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= 038305
(414 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 92.0 bits (227), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 52/140 (37%), Positives = 83/140 (59%)
Query: 110 AYVHSLKEEAIPIPDQSAITKDNVSILIDGVLYVKIVDPKLASYGVENPIYAVIQLAQTT 169
A + L+ + + +P Q ITKDNV + ++ V+Y ++VDP A V+N I A Q++QTT
Sbjct: 6 AVIVDLRTQVLDVPVQETITKDNVPVRVNAVVYFRVVDPVKAVTQVKNYIMATSQISQTT 65
Query: 170 MRSELGKITLDKTFEERDTLNEKIVEAINVAARDWGLQCLRYEIRDISPPRGVRXXXXXX 229
+RS +G+ LD+ ERD LN ++ I+ A WG++ EI+D+ P G++
Sbjct: 66 LRSVIGQAHLDELLSERDKLNMQLQRIIDEATDPWGIKVTAVEIKDVELPAGMQKAMARQ 125
Query: 230 XXXXRKKRAQILESEGERQA 249
R++RA+I +E ERQA
Sbjct: 126 AEAERERRARITLAEAERQA 145
>pdb|2RPB|A Chain A, The Solution Structure Of Membrane Protein
Length = 113
Score = 78.6 bits (192), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 40/107 (37%), Positives = 68/107 (63%)
Query: 114 SLKEEAIPIPDQSAITKDNVSILIDGVLYVKIVDPKLASYGVENPIYAVIQLAQTTMRSE 173
L+E I +P Q I KDNV + +D V+Y +++DP A Y V + + A+++LAQT +R+
Sbjct: 6 DLREHVIDVPPQEVICKDNVVVTVDAVVYYQVIDPVKAVYNVSDFLMAIVKLAQTNLRAI 65
Query: 174 LGKITLDKTFEERDTLNEKIVEAINVAARDWGLQCLRYEIRDISPPR 220
+G++ LD+T RD +N ++ E ++ WG++ R EI+ I PP+
Sbjct: 66 IGEMELDETLSGRDIINARLREELDKITDRWGVKITRVEIQRIDPPK 112
>pdb|4FVG|A Chain A, Spfh Domain Of Mouse Stomatin (Crystal Form 3)
Length = 133
Score = 72.4 bits (176), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 39/116 (33%), Positives = 64/116 (55%), Gaps = 1/116 (0%)
Query: 104 PFVDRIAYVHSLKEEAIPIPDQSAITKDNVSILIDGVLYVKIVDPKLASYGVENPIYAVI 163
P D A V ++ + IP Q +TKD+V+I +DGV+Y ++ + LA + N A
Sbjct: 6 PSTDSAAKV-DMRTISFDIPPQEVLTKDSVTISVDGVVYYRVQNATLAVANITNADSATR 64
Query: 164 QLAQTTMRSELGKITLDKTFEERDTLNEKIVEAINVAARDWGLQCLRYEIRDISPP 219
LAQTT+R+ LG L + +R+ + + ++ A DWG++ R EI+D+ P
Sbjct: 65 LLAQTTLRNALGTKNLSQILSDREEIAHHMQSTLDDATDDWGIKVERVEIKDVKLP 120
>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 = 71.2 bits (173), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 35/98 (35%), Positives = 57/98 (58%)
Query: 122 IPDQSAITKDNVSILIDGVLYVKIVDPKLASYGVENPIYAVIQLAQTTMRSELGKITLDK 181
IP Q +TKD+V+I +DGV+Y ++ + LA + N A LAQTT+R+ LG L +
Sbjct: 23 IPPQEVLTKDSVTISVDGVVYYRVQNATLAVANITNADSATRLLAQTTLRNALGTKNLSQ 82
Query: 182 TFEERDTLNEKIVEAINVAARDWGLQCLRYEIRDISPP 219
+R+ + + ++ A DWG++ R EI+D+ P
Sbjct: 83 ILSDREEIAHHMQSTLDDATDDWGIKVERVEIKDVKLP 120
>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 = 70.9 bits (172), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 38/116 (32%), Positives = 64/116 (55%), Gaps = 1/116 (0%)
Query: 104 PFVDRIAYVHSLKEEAIPIPDQSAITKDNVSILIDGVLYVKIVDPKLASYGVENPIYAVI 163
P D + V ++ + IP Q +TKD+V+I +DGV+Y ++ + LA + N A
Sbjct: 1 PCTDSLIKV-DMRTISFDIPPQEVLTKDSVTISVDGVVYYRVQNATLAVANITNADSATR 59
Query: 164 QLAQTTMRSELGKITLDKTFEERDTLNEKIVEAINVAARDWGLQCLRYEIRDISPP 219
LAQTT+R+ LG L + +R+ + + ++ A DWG++ R EI+D+ P
Sbjct: 60 LLAQTTLRNALGTKNLSQILSDREEIAHHMQSTLDDATDDWGIKVERVEIKDVKLP 115
>pdb|1WIN|A Chain A, Solution Structure Of The Band 7 Domain Of The Mouse
Flotillin 2 Protein
Length = 143
Score = 35.8 bits (81), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 51/100 (51%), Gaps = 15/100 (15%)
Query: 129 TKDNVSILIDGVLYVKIVDPK---------LASYGVENPIYAVIQLAQTTMRSELGKITL 179
T + V++ + GV VKI+ K V++ V+Q + +RS LG +T+
Sbjct: 26 TAEGVALTVTGVAQVKIMTEKELLAVACEQFLGKNVQDIKNVVLQTLEGHLRSILGTLTV 85
Query: 180 DKTFEERDTLNEKIVEAINVAARD---WGLQCLRYEIRDI 216
++ +++RD + + E VAA D G++ L + I+D+
Sbjct: 86 EQIYQDRDQFAKLVRE---VAAPDVGRMGIEILSFTIKDV 122
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
0.314 0.132 0.372
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,353,394
Number of Sequences: 62578
Number of extensions: 390121
Number of successful extensions: 621
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 614
Number of HSP's gapped (non-prelim): 7
length of query: 414
length of database: 14,973,337
effective HSP length: 101
effective length of query: 313
effective length of database: 8,652,959
effective search space: 2708376167
effective search space used: 2708376167
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 53 (25.0 bits)