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= psy860
(178 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1IAX|A Chain A, Crystal Structure Of Acc Synthase Complexed With Plp
pdb|1IAX|B Chain B, Crystal Structure Of Acc Synthase Complexed With Plp
pdb|1IAY|A Chain A, Crystal Structure Of Acc Synthase Complexed With Cofactor
Plp And Inhibitor Avg
Length = 428
Score = 30.8 bits (68), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 29/68 (42%), Gaps = 10/68 (14%)
Query: 6 YLSGIGYCPQFNGINEHLTAQEMLEC----------FSALRGIPGVKSGPIIDYWIDLLG 55
Y + + PQF I E L QEM C S G+PG + G I + D++
Sbjct: 230 YAATVFDTPQFVSIAEILDEQEMTYCNKDLVHIVYSLSKDMGLPGFRVGIIYSFNDDVVN 289
Query: 56 SAIRFSPF 63
A + S F
Sbjct: 290 CARKMSSF 297
>pdb|1G29|1 Chain 1, Malk
pdb|1G29|2 Chain 2, Malk
Length = 372
Score = 29.6 bits (65), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 31/61 (50%)
Query: 97 HLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSGGNKRKLSTAMAL 156
H+T + + LR +P + + +LLGLTE +R SGG +++++ A+
Sbjct: 95 HMTVYDNIAFPLKLRKVPRQEIDQRVREVAELLGLTELLNRKPRELSGGQRQRVALGRAI 154
Query: 157 I 157
+
Sbjct: 155 V 155
>pdb|1VCI|A Chain A, Crystal Structure Of The Atp-binding Cassette Of
Multisugar Transporter From Pyrococcus Horikoshii Ot3
Complexed With Atp
Length = 373
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/75 (21%), Positives = 36/75 (48%)
Query: 97 HLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSGGNKRKLSTAMAL 156
H+T E + ++ P + + + +LL + E +R + SGG +++++ A A+
Sbjct: 98 HMTVYENIAFPLKIKKFPKDEIDKRVRWAAELLQIEELLNRYPAQLSGGQRQRVAVARAI 157
Query: 157 IGDRDDGFQKLPFSS 171
+ + D P S+
Sbjct: 158 VVEPDVLLMDEPLSN 172
>pdb|1V43|A Chain A, Crystal Structure Of Atpase Subunit Of Abc Sugar
Transporter
Length = 372
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/75 (21%), Positives = 36/75 (48%)
Query: 97 HLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSGGNKRKLSTAMAL 156
H+T E + ++ P + + + +LL + E +R + SGG +++++ A A+
Sbjct: 97 HMTVYENIAFPLKIKKFPKDEIDKRVRWAAELLQIEELLNRYPAQLSGGQRQRVAVARAI 156
Query: 157 IGDRDDGFQKLPFSS 171
+ + D P S+
Sbjct: 157 VVEPDVLLMDEPLSN 171
>pdb|1EZJ|A Chain A, Crystal Structure Of The Multimerization Domain Of The
Phosphoprotein From Sendai Virus
Length = 115
Score = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 15/20 (75%)
Query: 59 RFSPFQAAQNSLLMTNIMHL 78
RFS +Q QNSLLM+N+ L
Sbjct: 91 RFSEYQKEQNSLLMSNLSTL 110
>pdb|2D62|A Chain A, Crystal Structure Of Multiple Sugar Binding Transport Atp-
Binding Protein
Length = 375
Score = 28.1 bits (61), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 29/61 (47%)
Query: 97 HLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSGGNKRKLSTAMAL 156
H T + + LR +P + + + LGLTE +R SGG +++++ A+
Sbjct: 98 HXTVYDNIAFPLKLRKVPKQEIDKRVREVAEXLGLTELLNRKPRELSGGQRQRVALGRAI 157
Query: 157 I 157
I
Sbjct: 158 I 158
>pdb|2ONK|A Chain A, Abc Transporter Modbc In Complex With Its Binding Protein
Moda
