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= 009210
(540 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 52.0 bits (123), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 29/105 (27%), Positives = 52/105 (49%), Gaps = 1/105 (0%)
Query: 421 ATTSKKQAMQLKMRNIEWWMRKRQLPQGFRQRVRNYERQRWAAMRGVDECEMISNLPEGL 480
A S ++ Q K + +E +M +LP FRQ++ +Y R+ + DE ++ L L
Sbjct: 3 AMDSSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQG-KMFDEDSILGELNGPL 61
Query: 481 RRDIKYHLCLDLVRQVPLFQHMDDLVLENICDRVKSLIFTKGEVV 525
R +I C LV +PLF + D + + ++K +F G+ +
Sbjct: 62 REEIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYI 106
>pdb|3FFQ|A Chain A, Hcn2i 443-640 Apo-State
pdb|3FFQ|B Chain B, Hcn2i 443-640 Apo-State
Length = 202
Score = 52.0 bits (123), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 29/105 (27%), Positives = 52/105 (49%), Gaps = 1/105 (0%)
Query: 421 ATTSKKQAMQLKMRNIEWWMRKRQLPQGFRQRVRNYERQRWAAMRGVDECEMISNLPEGL 480
A S ++ Q K + +E +M +LP FRQ++ +Y R+ + DE ++ L L
Sbjct: 3 AMDSSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQG-KMFDEDSILGELNGPL 61
Query: 481 RRDIKYHLCLDLVRQVPLFQHMDDLVLENICDRVKSLIFTKGEVV 525
R +I C LV +PLF + D + + ++K +F G+ +
Sbjct: 62 REEIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYI 106
>pdb|3OTF|A Chain A, Structural Basis For The Camp-Dependent Gating In Human
Hcn4 Channel
Length = 220
Score = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 53/104 (50%), Gaps = 1/104 (0%)
Query: 422 TTSKKQAMQLKMRNIEWWMRKRQLPQGFRQRVRNYERQRWAAMRGVDECEMISNLPEGLR 481
+ S ++ Q K + +E +M +LP RQR+ +Y R+ + DE ++ L E LR
Sbjct: 1 SDSSRRQYQEKYKQVEQYMSFHKLPPDTRQRIHDYYEHRYQG-KMFDEESILGELSEPLR 59
Query: 482 RDIKYHLCLDLVRQVPLFQHMDDLVLENICDRVKSLIFTKGEVV 525
+I C LV +PLF + D + ++ +++ +F G+ +
Sbjct: 60 EEIINFNCRKLVASMPLFANADPNFVTSMLTKLRFEVFQPGDYI 103
>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 = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/105 (26%), Positives = 52/105 (49%), Gaps = 1/105 (0%)
Query: 421 ATTSKKQAMQLKMRNIEWWMRKRQLPQGFRQRVRNYERQRWAAMRGVDECEMISNLPEGL 480
+ S ++ Q K + +E +M +LP FRQ++ +Y R+ + DE ++ L L
Sbjct: 1 GSDSSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQG-KMFDEDSILGELNGPL 59
Query: 481 RRDIKYHLCLDLVRQVPLFQHMDDLVLENICDRVKSLIFTKGEVV 525
R +I C LV +PLF + D + + ++K +F G+ +
Sbjct: 60 REEIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYI 104
>pdb|4HBN|A Chain A, Crystal Structure Of The Human Hcn4 Channel C-terminus
Carrying The S672r Mutation
Length = 205
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 53/104 (50%), Gaps = 1/104 (0%)
Query: 422 TTSKKQAMQLKMRNIEWWMRKRQLPQGFRQRVRNYERQRWAAMRGVDECEMISNLPEGLR 481
+ S ++ Q K + +E +M +LP RQR+ +Y R+ + DE ++ L E LR
Sbjct: 1 SDSSRRQYQEKYKQVEQYMSFHKLPPDTRQRIHDYYEHRYQG-KMFDEESILGELSEPLR 59
