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4O9S
Biol. Unit 1
Info
Asym.Unit (72 KB)
Biol.Unit 1 (35 KB)
Biol.Unit 2 (35 KB)
Biol.Unit 3 (66 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF RETINOL-BINDING PROTEIN 4 (RBP4)IN COMPLEX WITH A NON-RETINOID LIGAND
Authors
:
Z. Wang, S. Johnstone, N. P. Walker
Date
:
02 Jan 14 (Deposition) - 02 Jul 14 (Release) - 02 Jul 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: A,B (1x)
Keywords
:
Retinol Binding, Disease Mutation, Retinol-Binding, Secreted, Sensory Transduction, Transport, Vision, Vitamin A, Transport Protein, Protein Binding
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Y. Wang, R. Connors, P. Fan, X. Wang, Z. Wang, J. Liu, F. Kayser, J. C. Medina, S. Johnstone, H. Xu, S. Thibault, N. Walker, M. Conn, Y. Zhang, Q. Liu, M. P. Grillo, A. Motani, P. Coward, Z. Wang
Structure-Assisted Discovery Of The First Non-Retinoid Ligands For Retinol-Binding Protein 4.
Bioorg. Med. Chem. Lett. V. 24 2885 2014
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Hetero Components
(3, 15)
Info
All Hetero Components
1a: 1-[4-(8LAMBDA~4~-CYCLOPENTA[4,5]TH... (2RYa)
1b: 1-[4-(8LAMBDA~4~-CYCLOPENTA[4,5]TH... (2RYb)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
2c: CHLORIDE ION (CLc)
3a: 1,2-ETHANEDIOL (EDOa)
3b: 1,2-ETHANEDIOL (EDOb)
3c: 1,2-ETHANEDIOL (EDOc)
3d: 1,2-ETHANEDIOL (EDOd)
3e: 1,2-ETHANEDIOL (EDOe)
3f: 1,2-ETHANEDIOL (EDOf)
3g: 1,2-ETHANEDIOL (EDOg)
3h: 1,2-ETHANEDIOL (EDOh)
3i: 1,2-ETHANEDIOL (EDOi)
3j: 1,2-ETHANEDIOL (EDOj)
3k: 1,2-ETHANEDIOL (EDOk)
3l: 1,2-ETHANEDIOL (EDOl)
3m: 1,2-ETHANEDIOL (EDOm)
3n: 1,2-ETHANEDIOL (EDOn)
3o: 1,2-ETHANEDIOL (EDOo)
3p: 1,2-ETHANEDIOL (EDOp)
3q: 1,2-ETHANEDIOL (EDOq)
3r: 1,2-ETHANEDIOL (EDOr)
3s: 1,2-ETHANEDIOL (EDOs)
3t: 1,2-ETHANEDIOL (EDOt)
3u: 1,2-ETHANEDIOL (EDOu)
3v: 1,2-ETHANEDIOL (EDOv)
3w: 1,2-ETHANEDIOL (EDOw)
3x: 1,2-ETHANEDIOL (EDOx)
3y: 1,2-ETHANEDIOL (EDOy)
3z: 1,2-ETHANEDIOL (EDOz)
4a: DI(HYDROXYETHYL)ETHER (PEGa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
2RY
1
Ligand/Ion
1-[4-(8LAMBDA~4~-CYCLOPENTA[4,5]THIENO[2,3-D]PYRIMIDIN-4-YL)PIPERAZIN-1-YL]-2-[2-(TRIFLUOROMETHYL)PHENYL]ETHANONE
2
CL
-1
Ligand/Ion
CHLORIDE ION
3
EDO
13
Ligand/Ion
1,2-ETHANEDIOL
4
PEG
1
Ligand/Ion
DI(HYDROXYETHYL)ETHER
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Sites
(19, 19)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC8 (SOFTWARE)
17: BC9 (SOFTWARE)
18: CC1 (SOFTWARE)
19: CC8 (SOFTWARE)
View:
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LEU A:35 , PHE A:36 , LEU A:37 , ALA A:55 , ALA A:57 , MET A:73 , VAL A:74 , GLY A:75 , MET A:88 , TYR A:90 , ASP A:102 , ARG A:121 , TYR A:133 , PHE A:135 , HOH A:303
BINDING SITE FOR RESIDUE 2RY A 201
02
AC2
SOFTWARE
GLU A:81 , ASP A:82
BINDING SITE FOR RESIDUE EDO A 202
03
AC3
SOFTWARE
