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= 028871
(202 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2F15|A Chain A, Glycogen-Binding Domain Of The Amp-Activated Protein
Kinase Beta2 Subunit
Length = 96
Score = 77.4 bits (189), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 36/96 (37%), Positives = 55/96 (57%)
Query: 9 AASNPLEKGVPTIITWNYGGNEVAVEGSWDNWTSRRILHRSGKDHSILLVLPSGVYHYKF 68
+ P ++ PT+I W+ GG EV + GS++NW+++ L +S D +L LP G + YKF
Sbjct: 1 GSVKPTQQARPTVIRWSEGGKEVFISGSFNNWSTKIPLIKSHNDFVAILDLPEGEHQYKF 60
Query: 69 IVDGDWRYIPDLPFVADELGGVCNLLDVHSCVPEIL 104
VDG W + P P V +LG + NL+ V E+
Sbjct: 61 FVDGQWVHDPSEPVVTSQLGTINNLIHVKKSDFEVF 96
>pdb|1Z0M|A Chain A, The Glycogen-Binding Domain Of The Amp-Activated Protein
Kinase Beta1 Subunit
pdb|1Z0M|B Chain B, The Glycogen-Binding Domain Of The Amp-Activated Protein
Kinase Beta1 Subunit
pdb|1Z0M|C Chain C, The Glycogen-Binding Domain Of The Amp-Activated Protein
Kinase Beta1 Subunit
Length = 96
Score = 70.5 bits (171), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 35/86 (40%), Positives = 48/86 (55%), Gaps = 1/86 (1%)
Query: 19 PTIITWNYGGNEVAVEGSWDNWTSRRILHRSGKDHSILLVLPSGVYHYKFIVDGDWRYIP 78
PT+ W GG EV + GS++NW S+ L RS + +L LP G + YKF VDG W + P
Sbjct: 12 PTVFRWTGGGKEVYLSGSFNNW-SKLPLTRSQNNFVAILDLPEGEHQYKFFVDGQWTHDP 70
Query: 79 DLPFVADELGGVCNLLDVHSCVPEIL 104
P V +LG V N++ V E+
Sbjct: 71 SEPIVTSQLGTVNNIIQVKKTDFEVF 96
>pdb|1Z0N|A Chain A, The Glycogen-Binding Domain Of The Amp-Activated Protein
Kinase
pdb|1Z0N|B Chain B, The Glycogen-Binding Domain Of The Amp-Activated Protein
Kinase
pdb|1Z0N|C Chain C, The Glycogen-Binding Domain Of The Amp-Activated Protein
Kinase
Length = 96
Score = 68.6 bits (166), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 34/86 (39%), Positives = 47/86 (54%), Gaps = 1/86 (1%)
Query: 19 PTIITWNYGGNEVAVEGSWDNWTSRRILHRSGKDHSILLVLPSGVYHYKFIVDGDWRYIP 78
PT+ W GG EV + GS++NW S+ RS + +L LP G + YKF VDG W + P
Sbjct: 12 PTVFRWTGGGKEVYLSGSFNNW-SKLPXTRSQNNFVAILDLPEGEHQYKFFVDGQWTHDP 70
Query: 79 DLPFVADELGGVCNLLDVHSCVPEIL 104
P V +LG V N++ V E+
Sbjct: 71 SEPIVTSQLGTVNNIIQVKKTDFEVF 96
>pdb|2QLV|B Chain B, Crystal Structure Of The Heterotrimer Core Of The S.
Cerevisiae Ampk Homolog Snf1
pdb|2QLV|E Chain E, Crystal Structure Of The Heterotrimer Core Of The S.
