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= psy5533
(136 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3APZ|A Chain A, Apo Form Of Arabidopsis MediumLONG-Chain Length Prenyl
Pyrophosphate Synthase
pdb|3APZ|B Chain B, Apo Form Of Arabidopsis MediumLONG-Chain Length Prenyl
Pyrophosphate Synthase
Length = 348
Score = 106 bits (265), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 54/142 (38%), Positives = 93/142 (65%), Gaps = 6/142 (4%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
+L G +++ +AFEYGRNLG+AFQL+DD+LDF +S ++GK + +D++ G+ TAP+LFA
Sbjct: 207 VLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFA 266
Query: 61 CEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAESPY 120
E+FP+L ++ + ++P +V+ A E++ KS+G+++ + LA +H A L E+
Sbjct: 267 MEEFPQLREVVDQVEKDPRNVDIALEYLGKSKGIQRARELAMEHANLAAAAIGSLPETDN 326
Query: 121 Q------KGLVVLTDLVLNRMK 136
+ + L+ LT V+ R K
Sbjct: 327 EDVKRSRRALIDLTHRVITRNK 348
>pdb|3AQ0|A Chain A, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|B Chain B, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|C Chain C, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|D Chain D, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|E Chain E, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|F Chain F, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|G Chain G, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|H Chain H, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
Length = 348
Score = 106 bits (264), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 54/142 (38%), Positives = 92/142 (64%), Gaps = 6/142 (4%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
+L G +++ +AFEYGRNLG+AFQL+DD+LDF +S ++GK + +D++ G+ TAP+LFA
Sbjct: 207 VLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFA 266
Query: 61 CEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAESPY 120
E+FP+L ++ + +P +V+ A E++ KS+G+++ + LA +H A L E+
Sbjct: 267 MEEFPQLREVVDQVAADPRNVDIALEYLGKSKGIQRARELAMEHANLAAAAIGSLPETDN 326
Query: 121 Q------KGLVVLTDLVLNRMK 136
+ + L+ LT V+ R K
Sbjct: 327 EDVKRSRRALIDLTHRVITRNK 348
>pdb|3MZV|A Chain A, Crystal Structure Of A Decaprenyl Diphosphate Synthase
From Rhodobacter Capsulatus
pdb|3MZV|B Chain B, Crystal Structure Of A Decaprenyl Diphosphate Synthase
From Rhodobacter Capsulatus
Length = 341
Score = 69.7 bits (169), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 47/141 (33%), Positives = 70/141 (49%), Gaps = 5/141 (3%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
++GGA + + F+YG LGIAFQ+VDDLLD+ S +GK T D + T PV+ A
Sbjct: 193 IIGGAPEDQVQALFDYGDALGIAFQIVDDLLDYGGKSAEIGKNTGDDFRERKLTMPVIKA 252
Query: 61 CEKFPELNPMIMRRF-----QEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGL 115
E +R Q+ GD+E A + K LE T+ A A + + L
Sbjct: 253 VALADEAERAFWKRVIEKGDQQDGDLEHAMALMTKHGTLEATRLAAIGWTDTARKALAKL 312
Query: 116 AESPYQKGLVVLTDLVLNRMK 136
+ P ++ L L D V+ R++
Sbjct: 313 PDHPLRQMLDDLADYVVERVR 333
>pdb|3OYR|A Chain A, Crystal Structure Of Polyprenyl Synthase From Caulobacter
Crescentus Cb15 Complexed With Calcium And Isoprenyl
Diphosphate
pdb|3OYR|B Chain B, Crystal Structure Of Polyprenyl Synthase From Caulobacter
Crescentus Cb15 Complexed With Calcium And Isoprenyl
Diphosphate
Length = 345
Score = 58.5 bits (140), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 38/101 (37%), Positives = 51/101 (50%), Gaps = 9/101 (8%)
Query: 4 GADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 63
G D SE +YG NLG+AFQL DD LD+ +++ +GK D + G AT P+L A +
Sbjct: 208 GVDVAKSEALRDYGLNLGLAFQLADDALDYGGATETLGKNAGDDFREGKATLPLLLAIAR 267
Query: 64 -------FPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQT 97
F E I RR Q D +A E + S L+ T
Sbjct: 268 SGPREAEFWE--RAIGRREQTEADFRRARELIIGSGALDAT 306
>pdb|3AQB|B Chain B, M. Luteus B-P 26 Heterodimeric Hexaprenyl Diphosphate
Synthase In Complex With Magnesium
pdb|3AQB|D Chain D, M. Luteus B-P 26 Heterodimeric Hexaprenyl Diphosphate
Synthase In Complex With Magnesium
pdb|3AQC|B Chain B, M. Luteus B-P 26 Heterodimeric Hexaprenyl Diphosphate
Synthase In Complex With Magnesium And Fpp Analogue
pdb|3AQC|D Chain D, M. Luteus B-P 26 Heterodimeric Hexaprenyl Diphosphate
Synthase In Complex With Magnesium And Fpp Analogue
Length = 325
Score = 53.9 bits (128), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 31/128 (24%), Positives = 68/128 (53%), Gaps = 8/128 (6%)
Query: 15 EYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELN----PM 70
++G +G+++Q++DD+LD+ S +GKP +D++ G T P++ A E +
Sbjct: 198 QFGHCIGMSYQIIDDILDYTSDEATLGKPVGSDIRNGHITYPLMAAIANLKEQDDDKLEA 257
Query: 71 IMRRFQEPGDVEKAFEFV---HKSQGLEQTKFLARKHCVEAVRLASGLAESPYQKGLVVL 127
+++ D ++ ++++ K G+E + L+RK+ +A S L +S + L +
Sbjct: 258 VVKHLTSTSD-DEVYQYIVSQVKQYGIEPAELLSRKYGDKAKYHLSQLQDSNIKDYLEEI 316
Query: 128 TDLVLNRM 135
+ +L R+
Sbjct: 317 HEKMLKRV 324
>pdb|3NF2|A Chain A, Crystal Structure Of Polyprenyl Synthetase From
Streptomyces Coelicolor A3(2)
Length = 352
Score = 52.8 bits (125), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 26/58 (44%), Positives = 38/58 (65%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVL 58
+LGGAD++ ++ +YG +LG+AFQ VDDLL DA GK T +DL+ + PV+
Sbjct: 197 VLGGADERTADTLEKYGYHLGLAFQAVDDLLGIWGDPDATGKQTWSDLRQRKKSLPVV 254
>pdb|3TC1|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase
From Helicobacter Pylori
pdb|3TC1|B Chain B, Crystal Structure Of Octaprenyl Pyrophosphate Synthase
