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= 029532
(192 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 = 164 bits (415), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 87/191 (45%), Positives = 120/191 (62%), Gaps = 4/191 (2%)
Query: 1 MYGHVEKLAEEIKKGASSVEGVEAKLWQVPETLPEEVLGKMSAPPKSDVPIITPNELAEA 60
MYGH+E +A + +GAS V+G E + +VPET+P ++ K ++ P+ TP ELA+
Sbjct: 11 MYGHIETMARAVAEGASKVDGAEVVVKRVPETMPPQLFEKAGGKTQT-APVATPQELADY 69
Query: 61 DGFVFGFPTRFGMMAAQFKAFLDATGGLWRTQQLAGKPAGMFYXXXXXXXXXXXXALTAI 120
D +FG PTRFG M+ Q + FLD TGGLW + L GK A +F T
Sbjct: 70 DAIIFGTPTRFGNMSGQMRTFLDQTGGLWASGALYGKLASVFSSTGTGGGQEQTITST-W 128
Query: 121 TQLVHHGMIFVPIGYTFGAGMFEMEKVKGGSPYGAGTFA-GDGSRQPTELELEQAFHQGK 179
T L HHGM+ VPIGY +F++ +V+GG+PYGA T A GDGSRQP++ EL A +QG+
Sbjct: 129 TTLAHHGMVIVPIGYA-AQELFDVSQVRGGTPYGATTIAGGDGSRQPSQEELSIARYQGE 187
Query: 180 HIAGIAKKLKG 190
++AG+A KL G
Sbjct: 188 YVAGLAVKLNG 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 = 115 bits (287), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 76/190 (40%), Positives = 99/190 (52%), Gaps = 10/190 (5%)
Query: 2 YGHVEKLAEEIKKGASSVEGVEAKLWQVPETLPEEVLGKMSAPPKSDVPIITPNELAEAD 61
YG + +LA+EI KGA G E K+ +V ETLP E ++ D+P +T +++ AD
Sbjct: 14 YGSIVELAKEIGKGAEEA-GAEVKIRRVRETLPPEFQSRIPFDKVKDIPEVTLDDMRWAD 72
Query: 62 GFVFGFPTRFGMMAAQFKAFLDATGGLWRTQQLAGKPAGMFYXXXXXXXXXXXXALTAIT 121
GF G PTR+G MA K FLD T LW+ L GKP F LT T
Sbjct: 73 GFAIGSPTRYGNMAGGLKTFLDTTAILWKDNVLYGKPVTFFTEASTVHGGHETTILTMST 132
Query: 122 QLVHHGMIFVPIGYTFGAGMFEM-EKVKGGSPYGAGTFAGDGSRQP-TELELEQAFHQGK 179
H GMI VPIGY G+ E+ + GG PYGA GS++ E+E + A QGK
Sbjct: 133 YAYHFGMIIVPIGY----GIPELFQTTTGGGPYGATHL---GSKEELDEMERKIARFQGK 185
Query: 180 HIAGIAKKLK 189
I +AK +K
Sbjct: 186 RITEVAKAIK 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 = 95.9 bits (237), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 70/192 (36%), Positives = 91/192 (47%), Gaps = 10/192 (5%)
Query: 2 YGHVEKLAEEIKKGASSVEGVEAKLWQVPETLPEEVLGKMSAP--PKSDVPIITPNELAE 59
+G ++A +I +G G EA++ VP E + AP P T +L
Sbjct: 23 HGATAEMARQIARGVEQ-GGFEARVRTVPAVSTE---CEAVAPDIPAEGALYATLEDLKN 78
Query: 60 ADGFVFGFPTRFGMMAAQFKAFLDATGGLWRTQQLAGKPAGMFYXXXXXXXXXXXXALTA 119
G G PTRFG MA+ K FLD T LW T L GKPA +F L+
Sbjct: 79 CAGLALGSPTRFGNMASPLKYFLDGTSSLWLTGSLVGKPAAVFTSTASLHGGQETTQLSM 138
Query: 120 ITQLVHHGMIFVPIGYTFGAGMFEMEKVKGGSPYGAGTFAG-DGSRQPTELELEQAFHQG 178
+ L+HHGM+ + I Y+ A +E GG+PYGA FAG DG R E EL G
Sbjct: 139 LLPLLHHGMLVLGIPYSEPA---LLETRGGGTPYGASHFAGADGKRSLDEHELTLCRALG 195
Query: 179 KHIAGIAKKLKG 190
K +A A KL+G
Sbjct: 196 KRLAETAGKLEG 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 = 56/171 (32%), Positives = 77/171 (45%), Gaps = 16/171 (9%)
