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= psy16696
(296 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 = 93.6 bits (231), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 45/129 (34%), Positives = 79/129 (61%), Gaps = 1/129 (0%)
Query: 97 PIIDKIKYVQSLKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDPYLASYGVEDPEFAIT 156
P D + V ++ I+ D+P Q +T D+VT+S+DGV+Y ++ + LA + + + A
Sbjct: 1 PCTDSLIKV-DMRTISFDIPPQEVLTKDSVTISVDGVVYYRVQNATLAVANITNADSATR 59
Query: 157 QLAQTTMRSELGKISLDKVFRERESLNESIVHAINNASEAWGITCLRYEIRDIKLPSRVN 216
LAQTT+R+ LG +L ++ +RE + + +++A++ WGI R EI+D+KLP ++
Sbjct: 60 LLAQTTLRNALGTKNLSQILSDREEIAHHMQSTLDDATDDWGIKVERVEIKDVKLPVQLQ 119
Query: 217 EAMQMQVEA 225
AM + EA
Sbjct: 120 RAMAAEAEA 128
>pdb|4FVG|A Chain A, Spfh Domain Of Mouse Stomatin (Crystal Form 3)
Length = 133
Score = 93.6 bits (231), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 42/118 (35%), Positives = 75/118 (63%)
Query: 108 LKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDPYLASYGVEDPEFAITQLAQTTMRSEL 167
++ I+ D+P Q +T D+VT+S+DGV+Y ++ + LA + + + A LAQTT+R+ L
Sbjct: 16 MRTISFDIPPQEVLTKDSVTISVDGVVYYRVQNATLAVANITNADSATRLLAQTTLRNAL 75
Query: 168 GKISLDKVFRERESLNESIVHAINNASEAWGITCLRYEIRDIKLPSRVNEAMQMQVEA 225
G +L ++ +RE + + +++A++ WGI R EI+D+KLP ++ AM + EA
Sbjct: 76 GTKNLSQILSDREEIAHHMQSTLDDATDDWGIKVERVEIKDVKLPVQLQRAMAAEAEA 133
>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 = 93.2 bits (230), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 42/118 (35%), Positives = 75/118 (63%)
Query: 108 LKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDPYLASYGVEDPEFAITQLAQTTMRSEL 167
++ I+ D+P Q +T D+VT+S+DGV+Y ++ + LA + + + A LAQTT+R+ L
Sbjct: 16 MRTISFDIPPQEVLTKDSVTISVDGVVYYRVQNATLAVANITNADSATRLLAQTTLRNAL 75
Query: 168 GKISLDKVFRERESLNESIVHAINNASEAWGITCLRYEIRDIKLPSRVNEAMQMQVEA 225
G +L ++ +RE + + +++A++ WGI R EI+D+KLP ++ AM + EA
Sbjct: 76 GTKNLSQILSDREEIAHHMQSTLDDATDDWGIKVERVEIKDVKLPVQLQRAMAAEAEA 133
>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 = 90.5 bits (223), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 42/112 (37%), Positives = 71/112 (63%)
Query: 108 LKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDPYLASYGVEDPEFAITQLAQTTMRSEL 167
L+ +DVP Q IT DNV + ++ V+Y ++ DP A V++ A +Q++QTT+RS +
Sbjct: 11 LRTQVLDVPVQETITKDNVPVRVNAVVYFRVVDPVKAVTQVKNYIMATSQISQTTLRSVI 70
Query: 168 GKISLDKVFRERESLNESIVHAINNASEAWGITCLRYEIRDIKLPSRVNEAM 219
G+ LD++ ER+ LN + I+ A++ WGI EI+D++LP+ + +AM
Sbjct: 71 GQAHLDELLSERDKLNMQLQRIIDEATDPWGIKVTAVEIKDVELPAGMQKAM 122
>pdb|2RPB|A Chain A, The Solution Structure Of Membrane Protein
Length = 113
Score = 68.9 bits (167), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 39/106 (36%), Positives = 62/106 (58%)
Query: 107 SLKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDPYLASYGVEDPEFAITQLAQTTMRSE 166
L+E IDVP Q I DNV +++D V+Y ++ DP A Y V D AI +LAQT +R+
