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= 005964
(667 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WGP|A Chain A, Solution Structure Of The Cnmp-Binding Domain From
Arabidopsis Thaliana Cyclic Nucleotide-Regulated Ion
Channel
Length = 137
Score = 101 bits (251), Expect = 2e-21, Method: Composition-based stats.
Identities = 47/123 (38%), Positives = 77/123 (62%), Gaps = 2/123 (1%)
Query: 469 VKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIKR--SQSLS 526
V++VPLF +D+ +LD IC+R+K ++++ ++REG+PV+ M+F++RGR++ +
Sbjct: 8 VRRVPLFENMDERLLDAICERLKPCLFTEKSYLVREGDPVNEMLFIIRGRLESVTTDGGR 67
Query: 527 KGKLATSVLGPGGFLGDELLSWCLRRPFKDRLPASPATFTCMESVEAYGLNASDLRYIAD 586
G S+L G F GDELL+W L LP+S T + VEA+ L A +L+++A
Sbjct: 68 SGFYNRSLLKEGDFCGDELLTWALDPKSGSNLPSSTRTVKALTEVEAFALIADELKFVAS 127
Query: 587 HFR 589
FR
Sbjct: 128 QFR 130
>pdb|2PTM|A Chain A, Structure And Rearrangements In The Carboxy-Terminal
Region Of Spih Channels
Length = 198
Score = 58.5 bits (140), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 47/195 (24%), Positives = 88/195 (45%), Gaps = 15/195 (7%)
Query: 411 RDMEWWMRRRQLTSGLKWRVRHFERQRWATMGEDELDWIEDLPQGLRRDIKRYLCLDLVK 470
+ +E +M+ R+L S L+ ++ + R+ DE ++ + +R+D+ Y C DLV
Sbjct: 15 KQVEEYMQYRKLPSHLRNKILDYYEYRYRGKMFDERHIFREVSESIRQDVANYNCRDLVA 74
Query: 471 KVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIKRSQSLSKGKL 530
VP F D + + ++ ++ + +I+EG RM F+ +G + +S G +
Sbjct: 75 SVPFFVGADSNFVTRVVTLLEFEVFQPADYVIQEGTFGDRMFFIQQGIV--DIIMSDGVI 132
Query: 531 ATSVLGPGGFLGDELLSWCLRRPFKDRLPASPATFTCMESVEAYGLNASDLRYIADHF-- 588
ATS L G + G+ L RR A+ C + L+ + D F
Sbjct: 133 ATS-LSDGSYFGEICLLTRERR---------VASVKCETYCTLFSLSVQHFNQVLDEFPA 182
Query: 589 -RYKLADERLKRITR 602
R + + ++R+TR
Sbjct: 183 MRKTMEEIAVRRLTR 197
>pdb|3OTF|A Chain A, Structural Basis For The Camp-Dependent Gating In Human
Hcn4 Channel
Length = 220
Score = 54.7 bits (130), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 35/143 (24%), Positives = 68/143 (47%), Gaps = 4/143 (2%)
Query: 401 ARRKKIQLRSRDMEWWMRRRQLTSGLKWRVRHFERQRWATMGEDELDWIEDLPQGLRRDI 460
+ R++ Q + + +E +M +L + R+ + R+ DE + +L + LR +I
Sbjct: 3 SSRRQYQEKYKQVEQYMSFHKLPPDTRQRIHDYYEHRYQGKMFDEESILGELSEPLREEI 62
Query: 461 KRYLCLDLVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIK 520
+ C LV +PLF D + ++ +++ ++ + IIREG +M F+ G +
Sbjct: 63 INFNCRKLVASMPLFANADPNFVTSMLTKLRFEVFQPGDYIIREGTIGKKMYFIQHGVV- 121
Query: 521 RSQSLSKGKLATSVLGPGGFLGD 543
L+KG T L G + G+
Sbjct: 122 --SVLTKGNKETK-LADGSYFGE 141
>pdb|4HBN|A Chain A, Crystal Structure Of The Human Hcn4 Channel C-terminus
Carrying The S672r Mutation
Length = 205
Score = 54.3 bits (129), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 35/143 (24%), Positives = 68/143 (47%), Gaps = 4/143 (2%)
Query: 401 ARRKKIQLRSRDMEWWMRRRQLTSGLKWRVRHFERQRWATMGEDELDWIEDLPQGLRRDI 460
+ R++ Q + + +E +M +L + R+ + R+ DE + +L + LR +I
Sbjct: 3 SSRRQYQEKYKQVEQYMSFHKLPPDTRQRIHDYYEHRYQGKMFDEESILGELSEPLREEI 62
