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= 042824
(94 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2PTM|A Chain A, Structure And Rearrangements In The Carboxy-Terminal
Region Of Spih Channels
Length = 198
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 36/71 (50%)
Query: 5 YTEASVLHDIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIM 64
+ E + ++ SIR ++ + V F G S F+ ++VT L E F P + ++
Sbjct: 47 FDERHIFREVSESIRQDVANYNCRDLVASVPFFVGADSNFVTRVVTLLEFEVFQPADYVI 106
Query: 65 EQGNVVDQLYF 75
++G D+++F
Sbjct: 107 QEGTFGDRMFF 117
>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 = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 36/71 (50%)
Query: 5 YTEASVLHDIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIM 64
+ E S+L ++ +R KI + + LF F+ ++T+L E F PG+ I+
Sbjct: 48 FDEDSILGELNGPLREKIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYII 107
Query: 65 EQGNVVDQLYF 75
+G + ++YF
Sbjct: 108 REGTIGKKMYF 118
>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 = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 36/71 (50%)
Query: 5 YTEASVLHDIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIM 64
+ E S+L ++ +R +I + + LF F+ ++T+L E F PG+ I+
Sbjct: 51 FDEESILGELSEPLREEIINFNXRKLVASMPLFANADPNFVTSMLTKLRFEVFQPGDYII 110
Query: 65 EQGNVVDQLYF 75
+G + ++YF
Sbjct: 111 REGTIGKKMYF 121
>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 = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 36/71 (50%)
Query: 5 YTEASVLHDIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIM 64
+ E S+L ++ +R +I + + LF F+ ++T+L E F PG+ I+
Sbjct: 50 FDEDSILGELNGPLREEIVNFNNRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYII 109
Query: 65 EQGNVVDQLYF 75
+G + ++YF
Sbjct: 110 REGTIGKKMYF 120
>pdb|3OTF|A Chain A, Structural Basis For The Camp-Dependent Gating In Human
Hcn4 Channel
Length = 220
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 36/71 (50%)
Query: 5 YTEASVLHDIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIM 64
+ E S+L ++ +R +I + + LF F+ ++T+L E F PG+ I+
Sbjct: 45 FDEESILGELSEPLREEIINFNCRKLVASMPLFANADPNFVTSMLTKLRFEVFQPGDYII 104
Query: 65 EQGNVVDQLYF 75
+G + ++YF
Sbjct: 105 REGTIGKKMYF 115
>pdb|4HBN|A Chain A, Crystal Structure Of The Human Hcn4 Channel C-terminus
Carrying The S672r Mutation
Length = 205
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 36/71 (50%)
Query: 5 YTEASVLHDIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIM 64
+ E S+L ++ +R +I + + LF F+ ++T+L E F PG+ I+
Sbjct: 45 FDEESILGELSEPLREEIINFNCRKLVASMPLFANADPNFVTSMLTKLRFEVFQPGDYII 104
Query: 65 EQGNVVDQLYF 75
+G + ++YF
Sbjct: 105 REGTIGKKMYF 115
>pdb|3U10|A Chain A, Tetramerization Dynamics Of The C-Terminus Underlies
Isoform-Specific Camp-Gating In Hcn Channels
Length = 210
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 36/71 (50%)
Query: 5 YTEASVLHDIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIM 64
+ E S+L ++ +R +I + + LF F+ ++T+L E F PG+ I+
Sbjct: 51 FDEDSILGELNGPLREEIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYII 110
Query: 65 EQGNVVDQLYF 75
+G + ++YF
Sbjct: 111 REGTIGKKMYF 121
>pdb|3FFQ|A Chain A, Hcn2i 443-640 Apo-State
pdb|3FFQ|B Chain B, Hcn2i 443-640 Apo-State
Length = 202
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 36/71 (50%)
Query: 5 YTEASVLHDIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIM 64
+ E S+L ++ +R +I + + LF F+ ++T+L E F PG+ I+
Sbjct: 48 FDEDSILGELNGPLREEIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYII 107
Query: 65 EQGNVVDQLYF 75
+G + ++YF
Sbjct: 108 REGTIGKKMYF 118
>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 = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 36/71 (50%)
Query: 5 YTEASVLHDIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIM 64
