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= psy14743
(86 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 = 85.9 bits (211), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 41/55 (74%), Positives = 47/55 (85%)
Query: 2 AILDNDFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVMEGKKYKVP 56
AILDNDFMKNL+++QI+EIVDCMYPVEY S IIKEGDVGS+VYVME K +V
Sbjct: 40 AILDNDFMKNLELSQIQEIVDCMYPVEYGKDSCIIKEGDVGSLVYVMEDGKVEVT 94
>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 = 85.1 bits (209), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 41/54 (75%), Positives = 47/54 (87%)
Query: 2 AILDNDFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVMEGKKYKV 55
AILDNDFMKNL+++QI+EIVDCMYPVEY S IIKEGDVGS+VYVME K +V
Sbjct: 24 AILDNDFMKNLELSQIQEIVDCMYPVEYGKDSCIIKEGDVGSLVYVMEDGKVEV 77
>pdb|3PVB|B Chain B, Crystal Structure Of (73-244)ria:c Holoenzyme Of
Camp-Dependent Protein Kinase
Length = 160
Score = 43.1 bits (100), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 29/48 (60%)
Query: 2 AILDNDFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVME 49
AI N +LD + +I D M+PV +IAG +I++GD G YV++
Sbjct: 46 AIEKNVLFSHLDDNERSDIFDAMFPVSFIAGETVIQQGDEGDNFYVID 93
>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 = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 29/48 (60%)
Query: 2 AILDNDFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVME 49
AI N +LD + +I D M+PV +IAG +I++GD G YV++
Sbjct: 39 AIEKNVLFSHLDDNERSDIFDAMFPVSFIAGETVIQQGDEGDNFYVID 86
>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 = 42.0 bits (97), Expect = 9e-05, Method: Composition-based stats.
Identities = 19/48 (39%), Positives = 29/48 (60%)
Query: 2 AILDNDFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVME 49
AI N +LD + +I D M+PV +IAG +I++GD G YV++
Sbjct: 38 AIEKNVLFSHLDDNERSDIFDAMFPVSFIAGETVIQQGDEGDNFYVID 85
>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 = 42.0 bits (97), Expect = 1e-04, Method: Composition-based stats.
Identities = 19/48 (39%), Positives = 29/48 (60%)
Query: 2 AILDNDFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVME 49
AI N +LD + +I D M+PV +IAG +I++GD G YV++
Sbjct: 36 AIEKNVLFSHLDDNERSDIFDAMFPVSFIAGETVIQQGDEGDNFYVID 83
>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 = 42.0 bits (97), Expect = 1e-04, Method: Composition-based stats.
Identities = 19/48 (39%), Positives = 29/48 (60%)
Query: 2 AILDNDFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVME 49
AI N +LD + +I D M+PV +IAG +I++GD G YV++
Sbjct: 40 AIEKNVLFSHLDDNERSDIFDAMFPVSFIAGETVIQQGDEGDNFYVID 87
>pdb|4DIN|B Chain B, Novel Localization And Quaternary Structure Of The Pka Ri
Beta Holoenzyme
Length = 381
Score = 38.1 bits (87), Expect = 0.001, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 29/48 (60%)
Query: 2 AILDNDFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVME 49
AI N +LD + +I D M+PV +IAG +I++G+ G YV++
Sbjct: 131 AISKNVLFAHLDDNERSDIFDAMFPVTHIAGETVIQQGNEGDNFYVVD 178
>pdb|3OF1|A Chain A, Crystal Structure Of Bcy1, The Yeast Regulatory Subunit
Of Pka
Length = 246
Score = 33.9 bits (76), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 26/45 (57%), Gaps = 1/45 (2%)
Query: 6 NDFMKN-LDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVME 49
N+F+ N LD R +++C+ G+ IIK+GD G YV+E
Sbjct: 11 NNFLFNKLDSDSKRLVINCLEEKSVPKGATIIKQGDQGDYFYVVE 55
>pdb|2QVS|B Chain B, Crystal Structure Of Type Iia Holoenzyme Of
Camp-Dependent Protein Kinase
Length = 310
Score = 32.3 bits (72), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 24/48 (50%)
Query: 8 FMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVMEGKKYKV 55
KNLD Q+ +++D M+ +I +GD G YV+E Y +
Sbjct: 45 LFKNLDQEQLSQVLDAMFEKIVKTDEHVIDQGDDGDNFYVIERGTYDI 92
>pdb|3TNQ|A Chain A, Structure And Allostery Of The Pka Riib Tetrameric
Holoenzyme
Length = 416
Score = 30.8 bits (68), Expect = 0.20, Method: Composition-based stats.
Identities = 14/48 (29%), Positives = 25/48 (52%)
Query: 8 FMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVMEGKKYKV 55
KNLD Q+ +++D M+ G +I +GD G YV++ + +
Sbjct: 152 LFKNLDPEQMSQVLDAMFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDI 199
Score = 29.3 bits (64), Expect = 0.51, Method: Composition-based stats.
