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= 028917
(202 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 = 180 bits (456), Expect = 6e-46, Method: Compositional matrix adjust.
Identities = 98/199 (49%), Positives = 130/199 (65%), Gaps = 5/199 (2%)
Query: 4 KIYIVYYSLYGHVETMAREVQRGANSVLGVEATLWQVPETLSSVILQKMKAPPKTNDVPV 63
K+ ++YYS+YGH+ETMAR V GA+ V G E + +VPET+ + +K A KT PV
Sbjct: 3 KVLVLYYSMYGHIETMARAVAEGASKVDGAEVVVKRVPETMPPQLFEK--AGGKTQTAPV 60
Query: 64 IRPHQLKEADGFLFGFPSRFGVMAAQCKAFFDATYELWASQALAGKPAGIFWSTGFHGGG 123
P +L + D +FG P+RFG M+ Q + F D T LWAS AL GK A +F STG GGG
Sbjct: 61 ATPQELADYDAIIFGTPTRFGNMSGQMRTFLDQTGGLWASGALYGKLASVFSSTG-TGGG 119
Query: 124 QELTALTAVTQLAHHGMLFVPLGYTFGSGMFEMNEVKGGSSYGAGTFA-ADGSRQPTDLE 182
QE T + T LAHHGM+ VP+GY +F++++V+GG+ YGA T A DGSRQP+ E
Sbjct: 120 QEQTITSTWTTLAHHGMVIVPIGYA-AQELFDVSQVRGGTPYGATTIAGGDGSRQPSQEE 178
Query: 183 LQQAFHQGKYVAEIAKKLK 201
L A +QG+YVA +A KL
Sbjct: 179 LSIARYQGEYVAGLAVKLN 197
>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 = 107 bits (266), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 77/203 (37%), Positives = 101/203 (49%), Gaps = 17/203 (8%)
Query: 5 IYIVYYSLYGHVETMAREVQRGANSVLGVEATLWQVPETLSSVILQKMKAPPKTNDVPV- 63
I ++YYS +G MAR++ RG G EA + VP + + AP D+P
Sbjct: 15 ILVLYYSRHGATAEMARQIARGVEQG-GFEARVRTVPAVSTEC---EAVAP----DIPAE 66
Query: 64 ----IRPHQLKEADGFLFGFPSRFGVMAAQCKAFFDATYELWASQALAGKPAGIFWSTGF 119
LK G G P+RFG MA+ K F D T LW + +L GKPA +F ST
Sbjct: 67 GALYATLEDLKNCAGLALGSPTRFGNMASPLKYFLDGTSSLWLTGSLVGKPAAVFTSTAS 126
Query: 120 HGGGQELTALTAVTQLAHHGMLFVPLGYTFGSGMFEMNEVKGGSSYGAGTFA-ADGSRQP 178
GGQE T L+ + L HHGML + + Y+ + E GG+ YGA FA ADG R
Sbjct: 127 LHGGQETTQLSMLLPLLHHGMLVLGIPYSE-PALLETR--GGGTPYGASHFAGADGKRSL 183
Query: 179 TDLELQQAFHQGKYVAEIAKKLK 201
+ EL GK +AE A KL+
Sbjct: 184 DEHELTLCRALGKRLAETAGKLE 206
>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 = 105 bits (261), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 71/200 (35%), Positives = 100/200 (50%), Gaps = 12/200 (6%)
Query: 4 KIYIVYYSLYGHVETMAREVQRGANSVLGVEATLWQVPETLSSVILQKMKAPPKTNDVPV 63
I +++Y YG + +A+E+ +GA G E + +V ETL ++ K D+P
Sbjct: 6 NILVLFYG-YGSIVELAKEIGKGAEEA-GAEVKIRRVRETLPPEFQSRIPFD-KVKDIPE 62
Query: 64 IRPHQLKEADGFLFGFPSRFGVMAAQCKAFFDATYELWASQALAGKPAGIFWSTGFHGGG 123
+ ++ ADGF G P+R+G MA K F D T LW L GKP F GG
Sbjct: 63 VTLDDMRWADGFAIGSPTRYGNMAGGLKTFLDTTAILWKDNVLYGKPVTFFTEASTVHGG 122
Query: 124 QELTALTAVTQLAHHGMLFVPLGYTFGSGMFEM-NEVKGGSSYGAGTFAADGSRQPTD-L 181
E T LT T H GM+ VP+GY G+ E+ GG YGA GS++ D +
Sbjct: 123 HETTILTMSTYAYHFGMIIVPIGY----GIPELFQTTTGGGPYGATHL---GSKEELDEM 175
Query: 182 ELQQAFHQGKYVAEIAKKLK 201
E + A QGK + E+AK +K
Sbjct: 176 ERKIARFQGKRITEVAKAIK 195
>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 = 81.6 bits (200), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 74/202 (36%), Positives = 97/202 (48%), Gaps = 17/202 (8%)
Query: 5 IYIVYYSLYGHVETMAREVQRGANSVLGVEATLWQVPETLSSVILQKMKAPPKTNDVPV- 63
I ++YYS +G AR++ RG G EA + VP + + AP D+P
Sbjct: 8 ILVLYYSRHGATAEXARQIARGVEQG-GFEARVRTVPAVSTEC---EAVAP----DIPAE 59
Query: 64 ----IRPHQLKEADGFLFGFPSRFGVMAAQCKAFFDATYELWASQALAGKPAGIFWSTGF 119
LK G G P+RFG A+ K F D T LW + +L GKPA +F ST
Sbjct: 60 GALYATLEDLKNCAGLALGSPTRFGNXASPLKYFLDGTSSLWLTGSLVGKPAAVFTSTAS 119
Query: 120 HGGGQELTALTAVTQLAHHGMLFVPLGYTFGSGMFEMNEVKGGSSYGAGTFA-ADGSRQP 178
GGQE T L+ + L HHG L + + Y+ + E GG+ YGA FA ADG R
