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= 003345
(828 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2OAU|A Chain A, Mechanosensitive Channel Of Small Conductance (Mscs)
pdb|2OAU|B Chain B, Mechanosensitive Channel Of Small Conductance (Mscs)
pdb|2OAU|C Chain C, Mechanosensitive Channel Of Small Conductance (Mscs)
pdb|2OAU|D Chain D, Mechanosensitive Channel Of Small Conductance (Mscs)
pdb|2OAU|E Chain E, Mechanosensitive Channel Of Small Conductance (Mscs)
pdb|2OAU|F Chain F, Mechanosensitive Channel Of Small Conductance (Mscs)
pdb|2OAU|G Chain G, Mechanosensitive Channel Of Small Conductance (Mscs)
pdb|4HWA|A Chain A, Crystal Structure Of Escherichia Coli Mscs Wildtype (open
State)
pdb|4HWA|B Chain B, Crystal Structure Of Escherichia Coli Mscs Wildtype (open
State)
pdb|4HWA|C Chain C, Crystal Structure Of Escherichia Coli Mscs Wildtype (open
State)
pdb|4HWA|D Chain D, Crystal Structure Of Escherichia Coli Mscs Wildtype (open
State)
pdb|4HWA|E Chain E, Crystal Structure Of Escherichia Coli Mscs Wildtype (open
State)
pdb|4HWA|F Chain F, Crystal Structure Of Escherichia Coli Mscs Wildtype (open
State)
pdb|4HWA|G Chain G, Crystal Structure Of Escherichia Coli Mscs Wildtype (open
State)
Length = 306
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 48/98 (48%), Gaps = 3/98 (3%)
Query: 647 FEAIIFLFVMHPFDVGDRCEIDGVQMVVEEMNILSTVFLRYDNQKIIFPNSVLATKAIGN 706
A + L + PF G+ ++ GV V + I ST D + I+ PN + I N
Sbjct: 138 LAAGVLLVMFRPFRAGEYVDLGGVAGTVLSVQIFSTTMRTADGKIIVIPNGKIIAGNIIN 197
Query: 707 YYRSPDMGDAVEFCIHISTPAEKIAQMKQRILSFIENK 744
+ R P + EF I ++ ++ I Q+KQ + + I+++
Sbjct: 198 FSREPVRRN--EFIIGVAYDSD-IDQVKQILTNIIQSE 232
>pdb|4AGE|A Chain A, Mtssl Spin Labeled D67c Mutant Of Mscs In The Open Form
pdb|4AGE|B Chain B, Mtssl Spin Labeled D67c Mutant Of Mscs In The Open Form
pdb|4AGE|C Chain C, Mtssl Spin Labeled D67c Mutant Of Mscs In The Open Form
pdb|4AGE|D Chain D, Mtssl Spin Labeled D67c Mutant Of Mscs In The Open Form
pdb|4AGE|E Chain E, Mtssl Spin Labeled D67c Mutant Of Mscs In The Open Form
pdb|4AGE|F Chain F, Mtssl Spin Labeled D67c Mutant Of Mscs In The Open Form
pdb|4AGE|G Chain G, Mtssl Spin Labeled D67c Mutant Of Mscs In The Open Form
Length = 286
Score = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 48/98 (48%), Gaps = 3/98 (3%)
Query: 647 FEAIIFLFVMHPFDVGDRCEIDGVQMVVEEMNILSTVFLRYDNQKIIFPNSVLATKAIGN 706
A + L + PF G+ ++ GV V + I ST D + I+ PN + I N
Sbjct: 118 LAAGVLLVMFRPFRAGEYVDLGGVAGTVLSVQIFSTTMRTADGKIIVIPNGKIIAGNIIN 177
Query: 707 YYRSPDMGDAVEFCIHISTPAEKIAQMKQRILSFIENK 744
+ R P + EF I ++ ++ I Q+KQ + + I+++
Sbjct: 178 FSREPVRRN--EFIIGVAYDSD-IDQVKQILTNIIQSE 212
>pdb|2VV5|A Chain A, The Open Structure Of Mscs
pdb|2VV5|B Chain B, The Open Structure Of Mscs
pdb|2VV5|C Chain C, The Open Structure Of Mscs
pdb|2VV5|D Chain D, The Open Structure Of Mscs
pdb|2VV5|E Chain E, The Open Structure Of Mscs
pdb|2VV5|F Chain F, The Open Structure Of Mscs
pdb|2VV5|G Chain G, The Open Structure Of Mscs
Length = 286
Score = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 48/98 (48%), Gaps = 3/98 (3%)
Query: 647 FEAIIFLFVMHPFDVGDRCEIDGVQMVVEEMNILSTVFLRYDNQKIIFPNSVLATKAIGN 706
A + L + PF G+ ++ GV V + I ST D + I+ PN + I N
Sbjct: 118 LAAGVLLVMFRPFRAGEYVDLGGVAGTVLSVQIFSTTMRTADGKIIVIPNGKIIAGNIIN 177
