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= 032316
(143 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2WSC|E Chain E, Improved Model Of Plant Photosystem I
pdb|2WSE|E Chain E, Improved Model Of Plant Photosystem I
pdb|2WSF|E Chain E, Improved Model Of Plant Photosystem I
Length = 143
Score = 105 bits (261), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 47/55 (85%), Positives = 52/55 (94%)
Query: 88 VKILRRESYWYNGIGSVVAVDQDPKSRYPVVVRFNKVNYANVSTNNYALDEIEEV 142
VKILRRESYW+ +GSVVAVDQDPK+RYPVVVRF KVNYAN+STNNYALDE+EEV
Sbjct: 87 VKILRRESYWFKNVGSVVAVDQDPKTRYPVVVRFAKVNYANISTNNYALDEVEEV 141
>pdb|2O01|E Chain E, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 62
Score = 103 bits (256), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 47/55 (85%), Positives = 52/55 (94%)
Query: 88 VKILRRESYWYNGIGSVVAVDQDPKSRYPVVVRFNKVNYANVSTNNYALDEIEEV 142
VKILRRESYW+ +GSVVAVDQDPK+RYPVVVRF KVNYAN+STNNYALDE+EEV
Sbjct: 7 VKILRRESYWFKNVGSVVAVDQDPKTRYPVVVRFAKVNYANISTNNYALDEVEEV 61
>pdb|3LW5|E Chain E, Improved Model Of Plant Photosystem I
Length = 64
Score = 102 bits (255), Expect = 6e-23, Method: Compositional matrix adjust.
Identities = 49/56 (87%), Positives = 52/56 (92%)
Query: 88 VKILRRESYWYNGIGSVVAVDQDPKSRYPVVVRFNKVNYANVSTNNYALDEIEEVK 143
VKILR+ESYWY G GSVVAVDQDP +RYPVVVRFNKVNYANVSTNNYALDEI EV+
Sbjct: 9 VKILRKESYWYKGTGSVVAVDQDPNTRYPVVVRFNKVNYANVSTNNYALDEIVEVE 64
>pdb|1JB0|E Chain E, Crystal Structure Of Photosystem I: A Photosynthetic
Reaction Center And Core Antenna System From
Cyanobacteria
pdb|3PCQ|E Chain E, Femtosecond X-Ray Protein Nanocrystallography
pdb|4FE1|E Chain E, Improving The Accuracy Of Macromolecular Structure
Refinement At 7 A Resolution
Length = 75
Score = 76.3 bits (186), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 36/62 (58%), Positives = 47/62 (75%), Gaps = 7/62 (11%)
Query: 88 VKILRRESYWYNGIGSVVAVDQDPKSRYPVVVRFNKVNY-------ANVSTNNYALDEIE 140
VKILR ESYWYN +G+V +VDQ P +YPV+VRF+KVNY + V+TNN+AL E++
Sbjct: 7 VKILRPESYWYNEVGTVASVDQTPGVKYPVIVRFDKVNYTGYSGSASGVNTNNFALHEVQ 66
Query: 141 EV 142
EV
Sbjct: 67 EV 68
>pdb|1QP2|A Chain A, Solution Structure Of Photosystem I Accessory Protein E
From The Cyanobacterium Nostoc Sp. Strain Pcc 8009
pdb|1QP3|A Chain A, Solution Structure Of Photosystem I Accessory Protein E
From The Cyanobacterium Nostoc Sp. Strain Pcc 8009
Length = 70
Score = 68.2 bits (165), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 31/56 (55%), Positives = 44/56 (78%), Gaps = 1/56 (1%)
Query: 88 VKILRRESYWYNGIGSVVAVDQDPKSRYPVVVRFNKVNYANVSTNNYALDEIEEVK 143
V+ILR ESYW+ +G+V +VDQ +YPV+VRF KVNY+ ++TNN+A DE+ EV+
Sbjct: 8 VRILRPESYWFQDVGTVASVDQS-GIKYPVIVRFEKVNYSGINTNNFAEDELVEVE 62
>pdb|1PSE|A Chain A, The Three-Dimensional Solution Structure Of Psae From The
Cyanobacterium Synechococcus Sp. Strain Pcc 7002: A
Photosystem I Protein That Shows Structural Homology
With Sh3 Domains
pdb|1PSF|A Chain A, The Three-Dimensional Solution Structure Of Psae From The
Cyanobacterium Synechococcus Sp. Strain Pcc 7002: A
Photosystem I Protein That Shows Structural Homology
With Sh3 Domains
Length = 69
Score = 60.5 bits (145), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 31/62 (50%), Positives = 42/62 (67%), Gaps = 8/62 (12%)
Query: 88 VKILRRESYWYNGIGSVVAVDQDPKSRYPVVVRFNKVNY-------ANVSTNNYALDEIE 140
VKILR+ESYWY +G+V ++D+ YPV+VRFNKVNY ++TNN+A E+E
Sbjct: 8 VKILRKESYWYGDVGTVASIDKSGII-YPVIVRFNKVNYNGFSGSAGGLNTNNFAEHELE 66
Query: 141 EV 142
V
Sbjct: 67 VV 68
>pdb|1GXI|E Chain E, Psae Sub-Unit Of The Photosystem I Of The Cyanobacterium
Synechocystis Sp. Pcc 6803
Length = 73
Score = 53.5 bits (127), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 28/63 (44%), Positives = 43/63 (68%), Gaps = 8/63 (12%)
Query: 88 VKILRRESYWYNGIGSVVAVDQDPKSRYPVVVRFNKVNY-------ANVSTNNYALDEIE 140
V+I R ESYWY +G+V +V++ YPV+VRF++VNY + V+TNN+A +E+E
Sbjct: 8 VRIKRTESYWYGDVGTVASVEK-SGILYPVIVRFDRVNYNGFSGSASGVNTNNFAENELE 66
Query: 141 EVK 143
V+
Sbjct: 67 LVQ 69
>pdb|1IT2|A Chain A, Hagfish Deoxy Hemoglobin
pdb|1IT2|B Chain B, Hagfish Deoxy Hemoglobin
pdb|1IT3|A Chain A, Hagfish Co Ligand Hemoglobin
pdb|1IT3|B Chain B, Hagfish Co Ligand Hemoglobin
pdb|1IT3|C Chain C, Hagfish Co Ligand Hemoglobin
pdb|1IT3|D Chain D, Hagfish Co Ligand Hemoglobin
Length = 146
Score = 25.8 bits (55), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 107 VDQDPKSRYPVVVRFNKVN 125
++QDP+ ++ VV FNKVN
Sbjct: 62 LEQDPEVKHQAVVIFNKVN 80
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 0.126 0.355
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,901,354
Number of Sequences: 62578
Number of extensions: 75023
Number of successful extensions: 147
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 134
Number of HSP's gapped (non-prelim): 8
length of query: 143
length of database: 14,973,337
effective HSP length: 89
effective length of query: 54
effective length of database: 9,403,895
effective search space: 507810330
effective search space used: 507810330
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 46 (22.3 bits)