Structure information

succinate receptor

PROTEIN CLASS

Class A (Rhodopsin)

PDB CODE

6RNK

SPECIES

Rattus norvegicus

RESOLUTION

1.940

PREFERRED CHAIN

A

REFERENCE

10.1038/S41586-019-1663-8

PUBLICATION DATE

Aug. 14, 2019

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Ligand Interaction Browser

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Ligand Amino Acid Generic Number Segment Interaction Type
Ligand Amino Acid Generic Number Segment Interaction Type
NF-56-EJ40 E18 1.31x31 TM1 polar (charge-assisted hydrogen bond)
NF-56-EJ40 Y26 1.39x39 TM1 polar (hydrogen bond)
NF-56-EJ40 Y26 1.39x39 TM1 Van der Waals
NF-56-EJ40 L75 2.60x60 TM2 hydrophobic
NF-56-EJ40 L75 2.60x60 TM2 Van der Waals
NF-56-EJ40 S78 2.63x63 TM2 Van der Waals
NF-56-EJ40 Y79 2.64x64 TM2 polar (hydrogen bond)
NF-56-EJ40 Y79 2.64x64 TM2 polar (hydrogen bond)
NF-56-EJ40 G82 2.67x67 TM2 Van der Waals
NF-56-EJ40 N83 23.49x49 ECL1 Van der Waals
NF-56-EJ40 W84 23.50x50 ECL1 Van der Waals
NF-56-EJ40 W84 23.50x50 ECL1 hydrophobic
NF-56-EJ40 N94 3.28x28 TM3 Van der Waals
NF-56-EJ40 R95 3.29x29 TM3 Van der Waals
NF-56-EJ40 L98 3.32x32 TM3 Van der Waals
NF-56-EJ40 L98 3.32x32 TM3 hydrophobic
NF-56-EJ40 H99 3.33x33 TM3 Van der Waals
NF-56-EJ40 C168 45.50x50 ECL2 Van der Waals
NF-56-EJ40 Y244 6.51x51 TM6 hydrophobic
NF-56-EJ40 Y244 6.51x51 TM6 Van der Waals
NF-56-EJ40 R276 7.39x38 TM7 polar (charge-assisted hydrogen bond)
NF-56-EJ40 F280 7.43x42 TM7 hydrophobic
NF-56-EJ40 F280 7.43x42 TM7 Van der Waals

Ligands

NF-56-EJ40

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Residue Diagrams

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


GPCRdb(A)
GPCRdb(A)
succinate receptor
TM1
1x31 1.31x31 K18
1x39 1.39x39 Y26
TM2
2x60 2.60x60 L75
2x63 2.63x63 S78
2x64 2.64x64 Y79
2x67 2.67x67 G82
ECL1
23x49 23.49x49 N83
23x50 23.50x50 W84
TM3
3x28 3.28x28 N94
3x29 3.29x29 R95
3x32 3.32x32 L98
3x33 3.33x33 H99
ECL2
45x50 45.50x50 C168
TM6
6x51 6.51x51 Y244
TM7
7x38 7.39x38 R276
7x42 7.43x42 F280