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= psy8133
(99 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 142 bits (357), Expect = 6e-35, Method: Compositional matrix adjust.
Identities = 65/95 (68%), Positives = 78/95 (82%)
Query: 1 GRVEVSRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTG 60
G+VEV++E L T+ PGKVFGELAILYNC RTAT+K + KLWAI+RQCFQTIMMRTG
Sbjct: 89 GKVEVTKEGVKLCTMGPGKVFGELAILYNCTRTATVKTLVNVKLWAIDRQCFQTIMMRTG 148
Query: 61 LIRQAEYNDFLKSVPIFKDLPEETLIKISDVLEES 95
LI+ EY +FLKSVP F+ LPEE L K++DVLEE+
Sbjct: 149 LIKHTEYMEFLKSVPTFQSLPEEILSKLADVLEET 183
Score = 35.0 bits (79), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 34/75 (45%), Gaps = 6/75 (8%)
Query: 1 GRVEVSRENK------YLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQT 54
G+V V+RE+ +L TL G FGE A+ RTA + AA I+R F+
Sbjct: 207 GKVNVTREDSPNEDPVFLRTLGKGDWFGEKALQGEDVRTANVIAAEAVTCLVIDRDSFKH 266
Query: 55 IMMRTGLIRQAEYND 69
++ + Y D
Sbjct: 267 LIGGLDDVSNKAYED 281
>pdb|3OCP|A Chain A, Crystal Structure Of Camp Bound Cgmp-Dependent Protein
Kinase(92-227)
pdb|3OCP|B Chain B, Crystal Structure Of Camp Bound Cgmp-Dependent Protein
Kinase(92-227)
pdb|3OD0|A Chain A, Crystal Structure Of Cgmp Bound Cgmp-Dependent Protein
Kinase(92-227)
pdb|3OD0|B Chain B, Crystal Structure Of Cgmp Bound Cgmp-Dependent Protein
Kinase(92-227)
pdb|3OGJ|A Chain A, Crystal Structure Of Partial Apo (92-227) Of
Cgmp-Dependent Protein Kinase
pdb|3OGJ|B Chain B, Crystal Structure Of Partial Apo (92-227) Of
Cgmp-Dependent Protein Kinase
pdb|3OGJ|C Chain C, Crystal Structure Of Partial Apo (92-227) Of
Cgmp-Dependent Protein Kinase
pdb|3OGJ|D Chain D, Crystal Structure Of Partial Apo (92-227) Of
Cgmp-Dependent Protein Kinase
Length = 139
Score = 107 bits (266), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 47/67 (70%), Positives = 55/67 (82%)
Query: 1 GRVEVSRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTG 60
G+VEV++E L T+ PGKVFGELAILYNC RTAT+K + KLWAI+RQCFQTIMMRTG
Sbjct: 73 GKVEVTKEGVKLCTMGPGKVFGELAILYNCTRTATVKTLVNVKLWAIDRQCFQTIMMRTG 132
Query: 61 LIRQAEY 67
LI+ EY
Sbjct: 133 LIKHTEY 139
>pdb|3OF1|A Chain A, Crystal Structure Of Bcy1, The Yeast Regulatory Subunit Of
Pka
Length = 246
Score = 79.0 bits (193), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 35/93 (37%), Positives = 57/93 (61%)
Query: 1 GRVEVSRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTG 60
G V+ + +++ PG FGELA++YN R AT+ A SDC LWA++R F+ I++ +
Sbjct: 57 GTVDFYVNDNKVNSSGPGSSFGELALMYNSPRAATVVATSDCLLWALDRLTFRKILLGSS 116
Query: 61 LIRQAEYNDFLKSVPIFKDLPEETLIKISDVLE 93
++ Y+D LKS+P+ K L K++D L+
Sbjct: 117 FKKRLMYDDLLKSMPVLKSLTTYDRAKLADALD 149
Score = 32.7 bits (73), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 1 GRVEVSRENK-YLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIM 56
G V+VS++ + ++ L FGE+A+L + R AT+ A K+ + + FQ ++
Sbjct: 175 GAVDVSKKGQGVINKLKDHDYFGEVALLNDLPRQATVTATKRTKVATLGKSGFQRLL 231
>pdb|4DIN|B Chain B, Novel Localization And Quaternary Structure Of The Pka Ri
Beta Holoenzyme
Length = 381
Score = 71.2 bits (173), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 33/93 (35%), Positives = 57/93 (61%)
Query: 1 GRVEVSRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTG 60
G V+V ++++ ++ G FGELA++Y R AT+KA +D KLW I+R ++ I+M +
