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= psy5057
(87 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 103 bits (256), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 49/83 (59%), Positives = 63/83 (75%)
Query: 1 MFEKPVEAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYN 60
MFEK V+ G+ VI QGDDGD FYVI+ G ++ V+ DG + + Y+++GSFGELAL+YN
Sbjct: 57 MFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDIYVKCDGVGRCVGNYDNRGSFGELALMYN 116
Query: 61 MPRAATIKATSTGSLWAMDRKTF 83
PRAATI ATS G+LW +DR TF
Sbjct: 117 TPRAATITATSPGALWGLDRVTF 139
Score = 50.4 bits (119), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 30/86 (34%), Positives = 45/86 (52%), Gaps = 15/86 (17%)
Query: 9 GDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGS-----------FGELAL 57
G+ +I QGD D F+++ESG +++ G+ + E+ G+ FGELAL
Sbjct: 187 GEQIIAQGDSADSFFIVESGEVRITMKRKGKSDI----EENGAVEIARCLRGQYFGELAL 242
Query: 58 LYNMPRAATIKATSTGSLWAMDRKTF 83
+ N PRAA+ A T AMD + F
Sbjct: 243 VTNKPRAASAHAIGTVKCLAMDVQAF 268
>pdb|3IDB|B Chain B, Crystal Structure Of (108-268)riib:c Holoenzyme Of Camp-
Dependent Protein Kinase
Length = 161
Score = 103 bits (256), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 49/83 (59%), Positives = 63/83 (75%)
Query: 1 MFEKPVEAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYN 60
MFEK V+ G+ VI QGDDGD FYVI+ G ++ V+ DG + + Y+++GSFGELAL+YN
Sbjct: 61 MFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDIYVKCDGVGRCVGNYDNRGSFGELALMYN 120
Query: 61 MPRAATIKATSTGSLWAMDRKTF 83
PRAATI ATS G+LW +DR TF
Sbjct: 121 TPRAATITATSPGALWGLDRVTF 143
>pdb|3IDC|B Chain B, Crystal Structure Of (102-265)riib:c Holoenzyme Of Camp-
Dependent Protein Kinase
Length = 164
Score = 103 bits (256), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 49/83 (59%), Positives = 63/83 (75%)
Query: 1 MFEKPVEAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYN 60
MFEK V+ G+ VI QGDDGD FYVI+ G ++ V+ DG + + Y+++GSFGELAL+YN
Sbjct: 67 MFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDIYVKCDGVGRCVGNYDNRGSFGELALMYN 126
Query: 61 MPRAATIKATSTGSLWAMDRKTF 83
PRAATI ATS G+LW +DR TF
Sbjct: 127 TPRAATITATSPGALWGLDRVTF 149
>pdb|2QVS|B Chain B, Crystal Structure Of Type Iia Holoenzyme Of Camp-Dependent
Protein Kinase
Length = 310
Score = 102 bits (253), Expect = 6e-23, Method: Compositional matrix adjust.
Identities = 50/83 (60%), Positives = 61/83 (73%)
Query: 1 MFEKPVEAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYN 60
MFEK V+ + VI QGDDGD FYVIE G Y+ V D + + + Y+++GSFGELAL+YN
Sbjct: 61 MFEKIVKTDEHVIDQGDDGDNFYVIERGTYDILVTKDNQTRSVGQYDNRGSFGELALMYN 120
Query: 61 MPRAATIKATSTGSLWAMDRKTF 83
PRAATI ATS GSLW +DR TF
Sbjct: 121 TPRAATIIATSEGSLWGLDRVTF 143
Score = 46.2 bits (108), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 34/91 (37%), Positives = 46/91 (50%), Gaps = 12/91 (13%)
Query: 3 EKPVEAGDIVIRQGDDGDFFYVIESGRYEASVEID---------GEDKLMHAYEDKGS-F 52
EK + G+ +I QG+ D FY+IESG E S+ I G ++ A+ KG F
Sbjct: 185 EKIYKDGERIIAQGEKADSFYIIESG--EVSILIRSKTKSNKNGGNQEVEIAHCHKGQYF 242
Query: 53 GELALLYNMPRAATIKATSTGSLWAMDRKTF 83
GELAL+ N PRAA+ MD + F
Sbjct: 243 GELALVTNKPRAASAYGVGDVKCLVMDVQAF 273
>pdb|3TNQ|A Chain A, Structure And Allostery Of The Pka Riib Tetrameric
Holoenzyme
Length = 416
Score = 101 bits (252), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 48/83 (57%), Positives = 63/83 (75%)
Query: 1 MFEKPVEAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYN 60
MFEK V+ G+ VI QGDDGD FYVI+ G ++ V+ DG + + Y+++GSFGELAL+YN
Sbjct: 168 MFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDIYVKCDGVGRCVGNYDNRGSFGELALMYN 227
Query: 61 MPRAATIKATSTGSLWAMDRKTF 83
P+AATI ATS G+LW +DR TF
Sbjct: 228 TPKAATITATSPGALWGLDRVTF 250
Score = 50.1 bits (118), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 30/86 (34%), Positives = 47/86 (54%), Gaps = 15/86 (17%)
Query: 9 GDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGS-----------FGELAL 57
G+ +I QGD D F+++ESG + +++ G+ ++ E+ G+ FGELAL
Sbjct: 298 GEQIIAQGDLADSFFIVESGEVKITMKRKGKSEV----EENGAVEIARCFRGQYFGELAL 353
Query: 58 LYNMPRAATIKATSTGSLWAMDRKTF 83
+ N PRAA+ A T AMD + F
Sbjct: 354 VTNKPRAASAHAIGTVKCLAMDVQAF 379
>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 = 101 bits (251), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 48/83 (57%), Positives = 63/83 (75%)
Query: 1 MFEKPVEAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYN 60
MFEK V+ G+ VI QGDDGD FYVI+ G ++ V+ DG + + Y+++GSFGELAL+YN
Sbjct: 168 MFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDIYVKCDGVGRCVGNYDNRGSFGELALMYN 227
Query: 61 MPRAATIKATSTGSLWAMDRKTF 83
