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= 018130
(360 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XGD|A Chain A, Crystal Structure Of A Designed Homodimeric Variant
T-A(L)a( L) Of The Tetracycline Repressor
Length = 208
Score = 32.7 bits (73), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 34/65 (52%), Gaps = 3/65 (4%)
Query: 231 QLRYLSKDGYSYLEFSKGVSFQSELSTTSVPYPERAVCAVTGLPAKYRDPKTGLPYATKE 290
QLR+++++G+S + +S+ S + +V + A+T PA P LP +E
Sbjct: 116 QLRFMTENGFSLRDGLYAISWVSHFTLGAVLEQQEHTAALTDRPAA---PDENLPPLLRE 172
Query: 291 AFKII 295
A +I+
Sbjct: 173 ALQIM 177
>pdb|2XGC|A Chain A, Crystal Structure Of A Designed Heterodimeric Variant
T-A(I) B Of The Tetracycline Repressor
Length = 208
Score = 32.7 bits (73), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 34/65 (52%), Gaps = 3/65 (4%)
Query: 231 QLRYLSKDGYSYLEFSKGVSFQSELSTTSVPYPERAVCAVTGLPAKYRDPKTGLPYATKE 290
QLR+++++G+S + +S+ S + +V + A+T PA P LP +E
Sbjct: 116 QLRFMTENGFSLRDGLYAISWVSHFTLGAVLEQQEHTAALTDRPAA---PDENLPPLLRE 172
Query: 291 AFKII 295
A +I+
Sbjct: 173 ALQIM 177
>pdb|2XGE|A Chain A, Crystal Structure Of A Designed Heterodimeric Variant
T-A(A) B Of The Tetracycline Repressor
Length = 208
Score = 32.7 bits (73), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 34/65 (52%), Gaps = 3/65 (4%)
Query: 231 QLRYLSKDGYSYLEFSKGVSFQSELSTTSVPYPERAVCAVTGLPAKYRDPKTGLPYATKE 290
QLR+++++G+S + +S+ S + +V + A+T PA P LP +E
Sbjct: 116 QLRFMTENGFSLRDGLYAISWVSHFTLGAVLEQQEHTAALTDRPAA---PDENLPPLLRE 172
Query: 291 AFKII 295
A +I+
Sbjct: 173 ALQIM 177
>pdb|2XRL|A Chain A, Tet-Repressor Class D T103a With Doxycycline
Length = 207
Score = 31.2 bits (69), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 3/65 (4%)
Query: 231 QLRYLSKDGYSYLEFSKGVSFQSELSTTSVPYPERAVCAVTGLPAKYRDPKTGLPYATKE 290
QLR+++++G+S + +S S + +V + A+T PA P LP +E
Sbjct: 115 QLRFMTENGFSLRDGLYAISAVSHFTLGAVLEQQEHTAALTDRPAA---PDENLPPLLRE 171
Query: 291 AFKII 295
A +I+
Sbjct: 172 ALQIM 176
>pdb|2TCT|A Chain A, The Complex Formed Between Tet Repressor And
Tetracycline-mg2+ Reveals Mechanism Of Antibiotic
Resistance
pdb|2XB5|A Chain A, Tet Repressor (Class D) In Complex With 7-Iodotetracycline
pdb|4AUX|A Chain A, Tet Repressor Class D In Complex With 9-Nitrotetracycline
Length = 207
Score = 31.2 bits (69), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 3/65 (4%)
Query: 231 QLRYLSKDGYSYLEFSKGVSFQSELSTTSVPYPERAVCAVTGLPAKYRDPKTGLPYATKE 290
QLR+++++G+S + +S S + +V + A+T PA P LP +E
Sbjct: 115 QLRFMTENGFSLRDGLYAISAVSHFTLGAVLEQQEHTAALTDRPAA---PDENLPPLLRE 171
Query: 291 AFKII 295
A +I+
Sbjct: 172 ALQIM 176
>pdb|1BJY|A Chain A, Tetracycline Chelated Mg2+-Ion Initiates Helix Unwinding
For Tet Repressor Induction
pdb|1BJY|B Chain B, Tetracycline Chelated Mg2+-Ion Initiates Helix Unwinding
For Tet Repressor Induction
pdb|2FJ1|A Chain A, Crystal Structure Analysis Of Tet Repressor (Class D) In
Complex With 7-Chlortetracycline-Nickel(Ii)
pdb|2O7O|A Chain A, Crystal Structure Analysis Of Tetr(D) Complex With
Doxycycline
pdb|1BJ0|A Chain A, Tetracycline Chelated Mg2+-Ion Initiates Helix Unwinding
For Tet Repressor Induction
pdb|1BJZ|A Chain A, Tetracycline Chelated Mg2+-Ion Initiates Helix Unwinding
For Tet Repressor Induction
pdb|1ORK|A Chain A, Tet Repressor, Class D In Complex With
9-(N,N-Dimethylglycylamido)-6-
Demethyl-6-Deoxy-Tetracycline
pdb|2VKE|A Chain A, Tet Repressor Class D Complexed With Cobalt And
Tetracycline
pdb|2X6O|A Chain A, Tet Repressor Class D In Complex With
7-Chlor-2-Cyano-Iso-Tetracycline
pdb|2X9D|A Chain A, Tet Repressor (Class D) In Complex With Iso-7
Chlortetracycline
pdb|2XPS|A Chain A, Tetr(D) In Complex With Anhydrotetracycline And Magnesium
pdb|2XPT|A Chain A, Tetr(D) In Complex With Anhydrotetracycline And Potassium
pdb|2XPU|A Chain A, Tetr(D) In Complex With Anhydrotetracycline.
