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= 028847
(203 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 = 169 bits (428), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 93/199 (46%), Positives = 122/199 (61%), Gaps = 4/199 (2%)
Query: 4 KVYIVYYSMYGHVEKLAEEIQKGAASVEGVEAKLWQVPETLSEDVLGKMGAGPKSDVPTI 63
KV ++YYSMYGH+E +A + +GA+ V+G E + +VPET+ + K G G P
Sbjct: 3 KVLVLYYSMYGHIETMARAVAEGASKVDGAEVVVKRVPETMPPQLFEKAG-GKTQTAPVA 61
Query: 64 TPNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLWRSQQLAGKPAGIFYXXXXXXXXX 123
TP ELA+ D I+ G PTRFG M+ Q + FLD TGGLW S L GK A +F
Sbjct: 62 TPQELADYDAIIFGTPTRFGNMSGQMRTFLDQTGGLWASGALYGKLASVFSSTGTGGGQE 121
Query: 124 XXXPLTAITQLVHHGMIFVPIGYTFGAGMSEMEKVKGGSPYGAGTFA-GDGSRQPSELEL 182
T T L HHGM+ VPIGY + ++ +V+GG+PYGA T A GDGSRQPS+ EL
Sbjct: 122 QTITST-WTTLAHHGMVIVPIGYA-AQELFDVSQVRGGTPYGATTIAGGDGSRQPSQEEL 179
Query: 183 AQAFHQGKYFAGITKKLKG 201
+ A +QG+Y AG+ KL G
Sbjct: 180 SIARYQGEYVAGLAVKLNG 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 = 106 bits (264), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 72/199 (36%), Positives = 100/199 (50%), Gaps = 11/199 (5%)
Query: 4 KVYIVYYSMYGHVEKLAEEIQKGAASVEGVEAKLWQVPETLSEDVLGKMGAGPKSDVPTI 63
+ +++Y YG + +LA+EI KGA G E K+ +V ETL + ++ D+P +
Sbjct: 6 NILVLFYG-YGSIVELAKEIGKGAEEA-GAEVKIRRVRETLPPEFQSRIPFDKVKDIPEV 63
Query: 64 TPNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLWRSQQLAGKPAGIFYXXXXXXXXX 123
T +++ ADG +G PTR+G MA K FLD T LW+ L GKP F
Sbjct: 64 TLDDMRWADGFAIGSPTRYGNMAGGLKTFLDTTAILWKDNVLYGKPVTFFTEASTVHGGH 123
Query: 124 XXXPLTAITQLVHHGMIFVPIGYTFGAGMSEM-EKVKGGSPYGAGTFAGDGSRQP-SELE 181
LT T H GMI VPIGY G+ E+ + GG PYGA GS++ E+E
Sbjct: 124 ETTILTMSTYAYHFGMIIVPIGY----GIPELFQTTTGGGPYGATHL---GSKEELDEME 176
Query: 182 LAQAFHQGKYFAGITKKLK 200
A QGK + K +K
Sbjct: 177 RKIARFQGKRITEVAKAIK 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 = 103 bits (257), Expect = 7e-23, Method: Compositional matrix adjust.
