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(-) Description

Title :  ISOBUTYRYL-COA MUTASE FUSED WITH BOUND BUTYRYL-COA AND WITHOUT COBALAMIN OR GDP (APO-ICMF)
 
Authors :  M. Jost, C. L. Drennan
Date :  17 Dec 14  (Deposition) - 11 Feb 15  (Release) - 27 Jan 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.45
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Radical Enzyme, Complex, Isomerase, G-Protein Chaperone (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Jost, V. Cracan, P. A. Hubbard, R. Banerjee, C. L. Drennan
Visualization Of A Radical B12 Enzyme With Its G-Protein Chaperone.
Proc. Natl. Acad. Sci. Usa V. 112 2419 2015
PubMed-ID: 25675500  |  Reference-DOI: 10.1073/PNAS.1419582112

(-) Compounds

Molecule 1 - ISOBUTYRYL-COA MUTASE FUSED
    Chains: A, B
    EC Number: 5.4.99.13
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET28A
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: SBM, RMET_0210
    Organism Scientific: RALSTONIA METALLIDURANS (STRAIN CH34 / ATCC 43123 / DSM 2839)
    Organism Taxid: 266264
    Other Details: ICMF IS MISANNOTATED AS SBM IN THE GENOME OF CUPRIAVIDUS METALLIDURANS.
    Strain: CH34 / ATCC 43123 / DSM 2839

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1BCO2Ligand/IonBUTYRYL COENZYME A
2TLA2Ligand/IonL(+)-TARTARIC ACID

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:585 , PHE A:587 , ARG A:589 , ARG A:596 , PHE A:598 , ARG A:622 , SER A:624 , SER A:677 , THR A:679 , ARG A:728 , THR A:730 , GLN A:732 , TYR A:772 , SER A:821 , PHE A:823 , ARG A:856 , LYS A:861 , HIS A:863 , GLN A:865 , SER A:897binding site for residue BCO A 1101
2AC2SOFTWAREGLY A:219 , GLY A:221 , SER A:223 , SER A:224 , ARG A:265 , LYS A:358binding site for residue TLA A 1102
3AC3SOFTWAREPHE B:585 , PHE B:587 , ARG B:728binding site for residue BCO B 1101
4AC4SOFTWAREGLY B:219 , GLY B:221 , LYS B:222 , SER B:223 , SER B:224 , ARG B:265 , GLY B:337 , ALA B:338 , GLN B:341 , LYS B:358binding site for residue TLA B 1102

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4XC7)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Phe A:578 -Pro A:579
2Phe B:578 -Pro B:579

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4XC7)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4XC7)

(-) Exons   (0, 0)

(no "Exon" information available for 4XC7)

