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= psy1782
(90 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3CBB|A Chain A, Crystal Structure Of Hepatocyte Nuclear Factor 4alpha In
Complex With Dna: Diabetes Gene Product
pdb|3CBB|B Chain B, Crystal Structure Of Hepatocyte Nuclear Factor 4alpha In
Complex With Dna: Diabetes Gene Product
Length = 78
Score = 69.3 bits (168), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 35/43 (81%), Positives = 39/43 (90%), Gaps = 2/43 (4%)
Query: 1 MYS-KLHKQ-LVDKDKRNQCRYCRLKKCFKAGMKKEAVQNERD 41
MYS + +Q +VDKDKRNQCRYCRLKKCF+AGMKKEAVQNERD
Sbjct: 36 MYSCRFSRQCVVDKDKRNQCRYCRLKKCFRAGMKKEAVQNERD 78
>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 = 62.0 bits (149), Expect = 7e-11, Method: Composition-based stats.
Identities = 30/63 (47%), Positives = 41/63 (65%), Gaps = 2/63 (3%)
Query: 9 LVDKDKRNQCRYCRLKKCFKAGMKKEAVQNERDRISCRRPSYEETT--ANNGLSVNSLLN 66
L+DK +RN+C+YCR +KC GMK+EAVQ ER R R + E+T AN + V +L
Sbjct: 183 LIDKRQRNRCQYCRYQKCLAMGMKREAVQEERQRGKDRNENEVESTSSANEDMPVERILE 242
Query: 67 AEM 69
AE+
Sbjct: 243 AEL 245
>pdb|1YNW|B Chain B, Crystal Structure Of Vitamin D Receptor And 9-Cis
Retinoic Acid Receptor Dna-Binding Domains Bound To A
Dr3 Response Element
Length = 99
Score = 48.5 bits (114), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/48 (50%), Positives = 34/48 (70%)
Query: 9 LVDKDKRNQCRYCRLKKCFKAGMKKEAVQNERDRISCRRPSYEETTAN 56
L+DK +RN+C+YCR +KC GMK+EAVQ ER R R + E+T++
Sbjct: 49 LIDKRQRNRCQYCRYQKCLAMGMKREAVQEERQRGKDRNENEVESTSS 96
>pdb|1DSZ|B Chain B, Structure Of The RxrRAR DNA-Binding Domain Heterodimer
In Complex With The Retinoic Acid Response Element Dr1
Length = 85
Score = 47.8 bits (112), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 21/34 (61%), Positives = 27/34 (79%)
Query: 9 LVDKDKRNQCRYCRLKKCFKAGMKKEAVQNERDR 42
L+DK +RN+C+YCR +KC GMK+EAVQ ER R
Sbjct: 51 LIDKRQRNRCQYCRYQKCLAMGMKREAVQEERQR 84
>pdb|2EBL|A Chain A, Solution Structure Of The Zinc Finger, C4-type Domain Of
Human Coup Transcription Factor 1
Length = 89
Score = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 19/28 (67%), Positives = 24/28 (85%)
Query: 10 VDKDKRNQCRYCRLKKCFKAGMKKEAVQ 37
+D+ RNQC+YCRLKKC K GM++EAVQ
Sbjct: 54 IDQHHRNQCQYCRLKKCLKVGMRREAVQ 81
>pdb|2HAN|A Chain A, Structural Basis Of Heterodimeric Ecdysteroid Receptor
Interaction With Natural Response Element Hsp27 Gene
Promoter
Length = 93
Score = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 20/35 (57%), Positives = 27/35 (77%)
Query: 9 LVDKDKRNQCRYCRLKKCFKAGMKKEAVQNERDRI 43
++DK +RN+C+YCR +KC GMK+EAVQ ER I
Sbjct: 56 IIDKRQRNRCQYCRYQKCLTCGMKREAVQEERQGI 90
>pdb|1R0O|A Chain A, Crystal Structure Of The Heterodimeric Ecdysone Receptor
Dna-Binding Complex
Length = 86