Identities = 13/48 (27%), Positives = 29/48 (60%)
Query: 8 FMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVMEGKKYKV 55
F+K+L++++ ++VD + Y G II +GD+ +++E + K+
Sbjct: 274 FLKSLEVSERLKVVDVIGTKVYNDGEQIIAQGDLADSFFIVESGEVKI 321
>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 = 30.8 bits (68), Expect = 0.20, Method: Composition-based stats.
Identities = 14/48 (29%), Positives = 25/48 (52%)
Query: 8 FMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVMEGKKYKV 55
KNLD Q+ +++D M+ G +I +GD G YV++ + +
Sbjct: 152 LFKNLDPEQMSQVLDAMFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDI 199
Score = 29.3 bits (64), Expect = 0.51, Method: Composition-based stats.
Identities = 13/48 (27%), Positives = 29/48 (60%)
Query: 8 FMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVMEGKKYKV 55
F+K+L++++ ++VD + Y G II +GD+ +++E + K+
Sbjct: 274 FLKSLEVSERLKVVDVIGTKVYNDGEQIIAQGDLADSFFIVESGEVKI 321
>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 = 30.8 bits (68), Expect = 0.22, Method: Composition-based stats.
Identities = 14/48 (29%), Positives = 25/48 (52%)
Query: 8 FMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVMEGKKYKV 55
KNLD Q+ +++D M+ G +I +GD G YV++ + +
Sbjct: 41 LFKNLDPEQMSQVLDAMFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDI 88
Score = 27.3 bits (59), Expect = 2.3, Method: Composition-based stats.
Identities = 12/48 (25%), Positives = 28/48 (58%)
Query: 8 FMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVMEGKKYKV 55
F+K+L++++ ++VD + Y G II +GD +++E + ++
Sbjct: 163 FLKSLEVSERLKVVDVIGTKVYNDGEQIIAQGDSADSFFIVESGEVRI 210
>pdb|3IDC|B Chain B, Crystal Structure Of (102-265)riib:c Holoenzyme Of Camp-
Dependent Protein Kinase
Length = 164
Score = 30.4 bits (67), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 25/48 (52%)
Query: 8 FMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVMEGKKYKV 55
KNLD Q+ +++D M+ G +I +GD G YV++ + +
Sbjct: 51 LFKNLDPEQMSQVLDAMFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDI 98
>pdb|3IDB|B Chain B, Crystal Structure Of (108-268)riib:c Holoenzyme Of Camp-
Dependent Protein Kinase
Length = 161
Score = 30.4 bits (67), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 25/48 (52%)
Query: 8 FMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVMEGKKYKV 55
KNLD Q+ +++D M+ G +I +GD G YV++ + +
Sbjct: 45 LFKNLDPEQMSQVLDAMFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDI 92
>pdb|3OP3|A Chain A, Crystal Structure Of Cell Division Cycle 25c Protein
Isoform A From Homo Sapiens
Length = 216
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 8/15 (53%), Positives = 11/15 (73%)
Query: 20 IVDCMYPVEYIAGSI 34
++DC YP EY+ G I
Sbjct: 81 VIDCRYPYEYLGGHI 95
>pdb|3R6S|A Chain A, Crystal Structure Of Glxr Transcription Factor From
Corynebacterium Glutamicum With Camp
pdb|3R6S|B Chain B, Crystal Structure Of Glxr Transcription Factor From
Corynebacterium Glutamicum With Camp
pdb|3R6S|C Chain C, Crystal Structure Of Glxr Transcription Factor From
Corynebacterium Glutamicum With Camp
pdb|3R6S|D Chain D, Crystal Structure Of Glxr Transcription Factor From
Corynebacterium Glutamicum With Camp
pdb|3R6S|E Chain E, Crystal Structure Of Glxr Transcription Factor From
Corynebacterium Glutamicum With Camp
pdb|3R6S|F Chain F, Crystal Structure Of Glxr Transcription Factor From
Corynebacterium Glutamicum With Camp
Length = 247
Score = 26.6 bits (57), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 12/47 (25%), Positives = 24/47 (51%)
Query: 9 MKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVMEGKKYKV 55
+ +D T + ++ M V + G+ I EG+ G +Y++ K K+
Sbjct: 34 FQGVDPTAVNNLIQDMETVRFPRGATIFDEGEPGDRLYIITSGKVKL 80
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 0.139 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,637,779
Number of Sequences: 62578
Number of extensions: 89324
Number of successful extensions: 276
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 246
Number of HSP's gapped (non-prelim): 30
length of query: 86
length of database: 14,973,337
effective HSP length: 54
effective length of query: 32
effective length of database: 11,594,125
effective search space: 371012000
effective search space used: 371012000
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)