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= 031039
(167 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3B6I|A Chain A, Wrba From Escherichia Coli, Native Structure
pdb|3B6I|B Chain B, Wrba From Escherichia Coli, Native Structure
pdb|3B6J|A Chain A, Wrba From Escherichia Coli, Nadh Complex
pdb|3B6J|B Chain B, Wrba From Escherichia Coli, Nadh Complex
pdb|3B6K|A Chain A, Wrba From Escherichia Coli, Benzoquinone Complex
pdb|3B6K|B Chain B, Wrba From Escherichia Coli, Benzoquinone Complex
pdb|3B6M|A Chain A, Wrba From Escherichia Coli, Second Crystal Form
pdb|3B6M|B Chain B, Wrba From Escherichia Coli, Second Crystal Form
pdb|2R96|A Chain A, Crystal Structure Of E. Coli Wrba In Complex With Fmn
pdb|2R96|C Chain C, Crystal Structure Of E. Coli Wrba In Complex With Fmn
pdb|2R97|A Chain A, Crystal Structure Of E. Coli Wrba In Complex With Fmn
pdb|2R97|C Chain C, Crystal Structure Of E. Coli Wrba In Complex With Fmn
pdb|2RG1|A Chain A, Crystal Structure Of E. Coli Wrba Apoprotein
pdb|2RG1|B Chain B, Crystal Structure Of E. Coli Wrba Apoprotein
Length = 198
Score = 138 bits (347), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 75/164 (45%), Positives = 102/164 (62%), Gaps = 4/164 (2%)
Query: 3 QVPETLPEEVLGKMSAPPKSDVPIITPNELAEADGFVFGFPTRFGMMAAQFKAFLDATGG 62
+VPET+P ++ K ++ P+ TP ELA+ D +FG PTRFG M+ Q + FLD TGG
Sbjct: 38 RVPETMPPQLFEKAGGKTQT-APVATPQELADYDAIIFGTPTRFGNMSGQMRTFLDQTGG 96
Query: 63 LWRTQQLAGKPAGMFYXXXXXXXXXXXXALTAITQLVHHGMIFVPIGYTFGAGMFEMEKV 122
LW + L GK A +F T T L HHGM+ VPIGY +F++ +V
Sbjct: 97 LWASGALYGKLASVFSSTGTGGGQEQTITST-WTTLAHHGMVIVPIGYA-AQELFDVSQV 154
Query: 123 KGGSPYGAGTFA-GDGSRQPTELELEQAFHQGKHIAGIAKKLKG 165
+GG+PYGA T A GDGSRQP++ EL A +QG+++AG+A KL G
Sbjct: 155 RGGTPYGATTIAGGDGSRQPSQEELSIARYQGEYVAGLAVKLNG 198
>pdb|2ZKI|A Chain A, Crystal Structure Of Hypothetical Trp Repressor Binding
Protein From Sul Folobus Tokodaii (St0872)
pdb|2ZKI|B Chain B, Crystal Structure Of Hypothetical Trp Repressor Binding
Protein From Sul Folobus Tokodaii (St0872)
pdb|2ZKI|C Chain C, Crystal Structure Of Hypothetical Trp Repressor Binding
Protein From Sul Folobus Tokodaii (St0872)
pdb|2ZKI|D Chain D, Crystal Structure Of Hypothetical Trp Repressor Binding
Protein From Sul Folobus Tokodaii (St0872)
pdb|2ZKI|E Chain E, Crystal Structure Of Hypothetical Trp Repressor Binding
Protein From Sul Folobus Tokodaii (St0872)
pdb|2ZKI|F Chain F, Crystal Structure Of Hypothetical Trp Repressor Binding
Protein From Sul Folobus Tokodaii (St0872)
pdb|2ZKI|G Chain G, Crystal Structure Of Hypothetical Trp Repressor Binding
Protein From Sul Folobus Tokodaii (St0872)
pdb|2ZKI|H Chain H, Crystal Structure Of Hypothetical Trp Repressor Binding
