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= psy3153
(89 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2Y69|E Chain E, Bovine Heart Cytochrome C Oxidase Re-Refined With
Molecular Oxygen
pdb|2Y69|R Chain R, Bovine Heart Cytochrome C Oxidase Re-Refined With
Molecular Oxygen
Length = 152
Score = 69.7 bits (169), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 36/77 (46%), Positives = 49/77 (63%), Gaps = 1/77 (1%)
Query: 1 MNDLAQDDGVPDPVXXXXXXXXXXXXNDYALTIRLLEMVQEKCGKKKKVIWPYILGEIRP 60
MN L D VP+P ND+A +R+LE+V++K G K+ I+PY++ E+RP
Sbjct: 76 MNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKE-IYPYVIQELRP 134
Query: 61 TLTELGIETPEDLGYDK 77
TL ELGI TPE+LG DK
Sbjct: 135 TLNELGISTPEELGLDK 151
>pdb|1OCC|E Chain E, Structure Of Bovine Heart Cytochrome C Oxidase At The
Fully Oxidized State
pdb|1OCC|R Chain R, Structure Of Bovine Heart Cytochrome C Oxidase At The
Fully Oxidized State
pdb|2OCC|E Chain E, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
State
pdb|2OCC|R Chain R, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
State
pdb|1OCO|E Chain E, Bovine Heart Cytochrome C Oxidase In Carbon Monoxide-bound
State
pdb|1OCO|R Chain R, Bovine Heart Cytochrome C Oxidase In Carbon Monoxide-bound
State
pdb|1OCR|E Chain E, Bovine Heart Cytochrome C Oxidase In The Fully Reduced
State
pdb|1OCR|R Chain R, Bovine Heart Cytochrome C Oxidase In The Fully Reduced
State
pdb|1OCZ|E Chain E, Bovine Heart Cytochrome C Oxidase In Azide-Bound State
pdb|1OCZ|R Chain R, Bovine Heart Cytochrome C Oxidase In Azide-Bound State
pdb|1V54|E Chain E, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
State
pdb|1V54|R Chain R, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
State
pdb|1V55|E Chain E, Bovine Heart Cytochrome C Oxidase At The Fully Reduced
State
pdb|1V55|R Chain R, Bovine Heart Cytochrome C Oxidase At The Fully Reduced
State
pdb|2DYR|E Chain E, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
State
pdb|2DYR|R Chain R, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
State
pdb|2DYS|E Chain E, Bovine Heart Cytochrome C Oxidase Modified By Dccd
pdb|2DYS|R Chain R, Bovine Heart Cytochrome C Oxidase Modified By Dccd
pdb|2EIJ|E Chain E, Bovine Heart Cytochrome C Oxidase In The Fully Reduced
State
pdb|2EIJ|R Chain R, Bovine Heart Cytochrome C Oxidase In The Fully Reduced
State
pdb|2EIK|E Chain E, Cadmium Ion Binding Structure Of Bovine Heart Cytochrome C
Oxidase In The Fully Reduced State
pdb|2EIK|R Chain R, Cadmium Ion Binding Structure Of Bovine Heart Cytochrome C
Oxidase In The Fully Reduced State
pdb|2EIL|E Chain E, Cadmium Ion Binding Structure Of Bovine Heart Cytochrome C
Oxidase In The Fully Oxidized State
pdb|2EIL|R Chain R, Cadmium Ion Binding Structure Of Bovine Heart Cytochrome C
Oxidase In The Fully Oxidized State
pdb|2EIM|E Chain E, Zinc Ion Binding Structure Of Bovine Heart Cytochrome C
Oxidase In The Fully Reduced State
pdb|2EIM|R Chain R, Zinc Ion Binding Structure Of Bovine Heart Cytochrome C
Oxidase In The Fully Reduced State
pdb|2EIN|E Chain E, Zinc Ion Binding Structure Of Bovine Heart Cytochrome C
Oxidase In The Fully Oxidized State
pdb|2EIN|R Chain R, Zinc Ion Binding Structure Of Bovine Heart Cytochrome C
Oxidase In The Fully Oxidized State
pdb|2ZXW|E Chain E, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
State (1-S X-Ray Exposure Dataset)
pdb|2ZXW|R Chain R, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
State (1-S X-Ray Exposure Dataset)
pdb|3ABL|E Chain E, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
