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= 018181
(359 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3L2O|A Chain A, Structure-Based Mechanism Of Dimerization-Dependent
Ubiquitination By The Scffbx4 Ubiquitin Ligase
Length = 149
Score = 83.2 bits (204), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 50/137 (36%), Positives = 82/137 (59%), Gaps = 8/137 (5%)
Query: 20 LQTADGSIQQVEQEVAMFCPLICQEVIQKGMGSSKNYAISLPQRVNPAMLSLILDYCRFH 79
LQ++DG I +V+ E+A I + GM + LP VN A+L ++ +C H
Sbjct: 6 LQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDP-----VPLP-NVNAAILKKVIQWCTHH 59
Query: 80 Q--VPGSSNKERKSFDEKFIRMDTKRLCELTSAADSLQLKPLVDLTSRALARIIEGKTPE 137
+ GS + +D++F+++D L EL AA+ L +K L+D+T + +A +I+GKTPE
Sbjct: 60 KDDPGGSGTDDIPVWDQEFLKVDQGTLFELILAANYLDIKGLLDVTCKTVANMIKGKTPE 119
Query: 138 EIREIFHLPDDLTEEEK 154
EIR+ F++ +D TEEE+
Sbjct: 120 EIRKTFNIKNDFTEEEE 136
>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 = 82.8 bits (203), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 50/137 (36%), Positives = 82/137 (59%), Gaps = 8/137 (5%)
Query: 20 LQTADGSIQQVEQEVAMFCPLICQEVIQKGMGSSKNYAISLPQRVNPAMLSLILDYCRFH 79
LQ++DG I +V+ E+A I + GM + LP VN A+L ++ +C H
Sbjct: 6 LQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMD-----PVPLP-NVNAAILKKVIQWCTHH 59
Query: 80 Q--VPGSSNKERKSFDEKFIRMDTKRLCELTSAADSLQLKPLVDLTSRALARIIEGKTPE 137
+ GS + +D++F+++D L EL AA+ L +K L+D+T + +A +I+GKTPE
Sbjct: 60 KDDPGGSGTDDIPVWDQEFLKVDQGTLFELILAANYLDIKGLLDVTCKTVANMIKGKTPE 119
Query: 138 EIREIFHLPDDLTEEEK 154
EIR+ F++ +D TEEE+
Sbjct: 120 EIRKTFNIKNDFTEEEE 136
>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 = 82.4 bits (202), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 51/146 (34%), Positives = 86/146 (58%), Gaps = 12/146 (8%)
Query: 20 LQTADGSIQQVEQEVAMFCPLICQEVIQKGMGS-SKNYAISLPQRVNPAMLSLILDYCRF 78
LQ++DG I +V+ E+A I + GM + + LP VN A+L ++ +C
Sbjct: 5 LQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDDEGDDDPVPLP-NVNAAILKKVIQWCTH 63
Query: 79 HQVPGSS-----NKERKS-----FDEKFIRMDTKRLCELTSAADSLQLKPLVDLTSRALA 128
H+ NKE+++ +D++F+++D L EL AA+ L +K L+D+T + +A
Sbjct: 64 HKDDPPPPEDDENKEKRTDDIPVWDQEFLKVDQGTLFELILAANYLDIKGLLDVTCKTVA 123
Query: 129 RIIEGKTPEEIREIFHLPDDLTEEEK 154
+I+GKTPEEIR+ F++ +D TEEE+
Sbjct: 124 NMIKGKTPEEIRKTFNIKNDFTEEEE 149
>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 = 82.0 bits (201), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 51/146 (34%), Positives = 86/146 (58%), Gaps = 12/146 (8%)
Query: 20 LQTADGSIQQVEQEVAMFCPLICQEVIQKGMGS-SKNYAISLPQRVNPAMLSLILDYCRF 78
LQ++DG I +V+ E+A I + GM + + LP VN A+L ++ +C
Sbjct: 9 LQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDDEGDDDPVPLP-NVNAAILKKVIQWCTH 67