Cerevisiae Ampk Homolog Snf1
Length = 252
Score = 50.4 bits (119), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 29/86 (33%), Positives = 45/86 (52%), Gaps = 9/86 (10%)
Query: 18 VPTIITWNYGGNEVAVEGSWDNWTSRRIL------HRSGKDHSILLVLPSGVYHYKFIVD 71
VP I W GG++V V GS+ W R+++ +G H L +LP G + ++FIVD
Sbjct: 4 VPVEIRWQQGGSKVYVTGSFTKW--RKMIGLIPDSDNNGSFHVKLRLLP-GTHRFRFIVD 60
Query: 72 GDWRYIPDLPFVADELGGVCNLLDVH 97
+ R LP D++G N ++V
Sbjct: 61 NELRVSDFLPTATDQMGNFVNYIEVR 86
Score = 31.6 bits (70), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 24/41 (58%), Gaps = 2/41 (4%)
Query: 159 PKHVVLNHVFVDDGWKSKSVVALGLTHRFQSKYVTVVLYKP 199
P HVVLNH+ V K ++ + R++ KYVT +LY P
Sbjct: 213 PNHVVLNHL-VTSSIKHNTLCVASIV-RYKQKYVTQILYTP 251
>pdb|4EAI|B Chain B, Co-Crystal Structure Of An Ampk Core With Amp
pdb|4EAJ|B Chain B, Co-Crystal Of Ampk Core With Amp Soaked With Atp
Length = 85
Score = 50.4 bits (119), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 31/79 (39%), Positives = 42/79 (53%), Gaps = 4/79 (5%)
Query: 123 ALPSEEDYAKEPLTVPSQLHLTLLGTEN--SDEASSSKPKHVVLNHVFVDDGWKSKSVVA 180
A SEE + P+ P L + L N D A +P HV+LNH++ SV+
Sbjct: 8 AFRSEERFKSPPILPPHLLQVILNKDTNISCDPALLPEPNHVMLNHLYALSI--KDSVMV 65
Query: 181 LGLTHRFQSKYVTVVLYKP 199
L THR++ KYVT +LYKP
Sbjct: 66 LSATHRYKKKYVTTLLYKP 84
>pdb|2V8Q|B Chain B, Crystal Structure Of The Regulatory Fragment Of Mammalian
Ampk In Complexes With Amp
pdb|2V92|B Chain B, Crystal Structure Of The Regulatory Fragment Of Mammalian
Ampk In Complexes With Atp-Amp
pdb|2V9J|B Chain B, Crystal Structure Of The Regulatory Fragment Of Mammalian
Ampk In Complexes With Mg.Atp-Amp
pdb|2Y8L|B Chain B, Structure Of The Regulatory Fragment Of Mammalian Ampk In
Complex With Two Adp
pdb|2Y8Q|B Chain B, Structure Of The Regulatory Fragment Of Mammalian Ampk In
Complex With One Adp
pdb|2Y94|B Chain B, Structure Of An Active Form Of Mammalian Ampk
pdb|2YA3|B Chain B, Structure Of The Regulatory Fragment Of Mammalian Ampk In
Complex With Coumarin Adp
Length = 87
Score = 50.4 bits (119), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 31/79 (39%), Positives = 42/79 (53%), Gaps = 4/79 (5%)
Query: 123 ALPSEEDYAKEPLTVPSQLHLTLLGTEN--SDEASSSKPKHVVLNHVFVDDGWKSKSVVA 180
A SEE + P+ P L + L N D A +P HV+LNH++ SV+
Sbjct: 10 AFRSEERFKSPPILPPHLLQVILNKDTNISCDPALLPEPNHVMLNHLYALSI--KDSVMV 67
Query: 181 LGLTHRFQSKYVTVVLYKP 199
L THR++ KYVT +LYKP
Sbjct: 68 LSATHRYKKKYVTTLLYKP 86
>pdb|4EAG|B Chain B, Co-Crystal Structure Of An Chimeric Ampk Core With Atp
Length = 85
Score = 47.8 bits (112), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 29/78 (37%), Positives = 43/78 (55%), Gaps = 11/78 (14%)
Query: 128 EDYAKEPLTVPSQLHLTLLGTE---NSDEASSSKPKHVVLNHVF---VDDGWKSKSVVAL 181
E+ K P +P L +L + + D A +P HV+LNH++ + DG V+ L
Sbjct: 12 EERFKAPPILPPHLLQVILNKDTGISCDPALLPEPNHVMLNHLYALSIKDG-----VMVL 66
Query: 182 GLTHRFQSKYVTVVLYKP 199
THR++ KYVT +LYKP
Sbjct: 67 SATHRYKKKYVTTLLYKP 84
>pdb|4EAK|B Chain B, Co-Crystal Structure Of An Ampk Core With Atp
pdb|4EAL|B Chain B, Co-Crystal Of Ampk Core With Atp Soaked With Amp
Length = 72
Score = 46.2 bits (108), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 41/74 (55%), Gaps = 11/74 (14%)
Query: 132 KEPLTVPSQLHLTLLGTE---NSDEASSSKPKHVVLNHVF---VDDGWKSKSVVALGLTH 185
K P +P L +L + + D A +P HV+LNH++ + DG V+ L TH
Sbjct: 3 KAPPILPPHLLQVILNKDTGISCDPALLPEPNHVMLNHLYALSIKDG-----VMVLSATH 57
Query: 186 RFQSKYVTVVLYKP 199
R++ KYVT +LYKP
Sbjct: 58 RYKKKYVTTLLYKP 71
>pdb|4AEF|A Chain A, The Crystal Structure Of Thermostable Amylase From The
Pyrococcus
pdb|4AEF|B Chain B, The Crystal Structure Of Thermostable Amylase From The
Pyrococcus
Length = 645
Score = 37.4 bits (85), Expect = 0.006, Method: Composition-based stats.
