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= 023936
(275 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 = 76.6 bits (187), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 36/96 (37%), Positives = 55/96 (57%)
Query: 82 AASNPLEKGVPTIITWNYGGNEVAVEGSWDNWTSRRILHRSGKDHSILLVLPSGVYHYKF 141
+ P ++ PT+I W+ GG EV + GS++NW+++ L +S D +L LP G + YKF
Sbjct: 1 GSVKPTQQARPTVIRWSEGGKEVFISGSFNNWSTKIPLIKSHNDFVAILDLPEGEHQYKF 60
Query: 142 IVDGDWRYIPDLPFVADELGGVCNLLDVHSCVPEIL 177
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 = 70.1 bits (170), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 35/86 (40%), Positives = 48/86 (55%), Gaps = 1/86 (1%)
Query: 92 PTIITWNYGGNEVAVEGSWDNWTSRRILHRSGKDHSILLVLPSGVYHYKFIVDGDWRYIP 151
PT+ W GG EV + GS++NW S+ L RS + +L LP G + YKF VDG W + P
Sbjct: 12 PTVFRWTGGGKEVYLSGSFNNW-SKLPLTRSQNNFVAILDLPEGEHQYKFFVDGQWTHDP 70
Query: 152 DLPFVADELGGVCNLLDVHSCVPEIL 177
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 = 68.2 bits (165), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 34/86 (39%), Positives = 47/86 (54%), Gaps = 1/86 (1%)
Query: 92 PTIITWNYGGNEVAVEGSWDNWTSRRILHRSGKDHSILLVLPSGVYHYKFIVDGDWRYIP 151
PT+ W GG EV + GS++NW S+ RS + +L LP G + YKF VDG W + P
Sbjct: 12 PTVFRWTGGGKEVYLSGSFNNW-SKLPXTRSQNNFVAILDLPEGEHQYKFFVDGQWTHDP 70
Query: 152 DLPFVADELGGVCNLLDVHSCVPEIL 177
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 = 50.8 bits (120), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 29/86 (33%), Positives = 45/86 (52%), Gaps = 9/86 (10%)
Query: 91 VPTIITWNYGGNEVAVEGSWDNWTSRRIL------HRSGKDHSILLVLPSGVYHYKFIVD 144
VP I W GG++V V GS+ W R+++ +G H L +LP G + ++FIVD
Sbjct: 4 VPVEIRWQQGGSKVYVTGSFTKW--RKMIGLIPDSDNNGSFHVKLRLLP-GTHRFRFIVD 60
Query: 145 GDWRYIPDLPFVADELGGVCNLLDVH 170
+ R LP D++G N ++V
Sbjct: 61 NELRVSDFLPTATDQMGNFVNYIEVR 86
Score = 32.0 bits (71), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 24/41 (58%), Gaps = 2/41 (4%)
Query: 232 PKHVVLNHVFVDDGWKSKSVVALGLTHRFQSKYVTVVLYKP 272
P HVVLNH+ V K ++ + R++ KYVT +LY P
Sbjct: 213 PNHVVLNHL-VTSSIKHNTLCVASIV-RYKQKYVTQILYTP 251
>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 = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 31/79 (39%), Positives = 42/79 (53%), Gaps = 4/79 (5%)
Query: 196 ALPSEEDYAKEPLTVPSQLHLTLLGTEN--SDEASSSKPKHVVLNHVFVDDGWKSKSVVA 253
A SEE + P+ P L + L N D A +P HV+LNH++ SV+
Sbjct: 10 AFRSEERFKSPPILPPHLLQVILNKDTNISCDPALLPEPNHVMLNHLYALSI--KDSVMV 67
Query: 254 LGLTHRFQSKYVTVVLYKP 272
L THR++ KYVT +LYKP
Sbjct: 68 LSATHRYKKKYVTTLLYKP 86
>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 = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 31/79 (39%), Positives = 42/79 (53%), Gaps = 4/79 (5%)
Query: 196 ALPSEEDYAKEPLTVPSQLHLTLLGTEN--SDEASSSKPKHVVLNHVFVDDGWKSKSVVA 253
A SEE + P+ P L + L N D A +P HV+LNH++ SV+
Sbjct: 8 AFRSEERFKSPPILPPHLLQVILNKDTNISCDPALLPEPNHVMLNHLYALSI--KDSVMV 65
Query: 254 LGLTHRFQSKYVTVVLYKP 272
L THR++ KYVT +LYKP
Sbjct: 66 LSATHRYKKKYVTTLLYKP 84
>pdb|4EAG|B Chain B, Co-Crystal Structure Of An Chimeric Ampk Core With Atp
Length = 85
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 29/78 (37%), Positives = 43/78 (55%), Gaps = 11/78 (14%)
Query: 201 EDYAKEPLTVPSQLHLTLLGTE---NSDEASSSKPKHVVLNHVF---VDDGWKSKSVVAL 254
E+ K P +P L +L + + D A +P HV+LNH++ + DG V+ L
Sbjct: 12 EERFKAPPILPPHLLQVILNKDTGISCDPALLPEPNHVMLNHLYALSIKDG-----VMVL 66
Query: 255 GLTHRFQSKYVTVVLYKP 272
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 = 43.5 bits (101), Expect = 1e-04, Method: Composition-based stats.
