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= psy8545
(547 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3UKN|A Chain A, Structure Of The C-LinkerCNBHD OF ZELK CHANNELS IN C 2 2
21 SPACE Group
pdb|3UKN|B Chain B, Structure Of The C-LinkerCNBHD OF ZELK CHANNELS IN C 2 2
21 SPACE Group
pdb|3UKN|C Chain C, Structure Of The C-LinkerCNBHD OF ZELK CHANNELS IN C 2 2
21 SPACE Group
pdb|3UKT|B Chain B, Structure Of The C-LinkerCNBHD OF ZELK CHANNELS IN P1 21 1
SPACE Group
pdb|3UKT|A Chain A, Structure Of The C-LinkerCNBHD OF ZELK CHANNELS IN P1 21 1
SPACE Group
pdb|3UKT|C Chain C, Structure Of The C-LinkerCNBHD OF ZELK CHANNELS IN P1 21 1
SPACE Group
pdb|3UKT|D Chain D, Structure Of The C-LinkerCNBHD OF ZELK CHANNELS IN P1 21 1
SPACE Group
pdb|3UKV|B Chain B, Structure Of The C-LinkerCNBHD OF ZELK CHANNELS IN P 1 21
1 SPACE Group, Crystallized In The Presence Of Camp
pdb|3UKV|A Chain A, Structure Of The C-LinkerCNBHD OF ZELK CHANNELS IN P 1 21
1 SPACE Group, Crystallized In The Presence Of Camp
pdb|3UKV|C Chain C, Structure Of The C-LinkerCNBHD OF ZELK CHANNELS IN P 1 21
1 SPACE Group, Crystallized In The Presence Of Camp
pdb|3UKV|D Chain D, Structure Of The C-LinkerCNBHD OF ZELK CHANNELS IN P 1 21
1 SPACE Group, Crystallized In The Presence Of Camp
Length = 212
Score = 270 bits (689), Expect = 2e-72, Method: Compositional matrix adjust.
Identities = 123/228 (53%), Positives = 175/228 (76%), Gaps = 18/228 (7%)
Query: 120 AIIQRMYSRRSLYQTKWRDLKEFLTLNQIPKELKQRMQDYFQTMWSLSHGIDVHETLKEF 179
A+ QRMYSRRSLY T+ +DLK+F+ ++++PK L QRM + FQT WS+++GIDV E LK+F
Sbjct: 2 AMDQRMYSRRSLYHTRTKDLKDFIRVHRLPKALAQRMLECFQTTWSVNNGIDVSELLKDF 61
Query: 180 PEELRGDVSMHLHREILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYY 239
P+ELR D++MHL++E+LQLP+FE+A++GCL+ LSL I+ +FCAPGE+LI +GD L +IY+
Sbjct: 62 PDELRADIAMHLNKELLQLPLFESASRGCLRSLSLIIKTSFCAPGEFLIRQGDALQAIYF 121
Query: 240 LCNGSMEVVQNGMVVAILGKGDLVGCDISMWLSEKNXXXXXXXXXXXXXDPIVKSSCDVK 299
+C+GSMEV+++ V+AILGKGDL+G D + ++K++ +VK
Sbjct: 122 VCSGSMEVLKDNTVLAILGKGDLIGSD------------------SLTKEQVIKTNANVK 163
Query: 300 ALTYCDLKSVNVVGLVEVLRLYPEYQQEFAHDIQHDLTYNIREGYEAE 347
ALTYCDL+ +++ GL EVLRLYPEY Q+F +IQHDLTYN+REG A+
Sbjct: 164 ALTYCDLQYISLKGLREVLRLYPEYAQKFVSEIQHDLTYNLREGSGAD 211
>pdb|4F8A|A Chain A, Cyclic Nucleotide Binding-Homology Domain From Mouse Eag1
Potassium Channel
Length = 160
Score = 105 bits (262), Expect = 6e-23, Method: Compositional matrix adjust.
Identities = 57/170 (33%), Positives = 98/170 (57%), Gaps = 21/170 (12%)
Query: 174 ETLKEFPEELRGDVSMHLHREILQL-PIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGD 232
+ L+ P+++R D+ +HL+R++ + P F A+ GCL+ L++ + CAPG+ + H G+
Sbjct: 7 KVLQICPKDMRADICVHLNRKVFKEHPAFRLASDGCLRALAMEFQTVHCAPGDLIYHAGE 66
Query: 233 HLSSIYYLCNGSMEVVQNGMVVAILGKGDLVGCDISMWLSEKNXXXXXXXXXXXXXDPIV 292
+ S+ ++ +GS+EV+Q+ VVAILGKGD+ G D+ W +
Sbjct: 67 SVDSLCFVVSGSLEVIQDDEVVAILGKGDVFG-DV-FW----------------KEATLA 108
Query: 293 KSSCDVKALTYCDLKSVNVVGLVEVLRLYPEYQQEFAHDIQHDLTYNIRE 342
+S +V+ALTYCDL + L +VL Y + F+ ++ LTYN+R+
Sbjct: 109 QSCANVRALTYCDLHVIKRDALQKVLEFYTAFSHSFSRNLI--LTYNLRK 156
>pdb|3OTF|A Chain A, Structural Basis For The Camp-Dependent Gating In Human
Hcn4 Channel
Length = 220
Score = 70.5 bits (171), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 52/235 (22%), Positives = 100/235 (42%), Gaps = 44/235 (18%)
Query: 127 SRRSLYQTKWRDLKEFLTLNQIPKELKQRMQDYFQTMWSLSHGIDVHETLKEFPEELRGD 186
S R YQ K++ ++++++ +++P + +QR+ DY++ + D L E E LR +
Sbjct: 3 SSRRQYQEKYKQVEQYMSFHKLPPDTRQRIHDYYEHRYQ-GKMFDEESILGELSEPLREE 61
Query: 187 -VSMHLHREILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSM 245
++ + + + +P+F A + + +R PG+Y+I +G +Y++ +G +
Sbjct: 62 IINFNCRKLVASMPLFANADPNFVTSMLTKLRFEVFQPGDYIIREGTIGKKMYFIQHGVV 121
Query: 246 EVVQNGMVVAILGKGDLVG--CDISMWLSEKNXXXXXXXXXXXXXDPIVKSSCDVKALTY 303
V+ G L G G C ++ + + V+A TY
Sbjct: 122 SVLTKGNKETKLADGSYFGEICLLTRG----------------------RRTASVRADTY 159
Query: 304 CDLKSVNVVGLVEVLRLYPEYQQEFA------------------HDIQHDLTYNI 340
C L S++V EVL YP ++ F H +QHDL +
Sbjct: 160 CRLYSLSVDNFNEVLEEYPMMRRAFETVALDRLDRIGKKNSILLHKVQHDLNSGV 214
>pdb|3U11|A Chain A, Tetramerization Dynamics Of The C-Terminus Underlies
Isoform-Specific Camp-Gating In Hcn Channels
pdb|3U11|B Chain B, Tetramerization Dynamics Of The C-Terminus Underlies
Isoform-Specific Camp-Gating In Hcn Channels
Length = 210
Score = 70.5 bits (171), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 48/207 (23%), Positives = 94/207 (45%), Gaps = 26/207 (12%)
Query: 125 MYSRRSLYQTKWRDLKEFLTLNQIPKELKQRMQDYFQTMWSLSHGIDVHETLKEFPEELR 184
M S R YQ K++ ++++++ +++P + +QR+ DY++ + D L E E LR
Sbjct: 7 MDSSRRQYQEKYKQVEQYMSFHKLPPDTRQRIHDYYEHRYQ-GKMFDEESILGELSEPLR 65
Query: 185 GD-VSMHLHREILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNG 243
+ ++ + + + +P+F A + + +R PG+Y+I +G +Y++ +G
Sbjct: 66 EEIINFNXRKLVASMPLFANADPNFVTSMLTKLRFEVFQPGDYIIREGTIGKKMYFIQHG 125
Query: 244 SMEVVQNGMVVAILGKGDLVG--CDISMWLSEKNXXXXXXXXXXXXXDPIVKSSCDVKAL 301
+ V+ G L G G C ++ + + V+A
Sbjct: 126 VVSVLTKGNKETKLADGSYFGEICLLTRG----------------------RRTASVRAD 163
Query: 302 TYCDLKSVNVVGLVEVLRLYPEYQQEF 328
TYC L S++V EVL YP ++ F
Sbjct: 164 TYCRLYSLSVDNFNEVLEEYPMMRRAF 190
