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(-) Description

Title :  PHOTOSYNTHETIC REACTION CENTER MUTANT WITH GLUL212 REPLACED WITH TRP (CHAIN L, EL212W)
 
Authors :  P. K. Fyfe, M. R. Jones
Date :  19 Aug 16  (Deposition) - 09 Nov 16  (Release) - 09 Nov 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym./Biol. Unit :  H,L,M
Keywords :  Transmembrane, Electron Transport, Photosynthesis (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  V. M. Friebe, D. J. Swainsbury, P. K. Fyfe, W. Van Der Heijden, M. R. Jones, R. N. Frese
On The Mechanism Of Ubiquinone Mediated Photocurrent Generation By A Reaction Center Based Photocathode.
Biochim. Biophys. Acta V. 1857 1925 2016
PubMed-ID: 27687473  |  Reference-DOI: 10.1016/J.BBABIO.2016.09.011

(-) Compounds

Molecule 1 - REACTION CENTER PROTEIN L CHAIN
    AtccNCIB 8253
    ChainsL
    EngineeredYES
    Expression SystemRHODOBACTER SPHAEROIDES 2.4.1
    Expression System PlasmidPRKEH10D
    Expression System StrainEL212W
    Expression System Taxid272943
    Expression System Vector TypePLASMID
    GenePUFL, RHOS4_18610, RSP_0257
    MutationYES
    Organism ScientificRHODOBACTER SPHAEROIDES (STRAIN ATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158)
    Organism Taxid272943
    Other DetailsENGINEERED MUTATION EL212W
    StrainATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158
    SynonymPHOTOSYNTHETIC REACTION CENTER L SUBUNIT
 
Molecule 2 - REACTION CENTER PROTEIN M CHAIN
    ChainsM
    EngineeredYES
    Expression SystemRHODOBACTER SPHAEROIDES 2.4.1
    Expression System PlasmidPRKEH10D
    Expression System StrainEL212W
    Expression System Taxid272943
    Expression System Vector TypePLASMID
    GenePUFM, RHOS4_18600, RSP_0256
    Organism ScientificRHODOBACTER SPHAEROIDES (STRAIN ATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158)
    Organism Taxid272943
    StrainATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158
    SynonymPHOTOSYNTHETIC REACTION CENTER M SUBUNIT
 
Molecule 3 - REACTION CENTER PROTEIN H CHAIN
    ChainsH
    EngineeredYES
    Expression SystemRHODOBACTER SPHAEROIDES 2.4.1
    Expression System PlasmidPRKEH10D
    Expression System StrainEL212W
    Expression System Taxid272943
    Expression System Vector TypePLASMID
    GenePUHA, RHOS4_18960, RSP_0291
    Organism ScientificRHODOBACTER SPHAEROIDES (STRAIN ATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158)
    Organism Taxid272943
    StrainATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158
    SynonymPHOTOSYNTHETIC REACTION CENTER H SUBUNIT

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit HLM

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (8, 19)

Asymmetric/Biological Unit (8, 19)
No.NameCountTypeFull Name
1BCL4Ligand/IonBACTERIOCHLOROPHYLL A
2BPH2Ligand/IonBACTERIOPHEOPHYTIN A
3CDL1Ligand/IonCARDIOLIPIN
4DD93Ligand/IonNONANE
5FE1Ligand/IonFE (III) ION
6LDA5Ligand/IonLAURYL DIMETHYLAMINE-N-OXIDE
7SPN1Ligand/IonSPEROIDENONE
8U102Ligand/IonUBIQUINONE-10

(-) Sites  (17, 17)