Query: 461 KRYLCLDLVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIK 520
+ C LV +PLF D + ++ +++ ++ + IIREG +M F+ G +
Sbjct: 63 INFNCRKLVASMPLFANADPNFVTSMLTKLRFEVFQPGDYIIREGTIGKKMYFIQHGVV- 121
Query: 521 RSQSLSKGKLATSVLGPGGFLGD 543
L+KG T L G + G+
Sbjct: 122 --SVLTKGNKETK-LADGSYFGE 141
>pdb|3U10|A Chain A, Tetramerization Dynamics Of The C-Terminus Underlies
Isoform-Specific Camp-Gating In Hcn Channels
Length = 210
Score = 51.2 bits (121), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 34/143 (23%), Positives = 66/143 (46%), Gaps = 4/143 (2%)
Query: 401 ARRKKIQLRSRDMEWWMRRRQLTSGLKWRVRHFERQRWATMGEDELDWIEDLPQGLRRDI 460
+ R++ Q + + +E +M +L + + ++ + R+ DE + +L LR +I
Sbjct: 9 SSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQGKMFDEDSILGELNGPLREEI 68
Query: 461 KRYLCLDLVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIK 520
+ C LV +PLF D + + ++K ++ + IIREG +M F+ G +
Sbjct: 69 VNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVV- 127
Query: 521 RSQSLSKGKLATSVLGPGGFLGD 543
L+KG L G + G+
Sbjct: 128 --SVLTKGNKEMK-LSDGSYFGE 147
>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 = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 34/143 (23%), Positives = 66/143 (46%), Gaps = 4/143 (2%)
Query: 401 ARRKKIQLRSRDMEWWMRRRQLTSGLKWRVRHFERQRWATMGEDELDWIEDLPQGLRRDI 460
+ R++ Q + + +E +M +L + + ++ + R+ DE + +L LR +I
Sbjct: 6 SSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQGKMFDEDSILGELNGPLREEI 65
Query: 461 KRYLCLDLVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIK 520
+ C LV +PLF D + + ++K ++ + IIREG +M F+ G +
Sbjct: 66 VNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVV- 124
Query: 521 RSQSLSKGKLATSVLGPGGFLGD 543
L+KG L G + G+
Sbjct: 125 --SVLTKGNKEMK-LSDGSYFGE 144
>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 = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 34/143 (23%), Positives = 67/143 (46%), Gaps = 4/143 (2%)
Query: 401 ARRKKIQLRSRDMEWWMRRRQLTSGLKWRVRHFERQRWATMGEDELDWIEDLPQGLRRDI 460
+ R++ Q + + +E +M +L + R+ + R+ DE + +L + LR +I
Sbjct: 9 SSRRQYQEKYKQVEQYMSFHKLPPDTRQRIHDYYEHRYQGKMFDEESILGELSEPLREEI 68
Query: 461 KRYLCLDLVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIK 520
+ LV +PLF D + ++ +++ ++ + IIREG +M F+ G +
Sbjct: 69 INFNXRKLVASMPLFANADPNFVTSMLTKLRFEVFQPGDYIIREGTIGKKMYFIQHGVV- 127
Query: 521 RSQSLSKGKLATSVLGPGGFLGD 543
L+KG T L G + G+
Sbjct: 128 --SVLTKGNKETK-LADGSYFGE 147
>pdb|3FFQ|A Chain A, Hcn2i 443-640 Apo-State
pdb|3FFQ|B Chain B, Hcn2i 443-640 Apo-State
Length = 202
Score = 50.4 bits (119), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 34/143 (23%), Positives = 66/143 (46%), Gaps = 4/143 (2%)
Query: 401 ARRKKIQLRSRDMEWWMRRRQLTSGLKWRVRHFERQRWATMGEDELDWIEDLPQGLRRDI 460
+ R++ Q + + +E +M +L + + ++ + R+ DE + +L LR +I
Sbjct: 6 SSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQGKMFDEDSILGELNGPLREEI 65
Query: 461 KRYLCLDLVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIK 520
+ C LV +PLF D + + ++K ++ + IIREG +M F+ G +
