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= 008614
(559 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 = 87.0 bits (214), Expect = 3e-17, Method: Composition-based stats.
Identities = 44/119 (36%), Positives = 72/119 (60%), Gaps = 5/119 (4%)
Query: 414 FENWEDYSLDHLCGCLKPVFFSERTTIISEGESIHEMLFVLEGQISIYS----KSKLIGL 469
FEN ++ LD +C LKP F+E++ ++ EG+ ++EMLF++ G++ + +S
Sbjct: 14 FENMDERLLDAICERLKPCLFTEKSYLVREGDPVNEMLFIIRGRLESVTTDGGRSGFYNR 73
Query: 470 KRQEDGNYCGEEIIDWAENQSSSHGHLPISTRTIIAHTNVEGFTLKTDELKHGIALHRR 528
++G++CG+E++ WA + S +LP STRT+ A T VE F L DELK + RR
Sbjct: 74 SLLKEGDFCGDELLTWALDPKSG-SNLPSSTRTVKALTEVEAFALIADELKFVASQFRR 131
>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 = 34.3 bits (77), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 37/152 (24%), Positives = 66/152 (43%), Gaps = 7/152 (4%)
Query: 330 LIGRMQSETTRAHKINQKLRQIKHWKHFKDISTFVRAKIREAKRENLLLKHDIHIDSLVS 389
L+ R + R ++ +K +Q++ + F + R KI + K DS++
Sbjct: 1 LVPRGSDSSRRQYQ--EKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQGKM-FDEDSILG 57
Query: 390 DLPDDTAKQVKLHFGRNLLGQMQKFENWEDYSLDHLCGCLKPVFFSERTTIISEGESIHE 449
+L +++ R L+ M F N + + + LK F II EG +
Sbjct: 58 ELNGPLREEIVNFNNRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKK 117
Query: 450 MLFVLEGQISIYSK-SKLIGLKRQEDGNYCGE 480
M F+ G +S+ +K +K + L DG+Y GE
Sbjct: 118 MYFIQHGVVSVLTKGNKEMKL---SDGSYFGE 146
>pdb|4F8A|A Chain A, Cyclic Nucleotide Binding-Homology Domain From Mouse Eag1
Potassium Channel
Length = 160
Score = 32.7 bits (73), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 30/143 (20%), Positives = 56/143 (39%), Gaps = 10/143 (6%)
Query: 392 PDDTAKQVKLHFGRNLLGQMQKFENWEDYSLDHLCGCLKPVFFSERTTIISEGESIHEML 451
P D + +H R + + F D L L + V + I GES+ +
Sbjct: 13 PKDMRADICVHLNRKVFKEHPAFRLASDGCLRALAMEFQTVHCAPGDLIYHAGESVDSLC 72
Query: 452 FVLEGQISIYSKSKLIGLKRQEDGNYCGEEIIDWAENQSSSHGHLPISTRTIIAHTNVEG 511
FV+ G + + +++ + + G+ G+ + W E L S + A T +
Sbjct: 73 FVVSGSLEVIQDDEVVAILGK--GDVFGD--VFWKE------ATLAQSCANVRALTYCDL 122
Query: 512 FTLKTDELKHGIALHRRFNQSVS 534
+K D L+ + + F+ S S
Sbjct: 123 HVIKRDALQKVLEFYTAFSHSFS 145
>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 = 32.7 bits (73), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 36/146 (24%), Positives = 65/146 (44%), Gaps = 6/146 (4%)
Query: 336 SETTRAHKINQKLRQIKHWKHFKDISTFVRAKIREAKRENLLLKHDIHIDSLVSDLPDDT 395
S+++R + +K +Q++ + F + R KI + K DS++ +L
Sbjct: 2 SDSSR-RQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQGKM-FDEDSILGELNGPL 59
Query: 396 AKQVKLHFGRNLLGQMQKFENWEDYSLDHLCGCLKPVFFSERTTIISEGESIHEMLFVLE 455
+++ R L+ M F N + + + LK F II EG +M F+
Sbjct: 60 REEIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQH 119
Query: 456 GQISIYSK-SKLIGLKRQEDGNYCGE 480
G +S+ +K +K + L DG+Y GE
Sbjct: 120 GVVSVLTKGNKEMKL---SDGSYFGE 142
>pdb|3FFQ|A Chain A, Hcn2i 443-640 Apo-State
pdb|3FFQ|B Chain B, Hcn2i 443-640 Apo-State
Length = 202
Score = 32.0 bits (71), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 34/136 (25%), Positives = 59/136 (43%), Gaps = 5/136 (3%)
Query: 346 QKLRQIKHWKHFKDISTFVRAKIREAKRENLLLKHDIHIDSLVSDLPDDTAKQVKLHFGR 405
+K +Q++ + F + R KI + K DS++ +L +++ R
Sbjct: 13 EKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQGKM-FDEDSILGELNGPLREEIVNFNCR 71
Query: 406 NLLGQMQKFENWEDYSLDHLCGCLKPVFFSERTTIISEGESIHEMLFVLEGQISIYSK-S 464
L+ M F N + + + LK F II EG +M F+ G +S+ +K +
Sbjct: 72 KLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLTKGN 131
Query: 465 KLIGLKRQEDGNYCGE 480
K + L DG+Y GE
Sbjct: 132 KEMKL---SDGSYFGE 144
>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 = 32.0 bits (71), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 34/136 (25%), Positives = 59/136 (43%), Gaps = 5/136 (3%)
