 476
Query: 203 WRKVRHLCSK--EDLYYPHPFVQELLWDTLYLASEPLLTRWPLNK 245
K++ + +K E L PF+ + ASE + T WP K
Sbjct: 477 -AKIKEVVAKLSEILLKDLPFIPLWYNGAWFQASEAVWTNWPTEK 520
>pdb|2ET6|A Chain A, (3r)-Hydroxyacyl-Coa Dehydrogenase Domain Of Candida
Tropicalis Peroxisomal Multifunctional Enzyme Type 2
Length = 604
Score = 28.9 bits (63), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 29/56 (51%), Gaps = 11/56 (19%)
Query: 401 SLMPPEIVGEKMEPERLYDAVNFLLSLQDEKTGGL----------AVWERAGASLL 446
S+MPP ++ EK+ PE++ V +L S ++E TG WER+G L
Sbjct: 202 SIMPPPML-EKLGPEKVAPLVLYLSSAENELTGQFFEVAAGFYAQIRWERSGGVLF 256
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.323 0.139 0.459
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,227,172
Number of Sequences: 62578
Number of extensions: 988981
Number of successful extensions: 1950
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1873
Number of HSP's gapped (non-prelim): 38
length of query: 663
length of database: 14,973,337
effective HSP length: 105
effective length of query: 558
effective length of database: 8,402,647
effective search space: 4688677026
effective search space used: 4688677026
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)