Sbjct: 66 VNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVV- 124
Query: 521 RSQSLSKGKLATSVLGPGGFLGD 543
L+KG L G + G+
Sbjct: 125 --SVLTKGNKEMK-LSDGSYFGE 144
>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 = 50.1 bits (118), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 34/143 (23%), Positives = 66/143 (46%), Gaps = 4/143 (2%)
Query: 401 ARRKKIQLRSRDMEWWMRRRQLTSGLKWRVRHFERQRWATMGEDELDWIEDLPQGLRRDI 460
+ R++ Q + + +E +M +L + + ++ + R+ DE + +L LR +I
Sbjct: 4 SSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQGKMFDEDSILGELNGPLREEI 63
Query: 461 KRYLCLDLVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIK 520
+ C LV +PLF D + + ++K ++ + IIREG +M F+ G +
Sbjct: 64 VNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVV- 122
Query: 521 RSQSLSKGKLATSVLGPGGFLGD 543
L+KG L G + G+
Sbjct: 123 --SVLTKGNKEMK-LSDGSYFGE 142
>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 = 49.7 bits (117), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 27/117 (23%), Positives = 58/117 (49%)
Query: 401 ARRKKIQLRSRDMEWWMRRRQLTSGLKWRVRHFERQRWATMGEDELDWIEDLPQGLRRDI 460
+ R++ Q + + +E +M +L + ++ ++ + R+ DE + + +L LR +I
Sbjct: 9 SSRRQYQEKYKQVEQYMSFHKLPADMRQKIHDYYEHRYQGKIFDEENILSELNDPLREEI 68
Query: 461 KRYLCLDLVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRG 517
+ C LV +PLF D + + +++ ++ + IIREG +M F+ G
Sbjct: 69 VNFNCRKLVATMPLFANADPNFVTAMLSKLRFEVFQPGDYIIREGAVGKKMYFIQHG 125
>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 = 49.3 bits (116), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 34/143 (23%), Positives = 65/143 (45%), Gaps = 4/143 (2%)
Query: 401 ARRKKIQLRSRDMEWWMRRRQLTSGLKWRVRHFERQRWATMGEDELDWIEDLPQGLRRDI 460
+ R++ Q + + +E +M +L + + ++ + R+ DE + +L LR I
Sbjct: 6 SSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQGKMFDEDSILGELNGPLREKI 65
Query: 461 KRYLCLDLVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIK 520
+ C LV +PLF D + + ++K ++ + IIREG +M F+ G +
Sbjct: 66 VNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVV- 124
Query: 521 RSQSLSKGKLATSVLGPGGFLGD 543
L+KG L G + G+
Sbjct: 125 --SVLTKGNKEMK-LSDGSYFGE 144
>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 = 48.9 bits (115), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 38/152 (25%), Positives = 74/152 (48%), Gaps = 6/152 (3%)
Query: 397 QVVMARRKKIQLRSRDMEWWMRRRQLTSGLKWRVRHFERQRWA-TMGEDELDWIEDLPQG 455
Q + +RR R++D++ ++R +L L R+ + W+ G D + ++D P
Sbjct: 5 QRMYSRRSLYHTRTKDLKDFIRVHRLPKALAQRMLECFQTTWSVNNGIDVSELLKDFPDE 64
Query: 456 LRRDIKRYLCLDLVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLV 515
LR DI +L +L++ +PLF L ++ +K + E +IR+G+ + + F+
Sbjct: 65 LRADIAMHLNKELLQ-LPLFESASRGCLRSLSLIIKTSFCAPGEFLIRQGDALQAIYFVC 123
Query: 516 RGRIKRSQSLSKGKLATSVLGPGGFLGDELLS 547
G S + K ++LG G +G + L+
Sbjct: 124 SG----SMEVLKDNTVLAILGKGDLIGSDSLT 151
>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 = 44.7 bits (104), Expect = 2e-04, Method: Composition-based stats.