>pdb|4HBN|A Chain A, Crystal Structure Of The Human Hcn4 Channel C-terminus
Carrying The S672r Mutation
Length = 205
Score = 68.6 bits (166), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 47/205 (22%), Positives = 93/205 (45%), Gaps = 26/205 (12%)
Query: 127 SRRSLYQTKWRDLKEFLTLNQIPKELKQRMQDYFQTMWSLSHGIDVHETLKEFPEELRGD 186
S R YQ K++ ++++++ +++P + +QR+ DY++ + D L E E LR +
Sbjct: 3 SSRRQYQEKYKQVEQYMSFHKLPPDTRQRIHDYYEHRYQ-GKMFDEESILGELSEPLREE 61
Query: 187 -VSMHLHREILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSM 245
++ + + + +P+F A + + +R PG+Y+I +G +Y++ +G +
Sbjct: 62 IINFNCRKLVASMPLFANADPNFVTSMLTKLRFEVFQPGDYIIREGTIGKKMYFIQHGVV 121
Query: 246 EVVQNGMVVAILGKGDLVG--CDISMWLSEKNXXXXXXXXXXXXXDPIVKSSCDVKALTY 303
V+ G L G G C ++ + + V+A TY
Sbjct: 122 SVLTKGNKETKLADGSYFGEICLLTRG----------------------RRTARVRADTY 159
Query: 304 CDLKSVNVVGLVEVLRLYPEYQQEF 328
C L S++V EVL YP ++ F
Sbjct: 160 CRLYSLSVDNFNEVLEEYPMMRRAF 184
>pdb|3U0Z|A Chain A, Tetramerization Dynamics Of The C-Terminus Underlies
Isoform-Specific Camp-Gating In Hcn Channels
pdb|3U0Z|B Chain B, Tetramerization Dynamics Of The C-Terminus Underlies
Isoform-Specific Camp-Gating In Hcn Channels
Length = 210
Score = 64.7 bits (156), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 47/205 (22%), Positives = 93/205 (45%), Gaps = 22/205 (10%)
Query: 125 MYSRRSLYQTKWRDLKEFLTLNQIPKELKQRMQDYFQTMWSLSHGIDVHETLKEFPEELR 184
M S R YQ K++ ++++++ +++P +++Q++ DY++ + D L E + LR
Sbjct: 7 MDSSRRQYQEKYKQVEQYMSFHKLPADMRQKIHDYYEHRYQ-GKIFDEENILSELNDPLR 65
Query: 185 GD-VSMHLHREILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNG 243
+ V+ + + + +P+F A + + +R PG+Y+I +G +Y++ +G
Sbjct: 66 EEIVNFNCRKLVATMPLFANADPNFVTAMLSKLRFEVFQPGDYIIREGAVGKKMYFIQHG 125
Query: 244 SMEVVQNGMVVAILGKGDLVGCDISMWLSEKNXXXXXXXXXXXXXDPIVKSSCDVKALTY 303
V+ L G G + L K + + V+A TY
Sbjct: 126 VAGVITKSSKEMKLTDGSYFG---EICLLTKG-----------------RRTASVRADTY 165
Query: 304 CDLKSVNVVGLVEVLRLYPEYQQEF 328
C L S++V EVL YP ++ F
Sbjct: 166 CRLYSLSVDNFNEVLEEYPMMRRAF 190
>pdb|3FFQ|A Chain A, Hcn2i 443-640 Apo-State
pdb|3FFQ|B Chain B, Hcn2i 443-640 Apo-State
Length = 202
Score = 64.3 bits (155), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 46/207 (22%), Positives = 93/207 (44%), Gaps = 26/207 (12%)
Query: 125 MYSRRSLYQTKWRDLKEFLTLNQIPKELKQRMQDYFQTMWSLSHGIDVHETLKEFPEELR 184
M S R YQ K++ ++++++ +++P + +Q++ DY++ + D L E LR
Sbjct: 4 MDSSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQ-GKMFDEDSILGELNGPLR 62
Query: 185 GD-VSMHLHREILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNG 243
+ V+ + + + +P+F A + + ++ PG+Y+I +G +Y++ +G
Sbjct: 63 EEIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHG 122
Query: 244 SMEVVQNGMVVAILGKGDLVG--CDISMWLSEKNXXXXXXXXXXXXXDPIVKSSCDVKAL 301
+ V+ G L G G C ++ + + V+A
Sbjct: 123 VVSVLTKGNKEMKLSDGSYFGEICLLTRG----------------------RRTASVRAD 160
Query: 302 TYCDLKSVNVVGLVEVLRLYPEYQQEF 328
TYC L S++V EVL YP ++ F
Sbjct: 161 TYCRLYSLSVDNFNEVLEEYPMMRRAF 187
>pdb|3U10|A Chain A, Tetramerization Dynamics Of The C-Terminus Underlies
Isoform-Specific Camp-Gating In Hcn Channels
Length = 210
Score = 64.3 bits (155), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 46/207 (22%), Positives = 93/207 (44%), Gaps = 26/207 (12%)
Query: 125 MYSRRSLYQTKWRDLKEFLTLNQIPKELKQRMQDYFQTMWSLSHGIDVHETLKEFPEELR 184
M S R YQ K++ ++++++ +++P + +Q++ DY++ + D L E LR
Sbjct: 7 MDSSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQ-GKMFDEDSILGELNGPLR 65
Query: 185 GD-VSMHLHREILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNG 243
+ V+ + + + +P+F A + + ++ PG+Y+I +G +Y++ +G
Sbjct: 66 EEIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHG 125
Query: 244 SMEVVQNGMVVAILGKGDLVG--CDISMWLSEKNXXXXXXXXXXXXXDPIVKSSCDVKAL 301
+ V+ G L G G C ++ + + V+A
Sbjct: 126 VVSVLTKGNKEMKLSDGSYFGEICLLTRG----------------------RRTASVRAD 163
Query: 302 TYCDLKSVNVVGLVEVLRLYPEYQQEF 328
TYC L S++V EVL YP ++ F
Sbjct: 164 TYCRLYSLSVDNFNEVLEEYPMMRRAF 190
>pdb|1Q3E|A Chain A, Hcn2j 443-645 In The Presence Of Cgmp
pdb|1Q3E|B Chain B, Hcn2j 443-645 In The Presence Of Cgmp
Length = 207
Score = 64.3 bits (155), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 46/207 (22%), Positives = 93/207 (44%), Gaps = 26/207 (12%)
Query: 125 MYSRRSLYQTKWRDLKEFLTLNQIPKELKQRMQDYFQTMWSLSHGIDVHETLKEFPEELR 184
M S R YQ K++ ++++++ +++P + +Q++ DY++ + D L E LR
Sbjct: 4 MDSSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQ-GKMFDEDSILGELNGPLR 62
Query: 185 GD-VSMHLHREILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNG 243
+ V+ + + + +P+F A + + ++ PG+Y+I +G +Y++ +G
Sbjct: 63 EEIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHG 122
Query: 244 SMEVVQNGMVVAILGKGDLVG--CDISMWLSEKNXXXXXXXXXXXXXDPIVKSSCDVKAL 301
+ V+ G L G G C ++ + + V+A
Sbjct: 123 VVSVLTKGNKEMKLSDGSYFGEICLLTRG----------------------RRTASVRAD 160
Query: 302 TYCDLKSVNVVGLVEVLRLYPEYQQEF 328
TYC L S++V EVL YP ++ F
Sbjct: 161 TYCRLYSLSVDNFNEVLEEYPMMRRAF 187
>pdb|2Q0A|A Chain A, Structure And Rearrangements In The Carboxy-Terminal
Region Of Spih Channels
pdb|2Q0A|B Chain B, Structure And Rearrangements In The Carboxy-Terminal
Region Of Spih Channels
Length = 200
Score = 63.5 bits (153), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 45/205 (21%), Positives = 92/205 (44%), Gaps = 26/205 (12%)