From Helicobacter Pylori
Length = 315
Score = 52.0 bits (123), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 36/60 (60%)
Query: 7 DKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPE 66
+K +++ ++G N G+AFQ++DDLLD + +GKP +D K G T P L EK +
Sbjct: 179 NKDAKIYADFGLNFGMAFQIIDDLLDITQDAKTLGKPNFSDFKEGKTTLPYLLLYEKLNQ 238
>pdb|1WY0|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate
Synthetase From Pyrococcus Horikoshii Ot3
Length = 342
Score = 49.7 bits (117), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 35/54 (64%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLAT 54
++G +++ + +GRN+GIAFQ+ DD+LD I+ +GKP +D++ G T
Sbjct: 191 IIGTDNEEYIKALSSWGRNVGIAFQIWDDVLDLIADEKKLGKPVGSDIRKGKKT 244
>pdb|1WL1|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase
From Hyperthermophilic Thermotoga Maritima H74a Mutant
pdb|1WL1|B Chain B, Crystal Structure Of Octaprenyl Pyrophosphate Synthase
From Hyperthermophilic Thermotoga Maritima H74a Mutant
Length = 299
Score = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 8 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPEL 67
+L E + G +G +Q+ DD++DF + + +GK DLK G+A+ P++ A EKFPE
Sbjct: 184 ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVASFPLVTAMEKFPEA 242
Query: 68 NPMIMRR 74
M R
Sbjct: 243 RQMFENR 249
>pdb|1VG2|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase
From Hyperthermophilic Thermotoga Maritima A76y Mutant
Length = 299
Score = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 8 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPEL 67
+L E + G +G +Q+ DD++DF + + +GK DLK G+A+ P++ A EKFPE
Sbjct: 184 ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVASFPLVTAMEKFPEA 242
Query: 68 NPMIMRR 74
M R
Sbjct: 243 RQMFENR 249
>pdb|1VG6|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase
From Hyperthermophilic Thermotoga Maritima
F132aL128AI123A MUTANT
Length = 299
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 8 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPEL 67
+L E + G +G +Q+ DD++DF + + +GK DLK G+A+ P++ A EKFPE
Sbjct: 184 ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVASFPLVTAMEKFPEA 242
Query: 68 NPMIMRR 74
M R
Sbjct: 243 RQMFENR 249
>pdb|1V4J|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase
From Hyperthermophilic Thermotoga Maritima V73y Mutant
pdb|1V4J|B Chain B, Crystal Structure Of Octaprenyl Pyrophosphate Synthase
From Hyperthermophilic Thermotoga Maritima V73y Mutant
Length = 299
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 8 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPEL 67
+L E + G +G +Q+ DD++DF + + +GK DLK G+A+ P++ A EKFPE
Sbjct: 184 ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVASFPLVTAMEKFPEA 242
Query: 68 NPMIMRR 74
M R
Sbjct: 243 RQMFENR 249
>pdb|1VG4|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase
From Hyperthermophilic Thermotoga Maritima F132aL128A
MUTANT
pdb|1VG4|B Chain B, Crystal Structure Of Octaprenyl Pyrophosphate Synthase
From Hyperthermophilic Thermotoga Maritima F132aL128A
MUTANT
Length = 299
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 8 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPEL 67
+L E + G +G +Q+ DD++DF + + +GK DLK G+A+ P++ A EKFPE
Sbjct: 184 ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVASFPLVTAMEKFPEA 242
Query: 68 NPMIMRR 74
M R
Sbjct: 243 RQMFENR 249
>pdb|1V4E|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase
From Hyperthermophilic Thermotoga Maritima
pdb|1V4E|B Chain B, Crystal Structure Of Octaprenyl Pyrophosphate Synthase
From Hyperthermophilic Thermotoga Maritima
Length = 299
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 8 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPEL 67
+L E + G +G +Q+ DD++DF + + +GK DLK G+A+ P++ A EKFPE
Sbjct: 184 ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVASFPLVTAMEKFPEA 242
Query: 68 NPMIMRR 74
M R
Sbjct: 243 RQMFENR 249
>pdb|1VG3|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase
From Hyperthermophilic Thermotoga Maritima A76yS77F
MUTANT
Length = 299
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 8 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPEL 67
+L E + G +G +Q+ DD++DF + + +GK DLK G+A+ P++ A EKFPE
Sbjct: 184 ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVASFPLVTAMEKFPEA 242
Query: 68 NPMIMRR 74
M R
Sbjct: 243 RQMFENR 249
>pdb|2AZL|A Chain A, Crystal Structure For The Mutant F117e Of Thermotoga
Maritima Octaprenyl Pyrophosphate Synthase
Length = 299
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 8 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPEL 67
+L E + G +G +Q+ DD++DF + + +GK DLK G+A+ P++ A EKFPE
Sbjct: 184 ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVASFPLVTAMEKFPEA 242
Query: 68 NPMIMRR 74
M R
Sbjct: 243 RQMFENR 249
>pdb|1WL2|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase
From Hyperthermophilic Thermotoga Maritima R90a Mutant
Length = 299
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 8 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPEL 67
+L E + G +G +Q+ DD++DF + + +GK DLK G+A+ P++ A EKFPE
Sbjct: 184 ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVASFPLVTAMEKFPEA 242
Query: 68 NPMIMRR 74
M R
Sbjct: 243 RQMFENR 249
>pdb|1WL0|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase
From Hyperthermophilic Thermotoga Maritima R44a Mutant
pdb|1WL0|B Chain B, Crystal Structure Of Octaprenyl Pyrophosphate Synthase