Identities = 33/143 (23%), Positives = 65/143 (45%), Gaps = 4/143 (2%)
Query: 401 ARRKKIQLRSRDMEWWMRRRQLTSGLKWRVRHFERQRWATMGEDELDWIEDLPQGLRRDI 460
+ R++ Q + + +E +M +L + + ++ + R+ DE + +L LR +I
Sbjct: 8 SSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQGKMFDEDSILGELNGPLREEI 67
Query: 461 KRYLCLDLVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIK 520
+ LV +PLF D + + ++K ++ + IIREG +M F+ G +
Sbjct: 68 VNFNNRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVV- 126
Query: 521 RSQSLSKGKLATSVLGPGGFLGD 543
L+KG L G + G+
Sbjct: 127 --SVLTKGNKEMK-LSDGSYFGE 146
>pdb|3BEH|A Chain A, Structure Of A Bacterial Cyclic Nucleotide Regulated Ion
Channel
pdb|3BEH|B Chain B, Structure Of A Bacterial Cyclic Nucleotide Regulated Ion
Channel
pdb|3BEH|C Chain C, Structure Of A Bacterial Cyclic Nucleotide Regulated Ion
Channel
pdb|3BEH|D Chain D, Structure Of A Bacterial Cyclic Nucleotide Regulated Ion
Channel
pdb|2ZD9|A Chain A, Structure Of A Bacterial Cyclic-Nucleotide Regulated Ion
Channel
pdb|2ZD9|B Chain B, Structure Of A Bacterial Cyclic-Nucleotide Regulated Ion
Channel
pdb|2ZD9|C Chain C, Structure Of A Bacterial Cyclic-Nucleotide Regulated Ion
Channel
pdb|2ZD9|D Chain D, Structure Of A Bacterial Cyclic-Nucleotide Regulated Ion
Channel
Length = 355
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 48/160 (30%), Positives = 66/160 (41%), Gaps = 28/160 (17%)
Query: 448 WIEDLPQGLRRDIKRYLCL---DLVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIRE 504
W L G ++++R + LV VPLF L VL I ++A I R
Sbjct: 206 WAGILATGFYQEVRRGDFVRNWQLVAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRI 265
Query: 505 GNPVSRMVFLVRGRIKRSQSLSKGKLATSVLGPGGFLGD-ELLSWCLRRPFKDRLPASPA 563
G P RM F+V G S+S LGPG F G+ L+S R A
Sbjct: 266 GEPGDRMFFVVEG------SVSVATPNPVELGPGAFFGEMALISGEPRS----------A 309
Query: 564 TFTCMESVEAYGLNASDLRY-------IADHFRYKLADER 596
T + +V L+++D + IA+ FR K A ER
Sbjct: 310 TVSAATTVSLLSLHSADFQMLCSSSPEIAEIFR-KTALER 348
>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 = 42.7 bits (99), Expect = 7e-04, Method: Composition-based stats.
Identities = 32/143 (22%), Positives = 62/143 (43%), Gaps = 4/143 (2%)
Query: 401 ARRKKIQLRSRDMEWWMRRRQLTSGLKWRVRHFERQRWATMGEDELDWIEDLPQGLRRDI 460
+ R++ Q + + +E + +L + + ++ + R+ DE + +L LR +I
Sbjct: 6 SSRRQYQEKYKQVEQYXSFHKLPADFRQKIHDYYEHRYQGKXFDEDSILGELNGPLREEI 65
Query: 461 KRYLCLDLVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIK 520
+ C LV PLF D + ++K ++ + IIREG + F+ G +
Sbjct: 66 VNFNCRKLVASXPLFANADPNFVTAXLTKLKFEVFQPGDYIIREGTIGKKXYFIQHGVV- 124
Query: 521 RSQSLSKGKLATSVLGPGGFLGD 543
L+KG L G + G+
Sbjct: 125 --SVLTKGNKEXK-LSDGSYFGE 144
>pdb|3CLP|A Chain A, M. Loti Cyclic-Nucleotide Binding Domain Mutant 2
pdb|3CLP|C Chain C, M. Loti Cyclic-Nucleotide Binding Domain Mutant 2
Length = 140
Score = 40.4 bits (93), Expect = 0.004, Method: Composition-based stats.
Identities = 43/138 (31%), Positives = 56/138 (40%), Gaps = 27/138 (19%)
Query: 468 LVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIKRSQSLSK 527
LV VPLF L VL I ++A I R G P RM F+V G S+S
Sbjct: 14 LVAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEG------SVSV 67
Query: 528 GKLATSVLGPGGFLGDELLSWCLRRPFKDRLPASP--ATFTCMESVEAYGLNASDLRY-- 583
LGPG F G+ L + P AT + +V L+++D +
Sbjct: 68 ATPNPVELGPGAFFGEMAL-----------ISGEPESATVSAATTVSLLSLHSADFQMLC 116
Query: 584 -----IADHFRYKLADER 596
IA+ FR K A ER
Sbjct: 117 SSSPEIAEIFR-KTALER 133
>pdb|2K0G|A Chain A, Solution Structure Of A Bacterial Cyclic Nucleotide-
Activated K+ Channel Binding Domain In Complex With Camp
pdb|2KXL|A Chain A, Solution Structure Of A Bacterial Cyclic
Nucleotide-Activated K+ Channel Binding Domain In The
Unliganded State
Length = 142
Score = 40.0 bits (92), Expect = 0.004, Method: Composition-based stats.
