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= psy752
(123 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1LO1|A Chain A, Estrogen Related Receptor 2 Dna Binding Domain In
Complex With Dna
Length = 98
Score = 98.2 bits (243), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 45/57 (78%), Positives = 51/57 (89%)
Query: 1 NIEYTCPASNDCEINKRRRKACQACRFQKCLRKGMLKEGVRLDRVRGGRQKYRRNPD 57
NIEY+CPA+N+CEI KRRRK+CQACRF K L+ GMLKEGVRLDRVRGGRQKY+R D
Sbjct: 38 NIEYSCPATNECEITKRRRKSCQACRFMKALKVGMLKEGVRLDRVRGGRQKYKRRLD 94
>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 = 61.6 bits (148), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 30/52 (57%), Positives = 35/52 (67%)
Query: 1 NIEYTCPASNDCEINKRRRKACQACRFQKCLRKGMLKEGVRLDRVRGGRQKY 52
N YTC S C+I+K +RK C CRFQKCL GM E VR DR+RGGR K+
Sbjct: 35 NKHYTCTESQSCKIDKTQRKRCPFCRFQKCLTVGMRLEAVRADRMRGGRNKF 86
>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 = 59.7 bits (143), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 29/52 (55%), Positives = 36/52 (69%)
Query: 1 NIEYTCPASNDCEINKRRRKACQACRFQKCLRKGMLKEGVRLDRVRGGRQKY 52
N YTC + +C+I+K +RK C CRFQKCL GM E VR DR+RGGR K+
Sbjct: 43 NKRYTCIENQNCQIDKTQRKRCPYCRFQKCLSVGMKLEAVRADRMRGGRNKF 94
>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 = 59.7 bits (143), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 28/46 (60%), Positives = 35/46 (76%), Gaps = 1/46 (2%)
Query: 3 EYTCPASNDCEINKRRRKACQACRFQKCLRKGMLKEGVRLDRVRGG 48
+Y CPA+N C I+K RRK+CQACR +KC GM+K G+R DR RGG
Sbjct: 40 DYMCPATNQCTIDKNRRKSCQACRLRKCYEVGMMKGGIRKDR-RGG 84
>pdb|1CIT|A Chain A, Dna-Binding Mechanism Of The Monomeric Orphan Nuclear
Receptor Ngfi-B
Length = 89
Score = 56.6 bits (135), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 28/54 (51%), Positives = 36/54 (66%)
Query: 3 EYTCPASNDCEINKRRRKACQACRFQKCLRKGMLKEGVRLDRVRGGRQKYRRNP 56
+Y C A+ DC ++KRRR CQ CRFQKCL GM+KE VR D ++G R + P
Sbjct: 36 KYICLANKDCPVDKRRRNRCQFCRFQKCLAVGMVKEVVRTDSLKGRRGRLPSKP 89
>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 = 53.5 bits (127), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 24/47 (51%), Positives = 33/47 (70%)
Query: 1 NIEYTCPASNDCEINKRRRKACQACRFQKCLRKGMLKEGVRLDRVRG 47
++ YTC + DC I+KR+R CQ CR+QKCL GM +E V+ +R RG
Sbjct: 171 DLTYTCRDNKDCLIDKRQRNRCQYCRYQKCLAMGMKREAVQEERQRG 217
>pdb|1HCP|A Chain A, Dna Recognition By The Oestrogen Receptor: From Solution
To The Crystal
Length = 76
Score = 52.0 bits (123), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 22/37 (59%), Positives = 28/37 (75%)
Query: 3 EYTCPASNDCEINKRRRKACQACRFQKCLRKGMLKEG 39
+Y CPA+N C I+K RRK+CQACR +KC GM+K G
Sbjct: 40 DYMCPATNQCTIDKNRRKSCQACRLRKCYEVGMMKGG 76
>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 = 51.6 bits (122), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 24/47 (51%), Positives = 33/47 (70%)
Query: 1 NIEYTCPASNDCEINKRRRKACQACRFQKCLRKGMLKEGVRLDRVRG 47