Sbjct: 180 GEVDVYVNGEWVTNISEGGSFGELALIYGTPRAATVKAKTDLKLWGIDRDSYRRILMGST 239
Query: 61 LIRQAEYNDFLKSVPIFKDLPEETLIKISDVLE 93
L ++ Y +FL V I + L + + ++D LE
Sbjct: 240 LRKRKMYEEFLSKVSILESLEKWERLTVADALE 272
Score = 33.1 bits (74), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 7/54 (12%)
Query: 3 VEVSRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIM 56
VEV R L P FGE+A+L N R AT+ A K ++R F+ ++
Sbjct: 313 VEVGR-------LGPSDYFGEIALLLNRPRAATVVARGPLKCVKLDRPRFERVL 359
>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 = 71.2 bits (173), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 32/93 (34%), Positives = 57/93 (61%)
Query: 1 GRVEVSRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTG 60
G ++V N++ +++ G FGELA++Y R AT+KA ++ KLW I+R ++ I+M +
Sbjct: 89 GEMDVYVNNEWATSVGEGGSFGELALIYGTPRAATVKAKTNVKLWGIDRDSYRRILMGST 148
Query: 61 LIRQAEYNDFLKSVPIFKDLPEETLIKISDVLE 93
L ++ Y +FL V I + L + + ++D LE
Sbjct: 149 LRKRKMYEEFLSKVSILESLDKWERLTVADALE 181
Score = 32.0 bits (71), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 27/54 (50%), Gaps = 7/54 (12%)
Query: 3 VEVSRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIM 56
VEV R L P FGE+A+L N + AT+ A K ++R F+ ++
Sbjct: 222 VEVGR-------LGPSDYFGEIALLMNRPKAATVVARGPLKCVKLDRPRFERVL 268
>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 = 71.2 bits (173), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 32/93 (34%), Positives = 57/93 (61%)
Query: 1 GRVEVSRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTG 60
G ++V N++ +++ G FGELA++Y R AT+KA ++ KLW I+R ++ I+M +
Sbjct: 85 GEMDVYVNNEWATSVGEGGSFGELALIYGTPRAATVKAKTNVKLWGIDRDSYRRILMGST 144
Query: 61 LIRQAEYNDFLKSVPIFKDLPEETLIKISDVLE 93
L ++ Y +FL V I + L + + ++D LE
Sbjct: 145 LRKRKMYEEFLSKVSILESLDKWERLTVADALE 177
Score = 33.1 bits (74), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 7/54 (12%)
Query: 3 VEVSRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIM 56
VEV R L P FGE+A+L N R AT+ A K ++R F+ ++
Sbjct: 218 VEVGR-------LGPSDYFGEIALLMNRPRAATVVARGPLKCVKLDRPRFERVL 264
>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 = 71.2 bits (173), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 32/93 (34%), Positives = 57/93 (61%)
Query: 1 GRVEVSRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTG 60
G ++V N++ +++ G FGELA++Y R AT+KA ++ KLW I+R ++ I+M +
Sbjct: 87 GEMDVYVNNEWATSVGEGGSFGELALIYGTPRAATVKAKTNVKLWGIDRDSYRRILMGST 146
Query: 61 LIRQAEYNDFLKSVPIFKDLPEETLIKISDVLE 93
L ++ Y +FL V I + L + + ++D LE
Sbjct: 147 LRKRKMYEEFLSKVSILESLDKWERLTVADALE 179
Score = 33.1 bits (74), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 7/54 (12%)
Query: 3 VEVSRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIM 56
VEV R L P FGE+A+L N R AT+ A K ++R F+ ++
Sbjct: 220 VEVGR-------LGPSDYFGEIALLMNRPRAATVVARGPLKCVKLDRPRFERVL 266
>pdb|2QVS|B Chain B, Crystal Structure Of Type Iia Holoenzyme Of Camp-Dependent
Protein Kinase
Length = 310
Score = 65.1 bits (157), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 48/76 (63%)
Query: 21 FGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTGLIRQAEYNDFLKSVPIFKDL 80
FGELA++YN R ATI A S+ LW ++R F+ I+++ ++ + F++SVP+FK L
Sbjct: 112 FGELALMYNTPRAATIIATSEGSLWGLDRVTFRRIIVKNNAKKRKMFESFIESVPLFKSL 171
Query: 81 PEETLIKISDVLEESL 96
+KI DV+ E +
Sbjct: 172 EMSERMKIVDVIGEKI 187
