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= psy13097
(123 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1U2R|A Chain A, Crystal Structure Of Adp-Ribosylated Ribosomal Translocase
From Saccharomyces Cerevisiae
pdb|1ZM2|A Chain A, Structure Of Adp-ribosylated Eef2 In Complex With
Catalytic Fragment Of Eta
pdb|1ZM2|C Chain C, Structure Of Adp-ribosylated Eef2 In Complex With
Catalytic Fragment Of Eta
pdb|1ZM2|E Chain E, Structure Of Adp-ribosylated Eef2 In Complex With
Catalytic Fragment Of Eta
pdb|1ZM3|A Chain A, Structure Of The Apo Eef2-Eta Complex
pdb|1ZM3|C Chain C, Structure Of The Apo Eef2-Eta Complex
pdb|1ZM3|E Chain E, Structure Of The Apo Eef2-Eta Complex
pdb|1ZM4|A Chain A, Structure Of The Eef2-Eta-Btad Complex
pdb|1ZM4|C Chain C, Structure Of The Eef2-Eta-Btad Complex
pdb|1ZM4|E Chain E, Structure Of The Eef2-Eta-Btad Complex
pdb|1ZM9|A Chain A, Structure Of Eef2-Eta In Complex With Pj34
pdb|1ZM9|C Chain C, Structure Of Eef2-Eta In Complex With Pj34
pdb|1ZM9|E Chain E, Structure Of Eef2-Eta In Complex With Pj34
pdb|2P8X|T Chain T, Fitted Structure Of Adpr-Eef2 In The 80s:adpr-Eef2:gdpnp
Cryo-Em Reconstruction
pdb|2P8Y|T Chain T, Fitted Structure Of Adpr-Eef2 In The 80s:adpr-
Eef2:gdp:sordarin Cryo-Em Reconstruction
pdb|2P8Z|T Chain T, Fitted Structure Of Adpr-Eef2 In The 80s:adpr-
Eef2:gdpnp:sordarin Cryo-Em Reconstruction
pdb|3B78|A Chain A, Structure Of The Eef2-Exoa(R551h)-Nad+ Complex
pdb|3B78|C Chain C, Structure Of The Eef2-Exoa(R551h)-Nad+ Complex
pdb|3B78|E Chain E, Structure Of The Eef2-Exoa(R551h)-Nad+ Complex
pdb|3B82|A Chain A, Structure Of The Eef2-Exoa(E546h)-Nad+ Complex
pdb|3B82|C Chain C, Structure Of The Eef2-Exoa(E546h)-Nad+ Complex
pdb|3B82|E Chain E, Structure Of The Eef2-Exoa(E546h)-Nad+ Complex
pdb|3B8H|A Chain A, Structure Of The Eef2-Exoa(E546a)-Nad+ Complex
pdb|3B8H|C Chain C, Structure Of The Eef2-Exoa(E546a)-Nad+ Complex
pdb|3B8H|E Chain E, Structure Of The Eef2-Exoa(E546a)-Nad+ Complex
pdb|2ZIT|A Chain A, Structure Of The Eef2-Exoa-Nad+ Complex
pdb|2ZIT|C Chain C, Structure Of The Eef2-Exoa-Nad+ Complex
pdb|2ZIT|E Chain E, Structure Of The Eef2-Exoa-Nad+ Complex
Length = 842
Score = 72.0 bits (175), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 37/102 (36%), Positives = 57/102 (55%), Gaps = 16/102 (15%)
Query: 2 LYAVLGRRHGRIVYGDVTQGSVTFTVQAYLPVVESFSFAPEIRKSTSGLASPQLVFSHWE 61
+Y+VL ++ G++V + G+ FTV+AYLPV ESF F E+R++T G A PQ+VF HW
Sbjct: 743 IYSVLNKKRGQVVSEEQRPGTPLFTVKAYLPVNESFGFTGELRQATGGQAFPQMVFDHWS 802
Query: 62 VINIDPYWEPRTEEEYLHFGDKADTENRARKYMDSVRKRKGL 103
+ DP D ++A + + + RKR G+
Sbjct: 803 TLGSDPL----------------DPTSKAGEIVLAARKRHGM 828
>pdb|1N0V|C Chain C, Crystal Structure Of Elongation Factor 2
pdb|1N0V|D Chain D, Crystal Structure Of Elongation Factor 2
pdb|1N0U|A Chain A, Crystal Structure Of Yeast Elongation Factor 2 In Complex
With Sordarin
pdb|1S1H|T Chain T, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From
Yeast Obtained By Docking Atomic Models For Rna And
Protein Components Into A 11.7 A Cryo-Em Map. This File,
1s1h, Contains 40s Subunit. The 60s Ribosomal Subunit Is
In File 1s1i.