From Hyperthermophilic Thermotoga Maritima R44a Mutant
Length = 299
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 8 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPEL 67
+L E + G +G +Q+ DD++DF + + +GK DLK G+A+ P++ A EKFPE
Sbjct: 184 ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVASFPLVTAMEKFPEA 242
Query: 68 NPMIMRR 74
M R
Sbjct: 243 RQMFENR 249
>pdb|1WL3|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase
From Hyperthermophilic Thermotoga Maritima R91a Mutant
pdb|1WL3|B Chain B, Crystal Structure Of Octaprenyl Pyrophosphate Synthase
From Hyperthermophilic Thermotoga Maritima R91a Mutant
Length = 299
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 8 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPEL 67
+L E + G +G +Q+ DD++DF + + +GK DLK G+A+ P++ A EKFPE
Sbjct: 184 ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVASFPLVTAMEKFPEA 242
Query: 68 NPMIMRR 74
M R
Sbjct: 243 RQMFENR 249
>pdb|1VG7|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase
From Hyperthermophilic Thermotoga Maritima
F132aL128AI123AD62A MUTANT
Length = 299
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 40/69 (57%), Gaps = 1/69 (1%)
Query: 6 DDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFP 65
+ +L E + G +G +Q+ DD++DF + + +GK DLK G+A+ P++ A EKFP
Sbjct: 182 EGELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVASFPLVTAMEKFP 240
Query: 66 ELNPMIMRR 74
E M R
Sbjct: 241 EARQMFENR 249
>pdb|1V4H|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase
From Hyperthermophilic Thermotoga Maritima F52a Mutant
Length = 299
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 8 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPEL 67
+L E + G +G +Q+ DD++DF + + +GK DLK G+A+ P++ A EKFPE
Sbjct: 184 ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVASFPLVTAMEKFPEA 242
Query: 68 NPMIMRR 74
M R
Sbjct: 243 RQMFENR 249
>pdb|1V4K|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase
From Hyperthermophilic Thermotoga Maritima S77f Mutant
Length = 299
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 8 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPEL 67
+L E + G +G +Q+ DD++DF + + +GK DLK G+A+ P++ A EKFPE
Sbjct: 184 ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVASFPLVTAMEKFPEA 242
Query: 68 NPMIMRR 74
M R
Sbjct: 243 RQMFENR 249
>pdb|1V4I|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase
From Hyperthermophilic Thermotoga Maritima F132a Mutant
Length = 299
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 8 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPEL 67
+L E + G +G +Q+ DD++DF + + +GK DLK G+A+ P++ A EKFPE
Sbjct: 184 ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVASFPLVTAMEKFPEA 242
Query: 68 NPMIMRR 74
M R
Sbjct: 243 RQMFENR 249
>pdb|1WKZ|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase
From Hyperthermophilic Thermotoga Maritima K41a Mutant
pdb|1WKZ|B Chain B, Crystal Structure Of Octaprenyl Pyrophosphate Synthase
From Hyperthermophilic Thermotoga Maritima K41a Mutant
Length = 299
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 8 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPEL 67
+L E + G +G +Q+ DD++DF + + +GK DLK G+A+ P++ A EKFPE
Sbjct: 184 ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVASFPLVTAMEKFPEA 242
Query: 68 NPMIMRR 74
M R
Sbjct: 243 RQMFENR 249
>pdb|3P8R|A Chain A, Crystal Structure Of Polyprenyl Synthase From Vibrio
Cholerae
Length = 302
Score = 47.4 bits (111), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 30/47 (63%)
Query: 16 YGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 62
Y +G+AFQ+ DD+LD IS ++ +GKP +D +L +T P L E
Sbjct: 217 YAEAVGLAFQVQDDILDIISDTETLGKPQGSDQELNKSTYPALLGLE 263
>pdb|4DHD|A Chain A, Crystal Structure Of Isoprenoid Synthase A3msh1 (Target
Efi-501992) From Pyrobaculum Calidifontis
pdb|4GP1|A Chain A, Crystal Structure Of Isoprenoid Synthase A3msh1 (Target
Efi-501992) From Pyrobaculum Calidifontis Complexed With
Dmapp
pdb|4GP2|A Chain A, Crystal Structure Of Isoprenoid Synthase A3msh1 (Target
Efi-501992) From Pyrobaculum Calidifontis Complexed With
Dmapp And Magnesium
pdb|4GP2|B Chain B, Crystal Structure Of Isoprenoid Synthase A3msh1 (Target
Efi-501992) From Pyrobaculum Calidifontis Complexed With
Dmapp And Magnesium
Length = 358
Score = 46.6 bits (109), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 42/141 (29%), Positives = 63/141 (44%), Gaps = 10/141 (7%)
Query: 1 MLGGADDK-LSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLK-LGLATAPVL 58
+L +DD+ L+E A+ +G G+AFQ++DD+LD GK D+K A V
Sbjct: 197 VLSVSDDRGLAEAAWNFGMAAGVAFQIIDDVLDIYGDPKKFGKEIGKDIKEHKRGNAVVA 256
Query: 59 FACEKFPE-----LNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLAS 113
A E L ++ R E DV +A + E+ LA ++ EA R
Sbjct: 257 VALSHLGEGERRRLLEILAREVVEEADVREAVALLDSVGAREEALRLAARYREEAER--- 313
Query: 114 GLAESPYQKGLVVLTDLVLNR 134
LA+ P L L D ++ R
Sbjct: 314 HLAKIPNNGTLKELLDFIVAR 334
>pdb|3LMD|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Corynebacterium Glutamicum Atcc 13032
pdb|3Q2Q|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Corynebacterium Glutamicum Complexed With Calcium
And Isoprenyl Diphosphate
Length = 360
Score = 46.6 bits (109), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 27/82 (32%), Positives = 43/82 (52%), Gaps = 4/82 (4%)
Query: 16 YGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFAC-EKFP---ELNPMI 71
