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= psy5056
(182 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 85.9 bits (211), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 46/93 (49%), Positives = 64/93 (68%), Gaps = 13/93 (13%)
Query: 29 PPVARFNTRRKSVYAESYNPEDDEEDEGPKVIYPKSDEQRRSLAES------------DQ 76
P + RF TRR SV AE+YNP+++E+D ++I+PK+D+QR L E+ +Q
Sbjct: 102 PVINRF-TRRASVCAEAYNPDEEEDDAESRIIHPKTDDQRNRLQEACKDILLFKNLDPEQ 160
Query: 77 MNDVIDAMFEKPVEAGDIVIRQGDDGDFFYVIE 109
M+ V+DAMFEK V+ G+ VI QGDDGD FYVI+
Sbjct: 161 MSQVLDAMFEKLVKEGEHVIDQGDDGDNFYVID 193
Score = 35.4 bits (80), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 25/38 (65%)
Query: 119 VSVPDELRDILLEFTISYLLEQPSDVIEYGVDFFTKLK 156
+ +P L ++L FT+ L QP+D++E+ + FT+L+
Sbjct: 3 IEIPAGLTELLQGFTVEVLRHQPADLLEFALQHFTRLQ 40
Score = 28.5 bits (62), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 69 RSLAESDQMNDVIDAMFEKPVEAGDIVIRQGDDGDFFYVIES 110
+SL S+++ V+D + K G+ +I QGD D F+++ES
Sbjct: 276 KSLEVSERLK-VVDVIGTKVYNDGEQIIAQGDLADSFFIVES 316
>pdb|3IDC|B Chain B, Crystal Structure Of (102-265)riib:c Holoenzyme Of Camp-
Dependent Protein Kinase
Length = 164
Score = 85.1 bits (209), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 46/93 (49%), Positives = 64/93 (68%), Gaps = 13/93 (13%)
Query: 29 PPVARFNTRRKSVYAESYNPEDDEEDEGPKVIYPKSDEQRRSLAES------------DQ 76
P + RF TRR SV AE+YNP+++E+D ++I+PK+D+QR L E+ +Q
Sbjct: 1 PVINRF-TRRASVCAEAYNPDEEEDDAESRIIHPKTDDQRNRLQEACKDILLFKNLDPEQ 59
Query: 77 MNDVIDAMFEKPVEAGDIVIRQGDDGDFFYVIE 109
M+ V+DAMFEK V+ G+ VI QGDDGD FYVI+
Sbjct: 60 MSQVLDAMFEKLVKEGEHVIDQGDDGDNFYVID 92
>pdb|2QVS|B Chain B, Crystal Structure Of Type Iia Holoenzyme Of Camp-Dependent
Protein Kinase
Length = 310
Score = 84.3 bits (207), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 44/86 (51%), Positives = 60/86 (69%), Gaps = 12/86 (13%)
Query: 36 TRRKSVYAESYNPEDDEEDEGPKVIYPKSDEQRRSLAES------------DQMNDVIDA 83
TRR SV AE++NP+++EED P+V++PK+DEQR L E+ +Q++ V+DA
Sbjct: 1 TRRVSVCAETFNPDEEEEDNDPRVVHPKTDEQRCRLQEACKDILLFKNLDQEQLSQVLDA 60
Query: 84 MFEKPVEAGDIVIRQGDDGDFFYVIE 109
MFEK V+ + VI QGDDGD FYVIE
Sbjct: 61 MFEKIVKTDEHVIDQGDDGDNFYVIE 86
Score = 33.5 bits (75), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 33/53 (62%), Gaps = 7/53 (13%)
Query: 69 RSLAESDQMNDVIDAMFEKPVEAGDIVIRQGDDGDFFYVIESMNRAQLGKVSV 121
+SL S++M ++D + EK + G+ +I QG+ D FY+IES G+VS+
Sbjct: 169 KSLEMSERMK-IVDVIGEKIYKDGERIIAQGEKADSFYIIES------GEVSI 214
>pdb|3TNQ|A Chain A, Structure And Allostery Of The Pka Riib Tetrameric
Holoenzyme
Length = 416
Score = 84.3 bits (207), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 45/93 (48%), Positives = 63/93 (67%), Gaps = 13/93 (13%)
