Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asym.Unit - manually
(-)Asymmetric Unit
(-)Asym. Unit - sites
(-)Biological Unit 1
(-)Biol. Unit 1 - sites
(-)Biological Unit 2
collapse expand < >
Image Asym.Unit - manually
Asym.Unit - manually  (Jmol Viewer)
Image Asymmetric Unit
Asymmetric Unit  (Jmol Viewer)
Image Asym. Unit - sites
Asym. Unit - sites  (Jmol Viewer)
Image Biological Unit 1
Biological Unit 1  (Jmol Viewer)
Image Biol. Unit 1 - sites
Biol. Unit 1 - sites  (Jmol Viewer)
Image Biological Unit 2
Biological Unit 2  (Jmol Viewer)

(-) Description

Title :  METHYLMALONYL-COA MUTASE SUBSTRATE COMPLEX
 
Authors :  P. R. Evans, F. Mancia
Date :  17 Jun 98  (Deposition) - 13 Jan 99  (Release) - 24 Oct 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Isomerase, Mutase, Intramolecular Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. Mancia, P. R. Evans
Conformational Changes On Substrate Binding To Methylmalony Coa Mutase And New Insights Into The Free Radical Mechanism
Structure V. 6 711 1998
PubMed-ID: 9655823  |  Reference-DOI: 10.1016/S0969-2126(98)00073-2
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - METHYLMALONYL-COA MUTASE
    Chains: A, C
    EC Number: 5.4.99.2
    Organism Scientific: PROPIONIBACTERIUM FREUDENREICHII SUBSP. SHERMANII
    Organism Taxid: 1752
    Other Details: ALPHA CHAINS A AND C INCLUDE COENZYME B12, AND A MIXTURE OF SUBSTRATE SUCCINYLCOENZYME A AND PRODUCT METHYLMALONYL- COA, AND A PARTIALLY OCCUPIED 5'-DEOXYADENOSINE. B12 IS PRESENT LARGELY AS REDUCED COB(II)ALAMIN, OR B12R.
    Other Details - Source: THE 2 GENES MUTA (BETA CHAIN) AND MUTB (ALPHA CHAIN) ARE COEXPRESSED FROM THE SAME PLASMID
    Plasmid: PMEX1
    Strain: NCIB 9885
 
Molecule 2 - METHYLMALONYL-COA MUTASE
    Chains: B, D
    EC Number: 5.4.99.2
    Organism Scientific: PROPIONIBACTERIUM FREUDENREICHII SUBSP. SHERMANII
    Organism Taxid: 1752
    Other Details: ALPHA CHAINS A AND C INCLUDE COENZYME B12, AND A MIXTURE OF SUBSTRATE SUCCINYLCOENZYME A AND PRODUCT METHYLMALONYL- COA, AND A PARTIALLY OCCUPIED 5'-DEOXYADENOSINE. B12 IS PRESENT LARGELY AS REDUCED COB(II)ALAMIN, OR B12R.
    Other Details - Source: THE 2 GENES MUTA (BETA CHAIN) AND MUTB (ALPHA CHAIN) ARE COEXPRESSED FROM THE SAME PLASMID
    Plasmid: PMEX1
    Strain: NCIB 9885

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 12)

Asymmetric Unit (5, 12)
No.NameCountTypeFull Name
15AD2Ligand/Ion5'-DEOXYADENOSINE
2B122Ligand/IonCOBALAMIN
3GOL4Ligand/IonGLYCEROL
4MCA2Ligand/IonMETHYLMALONYL-COENZYME A
5SCA2Ligand/IonSUCCINYL-COENZYME A
Biological Unit 1 (5, 6)
No.NameCountTypeFull Name
15AD1Ligand/Ion5'-DEOXYADENOSINE
2B121Ligand/IonCOBALAMIN
3GOL2Ligand/IonGLYCEROL
4MCA1Ligand/IonMETHYLMALONYL-COENZYME A
5SCA1Ligand/IonSUCCINYL-COENZYME A
Biological Unit 2 (5, 6)
No.NameCountTypeFull Name
15AD1Ligand/Ion5'-DEOXYADENOSINE
2B121Ligand/IonCOBALAMIN
3GOL2Ligand/IonGLYCEROL
4MCA1Ligand/IonMETHYLMALONYL-COENZYME A
5SCA1Ligand/IonSUCCINYL-COENZYME A

