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= 040130
(147 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1FQV|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|E Chain E, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|G Chain G, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|I Chain I, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|K Chain K, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|M Chain M, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|O Chain O, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|2ASS|B Chain B, Crystal Structure Of The Skp1-Skp2-Cks1 Complex
pdb|2AST|B Chain B, Crystal Structure Of Skp1-Skp2-Cks1 In Complex With A P27
Peptide
Length = 336
Score = 33.5 bits (75), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 32/70 (45%), Gaps = 2/70 (2%)
Query: 44 LPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDS 103
LPD+ L IF L + + S VCKRW R+ +L+ + L P V R S
Sbjct: 12 LPDELLLGIFSCLCLPELLKVSGVCKRWYRLASDESLWQTLDLTGKNLH--PDVTGRLLS 69
Query: 104 VTKLALRCDR 113
+A RC R
Sbjct: 70 QGVIAFRCPR 79
>pdb|2P1M|B Chain B, Tir1-ask1 Complex Structure
pdb|2P1N|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1N|E Chain E, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1O|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|2P1P|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|2P1Q|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|3C6N|B Chain B, Small Molecule Agonists And Antagonists Of F-Box Protein-
Substrate Interactions In Auxin Perception And Signaling
pdb|3C6O|B Chain B, Small Molecule Agonists And Antagonists Of F-Box
Protein-Substrate Interactions In Auxin Perception And
Signaling
pdb|3C6P|B Chain B, Small Molecule Agonists And Antagonists Of F-Box Protein-
Substrate Interactions In Auxin Perception And Signaling
Length = 594
Score = 32.7 bits (73), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 33/68 (48%), Gaps = 3/68 (4%)
Query: 44 LPDDCLAYIFQFLG-SGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFD 102
P++ L ++F F+ DR SLVCK W ++ R ++ + + S +V RF
Sbjct: 9 FPEEVLEHVFSFIQLDKDRNSVSLVCKSWYEIERWCRRKVFIGNCYAV--SPATVIRRFP 66
Query: 103 SVTKLALR 110
V + L+
Sbjct: 67 KVRSVELK 74
>pdb|1FS2|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FS2|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
Length = 272
Score = 31.2 bits (69), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 32/109 (29%), Positives = 46/109 (42%), Gaps = 17/109 (15%)
Query: 44 LPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVDGGSRYRLSL-----------NAQSEILS 92
LPD+ L IF L + + S VCKRW R+ +L N+ E+ S
Sbjct: 12 LPDELLLGIFSCLCLPELLKVSGVCKRWYRLASDESLWQTLDEFRVQHMDLSNSVIEV-S 70
Query: 93 SLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGC 141
+L + S+ + L+L R S D +V + L RL L GC
Sbjct: 71 TLHGILSQCSKLQNLSLEGLRLS-----DPIVNTLAKNSNLVRLNLSGC 114
>pdb|3OGK|B Chain B, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|D Chain D, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|F Chain F, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|H Chain H, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|J Chain J, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|L Chain L, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|N Chain N, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|P Chain P, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGL|B Chain B, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|D Chain D, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|F Chain F, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|H Chain H, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|J Chain J, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|L Chain L, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|N Chain N, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|P Chain P, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGM|B Chain B, Structure Of Coi1-Ask1 In Complex With Coronatine And
