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= psy12637
(270 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1PMI|A Chain A, Candida Albicans Phosphomannose Isomerase
Length = 440
Score = 158 bits (400), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 86/219 (39%), Positives = 126/219 (57%), Gaps = 20/219 (9%)
Query: 8 QTYEWGKIGLDSKVAQLVEAAGG--TVDKDKNYAELWLGTHPSGPSSILSQCSRSENLES 65
Q Y+WGKIG S VAQ V + T+D+ K YAELW+GTHPS PS + ++ L
Sbjct: 13 QNYDWGKIGSSSAVAQFVHNSDPSITIDETKPYAELWMGTHPSVPSKAIDL--NNQTLRD 70
Query: 66 WIKNNPH-CLGTDVISQFG--EKLPFLLKVLSVDKALSIQMHPSKEQAVKLHREFPDIYK 122
+ P LG +I++FG ++LPFL KVLS++K LSIQ HP K+ +LH P Y
Sbjct: 71 LVTAKPQEYLGESIITKFGSSKELPFLFKVLSIEKVLSIQAHPDKKLGAQLHAADPKNYP 130
Query: 123 DENHKPELAIALSKFEALCGFKPLERIKKNIEETKELQAVIGESLVKSMVSCM------- 175
D+NHKPE+AIA++ FE CGFKPL+++ K + EL +IG+ LV +S +
Sbjct: 131 DDNHKPEMAIAVTDFEGFCGFKPLDQLAKTLATVPELNEIIGQELVDEFISGIKLPAEVG 190
Query: 176 ------NIEVFKEIFHAIMSAPQAQVEKQLCLLNETIHR 208
N ++ +++F +M+ +++Q L E R
Sbjct: 191 SQDDVNNRKLLQKVFGKLMNTDDDVIKQQTAKLLERTDR 229
>pdb|3H1M|A Chain A, Crystal Structure Of Mannose 6-Phosphate Isomerase (Holo;
Zinc Bound)
pdb|3H1W|A Chain A, Crystal Structure Of Mannose 6-Phosphate Isomerase Bound
With Zinc And Yttrium
pdb|3H1Y|A Chain A, Crystal Structure Of Mannose 6-Phosphate Isomerase From
Salmonella Typhimurium Bound To Substrate (F6p)and Metal
Atom (Zn)
Length = 393
Score = 92.8 bits (229), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 71/214 (33%), Positives = 102/214 (47%), Gaps = 25/214 (11%)
Query: 6 SIQTYEWGKIGLDSKVAQLVEAAGGTVDKDKNYAELWLGTHPSGPSSILSQCSRSENLES 65
S+Q Y WG SK A L E G + + AELW+G HP S I + + +L
Sbjct: 9 SVQNYAWG-----SKTA-LTELYGIANPQQQPMAELWMGAHPKSSSRITTANGETVSLRD 62
Query: 66 WI-KNNPHCLGTDVISQFGEKLPFLLKVLSVDKALSIQMHP---------SKEQAVKLHR 115
I KN LG V ++FGE LPFL KVL + LSIQ+HP +KE A +
Sbjct: 63 AIEKNKTAMLGEAVANRFGE-LPFLFKVLCAAQPLSIQVHPNKRNSEIGFAKENAAGIPM 121
Query: 116 EFPDI-YKDENHKPELAIALSKFEALCGFKPLERIKKNIEETKELQAVIG-ESLVKSMVS 173
+ + YKD NHKPEL AL+ F A+ F+ I LQ V G S + +
Sbjct: 122 DAAERNYKDPNHKPELVFALTPFLAMNAFREFSDI------VSLLQPVAGAHSAIAHFLQ 175
Query: 174 CMNIEVFKEIFHAIMSAPQAQVEKQLCLLNETIH 207
N E ++F ++++ + + L +L ++
Sbjct: 176 VPNAERLSQLFASLLNMQGEEKSRALAVLKAALN 209
>pdb|2WFP|A Chain A, Crystal Structure Of Mannose 6-Phosphate Isomerase (Apo
Form) From Salmonella Typhimurium
Length = 394
Score = 92.8 bits (229), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 71/214 (33%), Positives = 102/214 (47%), Gaps = 25/214 (11%)
Query: 6 SIQTYEWGKIGLDSKVAQLVEAAGGTVDKDKNYAELWLGTHPSGPSSILSQCSRSENLES 65
S+Q Y WG SK A L E G + + AELW+G HP S I + + +L
Sbjct: 10 SVQNYAWG-----SKTA-LTELYGIANPQQQPMAELWMGAHPKSSSRITTANGETVSLRD 63
Query: 66 WI-KNNPHCLGTDVISQFGEKLPFLLKVLSVDKALSIQMHP---------SKEQAVKLHR 115
I KN LG V ++FGE LPFL KVL + LSIQ+HP +KE A +
Sbjct: 64 AIEKNKTAMLGEAVANRFGE-LPFLFKVLCAAQPLSIQVHPNKRNSEIGFAKENAAGIPM 122
Query: 116 EFPDI-YKDENHKPELAIALSKFEALCGFKPLERIKKNIEETKELQAVIG-ESLVKSMVS 173
+ + YKD NHKPEL AL+ F A+ F+ I LQ V G S + +