Identities = 73/206 (35%), Positives = 100/206 (48%), Gaps = 22/206 (10%)
Query: 5 VYIVYYSMYGHVEKLAEEIQKGAASVE--GVEAKLWQVP------ETLSEDVLGKMGAGP 56
+ ++YYS +G ++A +I +G VE G EA++ VP E ++ D+ P
Sbjct: 15 ILVLYYSRHGATAEMARQIARG---VEQGGFEARVRTVPAVSTECEAVAPDI-------P 64
Query: 57 KSDVPTITPNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLWRSQQLAGKPAGIFYXX 116
T +L G+ LG PTRFG MA+ K FLD T LW + L GKPA +F
Sbjct: 65 AEGALYATLEDLKNCAGLALGSPTRFGNMASPLKYFLDGTSSLWLTGSLVGKPAAVFTST 124
Query: 117 XXXXXXXXXXPLTAITQLVHHGMIFVPIGYTFGAGMSEMEKVKGGSPYGAGTFAG-DGSR 175
L+ + L+HHGM+ + I Y+ A +E GG+PYGA FAG DG R
Sbjct: 125 ASLHGGQETTQLSMLLPLLHHGMLVLGIPYSEPA---LLETRGGGTPYGASHFAGADGKR 181
Query: 176 QPSELELAQAFHQGKYFAGITKKLKG 201
E EL GK A KL+G
Sbjct: 182 SLDEHELTLCRALGKRLAETAGKLEG 207
>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 = 76.3 bits (186), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 70/204 (34%), Positives = 95/204 (46%), Gaps = 22/204 (10%)
Query: 5 VYIVYYSMYGHVEKLAEEIQKGAASVE--GVEAKLWQVP------ETLSEDVLGKMGAGP 56
+ ++YYS +G + A +I +G VE G EA++ VP E ++ D+ P
Sbjct: 8 ILVLYYSRHGATAEXARQIARG---VEQGGFEARVRTVPAVSTECEAVAPDI-------P 57
Query: 57 KSDVPTITPNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLWRSQQLAGKPAGIFYXX 116
T +L G+ LG PTRFG A+ K FLD T LW + L GKPA +F
Sbjct: 58 AEGALYATLEDLKNCAGLALGSPTRFGNXASPLKYFLDGTSSLWLTGSLVGKPAAVFTST 117
Query: 117 XXXXXXXXXXPLTAITQLVHHGMIFVPIGYTFGAGMSEMEKVKGGSPYGAGTFAG-DGSR 175
L+ + L+HHG + + I Y+ A +E GG+PYGA FAG DG R
Sbjct: 118 ASLHGGQETTQLSXLLPLLHHGXLVLGIPYSEPA---LLETRGGGTPYGASHFAGADGKR 174
Query: 176 QPSELELAQAFHQGKYFAGITKKL 199
E EL GK A KL
Sbjct: 175 SLDEHELTLCRALGKRLAETAGKL 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 = 72.4 bits (176), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 56/170 (32%), Positives = 74/170 (43%), Gaps = 14/170 (8%)
Query: 36 KLWQVPETLSEDVLG-----KMGAGPKSDVPTITPNELAEADGILLGFPTRFGMMAAQFK 90
+L +V ET +DV+ K DVP TP +L A+ I+ PTRFG +Q +
Sbjct: 39 RLLKVRETAPQDVIDGQDAWKANIEAMKDVPEATPADLEWAEAIVFSSPTRFGGATSQMR 98
Query: 91 AFLDATGGLWRSQQLAGKPAGIFYXXXXXXXXXXXXPLTAITQLVHHGMIFVPIGYTFGA 150
AF+D GGLW S +LA K T +H G + P GYT
Sbjct: 99 AFIDTLGGLWSSGKLANKTFSAMTSAQNVNGGQETTLQTLYMTAMHWGAVLTPPGYT--- 155
Query: 151 GMSEMEKVKGGSPYGAGTFAGDGSRQP-SELELAQAFHQGKYFAGITKKL 199
E+ GG+PYGA A QP E + A HQ + +T KL
Sbjct: 156 --DEVIFKSGGNPYGASVTANG---QPLLENDRASIRHQVRRQVELTAKL 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 = 71.6 bits (174), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 65/202 (32%), Positives = 85/202 (42%), Gaps = 15/202 (7%)
Query: 4 KVYIVYYSMYGHVEKLAEEIQKGAASVEGVEAKLWQVPETLSEDVLG-----KMGAGPKS 58
K+ IV+YS G + A G E +L +V ET +DV+ K
Sbjct: 8 KLAIVFYSSTG-TGYAXAQEAAEAGRAAGAEVRLLKVRETAPQDVIDGQDAWKANIEAXK 66
Query: 59 DVPTITPNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLWRSQQLAGKPAGIFYXXXX 118
DVP TP +L A+ I+ PTRFG +Q +AF+D GGLW S +LA K
