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= 012779
(456 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 38.9 bits (89), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 41/75 (54%), Gaps = 7/75 (9%)
Query: 352 VAVQSILTVGGIGGVATAFASRDVLGNVLSGLSMQFSKPFSLGDTIKVKRAYTPLKMIFI 411
+ + S+L V GIG +A F +++++ +++SG + F FS+GD Y + I
Sbjct: 90 IDMTSLLAVAGIGSLAIGFGAQNLVKDMISGFFIIFEDQFSVGD-------YVTINGISG 142
Query: 412 SFFQIGNKVCRSRDF 426
+ +IG +V + R F
Sbjct: 143 TVEEIGLRVTKIRGF 157
>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 = 38.9 bits (89), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 41/75 (54%), Gaps = 7/75 (9%)
Query: 352 VAVQSILTVGGIGGVATAFASRDVLGNVLSGLSMQFSKPFSLGDTIKVKRAYTPLKMIFI 411
+ + S+L V GIG +A F +++++ +++SG + F FS+GD Y + I
Sbjct: 90 IDMTSLLAVAGIGSLAIGFGAQNLVKDMISGFFIIFEDQFSVGD-------YVTINGISG 142
Query: 412 SFFQIGNKVCRSRDF 426
+ +IG +V + R F
Sbjct: 143 TVEEIGLRVTKIRGF 157
>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 = 33.5 bits (75), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 28/49 (57%)
Query: 351 GVAVQSILTVGGIGGVATAFASRDVLGNVLSGLSMQFSKPFSLGDTIKV 399
GV SI+TV G G+A A A +D L ++ G+ + PF GD I++
Sbjct: 103 GVQTTSIITVLGTVGIAVALALKDYLSSIAGGIILIILHPFKKGDIIEI 151
>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 = 33.5 bits (75), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 26/99 (26%), Positives = 45/99 (45%), Gaps = 3/99 (3%)
Query: 301 FLHRWKTNVFTRAMASQSIAGLDREKMLALDRISSVGLFVIGLMALAEACGVAVQSILTV 360
+ R +N R M S+ I + + AL R G+ L+A GV S++ V
Sbjct: 63 IIARMISNAVNRLMISRKIDATVADFLSALVR---YGIIAFTLIAALGRVGVQTASVIAV 119
Query: 361 GGIGGVATAFASRDVLGNVLSGLSMQFSKPFSLGDTIKV 399
G G+A A + L N+ +G+ + +PF G+ + +
Sbjct: 120 LGAAGLAVGLALQGSLSNLAAGVLLVMFRPFRAGEYVDL 158
>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 = 32.3 bits (72), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 25/99 (25%), Positives = 43/99 (43%), Gaps = 3/99 (3%)
Query: 301 FLHRWKTNVFTRAMASQSIAGLDREKMLALDRISSVGLFVIGLMALAEACGVAVQSILTV 360
+ R +N R M S+ I D L + G+ L+A GV S++ V
Sbjct: 43 IIARMISNAVNRLMISRKI---DATVACFLSALVRYGIIAFTLIAALGRVGVQTASVIAV 99
Query: 361 GGIGGVATAFASRDVLGNVLSGLSMQFSKPFSLGDTIKV 399
G G+A A + L N+ +G+ + +PF G+ + +
Sbjct: 100 LGAAGLAVGLALQGSLSNLAAGVLLVMFRPFRAGEYVDL 138
>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 = 32.0 bits (71), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 26/99 (26%), Positives = 44/99 (44%), Gaps = 3/99 (3%)
Query: 301 FLHRWKTNVFTRAMASQSIAGLDREKMLALDRISSVGLFVIGLMALAEACGVAVQSILTV 360
+ R +N R M S+ I + + AL R G+ L+A GV S++ V
Sbjct: 43 IIARMISNAVNRLMISRKIDATVADFLSALVR---YGIIAFTLIAALGRVGVQTASVIAV 99
Query: 361 GGIGGVATAFASRDVLGNVLSGLSMQFSKPFSLGDTIKV 399
G G+A A + L N+ +G+ +PF G+ + +
Sbjct: 100 LGAAGLAVGLALQGSLSNLAAGVLCVMFRPFRAGEYVDL 138
>pdb|2CKX|A Chain A, Crystal Structure Of Ngtrf1, Double-Stranded Telomeric
Repeat Binding Factor From Nicotiana Tabacum
Length = 83
Score = 30.4 bits (67), Expect = 1.9, Method: Composition-based stats.
