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(-) Description

Title :  BACTERIAL PHOTOSYNTHETIC REACTION CENTER FROM RHODOBACTER SPHAEROIDES WITH ILE M265 REPLACED WITH SER
 
Authors :  A. J. Mattis, C. A. Wraight
Date :  24 Sep 12  (Deposition) - 23 Jan 13  (Release) - 23 Jan 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.77
Chains :  Asym./Biol. Unit :  H,L,M
Keywords :  Cofactors, Quinone-Protein Interactions, Photosynthetic Reaction Center, Electron Transfer, Primary Quinone, Qa, Photosynthesis (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. J. Mattis, C. A. Wraight
Bacterial Photosynthetic Reaction Center From Rhodobacter Sphaeroides
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - REACTION CENTER PROTEIN L CHAIN
    Chains: L
    Engineered: YES
    Expression System: RHODOBACTER SPHAEROIDES
    Expression System Plasmid: PLMX415HIS
    Expression System Strain: GABM
    Expression System Taxid: 1063
    Expression System Vector Type: PLASMID
    Gene: PUFL
    Organism Scientific: RHODOBACTER SPHAEROIDES
    Organism Taxid: 1063
    Strain: GA
    Synonym: PHOTOSYNTHETIC REACTION CENTER L SUBUNIT
 
Molecule 2 - REACTION CENTER PROTEIN M CHAIN
    Chains: M
    Engineered: YES
    Expression System: RHODOBACTER SPHAEROIDES
    Expression System Plasmid: PLMX415HIS
    Expression System Strain: GABM
    Expression System Taxid: 1063
    Expression System Vector Type: PLASMID
    Gene: PUFM
    Mutation: YES
    Organism Scientific: RHODOBACTER SPHAEROIDES
    Organism Taxid: 1063
    Strain: GA
    Synonym: PHOTOSYNTHETIC REACTION CENTER M SUBUNIT
 
Molecule 3 - REACTION CENTER PROTEIN H CHAIN
    Chains: H
    Organism Scientific: RHODOBACTER SPHAEROIDES
    Organism Taxid: 1063
    Strain: GABM
    Synonym: PHOTOSYNTHETIC REACTION CENTER H SUBUNIT

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : HLM

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 10)

Asymmetric/Biological Unit (5, 10)
No.NameCountTypeFull Name
1BCL4Ligand/IonBACTERIOCHLOROPHYLL A
2BPH2Ligand/IonBACTERIOPHEOPHYTIN A
3FE1Ligand/IonFE (III) ION
4SPO1Ligand/IonSPHEROIDENE
5U102Ligand/IonUBIQUINONE-10