P+AATI ATS G+LW +DR TF
Sbjct: 228 TPKAATITATSPGALWGLDRVTF 250
Score = 50.1 bits (118), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 30/86 (34%), Positives = 47/86 (54%), Gaps = 15/86 (17%)
Query: 9 GDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGS-----------FGELAL 57
G+ +I QGD D F+++ESG + +++ G+ ++ E+ G+ FGELAL
Sbjct: 298 GEQIIAQGDLADSFFIVESGEVKITMKRKGKSEV----EENGAVEIARCFRGQYFGELAL 353
Query: 58 LYNMPRAATIKATSTGSLWAMDRKTF 83
+ N PRAA+ A T AMD + F
Sbjct: 354 VTNKPRAASAHAIGTVKCLAMDVQAF 379
>pdb|3OF1|A Chain A, Crystal Structure Of Bcy1, The Yeast Regulatory Subunit Of
Pka
Length = 246
Score = 79.7 bits (195), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 41/81 (50%), Positives = 53/81 (65%), Gaps = 4/81 (4%)
Query: 3 EKPVEAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYNMP 62
EK V G +I+QGD GD+FYV+E G +V+ D +++ SFGELAL+YN P
Sbjct: 32 EKSVPKGATIIKQGDQGDYFYVVEKG----TVDFYVNDNKVNSSGPGSSFGELALMYNSP 87
Query: 63 RAATIKATSTGSLWAMDRKTF 83
RAAT+ ATS LWA+DR TF
Sbjct: 88 RAATVVATSDCLLWALDRLTF 108
Score = 53.5 bits (127), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 46/77 (59%), Gaps = 3/77 (3%)
Query: 7 EAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYNMPRAAT 66
+ G+ +IR+GD G+ FY+IE G + S + G +++ +D FGE+ALL ++PR AT
Sbjct: 154 QPGETIIREGDQGENFYLIEYGAVDVSKKGQG---VINKLKDHDYFGEVALLNDLPRQAT 210
Query: 67 IKATSTGSLWAMDRKTF 83
+ AT + + + F
Sbjct: 211 VTATKRTKVATLGKSGF 227
>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 = 71.6 bits (174), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 37/83 (44%), Positives = 52/83 (62%), Gaps = 4/83 (4%)
Query: 1 MFEKPVEAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYN 60
MF AG+ VI+QGD+GD FYVI+ G + V ++ + + GSFGELAL+Y
Sbjct: 62 MFPVSFIAGETVIQQGDEGDNFYVIDQGEMDVYVN----NEWATSVGEGGSFGELALIYG 117
Query: 61 MPRAATIKATSTGSLWAMDRKTF 83
PRAAT+KA + LW +DR ++
Sbjct: 118 TPRAATVKAKTNVKLWGIDRDSY 140
Score = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 40/80 (50%), Gaps = 4/80 (5%)
Query: 7 EAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGS---FGELALLYNMPR 63
E G ++ QG+ GD F++I G A ++ E++ G FGE+ALL N P+
Sbjct: 186 EDGQKIVVQGEPGDEFFIILEGS-AAVLQRRSENEEFVEVGRLGPSDYFGEIALLMNRPK 244
Query: 64 AATIKATSTGSLWAMDRKTF 83
AAT+ A +DR F
Sbjct: 245 AATVVARGPLKCVKLDRPRF 264
>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 = 71.6 bits (174), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 37/83 (44%), Positives = 52/83 (62%), Gaps = 4/83 (4%)
Query: 1 MFEKPVEAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYN 60
MF AG+ VI+QGD+GD FYVI+ G + V ++ + + GSFGELAL+Y
Sbjct: 61 MFPVSFIAGETVIQQGDEGDNFYVIDQGEMDVYVN----NEWATSVGEGGSFGELALIYG 116
Query: 61 MPRAATIKATSTGSLWAMDRKTF 83
PRAAT+KA + LW +DR ++
Sbjct: 117 TPRAATVKAKTNVKLWGIDRDSY 139
>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 = 71.6 bits (174), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 37/83 (44%), Positives = 52/83 (62%), Gaps = 4/83 (4%)
Query: 1 MFEKPVEAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYN 60
MF AG+ VI+QGD+GD FYVI+ G + V ++ + + GSFGELAL+Y
Sbjct: 58 MFPVSFIAGETVIQQGDEGDNFYVIDQGEMDVYVN----NEWATSVGEGGSFGELALIYG 113
Query: 61 MPRAATIKATSTGSLWAMDRKTF 83
PRAAT+KA + LW +DR ++
Sbjct: 114 TPRAATVKAKTNVKLWGIDRDSY 136
Score = 40.4 bits (93), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 40/80 (50%), Gaps = 4/80 (5%)
Query: 7 EAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGS---FGELALLYNMPR 63
E G ++ QG+ GD F++I G A ++ E++ G FGE+ALL N PR
Sbjct: 182 EDGQKIVVQGEPGDEFFIILEGS-AAVLQRRSENEEFVEVGRLGPSDYFGEIALLMNRPR 240
Query: 64 AATIKATSTGSLWAMDRKTF 83
AAT+ A +DR F
Sbjct: 241 AATVVARGPLKCVKLDRPRF 260
>pdb|3PVB|B Chain B, Crystal Structure Of (73-244)ria:c Holoenzyme Of
Camp-Dependent Protein Kinase
Length = 160
Score = 71.6 bits (174), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 37/83 (44%), Positives = 52/83 (62%), Gaps = 4/83 (4%)
Query: 1 MFEKPVEAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYN 60
MF AG+ VI+QGD+GD FYVI+ G + V ++ + + GSFGELAL+Y
Sbjct: 68 MFPVSFIAGETVIQQGDEGDNFYVIDQGEMDVYVN----NEWATSVGEGGSFGELALIYG 123
Query: 61 MPRAATIKATSTGSLWAMDRKTF 83
PRAAT+KA + LW +DR ++
Sbjct: 124 TPRAATVKAKTNVKLWGIDRDSY 146
>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 = 71.6 bits (174), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 37/83 (44%), Positives = 52/83 (62%), Gaps = 4/83 (4%)
Query: 1 MFEKPVEAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYN 60
MF AG+ VI+QGD+GD FYVI+ G + V ++ + + GSFGELAL+Y
Sbjct: 60 MFPVSFIAGETVIQQGDEGDNFYVIDQGEMDVYVN----NEWATSVGEGGSFGELALIYG 115