+ E S+L ++ +R +I + + LF F+ ++T+L E F PG+ I+
Sbjct: 46 FDEDSILGELNGPLREEIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYII 105
Query: 65 EQGNVVDQLYF 75
+G + ++YF
Sbjct: 106 REGTIGKKMYF 116
>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 = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 36/71 (50%)
Query: 5 YTEASVLHDIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIM 64
+ E S+L ++ +R +I + + LF F+ ++T+L E F PG+ I+
Sbjct: 48 FDEDSILGELNGPLREEIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYII 107
Query: 65 EQGNVVDQLYF 75
+G + ++YF
Sbjct: 108 REGTIGKKMYF 118
>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 = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 17/71 (23%), Positives = 36/71 (50%)
Query: 5 YTEASVLHDIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIM 64
+ E ++L ++ +R +I + + LF F+ ++++L E F PG+ I+
Sbjct: 51 FDEENILSELNDPLREEIVNFNCRKLVATMPLFANADPNFVTAMLSKLRFEVFQPGDYII 110
Query: 65 EQGNVVDQLYF 75
+G V ++YF
Sbjct: 111 REGAVGKKMYF 121
>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 = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 33/71 (46%)
Query: 5 YTEASVLHDIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIM 64
+ E S+L ++ +R +I + LF F+ +T+L E F PG+ I+
Sbjct: 48 FDEDSILGELNGPLREEIVNFNCRKLVASXPLFANADPNFVTAXLTKLKFEVFQPGDYII 107
Query: 65 EQGNVVDQLYF 75
+G + + YF
Sbjct: 108 REGTIGKKXYF 118
>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 = 34.7 bits (78), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 34/68 (50%), Gaps = 1/68 (1%)
Query: 8 ASVLHDIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIMEQG 67
+ +L D P +RA I+ L ++ + LF+ S + + + F PGE ++ QG
Sbjct: 55 SELLKDFPDELRADIAMHLNKELLQ-LPLFESASRGCLRSLSLIIKTSFCAPGEFLIRQG 113
Query: 68 NVVDQLYF 75
+ + +YF
Sbjct: 114 DALQAIYF 121
>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 = 31.6 bits (70), Expect = 0.12, Method: Composition-based stats.
Identities = 15/53 (28%), Positives = 26/53 (49%)
Query: 22 ISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQLY 74
I T YM +++ V F+ E ++++ L E + GE I+ QG D +
Sbjct: 150 IKHTEYMEFLKSVPTFQSLPEEILSKLADVLEETHYENGEYIIRQGARGDTFF 202
>pdb|3IDC|B Chain B, Crystal Structure Of (102-265)riib:c Holoenzyme Of Camp-
Dependent Protein Kinase
Length = 164
Score = 29.3 bits (64), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 16/73 (21%), Positives = 34/73 (46%), Gaps = 5/73 (6%)
Query: 2 ESSYTEASVLHDIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGE 61
E E+ ++H R ++ + + + LFK E ++Q++ + E+ GE
Sbjct: 22 EEDDAESRIIHPKTDDQRNRLQEAC-----KDILLFKNLDPEQMSQVLDAMFEKLVKEGE 76
Query: 62 VIMEQGNVVDQLY 74
+++QG+ D Y
Sbjct: 77 HVIDQGDDGDNFY 89
>pdb|3IDB|B Chain B, Crystal Structure Of (108-268)riib:c Holoenzyme Of Camp-
Dependent Protein Kinase
Length = 161
Score = 29.3 bits (64), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 16/73 (21%), Positives = 34/73 (46%), Gaps = 5/73 (6%)
Query: 2 ESSYTEASVLHDIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGE 61
E E+ ++H R ++ + + + LFK E ++Q++ + E+ GE
Sbjct: 16 EEDDAESRIIHPKTDDQRNRLQEAC-----KDILLFKNLDPEQMSQVLDAMFEKLVKEGE 70
Query: 62 VIMEQGNVVDQLY 74
+++QG+ D Y
Sbjct: 71 HVIDQGDDGDNFY 83
>pdb|2QVS|B Chain B, Crystal Structure Of Type Iia Holoenzyme Of Camp-Dependent
Protein Kinase
Length = 310
Score = 29.3 bits (64), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 25/52 (48%)
Query: 23 SQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQLY 74
+ ++ +IE V LFK +IV + E+ + GE I+ QG D Y
Sbjct: 154 KRKMFESFIESVPLFKSLEMSERMKIVDVIGEKIYKDGERIIAQGEKADSFY 205
>pdb|1CX4|A Chain A, Crystal Structure Of A Deletion Mutant Of The Type Ii
Beta Regulatory Subunit Of Camp-Dependent Protein
Kinase
Length = 305
Score = 27.7 bits (60), Expect = 1.8, Method: Composition-based stats.