pdb|2ONK|B Chain B, Abc Transporter Modbc In Complex With Its Binding Protein
Moda
pdb|2ONK|F Chain F, Abc Transporter Modbc In Complex With Its Binding Protein
Moda
pdb|2ONK|G Chain G, Abc Transporter Modbc In Complex With Its Binding Protein
Moda
Length = 240
Score = 27.3 bits (59), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 35/74 (47%), Gaps = 2/74 (2%)
Query: 84 GIGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYS 143
GIG+ PQ + HL+ + LR + V+ + + LG+ R R S
Sbjct: 71 GIGFVPQDYALFPHLSVYRNIAY--GLRNVERVERDRRVREMAEKLGIAHLLDRKPARLS 128
Query: 144 GGNKRKLSTAMALI 157
GG +++++ A AL+
Sbjct: 129 GGERQRVALARALV 142
>pdb|1H4L|A Chain A, Structure And Regulation Of The Cdk5-P25(Nck5a) Complex
pdb|1H4L|B Chain B, Structure And Regulation Of The Cdk5-P25(Nck5a) Complex
Length = 292
Score = 26.6 bits (57), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 3 LFQYLSGIGYCPQFNGINEHLTAQEML 29
LFQ L G+G+C N ++ L Q +L
Sbjct: 107 LFQLLKGLGFCHSRNVLHRDLKPQNLL 133
Score = 26.6 bits (57), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 78 LFQYLSGIGYCPQFNGINEHLTAQEML 104
LFQ L G+G+C N ++ L Q +L
Sbjct: 107 LFQLLKGLGFCHSRNVLHRDLKPQNLL 133
>pdb|1UNG|A Chain A, Structural Mechanism For The Inhibition Of Cdk5-P25 By
Roscovitine, Aloisine And Indirubin.
pdb|1UNG|B Chain B, Structural Mechanism For The Inhibition Of Cdk5-P25 By
Roscovitine, Aloisine And Indirubin.
pdb|1UNH|A Chain A, Structural Mechanism For The Inhibition Of Cdk5-P25 By
Roscovitine, Aloisine And Indirubin.
pdb|1UNH|B Chain B, Structural Mechanism For The Inhibition Of Cdk5-P25 By
Roscovitine, Aloisine And Indirubin.
pdb|1UNL|A Chain A, Structural Mechanism For The Inhibition Of Cd5-P25 From
The Roscovitine, Aloisine And Indirubin.
pdb|1UNL|B Chain B, Structural Mechanism For The Inhibition Of Cd5-P25 From
The Roscovitine, Aloisine And Indirubin.
pdb|3O0G|A Chain A, Crystal Structure Of Cdk5:p25 In Complex With An Atp
Analogue
pdb|3O0G|B Chain B, Crystal Structure Of Cdk5:p25 In Complex With An Atp
Analogue
Length = 292
Score = 26.6 bits (57), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 3 LFQYLSGIGYCPQFNGINEHLTAQEML 29
LFQ L G+G+C N ++ L Q +L
Sbjct: 107 LFQLLKGLGFCHSRNVLHRDLKPQNLL 133
Score = 26.6 bits (57), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 78 LFQYLSGIGYCPQFNGINEHLTAQEML 104
LFQ L G+G+C N ++ L Q +L
Sbjct: 107 LFQLLKGLGFCHSRNVLHRDLKPQNLL 133
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
0.324 0.141 0.440
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,440,989
Number of Sequences: 62578
Number of extensions: 214847
Number of successful extensions: 395
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 383
Number of HSP's gapped (non-prelim): 16
length of query: 178
length of database: 14,973,337
effective HSP length: 92
effective length of query: 86
effective length of database: 9,216,161
effective search space: 792589846
effective search space used: 792589846
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 48 (23.1 bits)