Asymmetric Unit (17, 17)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREALA L:124 , ALA L:127 , LEU L:131 , VAL L:157 , TYR L:162 , ASN L:166 , PHE L:167 , HIS L:168 , HIS L:173 , ALA L:176 , ILE L:177 , PHE L:180 , SER L:244 , CYS L:247 , MET L:248 , BPH L:302 , TYR M:210 , BCL M:704 , BCL M:705 , BCL M:706binding site for residue BCL L 301
02AC2SOFTWAREALA L:96 , PHE L:97 , TRP L:100 , GLU L:104 , ILE L:117 , ALA L:120 , PHE L:121 , PHE L:123 , ALA L:124 , TYR L:148 , VAL L:241 , BCL L:301 , TYR M:210 , ALA M:213 , LEU M:214 , TRP M:252 , MET M:256 , BCL M:706binding site for residue BPH L 302
03AC3SOFTWARELEU L:189 , HIS L:190 , LEU L:193 , TRP L:212 , ASP L:213 , PHE L:216 , TYR L:222 , SER L:223 , ILE L:224 , GLY L:225 , THR L:226 , ILE L:229 , PHE M:90binding site for residue U10 L 303
04AC4SOFTWARETYR L:148binding site for residue DD9 L 304
05AC5SOFTWAREHIS L:190 , HIS L:230 , HIS M:219 , GLU M:234 , HIS M:266binding site for residue FE L 305
06AC6SOFTWAREPRO M:200 , LDA M:702 , BCL M:706binding site for residue LDA M 701
07AC7SOFTWARETYR H:40 , GLN H:53 , ARG M:253 , GLY M:257 , LDA M:701binding site for residue LDA M 702
08AC8SOFTWAREGLY M:257binding site for residue LDA M 703
09AC9SOFTWAREHIS L:168 , MET L:174 , ILE L:177 , SER L:178 , THR L:182 , BCL L:301 , HOH L:407 , MET M:122 , ILE M:179 , HIS M:182 , LEU M:183 , THR M:186 , BCL M:705 , BPH M:707 , SPN M:709binding site for residue BCL M 704
10AD1SOFTWARETYR L:162 , PHE L:181 , BCL L:301 , ALA M:153 , LEU M:156 , LEU M:160 , THR M:186 , ASN M:187 , PHE M:189 , SER M:190 , LEU M:196 , PHE M:197 , HIS M:202 , SER M:205 , ILE M:206 , TYR M:210 , VAL M:276 , GLY M:280 , ILE M:284 , BCL M:704 , BCL M:706 , BPH M:707binding site for residue BCL M 705
11AD2SOFTWARETYR L:128 , LEU L:131 , PHE L:146 , HIS L:153 , LEU L:154 , BCL L:301 , BPH L:302 , GLY M:203 , ILE M:206 , ALA M:207 , TYR M:210 , LDA M:701 , BCL M:705 , HOH M:824binding site for residue BCL M 706
12AD3SOFTWAREPHE L:181 , LEU L:185 , LEU L:189 , SER M:59 , GLY M:63 , TRP M:66 , ALA M:125 , VAL M:126 , TRP M:129 , ALA M:149 , PHE M:150 , ALA M:153 , ALA M:273 , THR M:277 , BCL M:704 , BCL M:705binding site for residue BPH M 707
13AD4SOFTWARETRP L:100 , MET M:218 , HIS M:219 , THR M:222 , ALA M:248 , ALA M:249 , TRP M:252 , MET M:256 , ASN M:259 , ALA M:260 , THR M:261 , ILE M:265 , TRP M:268binding site for residue U10 M 708
14AD5SOFTWAREPHE M:67 , PHE M:68 , ILE M:70 , GLY M:71 , TRP M:75 , TRP M:115 , SER M:119 , TRP M:157 , TRP M:171 , ILE M:179 , HIS M:182 , BCL M:704binding site for residue SPN M 709
15AD6SOFTWAREALA H:16 , PHE H:23 , TYR H:30 , ASN L:199 , PRO L:200 , GLY M:143 , LYS M:144 , HIS M:145 , TRP M:148 , ARG M:267 , LEU M:278 , HOH M:841 , HOH M:847binding site for residue CDL M 710
16AD7SOFTWARETRP H:21binding site for residue LDA H 301
17AD8SOFTWAREALA H:25binding site for residue DD9 H 303

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5LRI)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Gly M:48 -Pro M:49
2Tyr H:40 -Pro H:41
3Val H:75 -Pro H:76

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5LRI)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5LRI)

(-) Exons   (0, 0)

(no "Exon" information available for 5LRI)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain H from PDB  Type:PROTEIN  Length:239
                                                                                                                                                                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhh..........................eeee......eeee...........eee........eee..hhhhhhhhhhh.................eee.hhh...eeee.......eeee....eeeeeeeeeee....eeeeeeee.....eeeee.hhhee....eee...hhhhh............hhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5lri H  11 DLASLAIYSFWIFLAGLIYYLQTENMREGYPLENEDGTPAANQGPFPLPKPKTFILPHGRGTLTVPGPESEDRPIALARTAVSEGFPHAPTGDPMKDGVGPASWVARRDLPELDGHGHNKIKPMKAAAGFHVSAGKNPIGLPVRGCDLEIAGKVVDIWVDIPEQMARFLEVELKDGSTRLLPMQMVKVQSNRVHVNALSSDLFAGIPTIKSPTEVTLLEEDKICGYVAGGLMYAAPKRK 249
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240         