Score = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 22/39 (56%)
Query: 18 GKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIM 56
G+ FGELA++ N R A+ D K ++ Q F+ ++
Sbjct: 239 GQYFGELALVTNKPRAASAYGVGDVKCLVMDVQAFERLL 277
>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 = 59.3 bits (142), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%)
Query: 21 FGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTGLIRQAEYNDFLKSVPIFKDL 80
FGELA++YN R ATI A S LW ++R F+ I+++ ++ Y F++S+P K L
Sbjct: 108 FGELALMYNTPRAATITATSPGALWGLDRVTFRRIIVKNNAKKRKMYESFIESLPFLKSL 167
Query: 81 PEETLIKISDVL 92
+K+ DV+
Sbjct: 168 EVSERLKVVDVI 179
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 23/39 (58%)
Query: 18 GKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIM 56
G+ FGELA++ N R A+ A K A++ Q F+ ++
Sbjct: 234 GQYFGELALVTNKPRAASAHAIGTVKCLAMDVQAFERLL 272
>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 = 58.5 bits (140), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 43/72 (59%)
Query: 21 FGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTGLIRQAEYNDFLKSVPIFKDL 80
FGELA++YN + ATI A S LW ++R F+ I+++ ++ Y F++S+P K L
Sbjct: 219 FGELALMYNTPKAATITATSPGALWGLDRVTFRRIIVKNNAKKRKMYESFIESLPFLKSL 278
Query: 81 PEETLIKISDVL 92
+K+ DV+
Sbjct: 279 EVSERLKVVDVI 290
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 23/39 (58%)
Query: 18 GKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIM 56
G+ FGELA++ N R A+ A K A++ Q F+ ++
Sbjct: 345 GQYFGELALVTNKPRAASAHAIGTVKCLAMDVQAFERLL 383
>pdb|3TNQ|A Chain A, Structure And Allostery Of The Pka Riib Tetrameric
Holoenzyme
Length = 416
Score = 58.5 bits (140), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 43/72 (59%)
Query: 21 FGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTGLIRQAEYNDFLKSVPIFKDL 80
FGELA++YN + ATI A S LW ++R F+ I+++ ++ Y F++S+P K L
Sbjct: 219 FGELALMYNTPKAATITATSPGALWGLDRVTFRRIIVKNNAKKRKMYESFIESLPFLKSL 278
Query: 81 PEETLIKISDVL 92
+K+ DV+
Sbjct: 279 EVSERLKVVDVI 290
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 23/39 (58%)
Query: 18 GKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIM 56
G+ FGELA++ N R A+ A K A++ Q F+ ++
Sbjct: 345 GQYFGELALVTNKPRAASAHAIGTVKCLAMDVQAFERLL 383
>pdb|3FHI|B Chain B, Crystal Structure Of A Complex Between The Catalytic And
Regulatory (Ri{alpha}) Subunits Of Pka
pdb|3IIA|A Chain A, Crystal Structure Of Apo (91-244) Ria Subunit Of
Camp-Dependent Protein Kinase
pdb|3PLQ|A Chain A, Crystal Structure Of Pka Type I Regulatory Subunit Bound
With Rp-8-Br- Camps
pdb|3PNA|A Chain A, Crystal Structure Of Camp Bound (91-244)ria Subunit Of
Camp-Dependent Protein Kinase
pdb|3PNA|B Chain B, Crystal Structure Of Camp Bound (91-244)ria Subunit Of
Camp-Dependent Protein Kinase
Length = 154
Score = 58.2 bits (139), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 43/67 (64%)
Query: 1 GRVEVSRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTG 60
G ++V N++ +++ G FGELA++Y R AT+KA ++ KLW I+R ++ I+M +
Sbjct: 88 GEMDVYVNNEWATSVGEGGSFGELALIYGTPRAATVKAKTNVKLWGIDRDSYRRILMGST 147
Query: 61 LIRQAEY 67
L ++ Y
Sbjct: 148 LRKRKMY 154
>pdb|3PVB|B Chain B, Crystal Structure Of (73-244)ria:c Holoenzyme Of
Camp-Dependent Protein Kinase
Length = 160
Score = 57.4 bits (137), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 40/61 (65%)