Sbjct: 67 DVPEATPADLEWAEAIVFSSPTRFGGATSQXRAFIDTLGGLWSSGKLANKTFSAXTSAQN 126
Query: 119 XXXXXXXXPLTAITQLVHHGMIFVPIGYTFGAGMSEMEKVKGGSPYGAGTFAGDGSRQP- 177
T H G + P GYT E+ GG+PYGA A QP
Sbjct: 127 VNGGQETTLQTLYXTAXHWGAVLTPPGYT-----DEVIFKSGGNPYGASVTANG---QPL 178
Query: 178 SELELAQAFHQGKYFAGITKKL 199
E + A HQ + +T KL
Sbjct: 179 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 = 54.7 bits (130), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 40/138 (28%), Positives = 61/138 (44%), Gaps = 23/138 (16%)
Query: 4 KVYIVYYSMYGHVEKLAEEIQKGAASVEGVEAKLWQVPETLSEDVLGKMGAGPKSDVPTI 63
KV ++Y + G+ +K AE + +GA S+EG E +L V E EDVL
Sbjct: 6 KVLVIYDTRTGNTKKXAELVAEGARSLEGTEVRLKHVDEATKEDVLW------------- 52
Query: 64 TPNELAEADGILLGFPTRFGMMAAQFKAFLDAT-GGLWRSQQLAGKPAGIFYXXXXXXXX 122
ADG+ +G PT G+++ + K F D G LW ++ GK A F
Sbjct: 53 -------ADGLAVGSPTNXGLVSWKXKRFFDDVLGDLW--GEIDGKIACAFSSSGGWGGG 103
Query: 123 XXXXPLTAITQLVHHGMI 140
+ +T L + G +
Sbjct: 104 NEVACXSILTXLXNFGFL 121
>pdb|1FLN|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: D58p Reduced
pdb|4NUL|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: D58p
Oxidized
Length = 138
Score = 30.8 bits (68), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 29/57 (50%), Gaps = 6/57 (10%)
Query: 7 IVYYSMYGHVEKLAEEIQKG----AASVEGVEAKLWQVPETLSED--VLGKMGAGPK 57
IVY+S G+ EK+AE I KG V + + E L+ED +LG GP+
Sbjct: 3 IVYWSGTGNTEKMAELIAKGIIESGKDVNTINVSDVNIDELLNEDILILGCSAMGPE 59
>pdb|1FVX|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: G57n
Oxidized
Length = 138
Score = 30.4 bits (67), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 4/47 (8%)
Query: 7 IVYYSMYGHVEKLAEEIQKG----AASVEGVEAKLWQVPETLSEDVL 49
IVY+S G+ EK+AE I KG V + + E L+ED+L
Sbjct: 3 IVYWSGTGNTEKMAELIAKGIIESGKDVNTINVSDVNIDELLNEDIL 49
>pdb|2FOX|A Chain A, Clostridium Beijerinckii Flavodoxin: Semiquinone
pdb|5NLL|A Chain A, Clostridium Beijerinckii Flavodoxin: Oxidized
pdb|5ULL|A Chain A, Clostridium Beijerinckii Flavodoxin: Reduced
Length = 138
Score = 30.4 bits (67), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 4/47 (8%)
Query: 7 IVYYSMYGHVEKLAEEIQKG----AASVEGVEAKLWQVPETLSEDVL 49
IVY+S G+ EK+AE I KG V + + E L+ED+L
Sbjct: 3 IVYWSGTGNTEKMAELIAKGIIESGKDVNTINVSDVNIDELLNEDIL 49
>pdb|2FAX|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: N137a
Oxidized (150k)
pdb|2FDX|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant N137a
Oxidized
pdb|6NUL|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: N137a
Reduced (150k)
Length = 138
Score = 30.4 bits (67), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 4/47 (8%)
Query: 7 IVYYSMYGHVEKLAEEIQKG----AASVEGVEAKLWQVPETLSEDVL 49
IVY+S G+ EK+AE I KG V + + E L+ED+L
Sbjct: 3 IVYWSGTGNTEKMAELIAKGIIESGKDVNTINVSDVNIDELLNEDIL 49
>pdb|3NLL|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: G57a
Oxidized
Length = 138
