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= 027008
(229 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1L3A|A Chain A, Structure Of The Plant Transcriptional Regulator Pbf-2
pdb|1L3A|B Chain B, Structure Of The Plant Transcriptional Regulator Pbf-2
pdb|1L3A|C Chain C, Structure Of The Plant Transcriptional Regulator Pbf-2
pdb|1L3A|D Chain D, Structure Of The Plant Transcriptional Regulator Pbf-2
Length = 227
Score = 264 bits (674), Expect = 4e-71, Method: Compositional matrix adjust.
Identities = 124/150 (82%), Positives = 138/150 (92%)
Query: 79 GTLPTRVYVGHSIYKGKAALTVEPRGPEFVSLDSGAVKLSREGFVMLQFAPAAGVRQYDW 138
G +V+VG+SIYKGKAALTVEPR PEF LDSGA KLSREG VMLQFAPAAGVRQYDW
Sbjct: 32 GASTPKVFVGYSIYKGKAALTVEPRSPEFSPLDSGAFKLSREGMVMLQFAPAAGVRQYDW 91
Query: 139 SRKQVFSLSVTEIGSLVALGARESCEFFHDPFKGKSEEGKVRKVLKVEPLPDGSGHFFNL 198
SRKQVFSLSVTEIGS+++LG ++SCEFFHDP KG+S+EG+VRKVLKVEPLPDGSGHFFNL
Sbjct: 92 SRKQVFSLSVTEIGSIISLGTKDSCEFFHDPNKGRSDEGRVRKVLKVEPLPDGSGHFFNL 151
Query: 199 SVQNKLINLDESIYIPVTRAEYTVLVSAFN 228
SVQNKLINLDE+IYIPVT+AE+ VLVSAFN
Sbjct: 152 SVQNKLINLDENIYIPVTKAEFAVLVSAFN 181
>pdb|3N1H|A Chain A, Crystal Structure Of Stwhy2
pdb|3N1I|A Chain A, Crystal Structure Of A Stwhy2-Ere32 Complex
pdb|3N1J|A Chain A, Crystal Structure Of A Stwhy2-Dt32 Complex
pdb|3N1K|A Chain A, Crystal Structure Of A Stwhy2-Cere32 Complex
pdb|3N1L|A Chain A, Crystal Structure Of A Stwhy2-Rcere32 Complex
Length = 178
Score = 164 bits (416), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 74/145 (51%), Positives = 105/145 (72%)
Query: 84 RVYVGHSIYKGKAALTVEPRGPEFVSLDSGAVKLSREGFVMLQFAPAAGVRQYDWSRKQV 143
RV+ +S++KGKAAL+ EPR P F LDSG VKL+R G +ML F P+ G R+YDW ++Q+
Sbjct: 10 RVFAPYSVFKGKAALSAEPRLPTFNRLDSGGVKLNRRGVIMLTFWPSVGERKYDWEKRQL 69
Query: 144 FSLSVTEIGSLVALGARESCEFFHDPFKGKSEEGKVRKVLKVEPLPDGSGHFFNLSVQNK 203
F+LS TE+GSL+++G R+S EFFHDP S G+VRK L ++P DGSG+F +LSV N
Sbjct: 70 FALSATEVGSLISMGTRDSSEFFHDPSMLSSNAGQVRKSLSIKPNADGSGYFISLSVVNN 129
Query: 204 LINLDESIYIPVTRAEYTVLVSAFN 228
+ ++ +PVT AE+ V+ +AF+
Sbjct: 130 NLKTNDRFTVPVTTAEFAVMRTAFS 154
>pdb|3R9Y|A Chain A, Crystal Structure Of Stwhy2 K67a (Form I)
pdb|3R9Z|A Chain A, Crystal Structure Of Stwhy2 K67a (Form Ii)
pdb|3RA0|A Chain A, Crystal Structure Of A Stwhy2 K67a-Dt32 Complex
Length = 178
Score = 162 bits (410), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 73/145 (50%), Positives = 104/145 (71%)
Query: 84 RVYVGHSIYKGKAALTVEPRGPEFVSLDSGAVKLSREGFVMLQFAPAAGVRQYDWSRKQV 143
