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= 042635
(121 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 = 68.2 bits (165), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 50/158 (31%), Positives = 78/158 (49%), Gaps = 48/158 (30%)
Query: 4 SKKISLKRADGQLFEVEEPVAMDFE-----IEDTVV----PLPNVSTEPLSYIIEFCKAH 54
+KKI LK +DG+ FEVEE VA++ + +ED V PLPNV+++ L+ +IE+CK H
Sbjct: 3 AKKIVLKSSDGESFEVEEAVALESQTIAHMVEDDCVDNGVPLPNVTSKILAKVIEYCKRH 62
Query: 55 VEFSKQRSPKQE--------------------------------------MLDYWTETLA 76
VE + ++ E +LD +T+A
Sbjct: 63 VEAAASKAEAVEGAATSDDDLKAWDADFMKIDQATLFELILAANYLNIKNLLDLTCQTVA 122
Query: 77 NRIKNKSVQYVGKFFGIENNFTPKEEVARTQY-EWAFE 113
+ IK K+ + + F I+N+FTP+EE + +WAFE
Sbjct: 123 DMIKGKTPEEIRTTFNIKNDFTPEEEEEVRRENQWAFE 160
>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 = 52.4 bits (124), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 45/163 (27%), Positives = 68/163 (41%), Gaps = 52/163 (31%)
Query: 3 HSKKISLKRADGQLFEVE--------------EPVAMDFEIEDTVVPLPNVSTEPLSYII 48
H I L+ +DG++FEV+ E + MD E +D VPLPNV+ L +I
Sbjct: 3 HMPSIKLQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDDEGDDDPVPLPNVNAAILKKVI 62
Query: 49 EFCKAH------------------------VEFSKQRSPK-------------QEMLDYW 71
++C H EF K + +LD
Sbjct: 63 QWCTHHKDDPPPPEDDENKEKRTDDIPVWDQEFLKVDQGTLFELILAANYLDIKGLLDVT 122
Query: 72 TETLANRIKNKSVQYVGKFFGIENNFTPKEEV-ARTQYEWAFE 113
+T+AN IK K+ + + K F I+N+FT +EE R + +W E
Sbjct: 123 CKTVANMIKGKTPEEIRKTFNIKNDFTEEEEAQVRKENQWCEE 165
>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 = 50.4 bits (119), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 43/157 (27%), Positives = 66/157 (42%), Gaps = 52/157 (33%)
Query: 7 ISLKRADGQLFEVE--------------EPVAMDFEIEDTVVPLPNVSTEPLSYIIEFCK 52
I L+ +DG++FEV+ E + MD E +D VPLPNV+ L +I++C
Sbjct: 3 IKLQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDDEGDDDPVPLPNVNAAILKKVIQWCT 62
Query: 53 AH------------------------VEFSKQRSPK-------------QEMLDYWTETL 75
H EF K + +LD +T+
Sbjct: 63 HHKDDPPPPEDDENKEKRTDDIPVWDQEFLKVDQGTLFELILAANYLDIKGLLDVTCKTV 122
Query: 76 ANRIKNKSVQYVGKFFGIENNFTPKEEV-ARTQYEWA 111
AN IK K+ + + K F I+N+FT +EE R + +W
Sbjct: 123 ANMIKGKTPEEIRKTFNIKNDFTEEEEAQVRKENQWC 159
>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 = 50.1 bits (118), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 42/141 (29%), Positives = 66/141 (46%), Gaps = 34/141 (24%)
Query: 7 ISLKRADGQLFEVE-----EPVAMDFEIEDTV---VPLPNVSTEPLSYIIEFCKAHVEFS 58
I L+ +DG++FEV+ + V + +ED VPLPNV+ L +I++C H +
Sbjct: 4 IKLQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDPVPLPNVNAAILKKVIQWCTHHKDDP 63
Query: 59 KQRSP--KQE-----------------------MLDYWTETLANRIKNKSVQYVGKFFGI 93
P QE +LD +T+AN IK K+ + + K F I
Sbjct: 64 PDDIPVWDQEFLKVDQGTLFELILAANYLDIKGLLDVTCKTVANMIKGKTPEEIRKTFNI 123
Query: 94 ENNFTPKEEV-ARTQYEWAFE 113
+N+FT +EE R + +W E
Sbjct: 124 KNDFTEEEEAQVRKENQWCEE 144
>pdb|3L2O|A Chain A, Structure-Based Mechanism Of Dimerization-Dependent
Ubiquitination By The Scffbx4 Ubiquitin Ligase
Length = 149
Score = 48.9 bits (115), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 42/145 (28%), Positives = 66/145 (45%), Gaps = 38/145 (26%)
Query: 7 ISLKRADGQLFEVE-----EPVAMDFEIEDTV---VPLPNVSTEPLSYIIEFCKAH---- 54
I L+ +DG++FEV+ + V + +ED VPLPNV+ L +I++C H
Sbjct: 4 IKLQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDPVPLPNVNAAILKKVIQWCTHHKDDP 63
Query: 55 ------------VEFSKQRSPK-------------QEMLDYWTETLANRIKNKSVQYVGK 89
EF K + +LD +T+AN IK K+ + + K
Sbjct: 64 GGSGTDDIPVWDQEFLKVDQGTLFELILAANYLDIKGLLDVTCKTVANMIKGKTPEEIRK 123
Query: 90 FFGIENNFTPKEEV-ARTQYEWAFE 113
F I+N+FT +EE R + +W E
Sbjct: 124 TFNIKNDFTEEEEAQVRKENQWCEE 148
>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 = 48.9 bits (115), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 42/145 (28%), Positives = 66/145 (45%), Gaps = 38/145 (26%)
Query: 7 ISLKRADGQLFEVE-----EPVAMDFEIEDTV---VPLPNVSTEPLSYIIEFCKAH---- 54
I L+ +DG++FEV+ + V + +ED VPLPNV+ L +I++C H
