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= 015502
(405 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1PQ2|A Chain A, Crystal Structure Of Human Drug Metabolizing Cytochrome
P450 2c8
pdb|1PQ2|B Chain B, Crystal Structure Of Human Drug Metabolizing Cytochrome
P450 2c8
pdb|2NNH|A Chain A, Cyp2c8dh Complexed With 2 Molecules Of 9-Cis Retinoic Acid
pdb|2NNH|B Chain B, Cyp2c8dh Complexed With 2 Molecules Of 9-Cis Retinoic Acid
pdb|2NNI|A Chain A, Cyp2c8dh Complexed With Montelukast
pdb|2NNJ|A Chain A, Cyp2c8dh Complexed With Felodipine
pdb|2VN0|A Chain A, Cyp2c8dh Complexed With Troglitazone
Length = 476
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 17/30 (56%)
Query: 311 IIKGIGIWVLNGKEWQEVARMPHKFFQGFG 340
I KG+GI NGK W+E+ R + FG
Sbjct: 88 ITKGLGIISSNGKRWKEIRRFSLTTLRNFG 117
>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 = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 35/148 (23%), Positives = 54/148 (36%), Gaps = 18/148 (12%)
Query: 45 LPDDLLERILAYLPIASIFRAGCVCRRWHEIVSSRRFLWN-------------FSNVLSQ 91
LPD+LL I + L + + + VC+RW+ + S LW +LSQ
Sbjct: 12 LPDELLLGIFSCLCLPELLKVSGVCKRWYRLASDES-LWQTLDLTGKNLHPDVTGRLLSQ 70
Query: 92 KPWYFMFTSS--DEPIGYAYDPILRKWYGIELPCIETSNWFIASSYGLVCFMDNDSRSEL 149
F S D+P+ + P + + IE S + + N S L
Sbjct: 71 GVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVST--LHGILSQCSKLQNLSLEGL 128
Query: 150 YVCNPISKSWKKLEEPPGLKFSDYSALS 177
+ +PI + K L S S S
Sbjct: 129 RLSDPIVNTLAKNSNLVRLNLSGCSGFS 156
>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 = 30.0 bits (66), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 20/33 (60%)
Query: 45 LPDDLLERILAYLPIASIFRAGCVCRRWHEIVS 77
LPD+LL I + L + + + VC+RW+ + S
Sbjct: 12 LPDELLLGIFSCLCLPELLKVSGVCKRWYRLAS 44
>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 = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 20/33 (60%)
Query: 45 LPDDLLERILAYLPIASIFRAGCVCRRWHEIVS 77
LPD+LL I + L + + + VC+RW+ + S
Sbjct: 12 LPDELLLGIFSCLCLPELLKVSGVCKRWYRLAS 44
>pdb|1LDK|E Chain E, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 41
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 20/33 (60%)
Query: 45 LPDDLLERILAYLPIASIFRAGCVCRRWHEIVS 77
LPD+LL I + L + + + VC+RW+ + S
Sbjct: 4 LPDELLLGIFSCLCLPELLKVSGVCKRWYRLAS 36
>pdb|1P22|A Chain A, Structure Of A Beta-Trcp1-Skp1-Beta-Catenin Complex:
Destruction Motif Binding And Lysine Specificity On The
Scfbeta-Trcp1 Ubiquitin Ligase
Length = 435
Score = 28.5 bits (62), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 47 DDLLERILAYLPIASIFRAGCVCRRWHEIVS 77
D + E IL+YL S+ A VC+ W+ + S
Sbjct: 20 DHIAENILSYLDAKSLCAAELVCKEWYRVTS 50
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
0.323 0.139 0.455
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,386,160
Number of Sequences: 62578
Number of extensions: 577290
Number of successful extensions: 1193
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1185
Number of HSP's gapped (non-prelim): 14
length of query: 405
length of database: 14,973,337
effective HSP length: 101
effective length of query: 304
effective length of database: 8,652,959
effective search space: 2630499536
effective search space used: 2630499536
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (25.0 bits)