(-) 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 A from PDB  Type:PROTEIN  Length:1053
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeee........hhhhhhhhhhhh..eeee.....hhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhhhh.....eeee......hhhhhhhhhhhh..ee.hhhhhhhhhhhhhhhhhhhhh...hhhhh...hhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh..eeeeee....hhhhhhhhhhhhhhhhhh....eeeeeeeeee.....ee..hhhhh.......eeeeeeeee......hhhhhhhhhhhh...eeeee.......hhhhh.eeeeee.......hhhhhhhhhhh..eeee......hhhhhhhhhhhhhhhhhh....hhhhh.eee.......hhhhhhhhhhhhhhhhhh........................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh............eee.....eee........hhhhhhhhhhhh........................eee...hhhhhhhhhhhhh.....eeeeee.hhhhhh......hhhhhh..........hhhhhhhhh.........eeeeee...hhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh.eee..hhhhhh........hhhhhhhhhhhhhhhhhhh....ee.eeeehhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh.hhhhhh..eeeeeee..hhhhhhhhhhhhhhhhhhhhhh...hhhhhh.eeeeee........hhhhhhhhhhhhhhhhhhh...eee.............hhhhhhhhhhhhhhhh.hhhhh......hhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhh.....................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhh...hhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4xc7 A   22 GPANKVRFVTAASLFDGHDASINIMRRILQSQGCEVIHLGHNRSVQEVVTAALQEDVQGIAISSYQGGHVEYFKYMIDLLREHGGEHIQVFGGGGGVIVPDEIRELQAYGVARIYSPEDGQRMGLAGMITDMAQRCDIDLTRYAPTTLDTVVAGDRRALAQLITALENGKADPELVSALHAQAKAAAVPVLGITGTGGAGKSSLTDELIRRFRLDQDDALSIAVISIDPSRRKSGGALLGDRIRMNAINHPNIFMRSLATREAGISQALPDVIAACKAARFDLVIVETSGGDAAIVPHVDLSLYVMTPEFGAASQLEKIDMLDFADFVAINKFDRKGAQDAWRDVAKQVQRNREQWHSRAEDMPVYGTQASRFNDDGVTMLYQGLVGALGARGMSLKPGTLPNLEGRISTGQNVIVPPARSRYLAELADTVRAYHRRVVAQSKLARERQQLRAAHDMLQGAGHESAALETLASERDVSLGAVERKLLAMWPQMQQAYSGDEYVEIRTGLISTTLSGTKIRKVVLPRFEDEGEILKWLMRENVPGSFPYTAGVFAFKREGEDPTRMFAGEGDAFRTNRRFKLVSEGMEAKRLSTAFDSVTLYGEDPHERPDIYGKVGNSGVSIATLEDMKVLYDGFDLTNPSTSVSMTINGPAPTILAMFMNTAIDQQIDRFRADNGRDPTADEEAKIRAWVLQNVRGTVQADILKEDQGQNTCIFSTEFSLKVMGDIQEYFVHHQVRNFYSVSISGYHIAEAGANPISQLAFTLANGFTYVEAYLARGMHIDDFAPNLSFFFSNGMDPEYSVLGRVARRIWAVTMRDKYGANDRSQKLKYHIQTSGRSLHAQEIDFNDIRTTLQALIAIYDNCNSLHTNAYDEAITTPTAESVRRALAIQLIINREWGVAKCENPNQGSFLIEELTDLVEEAVLQEFERIAERGGVLGAMETGYQRGKIQEESLYYEQLKHDGTLPIIGVNTFRNPNGDPRSSEDEKQSQLHRLTEFHGAHQADAEAMLARLRQAVIDNRNVFAVLMDAVRVCSLGQITHALFEVGGQYRRNM 1093
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281   ||  293       303       313|      326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526  ||   542       552       562       572       582       592       602       612       622       632       642       652       662       672       682       692       702       712       722       732       742       752       762       772       782       792       802       812       822       832       842       852       862       872       882       892       902       912       922       932       942       952       962       972       982       992      1002      1012|     1030      1040      1050      1060      1070      1080      1090   
                                                                                                                                                                                                                                                                                                 285|                      313|                                                                                                                                                                                                                 529|                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        1012|                                                                        
                                                                                                                                                                                                                                                                                                  288                       317                                                                                                                                                                                                                  536                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         1021                                                                        