Score = 46.6 bits (109), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 19/32 (59%), Positives = 26/32 (81%)
Query: 9 LVDKDKRNQCRYCRLKKCFKAGMKKEAVQNER 40
++DK +RN+C+YCR +KC GMK+EAVQ ER
Sbjct: 54 IIDKRQRNRCQYCRYQKCLTCGMKREAVQEER 85
>pdb|1BY4|A Chain A, Structure And Mechanism Of The Homodimeric Assembly Of
The Rxr On Dna
pdb|1BY4|B Chain B, Structure And Mechanism Of The Homodimeric Assembly Of
The Rxr On Dna
pdb|1BY4|C Chain C, Structure And Mechanism Of The Homodimeric Assembly Of
The Rxr On Dna
pdb|1BY4|D Chain D, Structure And Mechanism Of The Homodimeric Assembly Of
The Rxr On Dna
Length = 82
Score = 46.6 bits (109), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 20/32 (62%), Positives = 26/32 (81%)
Query: 9 LVDKDKRNQCRYCRLKKCFKAGMKKEAVQNER 40
L+DK +RN+C+YCR +KC GMK+EAVQ ER
Sbjct: 51 LIDKRQRNRCQYCRYQKCLAMGMKREAVQEER 82
>pdb|1DSZ|A Chain A, Structure Of The RxrRAR DNA-Binding Domain Heterodimer
In Complex With The Retinoic Acid Response Element Dr1
Length = 86
Score = 46.2 bits (108), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 18/34 (52%), Positives = 30/34 (88%)
Query: 9 LVDKDKRNQCRYCRLKKCFKAGMKKEAVQNERDR 42
+++K RN+C+YCRL+KCF+ GM KE+V+N+R++
Sbjct: 50 IINKVTRNRCQYCRLQKCFEVGMSKESVRNDRNK 83
>pdb|1RXR|A Chain A, High Resolution Solution Structure Of The Retinoid X
Receptor Dna Binding Domain, Nmr, 20 Structure
Length = 83
Score = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/34 (58%), Positives = 26/34 (76%)
Query: 9 LVDKDKRNQCRYCRLKKCFKAGMKKEAVQNERDR 42
L+DK +RN+C+YCR +K GMK+EAVQ ER R
Sbjct: 49 LIDKRQRNRCQYCRYQKALAMGMKREAVQEERQR 82
>pdb|1R0N|A Chain A, Crystal Structure Of Heterodimeric Ecdsyone Receptor Dna
Binding Complex
Length = 81
Score = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 18/29 (62%), Positives = 24/29 (82%)
Query: 9 LVDKDKRNQCRYCRLKKCFKAGMKKEAVQ 37
L+DK +RN+C+YCR +KC GMK+EAVQ
Sbjct: 49 LIDKRQRNRCQYCRYQKCLAMGMKREAVQ 77
>pdb|1HRA|A Chain A, The Solution Structure Of The Human Retinoic Acid
Receptor- Beta Dna-Binding Domain
Length = 80
Score = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 17/30 (56%), Positives = 26/30 (86%)
Query: 9 LVDKDKRNQCRYCRLKKCFKAGMKKEAVQN 38
+++K RN+C+YCRL+KCF+ GM KE+V+N
Sbjct: 51 VINKVTRNRCQYCRLQKCFEVGMSKESVRN 80
>pdb|2A66|A Chain A, Human Liver Receptor Homologue Dna-Binding Domain
(Hlrh-1 Dbd) In Complex With Dsdna From The Hcyp7a1
Promoter
Length = 113
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/33 (51%), Positives = 23/33 (69%)
Query: 10 VDKDKRNQCRYCRLKKCFKAGMKKEAVQNERDR 42
+DK +R +C YCR +KC GMK EAV+ +R R
Sbjct: 56 IDKTQRKRCPYCRFQKCLSVGMKLEAVRADRMR 88
>pdb|1CIT|A Chain A, Dna-Binding Mechanism Of The Monomeric Orphan Nuclear
Receptor Ngfi-B
Length = 89
