CXCR4 homology model

PROTEIN CLASS

Class A (Rhodopsin)

RECEPTOR

SPECIES

Homo sapiens

STATE

Intermediate (Δ distance (Å): 7.56 docs)

VERSION

2018-07-10

MAIN TEMPLATE

μ receptor (sequence similarity: 47%) PDB: 6DDE

TEMPLATES

Main template (%) Additional templates (%) No template - freely modelled (%)
Backbone 74.6 19.1 6.4
Side-chains 22.4 66.9 10.7

Number of backbone templates: 5
Number of rotamer templates: 25

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4RWS
3ODU
6DDE
4ZUD
5UIW
None

PDB file contains GPCRdb generic numbers in the B-factor field of CA atoms

Segment Seq.num. GPCRdb# Backbone PDB Rotamer PDB
N-term 25 CXCR4 4RWS CXCR4 4RWS
N-term 26 CXCR4 4RWS CXCR4 4RWS
N-term 27 CXCR4 4RWS CXCR4 4RWS
N-term 28 CXCR4 4RWS CXCR4 4RWS
N-term 29 CXCR4 4RWS CXCR4 4RWS
TM1 30 1.24x24 CXCR4 4RWS CXCR4 4RWS
TM1 31 1.25x25 CXCR4 4RWS CXCR4 4RWS
TM1 32 1.26x26 CXCR4 4RWS CXCR4 4RWS
TM1 33 1.27x27 CXCR4 4RWS CXCR4 4RWS
TM1 34 1.28x28 CXCR4 4RWS CXCR4 4RWS
TM1 35 1.29x29 CXCR4 4RWS CXCR4 4RWS
TM1 36 1.30x30 CXCR4 4RWS CXCR4 4RWS
TM1 37 1.31x31 μ receptor 6DDE CXCR4 3ODU
TM1 38 1.32x32 μ receptor 6DDE NTS1 receptor 4XES
TM1 39 1.33x33 μ receptor 6DDE CXCR4 3ODU
TM1 40 1.34x34 μ receptor 6DDE PAR2 5NDD
TM1 41 1.35x35 μ receptor 6DDE P2Y1 receptor 4XNW
TM1 42 1.36x36 μ receptor 6DDE P2Y1 receptor 4XNW
TM1 43 1.37x37 μ receptor 6DDE A2A receptor 4UHR
TM1 44 1.38x38 μ receptor 6DDE NTS1 receptor 4XES
TM1 45 1.39x39 μ receptor 6DDE μ receptor 6DDE
TM1 46 1.40x40 μ receptor 6DDE μ receptor 6DDE
TM1 47 1.41x41 μ receptor 6DDE μ receptor 6DDE
TM1 48 1.42x42 μ receptor 6DDE PAF receptor 5ZKQ
TM1 49 1.43x43 μ receptor 6DDE P2Y1 receptor 4XNW
TM1 50 1.44x44 μ receptor 6DDE 5-HT1B receptor 4IAQ
TM1 51 1.45x45 μ receptor 6DDE CXCR4 3ODU
TM1 52 1.46x46 μ receptor 6DDE μ receptor 6DDE
TM1 53 1.47x47 μ receptor 6DDE 5-HT2B receptor 4IB4
TM1 54 1.48x48 μ receptor 6DDE NTS1 receptor 4XES
TM1 55 1.49x49 μ receptor 6DDE μ receptor 6DDE
TM1 56 1.50x50 μ receptor 6DDE μ receptor 6DDE
TM1 57 1.51x51 μ receptor 6DDE PAR2 5NDD
TM1 58 1.52x52 μ receptor 6DDE μ receptor 6DDE
TM1 59 1.53x53 μ receptor 6DDE μ receptor 6DDE
TM1 60 1.54x54 μ receptor 6DDE P2Y1 receptor 4XNW
TM1 61 1.55x55 μ receptor 6DDE 5-HT2B receptor 4IB4