Sbjct: 123 DAAERNYKDPNHKPELVFALTPFLAMNAFREFSDI------VSLLQPVAGAHSAIAHFLQ 176
Query: 174 CMNIEVFKEIFHAIMSAPQAQVEKQLCLLNETIH 207
N E ++F ++++ + + L +L ++
Sbjct: 177 VPNAERLSQLFASLLNMQGEEKSRALAVLKAALN 210
>pdb|1QWR|A Chain A, Crystal Structure Analysis Of The Mannose 6-Phosphate
Isomerase From Bacillus Subtilis
pdb|1QWR|B Chain B, Crystal Structure Analysis Of The Mannose 6-Phosphate
Isomerase From Bacillus Subtilis
Length = 319
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 31/113 (27%), Positives = 50/113 (44%), Gaps = 27/113 (23%)
Query: 29 GGTVDKDK--------NYAELW-LGTHPSGPSSILSQCSRSENL-ESWIKNNPHCLGTDV 78
GGT +D+ + E W + HP GPS++ + + + L E W ++ G +
Sbjct: 21 GGTALRDRFGYSIPSESTGECWAISAHPKGPSTVANGPYKGKTLIELWEEHREVFGGVE- 79
Query: 79 ISQFGEKLPFLLKVLSVDKALSIQMHPSKEQAVKLHREFPDIYKDENHKPELA 131
G++ P L K+L V + SI++HP D Y EN + EL
Sbjct: 80 ----GDRFPLLTKLLDVKEDTSIKVHPD------------DYYAGENEEGELG 116
>pdb|1ZX5|A Chain A, The Structure Of A Putative Mannosephosphate Isomerase
From Archaeoglobus Fulgidus
Length = 300
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 26/112 (23%), Positives = 46/112 (41%), Gaps = 10/112 (8%)
Query: 34 KDKNYAELW-LGTHPSGPSSILSQCSRSENLESWIKNNPHCLGTDVISQFGEKLPFLLKV 92
+ E W H S PS++L + + +E + K+ LG +F K P L+++
Sbjct: 32 RQSGIGESWEFSAHTSRPSTVLVKGQQLSXIELFSKHRDELLGR-AAEKF-SKFPILVRL 89
Query: 93 LSVDKALSIQMHPSKEQAVKLHREFPDIYKDENHKPELAIALSKFEALCGFK 144
+ + +HPS + A L + E + +K +A GFK
Sbjct: 90 IDAASPTQVHVHPSDKAAESLG-------EAEGGVESAWLVFNKGKAYAGFK 134
>pdb|1NTY|A Chain A, Crystal Structure Of The First DhPH DOMAIN OF TRIO TO 1.7
A
Length = 311
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 41 LWLGTHPSGPSSILSQCSRSENLESWIKN 69
LW+G P+ + I+ + S EN + WIK+
Sbjct: 274 LWVGRTPTSDNKIVLKASSIENKQDWIKH 302
>pdb|2NZ8|B Chain B, N-Terminal Dhph Cassette Of Trio In Complex With
Nucleotide- Free Rac1
Length = 313
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 41 LWLGTHPSGPSSILSQCSRSENLESWIKN 69
LW+G P+ + I+ + S EN + WIK+
Sbjct: 276 LWVGRTPTSDNKIVLKASSIENKQDWIKH 304
>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 = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 29/65 (44%), Gaps = 5/65 (7%)
Query: 13 GKIGLDSKVAQLVEAAGGTVDKDKNYAELWLGTHPSGPSSILSQCSRSEN-----LESWI 67
G D V +++EA K + Y E +G +PS P+ ++ ++ + L W
Sbjct: 4 GSANEDMPVERILEAELAVEPKTETYVEANMGLNPSSPNDPVTNICQAADKQLFTLVEWA 63
Query: 68 KNNPH 72
K PH
Sbjct: 64 KRIPH 68
>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 = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 29/65 (44%), Gaps = 5/65 (7%)
Query: 13 GKIGLDSKVAQLVEAAGGTVDKDKNYAELWLGTHPSGPSSILSQCSRSEN-----LESWI 67
G D V +++EA K + Y E +G +PS P+ ++ ++ + L W
Sbjct: 4 GSANEDMPVERILEAELAVEPKTETYVEANMGLNPSSPNDPVTNICQAADKQLFTLVEWA 63
Query: 68 KNNPH 72
K PH
Sbjct: 64 KRIPH 68
>pdb|2ERO|A Chain A, Crystal Structure Of Vascular Apoptosis-inducing Protein-
1(orthorhombic Crystal Form)
pdb|2ERO|B Chain B, Crystal Structure Of Vascular Apoptosis-inducing Protein-
1(orthorhombic Crystal Form)