Identities = 43/138 (31%), Positives = 56/138 (40%), Gaps = 27/138 (19%)
Query: 468 LVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIKRSQSLSK 527
LV VPLF L VL I ++A I R G P RM F+V G S+S
Sbjct: 16 LVAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEG------SVSV 69
Query: 528 GKLATSVLGPGGFLGDELLSWCLRRPFKDRLPASP--ATFTCMESVEAYGLNASDLRY-- 583
LGPG F G+ L + P AT + +V L+++D +
Sbjct: 70 ATPNPVELGPGAFFGEMAL-----------ISGEPRSATVSAATTVSLLSLHSADFQMLC 118
Query: 584 -----IADHFRYKLADER 596
IA+ FR K A ER
Sbjct: 119 SSSPEIAEIFR-KTALER 135
>pdb|3CL1|A Chain A, M. Loti Cyclic-Nucleotide Binding Domain, Cyclic-Gmp Bound
pdb|3CL1|B Chain B, M. Loti Cyclic-Nucleotide Binding Domain, Cyclic-Gmp Bound
Length = 140
Score = 40.0 bits (92), Expect = 0.004, Method: Composition-based stats.
Identities = 43/138 (31%), Positives = 56/138 (40%), Gaps = 27/138 (19%)
Query: 468 LVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIKRSQSLSK 527
LV VPLF L VL I ++A I R G P RM F+V G S+S
Sbjct: 14 LVAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEG------SVSV 67
Query: 528 GKLATSVLGPGGFLGDELLSWCLRRPFKDRLPASP--ATFTCMESVEAYGLNASDLRY-- 583
LGPG F G+ L + P AT + +V L+++D +
Sbjct: 68 ATPNPVELGPGAFFGEMAL-----------ISGEPRSATVSAATTVSLLSLHSADFQMLC 116
Query: 584 -----IADHFRYKLADER 596
IA+ FR K A ER
Sbjct: 117 SSSPEIAEIFR-KTALER 133
>pdb|1VP6|A Chain A, M.Loti Ion Channel Cylic Nucleotide Binding Domain
pdb|1VP6|C Chain C, M.Loti Ion Channel Cylic Nucleotide Binding Domain
Length = 138
Score = 40.0 bits (92), Expect = 0.004, Method: Composition-based stats.
Identities = 43/138 (31%), Positives = 56/138 (40%), Gaps = 27/138 (19%)
Query: 468 LVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIKRSQSLSK 527
LV VPLF L VL I ++A I R G P RM F+V G S+S
Sbjct: 12 LVAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEG------SVSV 65
Query: 528 GKLATSVLGPGGFLGDELLSWCLRRPFKDRLPASP--ATFTCMESVEAYGLNASDLRY-- 583
LGPG F G+ L + P AT + +V L+++D +
Sbjct: 66 ATPNPVELGPGAFFGEMAL-----------ISGEPRSATVSAATTVSLLSLHSADFQMLC 114
Query: 584 -----IADHFRYKLADER 596
IA+ FR K A ER
Sbjct: 115 SSSPEIAEIFR-KTALER 131
>pdb|3CO2|A Chain A, Mlotik1 Ion Channel Cyclic-Nucleotide Binding Domain
Mutant
pdb|3CO2|B Chain B, Mlotik1 Ion Channel Cyclic-Nucleotide Binding Domain
Mutant
pdb|3CO2|C Chain C, Mlotik1 Ion Channel Cyclic-Nucleotide Binding Domain
Mutant
pdb|3CO2|D Chain D, Mlotik1 Ion Channel Cyclic-Nucleotide Binding Domain
Mutant
Length = 140
Score = 39.7 bits (91), Expect = 0.006, Method: Composition-based stats.
Identities = 43/138 (31%), Positives = 56/138 (40%), Gaps = 27/138 (19%)
Query: 468 LVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIKRSQSLSK 527
LV VPLF L VL I ++A I R G P RM F+V G S+S
Sbjct: 14 LVAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEG------SVSV 67
Query: 528 GKLATSVLGPGGFLGDELLSWCLRRPFKDRLPASP--ATFTCMESVEAYGLNASDLRY-- 583
LGPG F G+ L + P AT + +V L+++D +
Sbjct: 68 ATPNPVELGPGAFFGEMAL-----------ISGEPWSATVSAATTVSLLSLHSADFQMLC 116
Query: 584 -----IADHFRYKLADER 596
IA+ FR K A ER
Sbjct: 117 SSSPEIAEIFR-KTALER 133
>pdb|1U12|A Chain A, M. Loti Cyclic Nucleotide Binding Domain Mutant
pdb|1U12|B Chain B, M. Loti Cyclic Nucleotide Binding Domain Mutant
Length = 138
Score = 39.3 bits (90), Expect = 0.007, Method: Composition-based stats.
