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= psy1304
(184 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3JV2|A Chain A, Crystal Structure Of B. Subtilis Seca With Bound Peptide
pdb|3JV2|B Chain B, Crystal Structure Of B. Subtilis Seca With Bound Peptide
Length = 783
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 27/106 (25%), Positives = 44/106 (41%), Gaps = 5/106 (4%)
Query: 28 KGTVTAKVLSSRKQRKEDRIGESQPFRGQTLSVQDKIRPGRGSNPRPSAYKADAPTSNLT 87
KG V R +++G+ F G T+ + + + AY AD S
Sbjct: 125 KGVHVVTVNEYLASRDAEQMGKIFEFLGLTVGLN---LNSMSKDEKREAYAADITYSTNN 181
Query: 88 RLGLLGARD--CLYRENLIDIPIIIADLKNESSILIMAKKCRVILN 131
LG RD LY+E ++ P+ A + SILI + +I++
Sbjct: 182 ELGFDYLRDNMVLYKEQMVQRPLHFAVIDEVDSILIDEARTPLIIS 227
>pdb|2IBM|A Chain A, A Novel Dimer Interface And Conformational Changes
Revealed By An X- Ray Structure Of B. Subtilis Seca
pdb|2IBM|B Chain B, A Novel Dimer Interface And Conformational Changes
Revealed By An X- Ray Structure Of B. Subtilis Seca
Length = 780
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 27/106 (25%), Positives = 44/106 (41%), Gaps = 5/106 (4%)
Query: 28 KGTVTAKVLSSRKQRKEDRIGESQPFRGQTLSVQDKIRPGRGSNPRPSAYKADAPTSNLT 87
KG V R +++G+ F G T+ + + + AY AD S
Sbjct: 122 KGVHVVTVNEYLASRDAEQMGKIFEFLGLTVGLN---LNSMSKDEKREAYAADITYSTNN 178
Query: 88 RLGLLGARD--CLYRENLIDIPIIIADLKNESSILIMAKKCRVILN 131
LG RD LY+E ++ P+ A + SILI + +I++
Sbjct: 179 ELGFDYLRDNMVLYKEQMVQRPLHFAVIDEVDSILIDEARTPLIIS 224
>pdb|3DL8|A Chain A, Structure Of The Complex Of Aquifex Aeolicus Secyeg And
Bacillus Subtilis Seca
pdb|3DL8|B Chain B, Structure Of The Complex Of Aquifex Aeolicus Secyeg And
Bacillus Subtilis Seca
Length = 779
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 27/106 (25%), Positives = 44/106 (41%), Gaps = 5/106 (4%)
Query: 28 KGTVTAKVLSSRKQRKEDRIGESQPFRGQTLSVQDKIRPGRGSNPRPSAYKADAPTSNLT 87
KG V R +++G+ F G T+ + + + AY AD S
Sbjct: 122 KGVHVVTVNEYLASRDAEQMGKIFEFLGLTVGLN---LNSMSKDEKREAYAADITYSTNN 178
Query: 88 RLGLLGARD--CLYRENLIDIPIIIADLKNESSILIMAKKCRVILN 131
LG RD LY+E ++ P+ A + SILI + +I++
Sbjct: 179 ELGFDYLRDNMVLYKEQMVQRPLHFAVIDEVDSILIDEARTPLIIS 224
>pdb|3IQM|A Chain A, Active Site Mutants Of B. Subtilis Seca
Length = 802
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 2/63 (3%)
Query: 71 NPRPSAYKADAPTSNLTRLGLLGARD--CLYRENLIDIPIIIADLKNESSILIMAKKCRV 128
+ + AY AD S LG RD LY+E ++ P+ A + SILI + +
Sbjct: 162 DEKREAYAADITYSTNNELGFDYLRDNMVLYKEQMVQRPLHFAVIDQVDSILIDEARTPL 221
Query: 129 ILN 131
I++
Sbjct: 222 IIS 224
>pdb|1M6N|A Chain A, Crystal Structure Of The Seca Translocation Atpase From
Bacillus Subtilis
pdb|1M74|A Chain A, Crystal Structure Of Mg-Adp-Bound Seca From Bacillus
Subtilis
Length = 802
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 27/106 (25%), Positives = 44/106 (41%), Gaps = 5/106 (4%)
Query: 28 KGTVTAKVLSSRKQRKEDRIGESQPFRGQTLSVQDKIRPGRGSNPRPSAYKADAPTSNLT 87
KG V R +++G+ F G T+ + + + AY AD S
Sbjct: 122 KGVHVVTVNEYLASRDAEQMGKIFEFLGLTVGLN---LNSMSKDEKREAYAADITYSTNN 178
Query: 88 RLGLLGARD--CLYRENLIDIPIIIADLKNESSILIMAKKCRVILN 131
LG RD LY+E ++ P+ A + SILI + +I++