++ YTC + DC I+KR+R CQ CR+QKCL GM +E V+ +R RG
Sbjct: 37 DLTYTCRDNKDCLIDKRQRNRCQYCRYQKCLAMGMKREAVQEERQRG 83
>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 = 50.8 bits (120), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/47 (51%), Positives = 33/47 (70%)
Query: 1 NIEYTCPASNDCEINKRRRKACQACRFQKCLRKGMLKEGVRLDRVRG 47
++ YTC + DC I+KR+R CQ CR+QKCL GM +E V+ +R RG
Sbjct: 39 DLTYTCRDNKDCLIDKRQRNRCQYCRYQKCLAMGMKREAVQEERQRG 85
>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 = 50.1 bits (118), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 21/35 (60%), Positives = 27/35 (77%)
Query: 3 EYTCPASNDCEINKRRRKACQACRFQKCLRKGMLK 37
+Y CPA+N C I+K RRK+CQACR +KC GM+K
Sbjct: 37 DYMCPATNQCTIDKNRRKSCQACRLRKCYEVGMMK 71
>pdb|4AA6|E Chain E, The Oestrogen Receptor Recognizes An Imperfectly
Palindromic Response Element Through An Alternative
Side- Chain Conformation
Length = 71
Score = 50.1 bits (118), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 21/35 (60%), Positives = 27/35 (77%)
Query: 3 EYTCPASNDCEINKRRRKACQACRFQKCLRKGMLK 37
+Y CPA+N C I+K RRK+CQACR +KC GM+K
Sbjct: 37 DYMCPATNQCTIDKNRRKSCQACRLRKCYEVGMMK 71
>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 = 47.8 bits (112), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 22/44 (50%), Positives = 31/44 (70%)
Query: 1 NIEYTCPASNDCEINKRRRKACQACRFQKCLRKGMLKEGVRLDR 44
++ YTC + DC I+KR+R CQ CR+QKCL GM +E V+ +R
Sbjct: 39 DLTYTCRDNKDCLIDKRQRNRCQYCRYQKCLAMGMKREAVQEER 82
>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 = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 20/40 (50%), Positives = 28/40 (70%)
Query: 4 YTCPASNDCEINKRRRKACQACRFQKCLRKGMLKEGVRLD 43
+TC A+ DC I K R+ACQACR ++C+ GM+KE + D
Sbjct: 43 FTCAANGDCRITKDNRRACQACRLKRCVDIGMMKEFILTD 82
>pdb|1RXR|A Chain A, High Resolution Solution Structure Of The Retinoid X
Receptor Dna Binding Domain, Nmr, 20 Structure
Length = 83
Score = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/47 (48%), Positives = 32/47 (68%)
Query: 1 NIEYTCPASNDCEINKRRRKACQACRFQKCLRKGMLKEGVRLDRVRG 47
++ YTC + DC I+KR+R CQ CR+QK L GM +E V+ +R RG
Sbjct: 37 DLTYTCRDNKDCLIDKRQRNRCQYCRYQKALAMGMKREAVQEERQRG 83
>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 = 47.0 bits (110), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/44 (54%), Positives = 26/44 (59%)
Query: 1 NIEYTCPASNDCEINKRRRKACQACRFQKCLRKGMLKEGVRLDR 44
N+ YTC +C INK R CQ CR QKC GM KE VR DR
Sbjct: 38 NMVYTCHRDKNCIINKVTRNRCQYCRLQKCFEVGMSKESVRNDR 81
>pdb|1R0N|A Chain A, Crystal Structure Of Heterodimeric Ecdsyone Receptor Dna
Binding Complex
Length = 81
Score = 46.6 bits (109), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 21/40 (52%), Positives = 28/40 (70%)
Query: 1 NIEYTCPASNDCEINKRRRKACQACRFQKCLRKGMLKEGV 40
++ YTC + DC I+KR+R CQ CR+QKCL GM +E V
Sbjct: 37 DLTYTCRDNKDCLIDKRQRNRCQYCRYQKCLAMGMKREAV 76
>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 = 46.2 bits (108), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 19/40 (47%), Positives = 27/40 (67%)
