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= psy12939
(413 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 33/98 (33%), Positives = 47/98 (47%), Gaps = 6/98 (6%)
Query: 313 IMIDVLNHNTDARVKVTSTNKQTSPLPGITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVH 372
+ I +L R KV+S ++ Y +HW+W GWL KLG DFAG VH
Sbjct: 99 VTIAILTSAIAERAKVSSFILLSALWLTFVYAPFAHWLWGG-GWLAKLGALDFAGGMVVH 157
Query: 373 LFAGTCSFIAAYLMGPRIGRFGNGRYSSPPPGHSLPVS 410
+ +G + A +G R G YS P HS+P++
Sbjct: 158 ISSGFAALAVAMTIGKRAGF---EEYSIEP--HSIPLT 190
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 33/65 (50%), Gaps = 1/65 (1%)
Query: 159 KVTSTNKQTSPLPGITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFAGTCSFIAAYLM 218
KV+S ++ Y +HW+W GWL KLG DFAG VH+ +G + A +
Sbjct: 113 KVSSFILLSALWLTFVYAPFAHWLWGG-GWLAKLGALDFAGGMVVHISSGFAALAVAMTI 171
Query: 219 GPRIG 223
G R G
Sbjct: 172 GKRAG 176
Score = 37.4 bits (85), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 29/101 (28%), Positives = 52/101 (51%), Gaps = 12/101 (11%)
Query: 75 VNAGLMGMVSVCAGANVFSMWSSLVIGLIAGPL-YVALRYLVIACGVDDPLDASAVHFGG 133
V+ + G+ ++ A + ++VIGL+AG + Y+A+ + I +D+ LDA A+H G
Sbjct: 250 VSGAIAGLAAITPAAGFVDVKGAIVIGLVAGIVCYLAMDFR-IKKKIDESLDAWAIHGIG 308
Query: 134 GLWGVMSEPLFRR------GGLIYG----ITDDAVKVTSTN 164
GLWG ++ + GL++G + + V ST
Sbjct: 309 GLWGSVAVGILANPEVNGYAGLLFGNPQLLVSQLIAVASTT 349
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 17/22 (77%)
Query: 273 LRVPSTEEIEGLDITKHNEIAY 294
LRV S EE GLD+++H E+AY
Sbjct: 369 LRVSSQEEYVGLDLSQHEEVAY 390
>pdb|3C1J|A Chain A, Substrate Binding, Deprotonation And Selectivity At The
Periplasmic Entrance Of The E. Coli Ammonia Channel Amtb
Length = 424
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 37/69 (53%), Gaps = 6/69 (8%)
Query: 341 ITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFAGTCSFIAAYLMGPRIGRFGNGRYSS 400
++Y ++H VW G L G DFAG VH+ A + AYL+G R+G G+ +
Sbjct: 138 LSYIPIAHMVWGG-GLLASHGALDFAGGTVVHINAAIAGLVGAYLIGKRVGF---GKEAF 193
Query: 401 PPPGHSLPV 409
P H+LP+
Sbjct: 194 KP--HNLPM 200
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 37/76 (48%), Gaps = 1/76 (1%)
Query: 148 GLIYGITDDAVKVTSTNKQTSPLPGITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFA 207
GLI G + ++ ++ ++Y ++H VW G L G DFAG VH+ A
Sbjct: 113 GLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGG-GLLASHGALDFAGGTVVHINA 171
Query: 208 GTCSFIAAYLMGPRIG 223
+ AYL+G R+G
Sbjct: 172 AIAGLVGAYLIGKRVG 187
Score = 36.6 bits (83), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 23/42 (54%)
Query: 253 FLWSLTTSFILFGFLYLINMLRVPSTEEIEGLDITKHNEIAY 294
+WS +FI + L LRVP +E EGLD+ H E AY
Sbjct: 363 IVWSGVVAFIGYKLADLTVGLRVPEEQEREGLDVNSHGENAY 404
>pdb|3C1I|A Chain A, Substrate Binding, Deprotonation And Selectivity At The
Periplasmic Entrance Of The E. Coli Ammonia Channel Amtb
Length = 424
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 37/69 (53%), Gaps = 6/69 (8%)
Query: 341 ITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFAGTCSFIAAYLMGPRIGRFGNGRYSS 400
