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Sequence, Chains, Asymmetric and Biological Units

Title CRYSTAL STRUCTURE OF HIV-1 ENVELOPE TRIMER 16055 NFL TD CC ( COMPLEX WITH FABS 35022 AND PGT124
Keywords HIV-1 ANTIBODY GLYCOPROTEIN, VIRAL PROTEIN-IMMUNE SYSTEM COM
Experiment X-ray diffraction
Number of Models  1

   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  
PDB   5UM8     released     available     available     Quaternary Structure Server  
Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  Protein   GLYCOPROTEIN GP120  G 471 3681 0
2  Protein   GLYCOPROTEIN GP41  B 129 1017 0
3  Protein   FAB PGT124 LIGHT CHAIN  L 211 1599 0
4  Protein   FAB PGT124 HEAVY CHAIN  H 234 1775 0
5  Protein   FAB 35022 HEAVY CHAIN  D 240 1813 0
6  Protein   FAB 35022 LIGHT CHAIN  E 213 1615 0
7  Ligand    A 2 0 28
8  Ligand    C 2 0 28
9  Ligand    F 2 0 28
10  Ligand    I 2 0 28
11  Ligand    J 2 0 28
12  Ligand    K 5 0 61
13  Ligand    M 2 0 28
14  Ligand    N 3 0 39
15  Ligand    O 2 0 28
16  Ligand    P 10 0 116
17  Ligand    Q 7 0 83
18  Ligand    R 6 0 72
19  Ligand    S 2 0 28
20  Ligand   GLYCOPROTEIN GP120  G 6 0 84
21  Ligand   GLYCOPROTEIN GP41  B 3 0 42
total       1554 11500 721
Proteins
Unit 1 GLY32 ASN33 LEU34 TRP35 VAL36 THR37 VAL38 TYR39 TYR40 GLY41 VAL42 PRO43 VAL44 TRP45 LYS46 ASP47 ALA48 GLU49 THR50 THR51 LEU52 PHE53 CYS54 ALA55 SER56 ASP57 ALA58 LYS59 ALA60 TYR61 GLU62 LYS63 GLU64 LYS65 HIS66 ASN67 VAL68 TRP69 ALA70 THR71 HIS72 ALA73 CYS74 VAL75 PRO76 THR77 ASP78 PRO79 ASN80 PRO81 GLN82 GLU83 MET84 VAL85 LEU86 GLU87 ASN88 VAL89 THR90 GLU91 ASN92 PHE93 ASN94 MET95 TRP96 LYS97 ASN98 ASP99 MET100 VAL101 GLU102 GLN103 MET104 HIS105 THR106 ASP107 VAL108 ILE109 SER110 LEU111 TRP112 ASP113 GLN114 SER115 LEU116 LYS117 PRO118 CYS119 VAL120 LYS121 LEU122 THR123 PRO124 LEU125 CYS126 VAL127 THR128 LEU129 GLU130 CYS131 ARG132 GLN133 VAL134 ASN135 THR136 THR137 ASN138 ALA139 THR140 ASN147 VAL148 THR149 ASN150 GLY151 GLU152 GLU153 ILE154 LYS155 ASN156 CYS157 SER158 PHE159 ASN160 ALA161 THR162 THR163 GLU164 LEU165 ARG166 ASP167 LYS168 LYS169 GLN170 LYS171 VAL172 TYR173 ALA174 LEU175 PHE176 TYR177 ARG178 LEU179 ASP180 ILE181 VAL182 PRO183 LEU184 GLU185 GLU186 GLU186A ARG186B LYS186C GLY186D ASN187 SER188 SER189 LYS190 TYR191 ARG192 LEU193 ILE194 ASN195 CYS196 ASN197 THR198 SER199 ALA200 CYS201 THR202 GLN203 ALA204 CYS205 