PHE A:9 , ARG A:10 , VAL A:107 , ARG A:155 , GLU A:158 , EDO A:211
BINDING SITE FOR RESIDUE EDO A 203
04
AC4
SOFTWARE
ASP A:126 , LEU A:144 , HOH A:311
BINDING SITE FOR RESIDUE EDO A 204
05
AC5
SOFTWARE
THR A:80 , GLU A:81
BINDING SITE FOR RESIDUE EDO A 205
06
AC6
SOFTWARE
GLN A:156 , ARG A:163 , TYR A:165
BINDING SITE FOR RESIDUE EDO A 206
07
AC7
SOFTWARE
VAL A:42 , THR A:56 , ALA A:57 , LYS A:58
BINDING SITE FOR RESIDUE EDO A 207
08
AC8
SOFTWARE
ASP A:31 , GLN A:164 , ARG A:166
BINDING SITE FOR RESIDUE EDO A 208
09
AC9
SOFTWARE
LYS A:30 , ASP A:31 , PRO A:32 , GLU A:33 , ALA A:130 , ASP A:131 , SER A:132
BINDING SITE FOR RESIDUE EDO A 209
10
BC1
SOFTWARE
VAL A:42 , HIS A:170 , ASN A:171 , GLY A:172
BINDING SITE FOR RESIDUE EDO A 210
11
BC2
SOFTWARE
ARG A:10 , VAL A:11 , VAL A:107 , ARG A:155 , EDO A:203 , HOH A:313
BINDING SITE FOR RESIDUE EDO A 211
12
BC3
SOFTWARE
ASN A:142 , HIS A:170 , PEG A:217 , HOH A:354
BINDING SITE FOR RESIDUE EDO A 212
13
BC4
SOFTWARE
ASN A:66 , TRP A:67 , LEU B:35 , 2RY B:201
BINDING SITE FOR RESIDUE EDO A 213
14
BC5
SOFTWARE
TRP A:91 , TRP B:91 , EDO B:209 , HOH B:398
BINDING SITE FOR RESIDUE EDO A 214
15
BC6
SOFTWARE
ASP A:72 , ALA A:94 , SER A:95 , PHE A:96
BINDING SITE FOR RESIDUE CL A 215
16
BC8
SOFTWARE
ASP A:103 , CYS A:120 , HIS A:170 , ASN A:171 , EDO A:212 , HOH A:400
BINDING SITE FOR RESIDUE PEG A 217
17
BC9
SOFTWARE
EDO A:213 , LEU B:35 , PHE B:36 , LEU B:37 , ALA B:55 , ALA B:57 , VAL B:61 , MET B:73 , VAL B:74 , GLY B:75 , MET B:88 , TYR B:90 , ASP B:102 , ARG B:121 , TYR B:133 , PHE B:135 , HOH B:307
BINDING SITE FOR RESIDUE 2RY B 201
18
CC1
SOFTWARE
GLU A:13 , ASN A:14 , PRO B:145 , GLU B:147
BINDING SITE FOR RESIDUE EDO B 202
19
CC8
SOFTWARE
LEU A:97 , EDO A:214 , TRP B:91 , GLY B:92 , LEU B:97 , GLN B:98 , HOH B:341
BINDING SITE FOR RESIDUE EDO B 209
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(, 0)
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Exons
(0, 0)
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
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SCOP Domains
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CATH Domains
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Pfam Domains
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Chain A
Asymmetric Unit 1
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select chains 'A' and 'C'
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select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
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show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
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Show PDB file:
Asym.Unit (72 KB)
Header - Asym.Unit
Biol.Unit 1 (35 KB)
Header - Biol.Unit 1
Biol.Unit 2 (35 KB)
Header - Biol.Unit 2
Biol.Unit 3 (66 KB)
Header - Biol.Unit 3
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