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= 028378
(210 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 = 71.2 bits (173), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 32/79 (40%), Positives = 47/79 (59%)
Query: 94 PTMITWSHDGCEVAVEGSWDNWKTRIALQRSGKDFTIMKVLPSGVYQYRFLVDGLWKYAP 153
PT+I WS G EV + GS++NW T+I L +S DF + LP G +QY+F VDG W + P
Sbjct: 11 PTVIRWSEGGKEVFISGSFNNWSTKIPLIKSHNDFVAILDLPEGEHQYKFFVDGQWVHDP 70
Query: 154 DLPSTQDDDGNVYNILDLQ 172
P G + N++ ++
Sbjct: 71 SEPVVTSQLGTINNLIHVK 89
>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 = 62.8 bits (151), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 30/79 (37%), Positives = 46/79 (58%), Gaps = 1/79 (1%)
Query: 94 PTMITWSHDGCEVAVEGSWDNWKTRIALQRSGKDFTIMKVLPSGVYQYRFLVDGLWKYAP 153
PT+ W+ G EV + GS++NW +++ L RS +F + LP G +QY+F VDG W + P
Sbjct: 12 PTVFRWTGGGKEVYLSGSFNNW-SKLPLTRSQNNFVAILDLPEGEHQYKFFVDGQWTHDP 70
Query: 154 DLPSTQDDDGNVYNILDLQ 172
P G V NI+ ++
Sbjct: 71 SEPIVTSQLGTVNNIIQVK 89
>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 = 60.8 bits (146), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 29/79 (36%), Positives = 45/79 (56%), Gaps = 1/79 (1%)
Query: 94 PTMITWSHDGCEVAVEGSWDNWKTRIALQRSGKDFTIMKVLPSGVYQYRFLVDGLWKYAP 153
PT+ W+ G EV + GS++NW +++ RS +F + LP G +QY+F VDG W + P
Sbjct: 12 PTVFRWTGGGKEVYLSGSFNNW-SKLPXTRSQNNFVAILDLPEGEHQYKFFVDGQWTHDP 70
Query: 154 DLPSTQDDDGNVYNILDLQ 172
P G V NI+ ++
Sbjct: 71 SEPIVTSQLGTVNNIIQVK 89
>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 = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 44/84 (52%), Gaps = 5/84 (5%)
Query: 93 IPTMITWSHDGCEVAVEGSWDNWKTRIAL----QRSGKDFTIMKVLPSGVYQYRFLVDGL 148
+P I W G +V V GS+ W+ I L +G +++LP G +++RF+VD
Sbjct: 4 VPVEIRWQQGGSKVYVTGSFTKWRKMIGLIPDSDNNGSFHVKLRLLP-GTHRFRFIVDNE 62
Query: 149 WKYAPDLPSTQDDDGNVYNILDLQ 172
+ + LP+ D GN N ++++
Sbjct: 63 LRVSDFLPTATDQMGNFVNYIEVR 86
>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 = 35.0 bits (79), Expect = 0.030, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 22/36 (61%)
Query: 121 LQRSGKDFTIMKVLPSGVYQYRFLVDGLWKYAPDLP 156
+++ GK++ I LP GV+ Y 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 = 30.0 bits (66), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 105 EVAVEGSWDNWKTRIALQR-SGKDFTIMKV-LPSGVYQYRFLVDGLWKYAPDLP 156
V + G W RI L G F I+K LP G ++Y++++DG W + P
Sbjct: 183 RVEISGLDIGWGQRIPLTLGKGTGFWILKRELPEGQFEYKYIIDGEWTHNEAEP 236
>pdb|3IZR|N Chain N, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 134
Score = 27.7 bits (60), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 34/62 (54%), Gaps = 6/62 (9%)
Query: 118 RIALQRSGKDFTIMKVLPSGVYQYRFLVDGLWKYAPDLPSTQDDDGNVYNILDLQVNITF 177
R+AL GKD+ + V+ V Q R LVD APD+ Q + + ++ D++++I
Sbjct: 11 RVALVNYGKDYGRLVVIVDVVDQNRALVD-----APDMVRCQINFKRL-SLTDIKIDIKR 64
Query: 178 IP 179
+P
Sbjct: 65 VP 66
>pdb|2OOX|A Chain A, Crystal Structure Of The Adenylate Sensor From
Amp-activated Protein Kinase Complexed With Amp
pdb|2OOX|C Chain C, Crystal Structure Of The Adenylate Sensor From
Amp-activated Protein Kinase Complexed With Amp
pdb|2OOY|A Chain A, Crystal Structure Of The Adenylate Sensor From Amp-
Activated Protein Kinase Complexed With Atp
pdb|2OOY|C Chain C, Crystal Structure Of The Adenylate Sensor From Amp-
Activated Protein Kinase Complexed With Atp
pdb|2QR1|A Chain A, Crystal Structure Of The Adenylate Sensor From
Amp-Activated Protein Kinase In Complex With Adp
pdb|2QR1|C Chain C, Crystal Structure Of The Adenylate Sensor From
Amp-Activated Protein Kinase In Complex With Adp
pdb|2QRC|A Chain A, Crystal Structure Of The Adenylate Sensor From
Amp-Activated Protein Kinase In Complex With Adp And Amp
pdb|2QRC|C Chain C, Crystal Structure Of The Adenylate Sensor From
Amp-Activated Protein Kinase In Complex With Adp And Amp
pdb|2QRD|A Chain A, Crystal Structure Of The Adenylate Sensor From
Amp-Activated Protein Kinase In Complex With Adp And Atp
pdb|2QRD|C Chain C, Crystal Structure Of The Adenylate Sensor From
Amp-Activated Protein Kinase In Complex With Adp And Atp
pdb|2QRE|A Chain A, 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|C Chain C, Crystal Structure Of The Adenylate Sensor From
Amp-Activated Protein Kinase In Complex With
5-Aminoimidazole-4-Carboxamide 1-Beta-D- Ribofuranotide
(Zmp)
Length = 137
Score = 27.3 bits (59), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 26/54 (48%), Gaps = 4/54 (7%)
Query: 120 ALQRSGKDFTIMKVLPSGVYQYRFLVDGLWKYAPDLPSTQDDDGNVYNILDLQV 173
ALQR+G FT+ K + + + W ++P + + N Y ++LQ+
Sbjct: 33 ALQRAGAQFTVPKPVNGKYRSDMYTIKSRW----EIPHCKREGKNTYAYIELQL 82
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
0.318 0.136 0.438
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,409,139
Number of Sequences: 62578
Number of extensions: 334835
Number of successful extensions: 537
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 528
Number of HSP's gapped (non-prelim): 10
length of query: 210
length of database: 14,973,337
effective HSP length: 95
effective length of query: 115
effective length of database: 9,028,427
effective search space: 1038269105
effective search space used: 1038269105
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)