Query: 29 PPVARFNTRRKSVYAESYNPEDDEEDEGPKVIYPKSDEQRRSLAES------------DQ 76
P + RF TRR V AE+YNP+++E+D ++I+PK+D+QR L E+ +Q
Sbjct: 102 PVINRF-TRRAXVCAEAYNPDEEEDDAESRIIHPKTDDQRNRLQEACKDILLFKNLDPEQ 160
Query: 77 MNDVIDAMFEKPVEAGDIVIRQGDDGDFFYVIE 109
M+ V+DAMFEK V+ G+ VI QGDDGD FYVI+
Sbjct: 161 MSQVLDAMFEKLVKEGEHVIDQGDDGDNFYVID 193
Score = 35.4 bits (80), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 25/38 (65%)
Query: 119 VSVPDELRDILLEFTISYLLEQPSDVIEYGVDFFTKLK 156
+ +P L ++L FT+ L QP+D++E+ + FT+L+
Sbjct: 3 IEIPAGLTELLQGFTVEVLRHQPADLLEFALQHFTRLQ 40
Score = 28.5 bits (62), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 69 RSLAESDQMNDVIDAMFEKPVEAGDIVIRQGDDGDFFYVIES 110
+SL S+++ V+D + K G+ +I QGD D F+++ES
Sbjct: 276 KSLEVSERLK-VVDVIGTKVYNDGEQIIAQGDLADSFFIVES 316
>pdb|3IDB|B Chain B, Crystal Structure Of (108-268)riib:c Holoenzyme Of Camp-
Dependent Protein Kinase
Length = 161
Score = 82.8 bits (203), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 43/86 (50%), Positives = 60/86 (69%), Gaps = 12/86 (13%)
Query: 36 TRRKSVYAESYNPEDDEEDEGPKVIYPKSDEQRRSLAES------------DQMNDVIDA 83
TRR SV AE+YNP+++E+D ++I+PK+D+QR L E+ +QM+ V+DA
Sbjct: 1 TRRASVCAEAYNPDEEEDDAESRIIHPKTDDQRNRLQEACKDILLFKNLDPEQMSQVLDA 60
Query: 84 MFEKPVEAGDIVIRQGDDGDFFYVIE 109
MFEK V+ G+ VI QGDDGD FYVI+
Sbjct: 61 MFEKLVKEGEHVIDQGDDGDNFYVID 86
>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 = 77.4 bits (189), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 40/82 (48%), Positives = 57/82 (69%), Gaps = 12/82 (14%)
Query: 40 SVYAESYNPEDDEEDEGPKVIYPKSDEQRRSLAES------------DQMNDVIDAMFEK 87
SV AE+YNP+++E+D ++I+PK+D+QR L E+ +QM+ V+DAMFEK
Sbjct: 1 SVCAEAYNPDEEEDDAESRIIHPKTDDQRNRLQEACKDILLFKNLDPEQMSQVLDAMFEK 60
Query: 88 PVEAGDIVIRQGDDGDFFYVIE 109
V+ G+ VI QGDDGD FYVI+
Sbjct: 61 LVKEGEHVIDQGDDGDNFYVID 82
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 69 RSLAESDQMNDVIDAMFEKPVEAGDIVIRQGDDGDFFYVIES 110
+SL S+++ V+D + K G+ +I QGD D F+++ES
Sbjct: 165 KSLEVSERLK-VVDVIGTKVYNDGEQIIAQGDSADSFFIVES 205
>pdb|3PVB|B Chain B, Crystal Structure Of (73-244)ria:c Holoenzyme Of
Camp-Dependent Protein Kinase
Length = 160
Score = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 35/92 (38%), Positives = 49/92 (53%), Gaps = 14/92 (15%)
Query: 30 PVARFNTRRKSVYAESYNPEDDEEDEGPKVIYPKSDEQRRSLAESDQMN----------- 78
PV + RR ++ AE Y E+D KVI PK + +LA++ + N
Sbjct: 4 PVVKGRRRRGAISAEVYT-EEDAASYVRKVI-PKDYKTMAALAKAIEKNVLFSHLDDNER 61
Query: 79 -DVIDAMFEKPVEAGDIVIRQGDDGDFFYVIE 109
D+ DAMF AG+ VI+QGD+GD FYVI+
Sbjct: 62 SDIFDAMFPVSFIAGETVIQQGDEGDNFYVID 93
>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 = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 33/85 (38%), Positives = 46/85 (54%), Gaps = 14/85 (16%)