+G +G+ FQ+VDD++D S + GK DL+ G+ T PVL+A E P EL ++
Sbjct: 228 FGAAVGMIFQIVDDIIDIFSETHESGKTPGTDLREGVFTLPVLYALREDTPVGAELRDIL 287
Query: 72 MRRFQEPGDVEKAFEFVHKSQG 93
++ V E + +S G
Sbjct: 288 TGPLEDDETVNHVLELLSQSGG 309
>pdb|3RMG|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Bacteroides Thetaiotaomicron
pdb|3RMG|B Chain B, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Bacteroides Thetaiotaomicron
Length = 334
Score = 45.8 bits (107), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 39/133 (29%), Positives = 60/133 (45%), Gaps = 8/133 (6%)
Query: 11 EVAFE--YGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPE-L 67
EVAF G +GI FQ+ DD+ D+ S +GKPT D+ G T P L+A +
Sbjct: 195 EVAFARLLGEYIGICFQIKDDIFDYFDSK-KIGKPTGNDMLEGKLTLPALYALNTTKDAW 253
Query: 68 NPMIMRRFQE----PGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAESPYQKG 123
I + +E P ++ + EF + G+E ++ +A L + L +S
Sbjct: 254 AEQIAFKVKEGTATPDEIVRLIEFTKDNGGIEYACRTIEQYKKKAFDLLAALPDSNICLA 313
Query: 124 LVVLTDLVLNRMK 136
L D V+ R K
Sbjct: 314 LRTYLDYVVAREK 326
>pdb|2FOR|A Chain A, Crystal Structure Of The Shigella Flexneri Farnesyl
Pyrophosphate Synthase Complex With An Isopentenyl
Pyrophosphate
pdb|2FOR|B Chain B, Crystal Structure Of The Shigella Flexneri Farnesyl
Pyrophosphate Synthase Complex With An Isopentenyl
Pyrophosphate
Length = 323
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 31/49 (63%)
Query: 15 EYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 63
+Y ++G+AFQ+ DD+LD + + +GK AD +LG +T P L E+
Sbjct: 234 KYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALLGLEQ 282
>pdb|3KRA|A Chain A, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Magnesium
pdb|3KRA|D Chain D, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Magnesium
pdb|3KRC|A Chain A, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Ipp
pdb|3KRC|D Chain D, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Ipp
pdb|3KRF|A Chain A, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Magnesium, Ipp, And Dmaspp (I)
pdb|3KRF|D Chain D, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Magnesium, Ipp, And Dmaspp (I)
pdb|3KRO|A Chain A, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Magnesium, Ipp, And Dmaspp (Ii)
pdb|3KRO|D Chain D, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Magnesium, Ipp, And Dmaspp (Ii)
pdb|3KRP|A Chain A, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Magnesium And Gpp
pdb|3KRP|D Chain D, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Magnesium And Gpp
pdb|3OAB|A Chain A, Mint Deletion Mutant Of Heterotetrameric Geranyl
Pyrophosphate Synthase In Complex With Ligands
pdb|3OAB|D Chain D, Mint Deletion Mutant Of Heterotetrameric Geranyl
Pyrophosphate Synthase In Complex With Ligands
pdb|3OAC|A Chain A, Mint Deletion Mutant Of Heterotetrameric Geranyl
Pyrophosphate Synthase In Complex With Ligands
pdb|3OAC|D Chain D, Mint Deletion Mutant Of Heterotetrameric Geranyl
Pyrophosphate Synthase In Complex With Ligands
Length = 295
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 37/77 (48%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
+LGG ++ ++ +G+ FQ+VDD+LD SS +GK DL T P L
Sbjct: 194 ILGGGKEEEVAKLRKFANCIGLLFQVVDDILDVTKSSKELGKTAGKDLVADKTTYPKLIG 253
Query: 61 CEKFPELNPMIMRRFQE 77
EK E + R QE
Sbjct: 254 VEKSKEFADRLNREAQE 270
>pdb|1RQI|A Chain A, Active Conformation Of Farnesyl Pyrophosphate Synthase
Bound To Isopentyl Pyrophosphate And Dimethylallyl S-
Thiolodiphosphate
pdb|1RQI|B Chain B, Active Conformation Of Farnesyl Pyrophosphate Synthase
Bound To Isopentyl Pyrophosphate And Dimethylallyl S-
Thiolodiphosphate
Length = 300
Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 31/49 (63%)
Query: 15 EYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 63
+Y ++G+AFQ+ DD+LD + + +GK AD +LG +T P L E+
Sbjct: 211 KYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALLGLEQ 259
>pdb|1RQJ|A Chain A, Active Conformation Of Farnesyl Pyrophosphate Synthase
Bound To Isopentyl Pyrophosphate And Risedronate
pdb|1RQJ|B Chain B, Active Conformation Of Farnesyl Pyrophosphate Synthase
Bound To Isopentyl Pyrophosphate And Risedronate
Length = 299
Score = 44.7 bits (104), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 31/49 (63%)
Query: 15 EYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 63
+Y ++G+AFQ+ DD+LD + + +GK AD +LG +T P L E+
Sbjct: 210 KYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALLGLEQ 258
>pdb|3LK5|A Chain A, Crystal Structure Of Putative Geranylgeranyl Pyrophosphate
Synthase From Corynebacterium Glutamicum
pdb|3QQV|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Corynebacterium Glutamicum Complexed With Isoprenyl
Diphosphate And Magnesium
Length = 380
Score = 42.7 bits (99), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 34/68 (50%)
Query: 2 LGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFAC 61
+ G +L + YG ++GIAFQL DDLL GKP D++ G T + A
Sbjct: 231 IAGGSPQLIDALLHYGHDIGIAFQLRDDLLGVFGDPAITGKPAGDDIREGKRTVLLALAL 290
Query: 62 EKFPELNP 69
++ + +P
Sbjct: 291 QRADKQSP 298
>pdb|3PKO|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367 Complexed With
Citrate
pdb|3PKO|B Chain B, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367 Complexed With
Citrate
Length = 334
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 36/135 (26%), Positives = 63/135 (46%), Gaps = 2/135 (1%)