Query: 1 GRVEVSRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTG 60
G ++V N++ +++ G FGELA++Y R AT+KA ++ KLW I+R ++ I+M +
Sbjct: 95 GEMDVYVNNEWATSVGEGGSFGELALIYGTPRAATVKAKTNVKLWGIDRDSYRRILMGST 154
Query: 61 L 61
L
Sbjct: 155 L 155
>pdb|3IDB|B Chain B, Crystal Structure Of (108-268)riib:c Holoenzyme Of Camp-
Dependent Protein Kinase
Length = 161
Score = 45.8 bits (107), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 30/50 (60%)
Query: 21 FGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTGLIRQAEYNDF 70
FGELA++YN R ATI A S LW ++R F+ I+++ ++ Y F
Sbjct: 112 FGELALMYNTPRAATITATSPGALWGLDRVTFRRIIVKNNAKKRKMYESF 161
>pdb|3IDC|B Chain B, Crystal Structure Of (102-265)riib:c Holoenzyme Of Camp-
Dependent Protein Kinase
Length = 164
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 29/47 (61%)
Query: 21 FGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTGLIRQAEY 67
FGELA++YN R ATI A S LW ++R F+ I+++ ++ Y
Sbjct: 118 FGELALMYNTPRAATITATSPGALWGLDRVTFRRIIVKNNAKKRKMY 164
>pdb|4EV0|A Chain A, Crystal Structure Of Thermus Thermophilus Catabolite
Activator Protein
pdb|4EV0|D Chain D, Crystal Structure Of Thermus Thermophilus Catabolite
Activator Protein
Length = 216
Score = 42.0 bits (97), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 37/61 (60%)
Query: 2 RVEVSRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTGL 61
R + + + L+ L PG++FGE+++L +R+A+ A D +L A+ R+ + ++ R L
Sbjct: 55 RTHLGGQERTLALLGPGELFGEMSLLDEGERSASAVAVEDTELLALFREDYLALIRRLPL 114
Query: 62 I 62
+
Sbjct: 115 V 115
>pdb|3OTF|A Chain A, Structural Basis For The Camp-Dependent Gating In Human
Hcn4 Channel
Length = 220
Score = 40.4 bits (93), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 33/53 (62%)
Query: 13 STLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTGLIRQA 65
+ LA G FGE+ +L +RTA+++A + C+L+++ F ++ ++R+A
Sbjct: 131 TKLADGSYFGEICLLTRGRRTASVRADTYCRLYSLSVDNFNEVLEEYPMMRRA 183
>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 = 40.4 bits (93), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 33/53 (62%)
Query: 13 STLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTGLIRQA 65
+ LA G FGE+ +L +RTA+++A + C+L+++ F ++ ++R+A
Sbjct: 137 TKLADGSYFGEICLLTRGRRTASVRADTYCRLYSLSVDNFNEVLEEYPMMRRA 189
>pdb|4HBN|A Chain A, Crystal Structure Of The Human Hcn4 Channel C-terminus
Carrying The S672r Mutation
Length = 205
Score = 39.3 bits (90), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 32/53 (60%)
Query: 13 STLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTGLIRQA 65
+ LA G FGE+ +L +RTA ++A + C+L+++ F ++ ++R+A
Sbjct: 131 TKLADGSYFGEICLLTRGRRTARVRADTYCRLYSLSVDNFNEVLEEYPMMRRA 183
>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 = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 32/51 (62%)
Query: 15 LAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTGLIRQA 65
L+ G FGE+ +L +RTA+++A + C+L+++ F ++ ++R+A
Sbjct: 134 LSDGSYFGEICLLTRGRRTASVRADTYCRLYSLSVDNFNEVLEEYPMMRRA 184
>pdb|3U10|A Chain A, 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 = 15/51 (29%), Positives = 32/51 (62%)
Query: 15 LAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTGLIRQA 65
L+ G FGE+ +L +RTA+++A + C+L+++ F ++ ++R+A
Sbjct: 139 LSDGSYFGEICLLTRGRRTASVRADTYCRLYSLSVDNFNEVLEEYPMMRRA 189