Query: 79 HQVPGSS-----NKERKS-----FDEKFIRMDTKRLCELTSAADSLQLKPLVDLTSRALA 128
H+ NKE+++ +D++F+++D L EL AA+ L +K L+D+T + +A
Sbjct: 68 HKDDPPPPEDDENKEKRTDDIPVWDQEFLKVDQGTLFELILAANYLDIKGLLDVTCKTVA 127
Query: 129 RIIEGKTPEEIREIFHLPDDLTEEEK 154
+I+GKTPEEIR+ F++ +D TEEE+
Sbjct: 128 NMIKGKTPEEIRKTFNIKNDFTEEEE 153
>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 = 78.6 bits (192), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 48/135 (35%), Positives = 80/135 (59%), Gaps = 8/135 (5%)
Query: 20 LQTADGSIQQVEQEVAMFCPLICQEVIQKGMGSSKNYAISLPQRVNPAMLSLILDYCRFH 79
LQ++DG I +V+ E+A I + GM + LP VN A+L ++ +C H
Sbjct: 6 LQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDP-----VPLP-NVNAAILKKVIQWCTHH 59
Query: 80 QVPGSSNKERKSFDEKFIRMDTKRLCELTSAADSLQLKPLVDLTSRALARIIEGKTPEEI 139
+ + +D++F+++D L EL AA+ L +K L+D+T + +A +I+GKTPEEI
Sbjct: 60 K--DDPPDDIPVWDQEFLKVDQGTLFELILAANYLDIKGLLDVTCKTVANMIKGKTPEEI 117
Query: 140 REIFHLPDDLTEEEK 154
R+ F++ +D TEEE+
Sbjct: 118 RKTFNIKNDFTEEEE 132
>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 = 77.8 bits (190), Expect = 9e-15, Method: Compositional matrix adjust.
Identities = 49/142 (34%), Positives = 82/142 (57%), Gaps = 16/142 (11%)
Query: 20 LQTADGSIQQVEQEVAMFCPLICQEVIQKGMGSSKNYAISLPQRVNPAMLSLILDYCRFH 79
LQ++DG I +V+ E+A I + GM + LP VN A+L ++ +C H
Sbjct: 6 LQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMD-----PVPLP-NVNAAILKKVIQWCTHH 59
Query: 80 QVPGSS-----NKERKS-----FDEKFIRMDTKRLCELTSAADSLQLKPLVDLTSRALAR 129
+ NKE+++ +D++F+++D L EL AA+ L +K L+D+T + +A
Sbjct: 60 KDDPPPPEDDENKEKRTDDIPVWDQEFLKVDQGTLFELILAANYLDIKGLLDVTCKTVAN 119
Query: 130 IIEGKTPEEIREIFHLPDDLTE 151
+I+GKTPEEIR+ F++ +D TE
Sbjct: 120 MIKGKTPEEIRKTFNIKNDFTE 141
>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 = 73.9 bits (180), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 47/149 (31%), Positives = 81/149 (54%), Gaps = 16/149 (10%)
Query: 13 MMKSYIWLQTADGSIQQVEQEVAMFCPLICQEVIQKGMGSSKNYAISLPQRVNPAMLSLI 72
M I L+++DG +VE+ VA+ I V + + + LP V +L+ +
Sbjct: 1 MSAKKIVLKSSDGESFEVEEAVALESQTIAHMVEDDCVDN----GVPLP-NVTSKILAKV 55
Query: 73 LDYCRFH-----------QVPGSSNKERKSFDEKFIRMDTKRLCELTSAADSLQLKPLVD 121
++YC+ H + +S+ + K++D F+++D L EL AA+ L +K L+D
Sbjct: 56 IEYCKRHVEAAASKAEAVEGAATSDDDLKAWDADFMKIDQATLFELILAANYLNIKNLLD 115
Query: 122 LTSRALARIIEGKTPEEIREIFHLPDDLT 150
LT + +A +I+GKTPEEIR F++ +D T
Sbjct: 116 LTCQTVADMIKGKTPEEIRTTFNIKNDFT 144
>pdb|1LDK|D Chain D, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 133
Score = 70.9 bits (172), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 46/135 (34%), Positives = 77/135 (57%), Gaps = 16/135 (11%)
Query: 20 LQTADGSIQQVEQEVAMFCPLICQEVIQKGMGSSKNYAISLPQRVNPAMLSLILDYCRFH 79