Query: 127 SRRSLYQTKWRDLKEFLTLNQIPKELKQRMQDYFQTMWSLSHGIDVHETLKEFPEELRGD 186
S R YQ K++ ++++++ +++P + +Q++ DY++ + D L E LR +
Sbjct: 4 SSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQ-GKMFDEDSILGELNGPLREE 62
Query: 187 -VSMHLHREILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSM 245
V+ + + + +P+F A + + ++ PG+Y+I +G +Y++ +G +
Sbjct: 63 IVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVV 122
Query: 246 EVVQNGMVVAILGKGDLVG--CDISMWLSEKNXXXXXXXXXXXXXDPIVKSSCDVKALTY 303
V+ G L G G C ++ + + V+A TY
Sbjct: 123 SVLTKGNKEMKLSDGSYFGEICLLTRG----------------------RRTASVRADTY 160
Query: 304 CDLKSVNVVGLVEVLRLYPEYQQEF 328
C L S++V EVL YP ++ F
Sbjct: 161 CRLYSLSVDNFNEVLEEYPMMRRAF 185
>pdb|3BPZ|A Chain A, Hcn2-I 443-460 E502k In The Presence Of Camp
pdb|3BPZ|B Chain B, Hcn2-I 443-460 E502k In The Presence Of Camp
pdb|3BPZ|C Chain C, Hcn2-I 443-460 E502k In The Presence Of Camp
pdb|3BPZ|D Chain D, Hcn2-I 443-460 E502k In The Presence Of Camp
Length = 202
Score = 63.5 bits (153), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 46/207 (22%), Positives = 92/207 (44%), Gaps = 26/207 (12%)
Query: 125 MYSRRSLYQTKWRDLKEFLTLNQIPKELKQRMQDYFQTMWSLSHGIDVHETLKEFPEELR 184
M S R YQ K++ ++++++ +++P + +Q++ DY++ + D L E LR
Sbjct: 4 MDSSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQ-GKMFDEDSILGELNGPLR 62
Query: 185 GD-VSMHLHREILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNG 243
V+ + + + +P+F A + + ++ PG+Y+I +G +Y++ +G
Sbjct: 63 EKIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHG 122
Query: 244 SMEVVQNGMVVAILGKGDLVG--CDISMWLSEKNXXXXXXXXXXXXXDPIVKSSCDVKAL 301
+ V+ G L G G C ++ + + V+A
Sbjct: 123 VVSVLTKGNKEMKLSDGSYFGEICLLTRG----------------------RRTASVRAD 160
Query: 302 TYCDLKSVNVVGLVEVLRLYPEYQQEF 328
TYC L S++V EVL YP ++ F
Sbjct: 161 TYCRLYSLSVDNFNEVLEEYPMMRRAF 187
>pdb|3ETQ|A Chain A, X-Ray Structure Of Cysteine-Free Fragment Of Mhcn2 C-
Terminal Region From Amino Acids 443-630 Including
C508n, C584s, And C601s Mutations
pdb|3ETQ|B Chain B, X-Ray Structure Of Cysteine-Free Fragment Of Mhcn2 C-
Terminal Region From Amino Acids 443-630 Including
C508n, C584s, And C601s Mutations
Length = 204
Score = 62.4 bits (150), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 45/203 (22%), Positives = 93/203 (45%), Gaps = 22/203 (10%)
Query: 127 SRRSLYQTKWRDLKEFLTLNQIPKELKQRMQDYFQTMWSLSHGIDVHETLKEFPEELRGD 186
S R YQ K++ ++++++ +++P + +Q++ DY++ + D L E LR +
Sbjct: 8 SSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQ-GKMFDEDSILGELNGPLREE 66
Query: 187 VSMHLHREIL-QLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSM 245
+ +R+++ +P+F A + + ++ PG+Y+I +G +Y++ +G +
Sbjct: 67 IVNFNNRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVV 126
Query: 246 EVVQNGMVVAILGKGDLVGCDISMWLSEKNXXXXXXXXXXXXXDPIVKSSCDVKALTYCD 305
V+ G L G G +IS+ + + V+A TY
Sbjct: 127 SVLTKGNKEMKLSDGSYFG-EISLLTRGRR-------------------TASVRADTYSR 166
Query: 306 LKSVNVVGLVEVLRLYPEYQQEF 328
L S++V EVL YP ++ F
Sbjct: 167 LYSLSVDNFNEVLEEYPMMRRAF 189
>pdb|1Q43|A Chain A, Hcn2i 443-640 In The Presence Of Camp, Selenomethionine
Derivative
pdb|1Q43|B Chain B, Hcn2i 443-640 In The Presence Of Camp, Selenomethionine
Derivative
pdb|1Q5O|A Chain A, Hcn2j 443-645 In The Presence Of Camp, Selenomethionine
Derivative
Length = 207
Score = 61.6 bits (148), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 46/207 (22%), Positives = 89/207 (42%), Gaps = 26/207 (12%)
Query: 125 MYSRRSLYQTKWRDLKEFLTLNQIPKELKQRMQDYFQTMWSLSHGIDVHETLKEFPEELR 184
M S R YQ K++ ++++ + +++P + +Q++ DY++ + D L E LR
Sbjct: 4 MDSSRRQYQEKYKQVEQYXSFHKLPADFRQKIHDYYEHRYQ-GKXFDEDSILGELNGPLR 62
Query: 185 GD-VSMHLHREILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNG 243
+ V+ + + + P+F A + ++ PG+Y+I +G Y++ +G
Sbjct: 63 EEIVNFNCRKLVASXPLFANADPNFVTAXLTKLKFEVFQPGDYIIREGTIGKKXYFIQHG 122
Query: 244 SMEVVQNGMVVAILGKGDLVG--CDISMWLSEKNXXXXXXXXXXXXXDPIVKSSCDVKAL 301
+ V+ G L G G C ++ + + V+A
Sbjct: 123 VVSVLTKGNKEXKLSDGSYFGEICLLTRG----------------------RRTASVRAD 160
Query: 302 TYCDLKSVNVVGLVEVLRLYPEYQQEF 328
TYC L S++V EVL YP ++ F
Sbjct: 161 TYCRLYSLSVDNFNEVLEEYPXXRRAF 187
>pdb|2PTM|A Chain A, Structure And Rearrangements In The Carboxy-Terminal
Region Of Spih Channels
Length = 198
Score = 53.5 bits (127), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 39/193 (20%), Positives = 85/193 (44%), Gaps = 23/193 (11%)
Query: 132 YQTKWRDLKEFLTLNQIPKELKQRMQDYFQTMWSLSHGIDVHETLKEFPEELRGDVSMHL 191
Y+ K + ++E++ ++P L+ ++ DY++ + D +E E +R DV+ +
Sbjct: 10 YREKLKQVEEYMQYRKLPSHLRNKILDYYEYRYR-GKMFDERHIFREVSESIRQDVANYN 68
Query: 192 HREIL-QLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVV-Q 249
R+++ +P F A + + + P +Y+I +G ++++ G ++++
Sbjct: 69 CRDLVASVPFFVGADSNFVTRVVTLLEFEVFQPADYVIQEGTFGDRMFFIQQGIVDIIMS 128
Query: 250 NGMVVAILGKGDLVGCDISMWLSEKNXXXXXXXXXXXXXDPIVKSSCDVKALTYCDLKSV 309
+G++ L G G +I + E+ VK TYC L S+
Sbjct: 129 DGVIATSLSDGSYFG-EICLLTRERRV-------------------ASVKCETYCTLFSL 168
Query: 310 NVVGLVEVLRLYP 322
+V +VL +P
Sbjct: 169 SVQHFNQVLDEFP 181
>pdb|3T1C|A Chain A, Crystal Structure Of Nak Channel D66y Mutant
pdb|3T1C|B Chain B, Crystal Structure Of Nak Channel D66y Mutant
Length = 97
Score = 42.4 bits (98), Expect = 7e-04, Method: Composition-based stats.