++Y ++H VW G L G DFAG VH+ A + AYL+G R+G G+ +
Sbjct: 138 LSYIPIAHMVWGG-GLLASHGALDFAGGTVVHINAAIAGLVGAYLIGKRVGF---GKEAF 193
Query: 401 PPPGHSLPV 409
P H+LP+
Sbjct: 194 KP--HNLPM 200
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 37/76 (48%), Gaps = 1/76 (1%)
Query: 148 GLIYGITDDAVKVTSTNKQTSPLPGITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFA 207
GLI G + ++ ++ ++Y ++H VW G L G DFAG VH+ A
Sbjct: 113 GLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGG-GLLASHGALDFAGGTVVHINA 171
Query: 208 GTCSFIAAYLMGPRIG 223
+ AYL+G R+G
Sbjct: 172 AIAGLVGAYLIGKRVG 187
Score = 36.6 bits (83), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 23/42 (54%)
Query: 253 FLWSLTTSFILFGFLYLINMLRVPSTEEIEGLDITKHNEIAY 294
+WS +FI + L LRVP +E EGLD+ H E AY
Sbjct: 363 IVWSGVVAFIGYKLADLTVGLRVPEEQEREGLDVNSHGENAY 404
>pdb|3C1H|A Chain A, Substrate Binding, Deprotonation And Selectivity At The
Periplasmic Entrance Of The E. Coli Ammonia Channel Amtb
Length = 424
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 37/69 (53%), Gaps = 6/69 (8%)
Query: 341 ITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFAGTCSFIAAYLMGPRIGRFGNGRYSS 400
++Y ++H VW G L G DFAG VH+ A + AYL+G R+G G+ +
Sbjct: 138 LSYIPIAHMVWGG-GLLASHGALDFAGGTVVHINAAIAGLVGAYLIGKRVGF---GKEAF 193
Query: 401 PPPGHSLPV 409
P H+LP+
Sbjct: 194 KP--HNLPM 200
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 37/76 (48%), Gaps = 1/76 (1%)
Query: 148 GLIYGITDDAVKVTSTNKQTSPLPGITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFA 207
GLI G + ++ ++ ++Y ++H VW G L G DFAG VH+ A
Sbjct: 113 GLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGG-GLLASHGALDFAGGTVVHINA 171
Query: 208 GTCSFIAAYLMGPRIG 223
+ AYL+G R+G
Sbjct: 172 AIAGLVGAYLIGKRVG 187
Score = 36.6 bits (83), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 23/42 (54%)
Query: 253 FLWSLTTSFILFGFLYLINMLRVPSTEEIEGLDITKHNEIAY 294
+WS +FI + L LRVP +E EGLD+ H E AY
Sbjct: 363 IVWSGVVAFIGYKLADLTVGLRVPEEQEREGLDVNSHGENAY 404
>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 = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 37/69 (53%), Gaps = 6/69 (8%)
Query: 341 ITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFAGTCSFIAAYLMGPRIGRFGNGRYSS 400
++Y ++H VW G L G DFAG VH+ A + AYL+G R+G G+ +
Sbjct: 138 LSYIPIAHMVWGG-GLLASHGALDFAGGTVVHINAAIAGLVGAYLIGKRVGF---GKEAF 193
Query: 401 PPPGHSLPV 409
P H+LP+
Sbjct: 194 KP--HNLPM 200
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 37/76 (48%), Gaps = 1/76 (1%)
Query: 148 GLIYGITDDAVKVTSTNKQTSPLPGITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFA 207
GLI G + ++ ++ ++Y ++H VW G L G DFAG VH+ A
Sbjct: 113 GLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGG-GLLASHGALDFAGGTVVHINA 171
Query: 208 GTCSFIAAYLMGPRIG 223
+ AYL+G R+G
Sbjct: 172 AIAGLVGAYLIGKRVG 187
Score = 36.6 bits (83), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 23/42 (54%)
Query: 253 FLWSLTTSFILFGFLYLINMLRVPSTEEIEGLDITKHNEIAY 294
+WS +FI + L LRVP +E EGLD+ H E AY
