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= psy16934
(96 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1POC|A Chain A, Crystal Structure Of Bee-venom Phospholipase A2 In A
Complex With A Transition-state Analogue
Length = 134
Score = 53.1 bits (126), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 23/53 (43%), Positives = 33/53 (62%)
Query: 22 TKWCGTGDIARDISDTGIFHDIDSCCRDHDLCPENIVAKSTKYNLTNDGSFTR 74
T WCG G+ + ++ G F D+CCR HD+CP+ + A +K+ LTN S TR
Sbjct: 6 TLWCGHGNKSSGPNELGRFKHTDACCRTHDMCPDVMSAGESKHGLTNTASHTR 58
>pdb|4EAG|A Chain A, Co-Crystal Structure Of An Chimeric Ampk Core With Atp
Length = 130
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/29 (62%), Positives = 20/29 (68%)
Query: 1 MSLQLYQVGYKNYLLDFKSIRTKWCGTGD 29
MSLQLYQV K+YLLDFKS+ GD
Sbjct: 59 MSLQLYQVDAKSYLLDFKSLTNDEVEQGD 87
>pdb|2Y94|A Chain A, Structure Of An Active Form Of Mammalian Ampk
Length = 476
Score = 35.0 bits (79), Expect = 0.010, Method: Composition-based stats.
Identities = 15/20 (75%), Positives = 17/20 (85%)
Query: 1 MSLQLYQVGYKNYLLDFKSI 20
MSLQLYQV + YLLDF+SI
Sbjct: 449 MSLQLYQVDSRTYLLDFRSI 468
>pdb|2Y8L|A Chain A, Structure Of The Regulatory Fragment Of Mammalian Ampk
In Complex With Two Adp
pdb|2Y8Q|A Chain A, Structure Of The Regulatory Fragment Of Mammalian Ampk
In Complex With One Adp
pdb|2YA3|A Chain A, Structure Of The Regulatory Fragment Of Mammalian Ampk
In Complex With Coumarin Adp
Length = 173
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 15/20 (75%), Positives = 17/20 (85%)
Query: 1 MSLQLYQVGYKNYLLDFKSI 20
MSLQLYQV + YLLDF+SI
Sbjct: 70 MSLQLYQVDSRTYLLDFRSI 89
>pdb|2V8Q|A Chain A, Crystal Structure Of The Regulatory Fragment Of
Mammalian Ampk In Complexes With Amp
pdb|2V92|A Chain A, Crystal Structure Of The Regulatory Fragment Of
Mammalian Ampk In Complexes With Atp-Amp
pdb|2V9J|A Chain A, Crystal Structure Of The Regulatory Fragment Of
Mammalian Ampk In Complexes With Mg.Atp-Amp
Length = 157
Score = 34.7 bits (78), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 15/20 (75%), Positives = 17/20 (85%)
Query: 1 MSLQLYQVGYKNYLLDFKSI 20
MSLQLYQV + YLLDF+SI
Sbjct: 56 MSLQLYQVDSRTYLLDFRSI 75
>pdb|4EAI|A Chain A, Co-Crystal Structure Of An Ampk Core With Amp
pdb|4EAJ|A Chain A, Co-Crystal Of Ampk Core With Amp Soaked With Atp
pdb|4EAK|A Chain A, Co-Crystal Structure Of An Ampk Core With Atp
pdb|4EAL|A Chain A, Co-Crystal Of Ampk Core With Atp Soaked With Amp
Length = 106
Score = 33.5 bits (75), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 15/20 (75%), Positives = 17/20 (85%)
Query: 1 MSLQLYQVGYKNYLLDFKSI 20
MSLQLYQV + YLLDF+SI
Sbjct: 59 MSLQLYQVDSRTYLLDFRSI 78
>pdb|2QLV|A Chain A, Crystal Structure Of The Heterotrimer Core Of The S.
Cerevisiae Ampk Homolog Snf1
pdb|2QLV|D Chain D, Crystal Structure Of The Heterotrimer Core Of The S.
