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= 029612
(190 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 = 157 bits (396), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 74/191 (38%), Positives = 107/191 (56%), Gaps = 9/191 (4%)
Query: 1 MTLFKKLYPKHRTKEVKNFIAKATKFIEDIQKSDGSWYGSWGICFTYAAWFAISGLVAAK 60
+ F K +P+HR E++ + + +F Q++DGSW GSWG+CFTY WF +
Sbjct: 541 LKYFHKRFPEHRAAEIRETLTQGLEFCRRQQRADGSWEGSWGVCFTYGTWFGLEAFACMG 600
Query: 61 KTYSN---CLAIRKATDFLLKIQCEDGGWGESYRSCPNKKYIPLDGNRSNLVQTAWAMMS 117
+TY + C + +A DFLL Q DGGWGE + SC ++Y L +S + T WAMM
Sbjct: 601 QTYRDGTACAEVSRACDFLLSRQMADGGWGEDFESCEERRY--LQSAQSQIHNTCWAMMG 658
Query: 118 LIHAGQMERDPTPLHRAAKLLINSQLEDGDFPQQELTGVFMENCMLHYPIYRNIFPMWAL 177
L+ D R + L+ QL +GD+PQ+ + GVF ++C + Y YRNIFP+WAL
Sbjct: 659 LMAV--RHPDIEAQERGVRCLLEKQLPNGDWPQENIAGVFNKSCAISYTSYRNIFPIWAL 716
Query: 178 AEYRSRLLLPE 188
+ L PE
Sbjct: 717 GRFSQ--LYPE 725
>pdb|1W6K|A Chain A, Structure Of Human Osc In Complex With Lanosterol
Length = 732
Score = 157 bits (396), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 73/191 (38%), Positives = 107/191 (56%), Gaps = 9/191 (4%)
Query: 1 MTLFKKLYPKHRTKEVKNFIAKATKFIEDIQKSDGSWYGSWGICFTYAAWFAISGLVAAK 60
+ F K +P+HR E++ + + +F Q++DGSW GSWG+CFTY WF +
Sbjct: 541 LKYFHKRFPEHRAAEIRETLTQGLEFCRRQQRADGSWEGSWGVCFTYGTWFGLEAFACMG 600
Query: 61 KTYSN---CLAIRKATDFLLKIQCEDGGWGESYRSCPNKKYIPLDGNRSNLVQTAWAMMS 117
+TY + C + +A DFLL Q DGGWGE + SC ++Y+ +S + T WAMM
Sbjct: 601 QTYRDGTACAEVSRACDFLLSRQMADGGWGEDFESCEERRYV--QSAQSQIHNTCWAMMG 658
Query: 118 LIHAGQMERDPTPLHRAAKLLINSQLEDGDFPQQELTGVFMENCMLHYPIYRNIFPMWAL 177
L+ D R + L+ QL +GD+PQ+ + GVF ++C + Y YRNIFP+WAL
Sbjct: 659 LMAV--RHPDIEAQERGVRCLLEKQLPNGDWPQENIAGVFNKSCAISYTSYRNIFPIWAL 716
Query: 178 AEYRSRLLLPE 188
+ L PE
Sbjct: 717 GRFSQ--LYPE 725
>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 = 92.8 bits (229), Expect = 1e-19, Method: Composition-based stats.
Identities = 58/170 (34%), Positives = 89/170 (52%), Gaps = 14/170 (8%)
Query: 20 IAKATKFIEDIQKSDGSWYGSWGICFTYAAWFAISGLVA----AKKTYSNCLAIRKATDF 75
I +A ++++ QK DGSW+G WG+ + Y +S L A ++ Y I+KA D+
Sbjct: 468 IRRAVEYLKREQKPDGSWFGRWGVNYLYGTGAVVSALKAVGIDTREPY-----IQKALDW 522
Query: 76 LLKIQCEDGGWGESYRSCPNKKYIPLDGNRSNLVQTAWAMMSLIHAGQMERDPTPLHRAA 135
+ + Q DGGWGE RS + Y S QTAWA+M+LI G+ E + R
Sbjct: 523 VEQHQNPDGGWGEDCRSYEDPAYA--GKGASTPSQTAWALMALIAGGRAESEAA--RRGV 578
Query: 136 KLLINSQLEDGDFPQQELTGV-FMENCMLHYPIYRNIFPMWALAEYRSRL 184
+ L+ +Q DG + + TG F + L Y +YR++FP AL Y+ +
Sbjct: 579 QYLVETQRPDGGWDEPYYTGTGFPGDFYLGYTMYRHVFPTLALGRYKQAI 628
>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 = 92.8 bits (229), Expect = 1e-19, Method: Composition-based stats.