pdb|2E1R|A Chain A, Structure Of Eef2 In Complex With A Sordarin Derivative
pdb|2NPF|A Chain A, Structure Of Eef2 In Complex With Moriniafungin
pdb|2NPF|B Chain B, Structure Of Eef2 In Complex With Moriniafungin
pdb|2P8W|T Chain T, Fitted Structure Of Eef2 In The 80s:eef2:gdpnp Cryo-Em
Reconstruction
pdb|3DNY|T Chain T, Fitting Of The Eef2 Crystal Structure Into The Cryo-Em
Density Map Of The Eef2.80s.Alf4-.Gdp Complex
Length = 842
Score = 72.0 bits (175), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 37/102 (36%), Positives = 57/102 (55%), Gaps = 16/102 (15%)
Query: 2 LYAVLGRRHGRIVYGDVTQGSVTFTVQAYLPVVESFSFAPEIRKSTSGLASPQLVFSHWE 61
+Y+VL ++ G++V + G+ FTV+AYLPV ESF F E+R++T G A PQ+VF HW
Sbjct: 743 IYSVLNKKRGQVVSEEQRPGTPLFTVKAYLPVNESFGFTGELRQATGGQAFPQMVFDHWS 802
Query: 62 VINIDPYWEPRTEEEYLHFGDKADTENRARKYMDSVRKRKGL 103
+ DP D ++A + + + RKR G+
Sbjct: 803 TLGSDPL----------------DPTSKAGEIVLAARKRHGM 828
>pdb|2XEX|A Chain A, Crystal Structure Of Staphylococcus Aureus Elongation
Factor G
pdb|2XEX|B Chain B, Crystal Structure Of Staphylococcus Aureus Elongation
Factor G
Length = 693
Score = 32.0 bits (71), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 20/34 (58%)
Query: 27 VQAYLPVVESFSFAPEIRKSTSGLASPQLVFSHW 60
V AY+P+ E F +A +R +T G + + F H+
Sbjct: 642 VNAYVPLSEMFGYATSLRSNTQGRGTYTMYFDHY 675
>pdb|3ZZU|A Chain A, Crystal Structure Of Staphylococcus Aureus Elongation
Factor G With Mutations M16i And F88l
pdb|3ZZU|B Chain B, Crystal Structure Of Staphylococcus Aureus Elongation
Factor G With Mutations M16i And F88l
Length = 693
Score = 32.0 bits (71), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 20/34 (58%)
Query: 27 VQAYLPVVESFSFAPEIRKSTSGLASPQLVFSHW 60
V AY+P+ E F +A +R +T G + + F H+
Sbjct: 642 VNAYVPLSEMFGYATSLRSNTQGRGTYTMYFDHY 675
>pdb|3ZZT|A Chain A, Crystal Structure Of Staphylococcus Aureus Elongation
Factor G With A Fusidic-Acid-Resistant Mutation F88l
pdb|3ZZT|B Chain B, Crystal Structure Of Staphylococcus Aureus Elongation
Factor G With A Fusidic-Acid-Resistant Mutation F88l
Length = 693
Score = 32.0 bits (71), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 20/34 (58%)
Query: 27 VQAYLPVVESFSFAPEIRKSTSGLASPQLVFSHW 60
V AY+P+ E F +A +R +T G + + F H+
Sbjct: 642 VNAYVPLSEMFGYATSLRSNTQGRGTYTMYFDHY 675
>pdb|3ZZ0|A Chain A, Crystal Structure Of Ribosomal Elongation Factor (Ef)-G
From Staphylococcus Aureus With A Fusidic Acid
Hyper-Sensitivity Mutation M16i
pdb|3ZZ0|B Chain B, Crystal Structure Of Ribosomal Elongation Factor (Ef)-G
From Staphylococcus Aureus With A Fusidic Acid
Hyper-Sensitivity Mutation M16i
