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= 035619
(188 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1I6V|A Chain A, Thermus Aquaticus Core Rna Polymerase-Rifampicin Complex
pdb|1I6V|B Chain B, Thermus Aquaticus Core Rna Polymerase-Rifampicin Complex
Length = 314
Score = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 19 DFSKALHTRLWTEGNLTPTGYLNKKVA 45
D K L R+WT+G++TP LN+ VA
Sbjct: 191 DLDK-LTLRIWTDGSVTPLEALNQAVA 216
>pdb|1L9U|A Chain A, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9U|B Chain B, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9U|J Chain J, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9U|K Chain K, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9Z|A Chain A, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction
Promoter Dna Complex At 6.5 A Resolution
pdb|1L9Z|B Chain B, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction
Promoter Dna Complex At 6.5 A Resolution
pdb|1YNJ|A Chain A, Taq Rna Polymerase-Sorangicin Complex
pdb|1YNJ|B Chain B, Taq Rna Polymerase-Sorangicin Complex
pdb|1YNN|A Chain A, Taq Rna Polymerase-rifampicin Complex
pdb|1YNN|B Chain B, Taq Rna Polymerase-rifampicin Complex
pdb|2GHO|A Chain A, Recombinant Thermus Aquaticus Rna Polymerase For
Structural Studies
pdb|2GHO|B Chain B, Recombinant Thermus Aquaticus Rna Polymerase For
Structural Studies
Length = 314
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 19 DFSKALHTRLWTEGNLTPTGYLNKKVA 45
D K L R+WT+G++TP LN+ VA
Sbjct: 191 DLDK-LTLRIWTDGSVTPLEALNQAVA 216
>pdb|1HQM|A Chain A, Crystal Structure Of Thermus Aquaticus Core Rna
Polymerase- Includes Complete Structure With Side-Chains
(Except For Disordered Regions)-Further Refined From
Original Deposition-Contains Additional Sequence
Information
pdb|1HQM|B Chain B, Crystal Structure Of Thermus Aquaticus Core Rna
Polymerase- Includes Complete Structure With Side-Chains
(Except For Disordered Regions)-Further Refined From
Original Deposition-Contains Additional Sequence
Information
Length = 313
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 19 DFSKALHTRLWTEGNLTPTGYLNKKVA 45
D K L R+WT+G++TP LN+ VA
Sbjct: 190 DLDK-LTLRIWTDGSVTPLEALNQAVA 215
>pdb|1BHL|A Chain A, Cacodylated Catalytic Domain Of Hiv-1 Integrase
Length = 151
Score = 28.1 bits (61), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 111 PRNEDQNGCIKTFNVVAQEFNTQLKDSVSDQRTQLHDAVFIH 152
P N G I++ N ++ Q++D +T + AVFIH
Sbjct: 86 PYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIH 127
>pdb|1QS4|A Chain A, Core Domain Of Hiv-1 Integrase Complexed With Mg++ And
1-(5-
Chloroindol-3-Yl)-3-Hydroxy-3-(2h-Tetrazol-5-Yl)-
Propenone
pdb|1QS4|B Chain B, Core Domain Of Hiv-1 Integrase Complexed With Mg++ And
1-(5-
Chloroindol-3-Yl)-3-Hydroxy-3-(2h-Tetrazol-5-Yl)-
Propenone
pdb|1QS4|C Chain C, Core Domain Of Hiv-1 Integrase Complexed With Mg++ And
1-(5-
Chloroindol-3-Yl)-3-Hydroxy-3-(2h-Tetrazol-5-Yl)-
Propenone
Length = 154
Score = 27.7 bits (60), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 111 PRNEDQNGCIKTFNVVAQEFNTQLKDSVSDQRTQLHDAVFIH 152
P N G I++ N ++ Q++D +T + AVFIH
Sbjct: 87 PYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIH 128
>pdb|3ZSO|A Chain A, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Design
pdb|3ZSO|B Chain B, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Design
pdb|3ZSQ|A Chain A, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Drug Design
pdb|3ZSQ|B Chain B, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Drug Design
pdb|3ZSR|A Chain A, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Drug Design
pdb|3ZSR|B Chain B, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Drug Design
pdb|3ZSV|A Chain A, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Drug Design
pdb|3ZSV|B Chain B, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Drug Design
pdb|3ZSX|A Chain A, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Drug Design
pdb|3ZSX|B Chain B, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Drug Design
pdb|3ZSY|A Chain A, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Drug Design
pdb|3ZSY|B Chain B, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Drug Design
pdb|3ZSZ|A Chain A, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Drug Design
pdb|3ZSZ|B Chain B, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Drug Design
pdb|3ZT0|A Chain A, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Drug Design
pdb|3ZT0|B Chain B, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Drug Design
pdb|3ZT1|A Chain A, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Drug Design
pdb|3ZT1|B Chain B, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Drug Design
pdb|3ZT2|A Chain A, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Drug Design
pdb|3ZT2|B Chain B, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Drug Design
pdb|3ZT3|A Chain A, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Drug Design
pdb|3ZT3|B Chain B, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Drug Design
pdb|3ZT4|A Chain A, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Drug Design
pdb|3ZT4|B Chain B, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Drug Design
pdb|3ZSW|A Chain A, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Drug Design
pdb|3ZSW|B Chain B, Small Molecule Inhibitors Of The Ledgf Site Of Hiv Type 1
Integrase Identified By Fragment Screening And Structure
Based Drug Design
pdb|3ZCM|A Chain A, Small Molecule Inhibitors Of The Ledgf Site Of Hiv
Integrase Identified By Fragment Screening And Structure
Based Design.