Identities = 58/170 (34%), Positives = 89/170 (52%), Gaps = 14/170 (8%)
Query: 20 IAKATKFIEDIQKSDGSWYGSWGICFTYAAWFAISGLVA----AKKTYSNCLAIRKATDF 75
I +A ++++ QK DGSW+G WG+ + Y +S L A ++ Y I+KA D+
Sbjct: 468 IRRAVEYLKREQKPDGSWFGRWGVNYLYGTGAVVSALKAVGIDTREPY-----IQKALDW 522
Query: 76 LLKIQCEDGGWGESYRSCPNKKYIPLDGNRSNLVQTAWAMMSLIHAGQMERDPTPLHRAA 135
+ + Q DGGWGE RS + Y S QTAWA+M+LI G+ E + R
Sbjct: 523 VEQHQNPDGGWGEDCRSYEDPAYA--GKGASTPSQTAWALMALIAGGRAESEAA--RRGV 578
Query: 136 KLLINSQLEDGDFPQQELTGV-FMENCMLHYPIYRNIFPMWALAEYRSRL 184
+ L+ +Q DG + + TG F + L Y +YR++FP AL Y+ +
Sbjct: 579 QYLVETQRPDGGWDEPYYTGTGFPGDFYLGYTMYRHVFPTLALGRYKQAI 628
>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 = 92.8 bits (229), Expect = 1e-19, Method: Composition-based stats.
Identities = 58/170 (34%), Positives = 89/170 (52%), Gaps = 14/170 (8%)
Query: 20 IAKATKFIEDIQKSDGSWYGSWGICFTYAAWFAISGLVA----AKKTYSNCLAIRKATDF 75
I +A ++++ QK DGSW+G WG+ + Y +S L A ++ Y I+KA D+
Sbjct: 468 IRRAVEYLKREQKPDGSWFGRWGVNYLYGTGAVVSALKAVGIDTREPY-----IQKALDW 522
Query: 76 LLKIQCEDGGWGESYRSCPNKKYIPLDGNRSNLVQTAWAMMSLIHAGQMERDPTPLHRAA 135
+ + Q DGGWGE RS + Y S QTAWA+M+LI G+ E + R
Sbjct: 523 VEQHQNPDGGWGEDCRSYEDPAYA--GKGASTPSQTAWALMALIAGGRAESEAA--RRGV 578
Query: 136 KLLINSQLEDGDFPQQELTGV-FMENCMLHYPIYRNIFPMWALAEYRSRL 184
+ L+ +Q DG + + TG F + L Y +YR++FP AL Y+ +
Sbjct: 579 QYLVETQRPDGGWDEPYYTGTGFPGDFYLGYTMYRHVFPTLALGRYKQAI 628
>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 = 36.2 bits (82), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 37/69 (53%), Gaps = 3/69 (4%)
Query: 20 IAKATKFIEDIQKSDGSWYGS-WGICFTYAAWFAISGLVAAKKTYSNCLAIRKATDFLLK 78
+ K +++ +QK DGS+ G WG T ++ A++ L K + + + KA +F+L
Sbjct: 116 VDKVVAYVQSLQKEDGSFAGDIWGEIDTRFSFCAVATLALLGKL--DAINVEKAIEFVLS 173
Query: 79 IQCEDGGWG 87
DGG+G
Sbjct: 174 CMNFDGGFG 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 = 36.2 bits (82), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 37/69 (53%), Gaps = 3/69 (4%)
Query: 20 IAKATKFIEDIQKSDGSWYGS-WGICFTYAAWFAISGLVAAKKTYSNCLAIRKATDFLLK 78
+ K +++ +QK DGS+ G WG T ++ A++ L K + + + KA +F+L
Sbjct: 115 VDKVVAYVQSLQKEDGSFAGDIWGEIDTRFSFCAVATLALLGKL--DAINVEKAIEFVLS 172
Query: 79 IQCEDGGWG 87
DGG+G
Sbjct: 173 CMNFDGGFG 181
>pdb|1REP|C Chain C, Crystal Structure Of Replication Initiator Protein Repe54
Of Mini-F Plasmid Complexed With An Iteron Dna
Length = 251
Score = 33.1 bits (74), Expect = 0.100, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 34/72 (47%), Gaps = 3/72 (4%)
Query: 26 FIEDIQKSDGSWYGSWGICFTYAAWFA-ISGLVAAK--KTYSNCLAIRKATDFLLKIQCE 82
F++ I+KSDG+ GIC + A +A I GL +A+ K L + + E
Sbjct: 42 FVDQIRKSDGTLQEHDGICEIHVAKYAEIFGLTSAEASKDIRQALKSFAGKEVVFYRPEE 101
Query: 83 DGGWGESYRSCP 94
D G + Y S P
Sbjct: 102 DAGDEKGYESFP 113