Length = 693
Score = 32.0 bits (71), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 20/34 (58%)
Query: 27 VQAYLPVVESFSFAPEIRKSTSGLASPQLVFSHW 60
V AY+P+ E F +A +R +T G + + F H+
Sbjct: 642 VNAYVPLSEMFGYATSLRSNTQGRGTYTMYFDHY 675
>pdb|2BM0|A Chain A, Ribosomal Elongation Factor G (Ef-G) Fusidic Acid
Resistant Mutant T84a
Length = 691
Score = 32.0 bits (71), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 32/56 (57%), Gaps = 2/56 (3%)
Query: 6 LGRRHGRIVYGDVTQGSVTFTVQAYLPVVESFSFAPEIRKSTSGLASPQLVFSHWE 61
L R G+I+ G +G+ ++A++P+ E F +A ++R T G S + F H++
Sbjct: 624 LNARRGQIL-GMEPRGNAQ-VIRAFVPLAEMFGYATDLRSKTQGRGSFVMFFDHYQ 677
>pdb|2BM1|A Chain A, Ribosomal Elongation Factor G (Ef-G) Fusidic Acid
Resistant Mutant G16v
Length = 691
Score = 32.0 bits (71), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 32/56 (57%), Gaps = 2/56 (3%)
Query: 6 LGRRHGRIVYGDVTQGSVTFTVQAYLPVVESFSFAPEIRKSTSGLASPQLVFSHWE 61
L R G+I+ G +G+ ++A++P+ E F +A ++R T G S + F H++
Sbjct: 624 LNARRGQIL-GMEPRGNAQ-VIRAFVPLAEMFGYATDLRSKTQGRGSFVMFFDHYQ 677
>pdb|3IZP|E Chain E, Conformation Of Ef-G During Translocation
Length = 688
Score = 32.0 bits (71), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 32/56 (57%), Gaps = 2/56 (3%)
Query: 6 LGRRHGRIVYGDVTQGSVTFTVQAYLPVVESFSFAPEIRKSTSGLASPQLVFSHWE 61
L R G+I+ G +G+ ++A++P+ E F +A ++R T G S + F H++
Sbjct: 624 LNARRGQIL-GMEPRGNAQ-VIRAFVPLAEMFGYATDLRSKTQGRGSFVMFFDHYQ 677
>pdb|1FNM|A Chain A, Structure Of Thermus Thermophilus Ef-G H573a
pdb|1PN6|A Chain A, Domain-Wise Fitting Of The Crystal Structure Of
T.Thermophilus Ef-G Into The Low Resolution Map Of The
Release Complex.Puromycin.Efg.Gdpnp Of E.Coli 70s
Ribosome
Length = 691
Score = 32.0 bits (71), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 32/56 (57%), Gaps = 2/56 (3%)
Query: 6 LGRRHGRIVYGDVTQGSVTFTVQAYLPVVESFSFAPEIRKSTSGLASPQLVFSHWE 61
L R G+I+ G +G+ ++A++P+ E F +A ++R T G S + F H++
Sbjct: 624 LNARRGQIL-GMEPRGNAQ-VIRAFVPLAEMFGYATDLRSKTQGRGSFVMFFDHYQ 677
>pdb|1KTV|A Chain A, Crystal Structure Of Elongation Factor G Dimer Without
Nucleotide
pdb|1KTV|B Chain B, Crystal Structure Of Elongation Factor G Dimer Without
Nucleotide
pdb|1DAR|A Chain A, Elongation Factor G In Complex With Gdp
pdb|1ELO|A Chain A, Elongation Factor G Without Nucleotide
pdb|2OM7|L Chain L, Structural Basis For Interaction Of The Ribosome With The
Switch Regions Of Gtp-Bound Elongation Factors
pdb|2WRI|Y Chain Y, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State (Part 1 Of 4).
pdb|2WRK|Y Chain Y, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State (Part 3 Of 4).
