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(-) Description

Title :  CMCI-N160 SAH
 
Authors :  L. M. Oster, D. R. Lester, A. Terwisscha Van Scheltinga, M. Svenda, C. Genereux, I. Andersson
Date :  01 May 05  (Deposition) - 15 Mar 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.83
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F
Keywords :  Cephamycin Biosynthesis, Porin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. M. Oster, D. R. Lester, A. Terwisscha Van Scheltinga, M. Svenda, M. Van Lun, C. Genereux, I. Andersson
Insights Into Cephamycin Biosynthesis: The Crystal Structure Of Cmci From Streptomyces Clavuligerus.
J. Mol. Biol. V. 358 546 2006
PubMed-ID: 16527306  |  Reference-DOI: 10.1016/J.JMB.2006.02.004

(-) Compounds

Molecule 1 - CEPHALOSPORIN HYDROXYLASE CMCI
    Chains: A, B, C, D, E, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Mutation: YES
    Organism Scientific: STREPTOMYCES CLAVULIGERUS
    Organism Taxid: 1901
    Synonym: CMCI

 Structural Features

(-) Chains, Units

  123456
Asymmetric/Biological Unit : ABCDEF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 5)

Asymmetric/Biological Unit (1, 5)
No.NameCountTypeFull Name
1SAH5Ligand/IonS-ADENOSYL-L-HOMOCYSTEINE

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:18 , LEU A:64 , LYS A:65 , GLY A:89 , VAL A:90 , TYR A:91 , SER A:95 , ASP A:116 , ARG A:117 , ARG A:121 , GLY A:137 , ASP A:138 , CYS A:139 , ASN A:160 , ALA A:161 , ALA A:163BINDING SITE FOR RESIDUE SAH A 301
2AC2SOFTWARELEU B:18 , LEU B:64 , LYS B:65 , GLU B:87 , GLY B:89 , TYR B:91 , SER B:95 , ASP B:116 , ARG B:117 , ARG B:121 , GLY B:137 , ASP B:138 , CYS B:139 , ASN B:160 , ALA B:163BINDING SITE FOR RESIDUE SAH B 301
3AC3SOFTWARELEU C:18 , LEU C:64 , LYS C:65 , GLU C:87 , GLY C:89 , VAL C:90 , TYR C:91 , SER C:95 , ASP C:116 , ARG C:117 , ARG C:121 , GLY C:137 , ASP C:138 , CYS C:139 , ASN C:160 , ALA C:161 , ALA C:163 , HOH C:2035BINDING SITE FOR RESIDUE SAH C 301
4AC4SOFTWARELEU D:64 , LYS D:65 , GLU D:87 , GLY D:89 , TYR D:91 , SER D:95 , ASP D:116 , ARG D:117 , GLY D:137 , CYS D:139 , ASN D:160BINDING SITE FOR RESIDUE SAH D 301
5AC5SOFTWARELEU E:18 , LEU E:64 , GLY E:89 , TYR E:91 , ASP E:116 , ARG E:117 , ARG E:121 , GLY E:137 , ASP E:138 , CYS E:139 , ASN E:160 , ALA E:161 , HIS E:162 , ALA E:163 , ASP E:187BINDING SITE FOR RESIDUE SAH E 301

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2BR5)

(-) Cis Peptide Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1His A:153 -Pro A:154
2His B:153 -Pro B:154
3His C:153 -Pro C:154
4His D:153 -Pro D:154
5His E:153 -Pro E:154
6His F:153 -Pro F:154

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2BR5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2BR5)

(-) Exons   (0, 0)

(no "Exon" information available for 2BR5)

(-) 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:226
 aligned with B5GLB3_STRC2 | B5GLB3 from UniProtKB/TrEMBL  Length:236

    Alignment length:226
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227      
         B5GLB3_STRC2     8 NFLDLNLFRGLGEDPAYHPPVLTDRPRDWPLDRWAEAPRDLGYSDFSPYQWRGLRMLKDPDTQAVYHDMLWELRPRTIVELGVYNGGSLAWFRDLTKIMGIDCQVIGIDRDLSRCQIPASDMENITLHQGDCSDLTTFEHLREMAHPLIFIDDAHANTFNIMKWAVDHLLEEGDYFIIEDMIPYWYRYAPQLLSEYLGAFRDVLSMDMLYANASSQLDRGVLRRVA 233
               SCOP domains d2br5a_ A: Cephalosporin hydroxylase CmcI                                                                                                                                                                                          SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhh..................eehhhhhhhh............ee..ee...hhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhh....eeeeee........hhhhh..eeeee.....hhhhhh.......eeeee....hhhhhhhhhhhhh.....eeee..hhhhhhhhhhhhhhhhh......eeeehhhhh........eeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2br5 A   8 NFQDLNLFRGLGEDPAYHPPVLTDRPRDWPLDRWAEAPRDLGYSDFSPYQWRGLRMLKDPDTQAVYHDMLWELRPRTIVELGVYNGGSLAWFRDLTKIMGIDCQVIGIDRDLSRCQIPASDMENITLHQGDCSDLTTFEHLREMAHPLIFIDNAHANTFNIMKWAVDHLLEEGDYFIIEDMIPYWYRYAPQLFSEYLGAFRDVLSMDMLYANASSQLDRGVLRRVA 233
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227      