LQ++DG I +V+ E+A I + GM + LP VN A+L ++ +C H
Sbjct: 5 LQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDP-----VPLP-NVNAAILKKVIQWCTHH 58
Query: 80 QVPGSS-----NKERKS-----FDEKFIRMDTKRLCELTSAADSLQLKPLVDLTSRALAR 129
+ NKE+++ +D++F+++D L EL AA+ L +K L+D+T + +A
Sbjct: 59 KDDPPPPEDDENKEKRTDDIPVWDQEFLKVDQGTLFELILAANYLDIKGLLDVTCKTVAN 118
Query: 130 IIEGKTPEEIREIFH 144
+I+GKTPEEIR+ F+
Sbjct: 119 MIKGKTPEEIRKTFN 133
>pdb|3MKS|A Chain A, Crystal Structure Of Yeast Cdc4SKP1 IN COMPLEX WITH AN
ALLOSTERIC Inhibitor Scf-I2
pdb|3MKS|C Chain C, Crystal Structure Of Yeast Cdc4SKP1 IN COMPLEX WITH AN
ALLOSTERIC Inhibitor Scf-I2
pdb|3V7D|A Chain A, Crystal Structure Of Scskp1-Sccdc4-Psic1 Peptide Complex
pdb|3V7D|C Chain C, Crystal Structure Of Scskp1-Sccdc4-Psic1 Peptide Complex
Length = 169
Score = 59.3 bits (142), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 40/153 (26%), Positives = 82/153 (53%), Gaps = 11/153 (7%)
Query: 13 MMKSYIWLQTADGSIQQVEQEVAMFCPLICQEVIQKGMGSSKNYA-ISLP-QRVNPAMLS 70
M+ S + L + +G V++++A L+ + G ++ I +P V ++L
Sbjct: 4 MVTSNVVLVSGEGERFTVDKKIAERSLLLKNYLNDMGDDDDEDDDEIVMPVPNVRSSVLQ 63
Query: 71 LILDYCRFHQ---VPGSSNKERK------SFDEKFIRMDTKRLCELTSAADSLQLKPLVD 121
++++ H+ P + + + S+D +F+++D + L E+ AA+ L +KPL+D
Sbjct: 64 KVIEWAEHHRDSNFPDEDDDDSRKSAPVDSWDREFLKVDQEMLYEIILAANYLNIKPLLD 123
Query: 122 LTSRALARIIEGKTPEEIREIFHLPDDLTEEEK 154
+ +A +I G++PEEIR F++ +D T EE+
Sbjct: 124 AGCKVVAEMIRGRSPEEIRRTFNIVNDFTPEEE 156
>pdb|1NEX|A Chain A, Crystal Structure Of Scskp1-Sccdc4-Cpd Peptide Complex
pdb|1NEX|C Chain C, Crystal Structure Of Scskp1-Sccdc4-Cpd Peptide Complex
Length = 169
Score = 58.5 bits (140), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 30/100 (30%), Positives = 58/100 (58%), Gaps = 9/100 (9%)
Query: 64 VNPAMLSLILDYCRFHQ---VPGSSNKERK------SFDEKFIRMDTKRLCELTSAADSL 114
V ++L ++++ H+ P + + + S+D +F+++D + L E+ AA+ L
Sbjct: 57 VRSSVLQKVIEWAEHHRDSNFPDEDDDDSRKSAPVDSWDREFLKVDQEXLYEIILAANYL 116
Query: 115 QLKPLVDLTSRALARIIEGKTPEEIREIFHLPDDLTEEEK 154
+KPL+D + +A I G++PEEIR F++ +D T EE+
Sbjct: 117 NIKPLLDAGCKVVAEXIRGRSPEEIRRTFNIVNDFTPEEE 156
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
0.316 0.133 0.382
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,570,362
Number of Sequences: 62578
Number of extensions: 289599
Number of successful extensions: 729
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 711
Number of HSP's gapped (non-prelim): 10
length of query: 359
length of database: 14,973,337
effective HSP length: 100
effective length of query: 259
effective length of database: 8,715,537
effective search space: 2257324083
effective search space used: 2257324083
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: 52 (24.6 bits)