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETYR A:89 , PHE A:117 , LEU A:119 , HIS A:122 , ALA A:139 , VAL A:206 , ARG A:207 , THR A:209 , TYR A:243 , GLU A:247 , GLY A:333 , TRP A:334 , LEU A:336 , GLU A:370 , ALA A:371 , ALA A:373 , LEU A:374 , GLN A:454 , LEU A:602 , GLY A:609 , HIS A:610 , ASP A:611 , ARG A:612 , GLY A:613 , ILE A:617 , TYR A:621 , SER A:655 , LEU A:657 , GLY A:659 , GLY A:685 , GLY A:686 , VAL A:687 , TYR A:705 , THR A:706 , THR A:709 , SCA A:801 , MCA A:802 , 5AD A:803 , HOH A:883 , HOH A:889 , HOH A:892 , HOH A:914 , HOH A:951 , HOH A:987 , HOH A:1021 , HOH A:1025 , HOH A:1072 , HOH A:1078BINDING SITE FOR RESIDUE B12 A 800
02AC2SOFTWARETYR A:75 , THR A:77 , MET A:78 , ARG A:82 , THR A:85 , ARG A:87 , TYR A:89 , SER A:114 , SER A:164 , THR A:166 , THR A:195 , GLN A:197 , ARG A:207 , ASN A:236 , TYR A:243 , HIS A:244 , ARG A:283 , SER A:285 , PHE A:287 , ARG A:326 , THR A:327 , HIS A:328 , GLN A:330 , GLN A:361 , SER A:362 , B12 A:800 , HOH A:807 , HOH A:808 , HOH A:826 , HOH A:835 , HOH A:836 , HOH A:837 , HOH A:865 , HOH A:886 , HOH A:891 , HOH A:900 , HOH A:960 , HOH A:1028 , HOH A:1127 , HOH A:1129 , ARG B:45BINDING SITE FOR RESIDUE SCA A 801
03AC3SOFTWARETYR A:75 , THR A:77 , MET A:78 , ARG A:82 , THR A:85 , ARG A:87 , TYR A:89 , SER A:114 , SER A:164 , THR A:166 , THR A:195 , GLN A:197 , ARG A:207 , ASN A:236 , TYR A:243 , HIS A:244 , ARG A:283 , SER A:285 , PHE A:287 , ARG A:326 , HIS A:328 , GLN A:330 , GLN A:361 , SER A:362 , B12 A:800 , 5AD A:803 , HOH A:807 , HOH A:808 , HOH A:826 , HOH A:835 , HOH A:836 , HOH A:837 , HOH A:865 , HOH A:886 , HOH A:891 , HOH A:900 , HOH A:944 , HOH A:960 , HOH A:1028 , HOH A:1127 , HOH A:1129 , ARG B:45BINDING SITE FOR RESIDUE MCA A 802
04AC4SOFTWARETYR A:89 , ALA A:90 , GLY A:91 , ALA A:116 , ALA A:139 , GLY A:140 , TYR A:243 , GLN A:330 , ASN A:366 , GLU A:370 , LEU A:374 , B12 A:800 , MCA A:802 , HOH A:868 , HOH A:1074BINDING SITE FOR RESIDUE 5AD A 803
05AC5SOFTWAREALA A:41 , GLU A:42 , THR A:251 , HOH A:804 , HOH A:912 , HOH A:915 , HOH A:1134BINDING SITE FOR RESIDUE GOL A 1
06AC6SOFTWAREPHE B:93 , THR B:97 , ASP B:316 , LYS B:317 , ARG B:318 , GLY B:319 , ARG B:321BINDING SITE FOR RESIDUE GOL B 639
07AC7SOFTWARETYR C:89 , PHE C:117 , LEU C:119 , HIS C:122 , ALA C:139 , VAL C:206 , ARG C:207 , THR C:209 , HIS C:244 , GLU C:247 , GLY C:333 , TRP C:334 , LEU C:336 , GLU C:370 , ALA C:371 , ALA C:373 , LEU C:374 , GLN C:454 , LEU C:602 , ASP C:608 , GLY C:609 , HIS C:610 , ASP C:611 , ARG C:612 , GLY C:613 , ILE C:617 , TYR C:621 , SER C:655 , LEU C:657 , ALA C:658 , GLY C:659 , GLY C:685 , GLY C:686 , VAL C:687 , TYR C:705 , THR C:706 , THR C:709 , SCA C:801 , MCA C:802 , 5AD C:803 , HOH C:881 , HOH C:887 , HOH C:890 , HOH C:949 , HOH C:984 , HOH C:1018 , HOH C:1022 , HOH C:1069 , HOH C:1075BINDING SITE FOR RESIDUE B12 C 800
08AC8SOFTWARETYR C:75 , THR C:77 , MET C:78 , PHE C:81 , ARG C:82 , THR C:85 , ARG C:87 , TYR C:89 , SER C:114 , SER C:164 , THR C:166 , THR C:195 , GLN C:197 , ARG C:207 , ASN C:236 , TYR C:243 , HIS C:244 , ARG C:283 , SER C:285 , PHE C:287 , ARG C:326 , THR C:327 , HIS C:328 , GLN C:330 , GLN C:361 , SER C:362 , B12 C:800 , 5AD C:803 , HOH C:807 , HOH C:808 , HOH C:826 , HOH C:835 , HOH C:836 , HOH C:837 , HOH C:863 , HOH C:884 , HOH C:889 , HOH C:943 , HOH C:958 , HOH C:1025 , HOH C:1123 , ARG D:45BINDING SITE FOR RESIDUE SCA C 801
09AC9SOFTWARETYR C:75 , THR C:77 , MET C:78 , PHE C:81 , ARG C:82 , THR C:85 , ARG C:87 , TYR C:89 , SER C:114 , SER C:164 , THR C:166 , THR C:195 , GLN C:197 , ARG C:207 , ASN C:236 , TYR C:243 , HIS C:244 , ARG C:283 , SER C:285 , PHE C:287 , ARG C:326 , THR C:327 , HIS C:328 , GLN C:330 , GLN C:361 , SER C:362 , B12 C:800 , 5AD C:803 , HOH C:807 , HOH C:808 , HOH C:826 , HOH C:835 , HOH C:836 , HOH C:837 , HOH C:863 , HOH C:884 , HOH C:889 , HOH C:898 , HOH C:943 , HOH C:958 , HOH C:1025 , HOH C:1123 , ARG D:45BINDING SITE FOR RESIDUE MCA C 802
10BC1SOFTWARETYR C:89 , ALA C:90 , GLY C:91 , ALA C:116 , ALA C:139 , GLY C:140 , TYR C:243 , GLN C:330 , ASN C:366 , GLU C:370 , LEU C:374 , B12 C:800 , SCA C:801 , MCA C:802 , HOH C:866 , HOH C:1071 , HOH C:1162BINDING SITE FOR RESIDUE 5AD C 803
11BC2SOFTWAREALA C:41 , GLU C:42 , HOH C:804 , HOH C:910 , HOH C:913BINDING SITE FOR RESIDUE GOL C 1
12BC3SOFTWARETHR D:97 , ASP D:316 , LYS D:317 , GLY D:319 , ARG D:321BINDING SITE FOR RESIDUE GOL D 639

