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= 032127
(147 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 42.4 bits (98), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 29/58 (50%), Gaps = 3/58 (5%)
Query: 93 DGYSYVYPSDWT---EFEFTGHDSGFKDRYLQLQNVRVRFIPTDKKDVHDLGPMEEFL 147
DG+ PS W E E+ G F+D + NV V PTDKK + D G E+FL
Sbjct: 15 DGFKLQIPSKWNPNKEVEYPGQVLRFEDNFDATSNVIVAITPTDKKSITDFGSPEQFL 72
>pdb|2VU4|A Chain A, Structure Of Psbp Protein From Spinacia Oleracea At 1.98 A
Resolution
Length = 190
Score = 39.7 bits (91), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 30/58 (51%), Gaps = 3/58 (5%)
Query: 93 DGYSYVYPSDWT---EFEFTGHDSGFKDRYLQLQNVRVRFIPTDKKDVHDLGPMEEFL 147
DG+ + PS W E EF G ++D + N+ V PTDKK + D G E+FL
Sbjct: 28 DGFKLLVPSKWNPSKEKEFPGQVLRYEDNFDATSNLSVLVQPTDKKSITDFGSPEDFL 85
>pdb|2XB3|A Chain A, The Structure Of Cyanobacterial Psbp
Length = 165
Score = 31.6 bits (70), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 28/62 (45%), Gaps = 2/62 (3%)
Query: 87 AFVDRIDGYSYVYPSDWTEFEFTGH-DSGFKDRYLQLQNVRVRF-IPTDKKDVHDLGPME 144
A+VD DGY ++YP W + + D F D +NV V K + +LG E
Sbjct: 10 AYVDSYDGYEFLYPRGWVQVQVEDPVDVVFHDIIETTENVSVVVNTVASTKSLEELGSPE 69
Query: 145 EF 146
E
Sbjct: 70 EV 71
>pdb|2LNJ|A Chain A, Solution Structure Of Cyanobacterial Psbp (Cyanop) From
Synechocystis Sp. Pcc 6803
Length = 170
Score = 30.4 bits (67), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 31/60 (51%), Gaps = 7/60 (11%)
Query: 88 FVDRIDGYSYVYPSDWTEFEFTGHDSG----FKDRYLQLQNVRVRF--IPTDKKDVHDLG 141
+ D DGY ++YP+ W + G G F+D + +N+ V IP+DK + DLG
Sbjct: 17 YSDTKDGYEFLYPNGWIGVDVKGASPGVDVVFRDLIERDENLSVIISEIPSDKT-LTDLG 75
>pdb|3K2Q|A Chain A, Crystal Structure Of Pyrophosphate-Dependent
Phosphofructokinase From Marinobacter Aquaeolei,
Northeast Structural Genomics Consortium Target Mqr88
pdb|3K2Q|B Chain B, Crystal Structure Of Pyrophosphate-Dependent
Phosphofructokinase From Marinobacter Aquaeolei,
Northeast Structural Genomics Consortium Target Mqr88
pdb|3K2Q|C Chain C, Crystal Structure Of Pyrophosphate-Dependent
Phosphofructokinase From Marinobacter Aquaeolei,
Northeast Structural Genomics Consortium Target Mqr88
Length = 420
Score = 28.9 bits (63), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 10/61 (16%)
Query: 72 PANSLFAQEIPKNYDAFVDRID------GYSYVYPSDWTEFE---FTGHDSGFKDRYLQL 122
P + + EIP N + F++R+D GY V S+ ++E F D+G KD +
Sbjct: 211 PPHVILFPEIPFNREKFLERVDQCVRDYGYCVVVASEGAQYEDGRFVA-DAGAKDAFGHT 269
Query: 123 Q 123
Q
Sbjct: 270 Q 270
>pdb|2WS2|A Chain A, The 2 Angstrom Structure Of A Nu-Class Gst From Haemonchus
Contortus
pdb|2WS2|B Chain B, The 2 Angstrom Structure Of A Nu-Class Gst From Haemonchus
Contortus
Length = 204
Score = 27.3 bits (59), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 25/52 (48%), Gaps = 5/52 (9%)