Identities = 15/36 (41%), Positives = 22/36 (61%)
Query: 46 LHRSGKDHSILLVLPSGVYHYKFIVDGDWRYIPDLP 81
+ + GK+ I + LP GV+HY F +DG + PD P
Sbjct: 46 MEQEGKNWKIKIALPEGVWHYAFSIDGKFVLDPDNP 81
>pdb|3NME|A Chain A, Structure Of A Plant Phosphatase
pdb|3NME|B Chain B, Structure Of A Plant Phosphatase
Length = 294
Score = 34.7 bits (78), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 38/82 (46%), Gaps = 4/82 (4%)
Query: 14 LEKGVPTIITWNYGGNEVAVEGSWDNWTSRRILHRSGKDHSILLV---LPSGVYHYKFIV 70
L++ T+ + G + V + G W +RI GK ++ LP G + YK+I+
Sbjct: 167 LKRKTVTLTLKDKGFSRVEISGLDIGW-GQRIPLTLGKGTGFWILKRELPEGQFEYKYII 225
Query: 71 DGDWRYIPDLPFVADELGGVCN 92
DG+W + PF+ G N
Sbjct: 226 DGEWTHNEAEPFIGPNKDGHTN 247
>pdb|2OOX|B Chain B, Crystal Structure Of The Adenylate Sensor From
Amp-activated Protein Kinase Complexed With Amp
pdb|2OOX|D Chain D, Crystal Structure Of The Adenylate Sensor From
Amp-activated Protein Kinase Complexed With Amp
pdb|2OOY|B Chain B, Crystal Structure Of The Adenylate Sensor From Amp-
Activated Protein Kinase Complexed With Atp
pdb|2OOY|D Chain D, Crystal Structure Of The Adenylate Sensor From Amp-
Activated Protein Kinase Complexed With Atp
pdb|2QR1|B Chain B, Crystal Structure Of The Adenylate Sensor From
Amp-Activated Protein Kinase In Complex With Adp
pdb|2QR1|D Chain D, Crystal Structure Of The Adenylate Sensor From
Amp-Activated Protein Kinase In Complex With Adp
pdb|2QRC|B Chain B, Crystal Structure Of The Adenylate Sensor From
Amp-Activated Protein Kinase In Complex With Adp And Amp
pdb|2QRC|D Chain D, Crystal Structure Of The Adenylate Sensor From
Amp-Activated Protein Kinase In Complex With Adp And Amp
pdb|2QRD|B Chain B, Crystal Structure Of The Adenylate Sensor From
Amp-Activated Protein Kinase In Complex With Adp And Atp
pdb|2QRD|D Chain D, Crystal Structure Of The Adenylate Sensor From
Amp-Activated Protein Kinase In Complex With Adp And Atp
pdb|2QRE|B Chain B, Crystal Structure Of The Adenylate Sensor From
Amp-Activated Protein Kinase In Complex With
5-Aminoimidazole-4-Carboxamide 1-Beta-D- Ribofuranotide
(Zmp)
pdb|2QRE|D Chain D, Crystal Structure Of The Adenylate Sensor From
Amp-Activated Protein Kinase In Complex With
5-Aminoimidazole-4-Carboxamide 1-Beta-D- Ribofuranotide
(Zmp)
Length = 97
Score = 33.9 bits (76), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 26/47 (55%), Gaps = 2/47 (4%)
Query: 152 DEASSSKPKHVVLNHVFVDDGWKSKSVVALGLTHRFQSKYVTVVLYK 198
D++ P HV+LNH+ + V+AL T R+ KYVT ++K
Sbjct: 49 DQSVLPNPNHVLLNHLAAANTQ--LGVLALSATTRYHRKYVTTAMFK 93
>pdb|3T4N|B Chain B, Structure Of The Regulatory Fragment Of Saccharomyces
Cerevisiae Ampk In Complex With Adp
pdb|3TDH|B Chain B, Structure Of The Regulatory Fragment Of Sccharomyces
Cerevisiae Ampk In Complex With Amp
pdb|3TE5|B Chain B, Structure Of The Regulatory Fragment Of Sacchromyces
Cerevisiae Ampk In Complex With Nadh
Length = 113
Score = 32.7 bits (73), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 24/41 (58%), Gaps = 2/41 (4%)
