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= psy4163
(85 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2V53|A Chain A, Crystal Structure Of A Sparc-Collagen Complex
Length = 230
Score = 49.3 bits (116), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 23/59 (38%), Positives = 33/59 (55%), Gaps = 1/59 (1%)
Query: 17 QH-VGRSVSRHELFPIRANFMALEHCIAPFLNKCDADDDHLITLKEWARCLELNEDEIE 74
QH + +S EL P+RA + +EHC F CD D+D I L EWA C + + +I+
Sbjct: 167 QHPIDGYLSHTELAPLRAPLIPMEHCTTRFFETCDLDNDKYIALDEWAGCFGIKQKDID 225
>pdb|1NUB|A Chain A, Helix C Deletion Mutant Of Bm-40 Fs-Ec Domain Pair
pdb|1NUB|B Chain B, Helix C Deletion Mutant Of Bm-40 Fs-Ec Domain Pair
Length = 229
Score = 49.3 bits (116), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 23/59 (38%), Positives = 33/59 (55%), Gaps = 1/59 (1%)
Query: 17 QH-VGRSVSRHELFPIRANFMALEHCIAPFLNKCDADDDHLITLKEWARCLELNEDEIE 74
QH + +S EL P+RA + +EHC F CD D+D I L EWA C + + +I+
Sbjct: 166 QHPIDGYLSHTELAPLRAPLIPMEHCTTRFFETCDLDNDKYIALDEWAGCFGIKQKDID 224
>pdb|1BMO|A Chain A, Bm-40, FsEC DOMAIN PAIR
pdb|1BMO|B Chain B, Bm-40, FsEC DOMAIN PAIR
Length = 233
Score = 49.3 bits (116), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 23/59 (38%), Positives = 33/59 (55%), Gaps = 1/59 (1%)
Query: 17 QH-VGRSVSRHELFPIRANFMALEHCIAPFLNKCDADDDHLITLKEWARCLELNEDEIE 74
QH + +S EL P+RA + +EHC F CD D+D I L EWA C + + +I+
Sbjct: 170 QHPIDGYLSHTELAPLRAPLIPMEHCTTRFFETCDLDNDKYIALDEWAGCFGIKQKDID 228
>pdb|1SRA|A Chain A, Structure Of A Novel Extracellular Ca2+-Binding Module In
Bm-40(Slash)sparc(Slash)osteonectin
Length = 151
Score = 49.3 bits (116), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 23/59 (38%), Positives = 33/59 (55%), Gaps = 1/59 (1%)
Query: 17 QH-VGRSVSRHELFPIRANFMALEHCIAPFLNKCDADDDHLITLKEWARCLELNEDEIE 74
QH + +S EL P+RA + +EHC F CD D+D I L EWA C + + +I+
Sbjct: 88 QHPIDGYLSHTELAPLRAPLIPMEHCTTRFFETCDLDNDKYIALDEWAGCFGIKQKDID 146
>pdb|1XIU|A Chain A, Crystal Structure Of The Agonist-Bound Ligand-Binding
Domain Of Biomphalaria Glabrata Rxr
pdb|1XIU|B Chain B, Crystal Structure Of The Agonist-Bound Ligand-Binding
Domain Of Biomphalaria Glabrata Rxr
Length = 230
Score = 30.4 bits (67), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 19/39 (48%), Gaps = 1/39 (2%)
Query: 44 PFLNKCDADDDHLITLKEWA-RCLELNEDEIEDQCEDVR 81
P N C A D L TL EWA R E +EDQ +R
Sbjct: 32 PVTNICQAADKQLFTLVEWAKRIPHFTELPLEDQVILLR 70
>pdb|1YMT|A Chain A, Mouse Sf-1 Lbd
Length = 246
Score = 30.0 bits (66), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 43 APFLNKCDADDDHLITLKEWA-RCLELNEDEIEDQCEDVRND 83
APF C D I++ +WA RC+ E E+ DQ ++N
Sbjct: 45 APFSLLCRMADQTFISIVDWARRCMVFKELEVADQMTLLQNS 86
>pdb|1YP0|A Chain A, Structure Of The Steroidogenic Factor-1 Ligand Binding
Domain Bound To Phospholipid And A Shp Peptide Motif
Length = 239