Protein From Sul Folobus Tokodaii (St0872)
Length = 199
Score = 98.2 bits (243), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 64/164 (39%), Positives = 83/164 (50%), Gaps = 9/164 (5%)
Query: 3 QVPETLPEEVLGKMSAPPKSDVPIITPNELAEADGFVFGFPTRFGMMAAQFKAFLDATGG 62
+V ETLP E ++ D+P +T +++ ADGF G PTR+G MA K FLD T
Sbjct: 39 RVRETLPPEFQSRIPFDKVKDIPEVTLDDMRWADGFAIGSPTRYGNMAGGLKTFLDTTAI 98
Query: 63 LWRTQQLAGKPAGMFYXXXXXXXXXXXXALTAITQLVHHGMIFVPIGYTFGAGMFEM-EK 121
LW+ L GKP F LT T H GMI VPIGY G+ E+ +
Sbjct: 99 LWKDNVLYGKPVTFFTEASTVHGGHETTILTMSTYAYHFGMIIVPIGY----GIPELFQT 154
Query: 122 VKGGSPYGAGTFAGDGSRQP-TELELEQAFHQGKHIAGIAKKLK 164
GG PYGA GS++ E+E + A QGK I +AK +K
Sbjct: 155 TTGGGPYGATHL---GSKEELDEMERKIARFQGKRITEVAKAIK 195
>pdb|1ZWK|A Chain A, Structure Of Wrba From Pseudomonas Aeruginosa
pdb|1ZWK|B Chain B, Structure Of Wrba From Pseudomonas Aeruginosa
pdb|1ZWL|A Chain A, Structure Of Wrba From Pseudomonas Aeruginosa In Complex
With Fmn
Length = 207
Score = 90.9 bits (224), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 57/139 (41%), Positives = 70/139 (50%), Gaps = 4/139 (2%)
Query: 28 TPNELAEADGFVFGFPTRFGMMAAQFKAFLDATGGLWRTQQLAGKPAGMFYXXXXXXXXX 87
T +L G G PTRFG MA+ K FLD T LW T L GKPA +F
Sbjct: 72 TLEDLKNCAGLALGSPTRFGNMASPLKYFLDGTSSLWLTGSLVGKPAAVFTSTASLHGGQ 131
Query: 88 XXXALTAITQLVHHGMIFVPIGYTFGAGMFEMEKVKGGSPYGAGTFAG-DGSRQPTELEL 146
L+ + L+HHGM+ + I Y+ A +E GG+PYGA FAG DG R E EL
Sbjct: 132 ETTQLSMLLPLLHHGMLVLGIPYSEPA---LLETRGGGTPYGASHFAGADGKRSLDEHEL 188
Query: 147 EQAFHQGKHIAGIAKKLKG 165
GK +A A KL+G
Sbjct: 189 TLCRALGKRLAETAGKLEG 207
>pdb|1YDG|A Chain A, Crystal Structure Of Trp Repressor Binding Protein Wrba
pdb|1YDG|B Chain B, Crystal Structure Of Trp Repressor Binding Protein Wrba
pdb|1YDG|C Chain C, Crystal Structure Of Trp Repressor Binding Protein Wrba
pdb|1YDG|D Chain D, Crystal Structure Of Trp Repressor Binding Protein Wrba
pdb|1YDG|E Chain E, Crystal Structure Of Trp Repressor Binding Protein Wrba
pdb|1YDG|F Chain F, Crystal Structure Of Trp Repressor Binding Protein Wrba
pdb|1YDG|G Chain G, Crystal Structure Of Trp Repressor Binding Protein Wrba
pdb|1YDG|H Chain H, Crystal Structure Of Trp Repressor Binding Protein Wrba
Length = 211
Score = 72.0 bits (175), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 55/170 (32%), Positives = 77/170 (45%), Gaps = 16/170 (9%)
Query: 1 MVQVPETLPEEVLG-----KMSAPPKSDVPIITPNELAEADGFVFGFPTRFGMMAAQFKA 55
+++V ET P++V+ K + DVP TP +L A+ VF PTRFG +Q +A
Sbjct: 40 LLKVRETAPQDVIDGQDAWKANIEAMKDVPEATPADLEWAEAIVFSSPTRFGGATSQMRA 99
Query: 56 FLDATGGLWRTQQLAGKPAGMFYXXXXXXXXXXXXALTAITQLVHHGMIFVPIGYTFGAG 115
F+D GGLW + +LA K T +H G + P GYT