pdb|2XSY|Y Chain Y, Trna Tranlocation On The 70s Ribosome: The Pre-
Translocational Translocation Intermediate Ti(Pre)
pdb|2XUY|Y Chain Y, Trna Translocation On The 70s Ribosome: The Post-
Translocational Translocation Intermediate Ti(Post)
pdb|3J18|Y Chain Y, Structure Of The Bacterial Ribosome Complexed By
Tmrna-Smpb And Ef-G During Translocation And Mld-Loading
(30s Subunit)
Length = 691
Score = 32.0 bits (71), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 11/35 (31%), Positives = 22/35 (62%)
Query: 27 VQAYLPVVESFSFAPEIRKSTSGLASPQLVFSHWE 61
++A++P+ E F +A ++R T G S + F H++
Sbjct: 643 IRAFVPLAEMFGYATDLRSKTQGRGSFVMFFDHYQ 677
>pdb|1EFG|A Chain A, The Crystal Structure Of Elongation Factor G Complexed
With Gdp, At 2.7 Angstroms Resolution
pdb|2EFG|A Chain A, Translational Elongation Factor G Complexed With Gdp
pdb|1JQM|B Chain B, Fitting Of L11 Protein And Elongation Factor G (Ef-G) In
The Cryo-Em Map Of E. Coli 70s Ribosome Bound With Ef-G,
Gdp And Fusidic Acid
Length = 691
Score = 32.0 bits (71), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 11/35 (31%), Positives = 22/35 (62%)
Query: 27 VQAYLPVVESFSFAPEIRKSTSGLASPQLVFSHWE 61
++A++P+ E F +A ++R T G S + F H++
Sbjct: 643 IRAFVPLAEMFGYATDLRSKTQGRGSFVMFFDHYQ 677
>pdb|1ZN0|B Chain B, Coordinates Of Rrf And Ef-G Fitted Into Cryo-Em Map Of The
50s Subunit Bound With Both Ef-G (Gdpnp) And Rrf
Length = 655
Score = 32.0 bits (71), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 32/56 (57%), Gaps = 2/56 (3%)
Query: 6 LGRRHGRIVYGDVTQGSVTFTVQAYLPVVESFSFAPEIRKSTSGLASPQLVFSHWE 61
L R G+I+ G +G+ ++A++P+ E F +A ++R T G S + F H++
Sbjct: 591 LNARRGQIL-GMEPRGNAQ-VIRAFVPLAEMFGYATDLRSKTQGRGSFVMFFDHYQ 644
>pdb|2J7K|A Chain A, Crystal Structure Of The T84a Mutant Ef-G:gdpcp Complex
Length = 691
Score = 32.0 bits (71), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 32/56 (57%), Gaps = 2/56 (3%)
Query: 6 LGRRHGRIVYGDVTQGSVTFTVQAYLPVVESFSFAPEIRKSTSGLASPQLVFSHWE 61
L R G+I+ G +G+ ++A++P+ E F +A ++R T G S + F H++
Sbjct: 624 LNARRGQIL-GMEPRGNAQ-VIRAFVPLAEMFGYATDLRSKTQGRGSFVMFFDHYQ 677
>pdb|2BV3|A Chain A, Crystal Structure Of A Mutant Elongation Factor G Trapped
With A Gtp Analogue
Length = 691
Score = 32.0 bits (71), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 11/35 (31%), Positives = 22/35 (62%)
Query: 27 VQAYLPVVESFSFAPEIRKSTSGLASPQLVFSHWE 61
++A++P+ E F +A ++R T G S + F H++
Sbjct: 643 IRAFVPLAEMFGYATDLRSKTQGRGSFVMFFDHYQ 677
>pdb|1JQS|C Chain C, Fitting Of L11 Protein And Elongation Factor G (Domain
G' And V) In The Cryo-Em Map Of E. Coli 70s Ribosome
Bound With Ef-G And Gmppcp, A Nonhydrolysable Gtp
Analog
Length = 68
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 10/32 (31%), Positives = 19/32 (59%)
Query: 26 TVQAYLPVVESFSFAPEIRKSTSGLASPQLVF 57
++A++P+ E F +A ++R T G S + F
Sbjct: 37 VIRAFVPLAEMFGYATDLRSKTQGRGSFVMFF 68
>pdb|3PR3|A Chain A, Crystal Structure Of Plasmodium Falciparum
Glucose-6-Phosphate Isomerase (Pf14_0341) In Complex
With Fructose-6-Phosphate
pdb|3PR3|B Chain B, Crystal Structure Of Plasmodium Falciparum