Query: 482 RDIKYHLCLDLVRQVPLFQHMDDLVLENICDRVKSLIFTKGEVV 525
+I C LV +PLF + D + ++ +++ +F G+ +
Sbjct: 60 EEIINFNCRKLVASMPLFANADPNFVTSMLTKLRFEVFQPGDYI 103
>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 = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 29/105 (27%), Positives = 51/105 (48%), Gaps = 1/105 (0%)
Query: 421 ATTSKKQAMQLKMRNIEWWMRKRQLPQGFRQRVRNYERQRWAAMRGVDECEMISNLPEGL 480
A S ++ Q K + +E +M +LP FRQ++ +Y R+ + DE ++ L L
Sbjct: 3 AMDSSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQG-KMFDEDSILGELNGPL 61
Query: 481 RRDIKYHLCLDLVRQVPLFQHMDDLVLENICDRVKSLIFTKGEVV 525
R I C LV +PLF + D + + ++K +F G+ +
Sbjct: 62 REKIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYI 106
>pdb|3U10|A Chain A, 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 = 28/102 (27%), Positives = 51/102 (50%), Gaps = 1/102 (0%)
Query: 424 SKKQAMQLKMRNIEWWMRKRQLPQGFRQRVRNYERQRWAAMRGVDECEMISNLPEGLRRD 483
S ++ Q K + +E +M +LP FRQ++ +Y R+ + DE ++ L LR +
Sbjct: 9 SSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQG-KMFDEDSILGELNGPLREE 67
Query: 484 IKYHLCLDLVRQVPLFQHMDDLVLENICDRVKSLIFTKGEVV 525
I C LV +PLF + D + + ++K +F G+ +
Sbjct: 68 IVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYI 109
>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 = 49.3 bits (116), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 27/102 (26%), Positives = 52/102 (50%), Gaps = 1/102 (0%)
Query: 424 SKKQAMQLKMRNIEWWMRKRQLPQGFRQRVRNYERQRWAAMRGVDECEMISNLPEGLRRD 483
S ++ Q K + +E +M +LP RQ++ +Y R+ + DE ++S L + LR +
Sbjct: 9 SSRRQYQEKYKQVEQYMSFHKLPADMRQKIHDYYEHRYQG-KIFDEENILSELNDPLREE 67
Query: 484 IKYHLCLDLVRQVPLFQHMDDLVLENICDRVKSLIFTKGEVV 525
I C LV +PLF + D + + +++ +F G+ +
Sbjct: 68 IVNFNCRKLVATMPLFANADPNFVTAMLSKLRFEVFQPGDYI 109
>pdb|2PTM|A Chain A, Structure And Rearrangements In The Carboxy-Terminal
Region Of Spih Channels
Length = 198
Score = 49.3 bits (116), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 28/98 (28%), Positives = 49/98 (50%), Gaps = 5/98 (5%)
Query: 421 ATTSKKQAMQLKMRNIEWWMRKRQLPQGFRQRVRNYERQRWAAMRGVDECEMISNLPEGL 480
A S + + K++ +E +M+ R+LP R ++ +Y R+ + DE + + E +
Sbjct: 2 AMDSSSRQYREKLKQVEEYMQYRKLPSHLRNKILDYYEYRYRG-KMFDERHIFREVSESI 60
Query: 481 RRDIKYHLCLDLVRQVPLFQHMDDLVLENICDRVKSLI 518
R+D+ + C DLV VP F D N RV +L+
Sbjct: 61 RQDVANYNCRDLVASVPFFVGAD----SNFVTRVVTLL 94
>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 = 48.9 bits (115), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 28/105 (26%), Positives = 49/105 (46%), Gaps = 1/105 (0%)
Query: 421 ATTSKKQAMQLKMRNIEWWMRKRQLPQGFRQRVRNYERQRWAAMRGVDECEMISNLPEGL 480
A S ++ Q K + +E + +LP FRQ++ +Y R+ + DE ++ L L
Sbjct: 3 AMDSSRRQYQEKYKQVEQYXSFHKLPADFRQKIHDYYEHRYQG-KXFDEDSILGELNGPL 61