Sbjct: 100 FIDTLGGLWSSGKLANKTFSAMTSAQNVNGGQETTLQTLYMTAMHWGAVLTPPGYT---- 155
Query: 116 MFEMEKVKGGSPYGAGTFAGDGSRQPTELELEQAF--HQGKHIAGIAKKL 163
E+ GG+PYGA A QP LE ++A HQ + + KL
Sbjct: 156 -DEVIFKSGGNPYGASVTANG---QPL-LENDRASIRHQVRRQVELTAKL 200
>pdb|1YRH|A Chain A, Crystal Structure Of Trp Repressor Binding Protein Wrba In
Complex With Fmn
pdb|1YRH|B Chain B, Crystal Structure Of Trp Repressor Binding Protein Wrba In
Complex With Fmn
pdb|1YRH|C Chain C, Crystal Structure Of Trp Repressor Binding Protein Wrba In
Complex With Fmn
pdb|1YRH|D Chain D, Crystal Structure Of Trp Repressor Binding Protein Wrba In
Complex With Fmn
pdb|1YRH|E Chain E, Crystal Structure Of Trp Repressor Binding Protein Wrba In
Complex With Fmn
pdb|1YRH|F Chain F, Crystal Structure Of Trp Repressor Binding Protein Wrba In
Complex With Fmn
pdb|1YRH|G Chain G, Crystal Structure Of Trp Repressor Binding Protein Wrba In
Complex With Fmn
pdb|1YRH|H Chain H, Crystal Structure Of Trp Repressor Binding Protein Wrba In
Complex With Fmn
Length = 211
Score = 71.2 bits (173), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 55/170 (32%), Positives = 76/170 (44%), Gaps = 16/170 (9%)
Query: 1 MVQVPETLPEEVLG-----KMSAPPKSDVPIITPNELAEADGFVFGFPTRFGMMAAQFKA 55
+++V ET P++V+ K + DVP TP +L A+ VF PTRFG +Q +A
Sbjct: 40 LLKVRETAPQDVIDGQDAWKANIEAXKDVPEATPADLEWAEAIVFSSPTRFGGATSQXRA 99
Query: 56 FLDATGGLWRTQQLAGKPAGMFYXXXXXXXXXXXXALTAITQLVHHGMIFVPIGYTFGAG 115
F+D GGLW + +LA K T H G + P GYT
Sbjct: 100 FIDTLGGLWSSGKLANKTFSAXTSAQNVNGGQETTLQTLYXTAXHWGAVLTPPGYT---- 155
Query: 116 MFEMEKVKGGSPYGAGTFAGDGSRQPTELELEQAF--HQGKHIAGIAKKL 163
E+ GG+PYGA A QP LE ++A HQ + + KL
Sbjct: 156 -DEVIFKSGGNPYGASVTANG---QPL-LENDRASIRHQVRRQVELTAKL 200
>pdb|2A5L|A Chain A, The Crystal Structure Of The Trp Repressor Binding Protein
Wrba From Pseudomonas Aeruginosa
pdb|2A5L|B Chain B, The Crystal Structure Of The Trp Repressor Binding Protein
Wrba From Pseudomonas Aeruginosa
Length = 200
Score = 65.1 bits (157), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 54/137 (39%), Positives = 66/137 (48%), Gaps = 4/137 (2%)
Query: 28 TPNELAEADGFVFGFPTRFGMMAAQFKAFLDATGGLWRTQQLAGKPAGMFYXXXXXXXXX 87
T +L G G PTRFG A+ K FLD T LW T L GKPA +F
Sbjct: 65 TLEDLKNCAGLALGSPTRFGNXASPLKYFLDGTSSLWLTGSLVGKPAAVFTSTASLHGGQ 124
Query: 88 XXXALTAITQLVHHGMIFVPIGYTFGAGMFEMEKVKGGSPYGAGTFAG-DGSRQPTELEL 146
L+ + L+HHG + + I Y+ A +E GG+PYGA FAG DG R E EL
Sbjct: 125 ETTQLSXLLPLLHHGXLVLGIPYSEPA---LLETRGGGTPYGASHFAGADGKRSLDEHEL 181
Query: 147 EQAFHQGKHIAGIAKKL 163
GK +A A KL
Sbjct: 182 TLCRALGKRLAETAGKL 198
>pdb|2ARK|A Chain A, Structure Of A Flavodoxin From Aquifex Aeolicus
pdb|2ARK|B Chain B, Structure Of A Flavodoxin From Aquifex Aeolicus