PRO206 LYS207 VAL208 THR209 PHE210 ASP211 PRO212 ILE213 PRO214 ILE215 HIS216 TYR217 CYS218 ALA219 PRO220 ALA221 GLY222 TYR223 ALA224 ILE225 LEU226 LYS227 CYS228 ASN229 ASN230 LYS231 THR232 PHE233 ASN234 GLY235 THR236 GLY237 PRO238 CYS239 ASN240 ASN241 VAL242 SER243 THR244 VAL245 GLN246 CYS247 THR248 HIS249 GLY250 ILE251 LYS252 PRO253 VAL254 VAL255 SER256 THR257 GLN258 LEU259 LEU260 LEU261 ASN262 GLY263 SER264 LEU265 ALA266 GLU267 GLY268 GLU269 ILE270 ILE271 ILE272 ARG273 SER274 GLU275 ASN276 LEU277 THR278 ASN279 ASN280 VAL281 LYS282 THR283 ILE284 ILE285 VAL286 HIS287 LEU288 ASN289 GLU290 SER291 VAL292 GLU293 ILE294 VAL295 CYS296 THR297 ARG298 PRO299 ASN300 ASN301 ASN302 THR303 ARG304 LYS305 SER306 ILE307 ARG308 ILE309 GLY312 PRO313 GLY314 GLN315 THR316 PHE317 TYR318 ALA319 THR320 GLY321 ASP321A ILE322 ILE323 GLY324 ASN325 ILE326 ARG327 GLN328 ALA329 TYR330 CYS331 ASN332 ILE333 SER334 LYS335 ASP336 ASP337 TRP338 ILE339 ARG340 THR341 LEU342 GLN343 ARG344 VAL345 GLY346 LYS347 LYS348 LEU349 ALA350 GLU351 HIS352 PHE353 PRO354 ARG356 ARG357 ILE358 ILE359 ASN360 PHE361 THR362 SER363 PRO364 ALA365 GLY366 GLY367 ASP368 LEU369 GLU370 ILE371 THR372 THR373 HIS374 SER375 PHE376 ASN377 CYS378 ARG379 GLY380 GLU381 PHE382 PHE383 TYR384 CYS385 ASN386 THR387 SER388 SER389 LEU390 PHE391 ASN392 SER393 THR394 TYR395 ASN396 PRO397 ASN398 ASP399 THR400 ASN401 SER402 SER407 SER408 ASN409 SER410 SER411 LEU412 ASP413 ILE414 THR415 ILE416 PRO417 CYS418 ARG419 ILE420 LYS421 GLN422 ILE423 ILE424 ASN425 MET426 TRP427 GLN428 ARG429 VAL430 GLY431 GLN432 CYS433 MET434 TYR435 ALA436 PRO437 PRO438 ILE439 GLU440 GLY441 ASN442 ILE443 THR444 CYS445 LYS446 SER447 ASN448 ILE449 THR450 GLY451 LEU452 LEU453 LEU454 VAL455 ARG456 ASP457 GLY458 GLY459 VAL460 GLU461 SER462 ASN463 GLU464 THR465 GLU466 ILE467 PHE468 ARG469 PRO470 GLY471 GLY472 GLY473 ASP474 MET475 ARG476 ASN477 ASN478 TRP479 ARG480 SER481 GLU482 LEU483 TYR484 LYS485 TYR486 LYS487 VAL488 VAL489 GLU490 ILE491 LYS492 PRO493 LEU494 GLY495 ILE496 ALA497 PRO498 THR499 ARG500 ALA501 LYS502 ARG503 ARG504 VAL505 VAL506 GLU507 GLY508 GLY509 GLY510