pdb|3ZCM|B Chain B, Small Molecule Inhibitors Of The Ledgf Site Of Hiv
Integrase Identified By Fragment Screening And Structure
Based Design
Length = 167
Score = 27.7 bits (60), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 111 PRNEDQNGCIKTFNVVAQEFNTQLKDSVSDQRTQLHDAVFIH 152
P N G I++ N ++ Q++D +T + AVFIH
Sbjct: 97 PYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIH 138
>pdb|4E1M|A Chain A, Crystal Structure Of Hiv-1 Integrase With A Non-Catayltic
Site Inhibitor
pdb|4E1N|A Chain A, Crystal Structure Of Hiv-1 Integrase With A Non-Catayltic
Site Inhibitor
Length = 166
Score = 27.7 bits (60), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 111 PRNEDQNGCIKTFNVVAQEFNTQLKDSVSDQRTQLHDAVFIH 152
P N G I++ N ++ Q++D +T + AVFIH
Sbjct: 96 PYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIH 137
>pdb|1HYV|A Chain A, Hiv Integrase Core Domain Complexed With Tetraphenyl
Arsonium
pdb|1HYZ|A Chain A, Hiv Integrase Core Domain Complexed With A Derivative Of
Tetraphenyl Arsonium.
pdb|3LPT|A Chain A, Hiv Integrase
pdb|3LPU|A Chain A, Hiv Integrase
Length = 166
Score = 27.7 bits (60), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 111 PRNEDQNGCIKTFNVVAQEFNTQLKDSVSDQRTQLHDAVFIH 152
P N G I++ N ++ Q++D +T + AVFIH
Sbjct: 96 PYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIH 137
>pdb|3AVF|A Chain A, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
pdb|3AVF|B Chain B, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
Length = 180
Score = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 111 PRNEDQNGCIKTFNVVAQEFNTQLKDSVSDQRTQLHDAVFIH 152
P N G I++ N ++ Q++D +T + AVFIH
Sbjct: 113 PYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIH 154
>pdb|1B9D|A Chain A, Mobility Of An Hiv-1 Integrase Active Site Loop Is
Correlated With Catalytic Activity
pdb|4DMN|A Chain A, Hiv-1 Integrase Catalytical Core Domain
Length = 163
Score = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 111 PRNEDQNGCIKTFNVVAQEFNTQLKDSVSDQRTQLHDAVFIH 152
P N G I++ N ++ Q++D +T + AVFIH
Sbjct: 93 PYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIH 134
>pdb|1BIZ|A Chain A, Hiv-1 Integrase Core Domain
pdb|1BIZ|B Chain B, Hiv-1 Integrase Core Domain
Length = 166
Score = 27.7 bits (60), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 111 PRNEDQNGCIKTFNVVAQEFNTQLKDSVSDQRTQLHDAVFIH 152
P N G I++ N ++ Q++D +T + AVFIH
Sbjct: 96 PYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIH 137
>pdb|1BL3|C Chain C, Catalytic Domain Of Hiv-1 Integrase
pdb|1BI4|A Chain A, Catalytic Domain Of Hiv-1 Integrase
pdb|1BI4|C Chain C, Catalytic Domain Of Hiv-1 Integrase
pdb|1BL3|A Chain A, Catalytic Domain Of Hiv-1 Integrase
pdb|1BL3|B Chain B, Catalytic Domain Of Hiv-1 Integrase
Length = 160
Score = 27.7 bits (60), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 111 PRNEDQNGCIKTFNVVAQEFNTQLKDSVSDQRTQLHDAVFIH 152
P N G I++ N ++ Q++D +T + AVFIH
Sbjct: 93 PYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIH 134
>pdb|3VQ9|A Chain A, Hiv-1 In Core Domain In Complex With
6-fluoro-1,3-benzothiazol-2-amine
pdb|3VQ9|B Chain B, Hiv-1 In Core Domain In Complex With
6-fluoro-1,3-benzothiazol-2-amine
pdb|3VQ9|C Chain C, Hiv-1 In Core Domain In Complex With
6-fluoro-1,3-benzothiazol-2-amine
Length = 161
Score = 27.7 bits (60), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 111 PRNEDQNGCIKTFNVVAQEFNTQLKDSVSDQRTQLHDAVFIH 152
P N G I++ N ++ Q++D +T + AVFIH
Sbjct: 93 PYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIH 134