Score = 30.4 bits (67), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 4/47 (8%)
Query: 7 IVYYSMYGHVEKLAEEIQKG----AASVEGVEAKLWQVPETLSEDVL 49
IVY+S G+ EK+AE I KG V + + E L+ED+L
Sbjct: 3 IVYWSGTGNTEKMAELIAKGIIESGKDVNTINVSDVNIDELLNEDIL 49
>pdb|2OHH|A Chain A, Crystal Structure Of Coenzyme F420h2 Oxidase (Fpra), A
Diiron Flavoprotein, Active Oxidized State
pdb|2OHH|B Chain B, Crystal Structure Of Coenzyme F420h2 Oxidase (Fpra), A
Diiron Flavoprotein, Active Oxidized State
pdb|2OHH|D Chain D, Crystal Structure Of Coenzyme F420h2 Oxidase (Fpra), A
Diiron Flavoprotein, Active Oxidized State
pdb|2OHH|E Chain E, Crystal Structure Of Coenzyme F420h2 Oxidase (Fpra), A
Diiron Flavoprotein, Active Oxidized State
pdb|2OHI|A Chain A, Crystal Structure Of Coenzyme F420h2 Oxidase (Fpra), A
Diiron Flavoprotein, Reduced State
pdb|2OHI|B Chain B, Crystal Structure Of Coenzyme F420h2 Oxidase (Fpra), A
Diiron Flavoprotein, Reduced State
pdb|2OHI|D Chain D, Crystal Structure Of Coenzyme F420h2 Oxidase (Fpra), A
Diiron Flavoprotein, Reduced State
pdb|2OHI|E Chain E, Crystal Structure Of Coenzyme F420h2 Oxidase (Fpra), A
Diiron Flavoprotein, Reduced State
pdb|2OHI|G Chain G, Crystal Structure Of Coenzyme F420h2 Oxidase (Fpra), A
Diiron Flavoprotein, Reduced State
pdb|2OHI|H Chain H, Crystal Structure Of Coenzyme F420h2 Oxidase (Fpra), A
Diiron Flavoprotein, Reduced State
pdb|2OHI|I Chain I, Crystal Structure Of Coenzyme F420h2 Oxidase (Fpra), A
Diiron Flavoprotein, Reduced State
pdb|2OHI|J Chain J, Crystal Structure Of Coenzyme F420h2 Oxidase (Fpra), A
Diiron Flavoprotein, Reduced State
pdb|2OHJ|A Chain A, Crystal Structure Of Coenzyme F420h2 Oxidase (Fpra), A
Diiron Flavoprotein, Inactive Oxidized State
pdb|2OHJ|B Chain B, Crystal Structure Of Coenzyme F420h2 Oxidase (Fpra), A
Diiron Flavoprotein, Inactive Oxidized State
pdb|2OHJ|D Chain D, Crystal Structure Of Coenzyme F420h2 Oxidase (Fpra), A
Diiron Flavoprotein, Inactive Oxidized State
pdb|2OHJ|E Chain E, Crystal Structure Of Coenzyme F420h2 Oxidase (Fpra), A
Diiron Flavoprotein, Inactive Oxidized State
Length = 404
Score = 30.4 bits (67), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 39/79 (49%), Gaps = 17/79 (21%)
Query: 4 KVYIVYYSMYGHVEKLAEEIQKGAASVEGVEAKLWQVPETLSEDVLGKMGAGPKSDVPTI 63
+V ++Y +M+G K+A I +GA S EGV+ +++ + E +++
Sbjct: 258 RVTVIYDTMHGSTRKMAHAIAEGAMS-EGVDVRVYCLHEDDRSEIV-------------- 302
Query: 64 TPNELAEADGILLGFPTRF 82
++ E+ I LG PT +
Sbjct: 303 --KDILESGAIALGAPTIY 319
>pdb|1FLD|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: G57t
Oxidized
pdb|2FLV|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: G57t Reduced
(150k)
pdb|2FVX|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: G57t Reduced
(277k)
pdb|5NUL|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: G57t
Semiquinone (150k)
Length = 138
Score = 30.4 bits (67), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 4/47 (8%)