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREPHE L:97 , ALA L:124 , ILE L:125 , ALA L:127 , VAL L:157 , TYR L:162 , ASN L:166 , PHE L:167 , HIS L:168 , HIS L:173 , ALA L:176 , ILE L:177 , SER L:244 , CYS L:247 , MET L:248 , BCL L:302 , BPH L:303 , TYR M:210 , BCL M:401 , BCL M:403BINDING SITE FOR RESIDUE BCL L 301
02AC2SOFTWARETYR L:128 , PHE L:146 , HIS L:153 , LEU L:154 , BCL L:301 , BPH L:303 , GLY M:203 , ILE M:206 , ALA M:207 , TYR M:210 , GLY M:211 , HOH M:507BINDING SITE FOR RESIDUE BCL L 302
03AC3SOFTWARECYS L:92 , ALA L:93 , PHE L:97 , TRP L:100 , GLU L:104 , ILE L:117 , ALA L:120 , PHE L:121 , ALA L:124 , VAL L:241 , BCL L:301 , BCL L:302 , TYR M:210 , ALA M:213 , LEU M:214 , TRP M:252 , MET M:256BINDING SITE FOR RESIDUE BPH L 303
04AC4SOFTWAREHIS L:190 , LEU L:193 , PHE L:216 , SER L:223 , ILE L:224 , GLY L:225 , THR L:226 , ILE L:229BINDING SITE FOR RESIDUE U10 L 304
05AC5SOFTWAREHIS L:168 , MET L:174 , ILE L:177 , SER L:178 , THR L:182 , BCL L:301 , HOH L:401 , HIS M:182 , LEU M:183 , THR M:186 , BCL M:403 , BPH M:404 , SPO M:406BINDING SITE FOR RESIDUE BCL M 401
06AC6SOFTWAREHIS L:190 , HIS L:230 , HIS M:219 , GLU M:234 , HIS M:266BINDING SITE FOR RESIDUE FE M 402
07AC7SOFTWAREVAL L:157 , TYR L:162 , PHE L:181 , BCL L:301 , LEU M:156 , LEU M:160 , THR M:186 , ASN M:187 , LEU M:196 , PHE M:197 , HIS M:202 , SER M:205 , ILE M:206 , VAL M:276 , GLY M:280 , ILE M:284 , BCL M:401 , BPH M:404BINDING SITE FOR RESIDUE BCL M 403
08AC8SOFTWAREPHE L:181 , ALA L:184 , LEU L:185 , VAL M:126 , TRP M:129 , THR M:133 , PHE M:150 , ALA M:153 , ALA M:273 , THR M:277 , BCL M:401 , BCL M:403BINDING SITE FOR RESIDUE BPH M 404
09AC9SOFTWAREGLY L:35 , TRP L:100 , HIS M:219 , THR M:222 , ALA M:248 , ALA M:249 , TRP M:252 , MET M:256 , ASN M:259 , ALA M:260 , SER M:265 , TRP M:268 , MET M:272BINDING SITE FOR RESIDUE U10 M 405
10BC1SOFTWAREPHE M:67 , ILE M:70 , GLY M:71 , TRP M:75 , TRP M:157 , PHE M:162 , GLY M:178 , HIS M:182 , BCL M:401BINDING SITE FOR RESIDUE SPO M 406

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4H9L)

(-) 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 4H9L)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4H9L)

(-) Exons   (0, 0)

(no "Exon" information available for 4H9L)

(-) 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:238
                                                                                                                                                                                                                                                                              
               SCOP domains d4h9lh1 H:11-35          d4h9lh2 H:36-248 Photosynthetic reaction centre                                                                                                                                                                       SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhh..........................eeee......eeee...........eee........eee..hhhhhhhhhhh.................eee.hhh...eeee.......eee.....eeeeeeeeeee....eeeeeeee.....eeeee.hhhee....ee....hhhhh............hhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4h9l H  11 DLASLAIYSFWIFLAGLIYYLQTENMREGYPLENEDGTPAANQGPFPLPKPKTFILPHGRGTLTVPGPESEDRPIALARTAVSEGFPHAPTGDPMKDGVGPASWVARRDLPELDGHGHNKIKPMKAAAGFHVSAGKNPIGLPVRGCDLEIAGKVVDIWVDIPEQMARFLEVELKDGSTRLLPMQMVKVQSNRVHVNALSSDLFAGIPTIKSPTEVTLLEEDKICGYVAGGLMYAAPKR 248
                                    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:280
                                                                                                                                                                                                                                                                                                                        
               SCOP domains d4h9ll_ L: L (light) subunit                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhh..............ee..ee.hhhhhhhhhhhhhhhhhhhhhhhhhh............hhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4h9l L   1 ALLSFERKYRVPGGTLVGGNLFDFWVGPFYVGFFGVATFFFAALGIILIAWSAVLQGTWNPQLISVYPPALEYGLGGAPLAKGGLWQIITICATGAFVSWALREVEICRKLGIGYHIPFAFAFAILAYLTLVLFRPVMMGAWGYAFPYGIWTHLDWVSNTGYTYGNFHYNPAHMIAISFFFTNALALALHGALVLSAANPEKGKEMRTPDHEDTFFRDLVGYSIGTLGIHRLGLLLSLSAVFFSALCMIITGTIWFDQWVDWWQWWVKLPWWANIPGGIN 280
                                    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:301
                                                                                                                                                                                                                                                                                                                                             