Chain B from PDB  Type:PROTEIN  Length:232
 aligned with B5GLB3_STRC2 | B5GLB3 from UniProtKB/TrEMBL  Length:236

    Alignment length:232
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231  
         B5GLB3_STRC2     2 NDYSRQNFLDLNLFRGLGEDPAYHPPVLTDRPRDWPLDRWAEAPRDLGYSDFSPYQWRGLRMLKDPDTQAVYHDMLWELRPRTIVELGVYNGGSLAWFRDLTKIMGIDCQVIGIDRDLSRCQIPASDMENITLHQGDCSDLTTFEHLREMAHPLIFIDDAHANTFNIMKWAVDHLLEEGDYFIIEDMIPYWYRYAPQLLSEYLGAFRDVLSMDMLYANASSQLDRGVLRRVA 233
               SCOP domains d2br5b_ B: Cephalosporin hydroxylase CmcI                                                                                                                                                                                                SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhh...hhhhhh..................eee.hhhhhh............ee..ee...hhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhh....eeeeee.hhhhh.........eeeee.....hhhhhh.......eeeee....hhhhhhhhhhhhh.....eeee..hhhhhhhhhhhhhhhhhhhh...eeee.............eeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2br5 B   2 NDYSRQNFQDLNLFRGLGEDPAYHPPVLTDRPRDWPLDRWAEAPRDLGYSDFSPYQWRGLRMLKDPDTQAVYHDMLWELRPRTIVELGVYNGGSLAWFRDLTKIMGIDCQVIGIDRDLSRCQIPASDMENITLHQGDCSDLTTFEHLREMAHPLIFIDNAHANTFNIMKWAVDHLLEEGDYFIIEDMIPYWYRYAPQLFSEYLGAFRDVLSMDMLYANASSQLDRGVLRRVA 233
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231  


Chain C from PDB  Type:PROTEIN  Length:227
 aligned with B5GLB3_STRC2 | B5GLB3 from UniProtKB/TrEMBL  Length:236

    Alignment length:227
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       
         B5GLB3_STRC2     8 NFLDLNLFRGLGEDPAYHPPVLTDRPRDWPLDRWAEAPRDLGYSDFSPYQWRGLRMLKDPDTQAVYHDMLWELRPRTIVELGVYNGGSLAWFRDLTKIMGIDCQVIGIDRDLSRCQIPASDMENITLHQGDCSDLTTFEHLREMAHPLIFIDDAHANTFNIMKWAVDHLLEEGDYFIIEDMIPYWYRYAPQLLSEYLGAFRDVLSMDMLYANASSQLDRGVLRRVAA 234
               SCOP domains d2br5c_ C: Cephalosporin hydroxylase CmcI                                                                                                                                                                                           SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhh..................eee.hhhhhh............ee..ee...hhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhh....eeeeee........hhhhh..eeeee.....hhhhhh.......eeeee....hhhhhhhhhhhhh.....eeee..hhhhhhhhhhhhhhhhhhh....eeeehhhhh........eeee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2br5 C   8 NFQDLNLFRGLGEDPAYHPPVLTDRPRDWPLDRWAEAPRDLGYSDFSPYQWRGLRMLKDPDTQAVYHDMLWELRPRTIVELGVYNGGSLAWFRDLTKIMGIDCQVIGIDRDLSRCQIPASDMENITLHQGDCSDLTTFEHLREMAHPLIFIDNAHANTFNIMKWAVDHLLEEGDYFIIEDMIPYWYRYAPQLFSEYLGAFRDVLSMDMLYANASSQLDRGVLRRVAA 234
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       


Chain D from PDB  Type:PROTEIN  Length:194
 aligned with B5GLB3_STRC2 | B5GLB3 from UniProtKB/TrEMBL  Length:236

    Alignment length:212
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229  
         B5GLB3_STRC2    20 EDPAYHPPVLTDRPRDWPLDRWAEAPRDLGYSDFSPYQWRGLRMLKDPDTQAVYHDMLWELRPRTIVELGVYNGGSLAWFRDLTKIMGIDCQVIGIDRDLSRCQIPASDMENITLHQGDCSDLTTFEHLREMAHPLIFIDDAHANTFNIMKWAVDHLLEEGDYFIIEDMIPYWYRYAPQLLSEYLGAFRDVLSMDMLYANASSQLDRGVLRR 231
               SCOP domains d2br5d_ D: Cephalosporin hydroxylase CmcI                                                                                                                                                                            SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...............eee.hhhhhh...........eee..eee..hhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhh....eeeee.........hhhhh..eeee....----...........eeeee....hhhhhhhhhhhhh.....eeee......--------------......eeehhhhh.hhhhh..eee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2br5 D  20 EDPAYHPPVLTDRPRDWPLDRWAEAPRDLGYSDFSPYQWRGLRMLKDPDTQAVYHDMLWELRPRTIVELGVYNGGSLAWFRDLTKIMGIDCQVIGIDRDLSRCQIPASDMENITLHQGDC----TFEHLREMAHPLIFIDNAHANTFNIMKWAVDHLLEEGDYFIIEDMIPY--------------AFRDVLSMDMLYANASSQLDRGVLRR 231
                                    29        39        49        59        69        79        89        99       109       119       129       139    |  149       159       169       179       189 |       -      |209       219       229  
                                                                                                                                                 139  144                                            191            206                         