pdb|2ARK|C Chain C, Structure Of A Flavodoxin From Aquifex Aeolicus
pdb|2ARK|D Chain D, Structure Of A Flavodoxin From Aquifex Aeolicus
pdb|2ARK|E Chain E, Structure Of A Flavodoxin From Aquifex Aeolicus
pdb|2ARK|F Chain F, Structure Of A Flavodoxin From Aquifex Aeolicus
Length = 188
Score = 32.0 bits (71), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 33/78 (42%), Gaps = 3/78 (3%)
Query: 28 TPNELAEADGFVFGFPTRFGMMAAQFKAFLDAT-GGLWRTQQLAGKPAGMFYXXXXXXXX 86
T ++ ADG G PT G+++ + K F D G LW ++ GK A F
Sbjct: 46 TKEDVLWADGLAVGSPTNXGLVSWKXKRFFDDVLGDLW--GEIDGKIACAFSSSGGWGGG 103
Query: 87 XXXXALTAITQLVHHGMI 104
+ +T L + G +
Sbjct: 104 NEVACXSILTXLXNFGFL 121
>pdb|3D7N|A Chain A, The Crystal Structure Of The Flavodoxin, Wrba-Like Protein
From Agrobacterium Tumefaciens
Length = 193
Score = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 36/136 (26%), Positives = 53/136 (38%), Gaps = 14/136 (10%)
Query: 40 FGFPTRFGMMAAQFKAFLDATGGLWRTQQLAGKPAGMFYXXXXXXXXXXXXALTAITQLV 99
FG PT G + QFK F DA+ W + + K G F L + LV
Sbjct: 60 FGTPTYXGGPSWQFKKFADASSKPWFSAKWQDKVFGGF----TNSASLNGDKLNTLQYLV 115
Query: 100 ----HHGMIFVPIGY--TFGAGMFEMEKVKGGSPYGAGTFAGDGSRQPTEL---ELEQAF 150
HG ++V +G + + + GS Y A D P E +LE A
Sbjct: 116 LLAGQHGGLWVSLGIKPSNLKSSVRNDANRXGS-YIAPXAQSDADAAPEEXSVGDLETAR 174
Query: 151 HQGKHIAGIAKKLKGS 166
G +A +A++ K +
Sbjct: 175 LYGARVANVARQHKST 190
>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
Length = 2695
Score = 26.6 bits (57), Expect = 7.7, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 21/46 (45%)
Query: 57 LDATGGLWRTQQLAGKPAGMFYXXXXXXXXXXXXALTAITQLVHHG 102
LD LW +Q GK +G++ +TA T+LV HG
Sbjct: 2507 LDTVKDLWGSQFFTGKISGVWSVYCTFLLSWFHALITARTRLVPHG 2552
>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
pdb|3QMZ|B Chain B, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
Length = 2486
Score = 26.6 bits (57), Expect = 7.7, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 21/46 (45%)
Query: 57 LDATGGLWRTQQLAGKPAGMFYXXXXXXXXXXXXALTAITQLVHHG 102
LD LW +Q GK +G++ +TA T+LV HG
Sbjct: 2298 LDTVKDLWGSQFFTGKISGVWSVYCTFLLSWFHALITARTRLVPHG 2343
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
0.320 0.138 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,170,513
Number of Sequences: 62578
Number of extensions: 205993
Number of successful extensions: 404
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 384
Number of HSP's gapped (non-prelim): 14
length of query: 167
length of database: 14,973,337
effective HSP length: 92
effective length of query: 75
effective length of database: 9,216,161
effective search space: 691212075
effective search space used: 691212075
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)