Glucose-6-Phosphate Isomerase (Pf14_0341) In Complex
With Fructose-6-Phosphate
pdb|3QKI|A Chain A, Crystal Structure Of Glucose-6-Phosphate Isomerase
(Pf14_0341) From Plasmodium Falciparum 3d7
pdb|3QKI|B Chain B, Crystal Structure Of Glucose-6-Phosphate Isomerase
(Pf14_0341) From Plasmodium Falciparum 3d7
pdb|3QKI|C Chain C, Crystal Structure Of Glucose-6-Phosphate Isomerase
(Pf14_0341) From Plasmodium Falciparum 3d7
Length = 597
Score = 25.8 bits (55), Expect = 5.6, Method: Composition-based stats.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 4/56 (7%)
Query: 70 EPRTEEEYLHFGDKADTENRARK----YMDSVRKRKGLPVQDKLVAHAEKQRTVKR 121
E +T++ + DK +E+ +K YMD R+R +KLV +AE+ K+
Sbjct: 38 EEKTKDLKDYLNDKNRSESLIKKFKNFYMDLSRQRYSEKTLNKLVEYAEEVELKKK 93
>pdb|2CYB|A Chain A, Crystal Structure Of Tyrosyl-Trna Synthetase Complexed
With L-Tyrosine From Archaeoglobus Fulgidus
pdb|2CYB|B Chain B, Crystal Structure Of Tyrosyl-Trna Synthetase Complexed
With L-Tyrosine From Archaeoglobus Fulgidus
Length = 323
Score = 25.8 bits (55), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 86 TENRARKYMDSVRKRKGLPVQDKLV 110
T NRAR+ MD V +RK P+ +++
Sbjct: 133 TLNRARRSMDEVSRRKEDPMVSQMI 157
>pdb|2XHI|A Chain A, Separation-Of-Function Mutants Unravel The Dual Reaction
Mode Of Human 8-Oxoguanine Dna Glycosylase
Length = 360
Score = 25.8 bits (55), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 58 SHWEVINIDPYWEPRTEEEYLHF----GDKADTENRARKYMDSVRK 99
+HW + D W EE LH GDK+ +++VRK
Sbjct: 68 AHWSGVLADQVWTLTQTEEQLHCTVYRGDKSQASRPTPDELEAVRK 113
>pdb|2NOB|A Chain A, Structure Of Catalytically Inactive H270a Human 8-
Oxoguanine Glycosylase Crosslinked To 8-Oxoguanine Dna
Length = 325
Score = 25.8 bits (55), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 58 SHWEVINIDPYWEPRTEEEYLHF----GDKADTENRARKYMDSVRK 99
+HW + D W EE LH GDK+ +++VRK
Sbjct: 51 AHWSGVLADQVWTLTQTEEQLHCTVYRGDKSQASRPTPDELEAVRK 96
>pdb|1KO9|A Chain A, Native Structure Of The Human 8-Oxoguanine Dna
Glycosylase Hogg1
Length = 345
Score = 25.8 bits (55), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 58 SHWEVINIDPYWEPRTEEEYLHF----GDKADTENRARKYMDSVRK 99
+HW + D W EE LH GDK+ +++VRK
Sbjct: 53 AHWSGVLADQVWTLTQTEEQLHCTVYRGDKSQASRPTPDELEAVRK 98
>pdb|1N3A|A Chain A, Structural And Biochemical Exploration Of A Critical
Amino Acid In Human 8-Oxoguanine Glycosylase
Length = 317
Score = 25.8 bits (55), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 58 SHWEVINIDPYWEPRTEEEYLHF----GDKADTENRARKYMDSVRK 99
+HW + D W EE LH GDK+ +++VRK
Sbjct: 45 AHWSGVLADQVWTLTQTEEQLHCTVYRGDKSQASRPTPDELEAVRK 90
>pdb|2NOI|A Chain A, Structure Of G42a Human 8-Oxoguanine Glycosylase
Crosslinked To Undamaged G-Containing Dna
Length = 325
Score = 25.8 bits (55), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 58 SHWEVINIDPYWEPRTEEEYLHF----GDKADTENRARKYMDSVRK 99
+HW + D W EE LH GDK+ +++VRK
Sbjct: 51 AHWSGVLADQVWTLTQTEEQLHCTVYRGDKSQASRPTPDELEAVRK 96
>pdb|2NOF|A Chain A, Structure Of Q315f Human 8-oxoguanine Glycosylase
Proximal Crosslink To 8-oxoguanine Dna