Query: 4 YTCPASNDCEINKRRRKACQACRFQKCLRKGMLKEGVRLD 43
+TCP + DC I K R+ CQACR ++C+ GM+KE + D
Sbjct: 43 FTCPFNGDCRITKDNRRHCQACRLKRCVDIGMMKEFILTD 82
>pdb|2EBL|A Chain A, Solution Structure Of The Zinc Finger, C4-type Domain Of
Human Coup Transcription Factor 1
Length = 89
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/41 (46%), Positives = 28/41 (68%)
Query: 1 NIEYTCPASNDCEINKRRRKACQACRFQKCLRKGMLKEGVR 41
N+ YTC A+ +C I++ R CQ CR +KCL+ GM +E V+
Sbjct: 41 NLTYTCRANRNCPIDQHHRNQCQYCRLKKCLKVGMRREAVQ 81
>pdb|1HRA|A Chain A, The Solution Structure Of The Human Retinoic Acid
Receptor- Beta Dna-Binding Domain
Length = 80
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/41 (53%), Positives = 24/41 (58%)
Query: 1 NIEYTCPASNDCEINKRRRKACQACRFQKCLRKGMLKEGVR 41
N+ YTC +C INK R CQ CR QKC GM KE VR
Sbjct: 39 NMIYTCHRDKNCVINKVTRNRCQYCRLQKCFEVGMSKESVR 79
>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 = 43.5 bits (101), Expect = 3e-05, Method: Composition-based stats.
Identities = 17/35 (48%), Positives = 22/35 (62%)
Query: 11 DCEINKRRRKACQACRFQKCLRKGMLKEGVRLDRV 45
+C I+K+ R CQ CRFQKCL GM +R R+
Sbjct: 93 NCRIHKKSRNKCQYCRFQKCLAVGMSHNAIRFGRM 127
>pdb|2HAN|A Chain A, Structural Basis Of Heterodimeric Ecdysteroid Receptor
Interaction With Natural Response Element Hsp27 Gene
Promoter
Length = 93
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 20/44 (45%), Positives = 30/44 (68%)
Query: 1 NIEYTCPASNDCEINKRRRKACQACRFQKCLRKGMLKEGVRLDR 44
++ Y C + +C I+KR+R CQ CR+QKCL GM +E V+ +R
Sbjct: 44 DLTYACRENRNCIIDKRQRNRCQYCRYQKCLTCGMKREAVQEER 87
>pdb|1R0O|A Chain A, Crystal Structure Of The Heterodimeric Ecdysone Receptor
Dna-Binding Complex
Length = 86
Score = 43.1 bits (100), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 20/44 (45%), Positives = 30/44 (68%)
Query: 1 NIEYTCPASNDCEINKRRRKACQACRFQKCLRKGMLKEGVRLDR 44
++ Y C + +C I+KR+R CQ CR+QKCL GM +E V+ +R
Sbjct: 42 DLTYACRENRNCIIDKRQRNRCQYCRYQKCLTCGMKREAVQEER 85
>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 = 43.1 bits (100), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 19/32 (59%), Positives = 23/32 (71%)
Query: 4 YTCPASNDCEINKRRRKACQACRFQKCLRKGM 35
Y C NDC I+K RRK C ACR++KCL+ GM
Sbjct: 66 YLCAGRNDCIIDKIRRKNCPACRYRKCLQAGM 97
>pdb|2NLL|A Chain A, Retinoid X Receptor-Thyroid Hormone Receptor Dna-Binding
Domain Heterodimer Bound To Thyroid Response Element
Dna
Length = 66
Score = 42.7 bits (99), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 19/35 (54%), Positives = 25/35 (71%)
Query: 1 NIEYTCPASNDCEINKRRRKACQACRFQKCLRKGM 35
++ YTC + DC I+KR+R CQ CR+QKCL GM
Sbjct: 32 DLTYTCRDNKDCLIDKRQRNRCQYCRYQKCLAMGM 66
>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 = 42.7 bits (99), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 19/32 (59%), Positives = 23/32 (71%)
Query: 4 YTCPASNDCEINKRRRKACQACRFQKCLRKGM 35