>pdb|3NF6|A Chain A, Structural Basis For A New Mechanism Of Inhibition Of Hiv
Integrase Identified By Fragment Screening And Structure
Based Design
pdb|3NF6|B Chain B, Structural Basis For A New Mechanism Of Inhibition Of Hiv
Integrase Identified By Fragment Screening And Structure
Based Design
pdb|3NF7|A Chain A, Structural Basis For A New Mechanism Of Inhibition Of Hiv
Integrase Identified By Fragment Screening And Structure
Based Design
pdb|3NF7|B Chain B, Structural Basis For A New Mechanism Of Inhibition Of Hiv
Integrase Identified By Fragment Screening And Structure
Based Design
pdb|3NF8|A Chain A, Structural Basis For A New Mechanism Of Inhibition Of Hiv
Integrase Identified By Fragment Screening And Structure
Based Design
pdb|3NF8|B Chain B, Structural Basis For A New Mechanism Of Inhibition Of Hiv
Integrase Identified By Fragment Screening And Structure
Based Design
pdb|3NF9|A Chain A, Structural Basis For A New Mechanism Of Inhibition Of Hiv
Integrase Identified By Fragment Screening And Structure
Based Design
pdb|3NF9|B Chain B, Structural Basis For A New Mechanism Of Inhibition Of Hiv
Integrase Identified By Fragment Screening And Structure
Based Design
pdb|3NFA|A Chain A, Structural Basis For A New Mechanism Of Inhibition Of Hiv
Integrase Identified By Fragment Screening And Structure
Based Design
pdb|3NFA|B Chain B, Structural Basis For A New Mechanism Of Inhibition Of Hiv
Integrase Identified By Fragment Screening And Structure
Based Design
pdb|3AV9|A Chain A, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
pdb|3AV9|B Chain B, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
pdb|3AVA|A Chain A, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
pdb|3AVA|B Chain B, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
pdb|3AVB|A Chain A, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
pdb|3AVB|B Chain B, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
pdb|3AVC|A Chain A, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
pdb|3AVC|B Chain B, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
pdb|3AVG|A Chain A, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
pdb|3AVG|B Chain B, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
pdb|3AVH|A Chain A, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
pdb|3AVH|B Chain B, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
pdb|3AVJ|A Chain A, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
pdb|3AVJ|B Chain B, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
pdb|3AVK|A Chain A, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
pdb|3AVK|B Chain B, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
pdb|3AVL|A Chain A, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
pdb|3AVL|B Chain B, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
pdb|3AVM|A Chain A, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
pdb|3AVM|B Chain B, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
pdb|3AVN|A Chain A, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
pdb|3AVN|B Chain B, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
pdb|3AVI|A Chain A, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
pdb|3AVI|B Chain B, Crystal Structures Of Novel Allosteric Peptide Inhibitors
Of Hiv Integrase In The Ledgf Binding Site
pdb|4AH9|A Chain A, Parallel Screening Of A Low Molecular Weight Compound
Library: Do Differences In Methodology Affect Hit
Identification
