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= 010799
(501 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3BGW|A Chain A, The Structure Of A Dnab-like Replicative Helicase And Its
Interactions With Primase
pdb|3BGW|B Chain B, The Structure Of A Dnab-like Replicative Helicase And Its
Interactions With Primase
pdb|3BGW|C Chain C, The Structure Of A Dnab-like Replicative Helicase And Its
Interactions With Primase
pdb|3BGW|D Chain D, The Structure Of A Dnab-like Replicative Helicase And Its
Interactions With Primase
pdb|3BGW|E Chain E, The Structure Of A Dnab-like Replicative Helicase And Its
Interactions With Primase
pdb|3BGW|F Chain F, The Structure Of A Dnab-like Replicative Helicase And Its
Interactions With Primase
Length = 444
Score = 32.3 bits (72), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 25/38 (65%), Gaps = 1/38 (2%)
Query: 161 VVDVAGSVMTTDLWKSYECETVKEYFQCRAWVPVPEEL 198
+ ++A SV +T +K + C+TV EYFQ R + + +++
Sbjct: 86 LTELAASVASTTTFKQH-CQTVSEYFQKRKAISIAQQI 122
>pdb|2QBY|A Chain A, Crystal Structure Of A Heterodimer Of Cdc6ORC1 INITIATORS
Bound To Origin Dna (From S. Solfataricus)
Length = 386
Score = 29.3 bits (64), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 33/105 (31%), Positives = 50/105 (47%), Gaps = 17/105 (16%)
Query: 304 NDDRALPKQVPDEEISEEVTAVVSMENDILKLAKLT--LNSSDKNFLISVAGAAGSGKTA 361
N + LP +PDE + E+ I K+A + L +K I + G G+GKTA
Sbjct: 9 NREYLLPDYIPDE--------LPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTA 60
Query: 362 LVKTIYESSYTKKNFPCRAWANVYVSQ---DFDMRSVFADILRQL 403
+VK + S K F + + +VY++ D R V AD+L L
Sbjct: 61 VVKFVL--SKLHKKFLGK-FKHVYINTRQIDTPYR-VLADLLESL 101
>pdb|3OVS|A Chain A, How The Cca-Adding Enzyme Selects Adenine Over Cytosine In
Position 76 Of Trna
pdb|3OVS|B Chain B, How The Cca-Adding Enzyme Selects Adenine Over Cytosine In
Position 76 Of Trna
Length = 441
Score = 29.3 bits (64), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 36/82 (43%), Gaps = 17/82 (20%)
Query: 219 QLDPQKKLRKLFTENRYLVVIINARTPDIWDILKYLFPNSSNGSRVILSFQEADAARCRN 278
+++P++ LRK+ E V + R PDI D L+P SR I F E +
Sbjct: 261 EIEPER-LRKIVEERGTAVFAVKFRKPDIVD--DNLYPQLERASRKIFEFLERE------ 311
Query: 279 MSFFGGESSFKPKYIAYAASED 300
+F P A+ ASE+
Sbjct: 312 --------NFMPLRSAFKASEE 325
>pdb|3TP3|A Chain A, Structure Of Hth-Type Transcriptional Regulator Ethr,
G106w Mutant
pdb|3QPL|A Chain A, G106w Mutant Of Ethr From Mycobacterium Tuberculosis
Length = 236
Score = 29.3 bits (64), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 25/47 (53%)
Query: 273 AARCRNMSFFGGESSFKPKYIAYAASEDDGGNDDRALPKQVPDEEIS 319
AAR ++ S+F K+IAY A+ D D A P+ +P E++
Sbjct: 146 AARATSVEVAELWSTFMQKWIAYTAAVIDAERDRGAAPRTLPAHELA 192
>pdb|3OVB|A Chain A, How The Cca-Adding Enzyme Selects Adenine Over Cytosine In
Position 76 Of Trna
pdb|3OVB|B Chain B, How The Cca-Adding Enzyme Selects Adenine Over Cytosine In
Position 76 Of Trna
Length = 441
Score = 29.3 bits (64), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 36/82 (43%), Gaps = 17/82 (20%)
Query: 219 QLDPQKKLRKLFTENRYLVVIINARTPDIWDILKYLFPNSSNGSRVILSFQEADAARCRN 278
+++P++ LRK+ E V + R PDI D L+P SR I F E +
Sbjct: 261 EIEPER-LRKIVEERGTAVFAVKFRKPDIVD--DNLYPQLERASRKIFEFLERE------ 311