Score = 29.3 bits (64), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 22/41 (53%), Gaps = 1/41 (2%)
Query: 43 APFLNKCDADDDHLITLKEWA-RCLELNEDEIEDQCEDVRN 82
APF C D I++ +WA RC+ E E+ DQ ++N
Sbjct: 39 APFSLLCRMADQTFISIVDWARRCMVFKELEVADQMTLLQN 79
>pdb|3EYB|A Chain A, Structural And Functional Insights Into The Ligand
Binding Domain Of A Non-Duplicated Rxr From The
Invertebrate Chordate Amphioxus
pdb|3EYB|B Chain B, Structural And Functional Insights Into The Ligand
Binding Domain Of A Non-Duplicated Rxr From The
Invertebrate Chordate Amphioxus
pdb|3EYB|C Chain C, Structural And Functional Insights Into The Ligand
Binding Domain Of A Non-Duplicated Rxr From The
Invertebrate Chordate Amphioxus
pdb|3EYB|D Chain D, Structural And Functional Insights Into The Ligand
Binding Domain Of A Non-Duplicated Rxr From The
Invertebrate Chordate Amphioxus
Length = 219
Score = 29.3 bits (64), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 44 PFLNKCDADDDHLITLKEWA-RCLELNEDEIEDQCEDVR 81
P N C A D L+TL EWA R ++ I+DQ +R
Sbjct: 28 PVTNICQAADKQLVTLVEWAKRIPHFSDLPIDDQVILLR 66
>pdb|3E94|A Chain A, Crystal Structure Of Rxralpha Ligand Binding Domain In
Complex With Tributyltin And A Coactivator Fragment
pdb|3KWY|A Chain A, Crystal Structure Of Rxralpha Ligand Binding Domain In
Complex With Triphenyltin And A Coactivator Fragment
Length = 244
Score = 29.3 bits (64), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 44 PFLNKCDADDDHLITLKEWA-RCLELNEDEIEDQCEDVR 81
P N C A D L TL EWA R +E ++DQ +R
Sbjct: 46 PVTNICQAADKQLFTLVEWAKRIPHFSELPLDDQVILLR 84
>pdb|3UVV|B Chain B, Crystal Structure Of The Ligand Binding Domains Of The
Thyroid Receptor:retinoid X Receptor Complexed With
3,3',5 Triiodo-L- Thyronine And 9-Cis Retinoic Acid
Length = 244
Score = 29.3 bits (64), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 44 PFLNKCDADDDHLITLKEWA-RCLELNEDEIEDQCEDVR 81
P N C A D L TL EWA R +E ++DQ +R
Sbjct: 44 PVTNICQAADKQLFTLVEWAKRIPHFSELPLDDQVILLR 82
>pdb|1MV9|A Chain A, Crystal Structure Of The Human Rxr Alpha Ligand Binding
Domain Bound To The Eicosanoid Dha (Docosa Hexaenoic
Acid) And A Coactivator Peptide
pdb|1MVC|A Chain A, Crystal Structure Of The Human Rxr Alpha Ligand Binding
Domain Bound To The Synthetic Agonist Compound Bms 649
And A Coactivator Peptide
pdb|1MZN|A Chain A, Crystal Structure At 1.9 Angstroems Resolution Of The
Homodimer Of Human Rxr Alpha Ligand Binding Domain
Bound To The Synthetic Agonist Compound Bms 649 And A
Coactivator Peptide
pdb|1MZN|C Chain C, Crystal Structure At 1.9 Angstroems Resolution Of The
Homodimer Of Human Rxr Alpha Ligand Binding Domain
Bound To The Synthetic Agonist Compound Bms 649 And A
Coactivator Peptide
pdb|1MZN|E Chain E, Crystal Structure At 1.9 Angstroems Resolution Of The
Homodimer Of Human Rxr Alpha Ligand Binding Domain
Bound To The Synthetic Agonist Compound Bms 649 And A
Coactivator Peptide