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 22/30 (73%)
Query: 10 VDKDKRNQCRYCRLKKCFKAGMKKEAVQNE 39
VDK +RN+C++CR +KC GM KE V+ +
Sbjct: 47 VDKRRRNRCQFCRFQKCLAVGMVKEVVRTD 76
>pdb|3M9E|A Chain A, Thyroid Hormone Beta Dna Binding Domain Homodimer With
Inverted Palindrome Tre
pdb|3M9E|B Chain B, Thyroid Hormone Beta Dna Binding Domain Homodimer With
Inverted Palindrome Tre
pdb|3M9E|E Chain E, Thyroid Hormone Beta Dna Binding Domain Homodimer With
Inverted Palindrome Tre
pdb|3M9E|F Chain F, Thyroid Hormone Beta Dna Binding Domain Homodimer With
Inverted Palindrome Tre
Length = 105
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 24/38 (63%)
Query: 7 KQLVDKDKRNQCRYCRLKKCFKAGMKKEAVQNERDRIS 44
K ++DK RNQC+ CR KKC GM + V ++ R++
Sbjct: 49 KCIIDKVTRNQCQECRFKKCIYVGMATDLVLDDSKRLA 86
>pdb|2FF0|A Chain A, Solution Structure Of Steroidogenic Factor 1 Dna Binding
Domain Bound To Its Target Sequence In The Inhibin
Alpha- Subunit Promoter
Length = 102
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 23/33 (69%)
Query: 10 VDKDKRNQCRYCRLKKCFKAGMKKEAVQNERDR 42
+DK +R +C +CR +KC GM+ EAV+ +R R
Sbjct: 48 IDKTQRKRCPFCRFQKCLTVGMRLEAVRADRMR 80
>pdb|2NLL|B Chain B, Retinoid X Receptor-Thyroid Hormone Receptor Dna-Binding
Domain Heterodimer Bound To Thyroid Response Element
Dna
Length = 103
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 24/38 (63%)
Query: 7 KQLVDKDKRNQCRYCRLKKCFKAGMKKEAVQNERDRIS 44
K ++DK RNQC+ CR KKC GM + V ++ R++
Sbjct: 47 KCVIDKVTRNQCQECRFKKCIYVGMATDLVLDDSKRLA 84
>pdb|1HCQ|A Chain A, The Crystal Structure Of The Estrogen Receptor
Dna-Binding Domain Bound To Dna: How Receptors
Discriminate Between Their Response Elements
pdb|1HCQ|B Chain B, The Crystal Structure Of The Estrogen Receptor
Dna-Binding Domain Bound To Dna: How Receptors
Discriminate Between Their Response Elements
pdb|1HCQ|E Chain E, The Crystal Structure Of The Estrogen Receptor
Dna-Binding Domain Bound To Dna: How Receptors
Discriminate Between Their Response Elements
pdb|1HCQ|F Chain F, The Crystal Structure Of The Estrogen Receptor
Dna-Binding Domain Bound To Dna: How Receptors
Discriminate Between Their Response Elements
Length = 84
Score = 35.8 bits (81), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 23/31 (74%)
Query: 10 VDKDKRNQCRYCRLKKCFKAGMKKEAVQNER 40
+DK++R C+ CRL+KC++ GM K ++ +R
Sbjct: 51 IDKNRRKSCQACRLRKCYEVGMMKGGIRKDR 81
>pdb|3DZU|D Chain D, Intact Ppar Gamma - Rxr Alpha Nuclear Receptor Complex On
Dna Bound With Bvt.13, 9-Cis Retinoic Acid And Ncoa2
Peptide
pdb|3DZY|D Chain D, Intact Ppar Gamma - Rxr Alpha Nuclear Receptor Complex On
Dna Bound With Rosiglitazone, 9-Cis Retinoic Acid And
Ncoa2 Peptide
pdb|3E00|D Chain D, Intact Ppar Gamma - Rxr Alpha Nuclear Receptor Complex On
