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= 024934
(260 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 = 145 bits (366), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 78/198 (39%), Positives = 113/198 (57%), Gaps = 5/198 (2%)
Query: 61 KIFIVFYSMYGHVEGLAKRMXXXXXXXXXXEGLLYRVPETLTREALDHMKVPPRDDDIPE 120
K+ +++YSMYGH+E +A+ + E ++ RVPET+ + + K + P
Sbjct: 3 KVLVLYYSMYGHIETMARAVAEGASKVDGAEVVVKRVPETMPPQLFE--KAGGKTQTAPV 60
Query: 121 ISAADLVEADGFLFGFPTRYGCMAAQMKAFFDSTGMLWKEGKLVGKPAGFFVSXXXXXXX 180
+ +L + D +FG PTR+G M+ QM+ F D TG LW G L GK A F S
Sbjct: 61 ATPQELADYDAIIFGTPTRFGNMSGQMRTFLDQTGGLWASGALYGKLASVFSSTGTGGGQ 120
Query: 181 XXXXAWTAITQLAHHGMLFVPIGYTFGAGMFKMDSIRGGSPYGAGVFA-GDGTREPSETE 239
T T LAHHGM+ VPIGY +F + +RGG+PYGA A GDG+R+PS+ E
Sbjct: 121 EQTITST-WTTLAHHGMVIVPIGYA-AQELFDVSQVRGGTPYGATTIAGGDGSRQPSQEE 178
Query: 240 LALAEHQGKYMAAVVKKL 257
L++A +QG+Y+A + KL
Sbjct: 179 LSIARYQGEYVAGLAVKL 196
>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 = 100 bits (248), Expect = 9e-22, Method: Compositional matrix adjust.
Identities = 76/208 (36%), Positives = 96/208 (46%), Gaps = 20/208 (9%)
Query: 59 KLKIFIVFYSMYGHVEGLAKRMXXXXXXXXXXEGLLYRVPETL-----TREALDHMKVPP 113
K I ++FY YG + LAK + E + RV ETL +R D +K
Sbjct: 4 KPNILVLFYG-YGSIVELAKEIGKGAEEAGA-EVKIRRVRETLPPEFQSRIPFDKVK--- 58
Query: 114 RDDDIPEISAADLVEADGFLFGFPTRYGCMAAQMKAFFDSTGMLWKEGKLVGKPAGFFVS 173
DIPE++ D+ ADGF G PTRYG MA +K F D+T +LWK+ L GKP FF
Sbjct: 59 ---DIPEVTLDDMRWADGFAIGSPTRYGNMAGGLKTFLDTTAILWKDNVLYGKPVTFFTE 115
Query: 174 XXXXXXXXXXXAWTAITQLAHHGMLFVPIGYTFGAGMFKMDSIRGGSPYGAGVFAGDGTR 233
T T H GM+ VPIGY +F+ + GG PYGA
Sbjct: 116 ASTVHGGHETTILTMSTYAYHFGMIIVPIGYGI-PELFQTTT--GGGPYGATHLGSK--E 170
Query: 234 EPSETELALAEHQGKYMAAVVK--KLCE 259
E E E +A QGK + V K K C
Sbjct: 171 ELDEMERKIARFQGKRITEVAKAIKCCN 198
>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 = 90.5 bits (223), Expect = 9e-19, Method: Compositional matrix adjust.
Identities = 70/202 (34%), Positives = 92/202 (45%), Gaps = 17/202 (8%)
Query: 62 IFIVFYSMYGHVEGLAKRMXXXXXXXXXXEGLLYRVPETLTREALDHMKVPPRDDDIPEI 121
I +++YS +G +A+++ E + VP T + V P DIP
Sbjct: 15 ILVLYYSRHGATAEMARQIARGVEQGGF-EARVRTVPAVST----ECEAVAP---DIPAE 66
Query: 122 SA-----ADLVEADGFLFGFPTRYGCMAAQMKAFFDSTGMLWKEGKLVGKPAGFFVSXXX 176
A DL G G PTR+G MA+ +K F D T LW G LVGKPA F S
Sbjct: 67 GALYATLEDLKNCAGLALGSPTRFGNMASPLKYFLDGTSSLWLTGSLVGKPAAVFTSTAS 126
Query: 177 XXXXXXXXAWTAITQLAHHGMLFVPIGYTFGAGMFKMDSIRGGSPYGAGVFAG-DGTREP 235
+ + L HHGML + I Y+ A +++ GG+PYGA FAG DG R
Sbjct: 127 LHGGQETTQLSMLLPLLHHGMLVLGIPYSEPA---LLETRGGGTPYGASHFAGADGKRSL 183
Query: 236 SETELALAEHQGKYMAAVVKKL 257
E EL L GK +A KL
Sbjct: 184 DEHELTLCRALGKRLAETAGKL 205
>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 = 75.5 bits (184), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 63/204 (30%), Positives = 87/204 (42%), Gaps = 12/204 (5%)
Query: 60 LKIFIVFYSMYGHVEGLAKRMXXXXXXXXXXEGLLYRVPETLTREALDHMKVPPRD---- 115
+K+ IVFYS G +A+ LL +V ET ++ +D +
Sbjct: 7 VKLAIVFYSSTGTGYAMAQEAAEAGRAAGAEVRLL-KVRETAPQDVIDGQDAWKANIEAM 65
Query: 116 DDIPEISAADLVEADGFLFGFPTRYGCMAAQMKAFFDSTGMLWKEGKLVGKPAGFFVSXX 175