               SCOP domains d4h9lm_ M: M (medium) subunit                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eee...........hhhhh......hhhhhh...........hhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhh.........hhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhh.hhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4h9l M   1 AEYQNIFSQVQVRGPADLGMTEDVNLANRSGVGPFSTLLGWFGNAQLGPIYLGSLGVLSLFSGLMWFFTIGIWFWYQAGWNPAVFLRDLFFFSLEPPAPEYGLSFAAPLKEGGLWLIASFFMFVAVWSWWGRTYLRAQALGMGKHTAWAFLSAIWLWMVLGFIRPILMGSWSEAVPYGIFSHLDWTNNFSLVHGNLFYNPFHGLSIAFLYGSALLFAMHGATILAVSRFGGERELEQIADRGTAAERAALFWRWTMGFNATMEGSHRWAIWMAVLVTLTGGIGILLSGTVVDNWYVWGQNH 301
                                    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       290       300
   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  (4, 4)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Membrane and cell surface proteins and peptides (2046)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4H9L)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4H9L)

(-) 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_RHOSH | P0C0Y7: 1aig 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 2gnu 2hg3 2hg9 2hh1 2hhk 2hit 2hj6 2j8c 2j8d 2jiy 2jj0 2rcr 2uws 2uwt 2uwu 2uwv 2uww 2ux3 2ux4 2ux5 2uxj 2uxk 2uxl 2uxm 2wx5 3dsy 3dta 3dtr 3dts 3du2 3du3 3duq 3i4d 3v3y 3v3z 3zum 3zuw 4h99 4hbh 4hbj 4in5 4in6 4in7 4lwy 4n7k 4n7l 4rcr 4tqq 4v9g 5lse 5v33
        RCEL_RHOSH | P0C0Y8: 1aig 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 2gnu 2hg3 2hg9 2hh1 2hhk 2hit 2hj6 2j8c 2j8d 2jiy 2jj0 2rcr 2uws 2uwt 2uwu 2uwv 2uww 2ux3 2ux4 2ux5 2uxj 2uxk 2uxl 2uxm 2wx5 3dsy 3dta 3dtr 3dts 3du2 3du3 3duq 3i4d 3v3y 3v3z 3zum 3zuw 4h99 4hbh 4hbj 4in5 4in6 4in7 4lwy 4n7k 4n7l 4rcr 4tqq 4v9g 5lse 5v33
        RCEM_RHOSH | P0C0Y9: 1aig 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 2gnu 2hg3 2hg9 2hh1 2hhk 2hit 2hj6 2j8c 2j8d 2jiy 2jj0 2rcr 2uws 2uwt 2uwu 2uwv 2uww 2ux3 2ux4 2ux5 2uxj 2uxk 2uxl 2uxm 2wx5 3dsy 3dta 3dtr 3dts 3du2 3du3 3duq 3i4d 3v3y 3v3z 3zum 3zuw 4h99 4hbh 4hbj 4in5 4in6 4in7 4lwy 4n7k 4n7l 4rcr 4tqq 4v9g 5lse 5v33

(-) Related Entries Specified in the PDB File

4h99 BACTERIAL PHOTOSYNTHETIC REACTION CENTER FROM RHODOBACTER SPHAEROIDES WITH ILE M265 REPLACED WITH THR
4hbh BACTERIAL PHOTOSYNTHETIC REACTION CENTER FROM RHODOBACTER SPHAEROIDES WITH ILE M265 REPLACED WITH ASN
4hbj BACTERIAL PHOTOSYNTHETIC REACTION CENTER FROM RHODOBACTER SPHAEROIDES WITH ILEO M265 REPLACED WITH GLN