>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 = 38.9 bits (89), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 32/51 (62%)
Query: 15 LAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTGLIRQA 65
L+ G FGE+ +L +RTA+++A + C+L+++ F ++ ++R+A
Sbjct: 136 LSDGSYFGEICLLTRGRRTASVRADTYCRLYSLSVDNFNEVLEEYPMMRRA 186
>pdb|3FFQ|A Chain A, Hcn2i 443-640 Apo-State
pdb|3FFQ|B Chain B, Hcn2i 443-640 Apo-State
Length = 202
Score = 38.9 bits (89), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 32/51 (62%)
Query: 15 LAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTGLIRQA 65
L+ G FGE+ +L +RTA+++A + C+L+++ F ++ ++R+A
Sbjct: 136 LSDGSYFGEICLLTRGRRTASVRADTYCRLYSLSVDNFNEVLEEYPMMRRA 186
>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 = 38.9 bits (89), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 32/51 (62%)
Query: 15 LAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTGLIRQA 65
L+ G FGE+ +L +RTA+++A + C+L+++ F ++ ++R+A
Sbjct: 136 LSDGSYFGEICLLTRGRRTASVRADTYCRLYSLSVDNFNEVLEEYPMMRRA 186
>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 = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 31/51 (60%)
Query: 15 LAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTGLIRQA 65
L G FGE+ +L +RTA+++A + C+L+++ F ++ ++R+A
Sbjct: 139 LTDGSYFGEICLLTKGRRTASVRADTYCRLYSLSVDNFNEVLEEYPMMRRA 189
>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 = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 2/55 (3%)
Query: 1 GRVEVSRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTI 55
G V V+ N L PG FGE+A++ R+AT+ AA+ L ++ FQ +
Sbjct: 61 GSVSVATPNPV--ELGPGAFFGEMALISGEPRSATVSAATTVSLLSLHSADFQML 113
>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 = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 2/55 (3%)
Query: 1 GRVEVSRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTI 55
G V V+ N L PG FGE+A++ R+AT+ AA+ L ++ FQ +
Sbjct: 63 GSVSVATPNPV--ELGPGAFFGEMALISGEPRSATVSAATTVSLLSLHSADFQML 115
>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 = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 2/55 (3%)
Query: 1 GRVEVSRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTI 55
G V V+ N L PG FGE+A++ R+AT+ AA+ L ++ FQ +
Sbjct: 65 GSVSVATPNPV--ELGPGAFFGEMALISGEPRSATVSAATTVSLLSLHSADFQML 117
>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 = 37.0 bits (84), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 2/55 (3%)
Query: 1 GRVEVSRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTI 55
G V V+ N L PG FGE+A++ R+AT+ AA+ L ++ FQ +
Sbjct: 61 GSVSVATPNPV--ELGPGAFFGEMALISGEPRSATVSAATTVSLLSLHSADFQML 113
>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 = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 32/51 (62%)
Query: 15 LAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTGLIRQA 65
L+ G FGE+++L +RTA+++A + +L+++ F ++ ++R+A
Sbjct: 138 LSDGSYFGEISLLTRGRRTASVRADTYSRLYSLSVDNFNEVLEEYPMMRRA 188
>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 = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 30/51 (58%)
Query: 15 LAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTGLIRQA 65
L+ G FGE+ +L +RTA+++A + C+L+++ F ++ R+A
Sbjct: 136 LSDGSYFGEICLLTRGRRTASVRADTYCRLYSLSVDNFNEVLEEYPXXRRA 186
>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 = 35.0 bits (79), Expect = 0.011, Method: Composition-based stats.
Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 2/55 (3%)
Query: 1 GRVEVSRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTI 55
G V V+ N L PG FGE+A++ R+AT+ AA+ L ++ FQ +
Sbjct: 278 GSVSVATPNPV--ELGPGAFFGEMALISGEPRSATVSAATTVSLLSLHSADFQML 330
>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 = 34.7 bits (78), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 1 GRVEVSRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTI 55
G V V+ N L PG FGE+A++ +AT+ AA+ L ++ FQ +
Sbjct: 63 GSVSVATPNPV--ELGPGAFFGEMALISGEPESATVSAATTVSLLSLHSADFQML 115
>pdb|2PTM|A Chain A, Structure And Rearrangements In The Carboxy-Terminal
Region Of Spih Channels
Length = 198
Score = 34.3 bits (77), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 27/44 (61%)
Query: 13 STLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIM 56
++L+ G FGE+ +L +R A++K + C L+++ Q F ++
Sbjct: 134 TSLSDGSYFGEICLLTRERRVASVKCETYCTLFSLSVQHFNQVL 177
>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 = 33.5 bits (75), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 1 GRVEVSRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTI 55
G V V+ N L PG FGE+A++ +AT+ AA+ L ++ FQ +
Sbjct: 63 GSVSVATPNPV--ELGPGAFFGEMALISGEPWSATVSAATTVSLLSLHSADFQML 115
>pdb|4AVA|A Chain A, Crystal Structure Of Protein Lysine Acetyltransferase
Rv0998 From Mycobacterium Tuberculosis
pdb|4AVB|A Chain A, Crystal Structure Of Protein Lysine Acetyltransferase
Rv0998 In Complex With Acetyl Coa And Camp
pdb|4AVB|B Chain B, Crystal Structure Of Protein Lysine Acetyltransferase
Rv0998 In Complex With Acetyl Coa And Camp
Length = 333
Score = 31.2 bits (69), Expect = 0.15, Method: Composition-based stats.
Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 6/66 (9%)
Query: 17 PGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTG----LIRQAEYN--DF 70
PG + GE+A+L + R+AT+ W R F T++ G L+R A F
Sbjct: 83 PGMIVGEIALLRDSPRSATVTTIEPLTGWTGGRGAFATMVHIPGVGERLLRTARQRLAAF 142
Query: 71 LKSVPI 76
+ +P+
Sbjct: 143 VSPIPV 148
>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 = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 1/48 (2%)
Query: 6 SRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQ 53
REN L+ + P ++ GEL++ RTAT A ++ KL A+ Q
Sbjct: 66 GRENX-LAVVGPSELIGELSLFDPGPRTATGTALTEVKLLALGHGDLQ 112
>pdb|4AVC|A Chain A, Crystal Structure Of Protein Lysine Acetyltransferase
Rv0998 In Complex With Acetyl Coa And Camp
pdb|4AVC|B Chain B, Crystal Structure Of Protein Lysine Acetyltransferase
Rv0998 In Complex With Acetyl Coa And Camp
Length = 333
Score = 30.4 bits (67), Expect = 0.26, Method: Composition-based stats.
