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= 024891
(261 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DJP|A Chain A, The Solution Structure Of The Lysm Domain Of Human
Hypothetical Protein Sb145
Length = 77
Score = 37.7 bits (86), Expect = 0.006, Method: Composition-based stats.
Identities = 16/41 (39%), Positives = 27/41 (65%)
Query: 117 ISHRLARGDTVASLAVKYSVQVMDIKRLNNMMSDHGIYSRE 157
+ H+L GDT+A LA+KY V + IKR N + ++ I+ ++
Sbjct: 16 LEHQLEPGDTLAGLALKYGVTMEQIKRANRLYTNDSIFLKK 56
>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 = 31.6 bits (70), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 32/113 (28%), Positives = 52/113 (46%), Gaps = 14/113 (12%)
Query: 49 PDTLRL-ILSNLSVTDLARASCVCRAWSSVASDNNMIVLAFMAPWKLKEVVGMPLNGSFW 107
PD L L I S L + +L + S VC+ W +ASD ++ W+ ++ G L+
Sbjct: 13 PDELLLGIFSCLCLPELLKVSGVCKRWYRLASDESL--------WQTLDLTGKNLHPDV- 63
Query: 108 RDNGIGKFAISHRLARGDTVASLAVKYS---VQVMDIKR-LNNMMSDHGIYSR 156
+ + I+ R R LA +S VQ MD+ + + + HGI S+
Sbjct: 64 TGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQ 116
>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 = 28.9 bits (63), Expect = 2.9, Method: Composition-based stats.
Identities = 15/36 (41%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 49 PDTLRL-ILSNLSVTDLARASCVCRAWSSVASDNNM 83
PD L L I S L + +L + S VC+ W +ASD ++
Sbjct: 13 PDELLLGIFSCLCLPELLKVSGVCKRWYRLASDESL 48
>pdb|1LDK|E Chain E, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 41
Score = 28.9 bits (63), Expect = 3.4, Method: Composition-based stats.
Identities = 15/36 (41%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 49 PDTLRL-ILSNLSVTDLARASCVCRAWSSVASDNNM 83
PD L L I S L + +L + S VC+ W +ASD ++
Sbjct: 5 PDELLLGIFSCLCLPELLKVSGVCKRWYRLASDESL 40
>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 = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 49 PDTLRL-ILSNLSVTDLARASCVCRAWSSVASDNNM 83
PD L L I S L + +L + S VC+ W +ASD ++
Sbjct: 13 PDELLLGIFSCLCLPELLKVSGVCKRWYRLASDESL 48
>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 = 27.3 bits (59), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 1/48 (2%)
Query: 35 VISP-MNSHFSALACPDTLRLILSNLSVTDLARASCVCRAWSSVASDN 81
VI P F +L + +LS L DL +A+ CR W +A DN
Sbjct: 9 VIEPQFQRDFISLLPKELALYVLSFLEPKDLLQAAQTCRYWRILAEDN 56
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
0.320 0.133 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,672,990
Number of Sequences: 62578
Number of extensions: 226449
Number of successful extensions: 405
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 403
Number of HSP's gapped (non-prelim): 7
length of query: 261
length of database: 14,973,337
effective HSP length: 97
effective length of query: 164
effective length of database: 8,903,271
effective search space: 1460136444
effective search space used: 1460136444
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)