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= 037647
(575 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3G7F|M Chain M, Crystal Structure Of Blastochloris Viridis Heterodimer
Mutant Reaction Center
Length = 323
Score = 33.1 bits (74), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 35/109 (32%), Positives = 48/109 (44%), Gaps = 3/109 (2%)
Query: 257 STGQPYNISRILNEAT-FDLDHDAFNSYSKLYLSPFFAFNYGLSFATLTATISHVALFDG 315
S G P+ I ++ T F + + F L S FA+ GL FA ATI VA F G
Sbjct: 170 SEGVPFGIWPHIDWLTAFSIRYGNFYYCPWLGFSIGFAYGCGLLFAAHGATILAVARFGG 229
Query: 316 S-DIWQMWKRTTSAARDKFADVHTRLMKKHYEAVPQW-WFHIILVATVA 362
+I Q+ R T+ R T E+V +W WF ++V A
Sbjct: 230 DREIEQITDRGTAVERAALFWRWTIGFNATIESVHRWGWFFSLMVMVSA 278
>pdb|3T6D|M Chain M, Crystal Structure Of The Reaction Centre From
Blastochloris Viridis Strain Dsm 133 (Atcc 19567)
Substrain-08
Length = 323
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 38/88 (43%), Gaps = 8/88 (9%)
Query: 283 YSKLYLSPF------FAFNYGLSFATLTATISHVALFDGS-DIWQMWKRTTSAARDKFAD 335
Y Y P+ FA+ GL FA ATI VA F G +I Q+ R T+ R
Sbjct: 191 YGNFYYCPWHGFSIGFAYGCGLLFAAHGATILAVARFGGDREIEQITDRGTAVERAALFW 250
Query: 336 VHTRLMKKHYEAVPQW-WFHIILVATVA 362
T E+V +W WF ++V A
Sbjct: 251 RWTIGFNATIESVHRWGWFFSLMVMVSA 278
>pdb|4AC5|M Chain M, Lipidic Sponge Phase Crystal Structure Of The Bl. Viridis
Reaction Centre Solved Using Serial Femtosecond
Crystallography
Length = 324
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 38/88 (43%), Gaps = 8/88 (9%)
Query: 283 YSKLYLSPF------FAFNYGLSFATLTATISHVALFDGS-DIWQMWKRTTSAARDKFAD 335
Y Y P+ FA+ GL FA ATI VA F G +I Q+ R T+ R
Sbjct: 192 YGNFYYCPWHGFSIGFAYGCGLLFAAHGATILAVARFGGDREIEQITDRGTAVERAALFW 251
Query: 336 VHTRLMKKHYEAVPQW-WFHIILVATVA 362
T E+V +W WF ++V A
Sbjct: 252 RWTIGFNATIESVHRWGWFFSLMVMVSA 279
>pdb|1PRC|M Chain M, Crystallographic Refinement At 2.3 Angstroms Resolution
And Refined Model Of The Photosynthetic Reaction Center
From Rhodopseudomonas Viridis
pdb|2PRC|M Chain M, Photosynthetic Reaction Center From Rhodopseudomonas
Viridis (Ubiquinone-2 Complex)
pdb|3PRC|M Chain M, Photosynthetic Reaction Center From Rhodopseudomonas
Viridis (Qb- Depleted)
pdb|5PRC|M Chain M, Photosynthetic Reaction Center From Rhodopseudomonas
Viridis (Atrazine Complex)
pdb|6PRC|M Chain M, Photosynthetic Reaction Center From Rhodopseudomonas
Viridis (Dg- 420314 (Triazine) Complex)
pdb|7PRC|M Chain M, Photosynthetic Reaction Center From Rhodopseudomonas
Viridis (Dg- 420315 (Triazine) Complex)
pdb|1DXR|M Chain M, Photosynthetic Reaction Center From Rhodopseudomonas
Viridis - His L168 Phe Mutant (Terbutryn Complex)
pdb|1R2C|M Chain M, Photosynthetic Reaction Center Blastochloris Viridis
(Atcc)
pdb|1VRN|M Chain M, Photosynthetic Reaction Center Blastochloris Viridis
(Atcc)
pdb|2I5N|M Chain M, 1.96 A X-Ray Structure Of Photosynthetic Reaction Center
From Rhodopseudomonas Viridis:crystals Grown By
Microfluidic Technique
pdb|2JBL|M Chain M, Photosynthetic Reaction Center From Blastochloris Viridis
pdb|3D38|M Chain M, Crystal Structure Of New Trigonal Form Of Photosynthetic