Query: 7 IVYYSMYGHVEKLAEEIQKG----AASVEGVEAKLWQVPETLSEDVL 49
IVY+S G+ EK+AE I KG V + + E L+ED+L
Sbjct: 3 IVYWSGTGNTEKMAELIAKGIIESGKDVNTINVSDVNIDELLNEDIL 49
>pdb|1FLA|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: G57d Reduced
pdb|4NLL|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: G57d
Oxidized
Length = 138
Score = 30.4 bits (67), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 4/47 (8%)
Query: 7 IVYYSMYGHVEKLAEEIQKG----AASVEGVEAKLWQVPETLSEDVL 49
IVY+S G+ EK+AE I KG V + + E L+ED+L
Sbjct: 3 IVYWSGTGNTEKMAELIAKGIIESGKDVNTINVSDVNIDELLNEDIL 49
>pdb|1SQS|A Chain A, X-Ray Crystal Structure Protein Sp1951 Of Streptococcus
Pneumoniae. Northeast Structural Genomics Consortium
Target Spr27.
pdb|1SQS|B Chain B, X-Ray Crystal Structure Protein Sp1951 Of Streptococcus
Pneumoniae. Northeast Structural Genomics Consortium
Target Spr27.
pdb|2OYS|A Chain A, Crystal Structure Of Sp1951 Protein From Streptococcus
Pneumoniae In Complex With Fmn, Northeast Structural
Genomics Target Spr27
pdb|2OYS|B Chain B, Crystal Structure Of Sp1951 Protein From Streptococcus
Pneumoniae In Complex With Fmn, Northeast Structural
Genomics Target Spr27
Length = 242
Score = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 34/71 (47%), Gaps = 1/71 (1%)
Query: 39 QVPETLSEDVLGK-MGAGPKSDVPTITPNELAEADGILLGFPTRFGMMAAQFKAFLDATG 97
++ + SE++ K + +D + EL E+D I++ P ++ K F++ G
Sbjct: 47 EISNSDSEELFKKGIDRQSNADDGGVIKKELLESDIIIISSPVYLQNVSVDTKNFIERIG 106
Query: 98 GLWRSQQLAGK 108
G +LAGK
Sbjct: 107 GWSHLFRLAGK 117
>pdb|2FZ5|A Chain A, Solution Structure Of Two-electron Reduced Megasphaera
Elsdenii Flavodoxin
Length = 137
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 4/49 (8%)
Query: 5 VYIVYYSMYGHVEKLAEEIQKGA----ASVEGVEAKLWQVPETLSEDVL 49
V IVY+S G+ E +A EI+ A VE V + V + S+DV+
Sbjct: 2 VEIVYWSGTGNTEAMANEIEAAVKAAGADVESVRFEDTNVDDVASKDVI 50
>pdb|1MHT|A Chain A, Covalent Ternary Structure Of Hhai Methyltransferase, Dna
And S-Adenosyl-L-Homocysteine
pdb|3MHT|A Chain A, Ternary Structure Of Hhai Methyltransferase With
Unmodified Dna And Adohcy
pdb|4MHT|A Chain A, Ternary Structure Of Hhai Methyltransferase With Native
Dna And Adohcy
pdb|5MHT|A Chain A, Ternary Structure Of Hhai Methyltransferase With
Hemimethylated Dna And Adohcy
pdb|6MHT|A Chain A, Ternary Structure Of Hhai Methyltransferase With Adohcy
And Dna Containing 4'-Thio-2'deoxycytidine At The Target
pdb|7MHT|A Chain A, Cytosine-Specific Methyltransferase HhaiDNA COMPLEX
pdb|8MHT|A Chain A, Cytosine-Specific Methyltransferase HhaiDNA COMPLEX
pdb|9MHT|A Chain A, Cytosine-specific Methyltransferase Hhai/dna Complex
pdb|10MH|A Chain A, Ternary Structure Of Hhai Methyltransferase With Adohcy
And Hemimethylated Dna Containing
5,6-Dihydro-5-Azacytosine At The Target
pdb|2HMY|B Chain B, Binary Complex Of Hhai Methyltransferase With Adomet
Formed In The Presence Of A Short Nonpsecific Dna
