Go - CXCR5 complex model

GPCR CLASS (FAMILY)

A (Rhodopsin)

SPECIES

Homo sapiens

G PROTEIN FAMILY

Gi/o

DATE

2023-09-15

3D VIEW

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


Tertiary structure confidence

(pLDDT score) avg.: 86.0

Very high (>90)
Confident (90-70)
Low (70-50)
Very low (<50)
Disordered

PTM Score: 0.8
iPTM Score: 0.8
PAE mean: 12.2


GPCR - G protein interface interactions



The biflare plot is a modified version of a flareplot, where lines are drawn between an inner concentric circle (Gα residues) and an outer concentric circle (GPCR residues) depicting the interface interactions.
Different interaction types are shown with different line types (aromatic - solid, hydrophobic - dashed, ionic - long dashed, polar - dotted, Van der Waals - dash-dot).
The interactive features include filtering on interaction type, segments, residues and backbone or sidechain interactions.


Interaction cut-off:

Residue numbering:

GPCR-G protein backbone (bb) or sidechain (sc):





Structures

Sequence Color

Gα, Gβ, Gγ, GPCR
Interaction cut-off: strict (stick), loose (line)

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

Interaction
type		 GPCR
Segment
AA
Number		 Generic
number		 Gα
segment
AA
Number		 Generic
number
Hydrophobic ICL2 V 155 34x51 G.H5 T 340 G.H5.12
Polar TM3 A 150 3x53 G.H5 N 347 G.H5.19
Hydrophobic TM3 A 150 3x53 G.H5 N 347 G.H5.19
Van-der-waals TM3 A 150 3x53 G.H5 N 347 G.H5.19
Aromatic TM6 K 256 6x32 G.H5 Y 354 G.H5.26
Hydrophobic TM6 K 256 6x32 G.H5 Y 354 G.H5.26
Van-der-waals TM6 K 256 6x32 G.H5 Y 354 G.H5.26
Hydrophobic C-term F 372 - G.H3 L 250 G.H3.08
Van-der-waals C-term F 372 - G.H3 L 250 G.H3.08
Hydrophobic TM5 L 245 5x65 G.H5 L 348 G.H5.20
Van-der-waals TM5 L 245 5x65 G.H5 L 348 G.H5.20
Hydrophobic ICL2 Y 158 34x54 G.hns1 K 32 G.hns1.03
Van-der-waals ICL2 Y 158 34x54 G.hns1 K 32 G.hns1.03
Polar TM6 Q 253 6x29 G.h4s6 P 315 G.h4s6.09
Van-der-waals TM6 Q 253 6x29 G.h4s6 P 315 G.h4s6.09
Polar H8 G 326 8x47 G.H5 G 352 G.H5.24
Hydrophobic H8 G 326 8x47 G.H5 G 352 G.H5.24
Hydrophobic TM3 R 147 3x50 G.H5 L 353 G.H5.25
Van-der-waals TM3 R 147 3x50 G.H5 L 353 G.H5.25
Hydrophobic ICL2 V 155 34x51 G.H5 F 336 G.H5.08
Hydrophobic TM2 T 86 2x39 G.H5 C 351 G.H5.23
Hydrophobic ICL2 Y 158 34x54 G.H5 I 343 G.H5.15
Hydrophobic C-term F 372 - G.H3 I 254 G.H3.12
Van-der-waals C-term F 372 - G.H3 I 254 G.H3.12
Polar ICL2 R 159 34x55 G.s2s3 N 194 G.s2s3.02
Hydrophobic TM6 A 261 6x37 G.H5 L 353 G.H5.25
Ionic ICL3 R 251 - G.h4s6 E 318 G.h4s6.12
Polar ICL3 R 251 - G.h4s6 E 318 G.h4s6.12
Hydrophobic ICL3 R 251 - G.h4s6 E 318 G.h4s6.12
Van-der-waals ICL3 R 251 - G.h4s6 E 318 G.h4s6.12
Hydrophobic ICL2 Y 158 34x54 G.S1 V 34 G.S1.02
Van-der-waals ICL2 Y 158 34x54 G.S1 V 34 G.S1.02
Hydrophobic TM3 I 151 3x54 G.H5 L 348 G.H5.20
Van-der-waals TM3 I 151 3x54 G.H5 L 348 G.H5.20
Hydrophobic ICL2 A 154 34x50 G.H5 I 343 G.H5.15
Van-der-waals C-term F 372 - G.H1 K 46 G.H1.01
