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= psy2816
(83 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4FVF|A Chain A, Spfh Domain Of Mouse Stomatin (Crystal Form 1)
pdb|4FVF|B Chain B, Spfh Domain Of Mouse Stomatin (Crystal Form 1)
Length = 128
Score = 48.5 bits (114), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 41/67 (61%), Gaps = 1/67 (1%)
Query: 17 PIIDKIKYVQSLKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDPYLASYGVEDPEFAIT 76
P D + V ++ I+ D+P Q +T D+VT+S+DGV+Y ++ + LA + + + A
Sbjct: 1 PCTDSLIKV-DMRTISFDIPPQEVLTKDSVTISVDGVVYYRVQNATLAVANITNADSATR 59
Query: 77 QLAQTTM 83
LAQTT+
Sbjct: 60 LLAQTTL 66
>pdb|4FVJ|A Chain A, Spfh Domain Of The Mouse Stomatin (Crystal Form 2)
pdb|4FVJ|B Chain B, Spfh Domain Of The Mouse Stomatin (Crystal Form 2)
pdb|4FVJ|C Chain C, Spfh Domain Of The Mouse Stomatin (Crystal Form 2)
pdb|4FVJ|D Chain D, Spfh Domain Of The Mouse Stomatin (Crystal Form 2)
pdb|4FVJ|E Chain E, Spfh Domain Of The Mouse Stomatin (Crystal Form 2)
pdb|4FVJ|F Chain F, Spfh Domain Of The Mouse Stomatin (Crystal Form 2)
pdb|4FVJ|G Chain G, Spfh Domain Of The Mouse Stomatin (Crystal Form 2)
pdb|4FVJ|H Chain H, Spfh Domain Of The Mouse Stomatin (Crystal Form 2)
Length = 133
Score = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 37/56 (66%)
Query: 28 LKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDPYLASYGVEDPEFAITQLAQTTM 83
++ I+ D+P Q +T D+VT+S+DGV+Y ++ + LA + + + A LAQTT+
Sbjct: 16 MRTISFDIPPQEVLTKDSVTISVDGVVYYRVQNATLAVANITNADSATRLLAQTTL 71
>pdb|4FVG|A Chain A, Spfh Domain Of Mouse Stomatin (Crystal Form 3)
Length = 133
Score = 47.8 bits (112), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 37/56 (66%)
Query: 28 LKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDPYLASYGVEDPEFAITQLAQTTM 83
++ I+ D+P Q +T D+VT+S+DGV+Y ++ + LA + + + A LAQTT+
Sbjct: 16 MRTISFDIPPQEVLTKDSVTISVDGVVYYRVQNATLAVANITNADSATRLLAQTTL 71
>pdb|3BK6|A Chain A, Crystal Structure Of A Core Domain Of Stomatin From
Pyrococcus Horikoshii
pdb|3BK6|B Chain B, Crystal Structure Of A Core Domain Of Stomatin From
Pyrococcus Horikoshii
pdb|3BK6|C Chain C, Crystal Structure Of A Core Domain Of Stomatin From
Pyrococcus Horikoshii
Length = 188
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 35/56 (62%)
Query: 28 LKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDPYLASYGVEDPEFAITQLAQTTM 83
L+ +DVP Q IT DNV + ++ V+Y ++ DP A V++ A +Q++QTT+
Sbjct: 11 LRTQVLDVPVQETITKDNVPVRVNAVVYFRVVDPVKAVTQVKNYIMATSQISQTTL 66
>pdb|2RPB|A Chain A, The Solution Structure Of Membrane Protein
Length = 113
Score = 41.2 bits (95), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/57 (45%), Positives = 35/57 (61%)
Query: 27 SLKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDPYLASYGVEDPEFAITQLAQTTM 83
L+E IDVP Q I DNV +++D V+Y ++ DP A Y V D AI +LAQT +
Sbjct: 6 DLREHVIDVPPQEVICKDNVVVTVDAVVYYQVIDPVKAVYNVSDFLMAIVKLAQTNL 62
>pdb|2XD8|A Chain A, Capsid Structure Of The Infectious Prochlorococcus
Cyanophage P-Ssp7
pdb|2XD8|B Chain B, Capsid Structure Of The Infectious Prochlorococcus
Cyanophage P-Ssp7
pdb|2XD8|C Chain C, Capsid Structure Of The Infectious Prochlorococcus
Cyanophage P-Ssp7
pdb|2XD8|D Chain D, Capsid Structure Of The Infectious Prochlorococcus
Cyanophage P-Ssp7
pdb|2XD8|E Chain E, Capsid Structure Of The Infectious Prochlorococcus
Cyanophage P-Ssp7
pdb|2XD8|F Chain F, Capsid Structure Of The Infectious Prochlorococcus
Cyanophage P-Ssp7
pdb|2XD8|G Chain G, Capsid Structure Of The Infectious Prochlorococcus
Cyanophage P-Ssp7
Length = 375
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 21/34 (61%), Gaps = 1/34 (2%)
Query: 37 QQSAITSDNVTLSIDGV-LYLKINDPYLASYGVE 69
Q SA+ S N + I G+ +Y +N P+L YGV+
Sbjct: 233 QGSALQSGNGVIEIAGIHIYKSMNIPFLGKYGVK 266
>pdb|1PW5|A Chain A, Putative Nagd Protein
Length = 253
Score = 25.8 bits (55), Expect = 6.6, Method: Composition-based stats.