Query: 37 RRKSVYAESYNPEDDEEDEGPKVIYPKSDEQRRSLAESDQMN------------DVIDAM 84
RR ++ AE Y E+D KVI PK + +LA++ + N D+ DAM
Sbjct: 5 RRGAISAEVYT-EEDAASYVRKVI-PKDYKTMAALAKAIEKNVLFSHLDDNERSDIFDAM 62
Query: 85 FEKPVEAGDIVIRQGDDGDFFYVIE 109
F AG+ VI+QGD+GD FYVI+
Sbjct: 63 FPVSFIAGETVIQQGDEGDNFYVID 87
>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 = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 33/85 (38%), Positives = 46/85 (54%), Gaps = 14/85 (16%)
Query: 37 RRKSVYAESYNPEDDEEDEGPKVIYPKSDEQRRSLAESDQMN------------DVIDAM 84
RR ++ AE Y E+D KVI PK + +LA++ + N D+ DAM
Sbjct: 1 RRGAISAEVYT-EEDAASYVRKVI-PKDYKTMAALAKAIEKNVLFSHLDDNERSDIFDAM 58
Query: 85 FEKPVEAGDIVIRQGDDGDFFYVIE 109
F AG+ VI+QGD+GD FYVI+
Sbjct: 59 FPVSFIAGETVIQQGDEGDNFYVID 83
>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 = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 33/85 (38%), Positives = 46/85 (54%), Gaps = 14/85 (16%)
Query: 37 RRKSVYAESYNPEDDEEDEGPKVIYPKSDEQRRSLAESDQMN------------DVIDAM 84
RR ++ AE Y E+D KVI PK + +LA++ + N D+ DAM
Sbjct: 3 RRGAISAEVYT-EEDAASYVRKVI-PKDYKTMAALAKAIEKNVLFSHLDDNERSDIFDAM 60
Query: 85 FEKPVEAGDIVIRQGDDGDFFYVIE 109
F AG+ VI+QGD+GD FYVI+
Sbjct: 61 FPVSFIAGETVIQQGDEGDNFYVID 85
>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 = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 33/85 (38%), Positives = 46/85 (54%), Gaps = 14/85 (16%)
Query: 37 RRKSVYAESYNPEDDEEDEGPKVIYPKSDEQRRSLAESDQMN------------DVIDAM 84
RR ++ AE Y E+D KVI PK + +LA++ + N D+ DAM
Sbjct: 4 RRGAISAEVYT-EEDAASYVRKVI-PKDYKTMAALAKAIEKNVLFSHLDDNERSDIFDAM 61
Query: 85 FEKPVEAGDIVIRQGDDGDFFYVIE 109
F AG+ VI+QGD+GD FYVI+
Sbjct: 62 FPVSFIAGETVIQQGDEGDNFYVID 86
>pdb|4DIN|B Chain B, Novel Localization And Quaternary Structure Of The Pka Ri
Beta Holoenzyme
Length = 381
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 33/92 (35%), Positives = 49/92 (53%), Gaps = 14/92 (15%)
Query: 30 PVARFNTRRKSVYAESYNPEDDEEDEGPKVIYPKSDEQRRSLAES------------DQM 77
PV + RR V AE Y E+D KVI PK + +LA++ ++
Sbjct: 89 PVVKARRRRGGVSAEVYT-EEDAVSYVRKVI-PKDYKTMTALAKAISKNVLFAHLDDNER 146
Query: 78 NDVIDAMFEKPVEAGDIVIRQGDDGDFFYVIE 109
+D+ DAMF AG+ VI+QG++GD FYV++
Sbjct: 147 SDIFDAMFPVTHIAGETVIQQGNEGDNFYVVD 178
>pdb|3TMH|B Chain B, Crystal Structure Of Dual-Specific A-Kinase Anchoring
Protein 2 In Complex With Camp-Dependent Protein Kinase
A Type Ii Alpha And Pdzk1
pdb|3TMH|C Chain C, Crystal Structure Of Dual-Specific A-Kinase Anchoring
Protein 2 In Complex With Camp-Dependent Protein Kinase
A Type Ii Alpha And Pdzk1
pdb|3TMH|F Chain F, Crystal Structure Of Dual-Specific A-Kinase Anchoring
