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= 033529
(117 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 61.6 bits (148), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 31/77 (40%), Positives = 47/77 (61%), Gaps = 3/77 (3%)
Query: 34 NEDEARDPPAVPPHLQHTLLSYPASRDAS-GILPAPQNVILNHLYIENRDVPRSVVALGF 92
+E+ + PP +PPHL +L+ + +LP P +V+LNHLY + SV+ L
Sbjct: 11 SEERFKSPPILPPHLLQVILNKDTNISCDPALLPEPNHVMLNHLY--ALSIKDSVMVLSA 68
Query: 93 THRFRSKYVTVVLYKPV 109
THR++ KYVT +LYKP+
Sbjct: 69 THRYKKKYVTTLLYKPI 85
>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 = 61.2 bits (147), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 31/77 (40%), Positives = 47/77 (61%), Gaps = 3/77 (3%)
Query: 34 NEDEARDPPAVPPHLQHTLLSYPASRDAS-GILPAPQNVILNHLYIENRDVPRSVVALGF 92
+E+ + PP +PPHL +L+ + +LP P +V+LNHLY + SV+ L
Sbjct: 13 SEERFKSPPILPPHLLQVILNKDTNISCDPALLPEPNHVMLNHLY--ALSIKDSVMVLSA 70
Query: 93 THRFRSKYVTVVLYKPV 109
THR++ KYVT +LYKP+
Sbjct: 71 THRYKKKYVTTLLYKPI 87
>pdb|4EAG|B Chain B, Co-Crystal Structure Of An Chimeric Ampk Core With Atp
Length = 85
Score = 58.5 bits (140), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 44/76 (57%), Gaps = 3/76 (3%)
Query: 35 EDEARDPPAVPPHLQHTLLSYPASRDAS-GILPAPQNVILNHLYIENRDVPRSVVALGFT 93
E+ + PP +PPHL +L+ +LP P +V+LNHLY + V+ L T
Sbjct: 12 EERFKAPPILPPHLLQVILNKDTGISCDPALLPEPNHVMLNHLY--ALSIKDGVMVLSAT 69
Query: 94 HRFRSKYVTVVLYKPV 109
HR++ KYVT +LYKP+
Sbjct: 70 HRYKKKYVTTLLYKPI 85
>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 = 56.2 bits (134), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 29/72 (40%), Positives = 42/72 (58%), Gaps = 3/72 (4%)
Query: 39 RDPPAVPPHLQHTLLSYPASRDAS-GILPAPQNVILNHLYIENRDVPRSVVALGFTHRFR 97
+ PP +PPHL +L+ +LP P +V+LNHLY + V+ L THR++
Sbjct: 3 KAPPILPPHLLQVILNKDTGISCDPALLPEPNHVMLNHLY--ALSIKDGVMVLSATHRYK 60
Query: 98 SKYVTVVLYKPV 109
KYVT +LYKP+
Sbjct: 61 KKYVTTLLYKPI 72
>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 = 49.7 bits (117), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 46/76 (60%), Gaps = 8/76 (10%)
Query: 41 PPAVPPHLQHTLLS-YPASRDA-----SGILPAPQNVILNHLYIENRDVPRSVVALGFTH 94
PP +PP L++ +L+ Y A++D SG LP P +V+LNHL + + + + +
Sbjct: 38 PPQLPPQLENVILNKYYATQDQFNENNSGALPIPNHVVLNHLVTSS--IKHNTLCVASIV 95
Query: 95 RFRSKYVTVVLYKPVQ 110
R++ KYVT +LY P++
Sbjct: 96 RYKQKYVTQILYTPIE 111
>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 = 48.9 bits (115), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 45/75 (60%), Gaps = 8/75 (10%)
Query: 41 PPAVPPHLQHTLLS-YPASRDA-----SGILPAPQNVILNHLYIENRDVPRSVVALGFTH 94
PP +PP L++ +L+ Y A++D SG LP P +V+LNHL + + + + +