State (15-S X-Ray Exposure Dataset)
pdb|3ABL|R Chain R, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
State (15-S X-Ray Exposure Dataset)
pdb|3ABM|E Chain E, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
State (200-S X-Ray Exposure Dataset)
pdb|3ABM|R Chain R, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
State (200-S X-Ray Exposure Dataset)
pdb|3ABK|E Chain E, Bovine Heart Cytochrome C Oxidase At The No-Bound Fully
Reduced State (50k)
pdb|3ABK|R Chain R, Bovine Heart Cytochrome C Oxidase At The No-Bound Fully
Reduced State (50k)
pdb|3AG1|E Chain E, Bovine Heart Cytochrome C Oxidase In The Carbon
Monoxide-Bou Reduced State At 280 K
pdb|3AG1|R Chain R, Bovine Heart Cytochrome C Oxidase In The Carbon
Monoxide-Bou Reduced State At 280 K
pdb|3AG2|E Chain E, Bovine Heart Cytochrome C Oxidase In The Carbon
Monoxide-Bou Reduced State At 100 K
pdb|3AG2|R Chain R, Bovine Heart Cytochrome C Oxidase In The Carbon
Monoxide-Bou Reduced State At 100 K
pdb|3AG3|E Chain E, Bovine Heart Cytochrome C Oxidase In The Nitric
Oxide-Bound Reduced State At 100 K
pdb|3AG3|R Chain R, Bovine Heart Cytochrome C Oxidase In The Nitric
Oxide-Bound Reduced State At 100 K
pdb|3AG4|E Chain E, Bovine Heart Cytochrome C Oxidase In The Cyanide Ion-Bound
F Reduced State At 100 K
pdb|3AG4|R Chain R, Bovine Heart Cytochrome C Oxidase In The Cyanide Ion-Bound
F Reduced State At 100 K
pdb|3ASN|E Chain E, Bovine Heart Cytochrome C Oxidase In The Fully Oxidized
State Measured At 1.7470 Angstrom Wavelength
pdb|3ASN|R Chain R, Bovine Heart Cytochrome C Oxidase In The Fully Oxidized
State Measured At 1.7470 Angstrom Wavelength
pdb|3ASO|E Chain E, Bovine Heart Cytochrome C Oxidase In The Fully Oxidized
State Measured At 0.9 Angstrom Wavelength
pdb|3ASO|R Chain R, Bovine Heart Cytochrome C Oxidase In The Fully Oxidized
State Measured At 0.9 Angstrom Wavelength
pdb|2YBB|P Chain P, Fitted Model For Bovine Mitochondrial Supercomplex
I1iii2iv1 By Single Particle Cryo-Em (Emd-1876)
Length = 109
Score = 69.3 bits (168), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 36/77 (46%), Positives = 49/77 (63%), Gaps = 1/77 (1%)
Query: 1 MNDLAQDDGVPDPVXXXXXXXXXXXXNDYALTIRLLEMVQEKCGKKKKVIWPYILGEIRP 60
MN L D VP+P ND+A +R+LE+V++K G K+ I+PY++ E+RP
Sbjct: 33 MNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKE-IYPYVIQELRP 91
Query: 61 TLTELGIETPEDLGYDK 77
TL ELGI TPE+LG DK
Sbjct: 92 TLNELGISTPEELGLDK 108
>pdb|1MU2|A Chain A, Crystal Structure Of Hiv-2 Reverse Transcriptase
Length = 555
Score = 25.4 bits (54), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 27 NDYALTIRLLEMVQEKCGKKKKVIWPYI 54
N + IRLL V +K GK+ VIW I
Sbjct: 358 NTHTNGIRLLAQVVQKIGKEALVIWGRI 385
>pdb|1MU2|B Chain B, Crystal Structure Of Hiv-2 Reverse Transcriptase
Length = 426
Score = 25.4 bits (54), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 27 NDYALTIRLLEMVQEKCGKKKKVIWPYI 54
N + IRLL V +K GK+ VIW I
Sbjct: 353 NTHTNGIRLLAQVVQKIGKEALVIWGRI 380
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
0.316 0.141 0.440
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,660,982
Number of Sequences: 62578
Number of extensions: 85130
Number of successful extensions: 111
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 105
Number of HSP's gapped (non-prelim): 4
length of query: 89
length of database: 14,973,337
effective HSP length: 56
effective length of query: 33
effective length of database: 11,468,969
effective search space: 378475977
effective search space used: 378475977
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 45 (21.9 bits)