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= 045340
(136 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 28/58 (48%), Positives = 39/58 (67%)
Query: 41 LKEMLLVANYLNITEMLDYLTETLANRIKNKSVEYIRKFFRIENNFMPEEEEAARNDS 98
L E++L ANYL+I +LD +T+AN IK K+ E IRK F I+N+F EEE R ++
Sbjct: 86 LFELILAANYLDIKGLLDVTCKTVANMIKGKTPEEIRKTFNIKNDFTEEEEAQVRKEN 143
>pdb|3L2O|A Chain A, Structure-Based Mechanism Of Dimerization-Dependent
Ubiquitination By The Scffbx4 Ubiquitin Ligase
Length = 149
Score = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 28/58 (48%), Positives = 39/58 (67%)
Query: 41 LKEMLLVANYLNITEMLDYLTETLANRIKNKSVEYIRKFFRIENNFMPEEEEAARNDS 98
L E++L ANYL+I +LD +T+AN IK K+ E IRK F I+N+F EEE R ++
Sbjct: 86 LFELILAANYLDIKGLLDVTCKTVANMIKGKTPEEIRKTFNIKNDFTEEEEAQVRKEN 143
>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 = 54.7 bits (130), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 27/56 (48%), Positives = 38/56 (67%)
Query: 43 EMLLVANYLNITEMLDYLTETLANRIKNKSVEYIRKFFRIENNFMPEEEEAARNDS 98
E++L ANYL+I +LD +T+AN IK K+ E IRK F I+N+F EEE R ++
Sbjct: 105 ELILAANYLDIKGLLDVTCKTVANMIKGKTPEEIRKTFNIKNDFTEEEEAQVRKEN 160
>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 = 54.7 bits (130), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 28/58 (48%), Positives = 39/58 (67%)
Query: 41 LKEMLLVANYLNITEMLDYLTETLANRIKNKSVEYIRKFFRIENNFMPEEEEAARNDS 98
L E++L ANYL+I +LD +T+AN IK K+ E IRK F I+N+F EEE R ++
Sbjct: 99 LFELILAANYLDIKGLLDVTCKTVANMIKGKTPEEIRKTFNIKNDFTEEEEAQVRKEN 156
>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 = 54.3 bits (129), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 28/58 (48%), Positives = 39/58 (67%)
Query: 41 LKEMLLVANYLNITEMLDYLTETLANRIKNKSVEYIRKFFRIENNFMPEEEEAARNDS 98
L E++L ANYL+I +LD +T+AN IK K+ E IRK F I+N+F EEE R ++
Sbjct: 82 LFELILAANYLDIKGLLDVTCKTVANMIKGKTPEEIRKTFNIKNDFTEEEEAQVRKEN 139
>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 = 53.5 bits (127), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 34/103 (33%), Positives = 52/103 (50%), Gaps = 16/103 (15%)
Query: 1 MDNNYSRWKSKGVRDCDHSSTSDGTSEDMVEFGKGKSNDELK---------------EML 45
+ N S+ +K + C + + + VE G S+D+LK E++
Sbjct: 44 LPNVTSKILAKVIEYCKRHVEAAASKAEAVE-GAATSDDDLKAWDADFMKIDQATLFELI 102
Query: 46 LVANYLNITEMLDYLTETLANRIKNKSVEYIRKFFRIENNFMP 88
L ANYLNI +LD +T+A+ IK K+ E IR F I+N+F P
Sbjct: 103 LAANYLNIKNLLDLTCQTVADMIKGKTPEEIRTTFNIKNDFTP 145
>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 = 53.1 bits (126), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 27/58 (46%), Positives = 38/58 (65%)
Query: 41 LKEMLLVANYLNITEMLDYLTETLANRIKNKSVEYIRKFFRIENNFMPEEEEAARNDS 98
L E++L ANYLNI +LD + +A I+ +S E IR+ F I N+F PEEE A R ++
Sbjct: 106 LYEIILAANYLNIKPLLDAGCKVVAEXIRGRSPEEIRRTFNIVNDFTPEEEAAIRREN 163
>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 = 52.8 bits (125), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 27/58 (46%), Positives = 38/58 (65%)
Query: 41 LKEMLLVANYLNITEMLDYLTETLANRIKNKSVEYIRKFFRIENNFMPEEEEAARNDS 98
L E++L ANYLNI +LD + +A I+ +S E IR+ F I N+F PEEE A R ++
Sbjct: 106 LYEIILAANYLNIKPLLDAGCKVVAEMIRGRSPEEIRRTFNIVNDFTPEEEAAIRREN 163
>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 = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/46 (52%), Positives = 33/46 (71%)
Query: 41 LKEMLLVANYLNITEMLDYLTETLANRIKNKSVEYIRKFFRIENNF 86
L E++L ANYL+I +LD +T+AN IK K+ E IRK F I+N+F
Sbjct: 94 LFELILAANYLDIKGLLDVTCKTVANMIKGKTPEEIRKTFNIKNDF 139
>pdb|1LDK|D Chain D, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 133
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/40 (52%), Positives = 28/40 (70%)
Query: 41 LKEMLLVANYLNITEMLDYLTETLANRIKNKSVEYIRKFF 80
L E++L ANYL+I +LD +T+AN IK K+ E IRK F
Sbjct: 93 LFELILAANYLDIKGLLDVTCKTVANMIKGKTPEEIRKTF 132
>pdb|3GR5|A Chain A, Periplasmic Domain Of The Outer Membrane Secretin Escc
From Enteropathogenic E.Coli (Epec)
Length = 156
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 28/51 (54%)
Query: 39 DELKEMLLVANYLNITEMLDYLTETLANRIKNKSVEYIRKFFRIENNFMPE 89
+E+ ++ YL+I +L YL++T++ + +V I F IE +PE
Sbjct: 87 NEISRSIITPTYLDIDSLLKYLSDTISVNKNSCNVRKITTFNSIEVRGVPE 137
>pdb|1I1Q|A Chain A, Structure Of The Cooperative Allosteric Anthranilate
Synthase From Salmonella Typhimurium
Length = 520
Score = 26.9 bits (58), Expect = 3.9, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 23/44 (52%)
Query: 18 HSSTSDGTSEDMVEFGKGKSNDELKEMLLVANYLNITEMLDYLT 61
H D + ++E S D+LK +LLV + L IT + D +T
Sbjct: 26 HQVCGDRPATLLLESADIDSKDDLKSLLLVDSALRITALGDTVT 69
>pdb|3UPU|A Chain A, Crystal Structure Of The T4 Phage Sf1b Helicase Dda
pdb|3UPU|B Chain B, Crystal Structure Of The T4 Phage Sf1b Helicase Dda
pdb|3UPU|C Chain C, Crystal Structure Of The T4 Phage Sf1b Helicase Dda
Length = 459
Score = 25.4 bits (54), Expect = 9.6, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 5/47 (10%)
Query: 49 NYLNITEMLDYLTETLANRIKNKSVEYI-----RKFFRIENNFMPEE 90
NY +I + LD L E NKSV+ + +K F + +F+ E
Sbjct: 241 NYFSIVKSLDDLFENRVXAFTNKSVDKLNSIIRKKIFETDKDFIVGE 287
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
0.319 0.136 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,196,694
Number of Sequences: 62578
Number of extensions: 155804
Number of successful extensions: 313
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 300
Number of HSP's gapped (non-prelim): 16
length of query: 136
length of database: 14,973,337
effective HSP length: 88
effective length of query: 48
effective length of database: 9,466,473
effective search space: 454390704
effective search space used: 454390704
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: 46 (22.3 bits)