Structure information

κ receptor

PROTEIN CLASS

Class A (Rhodopsin)

PDB CODE

7Y1F

SPECIES

Homo sapiens

RESOLUTION

3.300

PREFERRED CHAIN

R

REFERENCE

10.1093/PROCEL/PWAC033

PUBLICATION DATE

May 24, 2023

NGL is a WebGL based 3D viewer powered by MMTF.

Download PDB file

Ligand Interaction Browser

Download list in excel
Ligand Amino Acid Generic Number Segment Interaction Type
Ligand Amino Acid Generic Number Segment Interaction Type
dynorphin A-(1-8) Q217 2.60x60 TM2 Van der Waals
dynorphin A-(1-8) Q217 2.60x60 TM2 polar (hydrogen bond)
dynorphin A-(1-8) N224 2.67x67 TM2 polar (hydrogen bond)
dynorphin A-(1-8) N224 2.67x67 TM2 polar (hydrogen bond)
dynorphin A-(1-8) L237 3.29x29 TM3 Van der Waals
dynorphin A-(1-8) L237 3.29x29 TM3 hydrophobic
dynorphin A-(1-8) D240 3.32x32 TM3 Van der Waals
dynorphin A-(1-8) Y241 3.33x33 TM3 polar (hydrogen bond)
dynorphin A-(1-8) Y241 3.33x33 TM3 polar (hydrogen bond)
dynorphin A-(1-8) Y241 3.33x33 TM3 Van der Waals
dynorphin A-(1-8) M244 3.36x36 TM3 Van der Waals
dynorphin A-(1-8) M244 3.36x36 TM3 hydrophobic
dynorphin A-(1-8) C312 45.50x50 ECL2 Van der Waals
dynorphin A-(1-8) S313 45.51x51 ECL2 Van der Waals
dynorphin A-(1-8) L314 45.52x52 ECL2 Van der Waals
dynorphin A-(1-8) Q315 ECL2 Van der Waals
dynorphin A-(1-8) F316 ECL2 Van der Waals
dynorphin A-(1-8) F316 ECL2 polar (hydrogen bond with backbone)
dynorphin A-(1-8) Y321 ECL2 hydrophobic
dynorphin A-(1-8) Y321 ECL2 Van der Waals
dynorphin A-(1-8) D325 5.35x36 TM5 polar (charge-assisted hydrogen bond)
dynorphin A-(1-8) K329 5.39x40 TM5 Van der Waals
dynorphin A-(1-8) V332 5.42x43 TM5 hydrophobic
dynorphin A-(1-8) V332 5.42x43 TM5 Van der Waals
dynorphin A-(1-8) W389 6.48x48 TM6 hydrophobic
dynorphin A-(1-8) I396 6.55x55 TM6 hydrophobic
dynorphin A-(1-8) I396 6.55x55 TM6 Van der Waals
dynorphin A-(1-8) H406 ECL3 Van der Waals
dynorphin A-(1-8) H406 ECL3 polar (hydrogen bond)
dynorphin A-(1-8) L411 7.32x31 TM7 Van der Waals
dynorphin A-(1-8) L411 7.32x31 TM7 hydrophobic
dynorphin A-(1-8) Y414 7.35x34 TM7 polar (hydrogen bond)
dynorphin A-(1-8) Y414 7.35x34 TM7 polar (hydrogen bond)
dynorphin A-(1-8) I418 7.39x38 TM7 hydrophobic
dynorphin A-(1-8) I418 7.39x38 TM7 Van der Waals
dynorphin A-(1-8) Y422 7.43x42 TM7 polar (hydrogen bond)
dynorphin A-(1-8) Y422 7.43x42 TM7 Van der Waals

Ligands

dynorphin A-(1-8)

3D interaction viewer Download PDB file

NGL is a WebGL based 3D viewer powered by MMTF.


Residue Diagrams

S N G V L G V V F V V S Y V A T I I V P 1 F N L A L A D A L V T T T M P F Q S T V 2 M T L T F I S T F M N Y Y D I S I V I K 3 A K I I N I C I W L L S S S V G I S A I 4 Y C V I I I L V P I V F A F I F V C I K M 5 L V V V A V F V V C W T P I H I F I L V 6 I P N L S S N T Y G L A I C F Y Y S S 7
Download: PNG | SVG
ICL1 T K M K ICL1ECL1 S W P F ECL1ICL2 P V K A L D F R ICL2ECL2 G T K V R E D V D V I E C S L Q F P D D ECL2ICL3 R L L S G ICL3ECL3 S T S H ECL3N-term M D S P I Q I F R G E P G P T C A P S A C L P P N S S A W F P G W A E P D S N G S A G S E D A Q L E P A H I S P N-termC-term P L K M R M E R Q S T S R V R N T V Q D P A Y L R D I D G M N K P V C-term A I P V I I T A V Y S V V F V V G L V G N S L V M F V I I R Y T A T N I Y I F N L A L A D A L V T T T M P F Q S T V Y L M N G D V L C K I V I S I D Y Y N M F T S I F T L T M M S V D R Y I A V C H T P L K A K I I N I C I W L L S S S V G I S A I V L G D Y S W W D L F M K I C V F I F A F V I P V L I I I V C Y T L M I L R L K S V S R E K D R N L R R I T R L V L V V V A V F V V C W T P I H I F I L V E A L G S T A A L S S Y Y F C I A L G Y T N S S L N P I L Y A F L D E N F R D F K R C F C F
Download: PNG | SVG

Residue Table


GPCRdb(A)
GPCRdb(A)
κ receptor
TM2
2x60 2.60x60 Q115
2x67 2.67x67 N122
TM3
3x29 3.29x29 I135
3x32 3.32x32 D138
3x33 3.33x33 Y139
3x36 3.36x36 M142
ECL2
45x50 45.50x50 C210
45x51 45.51x51 S211
45x52 45.52x52 L212
TM5
5x36 5.35x36 D223
5x40 5.39x40 K227
5x43 5.42x43 V230
TM6
6x48 6.48x48 W287
6x55 6.55x55 I294
TM7
7x31 7.32x31 L309
7x34 7.35x34 Y312
7x38 7.39x38 I316
7x42 7.43x42 Y320