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= 020780
(321 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2NPE|A Chain A, An Unusual Twin-his Arrangement In The Pore Of Ammonia
Channels Is Essential For Substrate Conductance
Length = 424
Score = 143 bits (360), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 96/296 (32%), Positives = 149/296 (50%), Gaps = 20/296 (6%)
Query: 15 PAVPDWLNKGDSAWQMTASTLVGIQSMPGLLIIYASIVKKKWAVNSAFMVLYAFAAVLIC 74
PAV D K D+A+ M + LV ++PG+ + Y +++ K ++ V FA V I
Sbjct: 2 PAVAD---KADNAFMMICTALVLFMTIPGIALFYGGLIRGKNVLSMLTQVTVTFALVCIL 58
Query: 75 WVLVCYRMAFGDQLLPFWGKGAPALGQKYLVGRARVPESTHEVDGKTVTTEPFYAMATLV 134
WV+ Y +AFG+ G + + E+ + + +A
Sbjct: 59 WVVYGYSLAFGE-------------GNNFFGNINWLMLKNIELTAVMGSIYQYIHVA--- 102
Query: 135 YFQFTFAAITVILLAGSVLGRMNIRAWMAFVPLWLMFSYTVGAFSLWGGGFLYQWGVIDY 194
FQ +FA ITV L+ G++ R+ A + FV +WL SY A +WGGG L G +D+
Sbjct: 103 -FQGSFACITVGLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGGGLLASHGALDF 161
Query: 195 SGGYVIHVSSGIAGLTAAYWVGPRLKSDKERFPPNNVXXXXXXXXXXXXXXSGFNGGAPY 254
+GG V+H+++ IAGL AY +G R+ KE F P+N+ GFN G+
Sbjct: 162 AGGTVVHINAAIAGLVGAYLIGKRVGFGKEAFKPHNLPMVFTGTAILYIGWFGFNAGSAG 221
Query: 255 AAHIASSIAILNTNVAAATSLLVWTCLDVIFFGKPSVIGAVQGMMTGLVCITPGAG 310
A+ +++A +NT VA A ++L W + GKPS++GA G + GLV +TP G
Sbjct: 222 TANEIAALAFVNTVVATAAAILGWIFGEWALRGKPSLLGACSGAIAGLVGVTPACG 277
>pdb|1XQE|A Chain A, The Mechanism Of Ammonia Transport Based On The Crystal
Structure Of Amtb Of E. Coli.
pdb|1XQF|A Chain A, The Mechanism Of Ammonia Transport Based On The Crystal
Structure Of Amtb Of E. Coli
Length = 418
Score = 143 bits (360), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 96/296 (32%), Positives = 149/296 (50%), Gaps = 20/296 (6%)
Query: 15 PAVPDWLNKGDSAWQMTASTLVGIQSMPGLLIIYASIVKKKWAVNSAFMVLYAFAAVLIC 74
PAV D K D+A+ M + LV ++PG+ + Y +++ K ++ V FA V I
Sbjct: 2 PAVAD---KADNAFMMICTALVLFMTIPGIALFYGGLIRGKNVLSMLTQVTVTFALVCIL 58
Query: 75 WVLVCYRMAFGDQLLPFWGKGAPALGQKYLVGRARVPESTHEVDGKTVTTEPFYAMATLV 134
WV+ Y +AFG+ G + + E+ + + +A
Sbjct: 59 WVVYGYSLAFGE-------------GNNFFGNINWLMLKNIELTAVMGSIYQYIHVA--- 102
Query: 135 YFQFTFAAITVILLAGSVLGRMNIRAWMAFVPLWLMFSYTVGAFSLWGGGFLYQWGVIDY 194
FQ +FA ITV L+ G++ R+ A + FV +WL SY A +WGGG L G +D+
Sbjct: 103 -FQGSFACITVGLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGGGLLASHGALDF 161
Query: 195 SGGYVIHVSSGIAGLTAAYWVGPRLKSDKERFPPNNVXXXXXXXXXXXXXXSGFNGGAPY 254
+GG V+H+++ IAGL AY +G R+ KE F P+N+ GFN G+
Sbjct: 162 AGGTVVHINAAIAGLVGAYLIGKRVGFGKEAFKPHNLPMVFTGTAILYIGWFGFNAGSAG 221