pdb|4AH9|B Chain B, Parallel Screening Of A Low Molecular Weight Compound
Library: Do Differences In Methodology Affect Hit
Identification
pdb|4AHR|A Chain A, Parallel Screening Of A Low Molecular Weight Compound
Library: Do Differences In Methodology Affect Hit
Identification
pdb|4AHR|B Chain B, Parallel Screening Of A Low Molecular Weight Compound
Library: Do Differences In Methodology Affect Hit
Identification
pdb|4AHS|A Chain A, Parallel Screening Of A Low Molecular Weight Compound
Library: Do Differences In Methodology Affect Hit
Identification
pdb|4AHS|B Chain B, Parallel Screening Of A Low Molecular Weight Compound
Library: Do Differences In Methodology Affect Hit
Identification
pdb|4AHT|A Chain A, Parallel Screening Of A Low Molecular Weight Compound
Library: Do Differences In Methodology Affect Hit
Identification
pdb|4AHT|B Chain B, Parallel Screening Of A Low Molecular Weight Compound
Library: Do Differences In Methodology Affect Hit
Identification
pdb|4AHU|A Chain A, Parallel Screening Of A Low Molecular Weight Compound
Library: Do Differences In Methodology Affect Hit
Identification
pdb|4AHU|B Chain B, Parallel Screening Of A Low Molecular Weight Compound
Library: Do Differences In Methodology Affect Hit
Identification
pdb|4AHV|A Chain A, Parallel Screening Of A Low Molecular Weight Compound
Library: Do Differences In Methodology Affect Hit
Identification
pdb|4AHV|B Chain B, Parallel Screening Of A Low Molecular Weight Compound
Library: Do Differences In Methodology Affect Hit
Identification
Length = 183
Score = 27.7 bits (60), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 111 PRNEDQNGCIKTFNVVAQEFNTQLKDSVSDQRTQLHDAVFIH 152
P N G I++ N ++ Q++D +T + AVFIH
Sbjct: 113 PYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIH 154
>pdb|2B4J|A Chain A, Structural Basis For The Recognition Between Hiv-1
Integrase And LedgfP75
pdb|2B4J|B Chain B, Structural Basis For The Recognition Between Hiv-1
Integrase And LedgfP75
pdb|1ITG|A Chain A, Crystal Structure Of The Catalytic Domain Of Hiv-1
Integrase: Similarity To Other Polynucleotidyl
Transferases
Length = 166
Score = 27.7 bits (60), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 111 PRNEDQNGCIKTFNVVAQEFNTQLKDSVSDQRTQLHDAVFIH 152
P N G I++ N ++ Q++D +T + AVFIH
Sbjct: 96 PYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIH 137
>pdb|2ITG|A Chain A, Catalytic Domain Of Hiv-1 Integrase: Ordered Active Site
In The F185h Construct
Length = 163
Score = 27.7 bits (60), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 111 PRNEDQNGCIKTFNVVAQEFNTQLKDSVSDQRTQLHDAVFIH 152
P N G I++ N ++ Q++D +T + AVFIH
Sbjct: 93 PYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIH 134
>pdb|1BIU|A Chain A, Hiv-1 Integrase Core Domain Complexed With Mg++
pdb|1BIU|B Chain B, Hiv-1 Integrase Core Domain Complexed With Mg++
pdb|1BIU|C Chain C, Hiv-1 Integrase Core Domain Complexed With Mg++
Length = 166
Score = 27.3 bits (59), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 111 PRNEDQNGCIKTFNVVAQEFNTQLKDSVSDQRTQLHDAVFIH 152
P N G I++ N ++ Q++D +T + AVFIH
Sbjct: 96 PYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIH 137
>pdb|3VQ5|A Chain A, Hiv-1 In Core Domain In Complex With
N-methyl-1-(4-methyl-2-phenyl-1,
3-thiazol-5-yl)methanamine
pdb|3VQ5|B Chain B, Hiv-1 In Core Domain In Complex With
N-methyl-1-(4-methyl-2-phenyl-1,
3-thiazol-5-yl)methanamine
pdb|3VQ8|A Chain A, Hiv-1 In Core Domain In Complex With
(3r)-3,4-dihydro-2h-chromen-3- Ylmethanol
pdb|3VQ8|B Chain B, Hiv-1 In Core Domain In Complex With