Sbjct: 4 IKLQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDPVPLPNVNAAILKKVIQWCTHHKDDP 63
Query: 55 ------------VEFSKQRSPK-------------QEMLDYWTETLANRIKNKSVQYVGK 89
EF K + +LD +T+AN IK K+ + + K
Sbjct: 64 GGSGTDDIPVWDQEFLKVDQGTLFELILAANYLDIKGLLDVTCKTVANMIKGKTPEEIRK 123
Query: 90 FFGIENNFTPKEEV-ARTQYEWAFE 113
F I+N+FT +EE R + +W E
Sbjct: 124 TFNIKNDFTEEEEAQVRKENQWCEE 148
>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 = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 37/137 (27%), Positives = 58/137 (42%), Gaps = 45/137 (32%)
Query: 7 ISLKRADGQLFEVE-----EPVAMDFEIEDTV---VPLPNVSTEPLSYIIEFCKAH---- 54
I L+ +DG++FEV+ + V + +ED VPLPNV+ L +I++C H
Sbjct: 4 IKLQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDPVPLPNVNAAILKKVIQWCTHHKDDP 63
Query: 55 --------------------VEFSKQRSPK-------------QEMLDYWTETLANRIKN 81
EF K + +LD +T+AN IK
Sbjct: 64 PPPEDDENKEKRTDDIPVWDQEFLKVDQGTLFELILAANYLDIKGLLDVTCKTVANMIKG 123
Query: 82 KSVQYVGKFFGIENNFT 98
K+ + + K F I+N+FT
Sbjct: 124 KTPEEIRKTFNIKNDFT 140
>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 = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 32/116 (27%), Positives = 52/116 (44%), Gaps = 37/116 (31%)
Query: 33 VVPLPNVSTEPLSYIIEFCKAHVEF---------SKQRSP-----------KQEML---- 68
V+P+PNV + L +IE+ + H + S++ +P QEML
Sbjct: 51 VMPVPNVRSSVLQKVIEWAEHHRDSNFPDEDDDDSRKSAPVDSWDREFLKVDQEMLYEII 110
Query: 69 ------------DYWTETLANRIKNKSVQYVGKFFGIENNFTPKEEVA-RTQYEWA 111
D + +A I+ +S + + + F I N+FTP+EE A R + EWA
Sbjct: 111 LAANYLNIKPLLDAGCKVVAEMIRGRSPEEIRRTFNIVNDFTPEEEAAIRRENEWA 166
>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 = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 31/116 (26%), Positives = 51/116 (43%), Gaps = 37/116 (31%)
Query: 33 VVPLPNVSTEPLSYIIEFCKAHVEF---------SKQRSP-----------KQE------ 66
V P+PNV + L +IE+ + H + S++ +P QE
Sbjct: 51 VXPVPNVRSSVLQKVIEWAEHHRDSNFPDEDDDDSRKSAPVDSWDREFLKVDQEXLYEII 110
Query: 67 ----------MLDYWTETLANRIKNKSVQYVGKFFGIENNFTPKEEVA-RTQYEWA 111
+LD + +A I+ +S + + + F I N+FTP+EE A R + EWA
Sbjct: 111 LAANYLNIKPLLDAGCKVVAEXIRGRSPEEIRRTFNIVNDFTPEEEAAIRRENEWA 166
>pdb|1LDK|D Chain D, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 133
Score = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 32/56 (57%), Gaps = 8/56 (14%)
Query: 7 ISLKRADGQLFEVE-----EPVAMDFEIEDTV---VPLPNVSTEPLSYIIEFCKAH 54
I L+ +DG++FEV+ + V + +ED VPLPNV+ L +I++C H
Sbjct: 3 IKLQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDPVPLPNVNAAILKKVIQWCTHH 58
>pdb|2VBE|A Chain A, Tailspike Protein Of Bacteriophage Sf6
Length = 514
Score = 29.6 bits (65), Expect = 0.43, Method: Composition-based stats.
Identities = 14/48 (29%), Positives = 24/48 (50%)
Query: 68 LDYWTETLANRIKNKSVQYVGKFFGIENNFTPKEEVARTQYEWAFEGL 115
L Y ++T+ ++N V GI+ N T ++ V R Y W F+ +
Sbjct: 134 LSYDSDTIGRYLRNIRVTGNNTCNGIDTNITAEDSVIRQVYGWVFDNV 181
>pdb|2VBK|A Chain A, Native Tailspike Protein Of Bacteriophage Sf6
pdb|2VBM|A Chain A, Tailspike Protein Of Bacteriophage Sf6 Complexed With
Tetrasaccharide
Length = 514
Score = 29.6 bits (65), Expect = 0.43, Method: Composition-based stats.
Identities = 14/48 (29%), Positives = 24/48 (50%)
Query: 68 LDYWTETLANRIKNKSVQYVGKFFGIENNFTPKEEVARTQYEWAFEGL 115
L Y ++T+ ++N V GI+ N T ++ V R Y W F+ +
Sbjct: 134 LSYDSDTIGRYLRNIRVTGNNTCNGIDTNITAEDSVIRQVYGWVFDNV 181
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
0.315 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: 3,812,965
Number of Sequences: 62578
Number of extensions: 143960
Number of successful extensions: 336
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 305
Number of HSP's gapped (non-prelim): 27
length of query: 121
length of database: 14,973,337
effective HSP length: 83
effective length of query: 38
effective length of database: 9,779,363
effective search space: 371615794
effective search space used: 371615794
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: 45 (21.9 bits)