pdb|1MZN|G Chain G, Crystal Structure At 1.9 Angstroems Resolution Of The
Homodimer Of Human Rxr Alpha Ligand Binding Domain
Bound To The Synthetic Agonist Compound Bms 649 And A
Coactivator Peptide
pdb|2P1T|A Chain A, Crystal Structure Of The Ligand Binding Domain Of The
Retinoid X Receptor Alpha In Complex With
3-(2'-Methoxy)- Tetrahydronaphtyl Cinnamic Acid And A
Fragment Of The Coactivator Tif-2
pdb|2P1U|A Chain A, Crystal Structure Of The Ligand Binding Domain Of The
Retinoid X Receptor Alpha In Complex With
3-(2'-Ethoxy)- Tetrahydronaphtyl Cinnamic Acid And A
Fragment Of The Coactivator Tif-2
pdb|2P1V|A Chain A, Crystal Structure Of The Ligand Binding Domain Of The
Retinoid X Receptor Alpha In Complex With
3-(2'-Propoxy)- Tetrahydronaphtyl Cinnamic Acid And A
Fragment Of The Coactivator Tif-2
pdb|3FUG|A Chain A, Crystal Structure Of The Retinoid X Receptor Ligand
Binding Domain Bound To The Synthetic Agonist
3-[4-Hydroxy-3-(3,5,
5,8,8-Pentamethyl-5,6,7,8-Tetrahydronaphthalen-2-Yl)-
Phenyl]acrylic Acid
pdb|2ZXZ|A Chain A, Crystal Structure Of The Human Rxr Alpha Ligand Binding
Domain Bound To A Synthetic Agonist Compound And A
Coactivator Peptide
pdb|2ZY0|A Chain A, Crystal Structure Of The Human Rxr Alpha Ligand Binding
Domain Bound To A Synthetic Agonist Compound And A
Coactivator Peptide
pdb|2ZY0|C Chain C, Crystal Structure Of The Human Rxr Alpha Ligand Binding
Domain Bound To A Synthetic Agonist Compound And A
Coactivator Peptide
pdb|3NSP|A Chain A, Crystal Structure Of Tetrameric Rxralpha-Lbd
pdb|3NSP|B Chain B, Crystal Structure Of Tetrameric Rxralpha-Lbd
pdb|3NSQ|A Chain A, Crystal Structure Of Tetrameric Rxralpha-Lbd Complexed
With Antagonist Danthron
pdb|3NSQ|B Chain B, Crystal Structure Of Tetrameric Rxralpha-Lbd Complexed
With Antagonist Danthron
pdb|3R29|A Chain A, Crystal Structure Of Rxralpha Ligand-Binding Domain
Complexed With Corepressor Smrt2
pdb|3R29|B Chain B, Crystal Structure Of Rxralpha Ligand-Binding Domain
Complexed With Corepressor Smrt2
pdb|3R2A|A Chain A, Crystal Structure Of Rxralpha Ligand-Binding Domain
Complexed With Corepressor Smrt2 And Antagonist Rhein
pdb|3R2A|B Chain B, Crystal Structure Of Rxralpha Ligand-Binding Domain
Complexed With Corepressor Smrt2 And Antagonist Rhein
pdb|3R2A|C Chain C, Crystal Structure Of Rxralpha Ligand-Binding Domain
Complexed With Corepressor Smrt2 And Antagonist Rhein
pdb|3R2A|D Chain D, Crystal Structure Of Rxralpha Ligand-Binding Domain
Complexed With Corepressor Smrt2 And Antagonist Rhein
pdb|3R5M|A Chain A, Crystal Structure Of Rxralphalbd Complexed With The
Agonist Magnolol
pdb|3R5M|C Chain C, Crystal Structure Of Rxralphalbd Complexed With The
Agonist Magnolol
Length = 240
Score = 29.3 bits (64), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 44 PFLNKCDADDDHLITLKEWA-RCLELNEDEIEDQCEDVR 81