Dna Bound With Gw9662, 9-Cis Retinoic Acid And Ncoa2
Peptide
Length = 419
Score = 35.4 bits (80), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 19/31 (61%)
Query: 10 VDKDKRNQCRYCRLKKCFKAGMKKEAVQNER 40
+ K RN+C+YCR +KC GM A++ R
Sbjct: 96 IHKKSRNKCQYCRFQKCLAVGMSHNAIRFGR 126
>pdb|2NLL|A Chain A, Retinoid X Receptor-Thyroid Hormone Receptor Dna-Binding
Domain Heterodimer Bound To Thyroid Response Element
Dna
Length = 66
Score = 32.7 bits (73), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 13/23 (56%), Positives = 18/23 (78%)
Query: 9 LVDKDKRNQCRYCRLKKCFKAGM 31
L+DK +RN+C+YCR +KC GM
Sbjct: 44 LIDKRQRNRCQYCRYQKCLAMGM 66
>pdb|2ENV|A Chain A, Solution Sturcture Of The C4-Type Zinc Finger Domain
From Human Peroxisome Proliferator-Activated Receptor
Delta
Length = 88
Score = 32.7 bits (73), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 10 VDKDKRNQCRYCRLKKCFKAGMKKEAVQ 37
+ K RN+C+YCR +KC GM A++
Sbjct: 53 IQKKNRNKCQYCRFQKCLALGMSHNAIR 80
>pdb|4AA6|E Chain E, The Oestrogen Receptor Recognizes An Imperfectly
Palindromic Response Element Through An Alternative
Side- Chain Conformation
Length = 71
Score = 32.0 bits (71), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 19/24 (79%)
Query: 10 VDKDKRNQCRYCRLKKCFKAGMKK 33
+DK++R C+ CRL+KC++ GM K
Sbjct: 48 IDKNRRKSCQACRLRKCYEVGMMK 71
>pdb|1HCP|A Chain A, Dna Recognition By The Oestrogen Receptor: From Solution
To The Crystal
Length = 76
Score = 32.0 bits (71), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 19/24 (79%)
Query: 10 VDKDKRNQCRYCRLKKCFKAGMKK 33
+DK++R C+ CRL+KC++ GM K
Sbjct: 51 IDKNRRKSCQACRLRKCYEVGMMK 74
>pdb|4AA6|A Chain A, The Oestrogen Receptor Recognizes An Imperfectly
Palindromic Response Element Through An Alternative
Side- Chain Conformation
pdb|4AA6|B Chain B, The Oestrogen Receptor Recognizes An Imperfectly
Palindromic Response Element Through An Alternative
Side- Chain Conformation
pdb|4AA6|F Chain F, The Oestrogen Receptor Recognizes An Imperfectly
Palindromic Response Element Through An Alternative
Side- Chain Conformation
Length = 71
Score = 32.0 bits (71), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 19/24 (79%)
Query: 10 VDKDKRNQCRYCRLKKCFKAGMKK 33
+DK++R C+ CRL+KC++ GM K
Sbjct: 48 IDKNRRKSCQACRLRKCYEVGMMK 71
>pdb|4HN5|A Chain A, Gr Dna Binding Domain - Tslp Ngre Complex
pdb|4HN5|B Chain B, Gr Dna Binding Domain - Tslp Ngre Complex
Length = 117
Score = 32.0 bits (71), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 18/27 (66%)
Query: 9 LVDKDKRNQCRYCRLKKCFKAGMKKEA 35
++DK +R C CR +KC +AGM EA
Sbjct: 75 IIDKIRRKNCPACRYRKCLQAGMNLEA 101
>pdb|4HN6|A Chain A, Gr Dna Binding Domain R460d/d462r - Tslp Ngre Complex
pdb|4HN6|B Chain B, Gr Dna Binding Domain R460d/d462r - Tslp Ngre Complex
Length = 114