TM1 62 1.56x56 μ receptor 6DDE μ receptor 6DDE
TM1 63 1.57x57 μ receptor 6DDE CXCR4 3ODU
TM1 64 1.58x58 μ receptor 6DDE CXCR4 3ODU
TM1 65 1.59x59 μ receptor 6DDE CXCR4 3ODU
TM1 66 1.60x60 μ receptor 6DDE CXCR4 3ODU
ICL1 67 12.48x48 - - - -
ICL1 68 12.49x49 AT1 receptor 4ZUD 5-HT1B receptor 4IAQ
ICL1 69 12.50x50 AT1 receptor 4ZUD AT1 receptor 4ZUD
ICL1 70 12.51x51 - - - -
TM2 71 2.37x37 CXCR4 3ODU CXCR4 3ODU
TM2 72 2.38x38 μ receptor 6DDE CXCR4 3ODU
TM2 73 2.39x39 μ receptor 6DDE μ receptor 6DDE
TM2 74 2.40x40 μ receptor 6DDE CXCR4 3ODU
TM2 75 2.41x41 μ receptor 6DDE CXCR4 3ODU
TM2 76 2.42x42 μ receptor 6DDE μ receptor 6DDE
TM2 77 2.43x43 μ receptor 6DDE CXCR4 3ODU
TM2 78 2.44x44 μ receptor 6DDE PAR1 3VW7
TM2 79 2.45x45 μ receptor 6DDE PAR1 3VW7
TM2 80 2.46x46 μ receptor 6DDE μ receptor 6DDE
TM2 81 2.47x47 μ receptor 6DDE CXCR4 3ODU
TM2 82 2.48x48 μ receptor 6DDE 5-HT2B receptor 4IB4
TM2 83 2.49x49 μ receptor 6DDE μ receptor 6DDE
TM2 84 2.50x50 μ receptor 6DDE μ receptor 6DDE
TM2 85 2.51x51 μ receptor 6DDE PAR2 5NDD
TM2 86 2.52x52 μ receptor 6DDE μ receptor 6DDE
TM2 87 2.53x53 μ receptor 6DDE PAR1 3VW7
TM2 88 2.54x54 μ receptor 6DDE P2Y1 receptor 4XNW
TM2 89 2.55x55 μ receptor 6DDE PAR2 5NDD
TM2 90 2.56x56 μ receptor 6DDE μ receptor 6DDE
TM2 91 2.57x57 μ receptor 6DDE μ receptor 6DDE
TM2 92 2.58x58 μ receptor 6DDE μ receptor 6DDE
TM2 93 2.59x59 μ receptor 6DDE μ receptor 6DDE
TM2 94 2.60x60 μ receptor 6DDE PAF receptor 5ZKQ
TM2 95 2.61x61 μ receptor 6DDE FFA1 receptor 5TZY
TM2 96 2.62x62 μ receptor 6DDE μ receptor 6DDE
TM2 97 2.63x63 μ receptor 6DDE CXCR4 3ODU
TM2 98 2.64x64 μ receptor 6DDE FFA1 receptor 5TZY
TM2 99 2.65x65 μ receptor 6DDE 5-HT1B receptor 4IAQ
TM2 100 2.66x66 μ receptor 6DDE FFA1 receptor 5TZY
ECL1 101 23.49x49 - - - -
ECL1 102 23.50x50 CXCR4 3ODU CXCR4 3ODU
ECL1 103 23.51x51 CXCR4 3ODU CXCR4 3ODU
ECL1 104 23.52x52 - - - -
TM3 105 3.21x21 μ receptor 6DDE μ receptor 6DDE
TM3 106 3.22x22 μ receptor 6DDE μ receptor 6DDE
TM3 107 3.23x23 μ receptor 6DDE P2Y12 receptor 4NTJ
TM3 108 3.24x24 μ receptor 6DDE μ receptor 6DDE
TM3 109 3.25x25 μ receptor 6DDE μ receptor 6DDE
TM3 110 3.26x26 μ receptor 6DDE μ receptor 6DDE
TM3 111 3.27x27 μ receptor 6DDE 5-HT2B receptor 4IB4