Chain B from PDB  Type:PROTEIN  Length:1063
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeee........hhhhhhhhhhhh..eeee.....hhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhhhh.....eeee......hhhhhhhhhhhh..ee.hhhhhhhhhhhhhhhhhhhhh...hhhhh...hhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh..eeeeeee...hhhhhhhhhhhhhhhhhh....eeeeeee........ee..hhhhh.......eeeeeee..........hhhhhhhhhhhh...eeeeeeeee............eeeeee.....hhhhhhhhhhhhh..eeee......hhhhhhhhhhhhhhhhhh....hhhhh.eee.......hhhhhhhhhhhhhhhhhh........................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...............eee.....eee........hhhhhhhhhhhh........................eee..eehhhhhhhhhhhh.....eeeeee.hhhhhh......hhhhhh......ee..hhhhhhhhh.........eeeeee...hhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh.eee..hhhhhhhh......hhhhhhhhhhhhhhhhhhh....ee.eeeehhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..hhhhhh..eeeeeee..hhhhhhhhhhhhhhhhhhhhhh...hhhhhh.eeeeee........hhhhhhhhhhhhhhhhhhh...eee.............hhhhhhhhhhhhhhhh.hhhhh......hhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhh...hhhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4xc7 B   22 GPANKVRFVTAASLFDGHDASINIMRRILQSQGCEVIHLGHNRSVQEVVTAALQEDVQGIAISSYQGGHVEYFKYMIDLLREHGGEHIQVFGGGGGVIVPDEIRELQAYGVARIYSPEDGQRMGLAGMITDMAQRCDIDLTRYAPTTLDTVVAGDRRALAQLITALENGKADPELVSALHAQAKAAAVPVLGITGTGGAGKSSLTDELIRRFRLDQDDALSIAVISIDPSRRKSGGALLGDRIRMNAINHPNIFMRSLATREAGSEISQALPDVIAACKAARFDLVIVETSGIGQGDAAIVPHVDLSLYVMTPEFGAASQLEKIDMLDFADFVAINKFDRKGAQDAWRDVAKQVQRNREQWHSRAEDMPVYGTQASRFNDDGVTMLYQGLVGALGARGMSLKPGTLPNLEGRISTGQNVIVPPARSRYLAELADTVRAYHRRVVAQSKLARERQQLRAAHDMLQGAGHESAALETLASERDVSLGAVERKLLAMWPQMQQAYSGDEYVVDKEIRTGLISTTLSGTKIRKVVLPRFEDEGEILKWLMRENVPGSFPYTAGVFAFKREGEDPTRMFAGEGDAFRTNRRFKLVSEGMEAKRLSTAFDSVTLYGEDPHERPDIYGKVGNSGVSIATLEDMKVLYDGFDLTNPSTSVSMTINGPAPTILAMFMNTAIDQQIDRFRADNGRDPTADEEAKIRAWVLQNVRGTVQADILKEDQGQNTCIFSTEFSLKVMGDIQEYFVHHQVRNFYSVSISGYHIAEAGANPISQLAFTLANGFTYVEAYLARGMHIDDFAPNLSFFFSNGMDPEYSVLGRVARRIWAVTMRDKYGANDRSQKLKYHIQTSGRSLHAQEIDFNDIRTTLQALIAIYDNCNSLHTNAYDEAITTPTAESVRRALAIQLIINREWGVAKCENPNQGSFLIEELTDLVEEAVLQEFERIAERGGVLGAMETGYQRGKIQEESLYYEQLKHDGTLPIIGVNTFRNPNGDPLARSSEDEKQSQLHRLTEFHGAHQADAEAMLARLRQAVIDNRNVFAVLMDAVRVCSLGQITHALFEVGGQYRRNM 1093
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       534       544       554       564       574       584       594       604       614       624       634       644       654       664       674       684       694       704       714       724       734       744       754       764       774       784       794       804       814       824       834       844       854       864       874       884       894       904       914       924       934       944       954       964       974       984       994      1004      1020      1030      1040      1050      1060      1070      1080      1090   
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      530|                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          1012|                                                                          
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       534                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           1019
   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 4XC7)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4XC7)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4XC7)

(-) Gene Ontology  (15, 15)

Asymmetric/Biological Unit(hide GO term definitions)

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  4xc7
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 Related Entries

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

UniProtKB/Swiss-Prot
        ICMF_CUPMC | Q1LRY0: 4xc6 4xc8 5cjt 5cju 5cjv 5cjw

(-) Related Entries Specified in the PDB File

4xc6 SAME PROTEIN BOUND TO ADENOSYLCOBALAMIN AND GDP.
4xc8