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= 040579
(72 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2P1M|A Chain A, Tir1-ask1 Complex Structure
pdb|2P1N|A Chain A, Mechanism Of Auxin Perception By The Tir1 Ubiqutin
Ligase
pdb|2P1N|D Chain D, Mechanism Of Auxin Perception By The Tir1 Ubiqutin
Ligase
pdb|2P1O|A Chain A, Mechanism Of Auxin Perception By The Tir1 Ubiquitin
Ligase
pdb|2P1P|A Chain A, Mechanism Of Auxin Perception By The Tir1 Ubiquitin
Ligase
pdb|2P1Q|A Chain A, Mechanism Of Auxin Perception By The Tir1 Ubiquitin
Ligase
pdb|3C6N|A Chain A, Small Molecule Agonists And Antagonists Of F-Box
Protein- Substrate Interactions In Auxin Perception And
Signaling
pdb|3C6O|A Chain A, Small Molecule Agonists And Antagonists Of F-Box
Protein-Substrate Interactions In Auxin Perception And
Signaling
pdb|3C6P|A Chain A, Small Molecule Agonists And Antagonists Of F-Box
Protein- Substrate Interactions In Auxin Perception And
Signaling
pdb|3OGK|A Chain A, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|C Chain C, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|E Chain E, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|G Chain G, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|I Chain I, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|K Chain K, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|M Chain M, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|O Chain O, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGL|A Chain A, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|C Chain C, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|E Chain E, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|G Chain G, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|I Chain I, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|K Chain K, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|M Chain M, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|O Chain O, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGM|A Chain A, Structure Of Coi1-Ask1 In Complex With Coronatine And
The Jaz1 Degron
pdb|3OGM|C Chain C, Structure Of Coi1-Ask1 In Complex With Coronatine And
The Jaz1 Degron
pdb|3OGM|E Chain E, Structure Of Coi1-Ask1 In Complex With Coronatine And
The Jaz1 Degron
pdb|3OGM|G Chain G, Structure Of Coi1-Ask1 In Complex With Coronatine And
The Jaz1 Degron
pdb|3OGM|I Chain I, Structure Of Coi1-Ask1 In Complex With Coronatine And
The Jaz1 Degron
pdb|3OGM|K Chain K, Structure Of Coi1-Ask1 In Complex With Coronatine And
The Jaz1 Degron
pdb|3OGM|M Chain M, Structure Of Coi1-Ask1 In Complex With Coronatine And
The Jaz1 Degron
pdb|3OGM|O Chain O, Structure Of Coi1-Ask1 In Complex With Coronatine And
The Jaz1 Degron
Length = 160
Score = 78.2 bits (191), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 45/89 (50%), Positives = 55/89 (61%), Gaps = 18/89 (20%)
Query: 1 MLKSSDGEVFE-------------HMIEDDCAVDRIPLPNVTIKIFYKAIKYCNKHDEAS 47
+LKSSDGE FE HM+EDDC + +PLPNVT KI K I+YC +H EA+
Sbjct: 7 VLKSSDGESFEVEEAVALESQTIAHMVEDDCVDNGVPLPNVTSKILAKVIEYCKRHVEAA 66
Query: 48 MFD----DLATTSIDDDLKAWDADLVKVD 72
+ A TS DDDLKAWDAD +K+D
Sbjct: 67 ASKAEAVEGAATS-DDDLKAWDADFMKID 94
>pdb|3L2O|A Chain A, Structure-Based Mechanism Of Dimerization-Dependent
Ubiquitination By The Scffbx4 Ubiquitin Ligase
Length = 149
Score = 50.1 bits (118), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 30/83 (36%), Positives = 42/83 (50%), Gaps = 18/83 (21%)
Query: 2 LKSSDGEVFEHMIE------------DDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASMF 49
L+SSDGE+FE +E +D +D +PLPNV I K I++C H
Sbjct: 6 LQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDPVPLPNVNAAILKKVIQWCTHHK----- 60
Query: 50 DDLATTSIDDDLKAWDADLVKVD 72
DD + DD+ WD + +KVD
Sbjct: 61 DDPGGSGT-DDIPVWDQEFLKVD 82
>pdb|1FQV|B Chain B, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|D Chain D, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|F Chain F, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|H Chain H, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|J Chain J, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|L Chain L, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|N Chain N, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|P Chain P, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|2OVP|A Chain A, Structure Of The Skp1-Fbw7 Complex
pdb|2OVQ|A Chain A, Structure Of The Skp1-Fbw7-Cyclinedegc Complex
pdb|2OVR|A Chain A, Structure Of The Skp1-Fbw7-Cyclinedegn Complex
Length = 149