TM3 112 3.28x28 μ receptor 6DDE μ receptor 6DDE
TM3 113 3.29x29 μ receptor 6DDE CXCR4 3ODU
TM3 114 3.30x30 μ receptor 6DDE P2Y12 receptor 4NTJ
TM3 115 3.31x31 μ receptor 6DDE μ receptor 6DDE
TM3 116 3.32x32 μ receptor 6DDE CXCR4 3ODU
TM3 117 3.33x33 μ receptor 6DDE CXCR4 3ODU
TM3 118 3.34x34 μ receptor 6DDE P2Y1 receptor 4XNW
TM3 119 3.35x35 μ receptor 6DDE μ receptor 6DDE
TM3 120 3.36x36 μ receptor 6DDE P2Y1 receptor 4XNW
TM3 121 3.37x37 μ receptor 6DDE P2Y1 receptor 4XNW
TM3 122 3.38x38 μ receptor 6DDE A2A receptor 4UHR
TM3 123 3.39x39 μ receptor 6DDE μ receptor 6DDE
TM3 124 3.40x40 μ receptor 6DDE PAF receptor 5ZKQ
TM3 125 3.41x41 μ receptor 6DDE P2Y1 receptor 4XNW
TM3 126 3.42x42 μ receptor 6DDE CXCR4 3ODU
TM3 127 3.43x43 μ receptor 6DDE μ receptor 6DDE
TM3 128 3.44x44 μ receptor 6DDE NTS1 receptor 4XES
TM3 129 3.45x45 μ receptor 6DDE CXCR4 3ODU
TM3 130 3.46x46 μ receptor 6DDE P2Y1 receptor 4XNW
TM3 131 3.47x47 μ receptor 6DDE μ receptor 6DDE
TM3 132 3.48x48 μ receptor 6DDE 5-HT1B receptor 4IAQ
TM3 133 3.49x49 μ receptor 6DDE μ receptor 6DDE
TM3 134 3.50x50 μ receptor 6DDE μ receptor 6DDE
TM3 135 3.51x51 μ receptor 6DDE μ receptor 6DDE
TM3 136 3.52x52 μ receptor 6DDE PAR1 3VW7
TM3 137 3.53x53 μ receptor 6DDE μ receptor 6DDE
TM3 138 3.54x54 μ receptor 6DDE PAR2 5NDD
TM3 139 3.55x55 μ receptor 6DDE P2Y1 receptor 4XNW
TM3 140 3.56x56 μ receptor 6DDE μ receptor 6DDE
ICL2 141 34.50x50 - - - -
ICL2 142 34.51x51 CCR5 5UIW - -
ICL2 143 34.52x52 CCR5 5UIW - -
ICL2 144 34.53x53 CCR5 5UIW P2Y1 receptor 4XNW
ICL2 145 34.54x54 CCR5 5UIW FFA1 receptor 5TZY
ICL2 146 34.55x55 CCR5 5UIW C5a1 receptor 5O9H
ICL2 147 34.56x56 CCR5 5UIW - -
ICL2 148 34.57x57 - - - -
TM4 149 4.38x38 μ receptor 6DDE P2Y1 receptor 4XNW
TM4 150 4.39x39 μ receptor 6DDE PAR1 3VW7
TM4 151 4.40x40 μ receptor 6DDE P2Y12 receptor 4PXZ
TM4 152 4.41x41 μ receptor 6DDE CXCR4 3ODU
TM4 153 4.42x42 μ receptor 6DDE CXCR4 3ODU
TM4 154 4.43x43 μ receptor 6DDE μ receptor 6DDE
TM4 155 4.44x44 μ receptor 6DDE 5-HT1B receptor 4IAQ
TM4 156 4.45x45 μ receptor 6DDE μ receptor 6DDE
TM4 157 4.46x46 μ receptor 6DDE CXCR4 3ODU
TM4 158 4.47x47 μ receptor 6DDE μ receptor 6DDE
TM4 159 4.48x48 μ receptor 6DDE CXCR4 3ODU
TM4 160 4.49x49 μ receptor 6DDE P2Y1 receptor 4XNW