Sbjct: 180 PPQLPPQLENVILNKYYATQDQFNENNSGALPIPNHVVLNHLVTSS--IKHNTLCVASIV 237
Query: 95 RFRSKYVTVVLYKPV 109
R++ KYVT +LY P+
Sbjct: 238 RYKQKYVTQILYTPI 252
>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 = 40.0 bits (92), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 31/54 (57%), Gaps = 2/54 (3%)
Query: 54 SYPASRDASGILPAPQNVILNHLYIENRDVPRSVVALGFTHRFRSKYVTVVLYK 107
S A ++ +LP P +V+LNHL N + V+AL T R+ KYVT ++K
Sbjct: 42 SNTAYKEDQSVLPNPNHVLLNHLAAANTQL--GVLALSATTRYHRKYVTTAMFK 93
>pdb|3HZS|A Chain A, S. Aureus Monofunctional Glycosyltransferase (Mtga)in
Complex With Moenomycin
Length = 209
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 21/49 (42%)
Query: 52 LLSYPASRDASGILPAPQNVILNHLYIENRDVPRSVVALGFTHRFRSKY 100
L S + RD G Q V+ N+ Y +R R V L HR +Y
Sbjct: 60 LFSTISDRDVQGGSTITQQVVKNYFYDNDRSFTRKVKELFVAHRVEKQY 108
>pdb|3VMQ|A Chain A, Crystal Structure Of Staphylococcus Aureus Membrane-Bound
Transglycosylase: Apoenzyme
pdb|3VMQ|B Chain B, Crystal Structure Of Staphylococcus Aureus Membrane-Bound
Transglycosylase: Apoenzyme
pdb|3VMR|A Chain A, Crystal Structure Of Staphylococcus Aureus Membrane-Bound
Transglycosylase In Complex With Moenomycin
pdb|3VMS|A Chain A, Crystal Structure Of Staphylococcus Aureus Membrane-Bound
Transglycosylase In Complex With Nbd-Lipid Ii
pdb|3VMS|B Chain B, Crystal Structure Of Staphylococcus Aureus Membrane-Bound
Transglycosylase In Complex With Nbd-Lipid Ii
pdb|3VMT|A Chain A, Crystal Structure Of Staphylococcus Aureus Membrane-Bound
Transglycosylase In Complex With A Lipid Ii Analog
pdb|3VMT|B Chain B, Crystal Structure Of Staphylococcus Aureus Membrane-Bound
Transglycosylase In Complex With A Lipid Ii Analog
Length = 263
Score = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 21/49 (42%)
Query: 52 LLSYPASRDASGILPAPQNVILNHLYIENRDVPRSVVALGFTHRFRSKY 100
L S + RD G Q V+ N+ Y +R R V L HR +Y
Sbjct: 113 LFSTISDRDVQGGSTITQQVVKNYFYDNDRSFTRKVKELFVAHRVEKQY 161
>pdb|1JMJ|A Chain A, Crystal Structure Of Native Heparin Cofactor Ii
pdb|1JMJ|B Chain B, Crystal Structure Of Native Heparin Cofactor Ii
Length = 480
Score = 27.3 bits (59), Expect = 2.5, Method: Composition-based stats.
Identities = 23/77 (29%), Positives = 35/77 (45%), Gaps = 2/77 (2%)
Query: 40 DPPAVPPHLQHTL-LSYPASRDA-SGILPAPQNVILNHLYIENRDVPRSVVALGFTHRFR 97
DP + H + L+ +DA I PA Q +ILN +Y + V + V + H FR
Sbjct: 236 DPAFISKTNNHIMKLTKGLIKDALENIDPATQMMILNCIYFKGSWVNKFPVEMTHNHNFR 295
Query: 98 SKYVTVVLYKPVQRRGS 114
VV +Q +G+
Sbjct: 296 LNEREVVKVSMMQTKGN 312
>pdb|1JMO|A Chain A, Crystal Structure Of The Heparin Cofactor Ii-S195a
Thrombin Complex
Length = 480
Score = 26.9 bits (58), Expect = 2.5, Method: Composition-based stats.
