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= 045010
(146 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3M7R|A Chain A, Crystal Structure Of Vdr H305q Mutant
Length = 253
Score = 31.2 bits (69), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 23/39 (58%), Gaps = 2/39 (5%)
Query: 95 IYSYVKGKHPPGADHLDYAR--TKIADKARDMTERAKEY 131
+ +Y++ +HPP HL YA+ K+AD E +K+Y
Sbjct: 193 LQTYIRCRHPPPGSHLLYAKMIQKLADLRSLNEEHSKQY 231
>pdb|3B0T|A Chain A, Human Vdr Ligand Binding Domain In Complex With
Maxacalcitol
Length = 254
Score = 31.2 bits (69), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 23/39 (58%), Gaps = 2/39 (5%)
Query: 95 IYSYVKGKHPPGADHLDYAR--TKIADKARDMTERAKEY 131
+ +Y++ +HPP HL YA+ K+AD E +K+Y
Sbjct: 194 LQTYIRCRHPPPGSHLLYAKMIQKLADLRSLNEEHSKQY 232
>pdb|3AZ1|A Chain A, Crystal Structure Analysis Of Vitamin D Receptor
pdb|3AZ2|A Chain A, Crystal Structure Analysis Of Vitamin D Receptor
pdb|3AZ3|A Chain A, Crystal Structure Analysis Of Vitamin D Receptor
Length = 253
Score = 31.2 bits (69), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 23/39 (58%), Gaps = 2/39 (5%)
Query: 95 IYSYVKGKHPPGADHLDYAR--TKIADKARDMTERAKEY 131
+ +Y++ +HPP HL YA+ K+AD E +K+Y
Sbjct: 193 LQTYIRCRHPPPGSHLLYAKMIQKLADLRSLNEEHSKQY 231
>pdb|3A2I|A Chain A, Crystal Structure Of The Human Vitamin D Receptor (H305f)
Ligand Binding Domain Complexed With Tei-9647
Length = 263
Score = 30.8 bits (68), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 23/39 (58%), Gaps = 2/39 (5%)
Query: 95 IYSYVKGKHPPGADHLDYAR--TKIADKARDMTERAKEY 131
+ +Y++ +HPP HL YA+ K+AD E +K+Y
Sbjct: 199 LQTYIRCRHPPPGSHLLYAKMIQKLADLRSLNEEHSKQY 237
>pdb|1DB1|A Chain A, Crystal Structure Of The Nuclear Receptor For Vitamin D
Complexed To Vitamin D
pdb|1IE8|A Chain A, Crystal Structure Of The Nuclear Receptor For Vitamin D
Ligand Binding Domain Bound To Kh1060
pdb|1IE9|A Chain A, Crystal Structure Of The Nuclear Receptor For Vitamin D
Ligand Binding Domain Bound To Mc1288
pdb|3OGT|A Chain A, Design, Chemical Synthesis, Functional Characterization
And Crystal Structure Of The Sidechain Analogue Of
1,25-Dihydroxyvitamin D3.
pdb|3KPZ|A Chain A, Crystal Structure Of A Novel Vitamin D3 Analogue, Zk203278
Showing Dissociated Profile
pdb|3TKC|A Chain A, Design, Synthesis, Evaluation And Structure Of Vitamin D
Analogues With Furan Side Chains
pdb|4G2I|A Chain A, Structural Basis For The Accommodation Of Bis- And
Tris-Aromatic Derivatives In Vitamin D Nuclear Receptor
Length = 259
Score = 30.8 bits (68), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 23/39 (58%), Gaps = 2/39 (5%)
Query: 95 IYSYVKGKHPPGADHLDYAR--TKIADKARDMTERAKEY 131
+ +Y++ +HPP HL YA+ K+AD E +K+Y
Sbjct: 195 LQTYIRCRHPPPGSHLLYAKMIQKLADLRSLNEEHSKQY 233
>pdb|3P8X|A Chain A, Synthesis, Structure, And Biological Activity Of Des-Side
Chain Analogues Of 1alpha,25-Dihydroxyvitamin D3 With
Substituents At C-18
Length = 280
Score = 30.8 bits (68), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 23/39 (58%), Gaps = 2/39 (5%)
Query: 95 IYSYVKGKHPPGADHLDYAR--TKIADKARDMTERAKEY 131
+ +Y++ +HPP HL YA+ K+AD E +K+Y
Sbjct: 216 LQTYIRCRHPPPGSHLLYAKMIQKLADLRSLNEEHSKQY 254
>pdb|1S0Z|A Chain A, Crystal Structure Of The Vdr Lbd Complexed To Seocalcitol.
pdb|1S19|A Chain A, Crystal Structure Of Vdr Ligand Binding Domain Complexed
To Calcipotriol.