Unit 2 GLY521 PHE522 LEU523 GLY524 ALA525 ALA526 GLY527 SER528 THR529 MET530 GLY531 ALA532 ALA533 SER534 ILE535 THR536 LEU537 THR538 VAL539 GLN540 ALA541 ARG542 GLN543 LEU544 LEU545 SER546 GLY547 ILE548 VAL549 GLN550 GLN551 GLN552 LEU566 GLN567 LEU568 GLY569 VAL570 TRP571 GLY572 ILE573 LYS574 GLN575 LEU576 GLN577 THR578 ARG579 VAL580 LEU581 ALA582 ILE583 GLU584 ARG585 TYR586 LEU587 LYS588 ASP589 GLN590 GLN591 LEU592 LEU593 GLY594 ILE595 TRP596 GLY597 CYS598 SER599 GLY600 LYS601 LEU602 ILE603 CYS604 THR605 THR606 ALA607 VAL608 PRO609 TRP610 ASN611 SER612 SER613 TRP614 SER615 ASN616 LYS617 SER618 HIS619 ASP620 GLU621 ILE622 TRP623 GLY624 ASN625 MET626 THR627 TRP628 MET629 GLN630 TRP631 ASP632 ARG633 GLU634 ILE635 SER636 ASN637 TYR638 THR639 ASN640 THR641 ILE642 TYR643 ARG644 LEU645 LEU646 GLU647 ASP648 SER649 GLN650 ASN651 GLN652 GLN653 GLU654 GLN655 ASN656 GLU657 LYS658 ASP659 LEU660 LEU661 ALA662
Unit 3 SER6 TYR7 VAL8 SER9 PRO10 LEU11 SER12 VAL13 ALA14 LEU15 GLY16 GLU17 THR18 ALA19 ARG20 ILE21 SER22 CYS23 GLY24 ARG25 GLN26 ALA27 LEU28 GLY29 SER30 ARG31 ALA32 VAL33 GLN34 TRP35 TYR36 GLN37 HIS38 LYS39 PRO40 GLY41 GLN42 ALA43 PRO44 ILE45 LEU46 LEU47 ILE48 TYR49 ASN50 ASN51 GLN52 ASP53 ARG54 PRO55 SER56 GLY57 ILE58 PRO59 GLU60 ARG61 PHE62 SER63 GLY64 THR65 PRO66 ASP67 ILE67A ASN67B PHE67C GLY68 THR69 THR70 ALA71 THR72 LEU73 THR74 ILE75 SER76 GLY77 VAL78 GLU79 VAL80 GLY81 ASP82 GLU83 ALA84 ASP85 TYR86 TYR87 CYS88 HIS89 MET90 TRP91 ASP92 SER93 ARG94 SER95 GLY95A PHE95B SER95C TRP96 SER97 PHE98 GLY99 GLY100 ALA101 THR102 ARG103 LEU104 THR105 VAL106 LEU107 SER108 GLN109 PRO110 LYS111 ALA112 ALA113 PRO114 SER115 VAL116 THR117 LEU118 PHE119 PRO120 PRO121 SER122 SER123 GLU124 GLU125 LEU126 GLN127 ALA128 ASN129 LYS130 ALA131 THR132 LEU133 VAL134 CYS135 LEU136 ILE137 SER138 ASP139 PHE140 TYR141 PRO142 GLY143 ALA144 VAL145 THR146 VAL147 ALA148 TRP149 LYS150 ALA151 ASP152 SER153 SER154 PRO155 VAL156 LYS157 ALA158 GLY159 VAL160 GLU161 THR162 THR163 THR164 PRO165 SER166 LYS167 GLN168 SER169 ASN170 ASN171 LYS172 TYR173 ALA174 ALA175 SER176 SER177 TYR178 LEU179 SER180 LEU181 THR182 PRO183 GLU184 GLN185 TRP186 LYS187 SER188 HIS189 LYS190 SER191 TYR192 SER193 CYS194 GLN195 VAL196 THR197 HIS198 GLU199 GLY200 SER201 THR202 VAL203 GLU204 LYS205 THR206 VAL207 ALA208 PRO209 THR210
Unit 4 GLN1 VAL2 GLN3 LEU4 GLN5 GLU6 SER7 GLY8 PRO9 GLY10 LEU11 VAL12 ARG13 PRO14 SER15 GLU16 THR17 LEU18 SER19 VAL20 THR21 CYS22 ILE23 VAL24 SER25 GLY26 GLY27 SER28 ILE29 SER30 ASN31 TYR32 TYR33 TRP34 THR35 TRP36 ILE37 ARG38 GLN39 SER40 PRO41 GLY42 LYS43 GLY44 LEU45 GLU46 TRP47 ILE48 GLY49 TYR50 ILE51 SER52 ASP53 ARG54 GLU55 THR56 THR57 THR58 TYR59 ASN60 PRO61 SER62 