pdb|2ERP|A Chain A, Crystal Structure Of Vascular Apoptosis-Inducing
Protein-1(Inhibitor- Bound Form)
pdb|2ERP|B Chain B, Crystal Structure Of Vascular Apoptosis-Inducing
Protein-1(Inhibitor- Bound Form)
pdb|2ERQ|A Chain A, Crystal Structure Of Vascular Apoptosis-Inducing
Protein-1(Tetragonal Crystal Form)
pdb|2ERQ|B Chain B, Crystal Structure Of Vascular Apoptosis-Inducing
Protein-1(Tetragonal Crystal Form)
Length = 427
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 36/89 (40%), Gaps = 18/89 (20%)
Query: 10 YEWGKIGLDSKVAQLVEAA-----GGTVDKDKNYAELWLGTHPS--------GPSSILSQ 56
Y G + SK+ LV A G + D + GT P S + S
Sbjct: 131 YSAGIVQDHSKIHHLVAIAMAHEMGHNLGMDHDKDTCTCGTRPCVMAGALSCEASFLFSD 190
Query: 57 CSRSENLESWIKNNPHC-----LGTDVIS 80
CS+ ++ E IKN P C L TDV+S
Sbjct: 191 CSQKDHREFLIKNMPQCILKKPLKTDVVS 219
>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 = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 5/60 (8%)
Query: 18 DSKVAQLVEAAGGTVDKDKNYAELWLGTHPSGPSSILSQCSRSEN-----LESWIKNNPH 72
D V +++EA K + Y E +G +PS P+ ++ ++ + L W K PH
Sbjct: 2 DMPVERILEAELAVEPKTETYVEANMGLNPSSPNDPVTNICQAADKQLFTLVEWAKRIPH 61
>pdb|2DW0|A Chain A, Crystal Structure Of Vap2 From Crotalus Atrox Venom (Form
2-1 Crystal)
pdb|2DW0|B Chain B, Crystal Structure Of Vap2 From Crotalus Atrox Venom (Form
2-1 Crystal)
pdb|2DW1|A Chain A, Crystal Structure Of Vap2 From Crotalus Atrox Venom (Form
2-2 Crystal)
pdb|2DW1|B Chain B, Crystal Structure Of Vap2 From Crotalus Atrox Venom (Form
2-2 Crystal)
pdb|2DW2|A Chain A, Crystal Structure Of Vap2 From Crotalus Atrox Venom (Form
2-5 Crystal)
pdb|2DW2|B Chain B, Crystal Structure Of Vap2 From Crotalus Atrox Venom (Form
2-5 Crystal)
Length = 419
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 20/36 (55%), Gaps = 5/36 (13%)
Query: 50 PSSILSQCSRSENLESWIKNNPHC-----LGTDVIS 80
PS+ S CS E + + +NP C LGTD+IS
Sbjct: 175 PSTFFSNCSYFECWDFIMNHNPECILNEPLGTDIIS 210
>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 = 28.1 bits (61), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 5/60 (8%)
Query: 18 DSKVAQLVEAAGGTVDKDKNYAELWLGTHPSGPSSILSQCSRSEN-----LESWIKNNPH 72
D V +++EA K + Y E +G +PS P+ ++ ++ + L W K PH
Sbjct: 1 DMPVERILEAELAVEPKTETYVEANMGLNPSSPNDPVTNICQAADKQLFTLVEWAKRIPH 60
>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 = 28.1 bits (61), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 5/60 (8%)
Query: 18 DSKVAQLVEAAGGTVDKDKNYAELWLGTHPSGPSSILSQCSRSEN-----LESWIKNNPH 72
D V +++EA K + Y E +G +PS P+ ++ ++ + L W K PH
Sbjct: 2 DMPVERILEAELAVEPKTETYVEANMGLNPSSPNDPVTNICQAADKQLFTLVEWAKRIPH 61
>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 = 28.1 bits (61), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 5/60 (8%)
Query: 18 DSKVAQLVEAAGGTVDKDKNYAELWLGTHPSGPSSILSQCSRSEN-----LESWIKNNPH 72
D V +++EA K + Y E +G +PS P+ ++ ++ + L W K PH
Sbjct: 3 DMPVERILEAELAVEPKTETYVEANMGLNPSSPNDPVTNICQAADKQLFTLVEWAKRIPH 62
>pdb|4A0T|A Chain A, Structure Of The Carboxy-Terminal Domain Of Bacteriophage
T7 Fibre Gp17 Containing Residues 371-553.