Sbjct: 363 IVWSGVVAFIGYKLADLTVGLRVPEEQEREGLDVNSHGENAY 404
>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 = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 37/69 (53%), Gaps = 6/69 (8%)
Query: 341 ITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFAGTCSFIAAYLMGPRIGRFGNGRYSS 400
++Y ++H VW G L G DFAG VH+ A + AYL+G R+G G+ +
Sbjct: 138 LSYIPIAHMVWGG-GLLASHGALDFAGGTVVHINAAIAGLVGAYLIGKRVGF---GKEAF 193
Query: 401 PPPGHSLPV 409
P H+LP+
Sbjct: 194 KP--HNLPM 200
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 37/76 (48%), Gaps = 1/76 (1%)
Query: 148 GLIYGITDDAVKVTSTNKQTSPLPGITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFA 207
GLI G + ++ ++ ++Y ++H VW G L G DFAG VH+ A
Sbjct: 113 GLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGG-GLLASHGALDFAGGTVVHINA 171
Query: 208 GTCSFIAAYLMGPRIG 223
+ AYL+G R+G
Sbjct: 172 AIAGLVGAYLIGKRVG 187
Score = 36.6 bits (83), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 23/42 (54%)
Query: 253 FLWSLTTSFILFGFLYLINMLRVPSTEEIEGLDITKHNEIAY 294
+WS +FI + L LRVP +E EGLD+ H E AY
Sbjct: 363 IVWSGVVAFIGYKLADLTVGLRVPEEQEREGLDVNSHGENAY 404
>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 = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 39/161 (24%), Positives = 64/161 (39%), Gaps = 12/161 (7%)
Query: 254 LWSLTTSFILFGFLYLINMLRVPSTE------EIEGLDITKHNEIAYPPSAWNNFHAKHM 307
L +T +F L L+++ + S E I L + A S + H
Sbjct: 45 LTQVTVTFALVCILWVVYGYSLASGEGNNFFGNINWLXLKNIELTAVXGSIYQYIHVAFQ 104
Query: 308 LPNDHIMIDVLNHNTDARVKVTSTNKQTSPLPGITYPIVSHWVWSDEGWLNKLGYSDFAG 367
I + ++ R++ + ++Y ++H VW G L G DFAG
Sbjct: 105 GSFACITVGLIVGALAERIRFPAVLIFVVVWLTLSYIPIAHXVWGG-GLLASHGALDFAG 163
Query: 368 SGAVHLFAGTCSFIAAYLMGPRIGRFGNGRYSSPPPGHSLP 408
VH+ A + AYL+G R+G G+ + P H+LP
Sbjct: 164 GTVVHINAAIAGLVGAYLIGKRVGF---GKEAFKP--HNLP 199
Score = 37.7 bits (86), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 36/76 (47%), Gaps = 1/76 (1%)
Query: 148 GLIYGITDDAVKVTSTNKQTSPLPGITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFA 207
GLI G + ++ + ++Y ++H VW G L G DFAG VH+ A
Sbjct: 113 GLIVGALAERIRFPAVLIFVVVWLTLSYIPIAHXVWGG-GLLASHGALDFAGGTVVHINA 171
Query: 208 GTCSFIAAYLMGPRIG 223
+ AYL+G R+G
Sbjct: 172 AIAGLVGAYLIGKRVG 187
>pdb|2NPE|A Chain A, An Unusual Twin-his Arrangement In The Pore Of Ammonia
Channels Is Essential For Substrate Conductance
Length = 424
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 37/69 (53%), Gaps = 6/69 (8%)
Query: 341 ITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFAGTCSFIAAYLMGPRIGRFGNGRYSS 400
++Y ++H VW G L G DFAG VH+ A + AYL+G R+G G+ +
Sbjct: 138 LSYIPIAHMVWGG-GLLASHGALDFAGGTVVHINAAIAGLVGAYLIGKRVGF---GKEAF 193
Query: 401 PPPGHSLPV 409
P H+LP+
Sbjct: 194 KP--HNLPM 200
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 37/76 (48%), Gaps = 1/76 (1%)
Query: 148 GLIYGITDDAVKVTSTNKQTSPLPGITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFA 207
GLI G + ++ ++ ++Y ++H VW G L G DFAG VH+ A