D+PE + ADL A+ +F PTR+G +QM+AF D+ G LW GKL K S
Sbjct: 66 KDVPEATPADLEWAEAIVFSSPTRFGGATSQMRAFIDTLGGLWSSGKLANKTFSAMTSAQ 125
Query: 176 XXXXXXXXXAWTAITQLAHHGMLFVPIGYTFGAGMFKMDSIRGGSPYGAGVFAGDGTREP 235
T H G + P GYT +FK GG+PYGA V A +
Sbjct: 126 NVNGGQETTLQTLYMTAMHWGAVLTPPGYTDEV-IFK----SGGNPYGASVTANG--QPL 178
Query: 236 SETELALAEHQGKYMAAVVKKLCE 259
E + A HQ + + KL E
Sbjct: 179 LENDRASIRHQVRRQVELTAKLLE 202
>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 = 73.6 bits (179), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 63/205 (30%), Positives = 86/205 (41%), Gaps = 14/205 (6%)
Query: 60 LKIFIVFYSMYGHVEGLAKRMXXXXXXXXXXEGLLYRVPETLTREALDHMKVPPRD---- 115
+K+ IVFYS G A+ LL +V ET ++ +D +
Sbjct: 7 VKLAIVFYSSTGTGYAXAQEAAEAGRAAGAEVRLL-KVRETAPQDVIDGQDAWKANIEAX 65
Query: 116 DDIPEISAADLVEADGFLFGFPTRYGCMAAQMKAFFDSTGMLWKEGKLVGKPAGFFVSXX 175
D+PE + ADL A+ +F PTR+G +Q +AF D+ G LW GKL K S
Sbjct: 66 KDVPEATPADLEWAEAIVFSSPTRFGGATSQXRAFIDTLGGLWSSGKLANKTFSAXTSAQ 125
Query: 176 XXXXXXXXXAWTAITQLAHHGMLFVPIGYTFGAGMFKMDSIRGGSPYGAGVFAGDGTREP 235
T H G + P GYT +FK GG+PYGA V A +P
Sbjct: 126 NVNGGQETTLQTLYXTAXHWGAVLTPPGYTDEV-IFK----SGGNPYGASVTANG---QP 177
Query: 236 -SETELALAEHQGKYMAAVVKKLCE 259
E + A HQ + + KL E
Sbjct: 178 LLENDRASIRHQVRRQVELTAKLLE 202
>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 = 69.3 bits (168), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 68/202 (33%), Positives = 89/202 (44%), Gaps = 17/202 (8%)
Query: 62 IFIVFYSMYGHVEGLAKRMXXXXXXXXXXEGLLYRVPETLTREALDHMKVPPRDDDIPEI 121
I +++YS +G A+++ E + VP T + V P DIP
Sbjct: 8 ILVLYYSRHGATAEXARQIARGVEQGGF-EARVRTVPAVST----ECEAVAP---DIPAE 59
Query: 122 SA-----ADLVEADGFLFGFPTRYGCMAAQMKAFFDSTGMLWKEGKLVGKPAGFFVSXXX 176
A DL G G PTR+G A+ +K F D T LW G LVGKPA F S
Sbjct: 60 GALYATLEDLKNCAGLALGSPTRFGNXASPLKYFLDGTSSLWLTGSLVGKPAAVFTSTAS 119
Query: 177 XXXXXXXXAWTAITQLAHHGMLFVPIGYTFGAGMFKMDSIRGGSPYGAGVFAG-DGTREP 235
+ + L HHG L + I Y+ A +++ GG+PYGA FAG DG R
Sbjct: 120 LHGGQETTQLSXLLPLLHHGXLVLGIPYSEPA---LLETRGGGTPYGASHFAGADGKRSL 176
Query: 236 SETELALAEHQGKYMAAVVKKL 257
E EL L GK +A KL
Sbjct: 177 DEHELTLCRALGKRLAETAGKL 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 = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 38/82 (46%), Gaps = 3/82 (3%)
Query: 118 IPEISAADLVEADGFLFGFPTRYGCMAAQMKAFFDST-GMLWKEGKLVGKPAGFFVSXXX 176
+ E + D++ ADG G PT G ++ + K FFD G LW G++ GK A F S
Sbjct: 42 VDEATKEDVLWADGLAVGSPTNXGLVSWKXKRFFDDVLGDLW--GEIDGKIACAFSSSGG 99
Query: 177 XXXXXXXXAWTAITQLAHHGML 198
+ +T L + G L
Sbjct: 100 WGGGNEVACXSILTXLXNFGFL 121
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
0.319 0.138 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,841,918
Number of Sequences: 62578
Number of extensions: 306036
Number of successful extensions: 542
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 527
Number of HSP's gapped (non-prelim): 9
length of query: 260
length of database: 14,973,337
effective HSP length: 97
effective length of query: 163
effective length of database: 8,903,271
effective search space: 1451233173
effective search space used: 1451233173
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: 50 (23.9 bits)