pdb|1TXI|A Chain A, Crystal Structure Of The Vdr Ligand Binding Domain
Complexed To Tx522
pdb|2HAM|A Chain A, Crystal Structure Of Vdr Lbd Complexed To 2alpha-Propyl-
Calcitriol
pdb|2HAR|A Chain A, Crystal Structure Of Vdr Lbd In Complex With 2 Alpha-(3-
Hydroxy-1-Propoxy) Calcitriol
pdb|2HAS|A Chain A, Crystal Structure Of Vdr Lbd In Complex With 2alpha-(1-
Propoxy) Calcitriol
pdb|2HB7|A Chain A, Crystal Structure Of Vdr Lbd In Complex With 2alpha(3-
Hydroxy-1-Propyl) Calcitriol
pdb|2HB8|A Chain A, Crystal Structure Of Vdr Lbd In Complex With 2alpha-Methyl
Calcitriol
pdb|3CS4|A Chain A, Structure-Based Design Of A Superagonist Ligand For The
Vitamin D Nuclear Receptor
pdb|3CS6|A Chain A, Structure-Based Design Of A Superagonist Ligand For The
Vitamin D Nuclear Receptor
pdb|3A3Z|X Chain X, Crystal Structure Of The Human Vdr Ligand Binding Domain
Bound To The Synthetic Agonist Compound 2alpha-Methyl-
Amcr277a(C23s)
pdb|3A40|X Chain X, Crystal Structure Of The Human Vdr Ligand Binding Domain
Bound To The Synthetic Agonist Compound 2alpha-Methyl-
Amcr277b(C23r)
pdb|3A78|A Chain A, Crystal Structure Of The Human Vdr Ligand Binding Domain
Bound To The Natural Metabolite
1alpha,25-Dihydroxy-3-Epi-Vitamin D3
pdb|3AUQ|A Chain A, Crystal Structure Of The Human Vitamin D Receptor Ligand
Binding Domain Complexed With Yne-Diene Type Analog Of
Active 14-Epi-2alpha- Methyl-19-Norvitamin D3
pdb|3AUR|A Chain A, Crystal Structure Of The Human Vitamin D Receptor Ligand
Binding Domain Complexed With Yne-Diene Type Analog Of
Active 14-Epi-2beta- Methyl-19-Norvitamin D3
pdb|3AX8|A Chain A, Crystal Structure Of The Human Vitamin D Receptor Ligand
Binding Domain Complexed With
15alpha-Methoxy-1alpha,25-Dihydroxyvitamin D3
Length = 263
Score = 30.8 bits (68), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 23/39 (58%), Gaps = 2/39 (5%)
Query: 95 IYSYVKGKHPPGADHLDYAR--TKIADKARDMTERAKEY 131
+ +Y++ +HPP HL YA+ K+AD E +K+Y
Sbjct: 199 LQTYIRCRHPPPGSHLLYAKMIQKLADLRSLNEEHSKQY 237
>pdb|3A2J|A Chain A, Crystal Structure Of The Human Vitamin D Receptor
(H305fH397F) LIGAND Binding Domain Complexed With
Tei-9647
Length = 263
Score = 30.0 bits (66), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 23/39 (58%), Gaps = 2/39 (5%)
Query: 95 IYSYVKGKHPPGADHLDYAR--TKIADKARDMTERAKEY 131
+ +Y++ +HPP HL YA+ K+AD E +K+Y
Sbjct: 199 LQTYIRCRHPPPGSHLLYAKMIQKLADLRSLNEEFSKQY 237
>pdb|1RJK|A Chain A, Crystal Structure Of The Rat Vitamin D Receptor Ligand
Binding Domain Complexed With 2md And A Synthetic
Peptide Containing The Nr2 Box Of Drip 205
pdb|1RK3|A Chain A, Crystal Structure Of The Rat Vitamin D Receptor Ligand
Binding Domain Complexed With 1,25-Dihydroxyvitamin D3
And A Synthetic Peptide Containing The Nr2 Box Of Drip
205
pdb|1RKG|A Chain A, Crystal Structure Of The Rat Vitamin D Receptor Ligand
Binding Domain Complexed With 2mbisp And A Synthetic
Peptide Containing The Nr2 Box Of Drip 205
pdb|1RKH|A Chain A, Crystal Structure Of The Rat Vitamin D Receptor Ligand
Binding Domain Complexed With 2am20r And A Synthetic
Peptide Containing The Nr2 Box Of Drip 205
pdb|2O4J|A Chain A, Crystal Structure Of Rat Vitamin D Receptor Ligand Binding
Domain Complexed With Vitiii 17-20z And The Nr2 Box Of
Drip 205
pdb|2O4R|A Chain A, Crystal Structure Of Rat Vitamin D Receptor Ligand Binding
Domain Complexed With Vitiii 17-20e And The Nr2 Box Of
Drip 205
Length = 292
Score = 27.7 bits (60), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 95 IYSYVKGKHPPGADHLDYAR--TKIADKARDMTERAKEY 131
+ +Y++ +HPP H YA+ K+AD E +K+Y
Sbjct: 197 LQTYIRCRHPPPGSHQLYAKMIQKLADLRSLNEEHSKQY 235