Query: 159 PKHVVLNHVFVDDGWKSKSVVALGLTHRFQSKYVTVVLYKP 199
P HVVLNH+ V K ++ + R++ KYVT +LY P
Sbjct: 71 PNHVVLNHL-VTSSIKHNTLCVASIV-RYKQKYVTQILYTP 109
>pdb|1ZN6|A Chain A, X-Ray Crystal Structure Of Protein Q7wlm8 From Bordetella
Bronchiseptica. Northeast Structural Genomics Consortium
Target Bor19
Length = 227
Score = 29.3 bits (64), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 37/100 (37%), Gaps = 36/100 (36%)
Query: 16 KGVPTIITWNYGGNEVAVEGSWDNWTSR---------------------RILHRSGKDHS 54
K VPT T G + + G WD + + R H++GK+
Sbjct: 122 KAVPTRFT-RADGAPLGIAGLWDRYRNAAGEWIDSYTXLTINADDDPLFRDYHQAGKEKR 180
Query: 55 ILLVLPSGVYHYKFIVDGDWRYIPD-------LPFVADEL 87
+++LP G Y GDW P LP+ AD L
Sbjct: 181 XVVILPDGAY-------GDWLTAPATDTRDFLLPYPADRL 213
>pdb|2D7O|A Chain A, Solution Structure Of The 17th Filamin Domain From Human
Filamin C
Length = 111
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 34/72 (47%), Gaps = 7/72 (9%)
Query: 20 TIITWNYG--GNEVAVEGSWDNWTSRRILHRSGKDHSILLV-LPSGVYHYKFIVDGDWRY 76
TI+T + G G +AVEG + I + KD + + LP+ Y IV D ++
Sbjct: 33 TIVTKDAGEGGLSLAVEGP----SKAEITCKDNKDGTCTVSYLPTAPGDYSIIVRFDDKH 88
Query: 77 IPDLPFVADELG 88
IP PF A G
Sbjct: 89 IPGSPFTAKITG 100
>pdb|1PVD|A Chain A, Crystal Structure Of The Thiamin Diphosphate Dependent
Enzyme Pyruvate Decarboxylase From The Yeast
Saccharomyces Cerevisiae At 2.3 Angstroms Resolution
pdb|1PVD|B Chain B, Crystal Structure Of The Thiamin Diphosphate Dependent
Enzyme Pyruvate Decarboxylase From The Yeast
Saccharomyces Cerevisiae At 2.3 Angstroms Resolution
Length = 555
Score = 26.9 bits (58), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 13/43 (30%), Positives = 21/43 (48%)
Query: 18 VPTIITWNYGGNEVAVEGSWDNWTSRRILHRSGKDHSILLVLP 60
+PT +Y + VA G WD T + + + K I ++LP
Sbjct: 498 LPTFGAKDYETHRVATTGEWDKLTQDKSFNDNSKIRMIEIMLP 540
>pdb|1PYD|A Chain A, Catalytic Centers In The Thiamin Diphosphate Dependent
Enzyme Pyruvate Decarboxylase At 2.4 Angstroms
Resolution
pdb|1PYD|B Chain B, Catalytic Centers In The Thiamin Diphosphate Dependent
Enzyme Pyruvate Decarboxylase At 2.4 Angstroms
Resolution
Length = 556
Score = 26.9 bits (58), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 13/43 (30%), Positives = 21/43 (48%)
Query: 18 VPTIITWNYGGNEVAVEGSWDNWTSRRILHRSGKDHSILLVLP 60
+PT +Y + VA G WD T + + + K I ++LP
Sbjct: 499 LPTFGAKDYETHRVATTGEWDKLTQDKSFNDNSKIRMIEIMLP 541
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
0.315 0.133 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,881,324
Number of Sequences: 62578
Number of extensions: 302955
Number of successful extensions: 653
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 626
Number of HSP's gapped (non-prelim): 22
length of query: 202
length of database: 14,973,337
effective HSP length: 94
effective length of query: 108
effective length of database: 9,091,005
effective search space: 981828540
effective search space used: 981828540
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: 49 (23.5 bits)