Sbjct: 179 ELGFDYLRDNMVLYKEQMVQRPLHFAVIDEVDSILIDEARTPLIIS 224
>pdb|3IQY|A Chain A, Active Site Mutants Of B. Subtilis Seca
Length = 841
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 27/106 (25%), Positives = 44/106 (41%), Gaps = 5/106 (4%)
Query: 28 KGTVTAKVLSSRKQRKEDRIGESQPFRGQTLSVQDKIRPGRGSNPRPSAYKADAPTSNLT 87
KG V R +++G+ F G T+ + + + AY AD S
Sbjct: 122 KGVHVVTVNEYLASRDAEQMGKIFEFLGLTVGLN---LNSMSKDEKREAYAADITYSTNN 178
Query: 88 RLGLLGARD--CLYRENLIDIPIIIADLKNESSILIMAKKCRVILN 131
LG RD LY+E ++ P+ A + SILI + +I++
Sbjct: 179 ELGFDYLRDNMVLYKEQMVQRPLHFAVIDQVDSILIDEARTPLIIS 224
>pdb|1TF2|A Chain A, Crystal Structure Of Seca:adp In An Open Conformation From
Bacillus Subtilis
pdb|1TF5|A Chain A, Crystal Structure Of Seca In An Open Conformation From
Bacillus Subtilis
Length = 844
Score = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 2/63 (3%)
Query: 71 NPRPSAYKADAPTSNLTRLGLLGARD--CLYRENLIDIPIIIADLKNESSILIMAKKCRV 128
+ + AY AD S LG RD LY+E ++ P+ A + SILI + +
Sbjct: 165 DEKREAYAADITYSTNNELGFDYLRDNMVLYKEQMVQRPLHFAVIDEVDSILIDEARTPL 224
Query: 129 ILN 131
I++
Sbjct: 225 IIS 227
>pdb|1S9A|A Chain A, Crystal Structure Of 4-chlorocatechol 1,2-dioxygenase From
Rhodococcus Opacus 1cp
pdb|1S9A|B Chain B, Crystal Structure Of 4-chlorocatechol 1,2-dioxygenase From
Rhodococcus Opacus 1cp
pdb|3O32|A Chain A, Crystal Structure Of 4-Chlorocatechol Dioxygenase From
Rhodococcus Opacus 1cp In Complex With
3,5-Dichlorocatechol
pdb|3O32|B Chain B, Crystal Structure Of 4-Chlorocatechol Dioxygenase From
Rhodococcus Opacus 1cp In Complex With
3,5-Dichlorocatechol
pdb|3O5U|A Chain A, Crystal Structure Of 4-Chlorocatechol Dioxygenase From
Rhodococcus Opacus 1cp In Complex With Protocatechuate
pdb|3O5U|B Chain B, Crystal Structure Of 4-Chlorocatechol Dioxygenase From
Rhodococcus Opacus 1cp In Complex With Protocatechuate
pdb|3O6J|A Chain A, Crystal Structure Of 4-Chlorocatechol Dioxygenase From
Rhodococcus Opacus 1cp In Complex With Hydroxyquinol
pdb|3O6J|B Chain B, Crystal Structure Of 4-Chlorocatechol Dioxygenase From
Rhodococcus Opacus 1cp In Complex With Hydroxyquinol
pdb|3O6R|A Chain A, Crystal Structure Of 4-Chlorocatechol Dioxygenase From
Rhodococcus Opacus 1cp In Complex With Pyrogallol
pdb|3O6R|B Chain B, Crystal Structure Of 4-Chlorocatechol Dioxygenase From
Rhodococcus Opacus 1cp In Complex With Pyrogallol
Length = 257
Score = 28.1 bits (61), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 15/19 (78%)
Query: 4 RITAVSLKPLLTQILFEGE 22
RITA +PL+TQ+ FEG+
Sbjct: 198 RITADGYRPLITQLYFEGD 216
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
0.319 0.135 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,121,256
Number of Sequences: 62578
Number of extensions: 189160
Number of successful extensions: 360
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 357
Number of HSP's gapped (non-prelim): 12
length of query: 184
length of database: 14,973,337
effective HSP length: 93
effective length of query: 91
effective length of database: 9,153,583
effective search space: 832976053
effective search space used: 832976053
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)