Identities = 28/74 (37%), Positives = 41/74 (55%), Gaps = 11/74 (14%)
Query: 205 KEPLTVPSQLHLTLLGTE---NSDEASSSKPKHVVLNHVF---VDDGWKSKSVVALGLTH 258
K P +P L +L + + D A +P HV+LNH++ + DG V+ L TH
Sbjct: 3 KAPPILPPHLLQVILNKDTGISCDPALLPEPNHVMLNHLYALSIKDG-----VMVLSATH 57
Query: 259 RFQSKYVTVVLYKP 272
R++ KYVT +LYKP
Sbjct: 58 RYKKKYVTTLLYKP 71
>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 = 0.066, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 36/74 (48%), Gaps = 4/74 (5%)
Query: 87 LEKGVPTIITWNYGGNEVAVEGSWDNWTSRRILHRSGKDHSILLV---LPSGVYHYKFIV 143
L++ T+ + G + V + G W +RI GK ++ LP G + YK+I+
Sbjct: 167 LKRKTVTLTLKDKGFSRVEISGLDIGW-GQRIPLTLGKGTGFWILKRELPEGQFEYKYII 225
Query: 144 DGDWRYIPDLPFVA 157
DG+W + PF+
Sbjct: 226 DGEWTHNEAEPFIG 239
>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 = 33.9 bits (76), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 22/36 (61%)
Query: 119 LHRSGKDHSILLVLPSGVYHYKFIVDGDWRYIPDLP 154
+ + GK+ I + LP GV+HY F +DG + PD P
Sbjct: 46 MEQEGKNWKIKIALPEGVWHYAFSIDGKFVLDPDNP 81
>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 = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 26/47 (55%), Gaps = 2/47 (4%)
Query: 225 DEASSSKPKHVVLNHVFVDDGWKSKSVVALGLTHRFQSKYVTVVLYK 271
D++ P HV+LNH+ + V+AL T R+ KYVT ++K
Sbjct: 49 DQSVLPNPNHVLLNHLAAANT--QLGVLALSATTRYHRKYVTTAMFK 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 = 0.22, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 24/41 (58%), Gaps = 2/41 (4%)
Query: 232 PKHVVLNHVFVDDGWKSKSVVALGLTHRFQSKYVTVVLYKP 272
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 = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 37/100 (37%), Gaps = 36/100 (36%)
Query: 89 KGVPTIITWNYGGNEVAVEGSWDNWTSR---------------------RILHRSGKDHS 127
K VPT T G + + G WD + + R H++GK+
Sbjct: 122 KAVPTRFT-RADGAPLGIAGLWDRYRNAAGEWIDSYTXLTINADDDPLFRDYHQAGKEKR 180
Query: 128 ILLVLPSGVYHYKFIVDGDWRYIPD-------LPFVADEL 160
+++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 = 28.1 bits (61), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 34/72 (47%), Gaps = 7/72 (9%)
Query: 93 TIITWNYG--GNEVAVEGSWDNWTSRRILHRSGKDHSILL-VLPSGVYHYKFIVDGDWRY 149
TI+T + G G +AVEG + I + KD + + LP+ Y IV D ++
Sbjct: 33 TIVTKDAGEGGLSLAVEGP----SKAEITCKDNKDGTCTVSYLPTAPGDYSIIVRFDDKH 88
Query: 150 IPDLPFVADELG 161
IP PF A G
Sbjct: 89 IPGSPFTAKITG 100
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 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,544,459
Number of Sequences: 62578
Number of extensions: 382937
Number of successful extensions: 775
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 755
Number of HSP's gapped (non-prelim): 15
length of query: 275
length of database: 14,973,337
effective HSP length: 97
effective length of query: 178
effective length of database: 8,903,271
effective search space: 1584782238
effective search space used: 1584782238
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: 51 (24.3 bits)