P N C A D L TL EWA R +E ++DQ +R
Sbjct: 42 PVTNICQAADKQLFTLVEWAKRIPHFSELPLDDQVILLR 80
>pdb|3A9E|A Chain A, Crystal Structure Of A Mixed Agonist-Bound Rar-Alpha And
Antagonist- Bound Rxr-Alpha Heterodimer Ligand Binding
Domains
Length = 240
Score = 29.3 bits (64), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 44 PFLNKCDADDDHLITLKEWA-RCLELNEDEIEDQCEDVR 81
P N C A D L TL EWA R +E ++DQ +R
Sbjct: 42 PVTNICQAADKQLFTLVEWAKRIPHFSELPLDDQVILLR 80
>pdb|1FBY|A Chain A, Crystal Structure Of The Human Rxr Alpha Ligand Binding
Domain Bound To 9-Cis Retinoic Acid
pdb|1FBY|B Chain B, Crystal Structure Of The Human Rxr Alpha Ligand Binding
Domain Bound To 9-Cis Retinoic Acid
Length = 239
Score = 29.3 bits (64), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 44 PFLNKCDADDDHLITLKEWA-RCLELNEDEIEDQCEDVR 81
P N C A D L TL EWA R +E ++DQ +R
Sbjct: 41 PVTNICQAADKQLFTLVEWAKRIPHFSELPLDDQVILLR 79
>pdb|1RDT|A Chain A, Crystal Structure Of A New Rexinoid Bound To The
Rxralpha Ligand Binding Doamin In The RxralphaPPARGAMMA
HETERODIMER
pdb|3FC6|A Chain A, Hrxralpha & Mlxralpha With An Indole Pharmacophore,
Sb786875
pdb|3FC6|C Chain C, Hrxralpha & Mlxralpha With An Indole Pharmacophore,
Sb786875
pdb|3FAL|A Chain A, Humanrxr Alpha & Mouse Lxr Alpha Complexed With Retenoic
Acid And Gsk2186
pdb|3FAL|C Chain C, Humanrxr Alpha & Mouse Lxr Alpha Complexed With Retenoic
Acid And Gsk2186
Length = 242
Score = 29.3 bits (64), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 44 PFLNKCDADDDHLITLKEWA-RCLELNEDEIEDQCEDVR 81
P N C A D L TL EWA R +E ++DQ +R
Sbjct: 44 PVTNICQAADKQLFTLVEWAKRIPHFSELPLDDQVILLR 82
>pdb|3PCU|A Chain A, Crystal Structure Of Human Retinoic X Receptor Alpha
Ligand-Binding Domain Complexed With Lx0278 And Src1
Peptide
Length = 230
Score = 29.3 bits (64), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 44 PFLNKCDADDDHLITLKEWA-RCLELNEDEIEDQCEDVR 81
P N C A D L TL EWA R +E ++DQ +R
Sbjct: 36 PVTNICQAADKQLFTLVEWAKRIPHFSELPLDDQVILLR 74
>pdb|1FM6|A Chain A, The 2.1 Angstrom Resolution Crystal Structure Of The
Heterodimer Of The Human Rxralpha And Ppargamma Ligand
Binding Domains Respectively Bound With 9-Cis Retinoic
Acid And Rosiglitazone And Co-Activator Peptides.
pdb|1FM6|U Chain U, The 2.1 Angstrom Resolution Crystal Structure Of The
Heterodimer Of The Human Rxralpha And Ppargamma Ligand
Binding Domains Respectively Bound With 9-Cis Retinoic
Acid And Rosiglitazone And Co-Activator Peptides.
pdb|1FM9|A Chain A, The 2.1 Angstrom Resolution Crystal Structure Of The
Heterodimer Of The Human Rxralpha And Ppargamma Ligand
Binding Domains Respectively Bound With 9-Cis Retinoic
Acid And Gi262570 And Co-Activator Peptides.
pdb|1G5Y|A Chain A, The 2.0 Angstrom Resolution Crystal Structure Of The
Rxralpha Ligand Binding Domain Tetramer In The Presence
Of A Non-Activating Retinoic Acid Isomer.