Identities = 18/60 (30%), Positives = 31/60 (51%), Gaps = 4/60 (6%)
Query: 141 SGSETDVSNHGIVGSD--SFDKIKDAWKSVVDGVSYTGQKAKDELSPQ--IEQLLDAHPY 196
+G DV +D ++ +KD WK++V S Q+ + E PQ ++++L AH Y
Sbjct: 20 TGRWRDVKMRAFDNADHRTYVDLKDKWKTLVHTASIAPQQRRGEPVPQDLLDRVLAAHAY 79
>pdb|2QHB|A Chain A, Crystal Structure Of Ngtrf Complexed With Telomeric Dna
pdb|2QHB|B Chain B, Crystal Structure Of Ngtrf Complexed With Telomeric Dna
Length = 86
Score = 30.4 bits (67), Expect = 2.1, Method: Composition-based stats.
Identities = 18/60 (30%), Positives = 31/60 (51%), Gaps = 4/60 (6%)
Query: 141 SGSETDVSNHGIVGSD--SFDKIKDAWKSVVDGVSYTGQKAKDELSPQ--IEQLLDAHPY 196
+G DV +D ++ +KD WK++V S Q+ + E PQ ++++L AH Y
Sbjct: 24 TGRWRDVKMRAFDNADHRTYVDLKDKWKTLVHTASIAPQQRRGEPVPQDLLDRVLAAHAY 83
>pdb|2JUH|A Chain A, Solution Structure Of Dna Binding Domain Of Ngtrf1
Length = 121
Score = 30.4 bits (67), Expect = 2.1, Method: Composition-based stats.
Identities = 18/60 (30%), Positives = 31/60 (51%), Gaps = 4/60 (6%)
Query: 141 SGSETDVSNHGIVGSD--SFDKIKDAWKSVVDGVSYTGQKAKDELSPQ--IEQLLDAHPY 196
+G DV +D ++ +KD WK++V S Q+ + E PQ ++++L AH Y
Sbjct: 37 TGRWRDVKMRAFDNADHRTYVDLKDKWKTLVHTASIAPQQRRGEPVPQDLLDRVLAAHAY 96
>pdb|3KJO|A Chain A, Crystal Structure Of Hpot1v2-Dtrud(Agggttag)
pdb|3KJP|A Chain A, Crystal Structure Of Hpot1v2-Ggttagggttag
Length = 299
Score = 28.9 bits (63), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 19/36 (52%)
Query: 21 FKPRLLHTSNSYFKLARYAEQKHVKLSCAVVNNNYD 56
FKP L Y + +Q +VKL+C + + NY+
Sbjct: 32 FKPPYLSKGTDYCSVVTIVDQTNVKLTCLLFSGNYE 67
>pdb|1XJV|A Chain A, Crystal Structure Of Human Pot1 Bound To Telomeric
Single- Stranded Dna (Ttagggttag)
Length = 294
Score = 28.9 bits (63), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 19/36 (52%)
Query: 21 FKPRLLHTSNSYFKLARYAEQKHVKLSCAVVNNNYD 56
FKP L Y + +Q +VKL+C + + NY+
Sbjct: 27 FKPPYLSKGTDYCSVVTIVDQTNVKLTCLLFSGNYE 62
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
0.323 0.135 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,228,883
Number of Sequences: 62578
Number of extensions: 472021
Number of successful extensions: 1499
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1491
Number of HSP's gapped (non-prelim): 11
length of query: 456
length of database: 14,973,337
effective HSP length: 102
effective length of query: 354
effective length of database: 8,590,381
effective search space: 3040994874
effective search space used: 3040994874
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 53 (25.0 bits)