Identities = 16/73 (21%), Positives = 34/73 (46%), Gaps = 5/73 (6%)
Query: 2 ESSYTEASVLHDIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGE 61
E E+ ++H R ++ + + + LFK E ++Q++ + E+ GE
Sbjct: 12 EEDDAESRIIHPKTDDQRNRLQEA-----CKDILLFKNLDPEQMSQVLDAMFEKLVKEGE 66
Query: 62 VIMEQGNVVDQLY 74
+++QG+ D Y
Sbjct: 67 HVIDQGDDGDNFY 79
>pdb|3TNP|B Chain B, Structure And Allostery Of The Pka Riib Tetrameric
Holoenzyme
pdb|3TNP|E Chain E, Structure And Allostery Of The Pka Riib Tetrameric
Holoenzyme
Length = 416
Score = 27.7 bits (60), Expect = 1.8, Method: Composition-based stats.
Identities = 16/73 (21%), Positives = 34/73 (46%), Gaps = 5/73 (6%)
Query: 2 ESSYTEASVLHDIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGE 61
E E+ ++H R ++ + + + LFK E ++Q++ + E+ GE
Sbjct: 123 EEDDAESRIIHPKTDDQRNRLQEA-----CKDILLFKNLDPEQMSQVLDAMFEKLVKEGE 177
Query: 62 VIMEQGNVVDQLY 74
+++QG+ D Y
Sbjct: 178 HVIDQGDDGDNFY 190
>pdb|3TNQ|A Chain A, Structure And Allostery Of The Pka Riib Tetrameric
Holoenzyme
Length = 416
Score = 27.7 bits (60), Expect = 1.9, Method: Composition-based stats.
Identities = 16/73 (21%), Positives = 34/73 (46%), Gaps = 5/73 (6%)
Query: 2 ESSYTEASVLHDIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGE 61
E E+ ++H R ++ + + + LFK E ++Q++ + E+ GE
Sbjct: 123 EEDDAESRIIHPKTDDQRNRLQEA-----CKDILLFKNLDPEQMSQVLDAMFEKLVKEGE 177
Query: 62 VIMEQGNVVDQLY 74
+++QG+ D Y
Sbjct: 178 HVIDQGDDGDNFY 190
>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 = 26.2 bits (56), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 10/45 (22%), Positives = 21/45 (46%)
Query: 31 IEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQLYF 75
+ + +F+G +N ++ + F G I ++G D+LY
Sbjct: 28 LSRAGIFQGVDPTAVNNLIQDMETVRFPRGATIFDEGEPGDRLYI 72
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
0.321 0.136 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,957,317
Number of Sequences: 62578
Number of extensions: 55090
Number of successful extensions: 169
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 144
Number of HSP's gapped (non-prelim): 25
length of query: 94
length of database: 14,973,337
effective HSP length: 61
effective length of query: 33
effective length of database: 11,156,079
effective search space: 368150607
effective search space used: 368150607
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: 45 (21.9 bits)