Reaction Center From Blastochloris Viridis. Crystals
Grown In Microfluidics By Detergent Capture
Length = 323
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 38/88 (43%), Gaps = 8/88 (9%)
Query: 283 YSKLYLSPF------FAFNYGLSFATLTATISHVALFDGS-DIWQMWKRTTSAARDKFAD 335
Y Y P+ FA+ GL FA ATI VA F G +I Q+ R T+ R
Sbjct: 191 YGNFYYCPWHGFSIGFAYGCGLLFAAHGATILAVARFGGDREIEQITDRGTAVERAALFW 250
Query: 336 VHTRLMKKHYEAVPQW-WFHIILVATVA 362
T E+V +W WF ++V A
Sbjct: 251 RWTIGFNATIESVHRWGWFFSLMVMVSA 278
>pdb|2WJM|M Chain M, Lipidic Sponge Phase Crystal Structure Of The
Photosynthetic Reaction Centre From Blastochloris
Viridis (Low Dose)
pdb|2WJN|M Chain M, Lipidic Sponge Phase Crystal Structure Of Photosynthetic
Reaction Centre From Blastochloris Viridis (High Dose)
pdb|2X5U|M Chain M, 80 Microsecond Laue Diffraction Snapshot From Crystals Of
A Photosynthetic Reaction Centre Without Illumination.
pdb|2X5V|M Chain M, 80 Microsecond Laue Diffraction Snapshot From Crystals Of
A Photosynthetic Reaction Centre 3 Millisecond Following
Photoactivation
Length = 324
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 38/88 (43%), Gaps = 8/88 (9%)
Query: 283 YSKLYLSPF------FAFNYGLSFATLTATISHVALFDGS-DIWQMWKRTTSAARDKFAD 335
Y Y P+ FA+ GL FA ATI VA F G +I Q+ R T+ R
Sbjct: 192 YGNFYYCPWHGFSIGFAYGCGLLFAAHGATILAVARFGGDREIEQITDRGTAVERAALFW 251
Query: 336 VHTRLMKKHYEAVPQW-WFHIILVATVA 362
T E+V +W WF ++V A
Sbjct: 252 RWTIGFNATIESVHRWGWFFSLMVMVSA 279
>pdb|3T6E|M Chain M, Crystal Structure Of The Reaction Centre From
Blastochloris Viridis Strain Dsm 133 (Atcc 19567)
Substrain-94
Length = 323
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 38/88 (43%), Gaps = 8/88 (9%)
Query: 283 YSKLYLSPF------FAFNYGLSFATLTATISHVALFDGS-DIWQMWKRTTSAARDKFAD 335
Y Y P+ FA+ GL FA ATI VA F G +I Q+ R T+ R
Sbjct: 191 YGNFYYCPWHGFSIGFAYGCGLLFAAHGATILAVARFGGDREIEQITDRGTAVERAALFW 250
Query: 336 VHTRLMKKHYEAVPQW-WFHIILVATVA 362
T E+V +W WF ++V A
Sbjct: 251 RWTIGFNATIESVHRWGWFFSLMVMVSA 278
>pdb|2BE4|A Chain A, X-ray Structure An Ef-hand Protein From Danio Rerio
Dr.36843
pdb|2Q4U|A Chain A, Ensemble Refinement Of The Crystal Structure Of An Ef-Hand
Protein From Danio Rerio Dr.36843
Length = 272
Score = 30.8 bits (68), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 18/30 (60%)
Query: 388 TYGYISMSQALSFLADFKLGHYMKIPPKSM 417
+ GYIS ++ +FL D L H KIPP +
Sbjct: 117 SSGYISAAELKNFLKDLFLQHKKKIPPNKL 146
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
0.326 0.140 0.463
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,988,796
Number of Sequences: 62578
Number of extensions: 776891
Number of successful extensions: 1584
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1583
Number of HSP's gapped (non-prelim): 9
length of query: 575
length of database: 14,973,337
effective HSP length: 104
effective length of query: 471
effective length of database: 8,465,225
effective search space: 3987120975
effective search space used: 3987120975
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (25.4 bits)