The Jaz1 Degron
pdb|3OGM|D Chain D, Structure Of Coi1-Ask1 In Complex With Coronatine And
The Jaz1 Degron
pdb|3OGM|F Chain F, Structure Of Coi1-Ask1 In Complex With Coronatine And
The Jaz1 Degron
pdb|3OGM|H Chain H, Structure Of Coi1-Ask1 In Complex With Coronatine And
The Jaz1 Degron
pdb|3OGM|J Chain J, Structure Of Coi1-Ask1 In Complex With Coronatine And
The Jaz1 Degron
pdb|3OGM|L Chain L, Structure Of Coi1-Ask1 In Complex With Coronatine And
The Jaz1 Degron
pdb|3OGM|N Chain N, Structure Of Coi1-Ask1 In Complex With Coronatine And
The Jaz1 Degron
pdb|3OGM|P Chain P, Structure Of Coi1-Ask1 In Complex With Coronatine And
The Jaz1 Degron
Length = 592
Score = 30.4 bits (67), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 46 DDCLAYIFQFLG-SGDRKRCSLVCKRWLRVDGGSRYRLSL 84
DD + + ++ DR SLVC+RW ++D +R +++
Sbjct: 18 DDVIEQVMTYITDPKDRDSASLVCRRWFKIDSETREHVTM 57
>pdb|1SPX|A Chain A, Crystal Structure Of Glucose Dehydrogenase Of
Caenorhabditis Elegans In The Apo-Form
Length = 278
Score = 30.0 bits (66), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 29/101 (28%), Positives = 41/101 (40%), Gaps = 19/101 (18%)
Query: 4 TPSTAID---PSDRFNILSPAIV---YNDGVEFSDELDKARDFTGDLPDDC--------- 48
T +TAID R N +SP +V + + +E K T +C
Sbjct: 173 TRNTAIDLIQHGIRVNSISPGLVATGFGSAMGMPEETSKKFYSTMATMKECVPAGVMGQP 232
Query: 49 --LAYIFQFLGSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQ 87
+A + FL DRK S + L VDGGS + L+ Q
Sbjct: 233 QDIAEVIAFLA--DRKTSSYIIGHQLVVDGGSSLIMGLHCQ 271
>pdb|1ZL6|A Chain A, Crystal Structure Of Tyr350ala Mutant Of Clostridium
Botulinum Neurotoxin E Catalytic Domain
pdb|1ZL6|B Chain B, Crystal Structure Of Tyr350ala Mutant Of Clostridium
Botulinum Neurotoxin E Catalytic Domain
Length = 420
Score = 27.7 bits (60), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 1/49 (2%)
Query: 68 CKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSI 116
K L D Y +++N ++I L S F+ FD TK ++C + +I
Sbjct: 304 AKYGLDKDASGIYSVNINKFNDIFKKLYS-FTEFDLATKFQVKCRQTAI 351
>pdb|2OVP|B Chain B, Structure Of The Skp1-Fbw7 Complex
pdb|2OVQ|B Chain B, Structure Of The Skp1-Fbw7-Cyclinedegc Complex
pdb|2OVR|B Chain B, Structure Of The Skp1-Fbw7-Cyclinedegn Complex
Length = 445
Score = 27.7 bits (60), Expect = 2.6, Method: Composition-based stats.
Identities = 11/34 (32%), Positives = 16/34 (47%)
Query: 38 RDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRW 71
RDF LP + Y+ FL D + + C+ W
Sbjct: 16 RDFISLLPKELALYVLSFLEPKDLLQAAQTCRYW 49
>pdb|1FS1|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FS1|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
Length = 53
Score = 26.6 bits (57), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 18/31 (58%)
Query: 44 LPDDCLAYIFQFLGSGDRKRCSLVCKRWLRV 74
LPD+ L IF L + + S VCKRW R+
Sbjct: 12 LPDELLLGIFSCLCLPELLKVSGVCKRWYRL 42
>pdb|1LDK|E Chain E, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 41
Score = 25.8 bits (55), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 18/31 (58%)
Query: 44 LPDDCLAYIFQFLGSGDRKRCSLVCKRWLRV 74
LPD+ L IF L + + S VCKRW R+
Sbjct: 4 LPDELLLGIFSCLCLPELLKVSGVCKRWYRL 34
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 0.139 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,271,001
Number of Sequences: 62578
Number of extensions: 165951
Number of successful extensions: 383
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 377
Number of HSP's gapped (non-prelim): 10
length of query: 147
length of database: 14,973,337
effective HSP length: 90
effective length of query: 57
effective length of database: 9,341,317
effective search space: 532455069
effective search space used: 532455069
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: 47 (22.7 bits)