Query: 481 RRDIKYHLCLDLVRQVPLFQHMDDLVLENICDRVKSLIFTKGEVV 525
R +I C LV PLF + D + ++K +F G+ +
Sbjct: 62 REEIVNFNCRKLVASXPLFANADPNFVTAXLTKLKFEVFQPGDYI 106
>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 = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 53/100 (53%), Gaps = 1/100 (1%)
Query: 424 SKKQAMQLKMRNIEWWMRKRQLPQGFRQRVRNYERQRWAAMRGVDECEMISNLPEGLRRD 483
S++ + ++++ ++R +LP+ QR+ + W+ G+D E++ + P+ LR D
Sbjct: 9 SRRSLYHTRTKDLKDFIRVHRLPKALAQRMLECFQTTWSVNNGIDVSELLKDFPDELRAD 68
Query: 484 IKYHLCLDLVRQVPLFQHMDDLVLENICDRVKSLIFTKGE 523
I HL +L+ Q+PLF+ L ++ +K+ GE
Sbjct: 69 IAMHLNKELL-QLPLFESASRGCLRSLSLIIKTSFCAPGE 107
>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 = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 51/105 (48%), Gaps = 1/105 (0%)
Query: 421 ATTSKKQAMQLKMRNIEWWMRKRQLPQGFRQRVRNYERQRWAAMRGVDECEMISNLPEGL 480
+ S ++ Q K + +E +M +LP FRQ++ +Y R+ + DE ++ L L
Sbjct: 5 GSDSSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQG-KMFDEDSILGELNGPL 63
Query: 481 RRDIKYHLCLDLVRQVPLFQHMDDLVLENICDRVKSLIFTKGEVV 525
R +I LV +PLF + D + + ++K +F G+ +
Sbjct: 64 REEIVNFNNRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYI 108
>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 = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/102 (26%), Positives = 51/102 (50%), Gaps = 1/102 (0%)
Query: 424 SKKQAMQLKMRNIEWWMRKRQLPQGFRQRVRNYERQRWAAMRGVDECEMISNLPEGLRRD 483
S ++ Q K + +E +M +LP RQR+ +Y R+ + DE ++ L E LR +
Sbjct: 9 SSRRQYQEKYKQVEQYMSFHKLPPDTRQRIHDYYEHRYQG-KMFDEESILGELSEPLREE 67
Query: 484 IKYHLCLDLVRQVPLFQHMDDLVLENICDRVKSLIFTKGEVV 525
I LV +PLF + D + ++ +++ +F G+ +
Sbjct: 68 IINFNXRKLVASMPLFANADPNFVTSMLTKLRFEVFQPGDYI 109
>pdb|1WGP|A Chain A, Solution Structure Of The Cnmp-Binding Domain From
Arabidopsis Thaliana Cyclic Nucleotide-Regulated Ion
Channel
Length = 137
Score = 40.4 bits (93), Expect = 0.003, Method: Composition-based stats.
Identities = 18/35 (51%), Positives = 28/35 (80%), Gaps = 1/35 (2%)
Query: 493 VRQVPLFQHMDDLVLENICDRVKSLIFT-KGEVVR 526
VR+VPLF++MD+ +L+ IC+R+K +FT K +VR
Sbjct: 8 VRRVPLFENMDERLLDAICERLKPCLFTEKSYLVR 42
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
0.329 0.139 0.451
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,912,262
Number of Sequences: 62578
Number of extensions: 515559
Number of successful extensions: 1073
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1061
Number of HSP's gapped (non-prelim): 17
length of query: 540
length of database: 14,973,337
effective HSP length: 104
effective length of query: 436
effective length of database: 8,465,225
effective search space: 3690838100
effective search space used: 3690838100
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: 54 (25.4 bits)