Identities = 22/46 (47%), Positives = 29/46 (63%), Gaps = 3/46 (6%)
Query: 71 ITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFG 116
I ALYF+ +LT+VG+GN S T KIF+I + IG +VFG
Sbjct: 34 IDALYFSVVTLTTVGYGNFSPQTDFGKIFTILYIFIGI---GLVFG 76
>pdb|3TET|A Chain A, Crystal Structure Of Nak2k Channel Y66f Mutant
pdb|3TET|B Chain B, Crystal Structure Of Nak2k Channel Y66f Mutant
Length = 97
Score = 41.6 bits (96), Expect = 0.001, Method: Composition-based stats.
Identities = 22/46 (47%), Positives = 29/46 (63%), Gaps = 3/46 (6%)
Query: 71 ITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFG 116
I ALYF+ +LT+VGFG+ S T KIF+I + IG +VFG
Sbjct: 34 IDALYFSVVTLTTVGFGDFSPQTDFGKIFTILYIFIGI---GLVFG 76
>pdb|3OUF|A Chain A, Structure Of A K+ Selective Nak Mutant
pdb|3OUF|B Chain B, Structure Of A K+ Selective Nak Mutant
Length = 97
Score = 40.4 bits (93), Expect = 0.003, Method: Composition-based stats.
Identities = 21/46 (45%), Positives = 29/46 (63%), Gaps = 3/46 (6%)
Query: 71 ITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFG 116
I ALYF+ +LT+VG+G+ S T KIF+I + IG +VFG
Sbjct: 34 IDALYFSVVTLTTVGYGDFSPQTDFGKIFTILYIFIGI---GLVFG 76
>pdb|2Q67|A Chain A, Crystal Structure Of Nak Channel D66a Mutant
pdb|2Q67|B Chain B, Crystal Structure Of Nak Channel D66a Mutant
Length = 114
Score = 40.0 bits (92), Expect = 0.003, Method: Composition-based stats.
Identities = 22/46 (47%), Positives = 28/46 (60%), Gaps = 3/46 (6%)
Query: 71 ITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFG 116
I ALYF+ +LT+VG GN S T KIF+I + IG +VFG
Sbjct: 51 IDALYFSVVTLTTVGAGNFSPQTDFGKIFTILYIFIGI---GLVFG 93
>pdb|3TCU|A Chain A, Crystal Structure Of Nak2k Channel D68e Mutant
pdb|3TCU|B Chain B, Crystal Structure Of Nak2k Channel D68e Mutant
Length = 97
Score = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 21/46 (45%), Positives = 28/46 (60%), Gaps = 3/46 (6%)
Query: 71 ITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFG 116
I ALYF+ +LT+VG+G S T KIF+I + IG +VFG
Sbjct: 34 IDALYFSVVTLTTVGYGEFSPQTDFGKIFTILYIFIGI---GLVFG 76
>pdb|2Q69|A Chain A, Crystal Structure Of Nak Channel D66n Mutant
pdb|2Q69|B Chain B, Crystal Structure Of Nak Channel D66n Mutant
Length = 114
Score = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 22/46 (47%), Positives = 28/46 (60%), Gaps = 3/46 (6%)
Query: 71 ITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFG 116
I ALYF+ +LT+VG GN S T KIF+I + IG +VFG
Sbjct: 51 IDALYFSVVTLTTVGNGNFSPQTDFGKIFTILYIFIGI---GLVFG 93
>pdb|2Q6A|A Chain A, Crystal Structure Of Nak Channel D66e Mutant
pdb|2Q6A|B Chain B, Crystal Structure Of Nak Channel D66e Mutant
Length = 114
Score = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 22/46 (47%), Positives = 28/46 (60%), Gaps = 3/46 (6%)
Query: 71 ITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFG 116
I ALYF+ +LT+VG GN S T KIF+I + IG +VFG
Sbjct: 51 IDALYFSVVTLTTVGEGNFSPQTDFGKIFTILYIFIGI---GLVFG 93
>pdb|3E83|A Chain A, Crystal Structure Of The The Open Nak Channel Pore
pdb|3E83|B Chain B, Crystal Structure Of The The Open Nak Channel Pore
pdb|3E86|A Chain A, High Resolution Crystal Structure Of The Open Nak Channel
Pore
pdb|3E86|B Chain B, High Resolution Crystal Structure Of The Open Nak Channel
Pore
pdb|3E89|A Chain A, Crystal Structure Of The The Open Nak Channel-Low Na+
Complex
pdb|3E89|B Chain B, Crystal Structure Of The The Open Nak Channel-Low Na+
Complex
pdb|3E8B|A Chain A, Crystal Structure Of The The Open Nak Channel- Rb+ Complex
pdb|3E8B|B Chain B, Crystal Structure Of The The Open Nak Channel- Rb+ Complex
pdb|3E8F|A Chain A, Crystal Structure Of The The Open Nak Channel- K+BA2+
pdb|3E8F|B Chain B, Crystal Structure Of The The Open Nak Channel- K+BA2+
pdb|3E8G|A Chain A, Crystal Structure Of The The Open Nak Channel-Na+CA2+
COMPLEX
pdb|3E8G|B Chain B, Crystal Structure Of The The Open Nak Channel-Na+CA2+
COMPLEX
pdb|3E8H|A Chain A, Crystal Structure Of The The Open Nak Channel-K+ Complex
pdb|3E8H|B Chain B, Crystal Structure Of The The Open Nak Channel-K+ Complex
Length = 96
Score = 39.7 bits (91), Expect = 0.005, Method: Composition-based stats.
Identities = 22/46 (47%), Positives = 28/46 (60%), Gaps = 3/46 (6%)
Query: 71 ITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFG 116
I ALYF+ +LT+VG GN S T KIF+I + IG +VFG
Sbjct: 33 IDALYFSVVTLTTVGDGNFSPQTDFGKIFTILYIFIGI---GLVFG 75
>pdb|2AHY|A Chain A, Na+ Complex Of The Nak Channel
pdb|2AHY|B Chain B, Na+ Complex Of The Nak Channel
pdb|2AHZ|A Chain A, K+ Complex Of The Nak Channel
pdb|2AHZ|B Chain B, K+ Complex Of The Nak Channel
Length = 110
Score = 39.7 bits (91), Expect = 0.005, Method: Composition-based stats.