Query: 255 AAHIASSIAILNTNVAAATSLLVWTCLDVIFFGKPSVIGAVQGMMTGLVCITPGAG 310
A+ +++A +NT VA A ++L W + GKPS++GA G + GLV +TP G
Sbjct: 222 TANEIAALAFVNTVVATAAAILGWIFGEWALRGKPSLLGACSGAIAGLVGVTPACG 277
>pdb|2NMR|A Chain A, An Unusual Twin-His Arrangement In The Pore Of Ammonia
Channels Is Essential For Substrate Conductance
pdb|2NOP|A Chain A, An Unusual Twin-His Arrangement In The Pore Of Ammonia
Channels Is Essential For Substrate Conductance
pdb|3C1G|A Chain A, Substrate Binding, Deprotonation And Selectivity At The
Periplasmic Entrance Of The E. Coli Ammonia Channel Amtb
Length = 424
Score = 143 bits (360), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 96/296 (32%), Positives = 149/296 (50%), Gaps = 20/296 (6%)
Query: 15 PAVPDWLNKGDSAWQMTASTLVGIQSMPGLLIIYASIVKKKWAVNSAFMVLYAFAAVLIC 74
PAV D K D+A+ M + LV ++PG+ + Y +++ K ++ V FA V I
Sbjct: 2 PAVAD---KADNAFMMICTALVLFMTIPGIALFYGGLIRGKNVLSMLTQVTVTFALVCIL 58
Query: 75 WVLVCYRMAFGDQLLPFWGKGAPALGQKYLVGRARVPESTHEVDGKTVTTEPFYAMATLV 134
WV+ Y +AFG+ G + + E+ + + +A
Sbjct: 59 WVVYGYSLAFGE-------------GNNFFGNINWLMLKNIELTAVMGSIYQYIHVA--- 102
Query: 135 YFQFTFAAITVILLAGSVLGRMNIRAWMAFVPLWLMFSYTVGAFSLWGGGFLYQWGVIDY 194
FQ +FA ITV L+ G++ R+ A + FV +WL SY A +WGGG L G +D+
Sbjct: 103 -FQGSFACITVGLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGGGLLASHGALDF 161
Query: 195 SGGYVIHVSSGIAGLTAAYWVGPRLKSDKERFPPNNVXXXXXXXXXXXXXXSGFNGGAPY 254
+GG V+H+++ IAGL AY +G R+ KE F P+N+ GFN G+
Sbjct: 162 AGGTVVHINAAIAGLVGAYLIGKRVGFGKEAFKPHNLPMVFTGTAILYIGWFGFNAGSAG 221
Query: 255 AAHIASSIAILNTNVAAATSLLVWTCLDVIFFGKPSVIGAVQGMMTGLVCITPGAG 310
A+ +++A +NT VA A ++L W + GKPS++GA G + GLV +TP G
Sbjct: 222 TANEIAALAFVNTVVATAAAILGWIFGEWALRGKPSLLGACSGAIAGLVGVTPACG 277
>pdb|2NPG|A Chain A, An Unusual Twin-His Arrangement In The Pore Of Ammonia
Channels Is Essential For Substrate Conductance
pdb|2NPJ|A Chain A, An Unusual Twin-His Arrangement In The Pore Of Ammonia
Channels Is Essential For Substrate Conductance
Length = 424
Score = 143 bits (360), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 96/296 (32%), Positives = 149/296 (50%), Gaps = 20/296 (6%)
Query: 15 PAVPDWLNKGDSAWQMTASTLVGIQSMPGLLIIYASIVKKKWAVNSAFMVLYAFAAVLIC 74
PAV D K D+A+ M + LV ++PG+ + Y +++ K ++ V FA V I
Sbjct: 2 PAVAD---KADNAFMMICTALVLFMTIPGIALFYGGLIRGKNVLSMLTQVTVTFALVCIL 58
Query: 75 WVLVCYRMAFGDQLLPFWGKGAPALGQKYLVGRARVPESTHEVDGKTVTTEPFYAMATLV 134
WV+ Y +AFG+ G + + E+ + + +A
Sbjct: 59 WVVYGYSLAFGE-------------GNNFFGNINWLMLKNIELTAVMGSIYQYIHVA--- 102
Query: 135 YFQFTFAAITVILLAGSVLGRMNIRAWMAFVPLWLMFSYTVGAFSLWGGGFLYQWGVIDY 194