TM4 161 4.50x50 μ receptor 6DDE μ receptor 6DDE
TM4 162 4.51x51 μ receptor 6DDE μ receptor 6DDE
TM4 163 4.52x52 μ receptor 6DDE CXCR4 3ODU
TM4 164 4.53x53 μ receptor 6DDE PAR1 3VW7
TM4 165 4.54x54 μ receptor 6DDE PAR2 5NDD
TM4 166 4.55x55 μ receptor 6DDE PAR2 5NDD
TM4 167 4.56x56 μ receptor 6DDE NTS1 receptor 4XES
TM4 168 4.57x57 CXCR4 3ODU PAR2 5NDD
TM4 169 4.58x59 CXCR4 3ODU PAR2 5NDD
TM4 170 4.59x60 μ receptor 6DDE PAR2 5NDD
TM4 171 4.60x61 μ receptor 6DDE CXCR4 3ODU
TM4 172 4.61x62 μ receptor 6DDE μ receptor 6DDE
TM4 173 4.62x63 CXCR4 3ODU CXCR4 3ODU
TM4 174 4.63x64 CXCR4 3ODU CXCR4 3ODU
TM4 175 4.64x65 CXCR4 3ODU CXCR4 3ODU
ECL2 176 μ receptor 6DDE - -
ECL2 177 μ receptor 6DDE - -
ECL2 178 μ receptor 6DDE - -
ECL2 179 μ receptor 6DDE - -
ECL2 180 μ receptor 6DDE - -
ECL2 181 μ receptor 6DDE - -
ECL2 182 μ receptor 6DDE - -
ECL2 183 μ receptor 6DDE - -
ECL2 184 μ receptor 6DDE - -
ECL2 185 μ receptor 6DDE - -
ECL2 186 45.50x50 μ receptor 6DDE μ receptor 6DDE
ECL2 187 45.51x51 μ receptor 6DDE CXCR4 3ODU
ECL2 188 45.52x52 μ receptor 6DDE CXCR4 3ODU
ECL2 189 - - - -
ECL2 190 CXCR4 3ODU CXCR4 3ODU
ECL2 191 CXCR4 3ODU CXCR4 3ODU
ECL2 192 - - - -
TM5 193 5.32x33 CXCR4 3ODU CXCR4 3ODU
TM5 194 5.33x34 μ receptor 6DDE CXCR4 3ODU
TM5 195 5.34x35 μ receptor 6DDE μ receptor 6DDE
TM5 196 5.35x36 μ receptor 6DDE NTS1 receptor 4XES
TM5 197 5.36x37 μ receptor 6DDE CXCR4 3ODU
TM5 198 5.37x38 μ receptor 6DDE NTS1 receptor 4XES
TM5 199 5.38x39 μ receptor 6DDE PAR1 3VW7
TM5 200 5.39x40 μ receptor 6DDE CXCR4 3ODU
TM5 201 5.40x41 μ receptor 6DDE FFA1 receptor 5TZY
TM5 202 5.41x42 μ receptor 6DDE CXCR4 3ODU
TM5 203 5.42x43 μ receptor 6DDE CXCR4 3ODU
TM5 204 5.43x44 μ receptor 6DDE CXCR4 3ODU
TM5 205 5.44x45 μ receptor 6DDE CXCR4 3ODU
TM5 206 5.45x46 μ receptor 6DDE CXCR4 3ODU
TM5 207 5.46x461 μ receptor 6DDE CXCR4 3ODU
TM5 208 5.47x47 μ receptor 6DDE CXCR4 3ODU
TM5 209 5.48x48 μ receptor 6DDE μ receptor 6DDE
TM5 210 5.49x49 μ receptor 6DDE PAF receptor 5ZKQ
TM5 211 5.50x50 μ receptor 6DDE μ receptor 6DDE
TM5 212 5.51x51 μ receptor 6DDE CXCR4 3ODU
TM5 213 5.52x52 μ receptor 6DDE PAR1 3VW7
TM5 214 5.53x53 μ receptor 6DDE NTS1 receptor 4XES
TM5 215 5.54x54 μ receptor 6DDE μ receptor 6DDE
TM5 216 5.55x55 μ receptor 6DDE P2Y1 receptor 4XNW