Protein 2 In Complex With Camp-Dependent Protein Kinase
A Type Ii Alpha And Pdzk1
pdb|3TMH|G Chain G, Crystal Structure Of Dual-Specific A-Kinase Anchoring
Protein 2 In Complex With Camp-Dependent Protein Kinase
A Type Ii Alpha And Pdzk1
Length = 48
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 32/47 (68%)
Query: 114 AQLGKVSVPDELRDILLEFTISYLLEQPSDVIEYGVDFFTKLKLNRR 160
+ +G + +P L ++L +T+ L +QP D++++ V++FT+L+ RR
Sbjct: 2 SHMGHIQIPPGLTELLQGYTVEVLRQQPPDLVDFAVEYFTRLREARR 48
>pdb|1L6E|A Chain A, Solution Structure Of The Docking And Dimerization Domain
Of Protein Kinase A Ii-Alpha (Riialpha DD).
ALTERNATIVELY Called The N-Terminal Dimerization Domain
Of The Regulatory Subunit Of Protein Kinase A.
pdb|1L6E|B Chain B, Solution Structure Of The Docking And Dimerization Domain
Of Protein Kinase A Ii-Alpha (Riialpha DD).
ALTERNATIVELY Called The N-Terminal Dimerization Domain
Of The Regulatory Subunit Of Protein Kinase A.
pdb|1R2A|A Chain A, The Molecular Basis For Protein Kinase A Anchoring
Revealed By Solution Nmr
pdb|1R2A|B Chain B, The Molecular Basis For Protein Kinase A Anchoring
Revealed By Solution Nmr
pdb|2DRN|A Chain A, Docking And Dimerization Domain (DD) OF THE TYPE II-Alpha
Regulatory Subunity Of Protein Kinase A (Pka) In Complex
With A Peptide From An A-Kinase Anchoring Protein
pdb|2DRN|B Chain B, Docking And Dimerization Domain (DD) OF THE TYPE II-Alpha
Regulatory Subunity Of Protein Kinase A (Pka) In Complex
With A Peptide From An A-Kinase Anchoring Protein
pdb|2H9R|A Chain A, Docking And Dimerization Domain (DD) OF THE REGULATORY
Subunit Of The Type Ii-Alpha Camp-Dependent Protein
Kinase A Associated With A Peptide Derived From An
A-Kinase Anchoring Protein (Akap)
pdb|2H9R|B Chain B, Docking And Dimerization Domain (DD) OF THE REGULATORY
Subunit Of The Type Ii-Alpha Camp-Dependent Protein
Kinase A Associated With A Peptide Derived From An
A-Kinase Anchoring Protein (Akap)
Length = 46
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 31/46 (67%)
Query: 115 QLGKVSVPDELRDILLEFTISYLLEQPSDVIEYGVDFFTKLKLNRR 160
+G + +P L ++L +T+ L +QP D++++ V++FT+L+ RR
Sbjct: 1 HMGHIQIPPGLTELLQGYTVEVLRQQPPDLVDFAVEYFTRLREARR 46
>pdb|3OF1|A Chain A, Crystal Structure Of Bcy1, The Yeast Regulatory Subunit Of
Pka
Length = 246
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 25/37 (67%)
Query: 73 ESDQMNDVIDAMFEKPVEAGDIVIRQGDDGDFFYVIE 109
+SD VI+ + EK V G +I+QGD GD+FYV+E
Sbjct: 19 DSDSKRLVINCLEEKSVPKGATIIKQGDQGDYFYVVE 55
Score = 31.2 bits (69), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 26/41 (63%), Gaps = 1/41 (2%)
Query: 69 RSLAESDQMNDVIDAMFEKPVEAGDIVIRQGDDGDFFYVIE 109
+SL D+ + DA+ K + G+ +IR+GD G+ FY+IE