Score = 32.0 bits (71), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 18/27 (66%)
Query: 9 LVDKDKRNQCRYCRLKKCFKAGMKKEA 35
++DK +R C CR +KC +AGM EA
Sbjct: 72 IIDKIRRKNCPACRYRKCLQAGMNLEA 98
>pdb|1R4I|A Chain A, Crystal Structure Of Androgen Receptor Dna-Binding
Domain Bound To A Direct Repeat Response Element
pdb|1R4I|B Chain B, Crystal Structure Of Androgen Receptor Dna-Binding
Domain Bound To A Direct Repeat Response Element
Length = 105
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 17/22 (77%)
Query: 10 VDKDKRNQCRYCRLKKCFKAGM 31
+DK +R C CRL+KC++AGM
Sbjct: 54 IDKFRRKNCPSCRLRKCYEAGM 75
>pdb|1KB2|A Chain A, Crystal Structure Of Vdr Dna-Binding Domain Bound To
Mouse Osteopontin (Spp) Response Element
pdb|1KB2|B Chain B, Crystal Structure Of Vdr Dna-Binding Domain Bound To
Mouse Osteopontin (Spp) Response Element
pdb|1KB4|A Chain A, Crystal Structure Of Vdr Dna-Binding Domain Bound To A
Canonical Direct Repeat With Three Base Pair Spacer
(Dr3) Response Element
pdb|1KB4|B Chain B, Crystal Structure Of Vdr Dna-Binding Domain Bound To A
Canonical Direct Repeat With Three Base Pair Spacer
(Dr3) Response Element
pdb|1KB6|A Chain A, Crystal Structure Of Vdr Dna-Binding Domain Bound To Rat
Osteocalcin (Oc) Response Element
pdb|1KB6|B Chain B, Crystal Structure Of Vdr Dna-Binding Domain Bound To Rat
Osteocalcin (Oc) Response Element
Length = 110
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 10 VDKDKRNQCRYCRLKKCFKAGMKKEAV 36
+ KD R C+ CRLK+C GM KE +
Sbjct: 53 ITKDNRRHCQACRLKRCVDIGMMKEFI 79
>pdb|1GDC|A Chain A, Refined Solution Structure Of The Glucocorticoid
Receptor Dna-Binding Domain
Length = 72
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 18/27 (66%)
Query: 9 LVDKDKRNQCRYCRLKKCFKAGMKKEA 35
++DK +R C CR +KC +AGM EA
Sbjct: 45 IIDKIRRKNCPACRYRKCLQAGMNLEA 71
>pdb|2GDA|A Chain A, Refined Solution Structure Of The Glucocorticoid
Receptor Dna-Binding Domain
Length = 72
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 18/27 (66%)
Query: 9 LVDKDKRNQCRYCRLKKCFKAGMKKEA 35
++DK +R C CR +KC +AGM EA
Sbjct: 45 IIDKIRRKNCPACRYRKCLQAGMNLEA 71
>pdb|1RGD|A Chain A, Structure Refinement Of The Glucocorticoid Receptor-Dna
Binding Domain From Nmr Data By Relaxation Matrix
Calculations
Length = 71
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 18/27 (66%)
Query: 9 LVDKDKRNQCRYCRLKKCFKAGMKKEA 35
++DK +R C CR +KC +AGM EA
Sbjct: 44 IIDKIRRKNCPACRYRKCLQAGMNLEA 70
>pdb|3G6T|A Chain A, Gr Gamma Dna-Binding Domain:fkbp5 16bp Complex-34
pdb|3G6T|B Chain B, Gr Gamma Dna-Binding Domain:fkbp5 16bp Complex-34
Length = 91
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 18/27 (66%)
Query: 9 LVDKDKRNQCRYCRLKKCFKAGMKKEA 35
++DK +R C CR +KC +AGM EA
Sbjct: 49 IIDKIRRKNCPACRYRKCLQAGMNLEA 75