Oligonucleotide
pdb|1M0E|A Chain A, Zebularine: A Novel Dna Methylation Inhibitor That Forms A
Covalent Complex With Dna Methyltransferase
pdb|1SKM|A Chain A, Hhai Methyltransferase In Complex With Dna Containing An
Abasic South Carbocyclic Sugar At Its Target Site
pdb|2C7O|A Chain A, Hhai Dna Methyltransferase Complex With 13mer
Oligonucleotide Containing 2-Aminopurine Adjacent To The
Target Base (Pcgc:gmgc) And Sah
pdb|2C7P|A Chain A, Hhai Dna Methyltransferase Complex With Oligonucleotide
Containing 2-Aminopurine Opposite To The Target Base (
Gcgc:gmpc) And Sah
pdb|2C7Q|A Chain A, Hhai Dna Methyltransferase Complex With Oligonucleotide
Containing 2-Aminopurine Outside The Recognition
Sequence (Paired With G) And Sah
pdb|2HR1|A Chain A, Ternary Structure Of Wt M.hhai C5-cytosine Dna
Methyltransferase With Unmodified Dna And Adohcy
pdb|1HMY|A Chain A, Crystal Structure Of The Hhai Dna Methyltransferase
Complexed With S- Adenosyl-L-Methionine
pdb|3EEO|A Chain A, M. Hhai Co-Crystallized With Synthetic Dsdna Containing A
Propane Diol In Place Of The Deoxycytidine Residue
Targeted For Methylation
Length = 327
Score = 28.1 bits (61), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 51 KMGAGPKSDVPTITPNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLW 100
G P+ D+ + + + D + GFP + ++ + K F D+ G L+
Sbjct: 52 NFGEKPEGDITQVNEKTIPDHDILCAGFPCQAFSISGKQKGFEDSRGTLF 101
>pdb|2ZCJ|A Chain A, Ternary Structure Of The Glu119gln M.Hhai, C5-Cytosine Dna
Methyltransferase, With Unmodified Dna And Adohcy
Length = 327
Score = 28.1 bits (61), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 51 KMGAGPKSDVPTITPNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLW 100
G P+ D+ + + + D + GFP + ++ + K F D+ G L+
Sbjct: 52 NFGEKPEGDITQVNEKTIPDHDILCAGFPCQAFSISGKQKGFEDSRGTLF 101
>pdb|2I9K|A Chain A, Engineered Extrahelical Base Destabilization Enhances
Sequence Discrimination Of Dna Methyltransferase M.Hhai
Length = 327
Score = 28.1 bits (61), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 51 KMGAGPKSDVPTITPNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLW 100
G P+ D+ + + + D + GFP + ++ + K F D+ G L+
Sbjct: 52 NFGEKPEGDITQVNEKTIPDHDILCAGFPCQAFSISGKQKGFEDSRGTLF 101
>pdb|2UZ4|A Chain A, Hhai Dna Methyltransferase R165n Mutant Complex With 13mer
Gcgc-Gmgc Oligonucleotide And Sah
Length = 327
Score = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 51 KMGAGPKSDVPTITPNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLW 100
G P+ D+ + + + D + GFP + ++ + K F D+ G L+
Sbjct: 52 NFGEKPEGDITQVNEKTIPDHDILCAGFPCQAFSISGKQKGFEDSRGTLF 101
>pdb|2UYC|A Chain A, Hhai Dna Methyltransferase R163n Mutant Complex With 13mer
Gcgc-Gmgc Oligonucleotide And Sah
Length = 327
Score = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 51 KMGAGPKSDVPTITPNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLW 100