Chain E from PDB  Type:PROTEIN  Length:230
 aligned with B5GLB3_STRC2 | B5GLB3 from UniProtKB/TrEMBL  Length:236

    Alignment length:230
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232
         B5GLB3_STRC2     3 DYSRQNFLDLNLFRGLGEDPAYHPPVLTDRPRDWPLDRWAEAPRDLGYSDFSPYQWRGLRMLKDPDTQAVYHDMLWELRPRTIVELGVYNGGSLAWFRDLTKIMGIDCQVIGIDRDLSRCQIPASDMENITLHQGDCSDLTTFEHLREMAHPLIFIDDAHANTFNIMKWAVDHLLEEGDYFIIEDMIPYWYRYAPQLLSEYLGAFRDVLSMDMLYANASSQLDRGVLRRV 232
               SCOP domains d2br5e_ E: Cephalosporin hydroxylase CmcI                                                                                                                                                                                              SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhh..................eehhhhh...............ee..ee...hhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhh....eeeeee.hhhhh.........eeeee.....hhhhhh.......eeeee....hhhhhhhhhhhhh.....eeee.hhhhhhhhhhhhhhhhhhhh.....eee.............eee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2br5 E   3 DYSRQNFQDLNLFRGLGEDPAYHPPVLTDRPRDWPLDRWAEAPRDLGYSDFSPYQWRGLRMLKDPDTQAVYHDMLWELRPRTIVELGVYNGGSLAWFRDLTKIMGIDCQVIGIDRDLSRCQIPASDMENITLHQGDCSDLTTFEHLREMAHPLIFIDNAHANTFNIMKWAVDHLLEEGDYFIIEDMIPYWYRYAPQLFSEYLGAFRDVLSMDMLYANASSQLDRGVLRRV 232
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232


Chain F from PDB  Type:PROTEIN  Length:206
 aligned with B5GLB3_STRC2 | B5GLB3 from UniProtKB/TrEMBL  Length:236

    Alignment length:213
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230   
         B5GLB3_STRC2    21 DPAYHPPVLTDRPRDWPLDRWAEAPRDLGYSDFSPYQWRGLRMLKDPDTQAVYHDMLWELRPRTIVELGVYNGGSLAWFRDLTKIMGIDCQVIGIDRDLSRCQIPASDMENITLHQGDCSDLTTFEHLREMAHPLIFIDDAHANTFNIMKWAVDHLLEEGDYFIIEDMIPYWYRYAPQLLSEYLGAFRDVLSMDMLYANASSQLDRGVLRRVA 233
               SCOP domains d2br5f_ F: Cephalosporin hydroxylase CmcI                                                                                                                                                                             SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............eee.hhhhhh............ee..ee...hhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhhh...eeeee................eeee....-------........eeeee....hhhhhhhhhhhhh.....eeee..hhhhhhhhhhhhhhhhhhh....eeee.............eeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2br5 F  21 DPAYHPPVLTDRPRDWPLDRWAEAPRDLGYSDFSPYQWRGLRMLKDPDTQAVYHDMLWELRPRTIVELGVYNGGSLAWFRDLTKIMGIDCQVIGIDRDLSRCQIPASDMENITLHQGDC-------HLREMAHPLIFIDNAHANTFNIMKWAVDHLLEEGDYFIIEDMIPYWYRYAPQLFSEYLGAFRDVLSMDMLYANASSQLDRGVLRRVA 233
                                    30        40        50        60        70        80        90       100       110       120       130        |-      |150       160       170       180       190       200       210       220       230   
                                                                                                                                                139     147
   Legend:   → Mismatch (orange background)
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    → 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  (1, 6)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2BR5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2BR5)

(-) Gene Ontology  (6, 9)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D,E,F   (B5GLB3_STRC2 | B5GLB3)
molecular function
    GO:0008168    methyltransferase activity    Catalysis of the transfer of a methyl group to an acceptor molecule.
biological process
    GO:0008610    lipid biosynthetic process    The chemical reactions and pathways resulting in the formation of lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent.
    GO:0032259    methylation    The process in which a methyl group is covalently attached to a molecule.

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 Related Entries

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

UniProtKB/TrEMBL
        B5GLB3_STRC2 | B5GLB3: 2bm8 2bm9 2br3 2br4

(-) Related Entries Specified in the PDB File

2bm8 CMCI-N160 APO-STRUCTURE
2bm9 CMCI-N160 IN COMPLEX WITH SAM
2br3 CMCI-D160 MG
2br4 CMCI-D160 MG-SAM