TM5 217 5.56x56 μ receptor 6DDE PAR2 5NDD
TM5 218 5.57x57 μ receptor 6DDE μ receptor 6DDE
TM5 219 5.58x58 μ receptor 6DDE μ receptor 6DDE
TM5 220 5.59x59 μ receptor 6DDE CXCR4 3ODU
TM5 221 5.60x60 μ receptor 6DDE CXCR4 3ODU
TM5 222 5.61x61 μ receptor 6DDE P2Y1 receptor 4XNW
TM5 223 5.62x62 μ receptor 6DDE μ receptor 6DDE
TM5 224 5.63x63 μ receptor 6DDE CXCR4 3ODU
TM5 225 5.64x64 μ receptor 6DDE NTS1 receptor 4XES
TM5 226 5.65x65 μ receptor 6DDE μ receptor 6DDE
TM5 227 5.66x66 μ receptor 6DDE PAR1 3VW7
TM5 228 5.67x67 μ receptor 6DDE CXCR4 3OE0
TM5 229 5.68x68 μ receptor 6DDE PAR1 3VW7
ICL3 230 - - - -
ICL3 231 - - - -
ICL3 232 - - - -
ICL3 233 - - - -
TM6 234 6.30x30 μ receptor 6DDE PAR2 5NDD
TM6 235 6.31x31 μ receptor 6DDE μ receptor 6DDE
TM6 236 6.32x32 μ receptor 6DDE PAR2 5NDD
TM6 237 6.33x33 μ receptor 6DDE 5-HT2B receptor 4IB4
TM6 238 6.34x34 μ receptor 6DDE CXCR4 3ODU
TM6 239 6.35x35 μ receptor 6DDE 5-HT1B receptor 5V54
TM6 240 6.36x36 μ receptor 6DDE 5-HT1B receptor 4IAQ
TM6 241 6.37x37 μ receptor 6DDE CXCR4 3ODU
TM6 242 6.38x38 μ receptor 6DDE P2Y1 receptor 4XNW
TM6 243 6.39x39 μ receptor 6DDE P2Y1 receptor 4XNW
TM6 244 6.40x40 μ receptor 6DDE CXCR4 3ODU
TM6 245 6.41x41 μ receptor 6DDE P2Y12 receptor 4NTJ
TM6 246 6.42x42 μ receptor 6DDE P2Y1 receptor 4XNW
TM6 247 6.43x43 μ receptor 6DDE PAR2 5NDD
TM6 248 6.44x44 μ receptor 6DDE μ receptor 6DDE
TM6 249 6.45x45 μ receptor 6DDE P2Y1 receptor 4XNW
TM6 250 6.46x46 μ receptor 6DDE P2Y1 receptor 4XNW
TM6 251 6.47x47 μ receptor 6DDE PAR2 5NDD
TM6 252 6.48x48 μ receptor 6DDE μ receptor 6DDE
TM6 253 6.49x49 μ receptor 6DDE NTS1 receptor 4XES
TM6 254 6.50x50 μ receptor 6DDE μ receptor 6DDE
TM6 255 6.51x51 μ receptor 6DDE NTS1 receptor 4XES
TM6 256 6.52x52 μ receptor 6DDE CXCR4 3ODU
TM6 257 6.53x53 μ receptor 6DDE μ receptor 6DDE
TM6 258 6.54x54 μ receptor 6DDE CXCR4 3ODU
TM6 259 6.55x55 μ receptor 6DDE CXCR4 3ODU
TM6 260 6.56x56 μ receptor 6DDE CXCR4 3ODU
TM6 261 6.57x57 μ receptor 6DDE μ receptor 6DDE
TM6 262 6.58x58 μ receptor 6DDE CXCR4 3ODU
TM6 263 6.59x59 μ receptor 6DDE CXCR4 3ODU
TM6 264 6.60x60 μ receptor 6DDE PAR2 5NDD
TM6 265 6.61x61 μ receptor 6DDE μ receptor 6DDE
TM6 266 6.62x62 CXCR4 3ODU CXCR4 3ODU
TM6 267 6.63x63 CXCR4 3ODU CXCR4 3ODU