Query: 61 MPRAATIKATSTGSLWAMDRKTF 83
PRAAT+KA + LW +DR ++
Sbjct: 116 TPRAATVKAKTNVKLWGIDRDSY 138
Score = 40.4 bits (93), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 40/80 (50%), Gaps = 4/80 (5%)
Query: 7 EAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGS---FGELALLYNMPR 63
E G ++ QG+ GD F++I G A ++ E++ G FGE+ALL N PR
Sbjct: 184 EDGQKIVVQGEPGDEFFIILEGS-AAVLQRRSENEEFVEVGRLGPSDYFGEIALLMNRPR 242
Query: 64 AATIKATSTGSLWAMDRKTF 83
AAT+ A +DR F
Sbjct: 243 AATVVARGPLKCVKLDRPRF 262
>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 = 36/76 (47%), Positives = 52/76 (68%), Gaps = 4/76 (5%)
Query: 8 AGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYNMPRAATI 67
AG+ VI+QG++GD FYV++ G E V ++GE + + GSFGELAL+Y PRAAT+
Sbjct: 160 AGETVIQQGNEGDNFYVVDQG--EVDVYVNGE--WVTNISEGGSFGELALIYGTPRAATV 215
Query: 68 KATSTGSLWAMDRKTF 83
KA + LW +DR ++
Sbjct: 216 KAKTDLKLWGIDRDSY 231
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 38/79 (48%), Gaps = 2/79 (2%)
Query: 7 EAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGS--FGELALLYNMPRA 64
E G+ ++ QG+ GD FY+I G ++ + S FGE+ALL N PRA
Sbjct: 277 EDGEKIVVQGEPGDDFYIITEGTASVLQRRSPNEEYVEVGRLGPSDYFGEIALLLNRPRA 336
Query: 65 ATIKATSTGSLWAMDRKTF 83
AT+ A +DR F
Sbjct: 337 ATVVARGPLKCVKLDRPRF 355
>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 = 60.1 bits (144), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 33/81 (40%), Positives = 44/81 (54%), Gaps = 6/81 (7%)
Query: 5 PVEAG--DIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYNMP 62
PVE G +I++GD G YV+E G+ VE+ E + FGELA+LYN
Sbjct: 48 PVEYGKDSCIIKEGDVGSLVYVMEDGK----VEVTKEGVKLCTMGPGKVFGELAILYNCT 103
Query: 63 RAATIKATSTGSLWAMDRKTF 83
R AT+K LWA+DR+ F
Sbjct: 104 RTATVKTLVNVKLWAIDRQCF 124
>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 = 58.9 bits (141), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 33/81 (40%), Positives = 44/81 (54%), Gaps = 6/81 (7%)
Query: 5 PVEAG--DIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYNMP 62
PVE G +I++GD G YV+E G+ VE+ E + FGELA+LYN
Sbjct: 64 PVEYGKDSCIIKEGDVGSLVYVMEDGK----VEVTKEGVKLCTMGPGKVFGELAILYNCT 119
Query: 63 RAATIKATSTGSLWAMDRKTF 83
R AT+K LWA+DR+ F
Sbjct: 120 RTATVKTLVNVKLWAIDRQCF 140
Score = 39.3 bits (90), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 39/83 (46%), Gaps = 2/83 (2%)
Query: 3 EKPVEAGDIVIRQGDDGDFFYVIESGRYEASVE-IDGEDKLMHAYEDKGS-FGELALLYN 60
E E G+ +IRQG GD F++I G+ + E ED + KG FGE AL
Sbjct: 182 ETHYENGEYIIRQGARGDTFFIISKGKVNVTREDSPNEDPVFLRTLGKGDWFGEKALQGE 241
Query: 61 MPRAATIKATSTGSLWAMDRKTF 83
R A + A + +DR +F
Sbjct: 242 DVRTANVIAAEAVTCLVIDRDSF 264
>pdb|4F7Z|A Chain A, Conformational Dynamics Of Exchange Protein Directly
Activated By Camp
Length = 999
Score = 41.2 bits (95), Expect = 1e-04, Method: Composition-based stats.
Identities = 22/67 (32%), Positives = 37/67 (55%), Gaps = 3/67 (4%)
Query: 1 MFEKPVEAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYN 60
+FE + G ++ QG++G +Y+I G + G +H +D FG+LAL+ +
Sbjct: 361 IFESHAKGGTVLFNQGEEGTSWYIILKGSVNVVIYGKGVVCTLHEGDD---FGKLALVND 417
Query: 61 MPRAATI 67
PRAA+I
Sbjct: 418 APRAASI 424
Score = 31.6 bits (70), Expect = 0.12, Method: Composition-based stats.
Identities = 24/81 (29%), Positives = 40/81 (49%), Gaps = 4/81 (4%)
Query: 6 VEAGDIVIRQGDDGDFFYVIESGRYEASVEIDG--EDKLMHAYEDKGS-FGELALLYNMP 62
+E G + RQGD G +Y + +G + V +D + G+ FGE ++L N P
Sbjct: 70 LEKGITLFRQGDIGTNWYAVLAGSLDVKVSETSSHQDAVTICTLGIGTAFGE-SILDNTP 128
Query: 63 RAATIKATSTGSLWAMDRKTF 83
R ATI + L ++++ F
Sbjct: 129 RHATIVTRESSELLRIEQEDF 149
>pdb|3CF6|E Chain E, Structure Of Epac2 In Complex With Cyclic-Amp And Rap
Length = 694
Score = 41.2 bits (95), Expect = 1e-04, Method: Composition-based stats.
Identities = 22/67 (32%), Positives = 37/67 (55%), Gaps = 3/67 (4%)
Query: 1 MFEKPVEAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYN 60
+FE + G ++ QG++G +Y+I G + G +H +D FG+LAL+ +
Sbjct: 56 IFESHAKGGTVLFNQGEEGTSWYIILKGSVNVVIYGKGVVCTLHEGDD---FGKLALVND 112
Query: 61 MPRAATI 67
PRAA+I
Sbjct: 113 APRAASI 119
>pdb|2BYV|E Chain E, Structure Of The Camp Responsive Exchange Factor Epac2 In
Its Auto-Inhibited State
Length = 999
Score = 41.2 bits (95), Expect = 1e-04, Method: Composition-based stats.
Identities = 22/67 (32%), Positives = 37/67 (55%), Gaps = 3/67 (4%)
Query: 1 MFEKPVEAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYN 60
+FE + G ++ QG++G +Y+I G + G +H +D FG+LAL+ +
Sbjct: 361 IFESHAKGGTVLFNQGEEGTSWYIILKGSVNVVIYGKGVVCTLHEGDD---FGKLALVND 417
Query: 61 MPRAATI 67
PRAA+I
Sbjct: 418 APRAASI 424
Score = 31.6 bits (70), Expect = 0.12, Method: Composition-based stats.
