Structure of PDB 8cmo Chain B

Receptor sequence
>8cmoB (length=732) Species: 75800 (Coelastrella) [Search protein sequence]
ATKLFPKFSQGLAQDPTTRRIWFGLAVAHDFESHDGMTEENLYQKIFASH
FGQLAIIFLWTSGNLFHVAWQGNFEQWGADPIHVRPIAHAIWDPHFGQPA
VEAFTRGGASGPVNISTSGVYQWWYTIGMRTNQDLYVGSVFLALVSAIFL
FASWLHLQPSFTPSLSWFKDAESRLNHHLSGLFGVSSLAWTGHLVHVAIP
ESRGKHVGWDNFLTQLPHPQGLTPFWTGNWAAYAQNPDSASHVFGTSDGA
GEAILTFLGGFHPQTQSLWLTDMAHHHLAIAVIFIVAGHMYRTNFGIGHR
MSAILDAHVAPSGRLGAGHKGLFETVNNSLHFQLGLALASVGTICSLVAQ
HMYSLPPYAFLANDFTTQASLYTHHQYIAGFIMCGAFAHGAIFWIRDYDP
EQNKGNVLARMLDHKEAIISHLSWVSLFLGFHTLGLYVHNDVMQAFGTPE
KQILIEPVFAQWIQAAHGKAFYGFDLLLSSSSSSAASASQTLWLPGWLDA
INNNQNSLFLTIGPGDFLVHHAIALGLHTTTLILVKGALDARGSKLMPDK
KDFGYSFPCDGPGRGGTCDISAYDAFYLAVFWMLNTIGWVTFYFHWKHLT
LWQGNVSQFDESSTYLMGWLRDYLWLNSSQLINGYNPFGMNSLSVWAWIF
LFGHLVYATGFMFLISWRGYWQELIETLVWAHEKTPLANLVYWKDKPVAL
SIVQARLVGLTHFSVGYVFTYAAFLIASTSGK
3D structure
PDB8cmo Cryo-EM structure of the Photosystem I - LHCI supercomplex from Coelastrella sp.
ChainB
Resolution2.81 Å
3D
structure
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Interaction with ligand
Site
#
Ligand Ligand
chain
Binding residues on receptor
(original residue number in PDB)
Binding residues on receptor
(residue number reindexed from 1)
Binding affinity
BS01 CL0 B L621 L625 W626 L620 L624 W625
BS02 CLA B V439 D442 F582 W583 N586 W590 L617 V438 D441 F581 W582 N585 W589 L616
BS03 CLA B K685 T686 P687 K684 T685 P686
BS04 CLA B S421 L428 S420 L427
BS05 CLA B L656 A659 T660 F662 M663 Y671 W672 L655 A658 T659 F661 M662 Y670 W671
BS06 CLA B L679 H683 V692 L678 H682 V691
BS07 CLA B S427 L428 G431 F432 L526 T530 I534 L579 F582 W583 S426 L427 G430 F431 L525 T529 I533 L578 F581 W582
BS08 SF4 B C560 G562 P563 C569 W668 C559 G561 P562 C568 W667
BS09 CA B E202 H207 E201 H206
BS10 CLA B Y438 W590 F593 L617 W620 L625 F651 Y658 Y718 T721 Y722 F725 Y437 W589 F592 L616 W619 L624 F650 Y657 Y717 T720 Y721 F724
BS11 CLA B W649 L652 F653 H655 L656 A659 W648 L651 F652 H654 L655 A658
BS12 CLA B H30 S50 I57 H29 S49 I56
BS13 CLA B H30 F32 Y44 I47 S50 H51 Q54 L55 R175 F184 L331 L335 A338 H29 F31 Y43 I46 S49 H50 Q53 L54 R174 F183 L330 L334 A337
BS14 CLA B Q54 I57 I58 W61 F382 Q53 I56 I57 W60 F381
BS15 CLA B F67 H68 W71 Q72 F66 H67 W70 Q71
BS16 CLA B W61 N65 A89 H90 N115 S117 T118 S119 V646 W647 W60 N64 A88 H89 N114 S116 T117 S118 V645 W646
BS17 CLA B I92 W93 D94 H96 N115 V646 W649 I91 W92 D93 H95 N114 V645 W648
BS18 CLA B F48 F52 I149 A153 H157 F162 W168 F47 F51 I148 A152 H156 F161 W167
BS19 CLA B W168 H178 N295 F296 W167 H177 N294 F295
BS20 CLA B F48 H51 L55 W124 W168 D171 R175 H178 H179 G182 L183 F184 F47 H50 L54 W123 W167 D170 R174 H177 H178 G181 L182 F183
BS21 CLA B M130 D135 F142 A190 W191 H194 H197 V198 G209 W210 F213 M129 D134 F141 A189 W190 H193 H196 V197 G208 W209 F212
BS22 CLA B L189 T192 H197 Q216 L217 P218 G222 L223 W227 L256 L188 T191 H196 Q215 L216 P217 G221 L222 W226 L255
BS23 CLA B W231 A232 H276 L279 V283 I284 V287 L493 W230 A231 H275 L278 V282 I283 V286 L492
BS24 CLA B F258 G261 L269 D273 H276 H277 A280 I281 H352 L356 W494 W498 F257 G260 L268 D272 H275 H276 A279 I280 H351 L355 W493 W497
BS25 CLA B S187 S188 W191 H277 H278 I345 L348 V349 M353 P358 Y359 S186 S187 W190 H276 H277 I344 L347 V348 M352 P357 Y358
BS26 CLA B L180 F285 A288 M291 Y292 I305 L179 F284 A287 M290 Y291 I304
BS27 CLA B H178 S181 I286 H290 T294 F296 H177 S180 I285 H289 T293 F295
BS28 CLA B H290 M291 I298 G299 H300 H289 M290 I297 G298 H299
BS29 CLA B I305 H309 I304 H308
BS30 CLA B L306 H320 V408 M412 L305 H319 V407 M411
BS31 CLA B A172 R175 L176 H179 F184 M302 F324 V327 L337 A338 S341 A171 R174 L175 H178 F183 M301 F323 V326 L336 A337 S340
BS32 CLA B S347 Q351 L528 T531 T532 M584 S346 Q350 L527 T530 T531 M583
BS33 CLA B T344 L348 Q351 H352 S355 L356 F510 T343 L347 Q350 H351 S354 L355 F509
BS34 CLA B W61 T118 S119 S371 T374 H375 Y378 I379 F382 A723 I727 W60 T117 S118 S370 T373 H374 Y377 I378 F381 A722 I726
BS35 CLA B F59 W61 T62 W124 S187 I345 V349 Y359 H375 H376 F58 W60 T61 W123 S186 I344 V348 Y358 H374 H375
BS36 CLA B A27 H30 D31 F382 G386 H390 R397 Y574 F577 A26 H29 D30 F381 G385 H389 R396 Y573 F576
BS37 CLA B R315 L316 V408 R411 M412 H415 H422 R314 L315 V407 R410 M411 H414 H421
BS38 CLA B H422 W425 H421 W424
BS39 CLA B G436 V439 H440 M444 K452 I454 G435 V438 H439 M443 K451 I453
BS40 CLA B W463 I464 H468 L478 L479 W494 W498 W462 I463 H467 L477 L478 W493 W497
BS41 CLA B S485 A486 A489 S490 W494 S484 A485 A488 S489 W493
BS42 CLA B F460 A461 W463 I464 Q465 I513 H521 I524 V591 Y594 F595 F459 A460 W462 I463 Q464 I512 H520 I523 V590 Y593 F594
BS43 CLA B W425 F429 L430 P458 V459 F460 A461 F518 H521 H522 W424 F428 L429 P457 V458 F459 A460 F517 H520 H521
BS44 CLA B L423 V426 A525 H529 L422 V425 A524 H528
BS45 CLA B W23 V680 H683 Y693 W694 P698 W22 V679 H682 Y692 W693 P697
BS46 CLA B W23 F653 V709 T712 H713 W22 F652 V708 T711 H712
BS47 CLA B H309 V310 A311 P312 R315 L316 H308 V309 A310 P311 R314 L315
BS48 PQN B W23 M663 F664 S667 W668 R669 W672 A700 L701 A706 W22 M662 F663 S666 W667 R668 W671 A699 L700 A705
BS49 CLA B W425 F429 F432 H433 W424 F428 F431 H432
BS50 CLA B F460 W463 F475 L477 F459 W462 F474 L476
BS51 T7X B F429 H433 F518 H522 F428 H432 F517 H521
BS52 CLA B P95 H96 P94 H95
BS53 CLA B P687 L688 P686 L687
Gene Ontology
--> -->
 