Query: 2 LGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFAC 61
L GA + + + G +G A+Q++DD+LD+ KP DL+ G+ + P+L +
Sbjct: 198 LAGAPQSVIDRTRDIGIAIGCAYQMLDDILDYAGDPKRTQKPVLEDLRSGVYSLPLLLSL 257
Query: 62 EKFPELNPMIMRRFQEPG--DVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAESP 119
P ++++ Q D++ V + G+ K LA+ + A+ L L
Sbjct: 258 SHAPRDFHKLLKKKQAMTLEDIKHVQALVAQYDGVGAAKQLAQDYTDRALTLIQQLPVGS 317
Query: 120 YQKGLVVLTDLVLNR 134
Q+ L LT L+L R
Sbjct: 318 AQQSLEQLTRLLLRR 332
>pdb|3N3D|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367
pdb|3N3D|B Chain B, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367
Length = 335
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 36/135 (26%), Positives = 63/135 (46%), Gaps = 2/135 (1%)
Query: 2 LGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFAC 61
L GA + + + G +G A+Q++DD+LD+ KP DL+ G+ + P+L +
Sbjct: 191 LAGAPQSVIDRTRDIGIAIGCAYQMLDDILDYAGDPKRTQKPVLEDLRSGVYSLPLLLSL 250
Query: 62 EKFPELNPMIMRRFQEPG--DVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAESP 119
P ++++ Q D++ V + G+ K LA+ + A+ L L
Sbjct: 251 SHAPRDFHKLLKKKQAMTLEDIKHVQALVAQYDGVGAAKQLAQDYTDRALTLIQQLPVGS 310
Query: 120 YQKGLVVLTDLVLNR 134
Q+ L LT L+L R
Sbjct: 311 AQQSLEQLTRLLLRR 325
>pdb|2H8O|A Chain A, The 1.6a Crystal Structure Of The Geranyltransferase From
Agrobacterium Tumefaciens
Length = 335
Score = 40.0 bits (92), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 22/55 (40%), Positives = 29/55 (52%), Gaps = 4/55 (7%)
Query: 16 YGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVL----FACEKFPE 66
+G +G++FQL DDLLD + + MGK T D G T L +A EK E
Sbjct: 250 FGEKIGLSFQLADDLLDLTADAATMGKATGKDAARGKGTLVALRGEAWAREKLQE 304
>pdb|4F62|A Chain A, Crystal Structure Of A Putative Farnesyl-Diphosphate
Synthase From Marinomonas Sp. Med121 (Target Efi-501980)
pdb|4F62|B Chain B, Crystal Structure Of A Putative Farnesyl-Diphosphate
Synthase From Marinomonas Sp. Med121 (Target Efi-501980)
Length = 317
Score = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 39/79 (49%), Gaps = 5/79 (6%)
Query: 16 YGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELNPMIMRRF 75
Y +G+AFQ+ DD++D S ++ +GK +D + AT P L + L + R
Sbjct: 210 YAHAIGLAFQVQDDIIDLTSDTETLGKTQFSDAEANKATYPKLLGLDGAKAL----VVRL 265
Query: 76 QEPGDVEKAFEFVHKSQGL 94
E + + EF KSQ L
Sbjct: 266 HEQA-IAQISEFGDKSQPL 283
>pdb|3NPK|A Chain A, The Crystal Structure Of Geranyltranstransferase From
Campylobacter Jejuni
pdb|3NPK|B Chain B, The Crystal Structure Of Geranyltranstransferase From
Campylobacter Jejuni
Length = 291
Score = 37.4 bits (85), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 42/84 (50%), Gaps = 13/84 (15%)
Query: 6 DDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLK-------LGLATA--- 55
+++ S ++ G LG+ FQ+ DD++D +S + GKPT D+ LGL A
Sbjct: 193 NNEESNQIYKLGLKLGLIFQINDDIIDVTTSQEQSGKPTNNDIHKNSFVNLLGLEQAIKT 252
Query: 56 --PVLFACEK-FPELNPMIMRRFQ 76
+L CE+ +LN + + Q
Sbjct: 253 KENLLNECEQDLEKLNEKLAQXIQ 276
>pdb|3IPI|A Chain A, Crystal Structure Of A Geranyltranstransferase From The
Methanosarcina Mazei
Length = 295
Score = 37.4 bits (85), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 25/32 (78%)
Query: 3 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI 34
GGA+++L+E +G LG A+Q+VDD+L+F+
Sbjct: 182 GGAEEELAERFSHFGNALGTAYQIVDDILEFL 213
>pdb|3M9U|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367
pdb|3M9U|B Chain B, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367
pdb|3M9U|C Chain C, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367
pdb|3M9U|D Chain D, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367
pdb|3PDE|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367 Complexed With
Isoprenyl Diphosphate And Magnesium
pdb|3PDE|B Chain B, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367 Complexed With
Isoprenyl Diphosphate And Magnesium
pdb|3PDE|C Chain C, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367 Complexed With
Isoprenyl Diphosphate And Magnesium
pdb|3PDE|D Chain D, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367 Complexed With
Isoprenyl Diphosphate And Magnesium
Length = 309
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 26/47 (55%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAAD 47
+LG A + ++ G+AFQ+ DD+LD +SS MGK T D
Sbjct: 198 ILGQAPEAQWPAYLQFADAFGLAFQIYDDILDVVSSPAEMGKATQKD 244
>pdb|3P8L|A Chain A, Crystal Structure Of Polyprenyl Synthase From Enterococcus
Faecalis V583
pdb|3P8L|B Chain B, Crystal Structure Of Polyprenyl Synthase From Enterococcus
Faecalis V583
Length = 302
Score = 36.6 bits (83), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 25/47 (53%)
Query: 15 EYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFAC 61
++ + G+AFQ+ DDLLD S+ +GK D L +T P L
Sbjct: 213 QFAHHYGLAFQIRDDLLDATSTEADLGKKVGRDEALNKSTYPALLGI 259
>pdb|3LJI|A Chain A, Crystal Structure Of Putative Geranyltranstransferase From
Pseudomonas Fluorescens Pf-5
pdb|3LSN|A Chain A, Crystal Structure Of Putative Geranyltranstransferase From
Pseudomonas Fluorescens Pf-5 Complexed With Magnesium
Length = 304
Score = 36.2 bits (82), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 25/44 (56%)
Query: 16 YGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLF 59
Y + +G+AFQ+ DD+LD S + +GK AD+ T P L
Sbjct: 211 YAQAIGLAFQVQDDILDVESDTATLGKRQGADIARDKPTYPALL 254
>pdb|3P41|A Chain A, Crystal Structure Of Polyprenyl Synthetase From