Query: 346 QKLRQIKHWKHFKDISTFVRAKIREAKRENLLLKHDIHIDSLVSDLPDDTAKQVKLHFGR 405
+K +Q++ + F + R KI + K DS++ +L +++ R
Sbjct: 13 EKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQGKM-FDEDSILGELNGPLREEIVNFNCR 71
Query: 406 NLLGQMQKFENWEDYSLDHLCGCLKPVFFSERTTIISEGESIHEMLFVLEGQISIYSK-S 464
L+ M F N + + + LK F II EG +M F+ G +S+ +K +
Sbjct: 72 KLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLTKGN 131
Query: 465 KLIGLKRQEDGNYCGE 480
K + L DG+Y GE
Sbjct: 132 KEMKL---SDGSYFGE 144
>pdb|3U10|A Chain A, Tetramerization Dynamics Of The C-Terminus Underlies
Isoform-Specific Camp-Gating In Hcn Channels
Length = 210
Score = 32.0 bits (71), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 34/136 (25%), Positives = 59/136 (43%), Gaps = 5/136 (3%)
Query: 346 QKLRQIKHWKHFKDISTFVRAKIREAKRENLLLKHDIHIDSLVSDLPDDTAKQVKLHFGR 405
+K +Q++ + F + R KI + K DS++ +L +++ R
Sbjct: 16 EKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQGKM-FDEDSILGELNGPLREEIVNFNCR 74
Query: 406 NLLGQMQKFENWEDYSLDHLCGCLKPVFFSERTTIISEGESIHEMLFVLEGQISIYSK-S 464
L+ M F N + + + LK F II EG +M F+ G +S+ +K +
Sbjct: 75 KLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLTKGN 134
Query: 465 KLIGLKRQEDGNYCGE 480
K + L DG+Y GE
Sbjct: 135 KEMKL---SDGSYFGE 147
>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 = 32.0 bits (71), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 34/136 (25%), Positives = 59/136 (43%), Gaps = 5/136 (3%)
Query: 346 QKLRQIKHWKHFKDISTFVRAKIREAKRENLLLKHDIHIDSLVSDLPDDTAKQVKLHFGR 405
+K +Q++ + F + R KI + K DS++ +L +++ R
Sbjct: 13 EKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQGKM-FDEDSILGELNGPLREKIVNFNCR 71
Query: 406 NLLGQMQKFENWEDYSLDHLCGCLKPVFFSERTTIISEGESIHEMLFVLEGQISIYSK-S 464
L+ M F N + + + LK F II EG +M F+ G +S+ +K +
Sbjct: 72 KLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLTKGN 131
Query: 465 KLIGLKRQEDGNYCGE 480
K + L DG+Y GE
Sbjct: 132 KEMKL---SDGSYFGE 144
>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 = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 34/74 (45%), Gaps = 7/74 (9%)
Query: 411 MQKFENWEDYSLDHLCGCLKPVFFSERTTIISEGESIHEMLFVLEGQISIYSK----SKL 466
++ + WE ++ L+PV F + I+ +GE E +LEG ++ + +
Sbjct: 163 LESLDKWERLTV---ADALEPVQFEDGQKIVVQGEPGDEFFIILEGSAAVLQRRSENEEF 219
Query: 467 IGLKRQEDGNYCGE 480
+ + R +Y GE
Sbjct: 220 VEVGRLGPSDYFGE 233
>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 = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 34/74 (45%), Gaps = 7/74 (9%)
Query: 411 MQKFENWEDYSLDHLCGCLKPVFFSERTTIISEGESIHEMLFVLEGQISIYSK----SKL 466
++ + WE ++ L+PV F + I+ +GE E +LEG ++ + +
Sbjct: 165 LESLDKWERLTV---ADALEPVQFEDGQKIVVQGEPGDEFFIILEGSAAVLQRRSENEEF 221
Query: 467 IGLKRQEDGNYCGE 480
+ + R +Y GE
Sbjct: 222 VEVGRLGPSDYFGE 235
>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 = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 34/74 (45%), Gaps = 7/74 (9%)
Query: 411 MQKFENWEDYSLDHLCGCLKPVFFSERTTIISEGESIHEMLFVLEGQISIYSK----SKL 466
++ + WE ++ L+PV F + I+ +GE E +LEG ++ + +
Sbjct: 161 LESLDKWERLTV---ADALEPVQFEDGQKIVVQGEPGDEFFIILEGSAAVLQRRSENEEF 217
Query: 467 IGLKRQEDGNYCGE 480
+ + R +Y GE
Sbjct: 218 VEVGRLGPSDYFGE 231
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.326 0.140 0.433
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,018,892
Number of Sequences: 62578
Number of extensions: 661460
Number of successful extensions: 1926
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1921
Number of HSP's gapped (non-prelim): 12
length of query: 559
length of database: 14,973,337
effective HSP length: 104
effective length of query: 455
effective length of database: 8,465,225
effective search space: 3851677375
effective search space used: 3851677375
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 54 (25.4 bits)