>pdb|2Z9O|A Chain A, Crystal Structure Of The Dimeric Form Of Repe In Complex
With The Repe Operator Dna
pdb|2Z9O|B Chain B, Crystal Structure Of The Dimeric Form Of Repe In Complex
With The Repe Operator Dna
Length = 266
Score = 32.7 bits (73), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 34/72 (47%), Gaps = 3/72 (4%)
Query: 26 FIEDIQKSDGSWYGSWGICFTYAAWFA-ISGLVAAK--KTYSNCLAIRKATDFLLKIQCE 82
F++ I+KSDG+ GIC + A +A I GL +A+ K L + + E
Sbjct: 57 FVDQIRKSDGTLQEHDGICEIHVAKYAEIFGLTSAEASKDIRQALKSFAGKEVVFYRPEE 116
Query: 83 DGGWGESYRSCP 94
D G + Y S P
Sbjct: 117 DAGDEKGYESFP 128
>pdb|1RP0|A Chain A, Crystal Structure Of Thi1 Protein From Arabidopsis
Thaliana
pdb|1RP0|B Chain B, Crystal Structure Of Thi1 Protein From Arabidopsis
Thaliana
Length = 284
Score = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 2/48 (4%)
Query: 101 LDGNRSNLVQTAWAMMSLIHAGQMERDPTPLHRAAKLLINSQLEDGDF 148
+ GNR V T WA+++ H Q DP + AK++++S DG F
Sbjct: 148 VKGNRVGGVVTNWALVAQNHHTQSCMDPNVME--AKIVVSSCGHDGPF 193
>pdb|1GXO|A Chain A, Mutant D189a Of Family 10 Polysaccharide Lyase From
Cellvibrio Cellulosa In Complex With Trigalaturonic Acid
Length = 332
Score = 28.1 bits (61), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 34/81 (41%), Gaps = 4/81 (4%)
Query: 74 DFLLKIQCEDGGWGES--YRSCPNKKYIPLDGNRSN--LVQTAWAMMSLIHAGQMERDPT 129
D +L Q +GGW ++ Y S N G +N + + + +G +
Sbjct: 38 DVVLSYQQNNGGWPKNLDYNSVGNGGGGNESGTIANGATITEMVFLAEVYKSGGNTKYRD 97
Query: 130 PLHRAAKLLINSQLEDGDFPQ 150
+ +AA L+NSQ G PQ
Sbjct: 98 AVRKAANFLVNSQYSTGALPQ 118
>pdb|1GXM|A Chain A, Family 10 Polysaccharide Lyase From Cellvibrio Cellulosa
pdb|1GXM|B Chain B, Family 10 Polysaccharide Lyase From Cellvibrio Cellulosa
pdb|1GXN|A Chain A, Family 10 Polysaccharide Lyase From Cellvibrio Cellulosa
Length = 332
Score = 27.3 bits (59), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 33/81 (40%), Gaps = 4/81 (4%)
Query: 74 DFLLKIQCEDGGWGES--YRSCPNKKYIPLDGNRSN--LVQTAWAMMSLIHAGQMERDPT 129
D +L Q +GGW ++ Y S N G N + + + +G +
Sbjct: 38 DVVLSYQQNNGGWPKNLDYNSVGNGGGGNESGTIDNGATITEMVFLAEVYKSGGNTKYRD 97
Query: 130 PLHRAAKLLINSQLEDGDFPQ 150
+ +AA L+NSQ G PQ
Sbjct: 98 AVRKAANFLVNSQYSTGALPQ 118
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 0.137 0.442
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,784,609
Number of Sequences: 62578
Number of extensions: 225551
Number of successful extensions: 528
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 487
Number of HSP's gapped (non-prelim): 24
length of query: 190
length of database: 14,973,337
effective HSP length: 93
effective length of query: 97
effective length of database: 9,153,583
effective search space: 887897551
effective search space used: 887897551
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 48 (23.1 bits)