Pseudomonas Fluorescens Pf-5 Complexed With Magnesium
And Isoprenyl Pyrophosphate
Length = 303
Score = 36.2 bits (82), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 25/44 (56%)
Query: 16 YGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLF 59
Y + +G+AFQ+ DD+LD S + +GK AD+ T P L
Sbjct: 218 YAQAIGLAFQVQDDILDVESDTATLGKRQGADIARDKPTYPALL 261
>pdb|3LOM|A Chain A, Crystal Structure Of Geranyltransferase From Legionella
Pneumophila
pdb|3LOM|B Chain B, Crystal Structure Of Geranyltransferase From Legionella
Pneumophila
Length = 313
Score = 35.4 bits (80), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 28/51 (54%)
Query: 16 YGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPE 66
YG+++G+ FQ+ DD LD + + +GK ++D T LF ++ E
Sbjct: 218 YGKHIGLVFQMQDDYLDLYAPTQILGKGRSSDQANQKTTFATLFNKQQLEE 268
>pdb|1RTR|A Chain A, Crystal Structure Of S. Aureus Farnesyl Pyrophosphate
Synthase
pdb|1RTR|B Chain B, Crystal Structure Of S. Aureus Farnesyl Pyrophosphate
Synthase
Length = 301
Score = 34.3 bits (77), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 27/59 (45%)
Query: 2 LGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
+ DD E Y +LG+ FQ+ DDLLD +GK +DL+ +T L
Sbjct: 192 IANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVGSDLENNKSTYVSLLG 250
>pdb|1WMW|A Chain A, Crystal Structure Of Geranulgeranyl Diphosphate Synthase
From Thermus Thermophilus
pdb|1WMW|B Chain B, Crystal Structure Of Geranulgeranyl Diphosphate Synthase
From Thermus Thermophilus
pdb|1WMW|C Chain C, Crystal Structure Of Geranulgeranyl Diphosphate Synthase
From Thermus Thermophilus
pdb|1WMW|D Chain D, Crystal Structure Of Geranulgeranyl Diphosphate Synthase
From Thermus Thermophilus
Length = 330
Score = 34.3 bits (77), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 15 EYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFP 65
E G LG AFQ+VDD+L+ + +A GK A DL G T +L E+ P
Sbjct: 199 EGGLRLGTAFQIVDDVLN-LEGGEAYGKERAGDLYEGKRTLILLRFLEEAP 248
>pdb|2J1P|A Chain A, Geranylgeranyl Diphosphate Synthase From Sinapis Alba In
Complex With Ggpp
pdb|2J1P|B Chain B, Geranylgeranyl Diphosphate Synthase From Sinapis Alba In
Complex With Ggpp
Length = 293
Score = 33.9 bits (76), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 24/37 (64%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSS 37
++GG D+ E ++ R +G+ FQ+VDD+LD SS
Sbjct: 206 IIGGGSDEEIERLRKFARCIGLLFQVVDDILDVTKSS 242
>pdb|3UCA|A Chain A, Crystal Structure Of Isoprenoid Synthase (Target
Efi-501974) From Clostridium Perfringens
pdb|3UCA|B Chain B, Crystal Structure Of Isoprenoid Synthase (Target
Efi-501974) From Clostridium Perfringens
Length = 324
Score = 33.9 bits (76), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 26/48 (54%)
Query: 16 YGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 63
+G LG+AFQ+ DD+LD + ++ +GK D + +F E+
Sbjct: 239 FGYKLGLAFQIKDDILDVVGNAKDLGKNVHKDQESNKNNYITIFGLEE 286
>pdb|3TS7|A Chain A, Crystal Structure Of Farnesyl Diphosphate Synthase (Target
Efi-501951) From Methylococcus Capsulatus
pdb|3TS7|B Chain B, Crystal Structure Of Farnesyl Diphosphate Synthase (Target
Efi-501951) From Methylococcus Capsulatus
Length = 324
Score = 32.3 bits (72), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 28/58 (48%), Gaps = 4/58 (6%)
Query: 15 EYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLF----ACEKFPELN 68
Y + +G+AFQ+ DD+LD S + +GK D P L A EK E++
Sbjct: 216 HYAKCIGLAFQIQDDILDEESDTQTLGKTRGKDRDHNKPNYPALLGLSGAKEKAEEMH 273
>pdb|2J1O|A Chain A, Geranylgeranyl Diphosphate Synthase From Sinapis Alba
Length = 268
Score = 32.3 bits (72), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 28/43 (65%), Gaps = 1/43 (2%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKP 43
++GG D+ E ++ R +G+ FQ+VDD+LD ++ +D + P
Sbjct: 181 IIGGGSDEEIERLRKFARCIGLLFQVVDDILD-VTIADKLTYP 222
>pdb|1GPJ|A Chain A, Glutamyl-Trna Reductase From Methanopyrus Kandleri
Length = 404
Score = 32.0 bits (71), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 25/101 (24%), Positives = 49/101 (48%), Gaps = 3/101 (2%)
Query: 7 DKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPE 66
++ E A E R+LG D+L+D ++ SD + TAA + + V A K
Sbjct: 198 NRTYERAVELARDLGGEAVRFDELVDHLARSDVVVSATAAPHPV-IHVDDVREALRKRDR 256
Query: 67 LNPMIMRRFQEPGDVEKAFEFVH--KSQGLEQTKFLARKHC 105
+P+++ P DVE+ E + + + ++ + +AR++
Sbjct: 257 RSPILIIDIANPRDVEEGVENIEDVEVRTIDDLRVIARENL 297
>pdb|3M0G|A Chain A, Crystal Structure Of Putative Farnesyl Diphosphate
Synthase From Rhodobacter Capsulatus
pdb|3M0G|B Chain B, Crystal Structure Of Putative Farnesyl Diphosphate
Synthase From Rhodobacter Capsulatus
Length = 297
Score = 32.0 bits (71), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 22/39 (56%)
Query: 16 YGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLAT 54
Y LG+AFQ+ DD+LD + +A GK D + AT
Sbjct: 204 YATALGLAFQIADDILDVEGNEEAAGKRLGKDAEAHKAT 242
>pdb|3LVS|A Chain A, Crystal Structure Of Farnesyl Diphosphate Synthase From
Rhodobacter Capsulatus Sb1003
pdb|3LVS|B Chain B, Crystal Structure Of Farnesyl Diphosphate Synthase From
Rhodobacter Capsulatus Sb1003
Length = 298
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 22/39 (56%)
Query: 16 YGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLAT 54
Y LG+AFQ+ DD+LD + +A GK D + AT
Sbjct: 205 YATALGLAFQIADDILDVEGNEEAAGKRLGKDAEAHKAT 243
>pdb|3Q1O|A Chain A, Crystal Structure Of Geranyltransferase From Helicobacter