Length = 325
Score = 25.8 bits (55), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 58 SHWEVINIDPYWEPRTEEEYLHF----GDKADTENRARKYMDSVRK 99
+HW + D W EE LH GDK+ +++VRK
Sbjct: 51 AHWSGVLADQVWTLTQTEEQLHCTVYRGDKSQASRPTPDELEAVRK 96
>pdb|1YQL|A Chain A, Catalytically Inactive Hogg1 Crosslinked With 7-Deaza-8-
Azaguanine Containing Dna
pdb|1YQM|A Chain A, Catalytically Inactive Human 8-Oxoguanine Glycosylase
Crosslinked To 7-Deazaguanine Containing Dna
pdb|1YQR|A Chain A, Catalytically Inactive Human 8-Oxoguanine Glycosylase
Crosslinked To Oxog Containing Dna
Length = 319
Score = 25.4 bits (54), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 58 SHWEVINIDPYWEPRTEEEYLHF----GDKADTENRARKYMDSVRK 99
+HW + D W EE LH GDK+ +++VRK
Sbjct: 45 AHWSGVLADQVWTLTQTEEQLHCTVYRGDKSQASRPTPDELEAVRK 90
>pdb|1YQK|A Chain A, Human 8-Oxoguanine Glycosylase Crosslinked With Guanine
Containing Dna
Length = 319
Score = 25.4 bits (54), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 58 SHWEVINIDPYWEPRTEEEYLHF----GDKADTENRARKYMDSVRK 99
+HW + D W EE LH GDK+ +++VRK
Sbjct: 45 AHWSGVLADQVWTLTQTEEQLHCTVYRGDKSQASRPTPDELEAVRK 90
>pdb|2NOL|A Chain A, Structure Of Catalytically Inactive Human 8-Oxoguanine
Glycosylase Distal Crosslink To Oxog Dna
Length = 325
Score = 25.4 bits (54), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 58 SHWEVINIDPYWEPRTEEEYLHF----GDKADTENRARKYMDSVRK 99
+HW + D W EE LH GDK+ +++VRK
Sbjct: 51 AHWSGVLADQVWTLTQTEEQLHCTVYRGDKSQASRPTPDELEAVRK 96
>pdb|1HU0|A Chain A, Crystal Structure Of An Hogg1-Dna Borohydride Trapped
Intermediate Complex
pdb|1LWV|A Chain A, Borohydride-Trapped Hogg1 Intermediate Structure Co-
Crystallized With 8-Aminoguanine
pdb|1LWW|A Chain A, Borohydride-Trapped Hogg1 Intermediate Structure Co-
Crystallized With 8-Bromoguanine
pdb|1LWY|A Chain A, Hogg1 Borohydride-Trapped Intermediate Without
8-Oxoguanine
Length = 324
Score = 25.4 bits (54), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 58 SHWEVINIDPYWEPRTEEEYLHF----GDKADTENRARKYMDSVRK 99
+HW + D W EE LH GDK+ +++VRK
Sbjct: 50 AHWSGVLADQVWTLTQTEEQLHCTVYRGDKSQASRPTPDELEAVRK 95
>pdb|1FN7|A Chain A, Coupling Of Damage Recognition And Catalysis By A Human
Base-Excision Dna Repair Protein
Length = 317
Score = 25.4 bits (54), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 58 SHWEVINIDPYWEPRTEEEYLHF----GDKADTENRARKYMDSVRK 99
+HW + D W EE LH GDK+ +++VRK
Sbjct: 45 AHWSGVLADQVWTLTQTEEQLHCTVYRGDKSQASRPTPDELEAVRK 90
>pdb|1EBM|A Chain A, Crystal Structure Of The Human 8-Oxoguanine Glycosylase
(Hogg1) Bound To A Substrate Oligonucleotide
Length = 317
Score = 25.4 bits (54), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 58 SHWEVINIDPYWEPRTEEEYLHF----GDKADTENRARKYMDSVRK 99
+HW + D W EE LH GDK+ +++VRK
Sbjct: 45 AHWSGVLADQVWTLTQTEEQLHCTVYRGDKSQASRPTPDELEAVRK 90
>pdb|1N39|A Chain A, Structural And Biochemical Exploration Of A Critical
Amino Acid In Human 8-Oxoguanine Glycosylase
pdb|1M3Q|A Chain A, Crystal Structure Of Hogg1 D268e Mutant With
Base-Excised Dna And 8-Aminoguanine
