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= 004443
(753 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2KCJ|A Chain A, Solution Structure Of Fapp1 Ph Domain
Length = 108
Score = 55.1 bits (131), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 21/30 (70%), Positives = 25/30 (83%)
Query: 95 ISGVLYKWVNYGKGWRPRWFVLQDGVLSYY 124
+ GVLYKW NY GW+PRWFVL +G+LSYY
Sbjct: 9 MEGVLYKWTNYLTGWQPRWFVLDNGILSYY 38
>pdb|3RCP|A Chain A, Crystal Structure Of The Fapp1 Pleckstrin Homology Domain
Length = 103
Score = 54.3 bits (129), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 21/28 (75%), Positives = 24/28 (85%)
Query: 97 GVLYKWVNYGKGWRPRWFVLQDGVLSYY 124
GVLYKW NY GW+PRWFVL +G+LSYY
Sbjct: 3 GVLYKWTNYLTGWQPRWFVLDNGILSYY 30
>pdb|2RSG|A Chain A, Solution Structure Of The Cert Ph Domain
Length = 94
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/47 (48%), Positives = 28/47 (59%), Gaps = 8/47 (17%)
Query: 97 GVLYKWVNYGKGWRPRWFVLQDGVLSYYKIHGPDKIIVSEETERGCK 143
GVL KW NY GW+ RW VL++ LSYYK +ETE GC+
Sbjct: 5 GVLSKWTNYIHGWQDRWVVLKNNALSYYK--------SEDETEYGCR 43
>pdb|1ZI7|A Chain A, Structure Of Truncated Yeast Oxysterol Binding Protein
Osh4
pdb|1ZI7|B Chain B, Structure Of Truncated Yeast Oxysterol Binding Protein
Osh4
pdb|1ZI7|C Chain C, Structure Of Truncated Yeast Oxysterol Binding Protein
Osh4
Length = 406
Score = 34.3 bits (77), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 34/71 (47%), Gaps = 13/71 (18%)
Query: 484 LMRILNVAAFAVSGYAS-------TEGRICKPFNPLLGETY-----EADYPDKG-LQFFS 530
L R+L V + +S S + G KP NP LGE + ++P+ G S
Sbjct: 54 LARMLAVTKWFISTLKSQYCSRNESLGSEKKPLNPFLGELFVGKWENKEHPEFGETVLLS 113
Query: 531 EKVSHHPMIVA 541
E+VSHHP + A
Sbjct: 114 EQVSHHPPVTA 124
>pdb|3SPW|A Chain A, Structure Of Osh4pKES1P IN COMPLEX WITH
PHOSPHATIDYLINOSITOL 4- Phosphate
pdb|3SPW|B Chain B, Structure Of Osh4pKES1P IN COMPLEX WITH
PHOSPHATIDYLINOSITOL 4- Phosphate
Length = 436
Score = 34.3 bits (77), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 34/71 (47%), Gaps = 13/71 (18%)
Query: 484 LMRILNVAAFAVSGYAS-------TEGRICKPFNPLLGETY-----EADYPDKG-LQFFS 530
L R+L V + +S S + G KP NP LGE + ++P+ G S
Sbjct: 81 LARMLAVTKWFISTLKSQYCSRNESLGSEKKPLNPFLGELFVGKWENKEHPEFGETVLLS 140
Query: 531 EKVSHHPMIVA 541
E+VSHHP + A
Sbjct: 141 EQVSHHPPVTA 151
>pdb|1ZHT|A Chain A, Structure Of Yeast Oxysterol Binding Protein Osh4 In
Complex With 7-Hydroxycholesterol
pdb|1ZHW|A Chain A, Structure Of Yeast Oxysterol Binding Protein Osh4 In
Complex With 20-hydroxycholesterol
pdb|1ZHX|A Chain A, Structure Of Yeast Oxysterol Binding Protein Osh4 In
Complex With 25-Hydroxycholesterol
pdb|1ZHY|A Chain A, Structure Of Yeast Oxysterol Binding Protein Osh4 In
Complex With Cholesterol
pdb|1ZHZ|A Chain A, Structure Of Yeast Oxysterol Binding Protein Osh4 In
Complex With Ergosterol
Length = 438
Score = 34.3 bits (77), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 34/71 (47%), Gaps = 13/71 (18%)
Query: 484 LMRILNVAAFAVSGYAS-------TEGRICKPFNPLLGETY-----EADYPDKG-LQFFS 530
L R+L V + +S S + G KP NP LGE + ++P+ G S
Sbjct: 83 LARMLAVTKWFISTLKSQYCSRNESLGSEKKPLNPFLGELFVGKWENKEHPEFGETVLLS 142
Query: 531 EKVSHHPMIVA 541
E+VSHHP + A
Sbjct: 143 EQVSHHPPVTA 153
>pdb|2YRY|A Chain A, Solution Structure Of The Ph Domain Of Pleckstrin Homology
Domain-Containing Family A Member 6 From Human
Length = 122
Score = 32.7 bits (73), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 96 SGVLYKWVNYG-KGWRPRWFVLQDGVLSYYKIHGPDKIIVS 135
+G L+K + G K W RWFVL D L YYK + I+ S
Sbjct: 25 AGWLFKQASSGVKQWNKRWFVLVDRCLFYYKDEKEESILGS 65
>pdb|2D9Y|A Chain A, Solution Structure Of The Ph Domain Of Pepp-3 From Human
Length = 117
Score = 32.7 bits (73), Expect = 0.82, Method: Composition-based stats.
Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 96 SGVLYKWVNYG-KGWRPRWFVLQDGVLSYYKIHGPDKIIVS 135
+G L+K + G K W RWFVL D L YYK + I+ S
Sbjct: 14 AGWLFKQASSGVKQWNKRWFVLVDRCLFYYKDEKEESILGS 54
>pdb|2D9V|A Chain A, Solution Structure Of The Ph Domain Of Pleckstrin Homology
Domain-Containing Protein Family B Member 1 From Mouse
Length = 130
Score = 31.6 bits (70), Expect = 1.9, Method: Composition-based stats.
Identities = 33/124 (26%), Positives = 49/124 (39%), Gaps = 27/124 (21%)
Query: 97 GVLYKWVNYGKGWRPRWFVLQ-DGVLSYYKIHGPDKIIVSEETERGCKVIGEESTRIISK 155
G L++ + + W+ WF L DG L YY D+ EE +V+ + R I
Sbjct: 12 GWLWRQSSILRRWKRNWFALWLDGTLGYYH----DETAQDEED----RVVIHFNVRDIKV 63
Query: 156 RKHKKETTSQRLLNRKPFGEVHLKVXXXXXXXXXXXXXXXXTGTKRLHLRAETREDRFAW 215
+ ++ +R V+L+ RLHL AETR+D AW
Sbjct: 64 GQECQDVQPPEGRSRDGLLTVNLR------------------EGSRLHLCAETRDDAIAW 105
Query: 216 MEAL 219
AL
Sbjct: 106 KTAL 109
>pdb|1JB0|B Chain B, Crystal Structure Of Photosystem I: A Photosynthetic
Reaction Center And Core Antenna System From
Cyanobacteria
pdb|3PCQ|B Chain B, Femtosecond X-Ray Protein Nanocrystallography
pdb|4FE1|B Chain B, Improving The Accuracy Of Macromolecular Structure
Refinement At 7 A Resolution
Length = 740
Score = 31.2 bits (69), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 25/107 (23%), Positives = 42/107 (39%), Gaps = 10/107 (9%)
Query: 73 EPRLSQRAEPVDVKI----NDIVGNGISGVLYKWVNYGKGWRPRWF-VLQDGVLSYYKIH 127
EP +Q + K+ + ++ N S W NYG W P W + G S +
Sbjct: 459 EPVFAQFIQAAHGKLLYGFDTLLSNPDSIASTAWPNYGNVWLPGWLDAINSGTNSLFLTI 518
Query: 128 GPDKIIVSEETERGCKVIGEESTRIISKRKHKKETTSQRLLNRKPFG 174
GP +V +G +T +I + S+ + ++K FG
Sbjct: 519 GPGDFLVHHAI-----ALGLHTTTLILVKGALDARGSKLMPDKKDFG 560
>pdb|2D9X|A Chain A, Solution Structure Of The Ph Domain Of Oxysterol Binding
Protein-Related Protein 11 From Human
Length = 120
Score = 30.8 bits (68), Expect = 3.2, Method: Composition-based stats.
Identities = 14/35 (40%), Positives = 21/35 (60%), Gaps = 2/35 (5%)
Query: 92 GNGISGVLYKWVNYGKGWRPRWFVLQD--GVLSYY 124
G + G L K+ N GW+ R+FVL + G+L Y+
Sbjct: 7 GENVYGYLMKYTNLVTGWQYRFFVLNNEAGLLEYF 41
>pdb|2DKP|A Chain A, Solution Structure Of The Ph Domain Of Pleckstrin Homology
Domain-Containing Protein Family A Member 5 From Human
Length = 128
Score = 30.8 bits (68), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 97 GVLYKWVNYG-KGWRPRWFVLQDGVLSYYKIHGPDKIIVS 135
G LYK + G K W+ RWFVL D L YY+ + I+ S
Sbjct: 25 GWLYKQDSTGMKLWKKRWFVLSDLCLFYYRDEKEEGILGS 64
>pdb|2DN6|A Chain A, Solution Structure Of The Ph Domain Of Kiaa0640 Protein
From Human
Length = 115
Score = 30.4 bits (67), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 5/37 (13%)
Query: 93 NGISGVLYKWVNYGKG-----WRPRWFVLQDGVLSYY 124
+G SGVL + KG W RWFVL+ ++SYY
Sbjct: 3 SGSSGVLKQGYMMKKGHRRKNWTERWFVLKPNIISYY 39
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
0.319 0.135 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,130,677
Number of Sequences: 62578
Number of extensions: 794294
Number of successful extensions: 1611
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1599
Number of HSP's gapped (non-prelim): 15
length of query: 753
length of database: 14,973,337
effective HSP length: 106
effective length of query: 647
effective length of database: 8,340,069
effective search space: 5396024643
effective search space used: 5396024643
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)