Pylori Complexed With Magnesium And Isoprenyl
Diphosphate
pdb|3Q1O|B Chain B, Crystal Structure Of Geranyltransferase From Helicobacter
Pylori Complexed With Magnesium And Isoprenyl
Diphosphate
pdb|3Q1O|C Chain C, Crystal Structure Of Geranyltransferase From Helicobacter
Pylori Complexed With Magnesium And Isoprenyl
Diphosphate
pdb|3Q1O|D Chain D, Crystal Structure Of Geranyltransferase From Helicobacter
Pylori Complexed With Magnesium And Isoprenyl
Diphosphate
Length = 310
Score = 31.6 bits (70), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 25/45 (55%)
Query: 3 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAAD 47
G D++L + +G +G+ FQ++DD++D + GK T D
Sbjct: 212 GIKDEELFKWLQAFGLKMGLCFQVLDDIIDVTQDEEESGKTTHLD 256
>pdb|3LLW|A Chain A, Crystal Structure Of Geranyltransferase From Helicobacter
Pylori 26695
pdb|3LLW|B Chain B, Crystal Structure Of Geranyltransferase From Helicobacter
Pylori 26695
pdb|3LLW|C Chain C, Crystal Structure Of Geranyltransferase From Helicobacter
Pylori 26695
pdb|3LLW|D Chain D, Crystal Structure Of Geranyltransferase From Helicobacter
Pylori 26695
Length = 311
Score = 31.6 bits (70), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 25/45 (55%)
Query: 3 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAAD 47
G D++L + +G +G+ FQ++DD++D + GK T D
Sbjct: 205 GIKDEELFKWLQAFGLKMGLCFQVLDDIIDVTQDEEESGKTTHLD 249
>pdb|2FTZ|A Chain A, Crystal Structure Of Geranyltranstransferase (Ec 2.5.1.10)
(Tm0161) From Thermotoga Maritima At 1.90 A Resolution
Length = 284
Score = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 17 GRNLGIAFQLVDDLLDFISSSDAMGKPTAAD 47
G G+AFQ+ DDL D + S + +GK D
Sbjct: 202 GEXFGVAFQIYDDLXDILGSFEKVGKDLGKD 232
>pdb|2Q80|A Chain A, Crystal Structure Of Human Geranylgeranyl Pyrophosphate
Synthase Bound To Ggpp
pdb|2Q80|B Chain B, Crystal Structure Of Human Geranylgeranyl Pyrophosphate
Synthase Bound To Ggpp
pdb|2Q80|C Chain C, Crystal Structure Of Human Geranylgeranyl Pyrophosphate
Synthase Bound To Ggpp
pdb|2Q80|D Chain D, Crystal Structure Of Human Geranylgeranyl Pyrophosphate
Synthase Bound To Ggpp
pdb|2Q80|E Chain E, Crystal Structure Of Human Geranylgeranyl Pyrophosphate
Synthase Bound To Ggpp
pdb|2Q80|F Chain F, Crystal Structure Of Human Geranylgeranyl Pyrophosphate
Synthase Bound To Ggpp
Length = 301
Score = 30.0 bits (66), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 31/66 (46%), Gaps = 2/66 (3%)
Query: 20 LGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELNPM--IMRRFQE 77
LG+ FQ+ DD + S + K DL G + P + A PE + I+R+ E
Sbjct: 181 LGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAIWSRPESTQVQNILRQRTE 240
Query: 78 PGDVEK 83
D++K
Sbjct: 241 NIDIKK 246
>pdb|1VPQ|A Chain A, Crystal Structure Of A Duf72 Family Protein (tm1631) From
Thermotoga Maritima Msb8 At 2.20 A Resolution
Length = 273
Score = 28.9 bits (63), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 27/62 (43%), Gaps = 3/62 (4%)
Query: 48 LKLGLATAPVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVE 107
LK+ LA P F KF N + + +E E A EF H S E+T R H +
Sbjct: 120 LKMTLAQFPFSF---KFSRKNVEYLEKLRESYPYELAVEFRHYSWDREETYEFLRNHGIT 176
Query: 108 AV 109
V
Sbjct: 177 FV 178
>pdb|3SBT|A Chain A, Crystal Structure Of A Aar2-prp8 Complex
Length = 260
Score = 28.1 bits (61), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 20/38 (52%)
Query: 7 DKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPT 44
DKLS+V + + F + DD LD ISS A + T
Sbjct: 140 DKLSDVVMKATEPQMVLFNIYDDWLDRISSYTAFSRLT 177
>pdb|3E9P|A Chain A, Crystal Structure Of Yeast Prp8, Residues 1827-2092
pdb|3E9P|B Chain B, Crystal Structure Of Yeast Prp8, Residues 1827-2092
Length = 255
Score = 28.1 bits (61), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 20/38 (52%)
Query: 7 DKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPT 44
DKLS+V + + F + DD LD ISS A + T
Sbjct: 140 DKLSDVVMKATEPQMVLFNIYDDWLDRISSYTAFSRLT 177
>pdb|3E66|A Chain A, Crystal Structure Of The Beta-Finger Domain Of Yeast Prp8
pdb|3E66|B Chain B, Crystal Structure Of The Beta-Finger Domain Of Yeast Prp8
Length = 282
Score = 28.1 bits (61), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 20/38 (52%)
Query: 7 DKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPT 44
DKLS+V + + F + DD LD ISS A + T
Sbjct: 159 DKLSDVVMKATEPQMVLFNIYDDWLDRISSYTAFSRLT 196
>pdb|4EX6|A Chain A, Crystal Structure Of The Alnumycin P Phosphatase Alnb
pdb|4EX7|A Chain A, Crystal Structure Of The Alnumycin P Phosphatase In
Complex With Free Phosphate
Length = 237
Score = 28.1 bits (61), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 42/95 (44%), Gaps = 6/95 (6%)
Query: 6 DDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFP 65
D +++E EYGR G + L + + + + +AA +L +AT+ V A
Sbjct: 79 DPRVAEATEEYGRRFGAHVRAAGPRLLYPGVLEGLDRLSAAGFRLAMATSKVEKAARAIA 138
Query: 66 ELNPMIMRRFQEPGD--VEKAFEF----VHKSQGL 94
EL + R GD VE+ +H ++GL
Sbjct: 139 ELTGLDTRLTVIAGDDSVERGKPHPDMALHVARGL 173
>pdb|3E9O|A Chain A, Crystal Structure Of Yeast Prp8, Residues 1836-2092
Length = 258
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 20/38 (52%)
Query: 7 DKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPT 44
DKLS+V + + F + DD LD ISS A + T
Sbjct: 143 DKLSDVVXKATEPQXVLFNIYDDWLDRISSYTAFSRLT 180
>pdb|4I43|B Chain B, Crystal Structure Of Prp8:aar2 Complex
Length = 1564
Score = 27.3 bits (59), Expect = 2.5, Method: Composition-based stats.