(3r)-3,4-dihydro-2h-chromen-3- Ylmethanol
pdb|3VQE|A Chain A, Hiv-1 In Core Domain In Complex With
[1-(4-fluorophenyl)-5-methyl-1h- Pyrazol-4-yl]methanol
pdb|3VQE|B Chain B, Hiv-1 In Core Domain In Complex With
[1-(4-fluorophenyl)-5-methyl-1h- Pyrazol-4-yl]methanol
Length = 157
Score = 27.3 bits (59), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 111 PRNEDQNGCIKTFNVVAQEFNTQLKDSVSDQRTQLHDAVFIH 152
P N G I++ N ++ Q++D +T + AVFIH
Sbjct: 87 PYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIH 128
>pdb|1BI4|B Chain B, Catalytic Domain Of Hiv-1 Integrase
Length = 160
Score = 27.3 bits (59), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 111 PRNEDQNGCIKTFNVVAQEFNTQLKDSVSDQRTQLHDAVFIH 152
P N G I++ N ++ Q++D +T + AVFIH
Sbjct: 93 PYNPQSQGLIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIH 134
>pdb|1BIS|A Chain A, Hiv-1 Integrase Core Domain
pdb|1BIS|B Chain B, Hiv-1 Integrase Core Domain
Length = 166
Score = 27.3 bits (59), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 111 PRNEDQNGCIKTFNVVAQEFNTQLKDSVSDQRTQLHDAVFIH 152
P N G I++ N ++ Q++D +T + AVFIH
Sbjct: 96 PYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIH 137
>pdb|3VQ4|A Chain A, Fragments Bound To Hiv-1 Integrase
pdb|3VQ4|B Chain B, Fragments Bound To Hiv-1 Integrase
pdb|3VQ6|A Chain A, Hiv-1 In Core Domain In Complex With
(1-methyl-5-phenyl-1h-pyrazol-4- Yl)methanol
pdb|3VQ6|B Chain B, Hiv-1 In Core Domain In Complex With
(1-methyl-5-phenyl-1h-pyrazol-4- Yl)methanol
pdb|3VQ7|A Chain A, Hiv-1 In Core Domain In Complex With
4-(1h-pyrrol-1-yl)aniline
pdb|3VQ7|B Chain B, Hiv-1 In Core Domain In Complex With
4-(1h-pyrrol-1-yl)aniline
pdb|3VQA|A Chain A, Hiv-1 In Core Domain In Complex With
1-benzothiophen-6-amine 1,1- Dioxide
pdb|3VQA|B Chain B, Hiv-1 In Core Domain In Complex With
1-benzothiophen-6-amine 1,1- Dioxide
pdb|3VQB|A Chain A, Hiv-1 In Core Domain In Complex With
6-fluoro-4h-1,3-benzodioxine-8- Carboxylic Acid
pdb|3VQB|B Chain B, Hiv-1 In Core Domain In Complex With
6-fluoro-4h-1,3-benzodioxine-8- Carboxylic Acid
pdb|3VQC|A Chain A, Hiv-1 In Core Domain In Complex With
(5-methyl-3-phenyl-1,2-oxazol-4- Yl)methanol
pdb|3VQC|B Chain B, Hiv-1 In Core Domain In Complex With
(5-methyl-3-phenyl-1,2-oxazol-4- Yl)methanol
pdb|3VQD|A Chain A, Hiv-1 In Core Domain In Complex With
5-methyl-3-phenyl-1,2-oxazole-4- Carboxylic Acid
pdb|3VQD|B Chain B, Hiv-1 In Core Domain In Complex With
5-methyl-3-phenyl-1,2-oxazole-4- Carboxylic Acid
pdb|3VQP|A Chain A, Hiv-1 In Core Domain In Complex With
2,3-dihydro-1,4-benzodioxin-5- Ylmethanol
pdb|3VQP|B Chain B, Hiv-1 In Core Domain In Complex With
2,3-dihydro-1,4-benzodioxin-5- Ylmethanol
pdb|3VQQ|A Chain A, Hiv-1 Integrase Core Domain In Complex With
2,1,3-benzothiadiazol-4- Amine
pdb|3VQQ|B Chain B, Hiv-1 Integrase Core Domain In Complex With
2,1,3-benzothiadiazol-4- Amine
Length = 158
Score = 27.3 bits (59), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 111 PRNEDQNGCIKTFNVVAQEFNTQLKDSVSDQRTQLHDAVFIH 152
P N G I++ N ++ Q++D +T + AVFIH
Sbjct: 88 PYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIH 129
>pdb|3L3U|A Chain A, Crystal Structure Of The Hiv-1 Integrase Core Domain To
1.4a
pdb|3L3U|B Chain B, Crystal Structure Of The Hiv-1 Integrase Core Domain To
1.4a
pdb|3L3V|A Chain A, Structure Of Hiv-1 Integrase Core Domain In Complex With
Sucrose
pdb|3L3V|B Chain B, Structure Of Hiv-1 Integrase Core Domain In Complex With
Sucrose