FQ +FA ITV L+ G++ R+ A + FV +WL SY A +WGGG L G +D+
Sbjct: 103 -FQGSFACITVGLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGGGLLASHGALDF 161
Query: 195 SGGYVIHVSSGIAGLTAAYWVGPRLKSDKERFPPNNVXXXXXXXXXXXXXXSGFNGGAPY 254
+GG V+H+++ IAGL AY +G R+ KE F P+N+ GFN G+
Sbjct: 162 AGGTVVHINAAIAGLVGAYLIGKRVGFGKEAFKPHNLPMVFTGTAILYIGWFGFNAGSAG 221
Query: 255 AAHIASSIAILNTNVAAATSLLVWTCLDVIFFGKPSVIGAVQGMMTGLVCITPGAG 310
A+ +++A +NT VA A ++L W + GKPS++GA G + GLV +TP G
Sbjct: 222 TANEIAALAFVNTVVATAAAILGWIFGEWALRGKPSLLGACSGAIAGLVGVTPACG 277
>pdb|2NS1|A Chain A, Crystal Structure Of The E. Coli Ammonia Channel Amtb
Complexed With The Signal Transduction Protein Glnk
Length = 412
Score = 142 bits (359), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 96/296 (32%), Positives = 149/296 (50%), Gaps = 20/296 (6%)
Query: 15 PAVPDWLNKGDSAWQMTASTLVGIQSMPGLLIIYASIVKKKWAVNSAFMVLYAFAAVLIC 74
PAV D K D+A+ M + LV ++PG+ + Y +++ K ++ V FA V I
Sbjct: 2 PAVAD---KADNAFMMICTALVLFMTIPGIALFYGGLIRGKNVLSMLTQVTVTFALVCIL 58
Query: 75 WVLVCYRMAFGDQLLPFWGKGAPALGQKYLVGRARVPESTHEVDGKTVTTEPFYAMATLV 134
WV+ Y +AFG+ G + + E+ + + +A
Sbjct: 59 WVVYGYSLAFGE-------------GNNFFGNINWLMLKNIELTAVMGSIYQYIHVA--- 102
Query: 135 YFQFTFAAITVILLAGSVLGRMNIRAWMAFVPLWLMFSYTVGAFSLWGGGFLYQWGVIDY 194
FQ +FA ITV L+ G++ R+ A + FV +WL SY A +WGGG L G +D+
Sbjct: 103 -FQGSFACITVGLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGGGLLASHGALDF 161
Query: 195 SGGYVIHVSSGIAGLTAAYWVGPRLKSDKERFPPNNVXXXXXXXXXXXXXXSGFNGGAPY 254
+GG V+H+++ IAGL AY +G R+ KE F P+N+ GFN G+
Sbjct: 162 AGGTVVHINAAIAGLVGAYLIGKRVGFGKEAFKPHNLPMVFTGTAILYIGWFGFNAGSAG 221
Query: 255 AAHIASSIAILNTNVAAATSLLVWTCLDVIFFGKPSVIGAVQGMMTGLVCITPGAG 310
A+ +++A +NT VA A ++L W + GKPS++GA G + GLV +TP G
Sbjct: 222 TANEIAALAFVNTVVATAAAILGWIFGEWALRGKPSLLGACSGAIAGLVGVTPACG 277
>pdb|2NUU|A Chain A, Regulating The Escherichia Coli Ammonia Channel: The
Crystal Structure Of The Amtb-glnk Complex
pdb|2NUU|B Chain B, Regulating The Escherichia Coli Ammonia Channel: The
Crystal Structure Of The Amtb-glnk Complex
pdb|2NUU|C Chain C, Regulating The Escherichia Coli Ammonia Channel: The
Crystal Structure Of The Amtb-glnk Complex
pdb|2NUU|D Chain D, Regulating The Escherichia Coli Ammonia Channel: The
Crystal Structure Of The Amtb-glnk Complex
pdb|2NUU|E Chain E, Regulating The Escherichia Coli Ammonia Channel: The
Crystal Structure Of The Amtb-glnk Complex
pdb|2NUU|F Chain F, Regulating The Escherichia Coli Ammonia Channel: The
Crystal Structure Of The Amtb-glnk Complex