Y C NDC I+K RRK C ACR++KCL+ GM
Sbjct: 39 YLCAGRNDCIIDKIRRKNCPACRYRKCLQAGM 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 = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 19/32 (59%), Positives = 23/32 (71%)
Query: 4 YTCPASNDCEINKRRRKACQACRFQKCLRKGM 35
Y C NDC I+K RRK C ACR++KCL+ GM
Sbjct: 40 YLCAGRNDCIIDKIRRKNCPACRYRKCLQAGM 71
>pdb|1GDC|A Chain A, Refined Solution Structure Of The Glucocorticoid
Receptor Dna-Binding Domain
Length = 72
Score = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 19/32 (59%), Positives = 23/32 (71%)
Query: 4 YTCPASNDCEINKRRRKACQACRFQKCLRKGM 35
Y C NDC I+K RRK C ACR++KCL+ GM
Sbjct: 36 YLCAGRNDCIIDKIRRKNCPACRYRKCLQAGM 67
>pdb|2GDA|A Chain A, Refined Solution Structure Of The Glucocorticoid
Receptor Dna-Binding Domain
Length = 72
Score = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 19/32 (59%), Positives = 23/32 (71%)
Query: 4 YTCPASNDCEINKRRRKACQACRFQKCLRKGM 35
Y C NDC I+K RRK C ACR++KCL+ GM
Sbjct: 36 YLCAGRNDCIIDKIRRKNCPACRYRKCLQAGM 67
>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 = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 19/32 (59%), Positives = 23/32 (71%)
Query: 4 YTCPASNDCEINKRRRKACQACRFQKCLRKGM 35
Y C NDC I+K RRK C ACR++KCL+ GM
Sbjct: 41 YLCAGRNDCIIDKIRRKNCPACRYRKCLQAGM 72
>pdb|1R4R|B Chain B, Crystallographic Analysis Of The Interaction Of The
Glucocorticoid Receptor With Dna
Length = 92
Score = 42.0 bits (97), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 19/32 (59%), Positives = 23/32 (71%)
Query: 4 YTCPASNDCEINKRRRKACQACRFQKCLRKGM 35
Y C NDC I+K RRK C ACR++KCL+ GM
Sbjct: 41 YLCAGRNDCIIDKIRRKNCPACRYRKCLQAGM 72
>pdb|1RGD|A Chain A, Structure Refinement Of The Glucocorticoid Receptor-Dna
Binding Domain From Nmr Data By Relaxation Matrix
Calculations
Length = 71
Score = 42.0 bits (97), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 19/32 (59%), Positives = 23/32 (71%)
Query: 4 YTCPASNDCEINKRRRKACQACRFQKCLRKGM 35
Y C NDC I+K RRK C ACR++KCL+ GM
Sbjct: 35 YLCAGRNDCIIDKIRRKNCPACRYRKCLQAGM 66
>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 = 42.0 bits (97), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 19/32 (59%), Positives = 23/32 (71%)
Query: 4 YTCPASNDCEINKRRRKACQACRFQKCLRKGM 35
Y C NDC I+K RRK C ACR++KCL+ GM
Sbjct: 41 YLCAGRNDCIIDKIRRKNCPACRYRKCLQAGM 72
>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 = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/32 (56%), Positives = 22/32 (68%)
Query: 4 YTCPASNDCEINKRRRKACQACRFQKCLRKGM 35
Y C N C I+K RRK C ACR++KCL+ GM
Sbjct: 63 YLCAGDNRCIIDKIRRKNCPACRYRKCLQAGM 94
>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 = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 1 NIEYT-CPASNDCEINKRRRKACQACRFQKCLRKGMLKEGVRLDRV 45
NI+Y C + +C I + R CQ CRF+KCL GM ++ VR R+
Sbjct: 41 NIQYKRCLKNENCSIVRINRNRCQQCRFKKCLSVGMSRDAVRFGRI 86
>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 = 40.0 bits (92), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 27/44 (61%)