pdb|4A0T|B Chain B, Structure Of The Carboxy-Terminal Domain Of Bacteriophage
T7 Fibre Gp17 Containing Residues 371-553.
pdb|4A0T|C Chain C, Structure Of The Carboxy-Terminal Domain Of Bacteriophage
T7 Fibre Gp17 Containing Residues 371-553.
pdb|4A0U|A Chain A, Structure Of The Carboxy-Terminal Domain Of Bacteriophage
T7 Fibre Gp17 Containing Residues 371-553, C2221 Crystal
Form.
pdb|4A0U|B Chain B, Structure Of The Carboxy-Terminal Domain Of Bacteriophage
T7 Fibre Gp17 Containing Residues 371-553, C2221 Crystal
Form.
pdb|4A0U|C Chain C, Structure Of The Carboxy-Terminal Domain Of Bacteriophage
T7 Fibre Gp17 Containing Residues 371-553, C2221 Crystal
Form
Length = 227
Score = 28.1 bits (61), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 8/63 (12%)
Query: 6 SIQTYEWGKIGLDSKVAQLVEAAGGTVDKDKNYAELWLGTHPSGPSSILSQCSRSENLES 65
+IQ +WG LD+ + V K K + ++W G+ G S +SQ R N+
Sbjct: 118 NIQGTKWGGKWLDAYLRDSF------VAKSKAWTQVWSGSAGGGVSVTVSQDLRFRNI-- 169
Query: 66 WIK 68
WIK
Sbjct: 170 WIK 172
>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 = 28.1 bits (61), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 5/60 (8%)
Query: 18 DSKVAQLVEAAGGTVDKDKNYAELWLGTHPSGPSSILSQCSRSEN-----LESWIKNNPH 72
D V +++EA K + Y E +G +PS P+ ++ ++ + L W K PH
Sbjct: 3 DMPVERILEAELAVEPKTETYVEANMGLNPSSPNDPVTNICQAADKQLFTLVEWAKRIPH 62
>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 = 28.1 bits (61), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 5/60 (8%)
Query: 18 DSKVAQLVEAAGGTVDKDKNYAELWLGTHPSGPSSILSQCSRSEN-----LESWIKNNPH 72
D V +++EA K + Y E +G +PS P+ ++ ++ + L W K PH
Sbjct: 5 DMPVERILEAELAVEPKTETYVEANMGLNPSSPNDPVTNICQAADKQLFTLVEWAKRIPH 64
>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 = 28.1 bits (61), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 5/60 (8%)
Query: 18 DSKVAQLVEAAGGTVDKDKNYAELWLGTHPSGPSSILSQCSRSEN-----LESWIKNNPH 72
D V +++EA K + Y E +G +PS P+ ++ ++ + L W K PH
Sbjct: 6 DMPVERILEAELAVEPKTETYVEANMGLNPSSPNDPVTNICQAADKQLFTLVEWAKRIPH 65
>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 = 28.1 bits (61), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 5/60 (8%)
Query: 18 DSKVAQLVEAAGGTVDKDKNYAELWLGTHPSGPSSILSQCSRSEN-----LESWIKNNPH 72
D V +++EA K + Y E +G +PS P+ ++ ++ + L W K PH
Sbjct: 7 DMPVERILEAELAVEPKTETYVEANMGLNPSSPNDPVTNICQAADKQLFTLVEWAKRIPH 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 = 28.1 bits (61), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 5/60 (8%)
Query: 18 DSKVAQLVEAAGGTVDKDKNYAELWLGTHPSGPSSILSQCSRSEN-----LESWIKNNPH 72
D V +++EA K + Y E +G +PS P+ ++ ++ + L W K PH
Sbjct: 11 DMPVERILEAELAVEPKTETYVEANMGLNPSSPNDPVTNICQAADKQLFTLVEWAKRIPH 70
>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 = 28.1 bits (61), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 5/60 (8%)
Query: 18 DSKVAQLVEAAGGTVDKDKNYAELWLGTHPSGPSSILSQCSRSEN-----LESWIKNNPH 72
D V +++EA K + Y E +G +PS P+ ++ ++ + L W K PH
Sbjct: 5 DMPVEKILEAELAVEPKTETYVEANMGLNPSSPNDPVTNICQAADKQLFTLVEWAKRIPH 64
>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 = 27.7 bits (60), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 5/60 (8%)