Length = 415
Score = 140 bits (353), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 92/289 (31%), Positives = 146/289 (50%), Gaps = 17/289 (5%)
Query: 22 NKGDSAWQMTASTLVGIQSMPGLLIIYASIVKKKWAVNSAFMVLYAFAAVLICWVLVCYR 81
+K D+A+ M + LV ++PG+ + Y +++ K ++ V FA V I WV+ Y
Sbjct: 15 DKADNAFMMICTALVLFMTIPGIALFYGGLIRGKNVLSMLTQVTVTFALVCILWVVYGYS 74
Query: 82 MAFGDQLLPFWGKGAPALGQKYLVGRARVPESTHEVDGKTVTTEPFYAMATLVYFQFTFA 141
+AFG+ G + + E+ + + +A FQ +FA
Sbjct: 75 LAFGE-------------GNNFFGNINWLMLKNIELTAVMGSIYQYIHVA----FQGSFA 117
Query: 142 AITVILLAGSVLGRMNIRAWMAFVPLWLMFSYTVGAFSLWGGGFLYQWGVIDYSGGYVIH 201
ITV L+ G++ R+ A + FV +WL SY A +WGGG L G +D++GG V+H
Sbjct: 118 CITVGLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGGGLLASHGALDFAGGTVVH 177
Query: 202 VSSGIAGLTAAYWVGPRLKSDKERFPPNNVXXXXXXXXXXXXXXSGFNGGAPYAAHIASS 261
+++ IAGL AY +G R+ KE F P+N+ GFN G+ A+ ++
Sbjct: 178 INAAIAGLVGAYLIGKRVGFGKEAFKPHNLPMVFTGTAILYIGWFGFNAGSAGTANEIAA 237
Query: 262 IAILNTNVAAATSLLVWTCLDVIFFGKPSVIGAVQGMMTGLVCITPGAG 310
+A +NT VA A ++L W + GKPS++GA G + GLV +TP G
Sbjct: 238 LAFVNTVVATAAAILGWIFGEWALRGKPSLLGACSGAIAGLVGVTPACG 286
>pdb|2NOW|A Chain A, An Unusual Twin-His Arrangement In The Pore Of Ammonia
Channels Is Essential For Substrate Conductance
Length = 424
Score = 140 bits (352), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 95/296 (32%), Positives = 148/296 (50%), Gaps = 20/296 (6%)
Query: 15 PAVPDWLNKGDSAWQMTASTLVGIQSMPGLLIIYASIVKKKWAVNSAFMVLYAFAAVLIC 74
PAV D K D+A+ M + LV ++PG+ + Y +++ K ++ V FA V I
Sbjct: 2 PAVAD---KADNAFMMICTALVLFMTIPGIALFYGGLIRGKNVLSMLTQVTVTFALVCIL 58
Query: 75 WVLVCYRMAFGDQLLPFWGKGAPALGQKYLVGRARVPESTHEVDGKTVTTEPFYAMATLV 134
WV+ Y +AFG+ G + + E+ + + +A
Sbjct: 59 WVVYGYSLAFGE-------------GNNFFGNINWLMLKNIELTAVMGSIYQYIHVA--- 102
Query: 135 YFQFTFAAITVILLAGSVLGRMNIRAWMAFVPLWLMFSYTVGAFSLWGGGFLYQWGVIDY 194
FQ +FA ITV L+ G++ R+ A + FV +WL SY A +WGGG L G +D+
Sbjct: 103 -FQGSFACITVGLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGGGLLASHGALDF 161
Query: 195 SGGYVIHVSSGIAGLTAAYWVGPRLKSDKERFPPNNVXXXXXXXXXXXXXXSGFNGGAPY 254
+GG V+ +++ IAGL AY +G R+ KE F P+N+ GFN G+
Sbjct: 162 AGGTVVEINAAIAGLVGAYLIGKRVGFGKEAFKPHNLPMVFTGTAILYIGWFGFNAGSAG 221
Query: 255 AAHIASSIAILNTNVAAATSLLVWTCLDVIFFGKPSVIGAVQGMMTGLVCITPGAG 310
A+ +++A +NT VA A ++L W + GKPS++GA G + GLV +TP G
Sbjct: 222 TANEIAALAFVNTVVATAAAILGWIFGEWALRGKPSLLGACSGAIAGLVGVTPACG 277
>pdb|3C1I|A Chain A, Substrate Binding, Deprotonation And Selectivity At The
Periplasmic Entrance Of The E. Coli Ammonia Channel Amtb
Length = 424