Sbjct: 113 GLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGG-GLLASHGALDFAGGTVVHINA 171
Query: 208 GTCSFIAAYLMGPRIG 223
+ AYL+G R+G
Sbjct: 172 AIAGLVGAYLIGKRVG 187
Score = 36.6 bits (83), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 23/42 (54%)
Query: 253 FLWSLTTSFILFGFLYLINMLRVPSTEEIEGLDITKHNEIAY 294
+WS +FI + L LRVP +E EGLD+ H E AY
Sbjct: 363 IVWSGVVAFIGYKLADLTVGLRVPEEQEREGLDVNSHGENAY 404
>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 = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 37/69 (53%), Gaps = 6/69 (8%)
Query: 341 ITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFAGTCSFIAAYLMGPRIGRFGNGRYSS 400
++Y ++H VW G L G DFAG VH+ A + AYL+G R+G G+ +
Sbjct: 138 LSYIPIAHMVWGG-GLLASHGALDFAGGTVVHINAAIAGLVGAYLIGKRVGF---GKEAF 193
Query: 401 PPPGHSLPV 409
P H+LP+
Sbjct: 194 KP--HNLPM 200
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 37/76 (48%), Gaps = 1/76 (1%)
Query: 148 GLIYGITDDAVKVTSTNKQTSPLPGITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFA 207
GLI G + ++ ++ ++Y ++H VW G L G DFAG VH+ A
Sbjct: 113 GLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGG-GLLASHGALDFAGGTVVHINA 171
Query: 208 GTCSFIAAYLMGPRIG 223
+ AYL+G R+G
Sbjct: 172 AIAGLVGAYLIGKRVG 187
Score = 36.2 bits (82), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 23/41 (56%)
Query: 254 LWSLTTSFILFGFLYLINMLRVPSTEEIEGLDITKHNEIAY 294
+WS +FI + L LRVP +E EGLD+ H E AY
Sbjct: 364 VWSGVVAFIGYKLADLTVGLRVPEEQEREGLDVNSHGENAY 404
>pdb|2NS1|A Chain A, Crystal Structure Of The E. Coli Ammonia Channel Amtb
Complexed With The Signal Transduction Protein Glnk
Length = 412
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 37/76 (48%), Gaps = 1/76 (1%)
Query: 148 GLIYGITDDAVKVTSTNKQTSPLPGITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFA 207
GLI G + ++ ++ ++Y ++H VW G L G DFAG VH+ A
Sbjct: 113 GLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGG-GLLASHGALDFAGGTVVHINA 171
Query: 208 GTCSFIAAYLMGPRIG 223
+ AYL+G R+G
Sbjct: 172 AIAGLVGAYLIGKRVG 187
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 37/69 (53%), Gaps = 6/69 (8%)
Query: 341 ITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFAGTCSFIAAYLMGPRIGRFGNGRYSS 400
++Y ++H VW G L G DFAG VH+ A + AYL+G R+G G+ +
Sbjct: 138 LSYIPIAHMVWGG-GLLASHGALDFAGGTVVHINAAIAGLVGAYLIGKRVGF---GKEAF 193
Query: 401 PPPGHSLPV 409
P H+LP+
Sbjct: 194 KP--HNLPM 200
Score = 36.6 bits (83), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 23/42 (54%)
Query: 253 FLWSLTTSFILFGFLYLINMLRVPSTEEIEGLDITKHNEIAY 294
+WS +FI + L LRVP +E EGLD+ H E AY
Sbjct: 363 IVWSGVVAFIGYKLADLTVGLRVPEEQEREGLDVNSHGENAY 404
>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 = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 37/69 (53%), Gaps = 6/69 (8%)
Query: 341 ITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFAGTCSFIAAYLMGPRIGRFGNGRYSS 400
++Y ++H VW G L G DFAG VH+ A + AYL+G R+G G+ +
Sbjct: 147 LSYIPIAHMVWGG-GLLASHGALDFAGGTVVHINAAIAGLVGAYLIGKRVGF---GKEAF 202
Query: 401 PPPGHSLPV 409
P H+LP+
Sbjct: 203 KP--HNLPM 209