Identities = 29/79 (36%), Positives = 34/79 (43%), Gaps = 6/79 (7%)
Query: 468 LVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIKRSQSLSK 527
LV VPLF L VL I ++A I R G P RM F+V G S+S
Sbjct: 12 LVAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEG------SVSV 65
Query: 528 GKLATSVLGPGGFLGDELL 546
LGPG F G+ L
Sbjct: 66 ATPNPVELGPGAFFGEMAL 84
>pdb|3R6S|A Chain A, Crystal Structure Of Glxr Transcription Factor From
Corynebacterium Glutamicum With Camp
pdb|3R6S|B Chain B, Crystal Structure Of Glxr Transcription Factor From
Corynebacterium Glutamicum With Camp
pdb|3R6S|C Chain C, Crystal Structure Of Glxr Transcription Factor From
Corynebacterium Glutamicum With Camp
pdb|3R6S|D Chain D, Crystal Structure Of Glxr Transcription Factor From
Corynebacterium Glutamicum With Camp
pdb|3R6S|E Chain E, Crystal Structure Of Glxr Transcription Factor From
Corynebacterium Glutamicum With Camp
pdb|3R6S|F Chain F, Crystal Structure Of Glxr Transcription Factor From
Corynebacterium Glutamicum With Camp
Length = 247
Score = 38.9 bits (89), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 26/123 (21%), Positives = 58/123 (47%), Gaps = 11/123 (8%)
Query: 467 DLVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIKRSQSLS 526
+++ + +F +D ++N+ ++ + + + I EG P R+ + G++K ++
Sbjct: 26 EILSRAGIFQGVDPTAVNNLIQDMETVRFPRGATIFDEGEPGDRLYIITSGKVKLARHAP 85
Query: 527 KGKLA-TSVLGPGGFLGDELLSWCLRRPFKDRLPASPATFTCMESVEAYGLNASDLR-YI 584
G+ +++GP G+ LS P ++ C+ V A +N+ LR ++
Sbjct: 86 DGRENLLTIMGPSDMFGE--LSIFDPGP-------RTSSAVCVTEVHAATMNSDMLRNWV 136
Query: 585 ADH 587
ADH
Sbjct: 137 ADH 139
>pdb|3SHR|A Chain A, Crystal Structure Of Cgmp-Dependent Protein Kinase Reveals
Novel Site Of Interchain Communication
pdb|3SHR|B Chain B, Crystal Structure Of Cgmp-Dependent Protein Kinase Reveals
Novel Site Of Interchain Communication
Length = 299
Score = 37.4 bits (85), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 42/89 (47%), Gaps = 2/89 (2%)
Query: 460 IKRYLCLDLVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRI 519
IK ++ +K VP F L + +L + D ++ Y E IIR+G + +G++
Sbjct: 150 IKHTEYMEFLKSVPTFQSLPEEILSKLADVLEETHYENGEYIIRQGARGDTFFIISKGKV 209
Query: 520 K--RSQSLSKGKLATSVLGPGGFLGDELL 546
R S ++ + LG G + G++ L
Sbjct: 210 NVTREDSPNEDPVFLRTLGKGDWFGEKAL 238
Score = 29.6 bits (65), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 47/103 (45%), Gaps = 9/103 (8%)
Query: 454 QGLRRDIKRYLCLDLVKKVPL----FHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVS 509
Q R+ K DL+K+ L L+ + I D + + Y KD II+EG+ S
Sbjct: 22 QAFRKFTKSERSKDLIKEAILDNDFMKNLELSQIQEIVDCMYPVEYGKDSCIIKEGDVGS 81
Query: 510 RMVFLVRGRIKRSQSLSKGKLATSVLGPGGFLGD-ELLSWCLR 551
+ + G+++ ++K + +GPG G+ +L C R
Sbjct: 82 LVYVMEDGKVE----VTKEGVKLCTMGPGKVFGELAILYNCTR 120
>pdb|2PQQ|A Chain A, Structural Genomics, The Crystal Structure Of The
N-Terminal Domain Of A Transcriptional Regulator From
Streptomyces Coelicolor A3(2)
pdb|2PQQ|B Chain B, Structural Genomics, The Crystal Structure Of The
N-Terminal Domain Of A Transcriptional Regulator From
Streptomyces Coelicolor A3(2)
pdb|2PQQ|C Chain C, Structural Genomics, The Crystal Structure Of The
N-Terminal Domain Of A Transcriptional Regulator From
Streptomyces Coelicolor A3(2)
pdb|2PQQ|D Chain D, Structural Genomics, The Crystal Structure Of The
N-Terminal Domain Of A Transcriptional Regulator From
Streptomyces Coelicolor A3(2)
Length = 149
Score = 36.2 bits (82), Expect = 0.053, Method: Composition-based stats.