Score = 139 bits (351), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 95/296 (32%), Positives = 148/296 (50%), Gaps = 20/296 (6%)
Query: 15 PAVPDWLNKGDSAWQMTASTLVGIQSMPGLLIIYASIVKKKWAVNSAFMVLYAFAAVLIC 74
PAV D K D+A+ M + LV ++PG+ + Y +++ K ++ V FA V I
Sbjct: 2 PAVAD---KADNAFMMICTALVLFMTIPGIALFYGGLIRGKNVLSMLTQVTVTFALVCIL 58
Query: 75 WVLVCYRMAFGDQLLPFWGKGAPALGQKYLVGRARVPESTHEVDGKTVTTEPFYAMATLV 134
WV+ Y +AFG+ G + + E+ + + +A
Sbjct: 59 WVVYGYSLAFGE-------------GNNFFGNINWLMLKNIELTAVMGSIYQYIHVA--- 102
Query: 135 YFQFTFAAITVILLAGSVLGRMNIRAWMAFVPLWLMFSYTVGAFSLWGGGFLYQWGVIDY 194
FQ +FA ITV L+ G++ R+ A + FV +WL SY A +WGGG L G +D+
Sbjct: 103 -FQGSFACITVGLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGGGLLASHGALDF 161
Query: 195 SGGYVIHVSSGIAGLTAAYWVGPRLKSDKERFPPNNVXXXXXXXXXXXXXXSGFNGGAPY 254
+GG V+H+++ IAGL AY +G R+ KE F P+N+ G N G+
Sbjct: 162 AGGTVVHINAAIAGLVGAYLIGKRVGFGKEAFKPHNLPMVFTGTAILYIGWFGANAGSAG 221
Query: 255 AAHIASSIAILNTNVAAATSLLVWTCLDVIFFGKPSVIGAVQGMMTGLVCITPGAG 310
A+ +++A +NT VA A ++L W + GKPS++GA G + GLV +TP G
Sbjct: 222 TANEIAALAFVNTVVATAAAILGWIFGEWALRGKPSLLGACSGAIAGLVGVTPACG 277
>pdb|3C1H|A Chain A, Substrate Binding, Deprotonation And Selectivity At The
Periplasmic Entrance Of The E. Coli Ammonia Channel Amtb
Length = 424
Score = 139 bits (351), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 95/296 (32%), Positives = 148/296 (50%), Gaps = 20/296 (6%)
Query: 15 PAVPDWLNKGDSAWQMTASTLVGIQSMPGLLIIYASIVKKKWAVNSAFMVLYAFAAVLIC 74
PAV D K D+A+ M + LV ++PG+ + Y +++ K ++ V FA V I
Sbjct: 2 PAVAD---KADNAFMMICTALVLFMTIPGIALFYGGLIRGKNVLSMLTQVTVTFALVCIL 58
Query: 75 WVLVCYRMAFGDQLLPFWGKGAPALGQKYLVGRARVPESTHEVDGKTVTTEPFYAMATLV 134
WV+ Y +AFG+ G + + E+ + + +A
Sbjct: 59 WVVYGYSLAFGE-------------GNNFFGNINWLMLKNIELTAVMGSIYQYIHVA--- 102
Query: 135 YFQFTFAAITVILLAGSVLGRMNIRAWMAFVPLWLMFSYTVGAFSLWGGGFLYQWGVIDY 194
FQ + A ITV L+ G++ R+ A + FV +WL SY A +WGGG L G +D+
Sbjct: 103 -FQGSAACITVGLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGGGLLASHGALDF 161
Query: 195 SGGYVIHVSSGIAGLTAAYWVGPRLKSDKERFPPNNVXXXXXXXXXXXXXXSGFNGGAPY 254
+GG V+H+++ IAGL AY +G R+ KE F P+N+ GFN G+
Sbjct: 162 AGGTVVHINAAIAGLVGAYLIGKRVGFGKEAFKPHNLPMVFTGTAILYIGWFGFNAGSAG 221
Query: 255 AAHIASSIAILNTNVAAATSLLVWTCLDVIFFGKPSVIGAVQGMMTGLVCITPGAG 310
A+ +++A +NT VA A ++L W + GKPS++GA G + GLV +TP G
Sbjct: 222 TANEIAALAFVNTVVATAAAILGWIFGEWALRGKPSLLGACSGAIAGLVGVTPACG 277
>pdb|2NPD|A Chain A, An Unusual Twin-His Arrangement In The Pore Of Ammonia
Channels Is Essential For Substrate Conductance
Length = 424