Identities = 24/81 (29%), Positives = 40/81 (49%), Gaps = 4/81 (4%)
Query: 6 VEAGDIVIRQGDDGDFFYVIESGRYEASVEIDG--EDKLMHAYEDKGS-FGELALLYNMP 62
+E G + RQGD G +Y + +G + V +D + G+ FGE ++L N P
Sbjct: 70 LEKGITLFRQGDIGTNWYAVLAGSLDVKVSETSSHQDAVTICTLGIGTAFGE-SILDNTP 128
Query: 63 RAATIKATSTGSLWAMDRKTF 83
R ATI + L ++++ F
Sbjct: 129 RHATIVTRESSELLRIEQEDF 149
>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 = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 42/81 (51%), Gaps = 8/81 (9%)
Query: 4 KPVEAGDIVIRQGDDGD-FFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYNMP 62
+ V AG ++ R G+ GD F+V+E SV + + + FGE+AL+ P
Sbjct: 37 RTVPAGAVICRIGEPGDRMFFVVE-----GSVSVATPNPV--ELGPGAFFGEMALISGEP 89
Query: 63 RAATIKATSTGSLWAMDRKTF 83
R+AT+ A +T SL ++ F
Sbjct: 90 RSATVSAATTVSLLSLHSADF 110
>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 = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 42/81 (51%), Gaps = 8/81 (9%)
Query: 4 KPVEAGDIVIRQGDDGD-FFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYNMP 62
+ V AG ++ R G+ GD F+V+E SV + + + FGE+AL+ P
Sbjct: 41 RTVPAGAVICRIGEPGDRMFFVVE-----GSVSVATPNPV--ELGPGAFFGEMALISGEP 93
Query: 63 RAATIKATSTGSLWAMDRKTF 83
R+AT+ A +T SL ++ F
Sbjct: 94 RSATVSAATTVSLLSLHSADF 114
>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 = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 42/81 (51%), Gaps = 8/81 (9%)
Query: 4 KPVEAGDIVIRQGDDGD-FFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYNMP 62
+ V AG ++ R G+ GD F+V+E SV + + + FGE+AL+ P
Sbjct: 37 RTVPAGAVICRIGEPGDRMFFVVE-----GSVSVATPNPV--ELGPGAFFGEMALISGEP 89
Query: 63 RAATIKATSTGSLWAMDRKTF 83
R+AT+ A +T SL ++ F
Sbjct: 90 RSATVSAATTVSLLSLHSADF 110
>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 = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 42/81 (51%), Gaps = 8/81 (9%)
Query: 4 KPVEAGDIVIRQGDDGD-FFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYNMP 62
+ V AG ++ R G+ GD F+V+E SV + + + FGE+AL+ P
Sbjct: 39 RTVPAGAVICRIGEPGDRMFFVVE-----GSVSVATPNPV--ELGPGAFFGEMALISGEP 91
Query: 63 RAATIKATSTGSLWAMDRKTF 83
R+AT+ A +T SL ++ F
Sbjct: 92 RSATVSAATTVSLLSLHSADF 112
>pdb|1O7F|A Chain A, Crystal Structure Of The Regulatory Domain Of Epac2
Length = 469
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 37/67 (55%), Gaps = 3/67 (4%)
Query: 1 MFEKPVEAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYN 60
+FE + G ++ QG++G +Y+I G + G +H +D FG+LAL+ +
Sbjct: 361 IFESHAKGGTVLFNQGEEGTSWYIILKGSVNVVIYGKGVVCTLHEGDD---FGKLALVND 417
Query: 61 MPRAATI 67
PRAA+I
Sbjct: 418 APRAASI 424
Score = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 40/81 (49%), Gaps = 4/81 (4%)
Query: 6 VEAGDIVIRQGDDGDFFYVIESGRYEASVE--IDGEDKLMHAYEDKGS-FGELALLYNMP 62
+E G + RQGD G +Y + +G + V +D + G+ FGE ++L N P
Sbjct: 70 LEKGITLFRQGDIGTNWYAVLAGSLDVKVSETSSHQDAVTICTLGIGTAFGE-SILDNTP 128
Query: 63 RAATIKATSTGSLWAMDRKTF 83
R ATI + L ++++ F
Sbjct: 129 RHATIVTRESSELLRIEQEDF 149
>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 = 38.9 bits (89), Expect = 7e-04, Method: Composition-based stats.
Identities = 26/81 (32%), Positives = 42/81 (51%), Gaps = 8/81 (9%)
Query: 4 KPVEAGDIVIRQGDDGD-FFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYNMP 62
+ V AG ++ R G+ GD F+V+E SV + + + FGE+AL+ P
Sbjct: 254 RTVPAGAVICRIGEPGDRMFFVVE-----GSVSVATPNPV--ELGPGAFFGEMALISGEP 306
Query: 63 RAATIKATSTGSLWAMDRKTF 83
R+AT+ A +T SL ++ F
Sbjct: 307 RSATVSAATTVSLLSLHSADF 327
>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 = 38.5 bits (88), Expect = 0.001, Method: Composition-based stats.
Identities = 27/77 (35%), Positives = 38/77 (49%), Gaps = 2/77 (2%)
Query: 8 AGDIVIRQGDDGDFFYVIESGRYEAS-VEIDGEDKLMHAYEDKGSFGELALLYNMPRAAT 66
AG +++RQG+ F +I SG E S V DG + A GE+ALL + PR+AT
Sbjct: 43 AGQVLLRQGEPAVSFLLISSGSAEVSHVGDDGVAIIARALPGX-IVGEIALLRDSPRSAT 101
Query: 67 IKATSTGSLWAMDRKTF 83
+ + W R F
Sbjct: 102 VTTIEPLTGWTGGRGAF 118
>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 = 38.1 bits (87), Expect = 0.001, Method: Composition-based stats.
Identities = 27/77 (35%), Positives = 38/77 (49%), Gaps = 2/77 (2%)
Query: 8 AGDIVIRQGDDGDFFYVIESGRYEAS-VEIDGEDKLMHAYEDKGSFGELALLYNMPRAAT 66
AG +++RQG+ F +I SG E S V DG + A GE+ALL + PR+AT
Sbjct: 43 AGQVLLRQGEPAVSFLLISSGSAEVSHVGDDGVAIIARALPGM-IVGEIALLRDSPRSAT 101
Query: 67 IKATSTGSLWAMDRKTF 83
+ + W R F
Sbjct: 102 VTTIEPLTGWTGGRGAF 118
>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 = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 41/81 (50%), Gaps = 8/81 (9%)
Query: 4 KPVEAGDIVIRQGDDGD-FFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYNMP 62
+ V AG ++ R G+ GD F+V+E SV + + + FGE+AL+ P
Sbjct: 39 RTVPAGAVICRIGEPGDRMFFVVE-----GSVSVATPNPV--ELGPGAFFGEMALISGEP 91
Query: 63 RAATIKATSTGSLWAMDRKTF 83
+AT+ A +T SL ++ F
Sbjct: 92 ESATVSAATTVSLLSLHSADF 112
>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 = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 38/77 (49%), Gaps = 4/77 (5%)
Query: 7 EAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYNMPRAAT 66
+ GD +IR+G G Y I+ G + + E KL D FGE++LL R A+
Sbjct: 103 QPGDYIIREGTIGKKMYFIQHGVVSVLTKGNKEMKL----SDGSYFGEISLLTRGRRTAS 158
Query: 67 IKATSTGSLWAMDRKTF 83
++A + L+++ F
Sbjct: 159 VRADTYSRLYSLSVDNF 175
