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= psy960
(83 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2Y69|D Chain D, Bovine Heart Cytochrome C Oxidase Re-Refined With
Molecular Oxygen
pdb|2Y69|Q Chain Q, Bovine Heart Cytochrome C Oxidase Re-Refined With
Molecular Oxygen
Length = 169
Score = 42.7 bits (99), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 27/38 (71%)
Query: 15 TLSEEHRQEMLQKMIDLRWNPITGTASKWDYEKNDWKK 52
T EE + ++M+D++ PI G ++KWDY+KN+WKK
Sbjct: 132 TFEEEWVAKQTKRMLDMKVAPIQGFSAKWDYDKNEWKK 169
>pdb|1OCC|D Chain D, Structure Of Bovine Heart Cytochrome C Oxidase At The
Fully Oxidized State
pdb|1OCC|Q Chain Q, Structure Of Bovine Heart Cytochrome C Oxidase At The
Fully Oxidized State
pdb|2OCC|D Chain D, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
State
pdb|2OCC|Q Chain Q, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
State
pdb|1OCO|D Chain D, Bovine Heart Cytochrome C Oxidase In Carbon Monoxide-bound
State
pdb|1OCO|Q Chain Q, Bovine Heart Cytochrome C Oxidase In Carbon Monoxide-bound
State
pdb|1OCR|D Chain D, Bovine Heart Cytochrome C Oxidase In The Fully Reduced
State
pdb|1OCR|Q Chain Q, Bovine Heart Cytochrome C Oxidase In The Fully Reduced
State
pdb|1OCZ|D Chain D, Bovine Heart Cytochrome C Oxidase In Azide-Bound State
pdb|1OCZ|Q Chain Q, Bovine Heart Cytochrome C Oxidase In Azide-Bound State
pdb|1V54|D Chain D, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
State
pdb|1V54|Q Chain Q, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
State
pdb|1V55|D Chain D, Bovine Heart Cytochrome C Oxidase At The Fully Reduced
State
pdb|1V55|Q Chain Q, Bovine Heart Cytochrome C Oxidase At The Fully Reduced
State
pdb|2DYR|D Chain D, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
State
pdb|2DYR|Q Chain Q, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
State
pdb|2DYS|D Chain D, Bovine Heart Cytochrome C Oxidase Modified By Dccd
pdb|2DYS|Q Chain Q, Bovine Heart Cytochrome C Oxidase Modified By Dccd
pdb|2EIJ|D Chain D, Bovine Heart Cytochrome C Oxidase In The Fully Reduced
State
pdb|2EIJ|Q Chain Q, Bovine Heart Cytochrome C Oxidase In The Fully Reduced
State
pdb|2EIK|D Chain D, Cadmium Ion Binding Structure Of Bovine Heart Cytochrome C
Oxidase In The Fully Reduced State
pdb|2EIK|Q Chain Q, Cadmium Ion Binding Structure Of Bovine Heart Cytochrome C
Oxidase In The Fully Reduced State
pdb|2EIL|D Chain D, Cadmium Ion Binding Structure Of Bovine Heart Cytochrome C
Oxidase In The Fully Oxidized State
pdb|2EIL|Q Chain Q, Cadmium Ion Binding Structure Of Bovine Heart Cytochrome C
Oxidase In The Fully Oxidized State
pdb|2EIM|D Chain D, Zinc Ion Binding Structure Of Bovine Heart Cytochrome C
Oxidase In The Fully Reduced State
pdb|2EIM|Q Chain Q, Zinc Ion Binding Structure Of Bovine Heart Cytochrome C
Oxidase In The Fully Reduced State
pdb|2EIN|D Chain D, Zinc Ion Binding Structure Of Bovine Heart Cytochrome C
Oxidase In The Fully Oxidized State
pdb|2EIN|Q Chain Q, Zinc Ion Binding Structure Of Bovine Heart Cytochrome C
Oxidase In The Fully Oxidized State
pdb|2ZXW|D Chain D, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
State (1-S X-Ray Exposure Dataset)
pdb|2ZXW|Q Chain Q, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
State (1-S X-Ray Exposure Dataset)
pdb|3ABL|D Chain D, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
State (15-S X-Ray Exposure Dataset)
pdb|3ABL|Q Chain Q, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
State (15-S X-Ray Exposure Dataset)
pdb|3ABM|D Chain D, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
State (200-S X-Ray Exposure Dataset)
pdb|3ABM|Q Chain Q, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
State (200-S X-Ray Exposure Dataset)