Query: 25 KLWQVPETLPEEVLG-----KMSAPPKSDVPIITPNELAEADGFVFGFPTRFGMMAAQFK 79
+L +V ET P++V+ K + DVP TP +L A+ VF PTRFG +Q +
Sbjct: 39 RLLKVRETAPQDVIDGQDAWKANIEAMKDVPEATPADLEWAEAIVFSSPTRFGGATSQMR 98
Query: 80 AFLDATGGLWRTQQLAGKPAGMFYXXXXXXXXXXXXALTAITQLVHHGMIFVPIGYTFGA 139
AF+D GGLW + +LA K T +H G + P GYT
Sbjct: 99 AFIDTLGGLWSSGKLANKTFSAMTSAQNVNGGQETTLQTLYMTAMHWGAVLTPPGYT--- 155
Query: 140 GMFEMEKVKGGSPYGAGTFAGDGSRQPTELELEQAF--HQGKHIAGIAKKL 188
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 = 56/171 (32%), Positives = 76/171 (44%), Gaps = 16/171 (9%)
Query: 25 KLWQVPETLPEEVLG-----KMSAPPKSDVPIITPNELAEADGFVFGFPTRFGMMAAQFK 79
+L +V ET P++V+ K + DVP TP +L A+ VF PTRFG +Q +
Sbjct: 39 RLLKVRETAPQDVIDGQDAWKANIEAXKDVPEATPADLEWAEAIVFSSPTRFGGATSQXR 98
Query: 80 AFLDATGGLWRTQQLAGKPAGMFYXXXXXXXXXXXXALTAITQLVHHGMIFVPIGYTFGA 139
AF+D GGLW + +LA K T H G + P GYT
Sbjct: 99 AFIDTLGGLWSSGKLANKTFSAXTSAQNVNGGQETTLQTLYXTAXHWGAVLTPPGYT--- 155
Query: 140 GMFEMEKVKGGSPYGAGTFAGDGSRQPTELELEQAF--HQGKHIAGIAKKL 188
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 = 68.9 bits (167), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 69/188 (36%), Positives = 87/188 (46%), Gaps = 17/188 (9%)
Query: 9 AEEIKKGASSVE--GVEAKLWQVPETLPEEVLGKMSAPPKSDVP-----IITPNELAEAD 61
AE ++ A VE G EA++ VP E + AP D+P T +L
Sbjct: 20 AEXARQIARGVEQGGFEARVRTVPAVSTE---CEAVAP---DIPAEGALYATLEDLKNCA 73
Query: 62 GFVFGFPTRFGMMAAQFKAFLDATGGLWRTQQLAGKPAGMFYXXXXXXXXXXXXALTAIT 121
G G PTRFG A+ K FLD T LW T L GKPA +F L+ +
Sbjct: 74 GLALGSPTRFGNXASPLKYFLDGTSSLWLTGSLVGKPAAVFTSTASLHGGQETTQLSXLL 133
Query: 122 QLVHHGMIFVPIGYTFGAGMFEMEKVKGGSPYGAGTFAG-DGSRQPTELELEQAFHQGKH 180
L+HHG + + I Y+ A +E GG+PYGA FAG DG R E EL GK
Sbjct: 134 PLLHHGXLVLGIPYSEPA---LLETRGGGTPYGASHFAGADGKRSLDEHELTLCRALGKR 190
Query: 181 IAGIAKKL 188
+A A KL
Sbjct: 191 LAETAGKL 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 = 45.8 bits (107), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 39/135 (28%), Positives = 56/135 (41%), Gaps = 25/135 (18%)
Query: 3 GHVEKLAEEIKKGASSVEGVEAKLWQVPETLPEEVLGKMSAPPKSDVPIITPNELAEADG 62
G+ +K AE + +GA S+EG E +L V E E+VL ADG
Sbjct: 16 GNTKKXAELVAEGARSLEGTEVRLKHVDEATKEDVLW--------------------ADG 55
Query: 63 FVFGFPTRFGMMAAQFKAFLDAT-GGLWRTQQLAGKPAGMFYXXXXXXXXXXXXALTAIT 121
G PT G+++ + K F D G LW ++ GK A F + +T
Sbjct: 56 LAVGSPTNXGLVSWKXKRFFDDVLGDLW--GEIDGKIACAFSSSGGWGGGNEVACXSILT 113
Query: 122 QLVHHGMIFVPIGYT 136
L + G F+ G T
Sbjct: 114 XLXNFG--FLVFGVT 126
>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 = 1.7, Method: Compositional matrix adjust.
