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= psy14654
(122 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4F3L|B Chain B, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 387
Score = 30.0 bits (66), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 29/51 (56%), Gaps = 4/51 (7%)
Query: 18 LERKRRARINRCLDELKEIMVTSLQAEGENVSKLEKADILELTVRHLHKLR 68
+E++RR ++N +DEL ++ T KL+K +L + V+H+ LR
Sbjct: 20 IEKRRRDKMNSFIDELASLVPTC----NAMSRKLDKLTVLRMAVQHMKTLR 66
>pdb|4H10|A Chain A, Intermolecular Recognition Revealed By The Complex
Structure Of Human Clock-bmal1 Basic Helix-loop-helix
Domains With E-box Dna
Length = 73
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 29/51 (56%), Gaps = 4/51 (7%)
Query: 18 LERKRRARINRCLDELKEIMVTSLQAEGENVSKLEKADILELTVRHLHKLR 68
+E++RR ++N +DEL ++ T KL+K +L + V+H+ LR
Sbjct: 16 IEKRRRDKMNSFIDELASLVPTC----NAMSRKLDKLTVLRMAVQHMKTLR 62
>pdb|1SQB|A Chain A, Crystal Structure Analysis Of Bovine Bc1 With Azoxystrobin
pdb|1SQP|A Chain A, Crystal Structure Analysis Of Bovine Bc1 With Myxothiazol
Length = 480
Score = 25.8 bits (55), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 37 MVTSLQAEGENVSKLEKADILELTVRH 63
+ S++ ENV KL +AD+ E RH
Sbjct: 197 LAQSVEGPSENVRKLSRADLTEYLSRH 223
>pdb|1BXC|A Chain A, Xylose Isomerase From Thermus Caldophilus
pdb|1BXC|B Chain B, Xylose Isomerase From Thermus Caldophilus
pdb|1BXC|C Chain C, Xylose Isomerase From Thermus Caldophilus
pdb|1BXC|D Chain D, Xylose Isomerase From Thermus Caldophilus
Length = 387
Score = 25.8 bits (55), Expect = 6.0, Method: Composition-based stats.
Identities = 11/32 (34%), Positives = 15/32 (46%)
Query: 64 LHKLRRQQSLGLTPEAAYADRFKAGFTHCAAE 95
+H L R + GL PE A+ F H A+
Sbjct: 202 IHTLERPERFGLNPEFAHETMAGLNFVHAVAQ 233
>pdb|1BGY|A Chain A, Cytochrome Bc1 Complex From Bovine
pdb|1BGY|M Chain M, Cytochrome Bc1 Complex From Bovine
pdb|1BE3|A Chain A, Cytochrome Bc1 Complex From Bovine
pdb|1L0L|A Chain A, Structure Of Bovine Mitochondrial Cytochrome Bc1 Complex
With A Bound Fungicide Famoxadone
pdb|1L0N|A Chain A, Native Structure Of Bovine Mitochondrial Cytochrome Bc1
Complex
pdb|1NTK|A Chain A, Crystal Structure Of Mitochondrial Cytochrome Bc1 In
Complex With Antimycin A1
pdb|1NTM|A Chain A, Crystal Structure Of Mitochondrial Cytochrome Bc1 Complex
At 2.4 Angstrom
pdb|1NTZ|A Chain A, Crystal Structure Of Mitochondrial Cytochrome Bc1 Complex
Bound With Ubiquinone
pdb|1NU1|A Chain A, Crystal Structure Of Mitochondrial Cytochrome Bc1
Complexed With 2- Nonyl-4-Hydroxyquinoline N-Oxide
(Nqno)
pdb|1PP9|A Chain A, Bovine Cytochrome Bc1 Complex With Stigmatellin Bound
pdb|1PP9|N Chain N, Bovine Cytochrome Bc1 Complex With Stigmatellin Bound
pdb|1PPJ|A Chain A, Bovine Cytochrome Bc1 Complex With Stigmatellin And
Antimycin
pdb|1PPJ|N Chain N, Bovine Cytochrome Bc1 Complex With Stigmatellin And
Antimycin
pdb|2A06|A Chain A, Bovine Cytochrome Bc1 Complex With Stigmatellin Bound
pdb|2A06|N Chain N, Bovine Cytochrome Bc1 Complex With Stigmatellin Bound
pdb|1SQV|A Chain A, Crystal Structure Analysis Of Bovine Bc1 With Uhdbt
pdb|1SQX|A Chain A, Crystal Structure Analysis Of Bovine Bc1 With Stigmatellin
A
pdb|1SQQ|A Chain A, Crystal Structure Analysis Of Bovine Bc1 With Methoxy
Acrylate Stilbene (Moas)
pdb|2FYU|A Chain A, Crystal Structure Of Bovine Heart Mitochondrial Bc1 With
Jg144 Inhibitor
pdb|2YBB|A Chain A, Fitted Model For Bovine Mitochondrial Supercomplex
I1iii2iv1 By Single Particle Cryo-Em (Emd-1876)
pdb|2YBB|AA Chain a, Fitted Model For Bovine Mitochondrial Supercomplex
I1iii2iv1 By Single Particle Cryo-Em (Emd-1876)
Length = 446
Score = 25.8 bits (55), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 37 MVTSLQAEGENVSKLEKADILELTVRH 63
+ S++ ENV KL +AD+ E RH
Sbjct: 163 LAQSVEGPSENVRKLSRADLTEYLSRH 189
>pdb|1QCR|A Chain A, Crystal Structure Of Bovine Mitochondrial Cytochrome Bc1
Complex, Alpha Carbon Atoms Only
Length = 446
Score = 25.8 bits (55), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 37 MVTSLQAEGENVSKLEKADILELTVRH 63
+ S++ ENV KL +AD+ E RH
Sbjct: 163 LAQSVEGPSENVRKLSRADLTEYLSRH 189
>pdb|1BXB|A Chain A, Xylose Isomerase From Thermus Thermophilus
pdb|1BXB|B Chain B, Xylose Isomerase From Thermus Thermophilus
pdb|1BXB|C Chain C, Xylose Isomerase From Thermus Thermophilus
pdb|1BXB|D Chain D, Xylose Isomerase From Thermus Thermophilus
Length = 387
Score = 25.4 bits (54), Expect = 9.3, Method: Composition-based stats.
Identities = 11/32 (34%), Positives = 15/32 (46%)
Query: 64 LHKLRRQQSLGLTPEAAYADRFKAGFTHCAAE 95
+H L R + GL PE A+ F H A+
Sbjct: 202 IHTLDRPERFGLNPEFAHETMAGLNFVHAVAQ 233
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 0.127 0.349
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,140,360
Number of Sequences: 62578
Number of extensions: 99214
Number of successful extensions: 317
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 310
Number of HSP's gapped (non-prelim): 10
length of query: 122
length of database: 14,973,337
effective HSP length: 84
effective length of query: 38
effective length of database: 9,716,785
effective search space: 369237830
effective search space used: 369237830
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)