Identities = 22/46 (47%), Positives = 28/46 (60%), Gaps = 3/46 (6%)
Query: 71 ITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFG 116
I ALYF+ +LT+VG GN S T KIF+I + IG +VFG
Sbjct: 51 IDALYFSVVTLTTVGDGNFSPQTDFGKIFTILYIFIGI---GLVFG 93
>pdb|3T4D|A Chain A, Crystal Structure Of Nak2k Channel Y55f Mutant
pdb|3T4D|B Chain B, Crystal Structure Of Nak2k Channel Y55f Mutant
Length = 97
Score = 38.9 bits (89), Expect = 0.008, Method: Composition-based stats.
Identities = 20/46 (43%), Positives = 29/46 (63%), Gaps = 3/46 (6%)
Query: 71 ITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFG 116
I AL+F+ +LT+VG+G+ S T KIF+I + IG +VFG
Sbjct: 34 IDALFFSVVTLTTVGYGDFSPQTDFGKIFTILYIFIGI---GLVFG 76
>pdb|3T4Z|A Chain A, Crystal Structure Of Nak2k Channel Y55w Mutant
pdb|3T4Z|B Chain B, Crystal Structure Of Nak2k Channel Y55w Mutant
Length = 97
Score = 38.5 bits (88), Expect = 0.010, Method: Composition-based stats.
Identities = 20/46 (43%), Positives = 29/46 (63%), Gaps = 3/46 (6%)
Query: 71 ITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFG 116
I AL+F+ +LT+VG+G+ S T KIF+I + IG +VFG
Sbjct: 34 IDALWFSVVTLTTVGYGDFSPQTDFGKIFTILYIFIGI---GLVFG 76
>pdb|2Q68|A Chain A, Crystal Structure Of Nak Channel D66a, S70e Double Mutants
pdb|2Q68|B Chain B, Crystal Structure Of Nak Channel D66a, S70e Double Mutants
Length = 114
Score = 38.5 bits (88), Expect = 0.011, Method: Composition-based stats.
Identities = 21/46 (45%), Positives = 27/46 (58%), Gaps = 3/46 (6%)
Query: 71 ITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFG 116
I ALYF+ +LT+VG GN T KIF+I + IG +VFG
Sbjct: 51 IDALYFSVVTLTTVGAGNFEPQTDFGKIFTILYIFIGI---GLVFG 93
>pdb|3UM7|A Chain A, Crystal Structure Of The Human Two Pore Domain K+ Ion
Channel Traak (K2p4.1)
pdb|3UM7|B Chain B, Crystal Structure Of The Human Two Pore Domain K+ Ion
Channel Traak (K2p4.1)
pdb|4I9W|A Chain A, Human Two Pore Domain K+ Channel Traak (k2p4.1) - Fab
Complex Structure
pdb|4I9W|B Chain B, Human Two Pore Domain K+ Channel Traak (k2p4.1) - Fab
Complex Structure
Length = 309
Score = 38.1 bits (87), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 29/47 (61%)
Query: 72 TALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFGNV 118
+A +F+ + +T++G+GNV+ T A ++F I L+G + ++ V
Sbjct: 118 SAFFFSGTIITTIGYGNVALRTDAGRLFCIFYALVGIPLFGILLAGV 164
>pdb|3VOU|A Chain A, The Crystal Structure Of Nak-Navsulp Chimera Channel
pdb|3VOU|B Chain B, The Crystal Structure Of Nak-Navsulp Chimera Channel
Length = 148
Score = 37.7 bits (86), Expect = 0.015, Method: Composition-based stats.
Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 3/46 (6%)
Query: 71 ITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFG 116
+ ALYF+ +LT+VG GN S T K+F+I + IG +VFG
Sbjct: 54 LDALYFSVVTLTTVGDGNFSPQTDFGKVFTILYIFIGI---GLVFG 96
>pdb|3T2M|A Chain A, Crystal Structure Of Nak Channel N68d Mutant
pdb|3T2M|B Chain B, Crystal Structure Of Nak Channel N68d Mutant
Length = 97
Score = 37.7 bits (86), Expect = 0.017, Method: Composition-based stats.
Identities = 21/46 (45%), Positives = 28/46 (60%), Gaps = 3/46 (6%)
Query: 71 ITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFG 116
I ALYF+ +LT+VG G+ S T KIF+I + IG +VFG
Sbjct: 34 IDALYFSVVTLTTVGDGDFSPQTDFGKIFTILYIFIGI---GLVFG 76
>pdb|2A0L|A Chain A, Crystal Structure Of Kvap-33h1 Fv Complex
pdb|2A0L|B Chain B, Crystal Structure Of Kvap-33h1 Fv Complex
Length = 241
Score = 35.4 bits (80), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 32/61 (52%)
Query: 65 SHRESYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFGNVTAIIQR 124
S +S AL++ + T+VG+G+V T K+ I ML G ++ G V+ + Q+
Sbjct: 173 SSIKSVFDALWWAVVTATTVGYGDVVPATPIGKVIGIAVMLTGISALTLLIGTVSNMFQK 232
Query: 125 M 125
+
Sbjct: 233 I 233
>pdb|1ORQ|C Chain C, X-Ray Structure Of A Voltage-Dependent Potassium Channel
In Complex With An Fab
Length = 223
Score = 34.7 bits (78), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 32/61 (52%)
Query: 65 SHRESYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFGNVTAIIQR 124
S +S AL++ + T+VG+G+V T K+ I ML G ++ G V+ + Q+
Sbjct: 161 SSIKSVFDALWWAVVTATTVGYGDVVPATPIGKVIGIAVMLTGISALTLLIGTVSNMFQK 220
Query: 125 M 125
+
Sbjct: 221 I 221
>pdb|4GX5|A Chain A, Gsuk Channel
pdb|4GX5|B Chain B, Gsuk Channel
pdb|4GX5|C Chain C, Gsuk Channel
pdb|4GX5|D Chain D, Gsuk Channel
Length = 565
Score = 33.9 bits (76), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 16/66 (24%), Positives = 36/66 (54%), Gaps = 2/66 (3%)
Query: 69 SYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVV--FGNVTAIIQRMY 126
S++ +Y+T + +T++GFG+++ + A +F+ + G + ++ FG V+ +
Sbjct: 51 SFMAGIYWTITVMTTLGFGDITFESDAGYLFASIVTVSGVIFLLIILPFGFVSMFLAPWI 110
Query: 127 SRRSLY 132
RR Y
Sbjct: 111 ERRLRY 116
>pdb|4GX0|A Chain A, Crystal Structure Of The Gsuk L97d Mutant
pdb|4GX0|B Chain B, Crystal Structure Of The Gsuk L97d Mutant
pdb|4GX0|C Chain C, Crystal Structure Of The Gsuk L97d Mutant
pdb|4GX0|D Chain D, Crystal Structure Of The Gsuk L97d Mutant
pdb|4GX1|A Chain A, Crystal Structure Of The Gsuk Bound To Adp
pdb|4GX1|B Chain B, Crystal Structure Of The Gsuk Bound To Adp
pdb|4GX1|C Chain C, Crystal Structure Of The Gsuk Bound To Adp
pdb|4GX1|D Chain D, Crystal Structure Of The Gsuk Bound To Adp
pdb|4GX2|A Chain A, Gsuk Channel Bound To Nad
pdb|4GX2|B Chain B, Gsuk Channel Bound To Nad
