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= 031764
(153 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XB3|A Chain A, The Structure Of Cyanobacterial Psbp
Length = 165
Score = 49.7 bits (117), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 41/70 (58%), Gaps = 2/70 (2%)
Query: 81 LQRYTDSNEGFTLLRPSSWIKVD-KAGATVLFEEANKGTNNLGVVVNPV-RVASLGEFGT 138
LQ Y DS +G+ L P W++V + V+F + + T N+ VVVN V SL E G+
Sbjct: 8 LQAYVDSYDGYEFLYPRGWVQVQVEDPVDVVFHDIIETTENVSVVVNTVASTKSLEELGS 67
Query: 139 PQFVADKLIQ 148
P+ V D+L++
Sbjct: 68 PEEVGDRLLR 77
>pdb|2LNJ|A Chain A, Solution Structure Of Cyanobacterial Psbp (Cyanop) From
Synechocystis Sp. Pcc 6803
Length = 170
Score = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 41/73 (56%), Gaps = 5/73 (6%)
Query: 81 LQRYTDSNEGFTLLRPSSWIKVDKAGAT----VLFEEANKGTNNLGVVVNPV-RVASLGE 135
LQRY+D+ +G+ L P+ WI VD GA+ V+F + + NL V+++ + +L +
Sbjct: 14 LQRYSDTKDGYEFLYPNGWIGVDVKGASPGVDVVFRDLIERDENLSVIISEIPSDKTLTD 73
Query: 136 FGTPQFVADKLIQ 148
GT V + ++
Sbjct: 74 LGTATDVGYRFMK 86
>pdb|2VU4|A Chain A, Structure Of Psbp Protein From Spinacia Oleracea At 1.98 A
Resolution
Length = 190
Score = 36.6 bits (83), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 31/57 (54%), Gaps = 3/57 (5%)
Query: 87 SNEGFTLLRPSSWIKVDK---AGATVLFEEANKGTNNLGVVVNPVRVASLGEFGTPQ 140
+ +GF LL PS W + G + +E+ T+NL V+V P S+ +FG+P+
Sbjct: 26 NGDGFKLLVPSKWNPSKEKEFPGQVLRYEDNFDATSNLSVLVQPTDKKSITDFGSPE 82
>pdb|1V2B|A Chain A, Crystal Structure Of Psbp Protein In The Oxygen-Evolving
Complex Of Photosystem Ii From Higher Plants
pdb|1V2B|B Chain B, Crystal Structure Of Psbp Protein In The Oxygen-Evolving
Complex Of Photosystem Ii From Higher Plants
Length = 177
Score = 36.2 bits (82), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 38/70 (54%), Gaps = 6/70 (8%)
Query: 78 EMELQRYTDSNEGFTLLRPSSW---IKVDKAGATVLFEEANKGTNNLGVVVNPVRVASLG 134
+ + Q Y + +GF L PS W +V+ G + FE+ T+N+ V + P S+
Sbjct: 6 DTDFQTY--NGDGFKLQIPSKWNPNKEVEYPGQVLRFEDNFDATSNVIVAITPTDKKSIT 63
Query: 135 EFGTP-QFVA 143
+FG+P QF++
Sbjct: 64 DFGSPEQFLS 73
>pdb|2ZXH|A Chain A, Structure Of Aquifex Aeolicus Gida In The Form I Crystal
pdb|2ZXH|B Chain B, Structure Of Aquifex Aeolicus Gida In The Form I Crystal
pdb|2ZXI|A Chain A, Structure Of Aquifex Aeolicus Gida In The Form Ii Crystal
pdb|2ZXI|B Chain B, Structure Of Aquifex Aeolicus Gida In The Form Ii Crystal
pdb|2ZXI|C Chain C, Structure Of Aquifex Aeolicus Gida In The Form Ii Crystal
pdb|2ZXI|D Chain D, Structure Of Aquifex Aeolicus Gida In The Form Ii Crystal
Length = 637
Score = 27.7 bits (60), Expect = 2.5, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 24/48 (50%), Gaps = 2/48 (4%)
Query: 66 LYPKLSKASLPEEM--ELQRYTDSNEGFTLLRPSSWIKVDKAGATVLF 111
+YP SLPEE+ E+ R E L+RP+ I+ D T L+
Sbjct: 334 IYPNGLSTSLPEEVQWEMYRSIPGLENVVLIRPAYAIEYDVVPPTELY 381
>pdb|3L4G|A Chain A, Crystal Structure Of Homo Sapiens Cytoplasmic
Phenylalanyl-T Synthetase
pdb|3L4G|C Chain C, Crystal Structure Of Homo Sapiens Cytoplasmic
Phenylalanyl-T Synthetase
pdb|3L4G|E Chain E, Crystal Structure Of Homo Sapiens Cytoplasmic
Phenylalanyl-T Synthetase
pdb|3L4G|G Chain G, Crystal Structure Of Homo Sapiens Cytoplasmic
Phenylalanyl-T Synthetase
pdb|3L4G|I Chain I, Crystal Structure Of Homo Sapiens Cytoplasmic
Phenylalanyl-T Synthetase
pdb|3L4G|K Chain K, Crystal Structure Of Homo Sapiens Cytoplasmic
Phenylalanyl-T Synthetase
pdb|3L4G|M Chain M, Crystal Structure Of Homo Sapiens Cytoplasmic
Phenylalanyl-T Synthetase
pdb|3L4G|O Chain O, Crystal Structure Of Homo Sapiens Cytoplasmic
Phenylalanyl-T Synthetase
Length = 508
Score = 26.2 bits (56), Expect = 7.9, Method: Composition-based stats.
Identities = 14/38 (36%), Positives = 19/38 (50%), Gaps = 4/38 (10%)
Query: 74 SLPEE----MELQRYTDSNEGFTLLRPSSWIKVDKAGA 107
S+P E EL R GF+ + WI+VDK+ A
Sbjct: 83 SIPPEGLAQSELMRLPSGKVGFSKAMSNKWIRVDKSAA 120
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
0.317 0.133 0.370
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,171,132
Number of Sequences: 62578
Number of extensions: 116878
Number of successful extensions: 256
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 248
Number of HSP's gapped (non-prelim): 6
length of query: 153
length of database: 14,973,337
effective HSP length: 90
effective length of query: 63
effective length of database: 9,341,317
effective search space: 588502971
effective search space used: 588502971
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: 47 (22.7 bits)