RV+ +S++KG AAL+ EPR P F LDSG VKL+R G +ML F P+ G R+YDW ++Q+
Sbjct: 10 RVFAPYSVFKGAAALSAEPRLPTFNRLDSGGVKLNRRGVIMLTFWPSVGERKYDWEKRQL 69
Query: 144 FSLSVTEIGSLVALGARESCEFFHDPFKGKSEEGKVRKVLKVEPLPDGSGHFFNLSVQNK 203
F+LS TE+GSL+++G R+S EFFHDP S G+VRK L ++P DGSG+F +LSV N
Sbjct: 70 FALSATEVGSLISMGTRDSSEFFHDPSMLSSNAGQVRKSLSIKPNADGSGYFISLSVVNN 129
Query: 204 LINLDESIYIPVTRAEYTVLVSAFN 228
+ ++ +PVT AE+ V+ +AF+
Sbjct: 130 NLKTNDRFTVPVTTAEFAVMRTAFS 154
>pdb|3PMQ|A Chain A, Crystal Structure Of The Outer Membrane Decaheme
Cytochrome Mtrf
Length = 669
Score = 28.5 bits (62), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 23/55 (41%), Gaps = 7/55 (12%)
Query: 156 ALGARESCEFFHDPFKGKSEEGKVRKVLKVEPLPDGSGHFFNLSVQNKLINLDES 210
A E+C F H +G V VLKV P+ G + N L+ LD +
Sbjct: 613 ATAGTETCAFCHG-------QGTVADVLKVHPINKGELKLEGKPIPNPLLGLDST 660
>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 = 27.3 bits (59), Expect = 7.1, Method: Composition-based stats.
Identities = 17/46 (36%), Positives = 26/46 (56%), Gaps = 5/46 (10%)
Query: 172 GKSEEGKVRKVLKVEPLPDGSGHFFNLSVQNKLINLDESIYIPVTR 217
G+ + G V+ +KVEPLP GSG F ++ +I + YIP +
Sbjct: 503 GRGQYGHVK--IKVEPLPRGSGFEFVNAIVGGVIPKE---YIPAVQ 543
>pdb|3IZP|E Chain E, Conformation Of Ef-G During Translocation
Length = 688
Score = 27.3 bits (59), Expect = 7.2, Method: Composition-based stats.
Identities = 17/46 (36%), Positives = 26/46 (56%), Gaps = 5/46 (10%)
Query: 172 GKSEEGKVRKVLKVEPLPDGSGHFFNLSVQNKLINLDESIYIPVTR 217
G+ + G V+ +KVEPLP GSG F ++ +I + YIP +
Sbjct: 503 GRGQYGHVK--IKVEPLPRGSGFEFVNAIVGGVIPKE---YIPAVQ 543
>pdb|2BM1|A Chain A, Ribosomal Elongation Factor G (Ef-G) Fusidic Acid
Resistant Mutant G16v
Length = 691
Score = 27.3 bits (59), Expect = 7.3, Method: Composition-based stats.
Identities = 17/46 (36%), Positives = 26/46 (56%), Gaps = 5/46 (10%)
Query: 172 GKSEEGKVRKVLKVEPLPDGSGHFFNLSVQNKLINLDESIYIPVTR 217
G+ + G V+ +KVEPLP GSG F ++ +I + YIP +
Sbjct: 503 GRGQYGHVK--IKVEPLPRGSGFEFVNAIVGGVIPKE---YIPAVQ 543
>pdb|2BM0|A Chain A, Ribosomal Elongation Factor G (Ef-G) Fusidic Acid
Resistant Mutant T84a
Length = 691
Score = 27.3 bits (59), Expect = 7.3, Method: Composition-based stats.
Identities = 17/46 (36%), Positives = 26/46 (56%), Gaps = 5/46 (10%)
Query: 172 GKSEEGKVRKVLKVEPLPDGSGHFFNLSVQNKLINLDESIYIPVTR 217
G+ + G V+ +KVEPLP GSG F ++ +I + YIP +
Sbjct: 503 GRGQYGHVK--IKVEPLPRGSGFEFVNAIVGGVIPKE---YIPAVQ 543
>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 = 27.3 bits (59), Expect = 7.3, Method: Composition-based stats.