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Pro A:68 -Pro A:69
2Ala B:91 -Pro B:92
3Pro C:68 -Pro C:69
4Ala D:91 -Pro D:92

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4REQ)

(-) Sequences/Alignments

Asymmetric 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:726
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains d4reqa1 A:3-560 Methylmalonyl-CoA mutase alpha subunit, domain 1                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              d4reqa2 A:561-728 Methylmalonyl-CoA mutase alpha subunit, C-terminal domain                                                                                              SCOP domains
               CATH domains -----------------------------------4reqA01 A:38-559  [code=3.20.20.240, no name defined]                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     ---4reqA02 A:563-726  [code=3.40.50.280, no name defined]                                                                                                              -- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhh.........hhhhhhhhhhhhhh....ee.....ee....hhhhhh....................hhhhh...ee..ee...hhhhhhhhhhhhhhh....eee..hhhhhh.....hhhhh...........hhhhhhhhh........eeee....hhhhhhhhhhhhhhhh..hhhhheeee...hhhhhhh......hhhhhhhhhhhhhhhhhhhh..ee.eeeehhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhh.eeeeeee..hhhhhhhhhhhhhhhhhhhhhh....hhhhhh..eeeee..........hhhhhhhhhhhhhhhhh...eee...........hhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh..........hhhhhhh..hhhhhhhhhhhhhhhhhhh...eeeee.......hhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhhh..eeeeee...hhhhhhhhhhhhhhhh.....eeeeee..hhhhhhhhhhhheeeee....hhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4req A   3 TLPRFDSVDLGNAPVPADAARRFEELAAKAGTGEAWETAEQIPVGTLFNEDVYKDMDWLDTYAGIPPFVHGPYATMYAFRPWTIRQYAGFSTAKESNAFYRRNLAAGQKGLSVAFDLPTHRGYDSDNPRVAGDVGMAGVAIDSIYDMRELFAGIPLDQMSVSMTMNGAVLPILALYVVTAEEQGVKPEQLAGTIQNDILKEFMVRNTYIYPPQPSMRIISEIFAYTSANMPKWNSISISGYHMQEAGATADIEMAYTLADGVDYIRAGESVGLNVDQFAPRLSFFWGIGMNFFMEVAKLRAARMLWAKLVHQFGPKNPKSMSLRTHSQTSGWSLTAQDVYNNVVRTCIEAMAATQGHTQSLHTNSLDEAIALPTDFSARIARNTQLFLQQESGTTRVIDPWSGSAYVEELTWDLARKAWGHIQEVEKVGGMAKAIEKGIPKMRIEEAAARTQARIDSGRQPLIGVNKYRLEHEPPLDVLKVDNSTVLAEQKAKLVKLRAERDPEKVKAALDKITWAAGNPDDKDPDRNLLKLCIDAGRAMATVGEMSDALEKVFGRYTAQIRTISGVYSKEVKNTPEVEEARELVEEFEQAEGRRPRILLAKMGQDGHDRGQKVIATAYADLGFDVDVGPLFQTPEETARQAVEADVHVVGVSSLAGGHLTLVPALRKELDKLGRPDILITVGGVIPEQDFDELRKDGAVEIYTPGTVIPESAISLVKKLRASLDA 728
                                    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       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552       562       572       582       592       602       612       622       632       642       652       662       672       682       692       702       712       722      