Sbjct: 6 DLREHVIDVPPQEVICKDNVVVTVDAVVYYQVIDPVKAVYNVSDFLMAIVKLAQTNLRAI 65
Query: 167 LGKISLDKVFRERESLNESIVHAINNASEAWGITCLRYEIRDIKLP 212
+G++ LD+ R+ +N + ++ ++ WG+ R EI+ I P
Sbjct: 66 IGEMELDETLSGRDIINARLREELDKITDRWGVKITRVEIQRIDPP 111
>pdb|2IPA|B Chain B, Solution Structure Of Trx-Arsc Complex
Length = 139
Score = 32.0 bits (71), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 27/109 (24%), Positives = 49/109 (44%), Gaps = 18/109 (16%)
Query: 56 NNTLIVPSDANNIASMVTQAWVVERMGKYHRILEPGL--NILIPIIDKIKYVQSLKEIAI 113
N + S N+ S + + W + +G ++ G+ + L P V+++KE+ I
Sbjct: 3 NKIIYFLSTGNSARSQMAEGWAKQYLGDEWKVYSAGIEAHGLNP-----NAVKAMKEVGI 57
Query: 114 DVPQQSA--ITSD-------NVTLSIDGVLYLKINDPYLA--SYGVEDP 151
D+ Q++ I SD VTLS D + P++ +G +DP
Sbjct: 58 DISNQTSDIIDSDILNNADLVVTLSGDAADKCPMTPPHVKREHWGFDDP 106
>pdb|1WIN|A Chain A, Solution Structure Of The Band 7 Domain Of The Mouse
Flotillin 2 Protein
Length = 143
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 21/98 (21%), Positives = 48/98 (48%), Gaps = 11/98 (11%)
Query: 122 TSDNVTLSIDGVLYLKI----------NDPYLASYGVEDPEFAITQLAQTTMRSELGKIS 171
T++ V L++ GV +KI + +L V+D + + Q + +RS LG ++
Sbjct: 26 TAEGVALTVTGVAQVKIMTEKELLAVACEQFLGK-NVQDIKNVVLQTLEGHLRSILGTLT 84
Query: 172 LDKVFRERESLNESIVHAINNASEAWGITCLRYEIRDI 209
+++++++R+ + + GI L + I+D+
Sbjct: 85 VEQIYQDRDQFAKLVREVAAPDVGRMGIEILSFTIKDV 122
>pdb|3DPL|C Chain C, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
Length = 382
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 30 TKDGRSAASLSIAEQYVKAFNELAKTNNTLIVPSDANNIASMVTQAW 76
K R + ++E +AF E+ K NN L +P+D+ NI + AW
Sbjct: 93 NKLARMFQDIKVSEDLNQAFKEMHK-NNKLALPADSVNIKILNAGAW 138
>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 = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 21/34 (61%), Gaps = 1/34 (2%)
Query: 117 QQSAITSDNVTLSIDGV-LYLKINDPYLASYGVE 149
Q SA+ S N + I G+ +Y +N P+L YGV+
Sbjct: 233 QGSALQSGNGVIEIAGIHIYKSMNIPFLGKYGVK 266
>pdb|3DQV|C Chain C, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
pdb|3DQV|D Chain D, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
Length = 382
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 30 TKDGRSAASLSIAEQYVKAFNELAKTNNTLIVPSDANNIASMVTQAW 76
K R + ++E +AF E K NN L +P+D+ NI + AW
Sbjct: 93 NKLARXFQDIKVSEDLNQAFKEXHK-NNKLALPADSVNIKILNAGAW 138
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
0.315 0.130 0.346
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,107,731
Number of Sequences: 62578
Number of extensions: 258263
Number of successful extensions: 769
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 758
Number of HSP's gapped (non-prelim): 19
length of query: 296
length of database: 14,973,337
effective HSP length: 98
effective length of query: 198
effective length of database: 8,840,693
effective search space: 1750457214
effective search space used: 1750457214
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: 51 (24.3 bits)