Query: 18 DSKVAQLVEAAGGTVDKDKNYAELWLGTHPSGPSSILSQCSRSEN-----LESWIKNNPH 72
D V +++EA K + Y E +G +PS P+ ++ ++ + L W K PH
Sbjct: 7 DMPVEKILEAELAVEPKTETYVEANMGLNPSSPNDPVTNICQAADKQLFTLVEWAKRIPH 66
>pdb|1DKF|A Chain A, Crystal Structure Of A Heterodimeric Complex Of Rar And
Rxr Ligand-Binding Domains
Length = 233
Score = 27.7 bits (60), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 5/60 (8%)
Query: 18 DSKVAQLVEAAGGTVDKDKNYAELWLGTHPSGPSSILSQCSRSEN-----LESWIKNNPH 72
D V +++EA K + Y E +G +PS P+ ++ ++ + L W K PH
Sbjct: 5 DMPVEKILEAELAVEPKTETYVEANMGLNPSSPNDPVTNICQAADKQLFTLVEWAKRIPH 64
>pdb|1LBD|A Chain A, Ligand-Binding Domain Of The Human Nuclear Receptor
Rxr-Alpha
Length = 282
Score = 27.7 bits (60), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 5/60 (8%)
Query: 18 DSKVAQLVEAAGGTVDKDKNYAELWLGTHPSGPSSILSQCSRSEN-----LESWIKNNPH 72
D V +++EA K + Y E +G +PS P+ ++ ++ + L W K PH
Sbjct: 49 DMPVERILEAELAVEPKTETYVEANMGLNPSSPNDPVTNICQAADKQLFTLVEWAKRIPH 108
>pdb|3DMK|A Chain A, Crystal Structure Of Down Syndrome Cell Adhesion Molecule
(Dscam) Isoform 1.30.30, N-Terminal Eight Ig Domains
pdb|3DMK|B Chain B, Crystal Structure Of Down Syndrome Cell Adhesion Molecule
(Dscam) Isoform 1.30.30, N-Terminal Eight Ig Domains
pdb|3DMK|C Chain C, Crystal Structure Of Down Syndrome Cell Adhesion Molecule
(Dscam) Isoform 1.30.30, N-Terminal Eight Ig Domains
Length = 816
Score = 27.3 bits (59), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 34/84 (40%), Gaps = 10/84 (11%)
Query: 145 PLERIKKNIEETKELQAVIGESLVKSMVSCMNIEVFKEIFHAIMSAPQAQVEKQLCLLNE 204
P+ R K IE T QAV+ VK + + I A K LC++N
Sbjct: 278 PVFRWYKFIEGTTRKQAVVLNDRVKQVSGTL----------IIKDAVVEDSGKYLCVVNN 327
Query: 205 TIHRTGYSVIATLCSLLNYKFGPP 228
++ + T+ + L+ K PP
Sbjct: 328 SVGGESVETVLTVTAPLSAKIDPP 351
>pdb|3DSL|B Chain B, The Three-Dimensional Structure Of Bothropasin, The Main
Hemorrhagic Factor From Bothrops Jararaca Venom.
pdb|3DSL|A Chain A, The Three-Dimensional Structure Of Bothropasin, The Main
Hemorrhagic Factor From Bothrops Jararaca Venom
Length = 419
Score = 27.3 bits (59), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 19/36 (52%), Gaps = 5/36 (13%)
Query: 50 PSSILSQCSRSENLESWIKNNPHC-----LGTDVIS 80
PS S CS + + +K NP C LGTD++S
Sbjct: 175 PSKFFSNCSYIQCWDFIMKENPQCILNEPLGTDIVS 210
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 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,949,562
Number of Sequences: 62578
Number of extensions: 308546
Number of successful extensions: 860
Number of sequences better than 100.0: 33
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 28
Number of HSP's that attempted gapping in prelim test: 850
Number of HSP's gapped (non-prelim): 33
length of query: 270
length of database: 14,973,337
effective HSP length: 97
effective length of query: 173
effective length of database: 8,903,271
effective search space: 1540265883
effective search space used: 1540265883
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: 51 (24.3 bits)