pdb|4GX2|C Chain C, Gsuk Channel Bound To Nad
pdb|4GX2|D Chain D, Gsuk Channel Bound To Nad
Length = 565
Score = 33.5 bits (75), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 16/66 (24%), Positives = 36/66 (54%), Gaps = 2/66 (3%)
Query: 69 SYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVV--FGNVTAIIQRMY 126
S++ +Y+T + +T++GFG+++ + A +F+ + G + ++ FG V+ +
Sbjct: 51 SFMAGIYWTITVMTTLGFGDITFESDAGYLFASIVTVSGVIFLDIILPFGFVSMFLAPWI 110
Query: 127 SRRSLY 132
RR Y
Sbjct: 111 ERRLRY 116
>pdb|1I6X|A Chain A, Structure Of A Star Mutant Crp-Camp At 2.2 A
pdb|1I6X|B Chain B, Structure Of A Star Mutant Crp-Camp At 2.2 A
Length = 209
Score = 32.7 bits (73), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 28/43 (65%), Gaps = 5/43 (11%)
Query: 227 LIHKGDHLSSIYYLCNGSMEVV---QNG--MVVAILGKGDLVG 264
LIH+G+ ++YY+ GS+ V+ + G M+++ L +GD +G
Sbjct: 29 LIHQGEKAETLYYIVKGSVAVLIKHEEGKEMILSYLNQGDFIG 71
>pdb|1RUN|A Chain A, Catabolite Gene Activator Protein (Cap)DNA COMPLEX +
Adenosine-3',5'-Cyclic-Monophosphate
pdb|1RUN|B Chain B, Catabolite Gene Activator Protein (Cap)DNA COMPLEX +
Adenosine-3',5'-Cyclic-Monophosphate
pdb|1J59|A Chain A, Catabolite Gene Activator Protein (Cap)DNA COMPLEX +
Adenosine-3',5'-Cyclic-Monophosphate
pdb|1J59|B Chain B, Catabolite Gene Activator Protein (Cap)DNA COMPLEX +
Adenosine-3',5'-Cyclic-Monophosphate
pdb|1LB2|A Chain A, Structure Of The E. Coli Alpha C-Terminal Domain Of Rna
Polymerase In Complex With Cap And Dna
pdb|1I5Z|A Chain A, Structure Of Crp-Camp At 1.9 A
pdb|1I5Z|B Chain B, Structure Of Crp-Camp At 1.9 A
pdb|1ZRC|A Chain A, 4 Crystal Structures Of Cap-Dna With All Base-Pair
Substitutions At Position 6, Cap-Icap38 Dna
pdb|1ZRC|B Chain B, 4 Crystal Structures Of Cap-Dna With All Base-Pair
Substitutions At Position 6, Cap-Icap38 Dna
pdb|1ZRD|A Chain A, 4 Crystal Structures Of Cap-dna With All Base-pair
Substitutions At Position 6, Cap-[6a;17t]icap38 Dna
pdb|1ZRD|B Chain B, 4 Crystal Structures Of Cap-dna With All Base-pair
Substitutions At Position 6, Cap-[6a;17t]icap38 Dna
pdb|1ZRE|A Chain A, 4 Crystal Structures Of Cap-Dna With All Base-Pair
Substitutions At Position 6, Cap-[6g;17c]icap38 Dna
pdb|1ZRE|B Chain B, 4 Crystal Structures Of Cap-Dna With All Base-Pair
Substitutions At Position 6, Cap-[6g;17c]icap38 Dna
pdb|1ZRF|A Chain A, 4 Crystal Structures Of Cap-Dna With All Base-Pair
Substitutions At Position 6, Cap-[6c;17g]icap38 Dna
pdb|1ZRF|B Chain B, 4 Crystal Structures Of Cap-Dna With All Base-Pair
Substitutions At Position 6, Cap-[6c;17g]icap38 Dna
pdb|2GZW|A Chain A, Crystal Structure Of The E.coli Crp-camp Complex
pdb|2GZW|B Chain B, Crystal Structure Of The E.coli Crp-camp Complex
pdb|2GZW|C Chain C, Crystal Structure Of The E.coli Crp-camp Complex
pdb|2GZW|D Chain D, Crystal Structure Of The E.coli Crp-camp Complex
pdb|2WC2|A Chain A, Nmr Structure Of Catabolite Activator Protein In The
Unliganded State
pdb|2WC2|B Chain B, Nmr Structure Of Catabolite Activator Protein In The
Unliganded State
pdb|3IYD|G Chain G, Three-Dimensional Em Structure Of An Intact
Activator-Dependent Transcription Initiation Complex
pdb|3IYD|H Chain H, Three-Dimensional Em Structure Of An Intact
Activator-Dependent Transcription Initiation Complex
pdb|3N4M|A Chain A, E. Coli Rna Polymerase Alpha Subunit C-Terminal Domain In
Complex With Cap And Dna
Length = 209
Score = 32.7 bits (73), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 28/43 (65%), Gaps = 5/43 (11%)
Query: 227 LIHKGDHLSSIYYLCNGSMEVV---QNG--MVVAILGKGDLVG 264
LIH+G+ ++YY+ GS+ V+ + G M+++ L +GD +G
Sbjct: 29 LIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIG 71
>pdb|1CGP|A Chain A, Catabolite Gene Activator Protein (Cap)DNA COMPLEX +
Adenosine-3',5'-Cyclic-Monophosphate
pdb|1CGP|B Chain B, Catabolite Gene Activator Protein (Cap)DNA COMPLEX +
Adenosine-3',5'-Cyclic-Monophosphate
Length = 205
Score = 32.3 bits (72), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 28/43 (65%), Gaps = 5/43 (11%)
Query: 227 LIHKGDHLSSIYYLCNGSMEVV---QNG--MVVAILGKGDLVG 264
LIH+G+ ++YY+ GS+ V+ + G M+++ L +GD +G
Sbjct: 29 LIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIG 71
>pdb|3FWE|A Chain A, Crystal Structure Of The Apo D138l Cap Mutant
pdb|3FWE|B Chain B, Crystal Structure Of The Apo D138l Cap Mutant
Length = 210
Score = 32.3 bits (72), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 28/43 (65%), Gaps = 5/43 (11%)
Query: 227 LIHKGDHLSSIYYLCNGSMEVV---QNG--MVVAILGKGDLVG 264
LIH+G+ ++YY+ GS+ V+ + G M+++ L +GD +G
Sbjct: 30 LIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIG 72
>pdb|2CGP|A Chain A, Catabolite Gene Activator ProteinDNA COMPLEX,
ADENOSINE-3', 5'-Cyclic-Monophosphate
pdb|1G6N|A Chain A, 2.1 Angstrom Structure Of Cap-Camp
pdb|1G6N|B Chain B, 2.1 Angstrom Structure Of Cap-Camp
pdb|3HIF|A Chain A, The Crystal Structure Of Apo Wild Type Cap At 3.6 A
Resolution.
pdb|3HIF|B Chain B, The Crystal Structure Of Apo Wild Type Cap At 3.6 A
Resolution.
pdb|3HIF|C Chain C, The Crystal Structure Of Apo Wild Type Cap At 3.6 A
Resolution.
pdb|3HIF|D Chain D, The Crystal Structure Of Apo Wild Type Cap At 3.6 A
Resolution.
pdb|3HIF|E Chain E, The Crystal Structure Of Apo Wild Type Cap At 3.6 A
Resolution.
pdb|3HIF|F Chain F, The Crystal Structure Of Apo Wild Type Cap At 3.6 A
Resolution.
