Structure information

apelin receptor

PROTEIN CLASS

Class A (Rhodopsin)

PDB CODE

6KNM

SPECIES

Homo sapiens

RESOLUTION

3.200

PREFERRED CHAIN

B

REFERENCE

10.1126/SCIADV.AAX7379

PUBLICATION DATE

Jan. 29, 2020

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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
Single domain antibody JN241 E18 N-term polar (hydrogen bond with backbone)
Single domain antibody JN241 E18 N-term Van der Waals
Single domain antibody JN241 C19 N-term polar (hydrogen bond with backbone)
Single domain antibody JN241 C19 N-term Van der Waals
Single domain antibody JN241 E20 N-term Van der Waals
Single domain antibody JN241 Y21 N-term polar (hydrogen bond)
Single domain antibody JN241 Y21 N-term polar (hydrogen bond with backbone)
Single domain antibody JN241 Y21 N-term Van der Waals
Single domain antibody JN241 Y21 N-term polar (hydrogen bond)
Single domain antibody JN241 T22 N-term Van der Waals
Single domain antibody JN241 Y93 ECL1 aromatic (face-to-face)
Single domain antibody JN241 Y93 ECL1 Van der Waals
Single domain antibody JN241 R168 4.64x65 TM4 polar (charge-assisted hydrogen bond)
Single domain antibody JN241 D172 ECL2 Van der Waals
Single domain antibody JN241 D172 ECL2 polar (hydrogen bond with backbone)
Single domain antibody JN241 L173 ECL2 hydrophobic
Single domain antibody JN241 L173 ECL2 Van der Waals
Single domain antibody JN241 E174 ECL2 polar (charge-assisted hydrogen bond)
Single domain antibody JN241 N175 ECL2 polar (hydrogen bond with backbone)
Single domain antibody JN241 N175 ECL2 Van der Waals
Single domain antibody JN241 T176 ECL2 Van der Waals
Single domain antibody JN241 K178 ECL2 polar (charge-assisted hydrogen bond)
Single domain antibody JN241 Q180 ECL2 polar (hydrogen bond)
Single domain antibody JN241 Y182 45.51x51 ECL2 Van der Waals
Single domain antibody JN241 Y182 45.51x51 ECL2 hydrophobic
Single domain antibody JN241 M183 45.52x52 ECL2 Van der Waals
Single domain antibody JN241 V191 ECL2 hydrophobic
Single domain antibody JN241 V191 ECL2 Van der Waals
Single domain antibody JN241 S192 ECL2 Van der Waals
Single domain antibody JN241 E194 5.31x32 TM5 Van der Waals
Single domain antibody JN241 W195 5.32x33 TM5 Van der Waals
Single domain antibody JN241 E198 5.35x36 TM5 Van der Waals
Single domain antibody JN241 Y264 6.51x51 TM6 Van der Waals
Single domain antibody JN241 Y264 6.51x51 TM6 polar (hydrogen bond)
Single domain antibody JN241 Y271 6.58x58 TM6 polar (hydrogen bond)
Single domain antibody JN241 Y271 6.58x58 TM6 Van der Waals
Single domain antibody JN241 S275 6.62x62 TM6 Van der Waals
Single domain antibody JN241 C281 7.25x24 TM7 hydrophobic
Single domain antibody JN241 C281 7.25x24 TM7 Van der Waals
Single domain antibody JN241 D284 7.28x27 TM7 Van der Waals
Single domain antibody JN241 L285 7.29x28 TM7 Van der Waals
Single domain antibody JN241 M288 7.32x31 TM7 Van der Waals
Single domain antibody JN241 M288 7.32x31 TM7 hydrophobic
Single domain antibody JN241 F291 7.35x34 TM7 hydrophobic
Single domain antibody JN241 F291 7.35x34 TM7 Van der Waals

Ligands

Single domain antibody JN241

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Residue Diagrams

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


GPCRdb(A)
GPCRdb(A)
apelin receptor
TM4
4x65 4.64x65 R168
ECL2
45x51 45.51x51 Y182
45x52 45.52x52 M183
TM5
5x32 5.31x32 E194
5x33 5.32x33 W195
5x36 5.35x36 E198
TM6
6x51 6.51x51 Y264
6x58 6.58x58 Y271
6x62 6.62x62 S275
TM7
7x24 7.25x24 C281
7x27 7.28x27 D284
7x28 7.29x28 L285
7x31 7.32x31 M288
7x34 7.35x34 F291