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 37/76 (48%), Gaps = 1/76 (1%)
Query: 148 GLIYGITDDAVKVTSTNKQTSPLPGITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFA 207
GLI G + ++ ++ ++Y ++H VW G L G DFAG VH+ A
Sbjct: 122 GLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGG-GLLASHGALDFAGGTVVHINA 180
Query: 208 GTCSFIAAYLMGPRIG 223
+ AYL+G R+G
Sbjct: 181 AIAGLVGAYLIGKRVG 196
Score = 36.6 bits (83), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 23/42 (54%)
Query: 253 FLWSLTTSFILFGFLYLINMLRVPSTEEIEGLDITKHNEIAY 294
+WS +FI + L LRVP +E EGLD+ H E AY
Sbjct: 372 IVWSGVVAFIGYKLADLTVGLRVPEEQEREGLDVNSHGENAY 413
>pdb|2NOW|A Chain A, An Unusual Twin-His Arrangement In The Pore Of Ammonia
Channels Is Essential For Substrate Conductance
Length = 424
Score = 37.0 bits (84), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 36/69 (52%), Gaps = 6/69 (8%)
Query: 341 ITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFAGTCSFIAAYLMGPRIGRFGNGRYSS 400
++Y ++H VW G L G DFAG V + A + AYL+G R+G G+ +
Sbjct: 138 LSYIPIAHMVWGG-GLLASHGALDFAGGTVVEINAAIAGLVGAYLIGKRVGF---GKEAF 193
Query: 401 PPPGHSLPV 409
P H+LP+
Sbjct: 194 KP--HNLPM 200
Score = 37.0 bits (84), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 36/76 (47%), Gaps = 1/76 (1%)
Query: 148 GLIYGITDDAVKVTSTNKQTSPLPGITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFA 207
GLI G + ++ ++ ++Y ++H VW G L G DFAG V + A
Sbjct: 113 GLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGG-GLLASHGALDFAGGTVVEINA 171
Query: 208 GTCSFIAAYLMGPRIG 223
+ AYL+G R+G
Sbjct: 172 AIAGLVGAYLIGKRVG 187
Score = 36.2 bits (82), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 23/42 (54%)
Query: 253 FLWSLTTSFILFGFLYLINMLRVPSTEEIEGLDITKHNEIAY 294
+WS +FI + L LRVP +E EGLD+ H E AY
Sbjct: 363 IVWSGVVAFIGYKLADLTVGLRVPEEQEREGLDVNSHGENAY 404
>pdb|2NPD|A Chain A, An Unusual Twin-His Arrangement In The Pore Of Ammonia
Channels Is Essential For Substrate Conductance
Length = 424
Score = 36.6 bits (83), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 36/69 (52%), Gaps = 6/69 (8%)
Query: 341 ITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFAGTCSFIAAYLMGPRIGRFGNGRYSS 400
++Y ++H VW G L G DFAG V + A + AYL+G R+G G+ +
Sbjct: 138 LSYIPIAHMVWGG-GLLASHGALDFAGGTVVFINAAIAGLVGAYLIGKRVGF---GKEAF 193
Query: 401 PPPGHSLPV 409
P H+LP+
Sbjct: 194 KP--HNLPM 200
Score = 36.6 bits (83), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 36/76 (47%), Gaps = 1/76 (1%)
Query: 148 GLIYGITDDAVKVTSTNKQTSPLPGITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFA 207
GLI G + ++ ++ ++Y ++H VW G L G DFAG V + A
Sbjct: 113 GLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGG-GLLASHGALDFAGGTVVFINA 171
Query: 208 GTCSFIAAYLMGPRIG 223
+ AYL+G R+G
Sbjct: 172 AIAGLVGAYLIGKRVG 187
Score = 36.2 bits (82), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 23/41 (56%)
Query: 254 LWSLTTSFILFGFLYLINMLRVPSTEEIEGLDITKHNEIAY 294
+WS +FI + L LRVP +E EGLD+ H E AY
Sbjct: 364 VWSGVVAFIGYKLADLTVGLRVPEEQEREGLDVNSHGENAY 404