Cerevisiae Ampk Homolog Snf1
Length = 171
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 1 MSLQLYQVGYKNYLLDFK 18
M +QL+Q+ NYL+DFK
Sbjct: 109 MVIQLFQIETNNYLVDFK 126
>pdb|3T4N|A Chain A, Structure Of The Regulatory Fragment Of Saccharomyces
Cerevisiae Ampk In Complex With Adp
pdb|3TDH|A Chain A, Structure Of The Regulatory Fragment Of Sccharomyces
Cerevisiae Ampk In Complex With Amp
pdb|3TE5|A Chain A, Structure Of The Regulatory Fragment Of Sacchromyces
Cerevisiae Ampk In Complex With Nadh
Length = 179
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 1 MSLQLYQVGYKNYLLDFK 18
M +QL+Q+ NYL+DFK
Sbjct: 114 MVIQLFQIETNNYLVDFK 131
>pdb|2F68|X Chain X, Crystal Structure Of Collagen Adhesin (Cna) From S. Aureus
Length = 313
Score = 26.6 bits (57), Expect = 4.3, Method: Composition-based stats.
Identities = 14/46 (30%), Positives = 24/46 (52%)
Query: 51 DLCPENIVAKSTKYNLTNDGSFTRRLRKFYWEKQGGEQLTLTSLAI 96
D+ PE+ N+ N+ S+ + + QGG+QL L++L I
Sbjct: 158 DMLPEDTTHVRWFLNINNEKSYVSKDITIKDQIQGGQQLDLSTLNI 203
>pdb|2F6A|A Chain A, Collagen Adhesin And Collagen Complex Structure
pdb|2F6A|B Chain B, Collagen Adhesin And Collagen Complex Structure
pdb|2F6A|C Chain C, Collagen Adhesin And Collagen Complex Structure
pdb|2F6A|D Chain D, Collagen Adhesin And Collagen Complex Structure
Length = 303
Score = 26.2 bits (56), Expect = 4.5, Method: Composition-based stats.
Identities = 14/46 (30%), Positives = 24/46 (52%)
Query: 51 DLCPENIVAKSTKYNLTNDGSFTRRLRKFYWEKQGGEQLTLTSLAI 96
D+ PE+ N+ N+ S+ + + QGG+QL L++L I
Sbjct: 152 DMLPEDTTHVRWFLNINNEKSYVSKDITIKDQIQGGQQLDLSTLNI 197
>pdb|4EGD|A Chain A, 1.85 Angstrom Crystal Structure Of Native Hypothetical
Protein Saouhsc_02783 From Staphylococcus Aureus
pdb|4EGD|B Chain B, 1.85 Angstrom Crystal Structure Of Native Hypothetical
Protein Saouhsc_02783 From Staphylococcus Aureus
Length = 260
Score = 25.8 bits (55), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 33/70 (47%), Gaps = 8/70 (11%)
Query: 18 KSIRTKWCGTGDIARDISD------TGIFHDIDSCCRDHDLC-PENIVAKSTKYNLTNDG 70
K I TK + ++I + G F DI+ +D D+ N+ + S KY L ND
Sbjct: 133 KIIPTKPLPNDKLKKEIENFKFFVQYGNFKDINDY-KDGDISYNPNVPSYSAKYQLNNDD 191
Query: 71 SFTRRLRKFY 80
++LRK Y
Sbjct: 192 YNVQQLRKRY 201
>pdb|4EG9|A Chain A, 1.9 Angstrom Resolution Crystal Structure Of Se-Methionine
Hypothetical Protein Saouhsc_02783 From Staphylococcus
Aureus
Length = 260
Score = 25.8 bits (55), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 33/70 (47%), Gaps = 8/70 (11%)
Query: 18 KSIRTKWCGTGDIARDISD------TGIFHDIDSCCRDHDLC-PENIVAKSTKYNLTNDG 70
K I TK + ++I + G F DI+ +D D+ N+ + S KY L ND
Sbjct: 133 KIIPTKPLPNDKLKKEIENFKFFVQYGNFKDINDY-KDGDISYNPNVPSYSAKYQLNNDD 191
Query: 71 SFTRRLRKFY 80
++LRK Y
Sbjct: 192 YNVQQLRKRY 201
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
0.322 0.138 0.438
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,995,504
Number of Sequences: 62578
Number of extensions: 108973
Number of successful extensions: 295
Number of sequences better than 100.0: 42
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 30
Number of HSP's that attempted gapping in prelim test: 282
Number of HSP's gapped (non-prelim): 42
length of query: 96
length of database: 14,973,337
effective HSP length: 62
effective length of query: 34
effective length of database: 11,093,501
effective search space: 377179034
effective search space used: 377179034
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)