>pdb|3OTF|A Chain A, Structural Basis For The Camp-Dependent Gating In Human
Hcn4 Channel
Length = 220
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 37/77 (48%), Gaps = 4/77 (5%)
Query: 7 EAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYNMPRAAT 66
+ GD +IR+G G Y I+ G + + E KL D FGE+ LL R A+
Sbjct: 98 QPGDYIIREGTIGKKMYFIQHGVVSVLTKGNKETKLA----DGSYFGEICLLTRGRRTAS 153
Query: 67 IKATSTGSLWAMDRKTF 83
++A + L+++ F
Sbjct: 154 VRADTYCRLYSLSVDNF 170
>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 = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 37/77 (48%), Gaps = 4/77 (5%)
Query: 7 EAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYNMPRAAT 66
+ GD +IR+G G Y I+ G + + E KL D FGE+ LL R A+
Sbjct: 104 QPGDYIIREGTIGKKMYFIQHGVVSVLTKGNKETKLA----DGSYFGEICLLTRGRRTAS 159
Query: 67 IKATSTGSLWAMDRKTF 83
++A + L+++ F
Sbjct: 160 VRADTYCRLYSLSVDNF 176
>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 = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 37/77 (48%), Gaps = 4/77 (5%)
Query: 7 EAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYNMPRAAT 66
+ GD +IR+G G Y I+ G + + E KL D FGE+ LL R A+
Sbjct: 101 QPGDYIIREGTIGKKMYFIQHGVVSVLTKGNKEMKL----SDGSYFGEICLLTRGRRTAS 156
Query: 67 IKATSTGSLWAMDRKTF 83
++A + L+++ F
Sbjct: 157 VRADTYCRLYSLSVDNF 173
>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 = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 37/77 (48%), Gaps = 4/77 (5%)
Query: 7 EAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYNMPRAAT 66
+ GD +IR+G G Y I+ G + + E KL D FGE+ LL R A+
Sbjct: 101 QPGDYIIREGTIGKKXYFIQHGVVSVLTKGNKEXKL----SDGSYFGEICLLTRGRRTAS 156
Query: 67 IKATSTGSLWAMDRKTF 83
++A + L+++ F
Sbjct: 157 VRADTYCRLYSLSVDNF 173
>pdb|3U10|A Chain A, Tetramerization Dynamics Of The C-Terminus Underlies
Isoform-Specific Camp-Gating In Hcn Channels
Length = 210
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 37/77 (48%), Gaps = 4/77 (5%)
Query: 7 EAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYNMPRAAT 66
+ GD +IR+G G Y I+ G + + E KL D FGE+ LL R A+
Sbjct: 104 QPGDYIIREGTIGKKMYFIQHGVVSVLTKGNKEMKL----SDGSYFGEICLLTRGRRTAS 159
Query: 67 IKATSTGSLWAMDRKTF 83
++A + L+++ F
Sbjct: 160 VRADTYCRLYSLSVDNF 176
>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 = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 37/77 (48%), Gaps = 4/77 (5%)
Query: 7 EAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYNMPRAAT 66
+ GD +IR+G G Y I+ G + + E KL D FGE+ LL R A+
Sbjct: 101 QPGDYIIREGTIGKKMYFIQHGVVSVLTKGNKEMKL----SDGSYFGEICLLTRGRRTAS 156
Query: 67 IKATSTGSLWAMDRKTF 83
++A + L+++ F
Sbjct: 157 VRADTYCRLYSLSVDNF 173
>pdb|3FFQ|A Chain A, Hcn2i 443-640 Apo-State
pdb|3FFQ|B Chain B, Hcn2i 443-640 Apo-State
Length = 202
Score = 37.0 bits (84), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 37/77 (48%), Gaps = 4/77 (5%)
Query: 7 EAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYNMPRAAT 66
+ GD +IR+G G Y I+ G + + E KL D FGE+ LL R A+
Sbjct: 101 QPGDYIIREGTIGKKMYFIQHGVVSVLTKGNKEMKL----SDGSYFGEICLLTRGRRTAS 156
Query: 67 IKATSTGSLWAMDRKTF 83
++A + L+++ F
Sbjct: 157 VRADTYCRLYSLSVDNF 173
>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 = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 37/77 (48%), Gaps = 4/77 (5%)
Query: 7 EAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYNMPRAAT 66
+ GD +IR+G G Y I+ G + + E KL D FGE+ LL R A+
Sbjct: 99 QPGDYIIREGTIGKKMYFIQHGVVSVLTKGNKEMKL----SDGSYFGEICLLTRGRRTAS 154
Query: 67 IKATSTGSLWAMDRKTF 83
++A + L+++ F
Sbjct: 155 VRADTYCRLYSLSVDNF 171
>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 = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 41/81 (50%), Gaps = 8/81 (9%)
Query: 4 KPVEAGDIVIRQGDDGD-FFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYNMP 62
+ V AG ++ R G+ GD F+V+E SV + + + FGE+AL+ P
Sbjct: 39 RTVPAGAVICRIGEPGDRMFFVVE-----GSVSVATPNPV--ELGPGAFFGEMALISGEP 91
Query: 63 RAATIKATSTGSLWAMDRKTF 83
+AT+ A +T SL ++ F
Sbjct: 92 WSATVSAATTVSLLSLHSADF 112
>pdb|4HBN|A Chain A, Crystal Structure Of The Human Hcn4 Channel C-terminus
Carrying The S672r Mutation
Length = 205
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 36/77 (46%), Gaps = 4/77 (5%)
Query: 7 EAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYNMPRAAT 66
+ GD +IR+G G Y I+ G + + E KL D FGE+ LL R A
Sbjct: 98 QPGDYIIREGTIGKKMYFIQHGVVSVLTKGNKETKLA----DGSYFGEICLLTRGRRTAR 153
Query: 67 IKATSTGSLWAMDRKTF 83
++A + L+++ F
Sbjct: 154 VRADTYCRLYSLSVDNF 170
>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 = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 32/71 (45%), Gaps = 1/71 (1%)
Query: 9 GDIVIRQGDDGDFFYVIESGRYE-ASVEIDGEDKLMHAYEDKGSFGELALLYNMPRAATI 67
GD + +GD GD YV+ G+ + DG + + GEL+L PR AT
Sbjct: 36 GDTLFHEGDPGDRLYVVTEGKVKLHRTSPDGRENXLAVVGPSELIGELSLFDPGPRTATG 95
Query: 68 KATSTGSLWAM 78
A + L A+
Sbjct: 96 TALTEVKLLAL 106
>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 = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 36/77 (46%), Gaps = 4/77 (5%)
Query: 7 EAGDIVIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSFGELALLYNMPRAAT 66
+ GD +IR+G G Y I+ G + E KL D FGE+ LL R A+
Sbjct: 104 QPGDYIIREGAVGKKMYFIQHGVAGVITKSSKEMKLT----DGSYFGEICLLTKGRRTAS 159