Identities = 18/78 (23%), Positives = 40/78 (51%), Gaps = 1/78 (1%)
Query: 467 DLVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIKRSQSLS 526
D++++ PLF LDD + + ++ + + EG+P R+ + G++K ++
Sbjct: 5 DVLRRNPLFAALDDEQSAELRASXSEVTLARGDTLFHEGDPGDRLYVVTEGKVKLHRTSP 64
Query: 527 KGKL-ATSVLGPGGFLGD 543
G+ +V+GP +G+
Sbjct: 65 DGRENXLAVVGPSELIGE 82
>pdb|1ZYB|A Chain A, Crystal Structure Of Transcription Regulator From
Bacteroides Thetaiotaomicron Vpi-5482 At 2.15 A
Resolution
Length = 232
Score = 35.0 bits (79), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 32/56 (57%), Gaps = 2/56 (3%)
Query: 466 LDLVKKVPLFHCLDDLVLDNICDRVKA--LIYSKDEKIIREGNPVSRMVFLVRGRI 519
D + ++PLF L +I D+VK + + E II+ GNP +++ FL++G I
Sbjct: 17 FDTLLQLPLFQGLCHEDFTSILDKVKLHFIKHKAGETIIKSGNPCTQLCFLLKGEI 72
>pdb|1NE4|A Chain A, Crystal Structure Of Rp-Camp Binding R1a Subunit Of Camp-
Dependent Protein Kinase
pdb|1NE6|A Chain A, Crystal Structure Of Sp-Camp Binding R1a Subunit Of Camp-
Dependent Protein Kinase
Length = 283
Score = 32.7 bits (73), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 42/95 (44%), Gaps = 4/95 (4%)
Query: 461 KRYLCLDLVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIK 520
KR + + + KV + LD + D ++ + + +KI+ +G P ++ G
Sbjct: 147 KRKMYEEFLSKVSILESLDKWERLTVADALEPVQFEDGQKIVVQGEPGDEFFIILEGSAA 206
Query: 521 RSQSLSKGKLATSV--LGPGGFLGDELLSWCLRRP 553
Q S+ + V LGP + G+ ++ + RP
Sbjct: 207 VLQRRSENEEFVEVGRLGPSDYFGE--IALLMNRP 239
>pdb|1RL3|A Chain A, Crystal Structure Of Camp-free R1a Subunit Of Pka
pdb|1RL3|B Chain B, Crystal Structure Of Camp-free R1a Subunit Of Pka
pdb|1RGS|A Chain A, Regulatory Subunit Of Camp Dependent Protein Kinase
Length = 288
Score = 32.3 bits (72), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 42/95 (44%), Gaps = 4/95 (4%)
Query: 461 KRYLCLDLVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIK 520
KR + + + KV + LD + D ++ + + +KI+ +G P ++ G
Sbjct: 149 KRKMYEEFLSKVSILESLDKWERLTVADALEPVQFEDGQKIVVQGEPGDEFFIILEGSAA 208
Query: 521 RSQSLSKGKLATSV--LGPGGFLGDELLSWCLRRP 553
Q S+ + V LGP + G+ ++ + RP
Sbjct: 209 VLQRRSENEEFVEVGRLGPSDYFGE--IALLMNRP 241
>pdb|2QCS|B Chain B, A Complex Structure Between The Catalytic And Regulatory
Subunit Of Protein Kinase A That Represents The
Inhibited State
Length = 291
Score = 32.3 bits (72), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 42/95 (44%), Gaps = 4/95 (4%)
Query: 461 KRYLCLDLVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIK 520
KR + + + KV + LD + D ++ + + +KI+ +G P ++ G
Sbjct: 151 KRKMYEEFLSKVSILESLDKWERLTVADALEPVQFEDGQKIVVQGEPGDEFFIILEGSAA 210
Query: 521 RSQSLSKGKLATSV--LGPGGFLGDELLSWCLRRP 553
Q S+ + V LGP + G+ ++ + RP
Sbjct: 211 VLQRRSENEEFVEVGRLGPSDYFGE--IALLMNRP 243
>pdb|4DIN|B Chain B, Novel Localization And Quaternary Structure Of The Pka Ri
Beta Holoenzyme
Length = 381
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 22/95 (23%), Positives = 40/95 (42%), Gaps = 4/95 (4%)
Query: 461 KRYLCLDLVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIK 520