>pdb|2NPC|A Chain A, An Unusual Twin-His Arrangement In The Pore Of Ammonia
Channels Is Essential For Substrate Conductance
Length = 424
Score = 36.6 bits (83), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 23/42 (54%)
Query: 253 FLWSLTTSFILFGFLYLINMLRVPSTEEIEGLDITKHNEIAY 294
+WS +FI + L LRVP +E EGLD+ H E AY
Sbjct: 363 IVWSGVVAFIGYKLADLTVGLRVPEEQEREGLDVNSHGENAY 404
Score = 36.6 bits (83), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 36/69 (52%), Gaps = 6/69 (8%)
Query: 341 ITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFAGTCSFIAAYLMGPRIGRFGNGRYSS 400
++Y ++H VW G L G DFAG V + A + AYL+G R+G G+ +
Sbjct: 138 LSYIPIAHMVWGG-GLLASHGALDFAGGTVVAINAAIAGLVGAYLIGKRVGF---GKEAF 193
Query: 401 PPPGHSLPV 409
P H+LP+
Sbjct: 194 KP--HNLPM 200
Score = 36.2 bits (82), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 36/76 (47%), Gaps = 1/76 (1%)
Query: 148 GLIYGITDDAVKVTSTNKQTSPLPGITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFA 207
GLI G + ++ ++ ++Y ++H VW G L G DFAG V + A
Sbjct: 113 GLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGG-GLLASHGALDFAGGTVVAINA 171
Query: 208 GTCSFIAAYLMGPRIG 223
+ AYL+G R+G
Sbjct: 172 AIAGLVGAYLIGKRVG 187
>pdb|2NPK|A Chain A, An Unusual Twin-His Arrangement In The Pore Of Ammonia
Channels Is Essential For Substrate Conductance
Length = 424
Score = 36.2 bits (82), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 23/42 (54%)
Query: 253 FLWSLTTSFILFGFLYLINMLRVPSTEEIEGLDITKHNEIAY 294
+WS +FI + L LRVP +E EGLD+ H E AY
Sbjct: 363 IVWSGVVAFIGYKLADLTVGLRVPEEQEREGLDVNSHGENAY 404
Score = 36.2 bits (82), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 36/69 (52%), Gaps = 6/69 (8%)
Query: 341 ITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFAGTCSFIAAYLMGPRIGRFGNGRYSS 400
++Y ++H VW G L G DFAG V + A + AYL+G R+G G+ +
Sbjct: 138 LSYIPIAHMVWGG-GLLASHGALDFAGGTVVAINAAIAGLVGAYLIGKRVGF---GKEAF 193
Query: 401 PPPGHSLPV 409
P H+LP+
Sbjct: 194 KP--HNLPM 200
Score = 36.2 bits (82), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 36/76 (47%), Gaps = 1/76 (1%)
Query: 148 GLIYGITDDAVKVTSTNKQTSPLPGITYPIVSHWVWSDEGWLNKLGYSDFAGSGAVHLFA 207
GLI G + ++ ++ ++Y ++H VW G L G DFAG V + A
Sbjct: 113 GLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGG-GLLASHGALDFAGGTVVAINA 171
Query: 208 GTCSFIAAYLMGPRIG 223
+ AYL+G R+G
Sbjct: 172 AIAGLVGAYLIGKRVG 187
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
0.324 0.141 0.464
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,280,335
Number of Sequences: 62578
Number of extensions: 567024
Number of successful extensions: 856
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 769
Number of HSP's gapped (non-prelim): 80
length of query: 413
length of database: 14,973,337
effective HSP length: 101
effective length of query: 312
effective length of database: 8,652,959
effective search space: 2699723208
effective search space used: 2699723208
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (25.0 bits)