LEU63 ASN64 SER65 ARG66 ALA67 VAL68 ILE69 SER70 ARG71 ASP72 THR73 SER74 LYS75 ASN76 GLN77 LEU78 SER79 LEU80 GLN81 LEU82 ARG82A SER82B VAL82C THR83 THR84 ALA85 ASP86 THR87 ALA88 ILE89 TYR90 PHE91 CYS92 ALA93 THR94 ALA95 ARG96 ARG97 GLY98 GLN99 ARG100 ILE100A TYR100B GLY100C VAL100D VAL100E SER100F PHE100G GLY100H GLU100I PHE100J PHE100K TYR100L TYR100M TYR100N TYR100O MET100P ASP100Q VAL100R TRP101 GLY102 LYS103 GLY104 THR105 ALA106 VAL107 THR108 VAL109 SER110 SER111 ALA112 SER113 THR114 LYS115 GLY116 PRO117 SER118 VAL119 PHE120 PRO121 LEU122 ALA123 PRO124 SER125 SER126 SER128 THR129 SER130 GLY131 GLY132 THR133 ALA134 ALA135 LEU136 GLY137 CYS138 LEU139 VAL140 LYS141 ASP142 TYR143 PHE144 PRO145 GLU146 PRO147 VAL148 THR149 VAL150 SER151 TRP152 ASN153 SER154 GLY155 ALA156 LEU157 THR158 SER159 GLY160 VAL161 HIS162 THR163 PHE164 PRO165 ALA166 VAL167 LEU168 GLN169 SER170 SER171 GLY172 LEU173 TYR174 SER175 LEU176 SER177 SER178 VAL179 VAL180 THR181 VAL182 PRO183 SER184 SER185 SER186 LEU187 GLY188 THR189 GLN190 THR191 TYR192 ILE193 CYS194 ASN195 VAL196 ASN197 HIS198 LYS199 PRO200 SER201 ASN202 THR203 LYS204 VAL205 ASP206 LYS207 LYS208 VAL209 GLU210 PRO211 LYS212 SER213 CYS214
Unit 5 GLU1 GLY2 GLN3 LEU4 VAL5 GLN6 SER7 GLY8 ALA9 GLU10 LEU11 LYS12 LYS13 PRO14 GLY15 ALA16 SER17 VAL18 LYS19 ILE20 SER21 CYS22 LYS23 THR24 SER25 GLY26 TYR27 ARG28 PHE29 ASN30 PHE31 TYR32 HIS33 ILE34 ASN35 TRP36 ILE37 ARG38 GLN39 THR40 ALA41 GLY42 ARG43 GLY44 PRO45 GLU46 TRP47 MET48 GLY49 TRP50 ILE51 SER52 PRO52A TYR53 SER54 GLY55 ASP56 LYS57 ASN58 LEU59 ALA60 PRO61 ALA62 PHE63 GLN64 ASP65 ARG66 VAL67 ILE68 MET69 THR70 THR71 ASP72 THR72A GLU72B VAL72C PRO72D VAL72E THR72F SER72G PHE72H THR73 SER74 THR75 GLY76 ALA77 ALA78 TYR79 MET80 GLU81 ILE82 ARG82A ASN82B LEU82C LYS83 PHE84 ASP85 ASP86 THR87 GLY88 THR89 TYR90 PHE91 CYS92 ALA93 LYS94 GLY95 LEU96 LEU97 ARG98 ASP99 GLY100 SER100A SER100B THR100C TRP100D LEU100E PRO100F TYR101 LEU102 TRP103 GLY104 GLN105 GLY106 THR107 LEU108 LEU109 THR110 VAL111 SER112 SER113 ALA114 SER115 THR116 LYS117 GLY118 PRO119 SER120 VAL121 PHE122 PRO123 LEU124 ALA125 PRO126 SER127 SER128 LYS129 SER130 THR131 SER132 GLY133 GLY134 THR135 ALA136 ALA137 LEU138 GLY139 CYS140 LEU141 VAL142 LYS143 ASP144 TYR145 PHE146 PRO147 GLU148 PRO149 VAL150 THR151 VAL152 SER153 TRP154 ASN155 SER156 GLY157 ALA158 LEU159 THR160 SER161 GLY162 VAL163 HIS164 THR165 PHE166 