Sbjct: 134 KSLTTYDRAK-LADALDTKIYQPGETIIREGDQGENFYLIE 173
>pdb|2IZY|A Chain A, Molecular Basis Of Akap Specificity For Pka Regulatory
Subunits
pdb|2IZY|B Chain B, Molecular Basis Of Akap Specificity For Pka Regulatory
Subunits
pdb|2IZY|C Chain C, Molecular Basis Of Akap Specificity For Pka Regulatory
Subunits
pdb|2IZY|D Chain D, Molecular Basis Of Akap Specificity For Pka Regulatory
Subunits
pdb|2IZY|E Chain E, Molecular Basis Of Akap Specificity For Pka Regulatory
Subunits
pdb|2IZY|F Chain F, Molecular Basis Of Akap Specificity For Pka Regulatory
Subunits
pdb|2IZY|G Chain G, Molecular Basis Of Akap Specificity For Pka Regulatory
Subunits
pdb|2IZY|H Chain H, Molecular Basis Of Akap Specificity For Pka Regulatory
Subunits
Length = 54
Score = 40.8 bits (94), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 31/45 (68%)
Query: 116 LGKVSVPDELRDILLEFTISYLLEQPSDVIEYGVDFFTKLKLNRR 160
+G + +P L ++L +T+ L +QP D++++ V++FT+L+ RR
Sbjct: 1 MGHIQIPPGLTELLQGYTVEVLRQQPPDLVDFAVEYFTRLREARR 45
>pdb|2HWN|A Chain A, Crystal Structure Of Rii Alpha DimerizationDOCKING DOMAIN
OF PKA Bound To The D-Akap2 Peptide
pdb|2HWN|B Chain B, Crystal Structure Of Rii Alpha DimerizationDOCKING DOMAIN
OF PKA Bound To The D-Akap2 Peptide
pdb|2HWN|C Chain C, Crystal Structure Of Rii Alpha DimerizationDOCKING DOMAIN
OF PKA Bound To The D-Akap2 Peptide
pdb|2HWN|D Chain D, Crystal Structure Of Rii Alpha DimerizationDOCKING DOMAIN
OF PKA Bound To The D-Akap2 Peptide
Length = 45
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 30/45 (66%)
Query: 116 LGKVSVPDELRDILLEFTISYLLEQPSDVIEYGVDFFTKLKLNRR 160
+ + +P L ++L +T+ L +QP D++++ V++FT+L+ RR
Sbjct: 1 MSHIQIPPGLTELLQGYTVEVLRQQPPDLVDFAVEYFTRLREARR 45
>pdb|2KYG|A Chain A, Structure Of The Aml1-Eto Nervy Domain - Pka(Riia) Complex
And Its Contribution To Aml1-Eto Activity
pdb|2KYG|B Chain B, Structure Of The Aml1-Eto Nervy Domain - Pka(Riia) Complex
And Its Contribution To Aml1-Eto Activity
Length = 50
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 29/46 (63%)
Query: 114 AQLGKVSVPDELRDILLEFTISYLLEQPSDVIEYGVDFFTKLKLNR 159
+ + +P L ++L +T+ L +QP D++E+ V++FT+L+ R
Sbjct: 4 GSMSHIQIPPGLTELLQGYTVEVLRQQPPDLVEFAVEYFTRLREAR 49
>pdb|2IZX|A Chain A, Molecular Basis Of Akap Specificity For Pka Regulatory
Subunits
pdb|2IZX|B Chain B, Molecular Basis Of Akap Specificity For Pka Regulatory
Subunits
Length = 41
Score = 37.0 bits (84), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 28/41 (68%)
Query: 119 VSVPDELRDILLEFTISYLLEQPSDVIEYGVDFFTKLKLNR 159
+ +P L ++L +T+ L +QP D++E+ V++FT+L+ R
Sbjct: 1 IQIPPGLTELLQGYTVEVLRQQPPDLVEFAVEYFTRLREAR 41