Chain L from PDB  Type:PROTEIN  Length:281
                                                                                                                                                                                                                                                                                                                         
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhh..............ee..eehhhhhhhhhhhhhhhhhhhhhhhhhhh............hhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5lri L   1 ALLSFERKYRVPGGTLVGGNLFDFWVGPFYVGFFGVATFFFAALGIILIAWSAVLQGTWNPQLISVYPPALEYGLGGAPLAKGGLWQIITICATGAFVSWALREVEICRKLGIGYHIPFAFAFAILAYLTLVLFRPVMMGAWGYAFPYGIWTHLDWVSNTGYTYGNFHYNPAHMIAISFFFTNALALALHGALVLSAANPEKGKEMRTPDHWDTFFRDLVGYSIGTLGIHRLGLLLSLSAVFFSALCMIITGTIWFDQWVDWWQWWVKLPWWANIPGGING 281
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280 

Chain M from PDB  Type:PROTEIN  Length:300
                                                                                                                                                                                                                                                                                                                                            
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ........eee...........hhhhh........hhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh.....hhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhh...hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhh.hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5lri M   3 YQNIFSQVQVRGPADLGMTEDVNLANRSGVGPFSTLLGWFGNAQLGPIYLGSLGVLSLFSGLMWFFTIGIWFWYQAGWNPAVFLRDLFFFSLEPPAPEYGLSFAAPLKEGGLWLIASFFMFVAVWSWWGRTYLRAQALGMGKHTAWAFLSAIWLWMVLGFIRPILMGSWSEAVPYGIFSHLDWTNNFSLVHGNLFYNPFHGLSIAFLYGSALLFAMHGATILAVSRFGGERELEQIADRGTAAERAALFWRWTMGFNATMEGIHRWAIWMAVLVTLTGGIGILLSGTVVDNWYVWGQNHG 302
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 5LRI)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5LRI)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5LRI)

(-) Gene Ontology  (13, 37)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Gly M:48 - Pro M:49   [ RasMol ]  
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    Val H:75 - Pro H:76   [ RasMol ]  
 

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        RCEH_RHOS4 | Q3J1701aig 1aij 1ds8 1dv3 1dv6 1e14 1e6d 1f6n 1fnp 1fnq 1jgw 1jgx 1jgy 1jgz 1jh0 1k6l 1k6n 1kby 1l9b 1l9j 1m3x 1mps 1ogv 1pcr 1pss 1pst 1qov 1rg5 1rgn 1rqk 1rvj 1ry5 1rzh 1rzz 1s00 1umx 1yf6 1yst 1z9j 1z9k 2bnp 2bns 2boz 2rcr 2wx5 4in5 4in6 4n7l 4rcr
        RCEL_RHOS4 | Q3J1A51aig 1aij 1ds8 1dv3 1dv6 1e14 1e6d 1f6n 1fnp 1fnq 1jgw 1jgx 1jgy 1jgz 1jh0 1k6l 1k6n 1kby 1l9b 1l9j 1m3x 1mps 1ogv 1pcr 1pss 1pst 1qov 1rg5 1rgn 1rqk 1rvj 1ry5 1rzh 1rzz 1s00 1umx 1yf6 1yst 1z9j 1z9k 2bnp 2bns 2boz 2gmr 2rcr 2wx5 4in5 4in6 4n7l 4rcr
        RCEM_RHOS4 | Q3J1A61aig 1aij 1ds8 1dv3 1dv6 1e14 1e6d 1f6n 1fnp 1fnq 1jgw 1jgx 1jgy 1jgz 1jh0 1k6l 1k6n 1kby 1l9b 1l9j 1m3x 1mps 1ogv 1pcr 1pss 1pst 1qov 1rg5 1rgn 1rqk 1rvj 1ry5 1rzh 1rzz 1s00 1umx 1yf6 1yst 1z9j 1z9k 2bnp 2bns 2boz 2rcr 2wx5 4in5 4in6 4n7l 4rcr

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5LRI)