pdb|3RYP|A Chain A, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
pdb|3RYP|B Chain B, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
pdb|3RYR|A Chain A, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
pdb|3RYR|B Chain B, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
Length = 210
Score = 32.3 bits (72), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 28/43 (65%), Gaps = 5/43 (11%)
Query: 227 LIHKGDHLSSIYYLCNGSMEVV---QNG--MVVAILGKGDLVG 264
LIH+G+ ++YY+ GS+ V+ + G M+++ L +GD +G
Sbjct: 30 LIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIG 72
>pdb|1RUO|A Chain A, Catabolite Gene Activator Protein (Cap) MutantDNA COMPLEX
+ Adenosine-3',5'-Cyclic-Monophosphate
pdb|1RUO|B Chain B, Catabolite Gene Activator Protein (Cap) MutantDNA COMPLEX
+ Adenosine-3',5'-Cyclic-Monophosphate
Length = 209
Score = 32.3 bits (72), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 28/43 (65%), Gaps = 5/43 (11%)
Query: 227 LIHKGDHLSSIYYLCNGSMEVV---QNG--MVVAILGKGDLVG 264
LIH+G+ ++YY+ GS+ V+ + G M+++ L +GD +G
Sbjct: 29 LIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIG 71
>pdb|1O3Q|A Chain A, Protein-Dna Recognition And Dna Deformation Revealed In
Crystal Structures Of Cap-Dna Complexes
pdb|1O3R|A Chain A, Protein-Dna Recognition And Dna Deformation Revealed In
Crystal Structures Of Cap-Dna Complexes
pdb|1O3T|A Chain A, Protein-Dna Recognition And Dna Deformation Revealed In
Crystal Structures Of Cap-Dna Complexes
pdb|1O3T|B Chain B, Protein-Dna Recognition And Dna Deformation Revealed In
Crystal Structures Of Cap-Dna Complexes
Length = 200
Score = 32.3 bits (72), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 28/43 (65%), Gaps = 5/43 (11%)
Query: 227 LIHKGDHLSSIYYLCNGSMEVV---QNG--MVVAILGKGDLVG 264
LIH+G+ ++YY+ GS+ V+ + G M+++ L +GD +G
Sbjct: 22 LIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIG 64
>pdb|3RBZ|A Chain A, Mthk Channel, Ca2+-Bound
pdb|3RBZ|B Chain B, Mthk Channel, Ca2+-Bound
pdb|3RBZ|C Chain C, Mthk Channel, Ca2+-Bound
pdb|3RBZ|D Chain D, Mthk Channel, Ca2+-Bound
Length = 340
Score = 32.3 bits (72), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 33/58 (56%), Gaps = 1/58 (1%)
Query: 68 ESYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFGN-VTAIIQR 124
ES+ +LY+T ++ +VG+G+ S +T F++ +++G AV +T +I R
Sbjct: 44 ESWTVSLYWTFVTIATVGYGDYSPSTPLGMYFTVTLIVLGIATFAVAVARLLTFLINR 101
>pdb|1HW5|A Chain A, The CapCRP VARIANT T127LS128A
pdb|1HW5|B Chain B, The CapCRP VARIANT T127LS128A
Length = 210
Score = 32.3 bits (72), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 28/43 (65%), Gaps = 5/43 (11%)
Query: 227 LIHKGDHLSSIYYLCNGSMEVV---QNG--MVVAILGKGDLVG 264
LIH+G+ ++YY+ GS+ V+ + G M+++ L +GD +G
Sbjct: 30 LIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIG 72
>pdb|3KCC|A Chain A, Crystal Structure Of D138l Mutant Of Catabolite Gene
Activator Protein
pdb|3KCC|B Chain B, Crystal Structure Of D138l Mutant Of Catabolite Gene
Activator Protein
Length = 260
Score = 32.3 bits (72), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 28/43 (65%), Gaps = 5/43 (11%)
Query: 227 LIHKGDHLSSIYYLCNGSMEVV---QNG--MVVAILGKGDLVG 264
LIH+G+ ++YY+ GS+ V+ + G M+++ L +GD +G
Sbjct: 80 LIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIG 122
>pdb|1O3S|A Chain A, Protein-Dna Recognition And Dna Deformation Revealed In
Crystal Structures Of Cap-Dna Complexes
Length = 200
Score = 32.3 bits (72), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 28/43 (65%), Gaps = 5/43 (11%)
Query: 227 LIHKGDHLSSIYYLCNGSMEVV---QNG--MVVAILGKGDLVG 264
LIH+G+ ++YY+ GS+ V+ + G M+++ L +GD +G
Sbjct: 22 LIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIG 64
>pdb|2A9H|A Chain A, Nmr Structural Studies Of A Potassium Channel
Charybdotoxin Complex
pdb|2A9H|B Chain B, Nmr Structural Studies Of A Potassium Channel
Charybdotoxin Complex
pdb|2A9H|C Chain C, Nmr Structural Studies Of A Potassium Channel
Charybdotoxin Complex
pdb|2A9H|D Chain D, Nmr Structural Studies Of A Potassium Channel
Charybdotoxin Complex
Length = 155
Score = 32.3 bits (72), Expect = 0.74, Method: Composition-based stats.
Identities = 23/82 (28%), Positives = 41/82 (50%), Gaps = 5/82 (6%)
Query: 49 WIHTLAERLKVNVSEISHRESYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGA 108
++ LAER + IS Y AL+++ + T+VG+G++ T + ++ M+ G
Sbjct: 68 YLAVLAERGAPGAALIS----YPDALWWSVETATTVGYGDLYPVTLWGRCVAVVVMVAGI 123
Query: 109 LMHAVVFGNV-TAIIQRMYSRR 129
+ +VF V T + R RR
Sbjct: 124 TSYGLVFAAVATWFVGREQERR 145
>pdb|1LNQ|A Chain A, Crystal Structure Of Mthk At 3.3 A
pdb|1LNQ|B Chain B, Crystal Structure Of Mthk At 3.3 A
pdb|1LNQ|C Chain C, Crystal Structure Of Mthk At 3.3 A
pdb|1LNQ|D Chain D, Crystal Structure Of Mthk At 3.3 A
pdb|1LNQ|E Chain E, Crystal Structure Of Mthk At 3.3 A
pdb|1LNQ|F Chain F, Crystal Structure Of Mthk At 3.3 A
pdb|1LNQ|G Chain G, Crystal Structure Of Mthk At 3.3 A
pdb|1LNQ|H Chain H, Crystal Structure Of Mthk At 3.3 A
Length = 336
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 28/46 (60%)
Query: 68 ESYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAV 113
ES+ +LY+T ++ +VG+G+ S +T F++ +++G AV
Sbjct: 44 ESWTVSLYWTFVTIATVGYGDYSPSTPLGMYFTVTLIVLGIGTFAV 89
>pdb|3QOP|A Chain A, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
pdb|3QOP|B Chain B, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
pdb|3RDI|A Chain A, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
pdb|3RDI|B Chain B, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
pdb|3ROU|A Chain A, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
pdb|3ROU|B Chain B, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
pdb|3RPQ|A Chain A, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
pdb|3RPQ|B Chain B, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
Length = 210
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 27/43 (62%), Gaps = 5/43 (11%)
Query: 227 LIHKGDHLSSIYYLCNGSMEVV---QNG--MVVAILGKGDLVG 264
LIH+G+ ++YY+ GS+ V+ + G M++ L +GD +G
Sbjct: 30 LIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILFYLNQGDFIG 72