>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 = 33.9 bits (76), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 37/78 (47%), Gaps = 22/78 (28%)
Query: 61 YPKSDEQRRSLAES------------DQMNDVIDAMFEKPVEAG--DIVIRQGDDGDFFY 106
YPKS + + + E+ Q+ +++D M+ PVE G +I++GD G Y
Sbjct: 11 YPKSPQSKDLIKEAILDNDFMKNLELSQIQEIVDCMY--PVEYGKDSCIIKEGDVGSLVY 68
Query: 107 VIESMNRAQLGKVSVPDE 124
V+E GKV V E
Sbjct: 69 VMED------GKVEVTKE 80
>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 = 32.0 bits (71), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 29/54 (53%), Gaps = 10/54 (18%)
Query: 73 ESDQMNDVIDAMFEKPVEAG--DIVIRQGDDGDFFYVIESMNRAQLGKVSVPDE 124
E Q+ +++D M+ PVE G +I++GD G YV+E GKV V E
Sbjct: 51 ELSQIQEIVDCMY--PVEYGKDSCIIKEGDVGSLVYVMED------GKVEVTKE 96
Score = 30.0 bits (66), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 6/48 (12%)
Query: 77 MNDVIDAMFEKPVEAGDIVIRQGDDGDFFYVIESMNRAQLGKVSVPDE 124
++ + D + E E G+ +IRQG GD F++I GKV+V E
Sbjct: 173 LSKLADVLEETHYENGEYIIRQGARGDTFFIISK------GKVNVTRE 214
>pdb|1L8K|A Chain A, T Cell Protein-Tyrosine Phosphatase Structure
Length = 314
Score = 30.4 bits (67), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 24/99 (24%), Positives = 42/99 (42%), Gaps = 19/99 (19%)
Query: 28 EPPVARFNTRRKSVYAESYNPEDDEEDEGPKVIYPKSDEQRRSLAESDQMNDVIDAMFEK 87
E P + N K + S NP D GP VI+ + R ++D
Sbjct: 187 ESPASFLNFLFKVRESGSLNP-----DHGPAVIHCSAGIGRSGTF------SLVDTCL-- 233
Query: 88 PVEAGDIVIRQGDDGDFFYVIESMNRAQLGKVSVPDELR 126
+++ +GDD + V+ +M + ++G + PD+LR
Sbjct: 234 ------VLMEKGDDINIKQVLLNMRKYRMGLIQTPDQLR 266
>pdb|2Q0O|C Chain C, Crystal Structure Of An Anti-activation Complex In
Bacterial Quorum Sensing
pdb|2Q0O|D Chain D, Crystal Structure Of An Anti-activation Complex In
Bacterial Quorum Sensing
Length = 107
Score = 26.6 bits (57), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 29/50 (58%), Gaps = 5/50 (10%)
Query: 39 KSVYAESYNPEDDEEDEGPKVIYPKSDE----QRRSLAESDQMNDVIDAM 84
++VY E DD GP V+ DE Q+RS A+ ++++D++DA+
Sbjct: 47 QAVYEEWLRASDDPSISGP-VLQTLQDEYVARQKRSEAQQEELSDILDAL 95
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
0.316 0.135 0.379
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,740,703
Number of Sequences: 62578
Number of extensions: 190439
Number of successful extensions: 585
Number of sequences better than 100.0: 32
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 545
Number of HSP's gapped (non-prelim): 44
length of query: 182
length of database: 14,973,337
effective HSP length: 93
effective length of query: 89
effective length of database: 9,153,583
effective search space: 814668887
effective search space used: 814668887
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 48 (23.1 bits)