Query: 1 NIEYTCPASNDCEINKRRRKACQACRFQKCLRKGMLKEGVRLDR 44
N Y+C S C ++K +R C+ CR +KC R GM KE V+ +R
Sbjct: 34 NHMYSCRFSRQCVVDKDKRNQCRYCRLKKCFRAGMKKEAVQNER 77
>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 = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 18/36 (50%), Positives = 23/36 (63%)
Query: 4 YTCPASNDCEINKRRRKACQACRFQKCLRKGMLKEG 39
Y C NDC ++K RRK C ACR +KC + GM+ G
Sbjct: 39 YLCAGRNDCIVDKIRRKNCPACRLRKCCQAGMVLGG 74
>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 = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 17/33 (51%), Positives = 22/33 (66%)
Query: 3 EYTCPASNDCEINKRRRKACQACRFQKCLRKGM 35
+Y C + NDC I+K RRK C +CR +KC GM
Sbjct: 43 KYLCASRNDCTIDKFRRKNCPSCRLRKCYEAGM 75
>pdb|2ENV|A Chain A, Solution Sturcture Of The C4-Type Zinc Finger Domain
From Human Peroxisome Proliferator-Activated Receptor
Delta
Length = 88
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 19/33 (57%)
Query: 11 DCEINKRRRKACQACRFQKCLRKGMLKEGVRLD 43
C+I K+ R CQ CRFQKCL GM +R
Sbjct: 50 SCKIQKKNRNKCQYCRFQKCLALGMSHNAIRFG 82
>pdb|2NLL|B Chain B, Retinoid X Receptor-Thyroid Hormone Receptor Dna-Binding
Domain Heterodimer Bound To Thyroid Response Element
Dna
Length = 103
Score = 36.6 bits (83), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 26/48 (54%)
Query: 4 YTCPASNDCEINKRRRKACQACRFQKCLRKGMLKEGVRLDRVRGGRQK 51
Y+C C I+K R CQ CRF+KC+ GM + V D R ++K
Sbjct: 40 YSCKYEGKCVIDKVTRNQCQECRFKKCIYVGMATDLVLDDSKRLAKRK 87
>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 = 19/48 (39%), Positives = 26/48 (54%)
Query: 4 YTCPASNDCEINKRRRKACQACRFQKCLRKGMLKEGVRLDRVRGGRQK 51
Y+C C I+K R CQ CRF+KC+ GM + V D R ++K
Sbjct: 42 YSCKYEGKCIIDKVTRNQCQECRFKKCIYVGMATDLVLDDSKRLAKRK 89
>pdb|1LAT|A Chain A, Glucocorticoid Receptor MutantDNA COMPLEX
pdb|1LAT|B Chain B, Glucocorticoid Receptor MutantDNA COMPLEX
Length = 82
Score = 36.2 bits (82), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 17/32 (53%), Positives = 21/32 (65%)
Query: 4 YTCPASNDCEINKRRRKACQACRFQKCLRKGM 35
Y C C I+K RRK C ACR++KCL+ GM
Sbjct: 41 YLCKYEGKCIIDKIRRKNCPACRYRKCLQAGM 72
>pdb|2HAN|B Chain B, Structural Basis Of Heterodimeric Ecdysteroid Receptor
Interaction With Natural Response Element Hsp27 Gene
Promoter
Length = 119
Score = 33.1 bits (74), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 20/37 (54%)
Query: 4 YTCPASNDCEINKRRRKACQACRFQKCLRKGMLKEGV 40
Y C CE++ R+ CQ CR +KCL GM E V
Sbjct: 45 YCCKFGRACEMDMYMRRKCQECRLKKCLAVGMRPECV 81
>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 = 32.7 bits (73), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 20/37 (54%)
Query: 4 YTCPASNDCEINKRRRKACQACRFQKCLRKGMLKEGV 40
Y C CE++ R+ CQ CR +KCL GM E V
Sbjct: 43 YCCKFGRACEMDMYMRRKCQECRLKKCLAVGMRPECV 79
>pdb|1KIT|A Chain A, Vibrio Cholerae Neuraminidase
Length = 757
Score = 28.9 bits (63), Expect = 0.75, Method: Composition-based stats.
Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 10/63 (15%)
Query: 47 GGRQKYRRNPDLLSQQ-WPPNKSIPSLE---------DLERNTEISVSMMSCDGDTSDLG 96
GG + YRRN L SQQ W N I ++ D R +++S+ G ++L
Sbjct: 339 GGSELYRRNTSLNSQQDWQSNAKIRIVDGAANQIQVADGSRKYVVTLSIDESGGLVANLN 398
Query: 97 GLS 99
G+S
Sbjct: 399 GVS 401
>pdb|1W0O|A Chain A, Vibrio Cholerae Sialidase
pdb|1W0P|A Chain A, Vibrio Cholerae Sialidase With Alpha-2,6-Sialyllactose
Length = 781
Score = 28.9 bits (63), Expect = 0.75, Method: Composition-based stats.
Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 10/63 (15%)
Query: 47 GGRQKYRRNPDLLSQQ-WPPNKSIPSLE---------DLERNTEISVSMMSCDGDTSDLG 96
GG + YRRN L SQQ W N I ++ D R +++S+ G ++L
Sbjct: 363 GGSELYRRNTSLNSQQDWQSNAKIRIVDGAANQIQVADGSRKYVVTLSIDESGGLVANLN 422
Query: 97 GLS 99
G+S
Sbjct: 423 GVS 425
>pdb|3LYG|A Chain A, Crystal Structure Of Ntf2-Like Protein Of Unknown Function
(Yp_270605.1) From Colwellia Psychrerythraea 34h At 1.61
A Resolution
Length = 120
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 25/56 (44%), Gaps = 1/56 (1%)
Query: 48 GRQKYRRNPDLLSQQWPPNKSIPSLEDLERNTEISVSMMSCDGDTSDLGGLSYIKK 103
GRQ +R D L + PP I L LE EI VS++ D LS + K
Sbjct: 44 GRQAFRSALDNLGEILPPGFEITGLRQLEGENEI-VSIVEWKSDKXIASQLSVLFK 98
>pdb|3KDS|E Chain E, Apo-ftsh Crystal Structure
pdb|3KDS|F Chain F, Apo-ftsh Crystal Structure
pdb|3KDS|G Chain G, Apo-ftsh Crystal Structure
Length = 465
Score = 26.9 bits (58), Expect = 2.5, Method: Composition-based stats.
Identities = 13/31 (41%), Positives = 22/31 (70%)
Query: 74 DLERNTEISVSMMSCDGDTSDLGGLSYIKKE 104
D+ER TEI+ +M+ G + +LG L++ K+E
Sbjct: 355 DIERATEIARNMVCQLGMSEELGPLAWGKEE 385
>pdb|2CE7|A Chain A, Edta Treated
pdb|2CE7|B Chain B, Edta Treated
pdb|2CE7|C Chain C, Edta Treated
pdb|2CE7|D Chain D, Edta Treated
pdb|2CE7|E Chain E, Edta Treated
pdb|2CE7|F Chain F, Edta Treated
pdb|2CEA|A Chain A, Cell Division Protein Ftsh
pdb|2CEA|B Chain B, Cell Division Protein Ftsh
pdb|2CEA|C Chain C, Cell Division Protein Ftsh
pdb|2CEA|D Chain D, Cell Division Protein Ftsh
pdb|2CEA|E Chain E, Cell Division Protein Ftsh
pdb|2CEA|F Chain F, Cell Division Protein Ftsh
Length = 476
Score = 26.9 bits (58), Expect = 2.5, Method: Composition-based stats.
Identities = 13/31 (41%), Positives = 22/31 (70%)
Query: 74 DLERNTEISVSMMSCDGDTSDLGGLSYIKKE 104
D+ER TEI+ +M+ G + +LG L++ K+E
Sbjct: 355 DIERATEIARNMVCQLGMSEELGPLAWGKEE 385
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 0.133 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,681,270
Number of Sequences: 62578
Number of extensions: 134616
Number of successful extensions: 243
Number of sequences better than 100.0: 52
Number of HSP's better than 100.0 without gapping: 47
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 196
Number of HSP's gapped (non-prelim): 52
length of query: 123
length of database: 14,973,337
effective HSP length: 85
effective length of query: 38
effective length of database: 9,654,207
effective search space: 366859866
effective search space used: 366859866
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)