Identities = 17/46 (36%), Positives = 26/46 (56%), Gaps = 5/46 (10%)
Query: 172 GKSEEGKVRKVLKVEPLPDGSGHFFNLSVQNKLINLDESIYIPVTR 217
G+ + G V+ +KVEPLP GSG F ++ +I + YIP +
Sbjct: 503 GRGQYGHVK--IKVEPLPRGSGFEFVNAIVGGVIPKE---YIPAVQ 543
>pdb|2J7K|A Chain A, Crystal Structure Of The T84a Mutant Ef-G:gdpcp Complex
Length = 691
Score = 27.3 bits (59), Expect = 7.3, Method: Composition-based stats.
Identities = 17/46 (36%), Positives = 26/46 (56%), Gaps = 5/46 (10%)
Query: 172 GKSEEGKVRKVLKVEPLPDGSGHFFNLSVQNKLINLDESIYIPVTR 217
G+ + G V+ +KVEPLP GSG F ++ +I + YIP +
Sbjct: 503 GRGQYGHVK--IKVEPLPRGSGFEFVNAIVGGVIPKE---YIPAVQ 543
>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 = 27.3 bits (59), Expect = 7.5, Method: Composition-based stats.
Identities = 17/46 (36%), Positives = 26/46 (56%), Gaps = 5/46 (10%)
Query: 172 GKSEEGKVRKVLKVEPLPDGSGHFFNLSVQNKLINLDESIYIPVTR 217
G+ + G V+ +KVEPLP GSG F ++ +I + YIP +
Sbjct: 503 GRGQYGHVK--IKVEPLPRGSGFEFVNAIVGGVIPKE---YIPAVQ 543
>pdb|2BV3|A Chain A, Crystal Structure Of A Mutant Elongation Factor G Trapped
With A Gtp Analogue
Length = 691
Score = 27.3 bits (59), Expect = 7.5, Method: Composition-based stats.
Identities = 17/46 (36%), Positives = 26/46 (56%), Gaps = 5/46 (10%)
Query: 172 GKSEEGKVRKVLKVEPLPDGSGHFFNLSVQNKLINLDESIYIPVTR 217
G+ + G V+ +KVEPLP GSG F ++ +I + YIP +
Sbjct: 503 GRGQYGHVK--IKVEPLPRGSGFEFVNAIVGGVIPKE---YIPAVQ 543
>pdb|3OUT|A Chain A, Crystal Structure Of Glutamate Racemase From Francisella
Tularensis Subsp. Tularensis Schu S4 In Complex With
D-Glutamate.
pdb|3OUT|B Chain B, Crystal Structure Of Glutamate Racemase From Francisella
Tularensis Subsp. Tularensis Schu S4 In Complex With
D-Glutamate.
pdb|3OUT|C Chain C, Crystal Structure Of Glutamate Racemase From Francisella
Tularensis Subsp. Tularensis Schu S4 In Complex With
D-Glutamate
Length = 268
Score = 26.9 bits (58), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 31/72 (43%), Gaps = 14/72 (19%)
Query: 152 GSLVALGARESCEFFHD-------------PFKGKSEEGKVRKVLKVEPLPDGSGHFFNL 198
G +V L A+E +FHD P K K+ V ++P S ++L
Sbjct: 160 GHIVELVAKEYLSYFHDKNIQALILGCTHYPII-KESIAKILDVKLIDPSLQASKXLYSL 218
Query: 199 SVQNKLINLDES 210
+NKL+N +S
Sbjct: 219 LFENKLLNTTKS 230
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
0.317 0.133 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,197,992
Number of Sequences: 62578
Number of extensions: 233959
Number of successful extensions: 448
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 444
Number of HSP's gapped (non-prelim): 15
length of query: 229
length of database: 14,973,337
effective HSP length: 95
effective length of query: 134
effective length of database: 9,028,427
effective search space: 1209809218
effective search space used: 1209809218
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: 50 (23.9 bits)