Identities = 19/66 (28%), Positives = 30/66 (45%), Gaps = 6/66 (9%)
Query: 17 PGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTG----LIRQAEYN--DF 70
PG + GE+A+L + R+AT+ W R F T + G L+R A F
Sbjct: 83 PGXIVGEIALLRDSPRSATVTTIEPLTGWTGGRGAFATXVHIPGVGERLLRTARQRLAAF 142
Query: 71 LKSVPI 76
+ +P+
Sbjct: 143 VSPIPV 148
>pdb|3MZH|A Chain A, Crystal Structure Of Camp Receptor Protein From
Mycobacterium Tuberculosis In Complex With Camp And Its
Dna Binding Element
pdb|3MZH|B Chain B, Crystal Structure Of Camp Receptor Protein From
Mycobacterium Tuberculosis In Complex With Camp And Its
Dna Binding Element
Length = 225
Score = 30.4 bits (67), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 2 RVEVSRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQT 54
R REN L+ + P +FGEL+I RT++ ++ + +++R ++
Sbjct: 61 RAPDGREN-LLTIMGPSDMFGELSIFDPGPRTSSATTITEVRAVSMDRDALRS 112
>pdb|3H3U|A Chain A, Crystal Structure Of Crp (Camp Receptor Protein) From
Mycoba Tuberculosis
pdb|3H3U|B Chain B, Crystal Structure Of Crp (Camp Receptor Protein) From
Mycoba Tuberculosis
Length = 224
Score = 30.4 bits (67), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 2 RVEVSRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQT 54
R REN L+ + P +FGEL+I RT++ ++ + +++R ++
Sbjct: 60 RAPDGREN-LLTIMGPSDMFGELSIFDPGPRTSSATTITEVRAVSMDRDALRS 111
>pdb|3D0S|A Chain A, Camp Receptor Protein From M.Tuberculosis, Camp-Free Form
pdb|3D0S|B Chain B, Camp Receptor Protein From M.Tuberculosis, Camp-Free Form
pdb|4A2U|A Chain A, Crp(Cap) From Myco. Tuberculosis, With Camp
pdb|4A2U|B Chain B, Crp(Cap) From Myco. Tuberculosis, With Camp
pdb|4A2U|C Chain C, Crp(Cap) From Myco. Tuberculosis, With Camp
pdb|4A2U|D Chain D, Crp(Cap) From Myco. Tuberculosis, With Camp
pdb|4A2U|E Chain E, Crp(Cap) From Myco. Tuberculosis, With Camp
pdb|4A2U|F Chain F, Crp(Cap) From Myco. Tuberculosis, With Camp
pdb|4A2U|G Chain G, Crp(Cap) From Myco. Tuberculosis, With Camp
pdb|4A2U|H Chain H, Crp(Cap) From Myco. Tuberculosis, With Camp
Length = 227
Score = 30.4 bits (67), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 2 RVEVSRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQT 54
R REN L+ + P +FGEL+I RT++ ++ + +++R ++
Sbjct: 63 RAPDGREN-LLTIMGPSDMFGELSIFDPGPRTSSATTITEVRAVSMDRDALRS 114
>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 = 30.0 bits (66), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 2 RVEVSRENKYLSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQT 54
R REN L+ + P +FGEL+I RT++ ++ + +++R ++
Sbjct: 85 RAPDGREN-LLTIMGPSDMFGELSIFDPGPRTSSATTITEVRAVSMDRDALRS 136
>pdb|3G06|A Chain A, The Salmonella Virulence Effector Ssph2 Functions As A
Novel E3 Ligase
Length = 622
Score = 26.9 bits (58), Expect = 2.9, Method: Composition-based stats.
Identities = 22/72 (30%), Positives = 32/72 (44%), Gaps = 5/72 (6%)
Query: 12 LSTLAPGKVFGELAILYNCKRTATIKAASDCKLWAIERQCFQTIMMRTGLIRQAEYNDFL 71
L L PG EL++ N + + CKLWA Q M+ +GL + ++ L
Sbjct: 136 LPVLPPG--LQELSVSDNQLASLPALPSELCKLWAYNNQLTSLPMLPSGLQELSVSDNQL 193
Query: 72 KSVPIFKDLPEE 83
S+P LP E
Sbjct: 194 ASLPT---LPSE 202
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
0.320 0.135 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,586,198
Number of Sequences: 62578
Number of extensions: 78212
Number of successful extensions: 231
Number of sequences better than 100.0: 43
Number of HSP's better than 100.0 without gapping: 38
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 182
Number of HSP's gapped (non-prelim): 54
length of query: 99
length of database: 14,973,337
effective HSP length: 65
effective length of query: 34
effective length of database: 10,905,767
effective search space: 370796078
effective search space used: 370796078
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)