Query: 67 IKATSTGSLWAMDRKTF 83
++A + L+++ F
Sbjct: 160 VRADTYCRLYSLSVDNF 176
>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 = 34.3 bits (77), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 38/80 (47%), Gaps = 3/80 (3%)
Query: 4 KPVE--AGDIVIRQGDDGDFFYVIESGRYEASVEI-DGEDKLMHAYEDKGSFGELALLYN 60
+PV+ G V +G+ GD Y+I SG+ + DG + L+ FGEL++
Sbjct: 52 QPVDFPRGHTVFAEGEPGDRLYIIISGKVKIGRRAPDGRENLLTIMGPSDMFGELSIFDP 111
Query: 61 MPRAATIKATSTGSLWAMDR 80
PR ++ + +MDR
Sbjct: 112 GPRTSSATTITEVRAVSMDR 131
>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 = 34.3 bits (77), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 38/85 (44%), Gaps = 3/85 (3%)
Query: 4 KPVE--AGDIVIRQGDDGDFFYVIESGRYEASVEI-DGEDKLMHAYEDKGSFGELALLYN 60
+PV+ G V +G+ GD Y+I SG+ + DG + L+ FGEL++
Sbjct: 27 QPVDFPRGHTVFAEGEPGDRLYIIISGKVKIGRRAPDGRENLLTIMGPSDMFGELSIFDP 86
Query: 61 MPRAATIKATSTGSLWAMDRKTFYC 85
PR ++ + +MDR
Sbjct: 87 GPRTSSATTITEVRAVSMDRDALRS 111
>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 = 34.3 bits (77), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 38/80 (47%), Gaps = 3/80 (3%)
Query: 4 KPVE--AGDIVIRQGDDGDFFYVIESGRYEASVEI-DGEDKLMHAYEDKGSFGELALLYN 60
+PV+ G V +G+ GD Y+I SG+ + DG + L+ FGEL++
Sbjct: 28 QPVDFPRGHTVFAEGEPGDRLYIIISGKVKIGRRAPDGRENLLTIMGPSDMFGELSIFDP 87
Query: 61 MPRAATIKATSTGSLWAMDR 80
PR ++ + +MDR
Sbjct: 88 GPRTSSATTITEVRAVSMDR 107
>pdb|3I59|A Chain A, Crystal Structure Of Mtbcrp In Complex With N6-Camp
Length = 249
Score = 34.3 bits (77), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 38/80 (47%), Gaps = 3/80 (3%)
Query: 4 KPVE--AGDIVIRQGDDGDFFYVIESGRYEASVEI-DGEDKLMHAYEDKGSFGELALLYN 60
+PV+ G V +G+ GD Y+I SG+ + DG + L+ FGEL++
Sbjct: 52 QPVDFPRGHTVFAEGEPGDRLYIIISGKVKIGRRAPDGRENLLTIXGPSDMFGELSIFDP 111
Query: 61 MPRAATIKATSTGSLWAMDR 80
PR ++ + +MDR
Sbjct: 112 GPRTSSATTITEVRAVSMDR 131
>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 = 34.3 bits (77), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 38/85 (44%), Gaps = 3/85 (3%)
Query: 4 KPVE--AGDIVIRQGDDGDFFYVIESGRYEASVEI-DGEDKLMHAYEDKGSFGELALLYN 60
+PV+ G V +G+ GD Y+I SG+ + DG + L+ FGEL++
Sbjct: 30 QPVDFPRGHTVFAEGEPGDRLYIIISGKVKIGRRAPDGRENLLTIMGPSDMFGELSIFDP 89
Query: 61 MPRAATIKATSTGSLWAMDRKTFYC 85
PR ++ + +MDR
Sbjct: 90 GPRTSSATTITEVRAVSMDRDALRS 114
>pdb|2Z69|A Chain A, Crystal Structure Of The Sensor Domain Of The
Transcriptional Regulator Dnr From Pseudomonas
Aeruginosa
pdb|2Z69|B Chain B, Crystal Structure Of The Sensor Domain Of The
Transcriptional Regulator Dnr From Pseudomonas
Aeruginosa
pdb|2Z69|C Chain C, Crystal Structure Of The Sensor Domain Of The
Transcriptional Regulator Dnr From Pseudomonas
Aeruginosa
Length = 154
Score = 33.9 bits (76), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 39/84 (46%), Gaps = 2/84 (2%)
Query: 6 VEAGDIVIRQGDDGDFFYVIESGRYEA-SVEIDGEDKLMHAYEDKGSFGELALLYNMPR- 63
++ G V RQG+ FY + SG + + +G++K++ ++ +F E + + P
Sbjct: 40 LDKGAYVFRQGEPAHAFYYLISGCVKIYRLTPEGQEKILEVTNERNTFAEAMMFMDTPNY 99
Query: 64 AATIKATSTGSLWAMDRKTFYCNL 87
AT +A L+ K + L
Sbjct: 100 VATAQAVVPSQLFRFSNKAYLRQL 123
>pdb|3DKW|A Chain A, Crystal Structure Of Dnr From Pseudomonas Aeruginosa.
pdb|3DKW|B Chain B, Crystal Structure Of Dnr From Pseudomonas Aeruginosa.
pdb|3DKW|C Chain C, Crystal Structure Of Dnr From Pseudomonas Aeruginosa.
pdb|3DKW|D Chain D, Crystal Structure Of Dnr From Pseudomonas Aeruginosa.
pdb|3DKW|E Chain E, Crystal Structure Of Dnr From Pseudomonas Aeruginosa.
pdb|3DKW|F Chain F, Crystal Structure Of Dnr From Pseudomonas Aeruginosa.
pdb|3DKW|G Chain G, Crystal Structure Of Dnr From Pseudomonas Aeruginosa.
pdb|3DKW|H Chain H, Crystal Structure Of Dnr From Pseudomonas Aeruginosa.
pdb|3DKW|I Chain I, Crystal Structure Of Dnr From Pseudomonas Aeruginosa.
pdb|3DKW|J Chain J, Crystal Structure Of Dnr From Pseudomonas Aeruginosa
Length = 227
Score = 33.9 bits (76), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 39/84 (46%), Gaps = 2/84 (2%)
Query: 6 VEAGDIVIRQGDDGDFFYVIESGRYEA-SVEIDGEDKLMHAYEDKGSFGELALLYNMPR- 63
++ G V RQG+ FY + SG + + +G++K++ ++ +F E + + P
Sbjct: 37 LDKGAYVFRQGEPAHAFYYLISGCVKIYRLTPEGQEKILEVTNERNTFAEAMMFMDTPNY 96
Query: 64 AATIKATSTGSLWAMDRKTFYCNL 87
AT +A L+ K + L
Sbjct: 97 VATAQAVVPSQLFRFSNKAYLRQL 120
>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 = 32.3 bits (72), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 9 GDIVIRQGDDGDFFYVIESGRYE-ASVEIDGEDKLMHAYEDKGSFGELALLYNMPRAAT 66
G + +G+ GD Y+I SG+ + A DG + L+ FGEL++ PR ++
Sbjct: 57 GATIFDEGEPGDRLYIITSGKVKLARHAPDGRENLLTIMGPSDMFGELSIFDPGPRTSS 115
>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 = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 36/78 (46%), Gaps = 1/78 (1%)
Query: 9 GDIVIRQGDDGDFFYVIESGRYEA-SVEIDGEDKLMHAYEDKGSFGELALLYNMPRAATI 67
G + QGD G Y++ SG+ + G+++ + FGE++LL R+A+
Sbjct: 30 GKPIFYQGDLGQALYLVASGKVRLFRTHLGGQERTLALLGPGELFGEMSLLDEGERSASA 89
Query: 68 KATSTGSLWAMDRKTFYC 85
A L A+ R+ +
Sbjct: 90 VAVEDTELLALFREDYLA 107
>pdb|3KLK|A Chain A, Crystal Structure Of Lactobacillus Reuteri N-Terminally
Truncated Glucansucrase Gtf180 In Triclinic Apo- Form
Length = 1039
Score = 29.3 bits (64), Expect = 0.64, Method: Composition-based stats.