Identities = 23/77 (29%), Positives = 35/77 (45%), Gaps = 2/77 (2%)
Query: 40 DPPAVPPHLQHTL-LSYPASRDA-SGILPAPQNVILNHLYIENRDVPRSVVALGFTHRFR 97
DP + H + L+ +DA I PA Q +ILN +Y + V + V + H FR
Sbjct: 236 DPAFISKTNNHIMKLTKGLIKDALENIDPATQMMILNCIYFKGSWVNKFPVEMTHNHNFR 295
Query: 98 SKYVTVVLYKPVQRRGS 114
VV +Q +G+
Sbjct: 296 LNEREVVKVSMMQTKGN 312
>pdb|3LC6|A Chain A, The Alternative Conformation Structure Of Isocitrate
Dehydrogenase Kinase/phosphatase From E. Coli
pdb|3LC6|B Chain B, The Alternative Conformation Structure Of Isocitrate
Dehydrogenase Kinase/phosphatase From E. Coli
pdb|3LCB|A Chain A, The Crystal Structure Of Isocitrate Dehydrogenase
KinasePHOSPHATASE In Complex With Its Substrate,
Isocitrate Dehydrogenase, From Escherichia Coli.
pdb|3LCB|B Chain B, The Crystal Structure Of Isocitrate Dehydrogenase
KinasePHOSPHATASE In Complex With Its Substrate,
Isocitrate Dehydrogenase, From Escherichia Coli
Length = 578
Score = 26.2 bits (56), Expect = 4.4, Method: Composition-based stats.
Identities = 12/41 (29%), Positives = 20/41 (48%)
Query: 47 HLQHTLLSYPASRDASGILPAPQNVILNHLYIENRDVPRSV 87
H+ L+ A I + +++ HLYIE R VP ++
Sbjct: 384 HISPALMELLLQEAAEKITDLGEQIVIRHLYIERRMVPLNI 424
>pdb|3EPS|A Chain A, The Crystal Structure Of Isocitrate Dehydrogenase
KinasePHOSPHATASE From E. Coli
pdb|3EPS|B Chain B, The Crystal Structure Of Isocitrate Dehydrogenase
KinasePHOSPHATASE From E. Coli
Length = 578
Score = 26.2 bits (56), Expect = 4.5, Method: Composition-based stats.
Identities = 12/41 (29%), Positives = 20/41 (48%)
Query: 47 HLQHTLLSYPASRDASGILPAPQNVILNHLYIENRDVPRSV 87
H+ L+ A I + +++ HLYIE R VP ++
Sbjct: 384 HISPALMELLLQEAAEKITDLGEQIVIRHLYIERRMVPLNI 424
>pdb|3UQS|A Chain A, Crystal Structures Of Murine Norovirus Rna-Dependent Rna
Polymerase
pdb|3UQS|B Chain B, Crystal Structures Of Murine Norovirus Rna-Dependent Rna
Polymerase
pdb|3UQS|C Chain C, Crystal Structures Of Murine Norovirus Rna-Dependent Rna
Polymerase
pdb|3UR0|A Chain A, Crystal Structures Of Murine Norovirus Rna-Dependent Rna
Polymerase In Complex With Suramin
pdb|3UR0|B Chain B, Crystal Structures Of Murine Norovirus Rna-Dependent Rna
Polymerase In Complex With Suramin
pdb|3UR0|C Chain C, Crystal Structures Of Murine Norovirus Rna-Dependent Rna
Polymerase In Complex With Suramin
Length = 515
Score = 25.8 bits (55), Expect = 6.3, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 4/52 (7%)
Query: 21 KSPDSSYNNVYPGNEDEARDPPAVPPHLQHTLLSYPASRDASGILPAPQNVI 72
K P ++ Y G++DE D P++ ++ L Y R G+LP PQ ++
Sbjct: 36 KLPPGAWEPAYLGSKDERVDGPSLQQVMRDQLKPYSEPR---GLLP-PQEIL 83
>pdb|3NAH|A Chain A, Crystal Structures And Functional Analysis Of Murine
Norovirus Rna- Dependent Rna Polymerase
pdb|3NAH|B Chain B, Crystal Structures And Functional Analysis Of Murine
Norovirus Rna- Dependent Rna Polymerase
pdb|3NAH|C Chain C, Crystal Structures And Functional Analysis Of Murine
Norovirus Rna- Dependent Rna Polymerase