Query: 279 MSFFGGESSFKPKYIAYAASED 300
+F P A+ ASE+
Sbjct: 312 --------NFMPLRSAFKASEE 325
>pdb|3OUY|A Chain A, How The Cca-Adding Enzyme Selects Adenine Over Cytosine At
Position 76 Of Trna
pdb|3OV7|A Chain A, How The Cca-Adding Enzyme Selects Adenine Over Cytosine In
Position 76 Of Trna
pdb|3OV7|B Chain B, How The Cca-Adding Enzyme Selects Adenine Over Cytosine In
Position 76 Of Trna
Length = 441
Score = 29.3 bits (64), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 36/82 (43%), Gaps = 17/82 (20%)
Query: 219 QLDPQKKLRKLFTENRYLVVIINARTPDIWDILKYLFPNSSNGSRVILSFQEADAARCRN 278
+++P++ LRK+ E V + R PDI D L+P SR I F E +
Sbjct: 261 EIEPER-LRKIVEERGTAVFAVKFRKPDIVD--DNLYPQLERASRKIFEFLERE------ 311
Query: 279 MSFFGGESSFKPKYIAYAASED 300
+F P A+ ASE+
Sbjct: 312 --------NFMPLRSAFKASEE 325
>pdb|1T56|A Chain A, Crystal Structure Of Tetr Family Repressor M. Tuberculosis
Ethr
pdb|3TP0|A Chain A, Structural Activation Of The Transcriptional Repressor
Ethr From M. Tuberculosis By Single Amino-Acid Change
Mimicking Natural And Synthetic Ligands
Length = 216
Score = 29.3 bits (64), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 25/47 (53%)
Query: 273 AARCRNMSFFGGESSFKPKYIAYAASEDDGGNDDRALPKQVPDEEIS 319
AAR ++ S+F K+IAY A+ D D A P+ +P E++
Sbjct: 126 AARATSVEVAELWSTFMQKWIAYTAAVIDAERDRGAAPRTLPAHELA 172
>pdb|1UET|A Chain A, Divergent Evolutions Of Trinucleotide Polymerization
Revealed By An Archaeal Cca-Adding Enzyme Structure
pdb|1UEU|A Chain A, Divergent Evolutions Of Trinucleotide Polymerization
Revealed By An Archaeal Cca-Adding Enzyme Structure
pdb|1UEV|A Chain A, Divergent Evolutions Of Trinucleotide Polymerization
Revealed By An Archaeal Cca-Adding Enzyme Structure
pdb|1R89|A Chain A, Crystal Structures Of An Archaeal Class I Cca-Adding
Enzyme And Its Nucleotide Complexes
pdb|1R8A|A Chain A, Crystal Structures Of An Archaeal Class I Cca-Adding
Enzyme And Its Nucleotide Complexes
pdb|1R8B|A Chain A, Crystal Structures Of An Archaeal Class I Cca-Adding
Enzyme And Its Nucleotide
pdb|1R8C|A Chain A, Crystal Structures Of An Archaeal Class I Cca-Adding
Enzyme And Its Nucleotide
pdb|1SZ1|A Chain A, Mechanism Of Cca-Adding Enzymes Specificity Revealed By
Crystal Structures Of Ternary Complexes
pdb|1SZ1|B Chain B, Mechanism Of Cca-Adding Enzymes Specificity Revealed By
Crystal Structures Of Ternary Complexes
pdb|1TFW|A Chain A, How Cca Is Added To The 3' End Of Immature Trna Without
The Use Of An Oligonucleotide Template
pdb|1TFW|B Chain B, How Cca Is Added To The 3' End Of Immature Trna Without
The Use Of An Oligonucleotide Template
pdb|1TFW|C Chain C, How Cca Is Added To The 3' End Of Immature Trna Without
The Use Of An Oligonucleotide Template
pdb|1TFW|D Chain D, How Cca Is Added To The 3' End Of Immature Trna Without
The Use Of An Oligonucleotide Template
pdb|1TFY|A Chain A, How Cca Is Added To The 3' End Of Immature Trna Without
The Use Of An Oligonucleotide Template
pdb|1TFY|B Chain B, How Cca Is Added To The 3' End Of Immature Trna Without
The Use Of An Oligonucleotide Template
pdb|1TFY|C Chain C, How Cca Is Added To The 3' End Of Immature Trna Without
The Use Of An Oligonucleotide Template