Identities = 15/38 (39%), Positives = 20/38 (52%)
Query: 7 DKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPT 44
DKLS+V + + F + DD LD ISS A + T
Sbjct: 1123 DKLSDVVMKATEPQMVLFNIYDDWLDRISSYTAFSRLT 1160
>pdb|3SBG|A Chain A, Crystal Structure Of A Prp8 C-Terminal Fragment
Length = 565
Score = 27.3 bits (59), Expect = 2.7, Method: Composition-based stats.
Identities = 15/38 (39%), Positives = 20/38 (52%)
Query: 7 DKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPT 44
DKLS+V + + F + DD LD ISS A + T
Sbjct: 140 DKLSDVVMKATEPQMVLFNIYDDWLDRISSYTAFSRLT 177
>pdb|1HYB|A Chain A, Crystal Structure Of An Active Site Mutant Of
Methanobacterium Thermoautotrophicum Nicotinamide
Mononucleotide Adenylyltransferase
Length = 181
Score = 26.9 bits (58), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 7/60 (11%)
Query: 53 ATAPVLFACEKFPELNPMIMRRFQEPGDV-----EKAFEFVHKSQGLEQTKFLARKHCVE 107
TAP LF +++ + RR + GD E E + + G+E+ K LA+K E
Sbjct: 119 VTAPPLFYRDRYSGTE--VRRRMLDDGDWRSLLPESVVEVIDEINGVERIKHLAKKEVSE 176
>pdb|1M8K|A Chain A, Crystal Structure Of Methanobacterium Thermoautotrophicum
Nicotinamide Mononucleotide Adenylyltransferase Mutant
H19a Complexed With Nad
pdb|1M8K|B Chain B, Crystal Structure Of Methanobacterium Thermoautotrophicum
Nicotinamide Mononucleotide Adenylyltransferase Mutant
H19a Complexed With Nad
pdb|1M8K|C Chain C, Crystal Structure Of Methanobacterium Thermoautotrophicum
Nicotinamide Mononucleotide Adenylyltransferase Mutant
H19a Complexed With Nad
Length = 181
Score = 26.9 bits (58), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 7/60 (11%)
Query: 53 ATAPVLFACEKFPELNPMIMRRFQEPGDV-----EKAFEFVHKSQGLEQTKFLARKHCVE 107
TAP LF +++ + RR + GD E E + + G+E+ K LA+K E
Sbjct: 119 VTAPPLFYRDRYSGTE--VRRRMLDDGDWRSLLPESVVEVIDEINGVERIKHLAKKEVSE 176
>pdb|1M8J|A Chain A, Crystal Structure Of Methanobacterium Thermoautotrophicum
Nicotinamide Mononucleotide Adenylyltransferase Mutant
R136a Complexed With Nad
Length = 181
Score = 26.9 bits (58), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 7/60 (11%)
Query: 53 ATAPVLFACEKFPELNPMIMRRFQEPGDV-----EKAFEFVHKSQGLEQTKFLARKHCVE 107
TAP LF +++ + RR + GD E E + + G+E+ K LA+K E
Sbjct: 119 VTAPPLFYRDRYSGTE--VARRMLDDGDWRSLLPESVVEVIDEINGVERIKHLAKKEVSE 176
>pdb|1M8F|A Chain A, Crystal Structure Of Methanobacterium Thermoautotrophicum
Nicotinamide Mononucleotide Adenylyltransferase Mutant
R11a Complexed With Nad
Length = 181
Score = 26.9 bits (58), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 7/60 (11%)
Query: 53 ATAPVLFACEKFPELNPMIMRRFQEPGDV-----EKAFEFVHKSQGLEQTKFLARKHCVE 107
TAP LF +++ + RR + GD E E + + G+E+ K LA+K E
Sbjct: 119 VTAPPLFYRDRYSGTE--VRRRMLDDGDWRSLLPESVVEVIDEINGVERIKHLAKKEVSE 176
>pdb|1M8G|A Chain A, Crystal Structure Of Methanobacterium Thermoautotrophicum
Nicotinamide Mononucleotide Adenylyltransferase Mutant
R11k Complexed With Nad
Length = 181
Score = 26.9 bits (58), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 7/60 (11%)
Query: 53 ATAPVLFACEKFPELNPMIMRRFQEPGDV-----EKAFEFVHKSQGLEQTKFLARKHCVE 107
TAP LF +++ + RR + GD E E + + G+E+ K LA+K E
Sbjct: 119 VTAPPLFYRDRYSGTE--VRRRMLDDGDWRSLLPESVVEVIDEINGVERIKHLAKKEVSE 176
>pdb|1EJ2|A Chain A, Crystal Structure Of Methanobacterium Thermoautotrophicum
Nicotinamide Mononucleotide Adenylyltransferase With
Bound Nad+
Length = 181
Score = 26.9 bits (58), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 7/60 (11%)
Query: 53 ATAPVLFACEKFPELNPMIMRRFQEPGDV-----EKAFEFVHKSQGLEQTKFLARKHCVE 107
TAP LF +++ + RR + GD E E + + G+E+ K LA+K E
Sbjct: 119 VTAPPLFYRDRYSGTE--VRRRMLDDGDWRSLLPESVVEVIDEINGVERIKHLAKKEVSE 176
>pdb|3ZEF|B Chain B, Crystal Structure Of Prp8:aar2 Complex: Second Crystal Form
At 3.1 Angstrom Resolution
pdb|3ZEF|E Chain E, Crystal Structure Of Prp8:aar2 Complex: Second Crystal Form
At 3.1 Angstrom Resolution
Length = 1531
Score = 26.6 bits (57), Expect = 5.1, Method: Composition-based stats.
Identities = 14/38 (36%), Positives = 20/38 (52%)
Query: 7 DKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPT 44
DKLS+V + + F + DD LD +SS A + T
Sbjct: 1090 DKLSDVVMKATEPQMVLFNIYDDWLDRLSSYTAFSRLT 1127
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
0.321 0.138 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,675,452
Number of Sequences: 62578
Number of extensions: 131744
Number of successful extensions: 354
Number of sequences better than 100.0: 73
Number of HSP's better than 100.0 without gapping: 61
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 273
Number of HSP's gapped (non-prelim): 74
length of query: 136
length of database: 14,973,337
effective HSP length: 88
effective length of query: 48
effective length of database: 9,466,473
effective search space: 454390704
effective search space used: 454390704
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: 46 (22.3 bits)