>pdb|3G9P|B Chain B, Gr Dna Binding Domain:sgk 16bp Complex-7
pdb|3G9P|A Chain A, Gr Dna Binding Domain:sgk 16bp Complex-7
pdb|3FYL|A Chain A, Gr Dna Binding Domain:cgt Complex
pdb|3FYL|B Chain B, Gr Dna Binding Domain:cgt Complex
pdb|3G6P|A Chain A, Gr Dna Binding Domain:fkbp5 Complex, 18bp
pdb|3G6P|B Chain B, Gr Dna Binding Domain:fkbp5 Complex, 18bp
pdb|3G6Q|B Chain B, Gr Dna Binding Domain:fkbp5 Binding Site Complex-9
pdb|3G6Q|A Chain A, Gr Dna Binding Domain:fkbp5 Binding Site Complex-9
pdb|3G6R|B Chain B, Gr Dna Binding Domain:fkbp5 Complex-52, 18bp
pdb|3G6R|A Chain A, Gr Dna Binding Domain:fkbp5 Complex-52, 18bp
pdb|3G6U|A Chain A, Gr Dna-Binding Domain:fkbp5 16bp Complex-49
pdb|3G6U|B Chain B, Gr Dna-Binding Domain:fkbp5 16bp Complex-49
pdb|3G8U|A Chain A, Dna Binding Domain:gilz 16bp Complex-5
pdb|3G8U|B Chain B, Dna Binding Domain:gilz 16bp Complex-5
pdb|3G8X|A Chain A, Gr Dna Binding Domain:gilz 16bp Complex-65
pdb|3G8X|B Chain B, Gr Dna Binding Domain:gilz 16bp Complex-65
pdb|3G97|B Chain B, Gr Dna-Binding Domain:gilz 16bp Complex-9
pdb|3G97|A Chain A, Gr Dna-Binding Domain:gilz 16bp Complex-9
pdb|3G99|A Chain A, Gr Dna Binding Domain:pal Complex-9
pdb|3G99|B Chain B, Gr Dna Binding Domain:pal Complex-9
pdb|3G9I|A Chain A, Gr Dna Binding Domain: Pal Complex-35
pdb|3G9I|B Chain B, Gr Dna Binding Domain: Pal Complex-35
pdb|3G9J|A Chain A, Gr Dna Binding Domain:pal, 18bp Complex-36
pdb|3G9J|B Chain B, Gr Dna Binding Domain:pal, 18bp Complex-36
pdb|3G9M|A Chain A, Gr Dna-Binding Domain:sgk 16bp Complex-44
pdb|3G9M|B Chain B, Gr Dna-Binding Domain:sgk 16bp Complex-44
pdb|3G9O|B Chain B, Gr Dna-Binding Domain:sgk 16bp Complex-9
pdb|3G9O|A Chain A, Gr Dna-Binding Domain:sgk 16bp Complex-9
Length = 90
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 18/27 (66%)
Query: 9 LVDKDKRNQCRYCRLKKCFKAGMKKEA 35
++DK +R C CR +KC +AGM EA
Sbjct: 48 IIDKIRRKNCPACRYRKCLQAGMNLEA 74
>pdb|1R4O|A Chain A, Crystallographic Analysis Of The Interaction Of The
Glucocorticoid Receptor With Dna
pdb|1R4O|B Chain B, Crystallographic Analysis Of The Interaction Of The
Glucocorticoid Receptor With Dna
pdb|1R4R|A Chain A, Crystallographic Analysis Of The Interaction Of The
Glucocorticoid Receptor With Dna
Length = 92
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 18/27 (66%)
Query: 9 LVDKDKRNQCRYCRLKKCFKAGMKKEA 35
++DK +R C CR +KC +AGM EA
Sbjct: 50 IIDKIRRKNCPACRYRKCLQAGMNLEA 76
>pdb|1LAT|A Chain A, Glucocorticoid Receptor MutantDNA COMPLEX
pdb|1LAT|B Chain B, Glucocorticoid Receptor MutantDNA COMPLEX
Length = 82
Score = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 22/34 (64%)
Query: 7 KQLVDKDKRNQCRYCRLKKCFKAGMKKEAVQNER 40
K ++DK +R C CR +KC +AGM EA + ++