KR + + + KV + L+ + D ++ + + EKI+ +G P + G
Sbjct: 242 KRKMYEEFLSKVSILESLEKWERLTVADALEPVQFEDGEKIVVQGEPGDDFYIITEGTAS 301
Query: 521 RSQSLSKGKLATSV--LGPGGFLGDELLSWCLRRP 553
Q S + V LGP + G+ ++ L RP
Sbjct: 302 VLQRRSPNEEYVEVGRLGPSDYFGE--IALLLNRP 334
>pdb|3OF1|A Chain A, Crystal Structure Of Bcy1, The Yeast Regulatory Subunit Of
Pka
Length = 246
Score = 30.8 bits (68), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 36/83 (43%), Gaps = 3/83 (3%)
Query: 461 KRYLCLDLVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIK 520
KR + DL+K +P+ L + D + IY E IIREG+ + G +
Sbjct: 119 KRLMYDDLLKSMPVLKSLTTYDRAKLADALDTKIYQPGETIIREGDQGENFYLIEYGAVD 178
Query: 521 RSQSLSKGKLATSVLGPGGFLGD 543
S+ KG+ + L + G+
Sbjct: 179 VSK---KGQGVINKLKDHDYFGE 198
>pdb|3GYD|A Chain A, Crystal Structure Of A Cyclic Nucleotide-Binding Domain
(Mfla_1926) From Methylobacillus Flagellatus Kt At 1.79
A Resolution
pdb|3GYD|B Chain B, Crystal Structure Of A Cyclic Nucleotide-Binding Domain
(Mfla_1926) From Methylobacillus Flagellatus Kt At 1.79
A Resolution
Length = 187
Score = 30.4 bits (67), Expect = 3.4, Method: Composition-based stats.
Identities = 16/79 (20%), Positives = 40/79 (50%), Gaps = 1/79 (1%)
Query: 466 LDLVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIKRSQSL 525
L++V K+ LF + + +C + +D +++ EG+P ++ ++ G + + +
Sbjct: 38 LEIVNKIKLFGDFSNEEVRYLCSYXQCYAAPRDCQLLTEGDPGDYLLLILTGEVNVIKDI 97
Query: 526 -SKGKLATSVLGPGGFLGD 543
+KG + +G G +G+
Sbjct: 98 PNKGIQTIAKVGAGAIIGE 116
>pdb|3I54|A Chain A, Crystal Structure Of Mtbcrp In Complex With Camp
pdb|3I54|B Chain B, Crystal Structure Of Mtbcrp In Complex With Camp
pdb|3I54|C Chain C, Crystal Structure Of Mtbcrp In Complex With Camp
pdb|3I54|D Chain D, Crystal Structure Of Mtbcrp In Complex With Camp
pdb|3I59|B Chain B, Crystal Structure Of Mtbcrp In Complex With N6-Camp
Length = 249
Score = 28.9 bits (63), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 11/78 (14%), Positives = 38/78 (48%), Gaps = 1/78 (1%)
Query: 467 DLVKKVPLFHCLDDLVLDNICDRVKALIYSKDEKIIREGNPVSRMVFLVRGRIKRSQSLS 526
+++ + +F ++ + + +++ + + + + EG P R+ ++ G++K +
Sbjct: 28 EILARAGIFQGVEPSAIAALTKQLQPVDFPRGHTVFAEGEPGDRLYIIISGKVKIGRRAP 87
Query: 527 KGKLA-TSVLGPGGFLGD 543
G+ +++GP G+
Sbjct: 88 DGRENLLTIMGPSDMFGE 105
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
0.328 0.142 0.457
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,457,564
Number of Sequences: 62578
Number of extensions: 774977
Number of successful extensions: 1730
Number of sequences better than 100.0: 38
Number of HSP's better than 100.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 1702
Number of HSP's gapped (non-prelim): 40
length of query: 667
length of database: 14,973,337
effective HSP length: 105
effective length of query: 562
effective length of database: 8,402,647
effective search space: 4722287614
effective search space used: 4722287614
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 55 (25.8 bits)