Identities = 19/50 (38%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 27 SGRYEASVEIDGEDKLMHAY-EDKGSFGELALLYNMPRAATIKATSTGSL 75
+G+ +D E K M AY D+ S + LYNMP A TI T+ S+
Sbjct: 412 TGKPYGEFNLDDEKKGMEAYINDQNSTNKKWNLYNMPSAYTILLTNKDSV 461
>pdb|3HZ3|A Chain A, Lactobacillus Reuteri N-Terminally Truncated Glucansucrase
Gtf180(D1025n)-Sucrose Complex
Length = 1039
Score = 29.3 bits (64), Expect = 0.64, Method: Composition-based stats.
Identities = 19/50 (38%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 27 SGRYEASVEIDGEDKLMHAY-EDKGSFGELALLYNMPRAATIKATSTGSL 75
+G+ +D E K M AY D+ S + LYNMP A TI T+ S+
Sbjct: 412 TGKPYGEFNLDDEKKGMEAYINDQNSTNKKWNLYNMPSAYTILLTNKDSV 461
>pdb|2D93|A Chain A, Solution Structure Of The Cnmp_binding Domain Of Human
Rap Guanine Nucleotide Exchange Factor 6
Length = 134
Score = 26.2 bits (56), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 20/33 (60%)
Query: 1 MFEKPVEAGDIVIRQGDDGDFFYVIESGRYEAS 33
+FE +AG I++ G + D +YVI +G E S
Sbjct: 40 IFEVVEQAGAIILEDGQELDSWYVILNGTVEIS 72
>pdb|1I6X|A Chain A, Structure Of A Star Mutant Crp-Camp At 2.2 A
pdb|1I6X|B Chain B, Structure Of A Star Mutant Crp-Camp At 2.2 A
Length = 209
Score = 26.2 bits (56), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 36/74 (48%), Gaps = 2/74 (2%)
Query: 12 VIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSF-GELALLYN-MPRAATIKA 69
+I QG+ + Y I G ++ + +++ +Y ++G F GEL L R+A ++A
Sbjct: 29 LIHQGEKAETLYYIVKGSVAVLIKHEEGKEMILSYLNQGDFIGELGLFEEGQERSAWVRA 88
Query: 70 TSTGSLWAMDRKTF 83
+ + + K F
Sbjct: 89 KTACEVAEISYKKF 102
>pdb|1O3Q|A Chain A, Protein-Dna Recognition And Dna Deformation Revealed In
Crystal Structures Of Cap-Dna Complexes
pdb|1O3R|A Chain A, Protein-Dna Recognition And Dna Deformation Revealed In
Crystal Structures Of Cap-Dna Complexes
pdb|1O3T|A Chain A, Protein-Dna Recognition And Dna Deformation Revealed In
Crystal Structures Of Cap-Dna Complexes
pdb|1O3T|B Chain B, Protein-Dna Recognition And Dna Deformation Revealed In
Crystal Structures Of Cap-Dna Complexes
Length = 200
Score = 25.4 bits (54), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 36/74 (48%), Gaps = 2/74 (2%)
Query: 12 VIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSF-GELALLYN-MPRAATIKA 69
+I QG+ + Y I G ++ + +++ +Y ++G F GEL L R+A ++A
Sbjct: 22 LIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGELGLFEEGQERSAWVRA 81
Query: 70 TSTGSLWAMDRKTF 83
+ + + K F
Sbjct: 82 KTACEVAEISYKKF 95
>pdb|1O3S|A Chain A, Protein-Dna Recognition And Dna Deformation Revealed In
Crystal Structures Of Cap-Dna Complexes
Length = 200
Score = 25.4 bits (54), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 36/74 (48%), Gaps = 2/74 (2%)
Query: 12 VIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSF-GELALLYN-MPRAATIKA 69
+I QG+ + Y I G ++ + +++ +Y ++G F GEL L R+A ++A
Sbjct: 22 LIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGELGLFEEGQERSAWVRA 81
Query: 70 TSTGSLWAMDRKTF 83
+ + + K F
Sbjct: 82 KTACEVAEISYKKF 95
>pdb|1HW5|A Chain A, The CapCRP VARIANT T127LS128A
pdb|1HW5|B Chain B, The CapCRP VARIANT T127LS128A
Length = 210
Score = 25.4 bits (54), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 36/74 (48%), Gaps = 2/74 (2%)
Query: 12 VIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSF-GELALLYN-MPRAATIKA 69
+I QG+ + Y I G ++ + +++ +Y ++G F GEL L R+A ++A
Sbjct: 30 LIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGELGLFEEGQERSAWVRA 89
Query: 70 TSTGSLWAMDRKTF 83
+ + + K F
Sbjct: 90 KTACEVAEISYKKF 103
>pdb|3FWE|A Chain A, Crystal Structure Of The Apo D138l Cap Mutant
pdb|3FWE|B Chain B, Crystal Structure Of The Apo D138l Cap Mutant
Length = 210
Score = 25.4 bits (54), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 36/74 (48%), Gaps = 2/74 (2%)
Query: 12 VIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSF-GELALLYN-MPRAATIKA 69
+I QG+ + Y I G ++ + +++ +Y ++G F GEL L R+A ++A
Sbjct: 30 LIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGELGLFEEGQERSAWVRA 89
Query: 70 TSTGSLWAMDRKTF 83
+ + + K F
Sbjct: 90 KTACEVAEISYKKF 103
>pdb|1CGP|A Chain A, Catabolite Gene Activator Protein (Cap)DNA COMPLEX +
Adenosine-3',5'-Cyclic-Monophosphate
pdb|1CGP|B Chain B, Catabolite Gene Activator Protein (Cap)DNA COMPLEX +
Adenosine-3',5'-Cyclic-Monophosphate
Length = 205
Score = 25.4 bits (54), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 36/74 (48%), Gaps = 2/74 (2%)
Query: 12 VIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSF-GELALLYN-MPRAATIKA 69
+I QG+ + Y I G ++ + +++ +Y ++G F GEL L R+A ++A
Sbjct: 29 LIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGELGLFEEGQERSAWVRA 88
Query: 70 TSTGSLWAMDRKTF 83
+ + + K F
Sbjct: 89 KTACEVAEISYKKF 102
>pdb|1RUO|A Chain A, Catabolite Gene Activator Protein (Cap) MutantDNA COMPLEX
+ Adenosine-3',5'-Cyclic-Monophosphate
pdb|1RUO|B Chain B, Catabolite Gene Activator Protein (Cap) MutantDNA COMPLEX
+ Adenosine-3',5'-Cyclic-Monophosphate
Length = 209
Score = 25.4 bits (54), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 36/74 (48%), Gaps = 2/74 (2%)
Query: 12 VIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSF-GELALLYN-MPRAATIKA 69
+I QG+ + Y I G ++ + +++ +Y ++G F GEL L R+A ++A
Sbjct: 29 LIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGELGLFEEGQERSAWVRA 88
Query: 70 TSTGSLWAMDRKTF 83
+ + + K F
Sbjct: 89 KTACEVAEISYKKF 102
>pdb|1RUN|A Chain A, Catabolite Gene Activator Protein (Cap)DNA COMPLEX +