Score = 50.1 bits (118), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 30/83 (36%), Positives = 42/83 (50%), Gaps = 18/83 (21%)
Query: 2 LKSSDGEVFEHMIE------------DDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASMF 49
L+SSDGE+FE +E +D +D +PLPNV I K I++C H
Sbjct: 6 LQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDPVPLPNVNAAILKKVIQWCTHHK----- 60
Query: 50 DDLATTSIDDDLKAWDADLVKVD 72
DD + DD+ WD + +KVD
Sbjct: 61 DDPGGSGT-DDIPVWDQEFLKVD 82
>pdb|1P22|B Chain B, Structure Of A Beta-Trcp1-Skp1-Beta-Catenin Complex:
Destruction Motif Binding And Lysine Specificity On The
Scfbeta-Trcp1 Ubiquitin Ligase
Length = 145
Score = 47.8 bits (112), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 30/83 (36%), Positives = 41/83 (49%), Gaps = 22/83 (26%)
Query: 2 LKSSDGEVFEHMIE------------DDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASMF 49
L+SSDGE+FE +E +D +D +PLPNV I K I++C H
Sbjct: 6 LQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDPVPLPNVNAAILKKVIQWCTHHK----- 60
Query: 50 DDLATTSIDDDLKAWDADLVKVD 72
DD DD+ WD + +KVD
Sbjct: 61 DDPP-----DDIPVWDQEFLKVD 78
>pdb|1LDK|D Chain D, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 133
Score = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 41/85 (48%), Gaps = 14/85 (16%)
Query: 2 LKSSDGEVFEHMIE------------DDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASMF 49
L+SSDGE+FE +E +D +D +PLPNV I K I++C H +
Sbjct: 5 LQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDPVPLPNVNAAILKKVIQWCTHHKDDPPP 64
Query: 50 DDLATT--SIDDDLKAWDADLVKVD 72
+ DD+ WD + +KVD
Sbjct: 65 PEDDENKEKRTDDIPVWDQEFLKVD 89
>pdb|1FS1|B Chain B, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FS1|D Chain D, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FS2|B Chain B, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FS2|D Chain D, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
Length = 141
Score = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 41/85 (48%), Gaps = 14/85 (16%)
Query: 2 LKSSDGEVFEHMIE------------DDCAVDRIPLPNVTIKIFYKAIKYCNKHDEASMF 49
L+SSDGE+FE +E +D +D +PLPNV I K I++C H +
Sbjct: 6 LQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDPVPLPNVNAAILKKVIQWCTHHKDDPPP 65
Query: 50 DDLATT--SIDDDLKAWDADLVKVD 72
+ DD+ WD + +KVD
Sbjct: 66 PEDDENKEKRTDDIPVWDQEFLKVD 90
>pdb|2E31|B Chain B, Structural Basis For Selection Of Glycosylated Substrate
By Scffbs1 Ubiquitin Ligase
pdb|2E32|B Chain B, Structural Basis For Selection Of Glycosylated Substrate
By Scffbs1 Ubiquitin Ligase
pdb|2E32|D Chain D, Structural Basis For Selection Of Glycosylated Substrate
By Scffbs1 Ubiquitin Ligase
Length = 166
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 40/91 (43%), Gaps = 20/91 (21%)
Query: 2 LKSSDGEVFEHMIE------------------DDCAVDRIPLPNVTIKIFYKAIKYCNKH 43
L+SSDGE+FE +E D+ D +PLPNV I K I++C H
Sbjct: 9 LQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDDEGDDDPVPLPNVNAAILKKVIQWCTHH 68
Query: 44 DEASMFDDLATT--SIDDDLKAWDADLVKVD 72
+ + DD+ WD + +KVD
Sbjct: 69 KDDPPPPEDDENKEKRTDDIPVWDQEFLKVD 99
>pdb|2ASS|A Chain A, Crystal Structure Of The Skp1-Skp2-Cks1 Complex
pdb|2AST|A Chain A, Crystal Structure Of Skp1-Skp2-Cks1 In Complex With A
P27 Peptide
Length = 159
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 40/91 (43%), Gaps = 20/91 (21%)
Query: 2 LKSSDGEVFEHMIE------------------DDCAVDRIPLPNVTIKIFYKAIKYCNKH 43
L+SSDGE+FE +E D+ D +PLPNV I K I++C H
Sbjct: 5 LQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDDEGDDDPVPLPNVNAAILKKVIQWCTHH 64
Query: 44 DEASMFDDLATT--SIDDDLKAWDADLVKVD 72
+ + DD+ WD + +KVD
Sbjct: 65 KDDPPPPEDDENKEKRTDDIPVWDQEFLKVD 95
>pdb|2X75|A Chain A, Staphylococcus Aureus Adenylosuccinate Lyase
Length = 431
Score = 29.6 bits (65), Expect = 0.40, Method: Composition-based stats.
Identities = 14/40 (35%), Positives = 24/40 (60%)
Query: 19 AVDRIPLPNVTIKIFYKAIKYCNKHDEASMFDDLATTSID 58
+ +RI LP+VTI + Y ++ N D ++F+D +ID
Sbjct: 307 SAERIMLPDVTIALDYALNRFTNIVDRLTVFEDNMRNNID 346
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
0.320 0.136 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,188,466
Number of Sequences: 62578
Number of extensions: 70968
Number of successful extensions: 138
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 113
Number of HSP's gapped (non-prelim): 9
length of query: 72
length of database: 14,973,337
effective HSP length: 42
effective length of query: 30
effective length of database: 12,345,061
effective search space: 370351830
effective search space used: 370351830
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)