>pdb|3R65|A Chain A, Mthk Channel Pore E92q Mutant
Length = 82
Score = 31.2 bits (69), Expect = 1.7, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 32/58 (55%), Gaps = 7/58 (12%)
Query: 68 ESYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFGNVTAIIQRM 125
ES+ +LY+T ++ +VG+G+ S +T F+ CT+++ + G +QR+
Sbjct: 27 ESWTVSLYWTFVTIATVGYGDYSPHTPLGMYFT-CTLIVLGI------GTFAVAVQRL 77
>pdb|4HYO|A Chain A, Crystal Structure Of Mthk Pore
pdb|4HYO|B Chain B, Crystal Structure Of Mthk Pore
pdb|4HYO|C Chain C, Crystal Structure Of Mthk Pore
pdb|4HYO|D Chain D, Crystal Structure Of Mthk Pore
pdb|4HYO|E Chain E, Crystal Structure Of Mthk Pore
pdb|4HYO|F Chain F, Crystal Structure Of Mthk Pore
pdb|4HYO|G Chain G, Crystal Structure Of Mthk Pore
pdb|4HYO|H Chain H, Crystal Structure Of Mthk Pore
pdb|4HZ3|D Chain D, Mthk Pore Crystallized In Presence Of Tbsb
pdb|4HZ3|C Chain C, Mthk Pore Crystallized In Presence Of Tbsb
pdb|4HZ3|A Chain A, Mthk Pore Crystallized In Presence Of Tbsb
pdb|4HZ3|B Chain B, Mthk Pore Crystallized In Presence Of Tbsb
pdb|4HZ3|E Chain E, Mthk Pore Crystallized In Presence Of Tbsb
pdb|4HZ3|F Chain F, Mthk Pore Crystallized In Presence Of Tbsb
pdb|4HZ3|G Chain G, Mthk Pore Crystallized In Presence Of Tbsb
pdb|4HZ3|H Chain H, Mthk Pore Crystallized In Presence Of Tbsb
Length = 91
Score = 30.8 bits (68), Expect = 2.1, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 26/39 (66%), Gaps = 1/39 (2%)
Query: 68 ESYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLI 106
ES+ +LY+T ++ +VG+G+ S +T F+ CT+++
Sbjct: 34 ESWTVSLYWTFVTIATVGYGDYSPHTPLGMYFT-CTLIV 71
>pdb|3LDC|A Chain A, High Resolution Open Mthk Pore Structure Crystallized In
100 Mm K+
pdb|3LDE|A Chain A, High Resolution Open Mthk Pore Structure Crystallized In
100 Mm K+ And Further Soaked In 100 Mm Na+
Length = 82
Score = 30.8 bits (68), Expect = 2.1, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 26/39 (66%), Gaps = 1/39 (2%)
Query: 68 ESYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLI 106
ES+ +LY+T ++ +VG+G+ S +T F+ CT+++
Sbjct: 27 ESWTVSLYWTFVTIATVGYGDYSPHTPLGMYFT-CTLIV 64
>pdb|3OUS|A Chain A, Mthk Channel Pore T59a Mutant
Length = 82
Score = 30.4 bits (67), Expect = 2.3, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 26/39 (66%), Gaps = 1/39 (2%)
Query: 68 ESYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLI 106
ES+ +LY+T ++ +VG+G+ S +T F+ CT+++
Sbjct: 27 ESWTVSLYWTFVTIAAVGYGDYSPHTPLGMYFT-CTLIV 64
>pdb|3LDD|A Chain A, High Resolution Open Mthk Pore Structure Crystallized In
100 Mm K+ And Further Soaked In 99 Mm Na+1 MM K+
Length = 82
Score = 30.4 bits (67), Expect = 2.9, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 25/39 (64%), Gaps = 1/39 (2%)
Query: 68 ESYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLI 106
ES+ +LY+T ++ +VG+G+ S T F+ CT+++
Sbjct: 27 ESWTVSLYWTFVTIATVGYGDYSPRTPLGMYFT-CTLIV 64
>pdb|3UKM|A Chain A, Crystal Structure Of The Human Two Pore Domain Potassium
Ion Channel K2p1 (Twik-1)
pdb|3UKM|B Chain B, Crystal Structure Of The Human Two Pore Domain Potassium
Ion Channel K2p1 (Twik-1)
pdb|3UKM|C Chain C, Crystal Structure Of The Human Two Pore Domain Potassium
Ion Channel K2p1 (Twik-1)
pdb|3UKM|D Chain D, Crystal Structure Of The Human Two Pore Domain Potassium
Ion Channel K2p1 (Twik-1)
Length = 280
Score = 29.3 bits (64), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 40/72 (55%), Gaps = 8/72 (11%)
Query: 70 YITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFGNVTAIIQRM---Y 126
+ +AL+F + L++ G+G+ + K F I +IG + ++F +TA++QR+
Sbjct: 94 FTSALFFASTVLSTTGYGHTVPLSDGGKAFCIIYSVIG-IPFTLLF--LTAVVQRITVHV 150
Query: 127 SRRSL--YQTKW 136
+RR + + +W
Sbjct: 151 TRRPVLYFHIRW 162
>pdb|1WGP|A Chain A, Solution Structure Of The Cnmp-Binding Domain From
Arabidopsis Thaliana Cyclic Nucleotide-Regulated Ion
Channel
Length = 137
Score = 28.9 bits (63), Expect = 7.6, Method: Composition-based stats.
Identities = 17/82 (20%), Positives = 40/82 (48%), Gaps = 6/82 (7%)
Query: 195 ILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVV-----Q 249
+ ++P+FE + L + ++ YL+ +GD ++ + ++ G +E V +
Sbjct: 8 VRRVPLFENMDERLLDAICERLKPCLFTEKSYLVREGDPVNEMLFIIRGRLESVTTDGGR 67
Query: 250 NGMV-VAILGKGDLVGCDISMW 270
+G ++L +GD G ++ W
Sbjct: 68 SGFYNRSLLKEGDFCGDELLTW 89
>pdb|2A79|B Chain B, Mammalian Shaker Kv1.2 Potassium Channel- Beta Subunit
Complex
Length = 499
Score = 28.5 bits (62), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 18/78 (23%), Positives = 35/78 (44%), Gaps = 4/78 (5%)
Query: 73 ALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFGNVTAIIQRMYSRRSLY 132
A ++ S+T+VG+G++ T KI + G L A+ + + Y R
Sbjct: 364 AFWWAVVSMTTVGYGDMVPTTIGGKIVGSLCAIAGVLTIALPVPVIVSNFNYFYHR---- 419
Query: 133 QTKWRDLKEFLTLNQIPK 150
+T+ + ++L + PK
Sbjct: 420 ETEGEEQAQYLQVTSCPK 437
>pdb|3LUT|B Chain B, A Structural Model For The Full-Length Shaker Potassium
Channel Kv1.2
Length = 499
Score = 28.5 bits (62), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 18/78 (23%), Positives = 35/78 (44%), Gaps = 4/78 (5%)
Query: 73 ALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFGNVTAIIQRMYSRRSLY 132
A ++ S+T+VG+G++ T KI + G L A+ + + Y R
Sbjct: 364 AFWWAVVSMTTVGYGDMVPTTIGGKIVGSLCAIAGVLTIALPVPVIVSNFNYFYHR---- 419
Query: 133 QTKWRDLKEFLTLNQIPK 150
+T+ + ++L + PK
Sbjct: 420 ETEGEEQAQYLQVTSCPK 437
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 0.133 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,078,653
Number of Sequences: 62578
Number of extensions: 572894
Number of successful extensions: 1597
Number of sequences better than 100.0: 57
Number of HSP's better than 100.0 without gapping: 40
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 1531
Number of HSP's gapped (non-prelim): 68
length of query: 547
length of database: 14,973,337
effective HSP length: 104
effective length of query: 443
effective length of database: 8,465,225
effective search space: 3750094675
effective search space used: 3750094675
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: 54 (25.4 bits)