pdb|1G5Y|B Chain B, The 2.0 Angstrom Resolution Crystal Structure Of The
Rxralpha Ligand Binding Domain Tetramer In The Presence
Of A Non-Activating Retinoic Acid Isomer.
pdb|1G5Y|C Chain C, The 2.0 Angstrom Resolution Crystal Structure Of The
Rxralpha Ligand Binding Domain Tetramer In The Presence
Of A Non-Activating Retinoic Acid Isomer.
pdb|1G5Y|D Chain D, The 2.0 Angstrom Resolution Crystal Structure Of The
Rxralpha Ligand Binding Domain Tetramer In The Presence
Of A Non-Activating Retinoic Acid Isomer.
pdb|1G1U|A Chain A, The 2.5 Angstrom Resolution Crystal Structure Of The
Rxralpha Ligand Binding Domain In Tetramer In The
Absence Of Ligand
pdb|1G1U|B Chain B, The 2.5 Angstrom Resolution Crystal Structure Of The
Rxralpha Ligand Binding Domain In Tetramer In The
Absence Of Ligand
pdb|1G1U|C Chain C, The 2.5 Angstrom Resolution Crystal Structure Of The
Rxralpha Ligand Binding Domain In Tetramer In The
Absence Of Ligand
pdb|1G1U|D Chain D, The 2.5 Angstrom Resolution Crystal Structure Of The
Rxralpha Ligand Binding Domain In Tetramer In The
Absence Of Ligand
pdb|1K74|A Chain A, The 2.3 Angstrom Resolution Crystal Structure Of The
Heterodimer Of The Human Ppargamma And Rxralpha Ligand
Binding Domains Respectively Bound With Gw409544 And
9-Cis Retinoic Acid And Co-Activator Peptides.
pdb|2ACL|A Chain A, Liver X-Receptor Alpha Ligand Binding Domain With
Sb313987
pdb|2ACL|C Chain C, Liver X-Receptor Alpha Ligand Binding Domain With
Sb313987
pdb|2ACL|E Chain E, Liver X-Receptor Alpha Ligand Binding Domain With
Sb313987
pdb|2ACL|G Chain G, Liver X-Receptor Alpha Ligand Binding Domain With
Sb313987
pdb|3OZJ|A Chain A, Crystal Structure Of Human Retinoic X Receptor Alpha
Complexed With Bigelovin And Coactivator Src-1
pdb|3OZJ|C Chain C, Crystal Structure Of Human Retinoic X Receptor Alpha
Complexed With Bigelovin And Coactivator Src-1
Length = 238
Score = 29.3 bits (64), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 44 PFLNKCDADDDHLITLKEWA-RCLELNEDEIEDQCEDVR 81
P N C A D L TL EWA R +E ++DQ +R
Sbjct: 40 PVTNICQAADKQLFTLVEWAKRIPHFSELPLDDQVILLR 78
>pdb|1XDK|A Chain A, Crystal Structure Of The RarbetaRXRALPHA LIGAND BINDING
Domain Heterodimer In Complex With 9-Cis Retinoic Acid
And A Fragment Of The Trap220 Coactivator
pdb|1XDK|E Chain E, Crystal Structure Of The RarbetaRXRALPHA LIGAND BINDING
Domain Heterodimer In Complex With 9-Cis Retinoic Acid
And A Fragment Of The Trap220 Coactivator
Length = 238
Score = 29.3 bits (64), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 44 PFLNKCDADDDHLITLKEWA-RCLELNEDEIEDQCEDVR 81
P N C A D L TL EWA R +E ++DQ +R
Sbjct: 40 PVTNICQAADKQLFTLVEWAKRIPHFSELPLDDQVILLR 78
>pdb|3H0A|A Chain A, Crystal Structure Of Peroxisome Proliferator-Activated
Receptor Gamma (Pparg) And Retinoic Acid Receptor Alpha
(Rxra) In Complex With 9-Cis Retinoic Acid,
Co-Activator Peptide, And A Partial Agonist
Length = 228
Score = 29.3 bits (64), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 44 PFLNKCDADDDHLITLKEWA-RCLELNEDEIEDQCEDVR 81
P N C A D L TL EWA R +E ++DQ +R
Sbjct: 37 PVTNICQAADKQLFTLVEWAKRIPHFSELPLDDQVILLR 75
>pdb|3OAP|A Chain A, Crystal Structure Of Human Retinoid X Receptor
Alpha-Ligand Binding Domain Complex With 9-Cis Retinoic
Acid And The Coactivator Peptide Grip-1
Length = 231
Score = 29.3 bits (64), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 44 PFLNKCDADDDHLITLKEWA-RCLELNEDEIEDQCEDVR 81
P N C A D L TL EWA R +E ++DQ +R
Sbjct: 37 PVTNICQAADKQLFTLVEWAKRIPHFSELPLDDQVILLR 75
>pdb|1XV9|A Chain A, Crystal Structure Of CarRXR HETERODIMER BOUND WITH SRC1
Peptide, Fatty Acid, And 5b-Pregnane-3,20-Dione.