Hydrophobic TM3 I 151 3x54 G.H5 I 344 G.H5.16
Hydrophobic ICL2 R 159 34x55 G.hns1 K 32 G.hns1.03
Van-der-waals ICL2 R 159 34x55 G.hns1 K 32 G.hns1.03
Hydrophobic C-term F 372 - G.s1h1 G 40 G.s1h1.01
Van-der-waals C-term F 372 - G.s1h1 G 40 G.s1h1.01
Polar C-term T 370 - G.H2 R 209 G.H2.04
Hydrophobic C-term T 370 - G.H2 R 209 G.H2.04
Van-der-waals C-term T 370 - G.H2 R 209 G.H2.04
Polar TM6 A 257 6x33 G.H5 L 353 G.H5.25
Hydrophobic TM6 A 257 6x33 G.H5 L 353 G.H5.25
Van-der-waals TM6 A 257 6x33 G.H5 L 353 G.H5.25
Ionic TM6 R 254 6x30 G.H5 D 341 G.H5.13
Polar TM6 R 254 6x30 G.H5 D 341 G.H5.13
Hydrophobic TM6 R 254 6x30 G.H5 D 341 G.H5.13
Van-der-waals TM6 R 254 6x30 G.H5 D 341 G.H5.13
Hydrophobic C-term T 367 - G.H2 K 210 G.H2.05
Hydrophobic TM6 A 257 6x33 G.H5 L 348 G.H5.20
Hydrophobic TM5 R 244 5x64 G.H5 I 344 G.H5.16
Polar TM6 Q 253 6x29 G.H5 Y 354 G.H5.26
Hydrophobic TM6 Q 253 6x29 G.H5 Y 354 G.H5.26
Van-der-waals TM6 Q 253 6x29 G.H5 Y 354 G.H5.26
Polar TM3 R 147 3x50 G.H5 C 351 G.H5.23
Hydrophobic TM3 R 147 3x50 G.H5 C 351 G.H5.23
Van-der-waals TM3 R 147 3x50 G.H5 C 351 G.H5.23
Hydrophobic H8 G 326 8x47 G.H5 Y 354 G.H5.26
Van-der-waals H8 G 326 8x47 G.H5 Y 354 G.H5.26
Hydrophobic TM3 I 151 3x54 G.H5 L 353 G.H5.25
Hydrophobic C-term T 371 - G.H2 R 206 G.H2.01
Ionic C-term E 362 - G.H3 K 258 G.H3.16
Hydrophobic C-term T 367 - G.H2 E 208 G.H2.03
Van-der-waals C-term T 367 - G.H2 E 208 G.H2.03
Polar ICL2 Y 158 34x54 G.S1 D 33 G.S1.01
Hydrophobic ICL2 Y 158 34x54 G.S1 D 33 G.S1.01
Van-der-waals ICL2 Y 158 34x54 G.S1 D 33 G.S1.01
Hydrophobic C-term F 372 - G.s3h2 G 203 G.s3h2.01
Van-der-waals C-term F 372 - G.s3h2 G 203 G.s3h2.01
Hydrophobic ICL2 A 154 34x50 G.H5 I 344 G.H5.16
Van-der-waals ICL2 A 154 34x50 G.H5 I 344 G.H5.16
Polar H8 V 327 8x48 G.H5 Y 354 G.H5.26
Hydrophobic H8 V 327 8x48 G.H5 Y 354 G.H5.26
Van-der-waals H8 V 327 8x48 G.H5 Y 354 G.H5.26
Hydrophobic C-term F 372 - G.S1 L 39 G.S1.07
Van-der-waals C-term F 372 - G.S1 L 39 G.S1.07
Polar C-term R 357 - G.h4s6 R 313 G.h4s6.03
Van-der-waals C-term R 357 - G.h4s6 R 313 G.h4s6.03
Hydrophobic ICL2 R 161 34x57 G.hns1 A 31 G.hns1.02
Polar ICL2 R 159 34x55 G.S3 H 196 G.S3.02
Ionic ICL3 R 251 - G.H5 D 341 G.H5.13
Polar ICL3 R 251 - G.H5 D 341 G.H5.13
Van-der-waals ICL3 R 251 - G.H5 D 341 G.H5.13
Polar ICL2 Y 158 34x54 G.hns1 A 31 G.hns1.02
Hydrophobic TM5 L 245 5x65 G.H5 I 344 G.H5.16
Polar ICL3 R 251 - G.S6 Y 320 G.S6.02
Hydrophobic ICL3 R 251 - G.S6 Y 320 G.S6.02
Van-der-waals ICL3 R 251 - G.S6 Y 320 G.S6.02
Hydrophobic TM6 V 260 6x36 G.H5 L 353 G.H5.25
Polar TM6 Q 253 6x29 G.h4s6 N 316 G.h4s6.10
Aromatic C-term F 372 - G.H2 R 209 G.H2.04
Hydrophobic C-term F 372 - G.H2 R 209 G.H2.04
Van-der-waals C-term F 372 - G.H2 R 209 G.H2.04
Hydrophobic C-term F 372 - G.H2 W 212 G.H2.07
Hydrophobic ICL2 Y 158 34x54 G.S3 L 195 G.S3.01
Polar C-term T 371 - G.s4h3 E 237 G.s4h3.10
Hydrophobic ICL2 V 155 34x51 G.S3 L 195 G.S3.01