TM6 268 6.64x64 CXCR4 3ODU CXCR4 3ODU
ECL3 269 - - - -
ECL3 270 CXCR4 3ODU CXCR4 3ODU
ECL3 271 CXCR4 3ODU CXCR4 3ODU
ECL3 272 - - - -
TM7 273 7.24x23 CXCR4 3ODU CXCR4 3ODU
TM7 274 7.25x24 CXCR4 3ODU CXCR4 3ODU
TM7 275 7.26x25 CXCR4 3ODU CXCR4 3ODU
TM7 276 7.27x26 CXCR4 3ODU CXCR4 3ODU
TM7 277 7.28x27 CXCR4 3ODU CXCR4 3ODU
TM7 278 7.29x28 CXCR4 3ODU CXCR4 3ODU
TM7 279 7.30x29 μ receptor 6DDE P2Y12 receptor 4NTJ
TM7 280 7.31x30 μ receptor 6DDE P2Y1 receptor 4XNW
TM7 281 7.32x31 μ receptor 6DDE NTS1 receptor 4XES
TM7 282 7.33x32 μ receptor 6DDE CXCR4 3ODU
TM7 283 7.34x33 μ receptor 6DDE FFA1 receptor 5TZY
TM7 284 7.35x34 μ receptor 6DDE CXCR4 3ODU
TM7 285 7.36x35 μ receptor 6DDE CXCR4 3ODU
TM7 286 7.37x36 μ receptor 6DDE 5-HT2B receptor 4IB4
TM7 287 7.38x37 μ receptor 6DDE P2Y1 receptor 4XNW
TM7 288 7.39x38 μ receptor 6DDE CXCR4 3ODU
TM7 289 7.40x39 μ receptor 6DDE μ receptor 6DDE
TM7 290 7.41x40 μ receptor 6DDE μ receptor 6DDE
TM7 291 7.42x41 μ receptor 6DDE P2Y1 receptor 4XNW
TM7 292 7.43x42 μ receptor 6DDE CXCR4 3ODU
TM7 293 7.44x43 μ receptor 6DDE CXCR4 3ODU
TM7 294 7.45x45 μ receptor 6DDE CXCR4 3ODU
TM7 295 7.46x46 μ receptor 6DDE PAR1 3VW7
TM7 296 7.47x47 μ receptor 6DDE μ receptor 6DDE
TM7 297 7.48x48 μ receptor 6DDE μ receptor 6DDE
TM7 298 7.49x49 μ receptor 6DDE μ receptor 6DDE
TM7 299 7.50x50 μ receptor 6DDE μ receptor 6DDE
TM7 300 7.51x51 μ receptor 6DDE P2Y1 receptor 4XNW
TM7 301 7.52x52 μ receptor 6DDE μ receptor 6DDE
TM7 302 7.53x53 μ receptor 6DDE μ receptor 6DDE
TM7 303 7.54x54 μ receptor 6DDE μ receptor 6DDE
TM7 304 7.55x55 CCR5 5UIW CCR5 5UIW
TM7 305 7.56x56 CCR5 5UIW P2Y12 receptor 4NTJ
H8 306 8.47x47 CCR5 5UIW CCR5 5UIW
H8 307 8.48x48 CCR5 5UIW NTS1 receptor 4BUO
H8 308 8.49x49 CCR5 5UIW CCR2 5T1A
H8 309 8.50x50 CCR5 5UIW PAR2 5NDD
H8 310 8.51x51 CCR5 5UIW 5-HT1B receptor 4IAQ
H8 311 8.52x52 CCR5 5UIW M3 receptor 4U15
H8 312 8.53x53 CCR5 5UIW P2Y12 receptor 4NTJ
H8 313 8.54x54 CCR5 5UIW PAR2 5NDD
H8 314 8.55x55 CCR5 5UIW β2-adrenoceptor 3SN6
H8 315 8.56x56 CCR5 5UIW M2 receptor 3UON
H8 316 8.57x57 CCR5 5UIW CCR5 5UIW
H8 317 8.58x58 CCR5 5UIW PAR2 5NDD
H8 318 8.59x59 CCR5 5UIW 5-HT2B receptor 5TUD
C-term 319 - - - -
C-term 320 - - - -
C-term 321 - - - -
C-term 322 - - - -
C-term 323 - - - -