Query: 707 YYRSPDMGDAVEFCIHISTPAEKIAQMKQRILSFIENK 744
+ R P + EF I ++ ++ I Q+KQ + + I+++
Sbjct: 178 FSREPVRRN--EFIIGVAYDSD-IDQVKQILTNIIQSE 212
>pdb|4AGF|A Chain A, Mtssl Spin Labeled L124c Mutant Of Mscs In The Open Form
pdb|4AGF|B Chain B, Mtssl Spin Labeled L124c Mutant Of Mscs In The Open Form
pdb|4AGF|C Chain C, Mtssl Spin Labeled L124c Mutant Of Mscs In The Open Form
pdb|4AGF|D Chain D, Mtssl Spin Labeled L124c Mutant Of Mscs In The Open Form
pdb|4AGF|E Chain E, Mtssl Spin Labeled L124c Mutant Of Mscs In The Open Form
pdb|4AGF|F Chain F, Mtssl Spin Labeled L124c Mutant Of Mscs In The Open Form
pdb|4AGF|G Chain G, Mtssl Spin Labeled L124c Mutant Of Mscs In The Open Form
Length = 286
Score = 38.9 bits (89), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 26/98 (26%), Positives = 47/98 (47%), Gaps = 3/98 (3%)
Query: 647 FEAIIFLFVMHPFDVGDRCEIDGVQMVVEEMNILSTVFLRYDNQKIIFPNSVLATKAIGN 706
A + + PF G+ ++ GV V + I ST D + I+ PN + I N
Sbjct: 118 LAAGVLCVMFRPFRAGEYVDLGGVAGTVLSVQIFSTTMRTADGKIIVIPNGKIIAGNIIN 177
Query: 707 YYRSPDMGDAVEFCIHISTPAEKIAQMKQRILSFIENK 744
+ R P + EF I ++ ++ I Q+KQ + + I+++
Sbjct: 178 FSREPVRRN--EFIIGVAYDSD-IDQVKQILTNIIQSE 212
>pdb|4HW9|A Chain A, Crystal Structure Of Helicobacter Pylori Mscs (closed
State)
pdb|4HW9|B Chain B, Crystal Structure Of Helicobacter Pylori Mscs (closed
State)
pdb|4HW9|C Chain C, Crystal Structure Of Helicobacter Pylori Mscs (closed
State)
pdb|4HW9|D Chain D, Crystal Structure Of Helicobacter Pylori Mscs (closed
State)
pdb|4HW9|E Chain E, Crystal Structure Of Helicobacter Pylori Mscs (closed
State)
pdb|4HW9|F Chain F, Crystal Structure Of Helicobacter Pylori Mscs (closed
State)
pdb|4HW9|G Chain G, Crystal Structure Of Helicobacter Pylori Mscs (closed
State)
Length = 309
Score = 34.7 bits (78), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 24/44 (54%)
Query: 657 HPFDVGDRCEIDGVQMVVEEMNILSTVFLRYDNQKIIFPNSVLA 700
HPF GD EI G++ VE +N +T +D + + PN +A
Sbjct: 141 HPFKKGDIIEISGLEGKVEALNFFNTSLRLHDGRLAVLPNRSVA 184
>pdb|3UDC|A Chain A, Crystal Structure Of A Membrane Protein
pdb|3UDC|B Chain B, Crystal Structure Of A Membrane Protein
pdb|3UDC|C Chain C, Crystal Structure Of A Membrane Protein
pdb|3UDC|D Chain D, Crystal Structure Of A Membrane Protein
pdb|3UDC|E Chain E, Crystal Structure Of A Membrane Protein
pdb|3UDC|F Chain F, Crystal Structure Of A Membrane Protein
pdb|3UDC|G Chain G, Crystal Structure Of A Membrane Protein
Length = 285
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 33/164 (20%), Positives = 64/164 (39%), Gaps = 8/164 (4%)
Query: 652 FLFVMHPFDVGDRCEIDGVQMVVEEMNILSTVFLRYDNQKIIFPNSVLATKAIGNYYRSP 711
F+ F VGD I+G+ VEE+ + T + + I PN K + N +
Sbjct: 122 FIIFEDQFSVGDYVTINGISGTVEEIGLRVTKIRGFSDGLHIIPNG--EIKMVTNLTKDS 179
Query: 712 DMGDAVEFCIHISTPAEKIAQMKQRILSFIENKKDHWCTNPMFIFKDVEELNRVRFAIWL 771
M V I +KI + Q I ++ +D P + + ++ + I +
Sbjct: 180 MMA-VVNIAFPIDEDVDKIIEGLQEICEEVKKSRDDLIEGPTVL--GITDMQDSKLVIMV 236
Query: 772 SHKMNHQDIGERWERRALLVEEMTKIFRELDIQYRLWPIDINVR 815
K ++W + + K+F + +I + +D+N +
Sbjct: 237 YAKTQPM---QKWAVERDIRYRVKKMFDQKNISFPYPQMDVNFK 277
>pdb|3T9N|A Chain A, Crystal Structure Of A Membrane Protein
pdb|3T9N|B Chain B, Crystal Structure Of A Membrane Protein