pdb|1XV9|C Chain C, Crystal Structure Of CarRXR HETERODIMER BOUND WITH SRC1
Peptide, Fatty Acid, And 5b-Pregnane-3,20-Dione.
pdb|1XVP|A Chain A, Crystal Structure Of CarRXR HETERODIMER BOUND WITH SRC1
Peptide, Fatty Acid And Citco
pdb|1XVP|C Chain C, Crystal Structure Of CarRXR HETERODIMER BOUND WITH SRC1
Peptide, Fatty Acid And Citco
Length = 236
Score = 29.3 bits (64), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 44 PFLNKCDADDDHLITLKEWA-RCLELNEDEIEDQCEDVR 81
P N C A D L TL EWA R +E ++DQ +R
Sbjct: 38 PVTNICQAADKQLFTLVEWAKRIPHFSELPLDDQVILLR 76
>pdb|1XLS|A Chain A, Crystal Structure Of The Mouse CarRXR LBD HETERODIMER
Bound To Tcpobop And 9cra And A Tif2 Peptide Containg
The Third Lxxll Motifs
pdb|1XLS|B Chain B, Crystal Structure Of The Mouse CarRXR LBD HETERODIMER
Bound To Tcpobop And 9cra And A Tif2 Peptide Containg
The Third Lxxll Motifs
pdb|1XLS|C Chain C, Crystal Structure Of The Mouse CarRXR LBD HETERODIMER
Bound To Tcpobop And 9cra And A Tif2 Peptide Containg
The Third Lxxll Motifs
pdb|1XLS|D Chain D, Crystal Structure Of The Mouse CarRXR LBD HETERODIMER
Bound To Tcpobop And 9cra And A Tif2 Peptide Containg
The Third Lxxll Motifs
Length = 232
Score = 28.9 bits (63), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 44 PFLNKCDADDDHLITLKEWA-RCLELNEDEIEDQCEDVR 81
P N C A D L TL EWA R +E ++DQ +R
Sbjct: 38 PVTNICQAADKQLFTLVEWAKRIPHFSELPLDDQVILLR 76
>pdb|1DKF|A Chain A, Crystal Structure Of A Heterodimeric Complex Of Rar And
Rxr Ligand-Binding Domains
Length = 233
Score = 28.9 bits (63), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 44 PFLNKCDADDDHLITLKEWA-RCLELNEDEIEDQCEDVR 81
P N C A D L TL EWA R +E ++DQ +R
Sbjct: 40 PVTNICQAADKQLFTLVEWAKRIPHFSELPLDDQVILLR 78
>pdb|1LBD|A Chain A, Ligand-Binding Domain Of The Human Nuclear Receptor
Rxr-Alpha
Length = 282
Score = 28.9 bits (63), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 44 PFLNKCDADDDHLITLKEWA-RCLELNEDEIEDQCEDVR 81
P N C A D L TL EWA R +E ++DQ +R
Sbjct: 84 PVTNICQAADKQLFTLVEWAKRIPHFSELPLDDQVILLR 122
>pdb|3DZU|A Chain A, Intact Ppar Gamma - Rxr Alpha Nuclear Receptor Complex On
Dna Bound With Bvt.13, 9-Cis Retinoic Acid And Ncoa2
Peptide
pdb|3DZY|A Chain A, Intact Ppar Gamma - Rxr Alpha Nuclear Receptor Complex On
Dna Bound With Rosiglitazone, 9-Cis Retinoic Acid And
Ncoa2 Peptide
pdb|3E00|A Chain A, Intact Ppar Gamma - Rxr Alpha Nuclear Receptor Complex On
Dna Bound With Gw9662, 9-Cis Retinoic Acid And Ncoa2
Peptide
Length = 467
Score = 28.9 bits (63), Expect = 0.80, Method: Composition-based stats.