G P+ D+ + + + D + GFP + ++ + K F D+ G L+
Sbjct: 52 NFGEKPEGDITQVNEKTIPDHDILCAGFPCQAFSISGKQKGFEDSRGTLF 101
>pdb|2Z6U|A Chain A, Ternary Structure Of The Glu119ala M.Hhai, C5-Cytosine Dna
Methyltransferase, With Unmodified Dna And Adohcy
Length = 327
Score = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 51 KMGAGPKSDVPTITPNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLW 100
G P+ D+ + + + D + GFP + ++ + K F D+ G L+
Sbjct: 52 NFGEKPEGDITQVNEKTIPDHDILCAGFPCQAFSISGKQKGFEDSRGTLF 101
>pdb|2Z6Q|A Chain A, Ternary Structure Of Arg165ala M.Hhai C5-Cytosine Dna
Methyltransferase With Unmodified Dna And Adohcy
Length = 327
Score = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 51 KMGAGPKSDVPTITPNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLW 100
G P+ D+ + + + D + GFP + ++ + K F D+ G L+
Sbjct: 52 NFGEKPEGDITQVNEKTIPDHDILCAGFPCQAFSISGKQKGFEDSRGTLF 101
>pdb|1FJX|A Chain A, Structure Of Ternary Complex Of Hhai Methyltransferase
Mutant (T250g) In Complex With Dna And Adohcy
pdb|2C7R|A Chain A, Hhai Dna Methyltransferase (T250g Mutant) Complex With
Oligonucleotide Containing 2-Aminopurine As A Target
Base (Gpgc:gmgc) And Sah
Length = 327
Score = 28.1 bits (61), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 51 KMGAGPKSDVPTITPNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLW 100
G P+ D+ + + + D + GFP + ++ + K F D+ G L+
Sbjct: 52 NFGEKPEGDITQVNEKTIPDHDILCAGFPCQAFSISGKQKGFEDSRGTLF 101
>pdb|1SVU|A Chain A, Structure Of The Q237w Mutant Of Hhai Dna
Methyltransferase: An Insight Into Protein-Protein
Interactions
pdb|1SVU|B Chain B, Structure Of The Q237w Mutant Of Hhai Dna
Methyltransferase: An Insight Into Protein-Protein
Interactions
Length = 327
Score = 28.1 bits (61), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 51 KMGAGPKSDVPTITPNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLW 100
G P+ D+ + + + D + GFP + ++ + K F D+ G L+
Sbjct: 52 NFGEKPEGDITQVNEKTIPDHDILCAGFPCQAFSISGKQKGFEDSRGTLF 101
>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 = 27.7 bits (60), Expect = 4.4, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 21/46 (45%)
Query: 93 LDATGGLWRSQQLAGKPAGIFYXXXXXXXXXXXXPLTAITQLVHHG 138
LD LW SQ 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 = 27.7 bits (60), Expect = 4.4, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 21/46 (45%)
Query: 93 LDATGGLWRSQQLAGKPAGIFYXXXXXXXXXXXXPLTAITQLVHHG 138
LD LW SQ GK +G++ +TA T+LV HG
Sbjct: 2298 LDTVKDLWGSQFFTGKISGVWSVYCTFLLSWFHALITARTRLVPHG 2343
>pdb|2Z6A|A Chain A, S-Adenosyl-L-Methionine-Dependent Methyl Transfer:
Observable Precatalytic Intermediates During Dna
Cytosine Methylation
Length = 327
Score = 27.7 bits (60), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 51 KMGAGPKSDVPTITPNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLW 100
G P+ D+ + + + D + GFP + ++ + K F D+ G L+