 
UnboundLocalError
Python 3.6.8: /usr/bin/python3
Fri Nov 15 23:56:27 2024

A problem occurred in a Python script. Here is the sequence of function calls leading up to the error, in the order they occurred.

 /var/www/html/BioLiP/pdb.cgi in <module>()
   1443                 pubmed=display_regular_ligand(pdbid,asym_id,lig3,ligIdx,title)
   1444         else:
=> 1445             pubmed,uniprot=display_protein_receptor(pdbid,asym_id,title)
   1446     
   1447     uniprot_line=''
pubmed = '', uniprot = '', display_protein_receptor = <function display_protein_receptor>, pdbid = '8cmo', asym_id = 'B', title = 'Cryo-EM structure of the Photosystem I - LHCI supercomplex from Coelastrella sp.'
 /var/www/html/BioLiP/pdb.cgi in display_protein_receptor(pdbid='8cmo', asym_id='B', title='Cryo-EM structure of the Photosystem I - LHCI supercomplex from Coelastrella sp.')
    839 
    840     if go:
=>  841         display_go(go,uniprot,pdbid,asym_id)
    842     return pubmed,uniprot
    843 
global display_go = <function display_go>, go = '0009522,0009579,0015979,0016020', uniprot = '', pdbid = '8cmo', asym_id = 'B'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0009522,0009579,0015979,0016020', uniprot='', pdbid='8cmo', asym_id='B')
    480         '''.replace("$namespace_link",namespace_link
    481           ).replace("$namespace",namespace
=>  482           ).replace("$uniprot",u
    483         ))
    484         for l,(term,name) in enumerate(go2aspect[Aspect]):
u undefined

UnboundLocalError: local variable 'u' referenced before assignment
      args = ("local variable 'u' referenced before assignment",)
      with_traceback = <built-in method with_traceback of UnboundLocalError object>