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 24 YVQSLKEIAIDVPQQSAITSDNVT 47
YV+ L+ +DVP + +TS +T
Sbjct: 54 YVRKLRNXGVDVPDDAVVTSGEIT 77
>pdb|1VJR|A Chain A, Crystal Structure Of 4-nitrophenylphosphatase (tm1742)
From Thermotoga Maritima At 2.40 A Resolution
Length = 271
Score = 25.8 bits (55), Expect = 6.8, Method: Composition-based stats.
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 24 YVQSLKEIAIDVPQQSAITSDNVT 47
YV+ L+ +DVP + +TS +T
Sbjct: 66 YVRKLRNXGVDVPDDAVVTSGEIT 89
>pdb|2Q2C|A Chain A, Crystal Structures Of The Arginine-, Lysine-,
Histidine-Binding Protein Artj From The Thermophilic
Bacterium Geobacillus Stearothermophilus
pdb|2Q2C|B Chain B, Crystal Structures Of The Arginine-, Lysine-,
Histidine-Binding Protein Artj From The Thermophilic
Bacterium Geobacillus Stearothermophilus
pdb|2Q2C|C Chain C, Crystal Structures Of The Arginine-, Lysine-,
Histidine-Binding Protein Artj From The Thermophilic
Bacterium Geobacillus Stearothermophilus
pdb|2Q2C|D Chain D, Crystal Structures Of The Arginine-, Lysine-,
Histidine-Binding Protein Artj From The Thermophilic
Bacterium Geobacillus Stearothermophilus
pdb|2PVU|A Chain A, Crystal Structures Of The Arginine-, Lysine-,
Histidine-Binding Protein Artj From The Thermophilic
Bacterium Geobacillus Stearothermophilus
pdb|2Q2A|A Chain A, Crystal Structures Of The Arginine-, Lysine-, Histidine-
Binding Protein Artj From The Thermophilic Bacterium
Geobacillus Stearothermophilus
pdb|2Q2A|B Chain B, Crystal Structures Of The Arginine-, Lysine-, Histidine-
Binding Protein Artj From The Thermophilic Bacterium
Geobacillus Stearothermophilus
pdb|2Q2A|C Chain C, Crystal Structures Of The Arginine-, Lysine-, Histidine-
Binding Protein Artj From The Thermophilic Bacterium
Geobacillus Stearothermophilus
pdb|2Q2A|D Chain D, Crystal Structures Of The Arginine-, Lysine-, Histidine-
Binding Protein Artj From The Thermophilic Bacterium
Geobacillus Stearothermophilus
Length = 272
Score = 25.8 bits (55), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 24/51 (47%), Gaps = 4/51 (7%)
Query: 28 LKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDPYLASYGVEDPEFAITQL 78
LK I D P +++ S V + I G+ I D SY DP F TQ+
Sbjct: 84 LKNIGWD-PLFASLQSKEVDMGISGIT---ITDERKQSYDFSDPYFEATQV 130
>pdb|3K2D|A Chain A, Crystal Structure Of Immunogenic Lipoprotein A From Vibrio
Vulnificus
pdb|3K2D|B Chain B, Crystal Structure Of Immunogenic Lipoprotein A From Vibrio
Vulnificus
Length = 237
Score = 25.4 bits (54), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 29/57 (50%)
Query: 7 ILEPGLNILIPIIDKIKYVQSLKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDPYL 63
I+E NI I +D + +SL ++A+ + + +S N+T DGV PY+
Sbjct: 145 IVENPKNITIMELDAAQLPRSLDDVALSIINTTYASSINLTPEKDGVFVEDKESPYV 201
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 0.138 0.382
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,303,947
Number of Sequences: 62578
Number of extensions: 72705
Number of successful extensions: 183
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 172
Number of HSP's gapped (non-prelim): 15
length of query: 83
length of database: 14,973,337
effective HSP length: 51
effective length of query: 32
effective length of database: 11,781,859
effective search space: 377019488
effective search space used: 377019488
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: 45 (21.9 bits)