Adenosine-3',5'-Cyclic-Monophosphate
pdb|1RUN|B Chain B, Catabolite Gene Activator Protein (Cap)DNA COMPLEX +
Adenosine-3',5'-Cyclic-Monophosphate
pdb|1J59|A Chain A, Catabolite Gene Activator Protein (Cap)DNA COMPLEX +
Adenosine-3',5'-Cyclic-Monophosphate
pdb|1J59|B Chain B, Catabolite Gene Activator Protein (Cap)DNA COMPLEX +
Adenosine-3',5'-Cyclic-Monophosphate
pdb|1LB2|A Chain A, Structure Of The E. Coli Alpha C-Terminal Domain Of Rna
Polymerase In Complex With Cap And Dna
pdb|1I5Z|A Chain A, Structure Of Crp-Camp At 1.9 A
pdb|1I5Z|B Chain B, Structure Of Crp-Camp At 1.9 A
pdb|1ZRC|A Chain A, 4 Crystal Structures Of Cap-Dna With All Base-Pair
Substitutions At Position 6, Cap-Icap38 Dna
pdb|1ZRC|B Chain B, 4 Crystal Structures Of Cap-Dna With All Base-Pair
Substitutions At Position 6, Cap-Icap38 Dna
pdb|1ZRD|A Chain A, 4 Crystal Structures Of Cap-dna With All Base-pair
Substitutions At Position 6, Cap-[6a;17t]icap38 Dna
pdb|1ZRD|B Chain B, 4 Crystal Structures Of Cap-dna With All Base-pair
Substitutions At Position 6, Cap-[6a;17t]icap38 Dna
pdb|1ZRE|A Chain A, 4 Crystal Structures Of Cap-Dna With All Base-Pair
Substitutions At Position 6, Cap-[6g;17c]icap38 Dna
pdb|1ZRE|B Chain B, 4 Crystal Structures Of Cap-Dna With All Base-Pair
Substitutions At Position 6, Cap-[6g;17c]icap38 Dna
pdb|1ZRF|A Chain A, 4 Crystal Structures Of Cap-Dna With All Base-Pair
Substitutions At Position 6, Cap-[6c;17g]icap38 Dna
pdb|1ZRF|B Chain B, 4 Crystal Structures Of Cap-Dna With All Base-Pair
Substitutions At Position 6, Cap-[6c;17g]icap38 Dna
pdb|2GZW|A Chain A, Crystal Structure Of The E.coli Crp-camp Complex
pdb|2GZW|B Chain B, Crystal Structure Of The E.coli Crp-camp Complex
pdb|2GZW|C Chain C, Crystal Structure Of The E.coli Crp-camp Complex
pdb|2GZW|D Chain D, Crystal Structure Of The E.coli Crp-camp Complex
pdb|2WC2|A Chain A, Nmr Structure Of Catabolite Activator Protein In The
Unliganded State
pdb|2WC2|B Chain B, Nmr Structure Of Catabolite Activator Protein In The
Unliganded State
pdb|3IYD|G Chain G, Three-Dimensional Em Structure Of An Intact
Activator-Dependent Transcription Initiation Complex
pdb|3IYD|H Chain H, Three-Dimensional Em Structure Of An Intact
Activator-Dependent Transcription Initiation Complex
pdb|3N4M|A Chain A, E. Coli Rna Polymerase Alpha Subunit C-Terminal Domain In
Complex With Cap And Dna
Length = 209
Score = 25.4 bits (54), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 36/74 (48%), Gaps = 2/74 (2%)
Query: 12 VIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSF-GELALLYN-MPRAATIKA 69
+I QG+ + Y I G ++ + +++ +Y ++G F GEL L R+A ++A
Sbjct: 29 LIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGELGLFEEGQERSAWVRA 88
Query: 70 TSTGSLWAMDRKTF 83
+ + + K F
Sbjct: 89 KTACEVAEISYKKF 102
>pdb|2CGP|A Chain A, Catabolite Gene Activator ProteinDNA COMPLEX,
ADENOSINE-3', 5'-Cyclic-Monophosphate
pdb|1G6N|A Chain A, 2.1 Angstrom Structure Of Cap-Camp
pdb|1G6N|B Chain B, 2.1 Angstrom Structure Of Cap-Camp
pdb|3HIF|A Chain A, The Crystal Structure Of Apo Wild Type Cap At 3.6 A
Resolution.
pdb|3HIF|B Chain B, The Crystal Structure Of Apo Wild Type Cap At 3.6 A
Resolution.
pdb|3HIF|C Chain C, The Crystal Structure Of Apo Wild Type Cap At 3.6 A
Resolution.
pdb|3HIF|D Chain D, The Crystal Structure Of Apo Wild Type Cap At 3.6 A
Resolution.
pdb|3HIF|E Chain E, The Crystal Structure Of Apo Wild Type Cap At 3.6 A
Resolution.
pdb|3HIF|F Chain F, The Crystal Structure Of Apo Wild Type Cap At 3.6 A
Resolution.
pdb|3RYP|A Chain A, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
pdb|3RYP|B Chain B, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
pdb|3RYR|A Chain A, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
pdb|3RYR|B Chain B, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
Length = 210
Score = 25.4 bits (54), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 36/74 (48%), Gaps = 2/74 (2%)
Query: 12 VIRQGDDGDFFYVIESGRYEASVEIDGEDKLMHAYEDKGSF-GELALLYN-MPRAATIKA 69
+I QG+ + Y I G ++ + +++ +Y ++G F GEL L R+A ++A
Sbjct: 30 LIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGELGLFEEGQERSAWVRA 89
Query: 70 TSTGSLWAMDRKTF 83
+ + + K F
Sbjct: 90 KTACEVAEISYKKF 103
>pdb|3NO2|A Chain A, Crystal Structure Of A Protein Of Unknown Function
(Baccac_01654) From Bacteroides Caccae At 1.35 A
Resolution
Length = 276
Score = 25.0 bits (53), Expect = 9.6, Method: Composition-based stats.
Identities = 11/31 (35%), Positives = 18/31 (58%)
Query: 28 GRYEASVEIDGEDKLMHAYEDKGSFGELALL 58
G++ VEID E K++ DK FG ++ +
Sbjct: 241 GKHPQLVEIDSEGKVVWQLNDKVKFGXISTI 271
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
0.319 0.137 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,774,110
Number of Sequences: 62578
Number of extensions: 104930
Number of successful extensions: 328
Number of sequences better than 100.0: 67
Number of HSP's better than 100.0 without gapping: 31
Number of HSP's successfully gapped in prelim test: 36
Number of HSP's that attempted gapping in prelim test: 255
Number of HSP's gapped (non-prelim): 80
length of query: 87
length of database: 14,973,337
effective HSP length: 55
effective length of query: 32
effective length of database: 11,531,547
effective search space: 369009504
effective search space used: 369009504
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)