pdb|1TFY|D Chain D, How Cca Is Added To The 3' End Of Immature Trna Without
The Use Of An Oligonucleotide Template
pdb|2DR5|A Chain A, Complex Structure Of Cca Adding Enzyme With Mini-Helix
Lacking Cca
pdb|2DR7|A Chain A, Complex Structure Of Cca-Adding Enzyme With Trnaminidc
pdb|2DR8|A Chain A, Complex Structure Of Cca-Adding Enzyme With Trnaminidc And
Ctp
pdb|2DR9|A Chain A, Complex Structure Of Cca-adding Enzyme With Trnaminidcc
pdb|2DRA|A Chain A, Complex Structure Of Cca-Adding Enzyme With Trnaminidcc
And Atp
pdb|2DRB|A Chain A, Complex Structure Of Cca-Adding Enzyme With Trnaminicca
pdb|2DVI|A Chain A, Complex Structure Of Cca-Adding Enzyme, Mini-Dcc And Ctp
pdb|2ZH1|A Chain A, Complex Structure Of Afcca With Trnaminida
pdb|2ZH2|A Chain A, Complex Structure Of Afcca With Trnaminidac
pdb|2ZH3|A Chain A, Complex Structure Of Afcca With Trnaminidca
pdb|2ZH4|A Chain A, Complex Structure Of Afcca With Trnaminidcg
pdb|2ZH5|A Chain A, Complex Structure Of Afcca With Trnaminidcu
pdb|2ZH6|A Chain A, Complex Structure Of Afcca With Trnaminidcu And Atp
pdb|2ZH8|A Chain A, Complex Structure Of Afcca With Trnaminidgc
pdb|2ZH9|A Chain A, Complex Structure Of Afcca With Trnaminidu
pdb|2ZHA|A Chain A, Complex Structure Of Afcca With Trnaminidu And Ctp
pdb|3OUY|B Chain B, How The Cca-Adding Enzyme Selects Adenine Over Cytosine At
Position 76 Of Trna
Length = 437
Score = 29.3 bits (64), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 36/82 (43%), Gaps = 17/82 (20%)
Query: 219 QLDPQKKLRKLFTENRYLVVIINARTPDIWDILKYLFPNSSNGSRVILSFQEADAARCRN 278
+++P++ LRK+ E V + R PDI D L+P SR I F E +
Sbjct: 261 EIEPER-LRKIVEERGTAVFAVKFRKPDIVD--DNLYPQLERASRKIFEFLERE------ 311
Query: 279 MSFFGGESSFKPKYIAYAASED 300
+F P A+ ASE+
Sbjct: 312 --------NFMPLRSAFKASEE 325
>pdb|2ZH7|A Chain A, Complex Structure Of Afcca With Trnaminidg
pdb|2ZHB|A Chain A, Complex Structure Of Afcca With Trnaminiduc
Length = 436
Score = 28.9 bits (63), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 36/82 (43%), Gaps = 17/82 (20%)
Query: 219 QLDPQKKLRKLFTENRYLVVIINARTPDIWDILKYLFPNSSNGSRVILSFQEADAARCRN 278
+++P++ LRK+ E V + R PDI D L+P SR I F E +
Sbjct: 260 EIEPER-LRKIVEERGTAVFAVKFRKPDIVD--DNLYPQLERASRKIFEFLERE------ 310
Query: 279 MSFFGGESSFKPKYIAYAASED 300
+F P A+ ASE+
Sbjct: 311 --------NFMPLRSAFKASEE 324
>pdb|3OVA|A Chain A, How The Cca-Adding Enzyme Selects Adenine Over Cytosine In
Position 76 Of Trna
Length = 435
Score = 28.9 bits (63), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 36/82 (43%), Gaps = 17/82 (20%)
Query: 219 QLDPQKKLRKLFTENRYLVVIINARTPDIWDILKYLFPNSSNGSRVILSFQEADAARCRN 278
+++P++ LRK+ E V + R PDI D L+P SR I F E +
Sbjct: 259 EIEPER-LRKIVEERGTAVFAVKFRKPDIVD--DNLYPQLERASRKIFEFLERE------ 309
Query: 279 MSFFGGESSFKPKYIAYAASED 300
+F P A+ ASE+
Sbjct: 310 --------NFMPLRSAFKASEE 323
>pdb|3G1O|A Chain A, Ethr From Mycobacterium Tuberculosis In Complex With
Compound Bdm14500
Length = 255
Score = 28.9 bits (63), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 20/34 (58%)
Query: 286 SSFKPKYIAYAASEDDGGNDDRALPKQVPDEEIS 319
S+F K+IAY A+ D D A P+ +P E++
Sbjct: 158 STFMQKWIAYTAAVIDAERDRGAAPRTLPAHELA 191
>pdb|1U9O|A Chain A, Crystal Structure Of The Transcriptional Regulator Ethr In