pdb|3ABK|D Chain D, Bovine Heart Cytochrome C Oxidase At The No-Bound Fully
Reduced State (50k)
pdb|3ABK|Q Chain Q, Bovine Heart Cytochrome C Oxidase At The No-Bound Fully
Reduced State (50k)
pdb|3AG1|D Chain D, Bovine Heart Cytochrome C Oxidase In The Carbon
Monoxide-Bou Reduced State At 280 K
pdb|3AG1|Q Chain Q, Bovine Heart Cytochrome C Oxidase In The Carbon
Monoxide-Bou Reduced State At 280 K
pdb|3AG2|D Chain D, Bovine Heart Cytochrome C Oxidase In The Carbon
Monoxide-Bou Reduced State At 100 K
pdb|3AG2|Q Chain Q, Bovine Heart Cytochrome C Oxidase In The Carbon
Monoxide-Bou Reduced State At 100 K
pdb|3AG3|D Chain D, Bovine Heart Cytochrome C Oxidase In The Nitric
Oxide-Bound Reduced State At 100 K
pdb|3AG3|Q Chain Q, Bovine Heart Cytochrome C Oxidase In The Nitric
Oxide-Bound Reduced State At 100 K
pdb|3AG4|D Chain D, Bovine Heart Cytochrome C Oxidase In The Cyanide Ion-Bound
F Reduced State At 100 K
pdb|3AG4|Q Chain Q, Bovine Heart Cytochrome C Oxidase In The Cyanide Ion-Bound
F Reduced State At 100 K
pdb|3ASN|D Chain D, Bovine Heart Cytochrome C Oxidase In The Fully Oxidized
State Measured At 1.7470 Angstrom Wavelength
pdb|3ASN|Q Chain Q, Bovine Heart Cytochrome C Oxidase In The Fully Oxidized
State Measured At 1.7470 Angstrom Wavelength
pdb|3ASO|D Chain D, Bovine Heart Cytochrome C Oxidase In The Fully Oxidized
State Measured At 0.9 Angstrom Wavelength
pdb|3ASO|Q Chain Q, Bovine Heart Cytochrome C Oxidase In The Fully Oxidized
State Measured At 0.9 Angstrom Wavelength
pdb|2YBB|O Chain O, Fitted Model For Bovine Mitochondrial Supercomplex
I1iii2iv1 By Single Particle Cryo-Em (Emd-1876)
Length = 147
Score = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 27/38 (71%)
Query: 15 TLSEEHRQEMLQKMIDLRWNPITGTASKWDYEKNDWKK 52
T EE + ++M+D++ PI G ++KWDY+KN+WKK
Sbjct: 110 TFEEEWVAKQTKRMLDMKVAPIQGFSAKWDYDKNEWKK 147
>pdb|4F84|A Chain A, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Sam
pdb|4F85|A Chain A, Structure Analysis Of Geranyl Diphosphate
Methyltransferase
pdb|4F86|A Chain A, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Gpp And Sinefungin
pdb|4F86|B Chain B, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Gpp And Sinefungin
pdb|4F86|C Chain C, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Gpp And Sinefungin
pdb|4F86|D Chain D, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Gpp And Sinefungin
pdb|4F86|E Chain E, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Gpp And Sinefungin
pdb|4F86|F Chain F, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Gpp And Sinefungin
pdb|4F86|G Chain G, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Gpp And Sinefungin
pdb|4F86|H Chain H, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Gpp And Sinefungin
pdb|4F86|I Chain I, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Gpp And Sinefungin
pdb|4F86|J Chain J, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Gpp And Sinefungin
pdb|4F86|K Chain K, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Gpp And Sinefungin
pdb|4F86|L Chain L, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Gpp And Sinefungin
Length = 320
Score = 28.1 bits (61), Expect = 1.4, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 20/43 (46%), Gaps = 12/43 (27%)
Query: 33 WNPITGTASKWDYEKNDWKKGDSINSHVITKETNIHARGHKIR 75
WNP G SKW + IN+H E NIH+R +R
Sbjct: 232 WNPRYGQPSKWVSQ---------INAHF---ECNIHSRREYLR 262
>pdb|3EB0|A Chain A, Crystal Structure Of Cgd4_240 From Cryptosporidium Parvum
In Complex With Indirubin E804
pdb|3EB0|C Chain C, Crystal Structure Of Cgd4_240 From Cryptosporidium Parvum
In Complex With Indirubin E804
Length = 383
Score = 26.9 bits (58), Expect = 2.7, Method: Composition-based stats.