pdb|1M3H|A Chain A, Crystal Structure Of Hogg1 D268e Mutant With Product
Oligonucleotide
Length = 317
Score = 25.4 bits (54), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 58 SHWEVINIDPYWEPRTEEEYLHF----GDKADTENRARKYMDSVRK 99
+HW + D W EE LH GDK+ +++VRK
Sbjct: 45 AHWSGVLADQVWTLTQTEEQLHCTVYRGDKSQASRPTPDELEAVRK 90
>pdb|1N3C|A Chain A, Structural And Biochemical Exploration Of A Critical
Amino Acid In Human 8-oxoguanine Glycosylase
Length = 317
Score = 25.4 bits (54), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 58 SHWEVINIDPYWEPRTEEEYLHF----GDKADTENRARKYMDSVRK 99
+HW + D W EE LH GDK+ +++VRK
Sbjct: 45 AHWSGVLADQVWTLTQTEEQLHCTVYRGDKSQASRPTPDELEAVRK 90
>pdb|3KTU|A Chain A, Structure Of Human 8-Oxoguanine Glycosylase 1 Bound To
Fluorninated Oxog-Containing Dna
Length = 317
Score = 25.4 bits (54), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 58 SHWEVINIDPYWEPRTEEEYLHF----GDKADTENRARKYMDSVRK 99
+HW + D W EE LH GDK+ +++VRK
Sbjct: 45 AHWSGVLADQVWTLTQTEEQLHCTVYRGDKSQASRPTPDELEAVRK 90
>pdb|2NOE|A Chain A, Structure Of Catalytically Inactive G42a Human
8-Oxoguanine Glycosylase Complexed To 8-Oxoguanine Dna
Length = 325
Score = 25.4 bits (54), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 58 SHWEVINIDPYWEPRTEEEYLHF----GDKADTENRARKYMDSVRK 99
+HW + D W EE LH GDK+ +++VRK
Sbjct: 51 AHWSGVLADQVWTLTQTEEQLHCTVYRGDKSQASRPTPDELEAVRK 96
>pdb|2NOH|A Chain A, Structure Of Catalytically Inactive Q315a Human 8-
Oxoguanine Glycosylase Complexed To 8-oxoguanine Dna
Length = 325
Score = 25.4 bits (54), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 58 SHWEVINIDPYWEPRTEEEYLHF----GDKADTENRARKYMDSVRK 99
+HW + D W EE LH GDK+ +++VRK
Sbjct: 51 AHWSGVLADQVWTLTQTEEQLHCTVYRGDKSQASRPTPDELEAVRK 96
>pdb|2I5W|A Chain A, Structure Of Hogg1 Crosslinked To Dna Sampling A Normal
G Adjacent To An Oxog
Length = 315
Score = 25.4 bits (54), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 58 SHWEVINIDPYWEPRTEEEYLHF----GDKADTENRARKYMDSVRK 99
+HW + D W EE LH GDK+ +++VRK
Sbjct: 45 AHWSGVLADQVWTLTQTEEQLHCTVYRGDKSQASRPTPDELEAVRK 90
>pdb|2NOZ|A Chain A, Structure Of Q315f Human 8-Oxoguanine Glycosylase Distal
Crosslink To 8-Oxoguanine Dna
Length = 325
Score = 25.4 bits (54), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 58 SHWEVINIDPYWEPRTEEEYLHF----GDKADTENRARKYMDSVRK 99
+HW + D W EE LH GDK+ +++VRK
Sbjct: 51 AHWSGVLADQVWTLTQTEEQLHCTVYRGDKSQASRPTPDELEAVRK 96
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
0.318 0.134 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,687,573
Number of Sequences: 62578
Number of extensions: 147662
Number of successful extensions: 340
Number of sequences better than 100.0: 41
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 323
Number of HSP's gapped (non-prelim): 41
length of query: 123
length of database: 14,973,337
effective HSP length: 85
effective length of query: 38
effective length of database: 9,654,207
effective search space: 366859866
effective search space used: 366859866
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)