Identities = 15/34 (44%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 44 PFLNKCDADDDHLITLKEWA-RCLELNEDEIEDQ 76
P N C A D L TL EWA R +E ++DQ
Sbjct: 269 PVTNICQAADKQLFTLVEWAKRIPHFSELPLDDQ 302
>pdb|2Q60|A Chain A, Crystal Structure Of The Ligand Binding Domain Of
Polyandrocarpa Misakiensis Rxr In Tetramer In Absence
Of Ligand
pdb|2Q60|B Chain B, Crystal Structure Of The Ligand Binding Domain Of
Polyandrocarpa Misakiensis Rxr In Tetramer In Absence
Of Ligand
pdb|2Q60|C Chain C, Crystal Structure Of The Ligand Binding Domain Of
Polyandrocarpa Misakiensis Rxr In Tetramer In Absence
Of Ligand
pdb|2Q60|D Chain D, Crystal Structure Of The Ligand Binding Domain Of
Polyandrocarpa Misakiensis Rxr In Tetramer In Absence
Of Ligand
Length = 258
Score = 28.9 bits (63), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 44 PFLNKCDADDDHLITLKEWA-RCLELNEDEIEDQCEDVR 81
P N C A D L+TL EWA R + +EDQ +R
Sbjct: 59 PVSNICKAADRQLVTLVEWAKRIPHFSSLPLEDQVILLR 97
>pdb|2GL8|A Chain A, Human Retinoic Acid Receptor Rxr-Gamma Ligand-Binding
Domain
pdb|2GL8|B Chain B, Human Retinoic Acid Receptor Rxr-Gamma Ligand-Binding
Domain
pdb|2GL8|C Chain C, Human Retinoic Acid Receptor Rxr-Gamma Ligand-Binding
Domain
pdb|2GL8|D Chain D, Human Retinoic Acid Receptor Rxr-Gamma Ligand-Binding
Domain
Length = 241
Score = 28.9 bits (63), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 44 PFLNKCDADDDHLITLKEWA-RCLELNEDEIEDQCEDVR 81
P N C A D L TL EWA R ++ +EDQ +R
Sbjct: 43 PVTNICHAADKQLFTLVEWAKRIPHFSDLTLEDQVILLR 81
>pdb|3GTD|A Chain A, 2.4 Angstrom Crystal Structure Of Fumarate Hydratase From
Rickettsia Prowazekii
pdb|3GTD|B Chain B, 2.4 Angstrom Crystal Structure Of Fumarate Hydratase From
Rickettsia Prowazekii
Length = 482
Score = 27.7 bits (60), Expect = 1.7, Method: Composition-based stats.