Sbjct: 48 KCIIDKIRRKNCPACRYRKCLQAGMNLEARKTKK 81
>pdb|1R4R|B Chain B, Crystallographic Analysis Of The Interaction Of The
Glucocorticoid Receptor With Dna
Length = 92
Score = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 18/27 (66%)
Query: 9 LVDKDKRNQCRYCRLKKCFKAGMKKEA 35
++DK +R C CR +KC +AGM EA
Sbjct: 50 IIDKIRRKNCPACRYRKCLQAGMNLEA 76
>pdb|1GLU|A Chain A, Crystallographic Analysis Of The Interaction Of The
Glucocorticoid Receptor With Dna
pdb|1GLU|B Chain B, Crystallographic Analysis Of The Interaction Of The
Glucocorticoid Receptor With Dna
Length = 81
Score = 30.8 bits (68), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 18/27 (66%)
Query: 9 LVDKDKRNQCRYCRLKKCFKAGMKKEA 35
++DK +R C CR +KC +AGM EA
Sbjct: 50 IIDKIRRKNCPACRYRKCLQAGMNLEA 76
>pdb|1HLZ|A Chain A, Crystal Structure Of The Orphan Nuclear Receptor Rev-
Erb(Alpha) Dna-Binding Domain Bound To Its Cognate
Response Element
pdb|1HLZ|B Chain B, Crystal Structure Of The Orphan Nuclear Receptor Rev-
Erb(Alpha) Dna-Binding Domain Bound To Its Cognate
Response Element
pdb|1GA5|A Chain A, Crystal Structure Of The Orphan Nuclear Receptor Rev-
Erb(Alpha) Dna-Binding Domain Bound To Its Cognate
Response Element
pdb|1GA5|B Chain B, Crystal Structure Of The Orphan Nuclear Receptor Rev-
Erb(Alpha) Dna-Binding Domain Bound To Its Cognate
Response Element
pdb|1GA5|E Chain E, Crystal Structure Of The Orphan Nuclear Receptor Rev-
Erb(Alpha) Dna-Binding Domain Bound To Its Cognate
Response Element
pdb|1GA5|F Chain F, Crystal Structure Of The Orphan Nuclear Receptor Rev-
Erb(Alpha) Dna-Binding Domain Bound To Its Cognate
Response Element
pdb|1A6Y|A Chain A, Reverba Orphan Nuclear ReceptorDNA COMPLEX
pdb|1A6Y|B Chain B, Reverba Orphan Nuclear ReceptorDNA COMPLEX
Length = 94
Score = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 18/26 (69%)
Query: 15 RNQCRYCRLKKCFKAGMKKEAVQNER 40
RN+C+ CR KKC GM ++AV+ R
Sbjct: 60 RNRCQQCRFKKCLSVGMSRDAVRFGR 85
>pdb|1YNW|A Chain A, Crystal Structure Of Vitamin D Receptor And 9-Cis
Retinoic Acid Receptor Dna-Binding Domains Bound To A
Dr3 Response Element
Length = 110
Score = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 10 VDKDKRNQCRYCRLKKCFKAGMKKEAV 36
+ KD R C+ CRLK+C GM KE +
Sbjct: 53 ITKDNRRACQACRLKRCVDIGMMKEFI 79
>pdb|2C7A|A Chain A, Structure Of The Progesterone Receptor-Dna Complex
pdb|2C7A|B Chain B, Structure Of The Progesterone Receptor-Dna Complex
Length = 78
Score = 30.0 bits (66), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 13/23 (56%), Positives = 17/23 (73%)
Query: 9 LVDKDKRNQCRYCRLKKCFKAGM 31
+VDK +R C CRL+KC +AGM
Sbjct: 48 IVDKIRRKNCPACRLRKCCQAGM 70
>pdb|2HAN|B Chain B, Structural Basis Of Heterodimeric Ecdysteroid Receptor
Interaction With Natural Response Element Hsp27 Gene