Sbjct: 52 NFGEKPEGDITQVNEKTIPDHDILCAGFPAQAFSISGKQKGFEDSRGTLF 101
>pdb|3P9D|D Chain D, The Crystal Structure Of Yeast Cct Reveals Intrinsic
Asymmetry Of Eukaryotic Cytosolic Chaperonins
pdb|3P9D|L Chain L, The Crystal Structure Of Yeast Cct Reveals Intrinsic
Asymmetry Of Eukaryotic Cytosolic Chaperonins
pdb|3P9E|DD Chain d, The Crystal Structure Of Yeast Cct Reveals Intrinsic
Asymmetry Of Eukaryotic Cytosolic Chaperonins
pdb|3P9E|LL Chain l, The Crystal Structure Of Yeast Cct Reveals Intrinsic
Asymmetry Of Eukaryotic Cytosolic Chaperonins
pdb|4D8Q|D Chain D, Molecular Architecture Of The Eukaryotic Chaperonin
TricCCT DERIVED By A Combination Of Chemical
Crosslinking And Mass-Spectrometry, Xl- Ms
pdb|4D8Q|L Chain L, Molecular Architecture Of The Eukaryotic Chaperonin
TricCCT DERIVED By A Combination Of Chemical
Crosslinking And Mass-Spectrometry, Xl- Ms
pdb|4D8R|DD Chain d, Molecular Architecture Of The Eukaryotic Chaperonin
TricCCT DERIVED By A Combination Of Chemical
Crosslinking And Mass-Spectrometry, Xl- Ms
pdb|4D8R|LL Chain l, Molecular Architecture Of The Eukaryotic Chaperonin
TricCCT DERIVED By A Combination Of Chemical
Crosslinking And Mass-Spectrometry, Xl- Ms
Length = 528
Score = 26.9 bits (58), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 23/38 (60%), Gaps = 8/38 (21%)
Query: 18 KLAEEIQKGAASVEGVEAKLWQ--------VPETLSED 47
+++ + K A S+EGV+A +WQ +P TL+E+
Sbjct: 420 EISRRLSKEARSMEGVQAFIWQEFASALEVIPTTLAEN 457
>pdb|2NVO|A Chain A, Crystal Structure Of Deinococcus Radiodurans Ro (Rsr)
Protein
Length = 535
Score = 26.6 bits (57), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 10/49 (20%)
Query: 44 LSEDVLGKMGAGPKSDVPTITPNELA----------EADGILLGFPTRF 82
L+ DV G M G + VP +TPN A E D + +GF +F
Sbjct: 367 LALDVSGSMTCGDVAGVPGLTPNMAAAAMSLIALRTEPDALTMGFAEQF 415
>pdb|3CKF|A Chain A, The Crystal Structure Of Ospa Deletion Mutant
Length = 228
Score = 26.6 bits (57), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 36/75 (48%), Gaps = 6/75 (8%)
Query: 10 YSMYGHVEKL----AEEIQKGAASVEGVEAKLWQVPETLSEDVLGKMGAGP-KSDVPTIT 64
Y + V+ L + G+ +EGV+A +V T+S+D LG+ KSD T+
Sbjct: 30 YDLIATVDALELSGTSDKNNGSGVLEGVKADASKVKLTISDD-LGQTTLEVFKSDGSTLV 88
Query: 65 PNELAEADGILLGFP 79
++ ADG L +
Sbjct: 89 SKKVTRADGTRLEYT 103
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 0.135 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,153,440
Number of Sequences: 62578
Number of extensions: 249787
Number of successful extensions: 512
Number of sequences better than 100.0: 46
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 475
Number of HSP's gapped (non-prelim): 48
length of query: 203
length of database: 14,973,337
effective HSP length: 94
effective length of query: 109
effective length of database: 9,091,005
effective search space: 990919545
effective search space used: 990919545
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 49 (23.5 bits)