pdb|3AO1|A Chain A, Fragment-Based Approach To The Design Of Ligands Targeting
A Novel Site In Hiv-1 Integrase
pdb|3AO1|B Chain B, Fragment-Based Approach To The Design Of Ligands Targeting
A Novel Site In Hiv-1 Integrase
pdb|3OVN|A Chain A, Fragment-Based Approach To The Design Of Ligands Targeting
A Novel Site On Hiv-1 Integrase
pdb|3OVN|B Chain B, Fragment-Based Approach To The Design Of Ligands Targeting
A Novel Site On Hiv-1 Integrase
Length = 163
Score = 27.3 bits (59), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 111 PRNEDQNGCIKTFNVVAQEFNTQLKDSVSDQRTQLHDAVFIH 152
P N G I++ N ++ Q++D +T + AVFIH
Sbjct: 93 PYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIH 134
>pdb|3AO3|A Chain A, Fragment-Based Approach To The Design Of Ligands Targeting
A Novel Site On Hiv-1 Integrase
pdb|3AO3|B Chain B, Fragment-Based Approach To The Design Of Ligands Targeting
A Novel Site On Hiv-1 Integrase
pdb|3AO4|A Chain A, Fragment-Based Approach To The Design Of Ligands Targeting
A Novel Site On Hiv-1 Integrase
pdb|3AO4|B Chain B, Fragment-Based Approach To The Design Of Ligands Targeting
A Novel Site On Hiv-1 Integrase
pdb|3AO5|A Chain A, Fragment-Based Approach To The Design Of Ligands Targeting
A Novel Site On Hiv-1 Integrase
pdb|3AO5|B Chain B, Fragment-Based Approach To The Design Of Ligands Targeting
A Novel Site On Hiv-1 Integrase
pdb|3AO2|A Chain A, Fragment-Based Approach To The Design Of Ligands Targeting
A Novel Site On Hiv-1 Integrase
pdb|3AO2|B Chain B, Fragment-Based Approach To The Design Of Ligands Targeting
A Novel Site On Hiv-1 Integrase
Length = 163
Score = 26.9 bits (58), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 111 PRNEDQNGCIKTFNVVAQEFNTQLKDSVSDQRTQLHDAVFIH 152
P N G I++ N ++ Q++D +T + AVFIH
Sbjct: 93 PYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIH 134
>pdb|1K6Y|A Chain A, Crystal Structure Of A Two-Domain Fragment Of Hiv-1
Integrase
pdb|1K6Y|B Chain B, Crystal Structure Of A Two-Domain Fragment Of Hiv-1
Integrase
pdb|1K6Y|C Chain C, Crystal Structure Of A Two-Domain Fragment Of Hiv-1
Integrase
pdb|1K6Y|D Chain D, Crystal Structure Of A Two-Domain Fragment Of Hiv-1
Integrase
Length = 212
Score = 26.9 bits (58), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 111 PRNEDQNGCIKTFNVVAQEFNTQLKDSVSDQRTQLHDAVFIH 152
P N G I++ N ++ Q++D +T + AVFIH
Sbjct: 142 PYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIH 183
>pdb|1EXQ|A Chain A, Crystal Structure Of The Hiv-1 Integrase Catalytic Core
Domain
pdb|1EXQ|B Chain B, Crystal Structure Of The Hiv-1 Integrase Catalytic Core
Domain
Length = 154
Score = 26.9 bits (58), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 21/42 (50%)
Query: 111 PRNEDQNGCIKTFNVVAQEFNTQLKDSVSDQRTQLHDAVFIH 152
P N G +++ N ++ Q++D +T + AVFIH
Sbjct: 87 PYNPQSQGVVESMNKELKKIIGQVRDQAEHLKTAVQMAVFIH 128
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
0.322 0.136 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,143,856
Number of Sequences: 62578
Number of extensions: 182829
Number of successful extensions: 303
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 26
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 276
Number of HSP's gapped (non-prelim): 28
length of query: 188
length of database: 14,973,337
effective HSP length: 93
effective length of query: 95
effective length of database: 9,153,583
effective search space: 869590385
effective search space used: 869590385
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 48 (23.1 bits)