Score = 139 bits (350), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 95/296 (32%), Positives = 148/296 (50%), Gaps = 20/296 (6%)
Query: 15 PAVPDWLNKGDSAWQMTASTLVGIQSMPGLLIIYASIVKKKWAVNSAFMVLYAFAAVLIC 74
PAV D K D+A+ M + LV ++PG+ + Y +++ K ++ V FA V I
Sbjct: 2 PAVAD---KADNAFMMICTALVLFMTIPGIALFYGGLIRGKNVLSMLTQVTVTFALVCIL 58
Query: 75 WVLVCYRMAFGDQLLPFWGKGAPALGQKYLVGRARVPESTHEVDGKTVTTEPFYAMATLV 134
WV+ Y +AFG+ G + + E+ + + +A
Sbjct: 59 WVVYGYSLAFGE-------------GNNFFGNINWLMLKNIELTAVMGSIYQYIHVA--- 102
Query: 135 YFQFTFAAITVILLAGSVLGRMNIRAWMAFVPLWLMFSYTVGAFSLWGGGFLYQWGVIDY 194
FQ +FA ITV L+ G++ R+ A + FV +WL SY A +WGGG L G +D+
Sbjct: 103 -FQGSFACITVGLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGGGLLASHGALDF 161
Query: 195 SGGYVIHVSSGIAGLTAAYWVGPRLKSDKERFPPNNVXXXXXXXXXXXXXXSGFNGGAPY 254
+GG V+ +++ IAGL AY +G R+ KE F P+N+ GFN G+
Sbjct: 162 AGGTVVFINAAIAGLVGAYLIGKRVGFGKEAFKPHNLPMVFTGTAILYIGWFGFNAGSAG 221
Query: 255 AAHIASSIAILNTNVAAATSLLVWTCLDVIFFGKPSVIGAVQGMMTGLVCITPGAG 310
A+ +++A +NT VA A ++L W + GKPS++GA G + GLV +TP G
Sbjct: 222 TANEIAALAFVNTVVATAAAILGWIFGEWALRGKPSLLGACSGAIAGLVGVTPACG 277
>pdb|2NPC|A Chain A, An Unusual Twin-His Arrangement In The Pore Of Ammonia
Channels Is Essential For Substrate Conductance
Length = 424
Score = 139 bits (350), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 95/296 (32%), Positives = 148/296 (50%), Gaps = 20/296 (6%)
Query: 15 PAVPDWLNKGDSAWQMTASTLVGIQSMPGLLIIYASIVKKKWAVNSAFMVLYAFAAVLIC 74
PAV D K D+A+ M + LV ++PG+ + Y +++ K ++ V FA V I
Sbjct: 2 PAVAD---KADNAFMMICTALVLFMTIPGIALFYGGLIRGKNVLSMLTQVTVTFALVCIL 58
Query: 75 WVLVCYRMAFGDQLLPFWGKGAPALGQKYLVGRARVPESTHEVDGKTVTTEPFYAMATLV 134
WV+ Y +AFG+ G + + E+ + + +A
Sbjct: 59 WVVYGYSLAFGE-------------GNNFFGNINWLMLKNIELTAVMGSIYQYIHVA--- 102
Query: 135 YFQFTFAAITVILLAGSVLGRMNIRAWMAFVPLWLMFSYTVGAFSLWGGGFLYQWGVIDY 194
FQ +FA ITV L+ G++ R+ A + FV +WL SY A +WGGG L G +D+
Sbjct: 103 -FQGSFACITVGLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGGGLLASHGALDF 161
Query: 195 SGGYVIHVSSGIAGLTAAYWVGPRLKSDKERFPPNNVXXXXXXXXXXXXXXSGFNGGAPY 254
+GG V+ +++ IAGL AY +G R+ KE F P+N+ GFN G+
Sbjct: 162 AGGTVVAINAAIAGLVGAYLIGKRVGFGKEAFKPHNLPMVFTGTAILYIGWFGFNAGSAG 221
Query: 255 AAHIASSIAILNTNVAAATSLLVWTCLDVIFFGKPSVIGAVQGMMTGLVCITPGAG 310
A+ +++A +NT VA A ++L W + GKPS++GA G + GLV +TP G
Sbjct: 222 TANEIAALAFVNTVVATAAAILGWIFGEWALRGKPSLLGACSGAIAGLVGVTPACG 277
>pdb|2NPK|A Chain A, An Unusual Twin-His Arrangement In The Pore Of Ammonia
Channels Is Essential For Substrate Conductance
Length = 424
