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= 002608
(900 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 37.0 bits (84), Expect = 0.046, Method: Composition-based stats.
Identities = 45/182 (24%), Positives = 74/182 (40%), Gaps = 34/182 (18%)
Query: 712 ALIFLFVIHPFDVGDRCEVDGVQMIVEEMNVLTTVFLRYDNLKIIYPNGVLSTKPIHNFY 771
A + L + PF G+ ++ GV V + + +T D I+ PNG + I NF
Sbjct: 120 AGVLLVMFRPFRAGEYVDLGGVAGTVLSVQIFSTTMRTADGKIIVIPNGKIIAGNIINFS 179
Query: 772 QSPDMGDAIEFCVHITTPSEKIALMRQRIVGYIEGKKEHWCTAPMIILKDVEDFTRLR-- 829
+ P + EF + + S+ I ++Q + I+ + ILKD E RL
Sbjct: 180 REPVRRN--EFIIGVAYDSD-IDQVKQILTNIIQSEDR--------ILKDREMTVRLNEL 228
Query: 830 --------VAVWPCHKMNHQDMGERWTRRALLVEEMVKIFRELDIQYRLFP---LDINVR 878
V VW N D+ + + + + +I RE D FP +D+N +
Sbjct: 229 GASSINFVVRVWS----NSGDL------QNVYWDVLERIKREFDAAGISFPYPQMDVNFK 278
Query: 879 SV 880
V
Sbjct: 279 RV 280
>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 = 37.0 bits (84), Expect = 0.049, Method: Composition-based stats.
Identities = 45/182 (24%), Positives = 74/182 (40%), Gaps = 34/182 (18%)
Query: 712 ALIFLFVIHPFDVGDRCEVDGVQMIVEEMNVLTTVFLRYDNLKIIYPNGVLSTKPIHNFY 771
A + L + PF G+ ++ GV V + + +T D I+ PNG + I NF
Sbjct: 120 AGVLLVMFRPFRAGEYVDLGGVAGTVLSVQIFSTTMRTADGKIIVIPNGKIIAGNIINFS 179
Query: 772 QSPDMGDAIEFCVHITTPSEKIALMRQRIVGYIEGKKEHWCTAPMIILKDVEDFTRLR-- 829
+ P + EF + + S+ I ++Q + I+ + ILKD E RL
Sbjct: 180 REPVRRN--EFIIGVAYDSD-IDQVKQILTNIIQSEDR--------ILKDREMTVRLNEL 228
Query: 830 --------VAVWPCHKMNHQDMGERWTRRALLVEEMVKIFRELDIQYRLFP---LDINVR 878
V VW N D+ + + + + +I RE D FP +D+N +
Sbjct: 229 GASSINFVVRVWS----NSGDL------QNVYWDVLERIKREFDAAGISFPYPQMDVNFK 278
Query: 879 SV 880
V
Sbjct: 279 RV 280
>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 = 35.8 bits (81), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 29/65 (44%)
Query: 710 FEALIFLFVIHPFDVGDRCEVDGVQMIVEEMNVLTTVFLRYDNLKIIYPNGVLSTKPIHN 769
A + L + PF G+ ++ GV V + + +T D I+ PNG + I N
Sbjct: 138 LAAGVLLVMFRPFRAGEYVDLGGVAGTVLSVQIFSTTMRTADGKIIVIPNGKIIAGNIIN 197
Query: 770 FYQSP 774
F + P
Sbjct: 198 FSREP 202
>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 = 35.0 bits (79), Expect = 0.21, Method: Composition-based stats.
Identities = 44/182 (24%), Positives = 73/182 (40%), Gaps = 34/182 (18%)
Query: 712 ALIFLFVIHPFDVGDRCEVDGVQMIVEEMNVLTTVFLRYDNLKIIYPNGVLSTKPIHNFY 771
A + + PF G+ ++ GV V + + +T D I+ PNG + I NF
Sbjct: 120 AGVLCVMFRPFRAGEYVDLGGVAGTVLSVQIFSTTMRTADGKIIVIPNGKIIAGNIINFS 179
Query: 772 QSPDMGDAIEFCVHITTPSEKIALMRQRIVGYIEGKKEHWCTAPMIILKDVEDFTRLR-- 829
+ P + EF + + S+ I ++Q + I+ + ILKD E RL
Sbjct: 180 REPVRRN--EFIIGVAYDSD-IDQVKQILTNIIQSEDR--------ILKDREMTVRLNEL 228
Query: 830 --------VAVWPCHKMNHQDMGERWTRRALLVEEMVKIFRELDIQYRLFP---LDINVR 878
V VW N D+ + + + + +I RE D FP +D+N +
Sbjct: 229 GASSINFVVRVWS----NSGDL------QNVYWDVLERIKREFDAAGISFPYPQMDVNFK 278
Query: 879 SV 880
V
Sbjct: 279 RV 280
>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 = 32.0 bits (71), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 41/179 (22%), Positives = 77/179 (43%), Gaps = 13/179 (7%)
Query: 704 NTCKTIFEALIFLFVIHPFDVGDRCEVDGVQMIVEEMNVLTTVFLRY-DNLKIIYPNGVL 762
N K + +F F VGD ++G+ VEE+ + T + D L II PNG
Sbjct: 112 NLVKDMISGFFIIFE-DQFSVGDYVTINGISGTVEEIGLRVTKIRGFSDGLHII-PNG-- 167
Query: 763 STKPIHNFYQSPDMGDAIEFCVHITTPSEKIALMRQRIVGYIEGKKEHWCTAPMII-LKD 821
K + N + M + I +KI Q I ++ ++ P ++ + D
Sbjct: 168 EIKMVTNLTKDSMMA-VVNIAFPIDEDVDKIIEGLQEICEEVKKSRDDLIEGPTVLGITD 226
Query: 822 VEDFTRLRVAVWPCHKMNHQDMGERWTRRALLVEEMVKIFRELDIQYRLFPLDINVRSV 880
++D ++L + V+ Q M ++W + + K+F + +I + +D+N + V
Sbjct: 227 MQD-SKLVIMVYA----KTQPM-QKWAVERDIRYRVKKMFDQKNISFPYPQMDVNFKRV 279
>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 = 31.2 bits (69), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 20/40 (50%)
Query: 720 HPFDVGDRCEVDGVQMIVEEMNVLTTVFLRYDNLKIIYPN 759
HPF GD E+ G++ VE +N T +D + PN
Sbjct: 141 HPFKKGDIIEISGLEGKVEALNFFNTSLRLHDGRLAVLPN 180
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 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,239,825
Number of Sequences: 62578
Number of extensions: 891850
Number of successful extensions: 1922
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1915
Number of HSP's gapped (non-prelim): 9
length of query: 900
length of database: 14,973,337
effective HSP length: 108
effective length of query: 792
effective length of database: 8,214,913
effective search space: 6506211096
effective search space used: 6506211096
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)