A Ligand Bound Conformation
pdb|1U9O|B Chain B, Crystal Structure Of The Transcriptional Regulator Ethr In
A Ligand Bound Conformation
Length = 236
Score = 28.9 bits (63), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 25/47 (53%)
Query: 273 AARCRNMSFFGGESSFKPKYIAYAASEDDGGNDDRALPKQVPDEEIS 319
AAR ++ S+F K+IAY A+ D D A P+ +P E++
Sbjct: 146 AARATSVEVAELWSTFMQKWIAYTAAVIDAERDRGAAPRTLPAHELA 192
>pdb|3G1M|A Chain A, Ethr From Mycobacterium Tuberculosis In Complex With
Compound Bdm31381
pdb|3O8G|A Chain A, Ethr From Mycobacterium Tuberculosis In Complex With
Compound Bdm14801
pdb|3O8H|A Chain A, Ethr From Mycobacterium Tuberculosis In Complex With
Compound Bdm14950
pdb|3SDG|A Chain A, Ethionamide Boosters Part 2: Combining Bioisosteric
Replacement And Structure-Based Drug Design To Solve
Pharmacokinetic Issues In A Series Of Potent
1,2,4-Oxadiazole Ethr Inhibitors.
pdb|3SFI|A Chain A, Ethionamide Boosters Part 2: Combining Bioisosteric
Replacement And Structure-Based Drug Design To Solve
Pharmacokinetic Issues In A Series Of Potent
1,2,4-Oxadiazole Ethr Inhibitors.
pdb|3Q0W|A Chain A, Ethr From Mycobacterium Tuberculosis In Complex With
Compound Bdm33066
pdb|3Q0U|A Chain A, Ethr From Mycobacterium Tuberculosis In Complex With
Compound Bdm31379
pdb|3Q0V|A Chain A, Ethr From Mycobacterium Tuberculosis In Complex With
Compound Bdm31369
pdb|3Q0V|B Chain B, Ethr From Mycobacterium Tuberculosis In Complex With
Compound Bdm31369
pdb|3Q3S|A Chain A, Ethr From Mycobacterium Tuberculosis In Complex With
Compound Bdm5683
Length = 236
Score = 28.9 bits (63), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 20/34 (58%)
Query: 286 SSFKPKYIAYAASEDDGGNDDRALPKQVPDEEIS 319
S+F K+IAY A+ D D A P+ +P E++
Sbjct: 159 STFMQKWIAYTAAVIDAERDRGAAPRTLPAHELA 192
>pdb|1U9N|A Chain A, Crystal Structure Of The Transcriptional Regulator Ethr In
A Ligand Bound Conformation Opens Therapeutic
Perspectives Against Tuberculosis And Leprosy
Length = 236
Score = 28.9 bits (63), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 25/47 (53%)
Query: 273 AARCRNMSFFGGESSFKPKYIAYAASEDDGGNDDRALPKQVPDEEIS 319
AAR ++ S+F K+IAY A+ D D A P+ +P E++
Sbjct: 146 AARATSVEVAELWSTFXQKWIAYTAAVIDAERDRGAAPRTLPAHELA 192
>pdb|3G1L|A Chain A, Ethr From Mycobacterium Tuberculosis In Complex With
Compound Bdm14744
Length = 256
Score = 28.9 bits (63), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 20/34 (58%)
Query: 286 SSFKPKYIAYAASEDDGGNDDRALPKQVPDEEIS 319
S+F K+IAY A+ D D A P+ +P E++
Sbjct: 159 STFMQKWIAYTAAVIDAERDRGAAPRTLPAHELA 192
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 0.132 0.370
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,402,257
Number of Sequences: 62578
Number of extensions: 525489
Number of successful extensions: 1562
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 1552
Number of HSP's gapped (non-prelim): 24
length of query: 501
length of database: 14,973,337
effective HSP length: 103
effective length of query: 398
effective length of database: 8,527,803
effective search space: 3394065594
effective search space used: 3394065594
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)