Score = 139 bits (349), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 95/296 (32%), Positives = 148/296 (50%), Gaps = 20/296 (6%)
Query: 15 PAVPDWLNKGDSAWQMTASTLVGIQSMPGLLIIYASIVKKKWAVNSAFMVLYAFAAVLIC 74
PAV D K D+A+ M + LV ++PG+ + Y +++ K ++ V FA V I
Sbjct: 2 PAVAD---KADNAFMMICTALVLFMTIPGIALFYGGLIRGKNVLSMLTQVTVTFALVCIL 58
Query: 75 WVLVCYRMAFGDQLLPFWGKGAPALGQKYLVGRARVPESTHEVDGKTVTTEPFYAMATLV 134
WV+ Y +AFG+ G + + E+ + + +A
Sbjct: 59 WVVYGYSLAFGE-------------GNNFFGNINWLMLKNIELTAVMGSIYQYIHVA--- 102
Query: 135 YFQFTFAAITVILLAGSVLGRMNIRAWMAFVPLWLMFSYTVGAFSLWGGGFLYQWGVIDY 194
FQ +FA ITV L+ G++ R+ A + FV +WL SY A +WGGG L G +D+
Sbjct: 103 -FQGSFACITVGLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGGGLLASHGALDF 161
Query: 195 SGGYVIHVSSGIAGLTAAYWVGPRLKSDKERFPPNNVXXXXXXXXXXXXXXSGFNGGAPY 254
+GG V+ +++ IAGL AY +G R+ KE F P+N+ GFN G+
Sbjct: 162 AGGTVVAINAAIAGLVGAYLIGKRVGFGKEAFKPHNLPMVFTGTAILYIGWFGFNAGSAG 221
Query: 255 AAHIASSIAILNTNVAAATSLLVWTCLDVIFFGKPSVIGAVQGMMTGLVCITPGAG 310
A+ +++A +NT VA A ++L W + GKPS++GA G + GLV +TP G
Sbjct: 222 TANEIAALAFVNTVVATAAAILGWIFGEWALRGKPSLLGACSGAIAGLVGVTPACG 277
>pdb|3C1J|A Chain A, Substrate Binding, Deprotonation And Selectivity At The
Periplasmic Entrance Of The E. Coli Ammonia Channel Amtb
Length = 424
Score = 136 bits (342), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 94/296 (31%), Positives = 147/296 (49%), Gaps = 20/296 (6%)
Query: 15 PAVPDWLNKGDSAWQMTASTLVGIQSMPGLLIIYASIVKKKWAVNSAFMVLYAFAAVLIC 74
PAV D K D+A+ M + LV ++PG+ + Y +++ K ++ V FA V I
Sbjct: 2 PAVAD---KADNAFMMICTALVLFMTIPGIALFYGGLIRGKNVLSMLTQVTVTFALVCIL 58
Query: 75 WVLVCYRMAFGDQLLPFWGKGAPALGQKYLVGRARVPESTHEVDGKTVTTEPFYAMATLV 134
WV+ Y +AFG+ G + + E+ + + +A
Sbjct: 59 WVVYGYSLAFGE-------------GNNFFGNINWLMLKNIELTAVMGSIYQYIHVA--- 102
Query: 135 YFQFTFAAITVILLAGSVLGRMNIRAWMAFVPLWLMFSYTVGAFSLWGGGFLYQWGVIDY 194
FQ + A ITV L+ G++ R+ A + FV +WL SY A +WGGG L G +D+
Sbjct: 103 -FQGSAACITVGLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGGGLLASHGALDF 161
Query: 195 SGGYVIHVSSGIAGLTAAYWVGPRLKSDKERFPPNNVXXXXXXXXXXXXXXSGFNGGAPY 254
+GG V+H+++ IAGL AY +G R+ KE F P+N+ G N G+
Sbjct: 162 AGGTVVHINAAIAGLVGAYLIGKRVGFGKEAFKPHNLPMVFTGTAILYIGWFGANAGSAG 221
Query: 255 AAHIASSIAILNTNVAAATSLLVWTCLDVIFFGKPSVIGAVQGMMTGLVCITPGAG 310
A+ +++A +NT VA A ++L W + GKPS++GA G + GLV +TP G
Sbjct: 222 TANEIAALAFVNTVVATAAAILGWIFGEWALRGKPSLLGACSGAIAGLVGVTPACG 277
>pdb|1U77|A Chain A, Crystal Structure Of Ammonia Channel Amtb From E. Coli
pdb|1U7C|A Chain A, Crystal Structure Of Amtb From E.Coli With Methyl
Ammonium.