pdb|3NAI|A Chain A, Crystal Structures And Functional Analysis Of Murine
Norovirus Rna- Dependent Rna Polymerase
pdb|3NAI|B Chain B, Crystal Structures And Functional Analysis Of Murine
Norovirus Rna- Dependent Rna Polymerase
pdb|3NAI|C Chain C, Crystal Structures And Functional Analysis Of Murine
Norovirus Rna- Dependent Rna Polymerase
pdb|3QID|A Chain A, Crystal Structures And Functional Analysis Of Murine
Norovirus Rna- Dependent Rna Polymerase
pdb|3QID|B Chain B, Crystal Structures And Functional Analysis Of Murine
Norovirus Rna- Dependent Rna Polymerase
pdb|3QID|C Chain C, Crystal Structures And Functional Analysis Of Murine
Norovirus Rna- Dependent Rna Polymerase
pdb|3SFG|A Chain A, Crystal Structure Of Murine Norovirus Rna Dependent Rna
Polymerase In Complex With 2thiouridine(2tu)
pdb|3SFG|B Chain B, Crystal Structure Of Murine Norovirus Rna Dependent Rna
Polymerase In Complex With 2thiouridine(2tu)
pdb|3SFG|C Chain C, Crystal Structure Of Murine Norovirus Rna Dependent Rna
Polymerase In Complex With 2thiouridine(2tu)
pdb|3SFU|A Chain A, Crystal Structure Of Murine Norovirus Rna Dependent Rna
Polymerase In Complex With Ribavirin
pdb|3SFU|B Chain B, Crystal Structure Of Murine Norovirus Rna Dependent Rna
Polymerase In Complex With Ribavirin
pdb|3SFU|C Chain C, Crystal Structure Of Murine Norovirus Rna Dependent Rna
Polymerase In Complex With Ribavirin
Length = 517
Score = 25.8 bits (55), Expect = 6.3, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 4/52 (7%)
Query: 21 KSPDSSYNNVYPGNEDEARDPPAVPPHLQHTLLSYPASRDASGILPAPQNVI 72
K P ++ Y G++DE D P++ ++ L Y R G+LP PQ ++
Sbjct: 36 KLPPGAWEPAYLGSKDERVDGPSLQQVMRDQLKPYSEPR---GLLP-PQEIL 83
>pdb|3UPF|A Chain A, Crystal Structure Of Murine Norovirus Rna-Dependent Rna
Polymerase Bound To Nf023
pdb|3UPF|B Chain B, Crystal Structure Of Murine Norovirus Rna-Dependent Rna
Polymerase Bound To Nf023
pdb|3UPF|C Chain C, Crystal Structure Of Murine Norovirus Rna-Dependent Rna
Polymerase Bound To Nf023
Length = 525
Score = 25.8 bits (55), Expect = 6.9, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 4/52 (7%)
Query: 21 KSPDSSYNNVYPGNEDEARDPPAVPPHLQHTLLSYPASRDASGILPAPQNVI 72
K P ++ Y G++DE D P++ ++ L Y R G+LP PQ ++
Sbjct: 46 KLPPGAWEPAYLGSKDERVDGPSLQQVMRDQLKPYSEPR---GLLP-PQEIL 93
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
0.314 0.133 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,866,667
Number of Sequences: 62578
Number of extensions: 152587
Number of successful extensions: 224
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 196
Number of HSP's gapped (non-prelim): 18
length of query: 117
length of database: 14,973,337
effective HSP length: 80
effective length of query: 37
effective length of database: 9,967,097
effective search space: 368782589
effective search space used: 368782589
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 45 (21.9 bits)