Identities = 19/77 (24%), Positives = 34/77 (44%), Gaps = 15/77 (19%)
Query: 7 KGTAFTASPAQHVGRSVSRHELFPIR---ANFMALEHCIAPFLNKCDADDDHLITL---- 59
KG F P HV + S ++ FP A +A + + P LN +L+T
Sbjct: 143 KGGKFPVHPNDHVNKGQSSNDSFPTAMHIATVLATKQQLIPALN-------NLLTYLQDK 195
Query: 60 -KEWARCLELNEDEIED 75
K+W + +++ ++D
Sbjct: 196 SKDWDKIIKIGRTHLQD 212
>pdb|2YPD|A Chain A, Crystal Structure Of The Jumonji Domain Of Human Jumonji
Domain Containing 1c Protein
pdb|2YPD|B Chain B, Crystal Structure Of The Jumonji Domain Of Human Jumonji
Domain Containing 1c Protein
Length = 392
Score = 27.7 bits (60), Expect = 1.7, Method: Composition-based stats.
Identities = 22/83 (26%), Positives = 37/83 (44%), Gaps = 15/83 (18%)
Query: 15 PAQHVGRSVSRHELFPIRANFMALEHCIAPF--------LNKCDADDDHLIT-------L 59
PA + + + H + +F++ EH + F L + DD L +
Sbjct: 306 PAGALHQVQNFHSCIQVTEDFVSPEHLVESFHLTQELRLLKEEINYDDKLQVKNILYHAV 365
Query: 60 KEWARCLELNEDEIEDQCEDVRN 82
KE R L+++EDE+ED E+ N
Sbjct: 366 KEMVRALKIHEDEVEDMEENAEN 388
>pdb|1UHL|A Chain A, Crystal Structure Of The Lxralfa-Rxrbeta Lbd Heterodimer
Length = 236
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 12/21 (57%)
Query: 44 PFLNKCDADDDHLITLKEWAR 64
P N C A D L TL EWA+
Sbjct: 38 PVTNICQAADKQLFTLVEWAK 58
>pdb|1H9U|A Chain A, The Structure Of The Human Retinoid-X-Receptor Beta
Ligand Binding Domain In Complex With The Specific
Synthetic Agonist Lg100268
pdb|1H9U|B Chain B, The Structure Of The Human Retinoid-X-Receptor Beta
Ligand Binding Domain In Complex With The Specific
Synthetic Agonist Lg100268
pdb|1H9U|C Chain C, The Structure Of The Human Retinoid-X-Receptor Beta
Ligand Binding Domain In Complex With The Specific
Synthetic Agonist Lg100268
pdb|1H9U|D Chain D, The Structure Of The Human Retinoid-X-Receptor Beta
Ligand Binding Domain In Complex With The Specific
Synthetic Agonist Lg100268
Length = 224
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 12/21 (57%)
Query: 44 PFLNKCDADDDHLITLKEWAR 64
P N C A D L TL EWA+
Sbjct: 37 PVTNICQAADKQLFTLVEWAK 57
>pdb|3VKU|A Chain A, Penta Mutant Of Lactobacillus Casei Lactate Dehydrogenase
pdb|3VKU|B Chain B, Penta Mutant Of Lactobacillus Casei Lactate Dehydrogenase
pdb|3VKU|C Chain C, Penta Mutant Of Lactobacillus Casei Lactate Dehydrogenase
pdb|3VKU|D Chain D, Penta Mutant Of Lactobacillus Casei Lactate Dehydrogenase
pdb|3VKU|E Chain E, Penta Mutant Of Lactobacillus Casei Lactate Dehydrogenase
pdb|3VKU|F Chain F, Penta Mutant Of Lactobacillus Casei Lactate Dehydrogenase
Length = 326
Score = 25.4 bits (54), Expect = 7.5, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 57 ITLKEWARCL-ELNEDEIEDQCEDVRN 82
+T+ EW + E+ ED++ EDVRN
Sbjct: 197 VTIAEWVKAHPEIKEDKLVKMFEDVRN 223
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
0.321 0.134 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,519,916
Number of Sequences: 62578
Number of extensions: 85118
Number of successful extensions: 183
Number of sequences better than 100.0: 31
Number of HSP's better than 100.0 without gapping: 27
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 156
Number of HSP's gapped (non-prelim): 31
length of query: 85
length of database: 14,973,337
effective HSP length: 53
effective length of query: 32
effective length of database: 11,656,703
effective search space: 373014496
effective search space used: 373014496
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: 45 (21.9 bits)