pdb|1U7G|A Chain A, Crystal Structure Of Ammonia Channel Amtb From E. Coli
Length = 385
Score = 133 bits (334), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 94/296 (31%), Positives = 147/296 (49%), Gaps = 20/296 (6%)
Query: 15 PAVPDWLNKGDSAWQMTASTLVGIQSMPGLLIIYASIVKKKWAVNSAFMVLYAFAAVLIC 74
PAV D K D+A+ + LV ++PG+ + Y +++ K ++ V FA V I
Sbjct: 2 PAVAD---KADNAFXXICTALVLFXTIPGIALFYGGLIRGKNVLSXLTQVTVTFALVCIL 58
Query: 75 WVLVCYRMAFGDQLLPFWGKGAPALGQKYLVGRARVPESTHEVDGKTVTTEPFYAMATLV 134
WV+ Y +A G+ G + + E+ + + +A
Sbjct: 59 WVVYGYSLASGE-------------GNNFFGNINWLXLKNIELTAVXGSIYQYIHVA--- 102
Query: 135 YFQFTFAAITVILLAGSVLGRMNIRAWMAFVPLWLMFSYTVGAFSLWGGGFLYQWGVIDY 194
FQ +FA ITV L+ G++ R+ A + FV +WL SY A +WGGG L G +D+
Sbjct: 103 -FQGSFACITVGLIVGALAERIRFPAVLIFVVVWLTLSYIPIAHXVWGGGLLASHGALDF 161
Query: 195 SGGYVIHVSSGIAGLTAAYWVGPRLKSDKERFPPNNVXXXXXXXXXXXXXXSGFNGGAPY 254
+GG V+H+++ IAGL AY +G R+ KE F P+N+ GFN G+
Sbjct: 162 AGGTVVHINAAIAGLVGAYLIGKRVGFGKEAFKPHNLPXVFTGTAILYIGWFGFNAGSAG 221
Query: 255 AAHIASSIAILNTNVAAATSLLVWTCLDVIFFGKPSVIGAVQGMMTGLVCITPGAG 310
A+ +++A +NT VA A ++L W + G PS++GA G + GLV +TP G
Sbjct: 222 TANEIAALAFVNTVVATAAAILGWIFGEWALRGLPSLLGACSGAIAGLVGVTPACG 277
>pdb|2B2F|A Chain A, Ammonium Transporter Amt-1 From A.Fulgidus (Native)
pdb|2B2H|A Chain A, Ammonium Transporter Amt-1 From A. Fulgidus (as)
pdb|2B2I|A Chain A, Ammonium Transporter Amt-1 From A. Fulgidus (Ma)
pdb|2B2J|A Chain A, Ammonium Transporter Amt-1 From A. Fulgidus (xe)
Length = 399
Score = 120 bits (300), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 87/298 (29%), Positives = 146/298 (48%), Gaps = 25/298 (8%)
Query: 21 LNKGDSAWQMTASTLVGIQSMPGLLIIYASIVKKKWAVNSAFMVLYAFAAVLICWVLVCY 80
++ G+ AW + ++ LV + +PG+ YA +V++K AVN + + ++ W+ Y
Sbjct: 1 MSDGNVAWILASTALVMLM-VPGVGFFYAGMVRRKNAVNMIALSFISLIITVLLWIFYGY 59
Query: 81 RMAFGDQLLPFWGKGAPALGQKYLVGRARVPESTHEVDGKTVTTEPFYAMATLVYFQFTF 140
++FG+ + G L L G V G+ + + +Q F
Sbjct: 60 SVSFGNDISGIIG----GLNYALLSG----------VKGEDL---------LFMMYQMMF 96
Query: 141 AAITVILLAGSVLGRMNIRAWMAFVPLWLMFSYTVGAFSLWGGGFLYQWGVIDYSGGYVI 200
AA+T+ +L ++ R + +++ LWL F Y A LWGGG+L + G +D++GG V+
Sbjct: 97 AAVTIAILTSAIAERAKVSSFILLSALWLTFVYAPFAHWLWGGGWLAKLGALDFAGGMVV 156
Query: 201 HVSSGIAGLTAAYWVGPRLKSDKERFPPNNVXXXXXXXXXXXXXXSGFNGGAPYAAHIAS 260
H+SSG A L A +G R ++ P+++ GFNGG+ AA+ +
Sbjct: 157 HISSGFAALAVAMTIGKRAGFEEYSIEPHSIPLTLIGAALLWFGWFGFNGGSALAANDVA 216
Query: 261 SIAILNTNVAAATSLLVWTCLDVIFFGKPSVIGAVQGMMTGLVCITPGAGMHQRRVSI 318
A++ TN +AA + VW + I GKP +G V G + GL ITP AG + +I
Sbjct: 217 INAVVVTNTSAAVAGFVWMVIGWI-KGKPGSLGIVSGAIAGLAAITPAAGFVDVKGAI 273
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
0.326 0.138 0.449
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,428,735
Number of Sequences: 62578
Number of extensions: 365734
Number of successful extensions: 1065
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1019
Number of HSP's gapped (non-prelim): 31
length of query: 321
length of database: 14,973,337
effective HSP length: 99
effective length of query: 222
effective length of database: 8,778,115
effective search space: 1948741530
effective search space used: 1948741530
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (24.3 bits)