Sbjct: 120 LHGGQETTQLSXLLPLLHHGXLVLGIPYSE-PALLETR--GGGTPYGASHFAGADGKRSL 176
Query: 179 TDLELQQAFHQGKYVAEIAKKL 200
+ EL GK +AE A KL
Sbjct: 177 DEHELTLCRALGKRLAETAGKL 198
>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 = 63.9 bits (154), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 53/146 (36%), Positives = 68/146 (46%), Gaps = 17/146 (11%)
Query: 60 DVPVIRPHQLKEADGFLFGFPSRFGVMAAQCKAFFDATYELWASQALAGKPAGIFWSTGF 119
DVP P L+ A+ +F P+RFG +Q +AF D LW+S LA K S
Sbjct: 67 DVPEATPADLEWAEAIVFSSPTRFGGATSQMRAFIDTLGGLWSSGKLANKTFSAMTSAQN 126
Query: 120 HGGGQELTALTAVTQLAHHGMLFVPLGYTFGSGMFEMNEV---KGGSSYGAGTFAADGSR 176
GGQE T T H G + P GYT +EV GG+ YGA + A+G
Sbjct: 127 VNGGQETTLQTLYMTAMHWGAVLTPPGYT--------DEVIFKSGGNPYGA-SVTANG-- 175
Query: 177 QPTDLELQQAF--HQGKYVAEIAKKL 200
QP LE +A HQ + E+ KL
Sbjct: 176 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 = 63.5 bits (153), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 53/146 (36%), Positives = 68/146 (46%), Gaps = 17/146 (11%)
Query: 60 DVPVIRPHQLKEADGFLFGFPSRFGVMAAQCKAFFDATYELWASQALAGKPAGIFWSTGF 119
DVP P L+ A+ +F P+RFG +Q +AF D LW+S LA K S
Sbjct: 67 DVPEATPADLEWAEAIVFSSPTRFGGATSQXRAFIDTLGGLWSSGKLANKTFSAXTSAQN 126
Query: 120 HGGGQELTALTAVTQLAHHGMLFVPLGYTFGSGMFEMNEV---KGGSSYGAGTFAADGSR 176
GGQE T T H G + P GYT +EV GG+ YGA + A+G
Sbjct: 127 VNGGQETTLQTLYXTAXHWGAVLTPPGYT--------DEVIFKSGGNPYGA-SVTANG-- 175
Query: 177 QPTDLELQQAF--HQGKYVAEIAKKL 200
QP LE +A HQ + E+ KL
Sbjct: 176 QPL-LENDRASIRHQVRRQVELTAKL 200
>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 = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 40/139 (28%), Positives = 60/139 (43%), Gaps = 24/139 (17%)
Query: 4 KIYIVYYSLYGHVETMAREVQRGANSVLGVEATLWQVPETLSSVILQKMKAPPKTNDVPV 63
K+ ++Y + G+ + A V GA S+ G E L V E +L
Sbjct: 6 KVLVIYDTRTGNTKKXAELVAEGARSLEGTEVRLKHVDEATKEDVLW------------- 52
Query: 64 IRPHQLKEADGFLFGFPSRFGVMAAQCKAFFDATY-ELWASQALAGKPAGIFWSTGFHGG 122
ADG G P+ G+++ + K FFD +LW + GK A F S+G GG
Sbjct: 53 --------ADGLAVGSPTNXGLVSWKXKRFFDDVLGDLWGE--IDGKIACAFSSSGGWGG 102
Query: 123 GQELTALTAVTQLAHHGML 141
G E+ + +T L + G L
Sbjct: 103 GNEVACXSILTXLXNFGFL 121
>pdb|3D7N|A Chain A, The Crystal Structure Of The Flavodoxin, Wrba-Like Protein
From Agrobacterium Tumefaciens
Length = 193
Score = 32.3 bits (72), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 38/130 (29%), Positives = 56/130 (43%), Gaps = 6/130 (4%)
Query: 77 FGFPSRFGVMAAQCKAFFDATYELWASQALAGKPAGIFWSTGFHGGGQELTALTAVTQLA 136
FG P+ G + Q K F DA+ + W S K G F + G +L L + LA
Sbjct: 60 FGTPTYXGGPSWQFKKFADASSKPWFSAKWQDKVFGGF-TNSASLNGDKLNTLQYLVLLA 118
Query: 137 -HHGMLFVPLGYTFGSGMFEM-NEVKGGSSYGAGTFAADGSRQPTDL---ELQQAFHQGK 191
HG L+V LG + + N+ SY A +D P + +L+ A G
Sbjct: 119 GQHGGLWVSLGIKPSNLKSSVRNDANRXGSYIAPXAQSDADAAPEEXSVGDLETARLYGA 178
Query: 192 YVAEIAKKLK 201
VA +A++ K
Sbjct: 179 RVANVARQHK 188
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 0.135 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,523,045
Number of Sequences: 62578
Number of extensions: 275132
Number of successful extensions: 624
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 604
Number of HSP's gapped (non-prelim): 13
length of query: 202
length of database: 14,973,337
effective HSP length: 94
effective length of query: 108
effective length of database: 9,091,005
effective search space: 981828540
effective search space used: 981828540
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: 49 (23.5 bits)