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= psy680
(122 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MF0|A Chain A, Crystal Structure Of Pde5a Gaf Domain (89-518)
pdb|3MF0|B Chain B, Crystal Structure Of Pde5a Gaf Domain (89-518)
Length = 432
Score = 61.2 bits (147), Expect = 1e-10, Method: Composition-based stats.
Identities = 31/91 (34%), Positives = 53/91 (58%)
Query: 1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
+ +V+DI+ LD+ +L K ++ L+ AD SLF V K L+S++FD+ G+
Sbjct: 65 LELVKDISSHLDVTALCHKIFLHIHGLISADRYSLFLVCEDSSNDKFLISRLFDVAEGST 124
Query: 61 LVYSTADEVEVPWGVGILGHVAVTGETVNLQ 91
L + + + + W GI+GHVA GE +N++
Sbjct: 125 LEEVSNNCIRLEWNKGIVGHVAALGEPLNIK 155
>pdb|3LFV|A Chain A, Crystal Structure Of Unliganded Pde5a Gaf Domain
pdb|3LFV|B Chain B, Crystal Structure Of Unliganded Pde5a Gaf Domain
Length = 431
Score = 61.2 bits (147), Expect = 1e-10, Method: Composition-based stats.
Identities = 31/91 (34%), Positives = 53/91 (58%)
Query: 1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
+ +V+DI+ LD+ +L K ++ L+ AD SLF V K L+S++FD+ G+
Sbjct: 64 LELVKDISSHLDVTALCHKIFLHIHGLISADRYSLFLVCEDSSNDKFLISRLFDVAEGST 123
Query: 61 LVYSTADEVEVPWGVGILGHVAVTGETVNLQ 91
L + + + + W GI+GHVA GE +N++
Sbjct: 124 LEEVSNNCIRLEWNKGIVGHVAALGEPLNIK 154
>pdb|3BJC|A Chain A, Crystal Structure Of The Pde5a Catalytic Domain In Complex
With A Novel Inhibitor
Length = 878
Score = 61.2 bits (147), Expect = 1e-10, Method: Composition-based stats.
Identities = 31/91 (34%), Positives = 53/91 (58%)
Query: 1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
+ +V+DI+ LD+ +L K ++ L+ AD SLF V K L+S++FD+ G+
Sbjct: 156 LELVKDISSHLDVTALCHKIFLHIHGLISADRYSLFLVCEDSSNDKFLISRLFDVAEGST 215
Query: 61 LVYSTADEVEVPWGVGILGHVAVTGETVNLQ 91
L + + + + W GI+GHVA GE +N++
Sbjct: 216 LEEVSNNCIRLEWNKGIVGHVAALGEPLNIK 246
>pdb|2K31|A Chain A, Solution Structure Of Cgmp-Binding Gaf Domain Of
Phosphodiesterase 5
Length = 176
Score = 53.5 bits (127), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 47/81 (58%)
Query: 11 LDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVE 70
+D+ +L K ++ L+ AD SLF V K L+S++FD+ G+ L ++ + +
Sbjct: 1 MDVTALCHKIFLHIHGLISADRYSLFLVCEDSSKDKFLISRLFDVAEGSTLEEASNNCIR 60
Query: 71 VPWGVGILGHVAVTGETVNLQ 91
+ W GI+GHVA GE +N++
Sbjct: 61 LEWNKGIVGHVAAFGEPLNIK 81
>pdb|3IBJ|A Chain A, X-Ray Structure Of Pde2a
pdb|3IBJ|B Chain B, X-Ray Structure Of Pde2a
Length = 691
Score = 41.2 bits (95), Expect = 1e-04, Method: Composition-based stats.
Identities = 28/81 (34%), Positives = 44/81 (54%), Gaps = 20/81 (24%)
Query: 21 VDNVSVLL-----------DADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEV 69
+D+VSVLL +A+ S+F +++ LV+KVFD G+V + E+
Sbjct: 194 LDDVSVLLQEIITEARNLSNAEICSVFLLDQNE-----LVAKVFD----GGVVDDESYEI 244
Query: 70 EVPWGVGILGHVAVTGETVNL 90
+P GI GHVA TG+ +N+
Sbjct: 245 RIPADQGIAGHVATTGQILNI 265
>pdb|1MC0|A Chain A, Regulatory Segment Of Mouse 3',5'-Cyclic Nucleotide
Phosphodiesterase 2a, Containing The Gaf A And Gaf B
Domains
Length = 368
Score = 40.8 bits (94), Expect = 2e-04, Method: Composition-based stats.
Identities = 28/81 (34%), Positives = 44/81 (54%), Gaps = 20/81 (24%)
Query: 21 VDNVSVLL-----------DADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEV 69
+D+VSVLL +A+ S+F +++ LV+KVFD G+V + E+
Sbjct: 194 LDDVSVLLQEIITEARNLSNAEICSVFLLDQNE-----LVAKVFD----GGVVDDESYEI 244
Query: 70 EVPWGVGILGHVAVTGETVNL 90
+P GI GHVA TG+ +N+
Sbjct: 245 RIPADQGIAGHVATTGQILNI 265
>pdb|1YKD|A Chain A, Crystal Structure Of The Tandem Gaf Domains From A
Cyanobacterial Adenylyl Cyclase: Novel Modes Of
Ligand-Binding And Dimerization
pdb|1YKD|B Chain B, Crystal Structure Of The Tandem Gaf Domains From A
Cyanobacterial Adenylyl Cyclase: Novel Modes Of
Ligand-Binding And Dimerization
Length = 398
Score = 36.2 bits (82), Expect = 0.004, Method: Composition-based stats.
Identities = 22/80 (27%), Positives = 40/80 (50%), Gaps = 10/80 (12%)
Query: 11 LDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVE 70
LDL+ K+ +D L++AD ++L+ ++R R +L + + E+
Sbjct: 213 LDLEDTLKRVMDEAKELMNADRSTLWLIDRDR----------HELWTKITQDNGSTKELR 262
Query: 71 VPWGVGILGHVAVTGETVNL 90
VP G G G VA +G+ +N+
Sbjct: 263 VPIGKGFAGIVAASGQKLNI 282
>pdb|3DBA|A Chain A, Crystal Structure Of The Cgmp-Bound Gaf A Domain From The
Photoreceptor Phosphodiesterase 6c
pdb|3DBA|B Chain B, Crystal Structure Of The Cgmp-Bound Gaf A Domain From The
Photoreceptor Phosphodiesterase 6c
Length = 180
Score = 29.3 bits (64), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 39/81 (48%), Gaps = 4/81 (4%)
Query: 13 LKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGL---VYSTADEV 69
++ + KT+ +S LL AD S+F R R G + +++ ++ + + + E
Sbjct: 23 MEKIVHKTLQRLSQLLAADRCSMFIC-RSRNGIPEVATRLLNVTPTSKFEDNLVNPDKET 81
Query: 70 EVPWGVGILGHVAVTGETVNL 90
P +GI G VA T + N+
Sbjct: 82 VFPLDIGIAGWVAHTKKFFNI 102
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 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,643,459
Number of Sequences: 62578
Number of extensions: 89887
Number of successful extensions: 246
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 239
Number of HSP's gapped (non-prelim): 13
length of query: 122
length of database: 14,973,337
effective HSP length: 84
effective length of query: 38
effective length of database: 9,716,785
effective search space: 369237830
effective search space used: 369237830
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)