Identities = 36/136 (26%), Positives = 53/136 (38%), Gaps = 14/136 (10%)
Query: 65 FGFPTRFGMMAAQFKAFLDATGGLWRTQQLAGKPAGMFYXXXXXXXXXXXXALTAITQLV 124
FG PT G + QFK F DA+ W + + K G F L + LV
Sbjct: 60 FGTPTYXGGPSWQFKKFADASSKPWFSAKWQDKVFGGF----TNSASLNGDKLNTLQYLV 115
Query: 125 ----HHGMIFVPIGY--TFGAGMFEMEKVKGGSPYGAGTFAGDGSRQPTEL---ELEQAF 175
HG ++V +G + + + GS Y A D P E +LE A
Sbjct: 116 LLAGQHGGLWVSLGIKPSNLKSSVRNDANRXGS-YIAPXAQSDADAAPEEXSVGDLETAR 174
Query: 176 HQGKHIAGIAKKLKGS 191
G +A +A++ K +
Sbjct: 175 LYGARVANVARQHKST 190
>pdb|2DQB|A Chain A, Crystal Structure Of Dntp Triphosphohydrolase From Thermus
Thermophilus Hb8, Which Is Homologous To Dgtp
Triphosphohydrolase
pdb|2DQB|B Chain B, Crystal Structure Of Dntp Triphosphohydrolase From Thermus
Thermophilus Hb8, Which Is Homologous To Dgtp
Triphosphohydrolase
pdb|2DQB|C Chain C, Crystal Structure Of Dntp Triphosphohydrolase From Thermus
Thermophilus Hb8, Which Is Homologous To Dgtp
Triphosphohydrolase
pdb|2DQB|D Chain D, Crystal Structure Of Dntp Triphosphohydrolase From Thermus
Thermophilus Hb8, Which Is Homologous To Dgtp
Triphosphohydrolase
pdb|2DQB|E Chain E, Crystal Structure Of Dntp Triphosphohydrolase From Thermus
Thermophilus Hb8, Which Is Homologous To Dgtp
Triphosphohydrolase
pdb|2DQB|F Chain F, Crystal Structure Of Dntp Triphosphohydrolase From Thermus
Thermophilus Hb8, Which Is Homologous To Dgtp
Triphosphohydrolase
Length = 376
Score = 27.3 bits (59), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 2 YGHVEKLAEEIKKGASSVEGVEAKLWQVPETLPEEVLGKM 41
Y H E L E +K + +EG+ A + PE LP EV K+
Sbjct: 308 YRHPEVLRER-RKAEAVLEGLFAAYTRYPELLPREVQAKI 346
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 0.136 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,011,802
Number of Sequences: 62578
Number of extensions: 244583
Number of successful extensions: 541
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 518
Number of HSP's gapped (non-prelim): 13
length of query: 192
length of database: 14,973,337
effective HSP length: 93
effective length of query: 99
effective length of database: 9,153,583
effective search space: 906204717
effective search space used: 906204717
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: 49 (23.5 bits)