pdb|2XPV|A Chain A, Tetr(D) In Complex With Minocycline And Magnesium.
pdb|2XPW|A Chain A, Tetr(D) In Complex With Oxytetracycline And Magnesium.
pdb|4ABZ|A Chain A, Tetr(D) In Complex With Tigecycline And Magnesium
Length = 207
Score = 31.2 bits (69), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 3/65 (4%)
Query: 231 QLRYLSKDGYSYLEFSKGVSFQSELSTTSVPYPERAVCAVTGLPAKYRDPKTGLPYATKE 290
QLR+++++G+S + +S S + +V + A+T PA P LP +E
Sbjct: 115 QLRFMTENGFSLRDGLYAISAVSHFTLGAVLEQQEHTAALTDRPAA---PDENLPPLLRE 171
Query: 291 AFKII 295
A +I+
Sbjct: 172 ALQIM 176
>pdb|1QPI|A Chain A, Crystal Structure Of Tetracycline RepressorOPERATOR
COMPLEX
Length = 203
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 3/65 (4%)
Query: 231 QLRYLSKDGYSYLEFSKGVSFQSELSTTSVPYPERAVCAVTGLPAKYRDPKTGLPYATKE 290
QLR+++++G+S + +S S + +V + A+T PA P LP +E
Sbjct: 113 QLRFMTENGFSLRDGLYAISAVSHFTLGAVLEQQEHTAALTDRPAA---PDENLPPLLRE 169
Query: 291 AFKII 295
A +I+
Sbjct: 170 ALQIM 174
>pdb|2VKV|A Chain A, Tetr (Bd) Variant L17g With Reverse Phenotype
Length = 208
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 3/65 (4%)
Query: 231 QLRYLSKDGYSYLEFSKGVSFQSELSTTSVPYPERAVCAVTGLPAKYRDPKTGLPYATKE 290
QLR+++++G+S + +S S + +V + A+T PA P LP +E
Sbjct: 116 QLRFMTENGFSLRDGLYAISAVSHFTLGAVLEQQEHTAALTDRPAA---PDENLPPLLRE 172
Query: 291 AFKII 295
A +I+
Sbjct: 173 ALQIM 177
>pdb|2TRT|A Chain A, Tetracycline Repressor Class D
Length = 217
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 3/65 (4%)
Query: 231 QLRYLSKDGYSYLEFSKGVSFQSELSTTSVPYPERAVCAVTGLPAKYRDPKTGLPYATKE 290
QLR+++++G+S + +S S + +V + A+T PA P LP +E
Sbjct: 115 QLRFMTENGFSLRDGLYAISAVSHFTLGAVLEQQEHTAALTDRPAA---PDENLPPLLRE 171
Query: 291 AFKII 295
A +I+
Sbjct: 172 ALQIM 176
>pdb|1A6I|A Chain A, Tet Repressor, Class D Variant
Length = 217
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 3/65 (4%)
Query: 231 QLRYLSKDGYSYLEFSKGVSFQSELSTTSVPYPERAVCAVTGLPAKYRDPKTGLPYATKE 290
QLR+++++G+S + +S S + +V + A+T PA P LP +E
Sbjct: 115 QLRFMTENGFSLRDGLYAISAVSHFTLGAVLEQQEHTAALTDRPAA---PDENLPPLLRE 171
Query: 291 AFKII 295
A +I+
Sbjct: 172 ALQIM 176
>pdb|2XGC|B Chain B, Crystal Structure Of A Designed Heterodimeric Variant
T-A(I) B Of The Tetracycline Repressor
pdb|2XGE|B Chain B, Crystal Structure Of A Designed Heterodimeric Variant
T-A(A) B Of The Tetracycline Repressor
Length = 211
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 3/65 (4%)
Query: 231 QLRYLSKDGYSYLEFSKGVSFQSELSTTSVPYPERAVCAVTGLPAKYRDPKTGLPYATKE 290
QLR+++++G+S + +S S + +V + A+T PA P LP +E
Sbjct: 119 QLRFMTENGFSLRDGLYAISAVSHATLGAVLEQQEHTAALTDRPAA---PDENLPPLLRE 175
Query: 291 AFKII 295
A +I+
Sbjct: 176 ALQIM 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
0.317 0.131 0.364
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,199,864
Number of Sequences: 62578
Number of extensions: 228178
Number of successful extensions: 658
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 645
Number of HSP's gapped (non-prelim): 25
length of query: 360
length of database: 14,973,337
effective HSP length: 100
effective length of query: 260
effective length of database: 8,715,537
effective search space: 2266039620
effective search space used: 2266039620
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)