Promoter
Length = 119
Score = 29.6 bits (65), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 18/30 (60%)
Query: 10 VDKDKRNQCRYCRLKKCFKAGMKKEAVQNE 39
+D R +C+ CRLKKC GM+ E V E
Sbjct: 55 MDMYMRRKCQECRLKKCLAVGMRPECVVPE 84
>pdb|1R0N|B Chain B, Crystal Structure Of Heterodimeric Ecdsyone Receptor Dna
Binding Complex
pdb|1R0O|B Chain B, Crystal Structure Of The Heterodimeric Ecdysone Receptor
Dna-Binding Complex
Length = 109
Score = 29.6 bits (65), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 18/30 (60%)
Query: 10 VDKDKRNQCRYCRLKKCFKAGMKKEAVQNE 39
+D R +C+ CRLKKC GM+ E V E
Sbjct: 53 MDMYMRRKCQECRLKKCLAVGMRPECVVPE 82
>pdb|1LBD|A Chain A, Ligand-Binding Domain Of The Human Nuclear Receptor
Rxr-Alpha
Length = 282
Score = 28.5 bits (62), Expect = 0.95, Method: Composition-based stats.
Identities = 17/44 (38%), Positives = 24/44 (54%), Gaps = 2/44 (4%)
Query: 28 KAGMKKEAVQNERDRISCRRPSYEETT--ANNGLSVNSLLNAEM 69
+ K+EAVQ ER R R + E+T AN + V +L AE+
Sbjct: 17 RGSHKREAVQEERQRGKDRNENEVESTSSANEDMPVERILEAEL 60
>pdb|1LO1|A Chain A, Estrogen Related Receptor 2 Dna Binding Domain In
Complex With Dna
Length = 98
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%)
Query: 10 VDKDKRNQCRYCRLKKCFKAGMKKEAVQNERDR 42
+ K +R C+ CR K K GM KE V+ +R R
Sbjct: 51 ITKRRRKSCQACRFMKALKVGMLKEGVRLDRVR 83
>pdb|1Z5X|U Chain U, Hemipteran Ecdysone Receptor Ligand-Binding Domain
Complexed With Ponasterone A
Length = 262
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 25/42 (59%), Gaps = 2/42 (4%)
Query: 30 GMKKEAVQNERDRISCRRPSYEETTAN--NGLSVNSLLNAEM 69
G K+EAVQ ER R + + E+T+N N + + +L AE+
Sbjct: 10 GPKREAVQEERQRNKEKSENEVESTSNSQNDMPIERILEAEL 51
>pdb|3LOP|A Chain A, Crystal Structure Of Substrate-Binding Periplasmic Protein
(Pbp) From Ralstonia Solanacearum
Length = 364
Score = 26.2 bits (56), Expect = 4.5, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 21/36 (58%)
Query: 49 SYEETTANNGLSVNSLLNAEMLSRQVGAVREEVSLF 84
SY TAN G +V+ LL A++ + +GA E + F
Sbjct: 177 SYPRNTANVGPAVDKLLAADVQAIFLGATAEPAAQF 212
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
0.318 0.130 0.366
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,134,525
Number of Sequences: 62578
Number of extensions: 62632
Number of successful extensions: 211
Number of sequences better than 100.0: 48
Number of HSP's better than 100.0 without gapping: 44
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 167
Number of HSP's gapped (non-prelim): 48
length of query: 90
length of database: 14,973,337
effective HSP length: 57
effective length of query: 33
effective length of database: 11,406,391
effective search space: 376410903
effective search space used: 376410903
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: 45 (21.9 bits)