pdb|3T9N|C Chain C, Crystal Structure Of A Membrane Protein
pdb|3T9N|D Chain D, Crystal Structure Of A Membrane Protein
pdb|3T9N|E Chain E, Crystal Structure Of A Membrane Protein
pdb|3T9N|F Chain F, Crystal Structure Of A Membrane Protein
pdb|3T9N|G Chain G, Crystal Structure Of A Membrane Protein
Length = 282
Score = 30.8 bits (68), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 25/101 (24%), Positives = 39/101 (38%), Gaps = 3/101 (2%)
Query: 652 FLFVMHPFDVGDRCEIDGVQMVVEEMNILSTVFLRYDNQKIIFPNSVLATKAIGNYYRSP 711
F+ F VGD I+G+ VEE+ + T + + I PN K + N +
Sbjct: 122 FIIFEDQFSVGDYVTINGISGTVEEIGLRVTKIRGFSDGLHIIPNG--EIKMVTNLTKDS 179
Query: 712 DMGDAVEFCIHISTPAEKIAQMKQRILSFIENKKDHWCTNP 752
M V I +KI + Q I ++ +D P
Sbjct: 180 MMA-VVNIAFPIDEDVDKIIEGLQEICEEVKKSRDDLIEGP 219
>pdb|1S1I|L Chain L, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From
Yeast Obtained By Docking Atomic Models For Rna And
Protein Components Into A 11.7 A Cryo-Em Map. This File,
1s1i, Contains 60s Subunit. The 40s Ribosomal Subunit Is
In File 1s1h
Length = 203
Score = 30.0 bits (66), Expect = 5.7, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 2/63 (3%)
Query: 542 FLNEDEASKTMSLFEEASERKKISKSALKNWVVN-VFRERRALAFTLNDTKT-AVNKLHR 599
++N+D K + + K I + A NW+ + V + R A T K+ +NK H+
Sbjct: 119 WVNQDSTYKYFEVILVDPQHKAIRRDARYNWICDPVHKHREARGLTATGKKSRGINKGHK 178
Query: 600 FVN 602
F N
Sbjct: 179 FNN 181
>pdb|3JYW|L Chain L, Structure Of The 60s Proteins For Eukaryotic Ribosome
Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome
At 8.9a Resolution
Length = 192
Score = 30.0 bits (66), Expect = 5.7, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 2/63 (3%)
Query: 542 FLNEDEASKTMSLFEEASERKKISKSALKNWVVN-VFRERRALAFTLNDTKT-AVNKLHR 599
++N+D K + + K I + A NW+ + V + R A T K+ +NK H+
Sbjct: 119 WVNQDSTYKYFEVILVDPQHKAIRRDARYNWICDPVHKHREARGLTATGKKSRGINKGHK 178
Query: 600 FVN 602
F N
Sbjct: 179 FNN 181
>pdb|3IZS|P Chain P, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O58|O Chain O, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O5H|O Chain O, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5E|N Chain N, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|N Chain N, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|N Chain N, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 204
Score = 30.0 bits (66), Expect = 5.8, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 2/63 (3%)
Query: 542 FLNEDEASKTMSLFEEASERKKISKSALKNWVVN-VFRERRALAFTLNDTKT-AVNKLHR 599
++N+D K + + K I + A NW+ + V + R A T K+ +NK H+
Sbjct: 120 WVNQDSTYKYFEVILVDPQHKAIRRDARYNWICDPVHKHREARGLTATGKKSRGINKGHK 179
Query: 600 FVN 602
F N
Sbjct: 180 FNN 182
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
0.320 0.135 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,826,405
Number of Sequences: 62578
Number of extensions: 743727
Number of successful extensions: 1448
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1443
Number of HSP's gapped (non-prelim): 14
length of query: 828
length of database: 14,973,337
effective HSP length: 107
effective length of query: 721
effective length of database: 8,277,491
effective search space: 5968071011
effective search space used: 5968071011
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 56 (26.2 bits)