Identities = 16/55 (29%), Positives = 30/55 (54%), Gaps = 1/55 (1%)
Query: 6 KKIFPEKAETLSEEHRQEMLQKMIDLRWNPITGTASK-WDYEKNDWKKGDSINSH 59
+KI PE +L+ + +++L+ DLR NP A +D+ +N ++ NS+
Sbjct: 287 RKILPEGTPSLAIDLLEQILRYEPDLRINPYEAMAHPFFDHLRNSYESEVKNNSN 341
>pdb|3VC1|A Chain A, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl-S- Thiolodiphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC1|B Chain B, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl-S- Thiolodiphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC1|C Chain C, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl-S- Thiolodiphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC1|D Chain D, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl-S- Thiolodiphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC1|E Chain E, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl-S- Thiolodiphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC1|F Chain F, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl-S- Thiolodiphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC1|G Chain G, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl-S- Thiolodiphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC1|H Chain H, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl-S- Thiolodiphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC1|I Chain I, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl-S- Thiolodiphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC1|J Chain J, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl-S- Thiolodiphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC1|K Chain K, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl-S- Thiolodiphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC1|L Chain L, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl-S- Thiolodiphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC2|A Chain A, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl Diphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC2|B Chain B, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl Diphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC2|C Chain C, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl Diphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC2|D Chain D, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl Diphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC2|E Chain E, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl Diphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC2|F Chain F, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl Diphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC2|G Chain G, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl Diphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC2|H Chain H, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl Diphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC2|I Chain I, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl Diphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC2|J Chain J, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl Diphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC2|K Chain K, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl Diphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC2|L Chain L, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl Diphosphate, And
S-Adenosyl-L-Homocysteine
Length = 312
Score = 26.6 bits (57), Expect = 3.5, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 20/43 (46%), Gaps = 12/43 (27%)
Query: 33 WNPITGTASKWDYEKNDWKKGDSINSHVITKETNIHARGHKIR 75
WNP G SKW + IN+H E NIH+R +R
Sbjct: 224 WNPRYGQPSKWVSQ---------INAHF---ECNIHSRREYLR 254
>pdb|3NKE|A Chain A, High Resolution Structure Of The C-Terminal Domain
Crisp-Associated Protein Cas1 From Escherichia Coli
Str. K-12
pdb|3NKE|B Chain B, High Resolution Structure Of The C-Terminal Domain
Crisp-Associated Protein Cas1 From Escherichia Coli
Str. K-12
pdb|3NKE|C Chain C, High Resolution Structure Of The C-Terminal Domain
Crisp-Associated Protein Cas1 From Escherichia Coli
Str. K-12
Length = 200
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 12/46 (26%), Positives = 21/46 (45%), Gaps = 7/46 (15%)
Query: 24 MLQKMIDLRWNPITGTASKWDYEKNDWKKGDSINSHVITKETNIHA 69
+L K + WN Y+ DW+KGD+IN + + ++
Sbjct: 60 LLAKQYGVTWN-------GRRYDPKDWEKGDTINQCISAATSCLYG 98
>pdb|3NKD|A Chain A, Structure Of Crisp-Associated Protein Cas1 From
Escherichia Coli Str. K-12
pdb|3NKD|B Chain B, Structure Of Crisp-Associated Protein Cas1 From
Escherichia Coli Str. K-12
Length = 305
Score = 26.2 bits (56), Expect = 5.7, Method: Composition-based stats.
Identities = 8/13 (61%), Positives = 11/13 (84%)
Query: 45 YEKNDWKKGDSIN 57
Y+ DW+KGD+IN
Sbjct: 165 YDPKDWEKGDTIN 177
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
0.313 0.127 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,542,549
Number of Sequences: 62578
Number of extensions: 85408
Number of successful extensions: 238
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 233
Number of HSP's gapped (non-prelim): 9
length of query: 83
length of database: 14,973,337
effective HSP length: 51
effective length of query: 32
effective length of database: 11,781,859
effective search space: 377019488
effective search space used: 377019488
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 45 (21.9 bits)