Query: 37 QNFFTCPEDISSDEENKSKRRLLLMGAGLLTANLLPANSLFAQEIPKNYDAF 88
Q FFT I +ENK+ L+G L A+L A F + PK YD F
Sbjct: 130 QKFFTIVTKIL--KENKTG---YLVGDSLTFADLYVAEMGFTEHYPKLYDGF 176
>pdb|1WMD|A Chain A, Crystal Structure Of Alkaline Serine Protease Kp-43 From
Bacillus Sp. Ksm-Kp43 (1.30 Angstrom, 100 K)
pdb|1WME|A Chain A, Crystal Structure Of Alkaline Serine Protease Kp-43 From
Bacillus Sp. Ksm-kp43 (1.50 Angstrom, 293 K)
Length = 434
Score = 26.6 bits (57), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 17/33 (51%)
Query: 10 WVSTTLSKKLNVAYPNELTRSATAFSCQNFFTC 42
W TL K LNVAY NE + +T+ FT
Sbjct: 307 WGRVTLDKSLNVAYVNESSSLSTSQKATYSFTA 339
>pdb|1WMF|A Chain A, Crystal Structure Of Alkaline Serine Protease Kp-43 From
Bacillus Sp. Ksm-kp43 (oxidized Form, 1.73 Angstrom)
Length = 434
Score = 26.6 bits (57), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 17/33 (51%)
Query: 10 WVSTTLSKKLNVAYPNELTRSATAFSCQNFFTC 42
W TL K LNVAY NE + +T+ FT
Sbjct: 307 WGRVTLDKSLNVAYVNESSSLSTSQKATYSFTA 339
>pdb|2LFC|A Chain A, Solution Nmr Structure Of Fumarate Reductase Flavoprotein
Subunit From Lactobacillus Plantarum, Northeast
Structural Genomics Consortium Target Lpr145j
Length = 160
Score = 26.2 bits (56), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 31/69 (44%), Gaps = 18/69 (26%)
Query: 42 CPEDISSDEENKSKRRLLLMG--------AGLLTANLLPANSLFAQEIPKNYDAFVDRID 93
PE+I S ENK KR + + G AG++ L+ + KNY +V D
Sbjct: 76 TPEEIKSFFENKGKRPVFVKGSLESAAEQAGIVVDELV--------QTVKNYQGYVQ--D 125
Query: 94 GYSYVYPSD 102
G+ + + D
Sbjct: 126 GHDHDFGRD 134
>pdb|2DWU|A Chain A, Crystal Structure Of Glutamate Racemase Isoform Race1 From
Bacillus Anthracis
pdb|2DWU|B Chain B, Crystal Structure Of Glutamate Racemase Isoform Race1 From
Bacillus Anthracis
pdb|2DWU|C Chain C, Crystal Structure Of Glutamate Racemase Isoform Race1 From
Bacillus Anthracis
Length = 276
Score = 25.8 bits (55), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 23/50 (46%)
Query: 46 ISSDEENKSKRRLLLMGAGLLTANLLPANSLFAQEIPKNYDAFVDRIDGY 95
ISS EE + +L G+L NL P + F +++ +R GY
Sbjct: 209 ISSAEETAIELSTILQHKGILADNLNPKHRFFTTGSVSSFEHIAERWLGY 258
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
0.318 0.134 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,364,882
Number of Sequences: 62578
Number of extensions: 172519
Number of successful extensions: 362
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 354
Number of HSP's gapped (non-prelim): 15
length of query: 147
length of database: 14,973,337
effective HSP length: 90
effective length of query: 57
effective length of database: 9,341,317
effective search space: 532455069
effective search space used: 532455069
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 47 (22.7 bits)