PRO167 ALA168 VAL169 LEU170 GLN171 SER172 SER173 GLY174 LEU175 TYR176 SER177 LEU178 SER179 SER180 VAL181 VAL182 THR183 VAL184 PRO185 SER186 SER187 SER188 LEU189 GLY190 THR191 GLN192 THR193 TYR194 ILE195 CYS196 ASN197 VAL198 ASN199 HIS200 LYS201 PRO202 SER203 ASN204 THR205 LYS206 VAL207 ASP208 LYS209 ARG210 VAL211 GLU212 PRO213 LYS214 SER215 CYS216 ASP217 LYS218 GLY219 LEU220 GLU221 VAL222
Unit 6 SER2 VAL3 LEU4 THR5 GLN6 SER7 ALA8 SER9 VAL10 SER11 GLY12 SER13 LEU14 GLY15 GLN16 SER17 VAL18 THR19 ILE20 SER21 CYS22 THR23 GLY24 PRO25 ASN26 SER27 VAL28 CYS29 CYS30 SER31 HIS32 LYS33 SER34 ILE35 SER36 TRP37 TYR38 GLN39 TRP40 PRO41 PRO42 GLY43 ARG44 ALA45 PRO46 THR47 LEU48 ILE49 ILE50 TYR51 GLU52 ASP53 ASN54 GLU55 ARG56 ALA57 PRO58 GLY59 ILE60 SER61 PRO62 ARG63 PHE64 SER65 GLY66 TYR67 LYS68 SER69 TYR70 TRP71 SER72 ALA73 TYR74 LEU75 THR76 ILE77 SER78 ASP79 LEU80 ARG81 PRO82 GLU83 ASP84 GLU85 THR86 THR87 TYR88 TYR89 CYS90 CYS91 SER92 TYR93 THR94 HIS95 ASN96 SER97 GLY98 CYS99 VAL100 PHE101 GLY102 THR103 GLY104 THR105 LYS106 VAL107 SER108 VAL109 LEU110 GLY111 GLN112 SER113 LYS114 ALA115 ASN116 PRO117 SER118 VAL119 THR120 LEU121 PHE122 PRO123 PRO124 SER125 SER126 GLU127 GLU128 LEU129 GLN130 ALA131 ASN132 LYS133 ALA134 THR135 LEU136 VAL137 CYS138 LEU139 ILE140 SER141 ASP142 PHE143 TYR144 PRO145 GLY146 ALA147 VAL148 THR149 VAL150 ALA151 TRP152 LYS153 ALA154 ASP155 SER156 SER157 PRO158 VAL159 LYS160 ALA161 GLY162 VAL163 GLU164 THR165 THR166 THR167 PRO168 SER169 LYS170 GLN171 SER172 ASN173 ASN174 LYS175 TYR176 ALA177 ALA178 SER179 SER180 TYR181 LEU182 SER183 LEU184 THR185 PRO186 GLU187 GLN188 TRP189 LYS190 SER191 HIS192 ARG193 SER194 TYR195 SER196 CYS197 GLN198 VAL199 THR200 HIS201 GLU202 GLY203 SER204 THR205 VAL206 GLU207 LYS208 THR209 VAL210 ALA211 PRO212 THR213 GLU214
Ligands
Unit 7 NAG1 NAG2
Unit 8 NAG1 NAG2
Unit 9 NAG1 NAG2
Unit 10 NAG1 NAG2
Unit 11 NAG1 NAG2
Unit 12 NAG1 NAG2 BMA3 MAN4 MAN5
Unit 13 NAG1 NAG2
Unit 14 NAG1 NAG2 BMA3
Unit 15 NAG1 NAG2
Unit 16 NAG1 NAG2 BMA3 MAN4 MAN5 MAN6 MAN7 MAN8 MAN9 MAN10
Unit 17 NAG1 NAG2 BMA3 MAN4 MAN5 MAN6 MAN7
Unit 18 NAG1 NAG2 BMA3 MAN4 MAN5 MAN6
Unit 19 NAG1 NAG2
Unit 20 NAG700 NAG703 NAG704 NAG707 NAG708 NAG727
Unit 21 NAG701 NAG702 NAG703
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Perl script:    PDBscan.pl  (15 Sep 2016)
Author:    Peter Slickers  (slickers@leibniz-fli.de),  IMB Jena,  Germany