>pdb|2ZL9|A Chain A, 2-Substituted-16-Ene-22-Thia-1alpha,25-Dihydroxy-26,27-
Dimethyl-19-Norvitamin D3 Analogs: Synthesis, Biological
Evaluation And Crystal Structure
pdb|2ZLA|A Chain A, 2-Substituted-16-Ene-22-Thia-1alpha,25-Dihydroxy-26,27-
Dimethyl-19-Norvitamin D3 Analogs: Synthesis, Biological
Evaluation And Crystal Structure
pdb|2ZLC|A Chain A, 2-Substituted-16-Ene-22-Thia-1alpha,25-Dihydroxy-26,27-
Dimethyl-19-Norvitamin D3 Analogs: Synthesis, Biological
Evaluation And Crystal Structure
pdb|2ZMH|A Chain A, Crystal Structure Of Rat Vitamin D Receptor Bound To
Adamantyl Vitamin D Analogs: Structural Basis For
Vitamin D Receptor Antagonism AndOR PARTIAL AGONISM
pdb|2ZMI|A Chain A, Crystal Structure Of Rat Vitamin D Receptor Bound To
Adamantyl Vitamin D Analogs: Structural Basis For
Vitamin D Receptor Antagonism AndOR PARTIAL AGONISM
pdb|2ZMJ|A Chain A, Crystal Structure Of Rat Vitamin D Receptor Bound To
Adamantyl Vitamin D Analogs: Structural Basis For
Vitamin D Receptor Antagonism AndOR PARTIAL AGONISM
pdb|2ZXM|A Chain A, A New Class Of Vitamin D Receptor Ligands That Induce
Structural Rearrangement Of The Ligand-Binding Pocket
pdb|2ZXN|A Chain A, A New Class Of Vitamin D Receptor Ligands That Induce
Structural Rearrangement Of The Ligand-Binding Pocket
pdb|3AFR|A Chain A, Crystal Structure Of
Vdr-Lbd22S-Butyl-1a,24r-Dihydroxyvitamin D3 Complex
pdb|3VJS|A Chain A, Vitamin D Receptor Complex With A Carborane Compound
pdb|3VJT|A Chain A, Vitamin D Receptor Complex With A Carborane Compound
pdb|3VRT|A Chain A, Vdr Ligand Binding Domain In Complex With
2-Mehylidene-19,25,26,27-
Tetranor-1alpha,24-Dihydroxyvitamind3
pdb|3VRU|A Chain A, Vdr Ligand Binding Domain In Complex With
2-Methylidene-19,24-Dinor- 1alpha,25-Dihydroxy Vitamind3
pdb|3VRV|A Chain A, Vdr Ligand Binding Domain In Complex With
2-Methylidene-26,27-
Dimethyl-19,24-Dinor-1alpha,25-Dihydroxyvitamin D3
pdb|3VRW|A Chain A, Vdr Ligand Binding Domain In Complex With
22s-Butyl-2-Methylidene-26,
27-Dimethyl-19,24-Dinor-1alpha,25-Dihydroxyvitamin D3
Length = 271
Score = 27.7 bits (60), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 95 IYSYVKGKHPPGADHLDYAR--TKIADKARDMTERAKEY 131
+ +Y++ +HPP H YA+ K+AD E +K+Y
Sbjct: 207 LQTYIRCRHPPPGSHQLYAKMIQKLADLRSLNEEHSKQY 245
>pdb|2ZFX|A Chain A, Crystal Structure Of The Rat Vitamin D Receptor Ligand
Binding Domain Complexed With Yr301 And A Synthetic
Peptide Containing The Nr2 Box Of Drip 205
pdb|3A2H|A Chain A, Crystal Structure Of The Rat Vitamin D Receptor Ligand
Binding Domain Complexed With Tei-9647 And A Synthetic
Peptide Containing The Nr2 Box Of Drip 205
pdb|3AUN|A Chain A, Crystal Structure Of The Rat Vitamin D Receptor Ligand
Binding Domain Complexed With Yr335 And A Synthetic
Peptide Containing The Nr2 Box Of Drip 205
Length = 265
Score = 27.7 bits (60), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 95 IYSYVKGKHPPGADHLDYAR--TKIADKARDMTERAKEY 131
+ +Y++ +HPP H YA+ K+AD E +K+Y
Sbjct: 201 LQTYIRCRHPPPGSHQLYAKMIQKLADLRSLNEEHSKQY 239
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
0.320 0.131 0.375
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,454,615
Number of Sequences: 62578
Number of extensions: 113268
Number of successful extensions: 168
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 168
Number of HSP's gapped (non-prelim): 11
length of query: 146
length of database: 14,973,337
effective HSP length: 90
effective length of query: 56
effective length of database: 9,341,317
effective search space: 523113752
effective search space used: 523113752
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 46 (22.3 bits)