Chain B from PDB  Type:PROTEIN  Length:619
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains d4reqb1 B:20-475 Methylmalonyl-CoA mutase beta subunit, domain 1                                                                                                                                                                                                                                                                                                                                                                                                        d4reqb2 B:476-638 Methylmalonyl-CoA mutase beta subunit, C-terminal domain                                                                                          SCOP domains
               CATH domains -------------------------------------------4reqB01 B:63-499  [code=3.20.20.240, no name defined]                                                                                                                                                                                                                                                                                                                                                                                                4reqB02 B:500-638  [code=3.40.50.280, no name defined]                                                                                      CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhh...hhhhhhhhhhhhhhh........hhhhhhhhhhee.....ee....hhhhh..........................eeeeee...hhhhhhhhhhhhhhh...eeeee.........hhhhhh........eeeee...hhhhhhhhhhhhhhh...hhhhh.eeeeehhhhhhhhhh......hhhhhhhhh.......eeeeeehhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhh.eeeeeee..hhhhhhhhhhhhhhhhhhhhhhh..hhhhh...eeeee..........hhhhhhhhhhhhhhhhh...eee.........ee..hhhhhhhhhhhhhhhhh.hhhhh......hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhh....................ee................hhhhhhhhhhhhh.......eeee..hhhhhhhhhhhhhhhhhhh.....eee..hhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhhhhhhhh...eeeee.hhhhhhhhhhhhhhhh.eee....hhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4req B  20 TLSLAGDFPKATEEQWEREVEKVLNRGRPPEKQLTFAECLKRLTVHTVDGIDIVPMYRPKDAPKKLGYPGVAPFTRGTTVRNGDMDAWDVRALHEDPDEKFTRKAILEGLERGVTSLLLRVDPDAIAPEHLDEVLSDVLLEMTKVEVFSRYDQGAAAEALVSVYERSDKPAKDLALNLGLDPIGFAALQGTEPDLTVLGDWVRRLAKFSPDSRAVTIDANIYHNAGAGDVAELAWALATGAEYVRALVEQGFTATEAFDTINFRVTATHDQFLTIARLRALREAWARIGEVFGVDEDKRGARQNAITSWRELTREDPYVNILRGSIATFSASVGGAESITTLPFTQALGLPEDDFPLRIARNTGIVLAEEVNIGRVNDPAGGSYYVESLTRSLADAAWKEFQEVEKLGGMSKAVMTEHVTKVLDACNAERAKRLANRKQPITAVSEFPMIGARSIETKPFPAAPARKGLAWHRDSEVFEQLMDRSTSVSERPKVFLACLGTRRDFGGREGFSSPVWHIAGIDTPQVEGGTTAEIVEAFKKSGAQVADLCSSAKVYAQQGLEVAKALKAAGAKALYLSGAFKEFGDDAAEAEKLIDGRLFMGMDVVDTLSSTLDILGVAK 638
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489       499       509       519       529       539       549       559       569       579       589       599       609       619       629         


Chain C from PDB  Type:PROTEIN  Length:726
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains d4reqc1 C:3-560 Methylmalonyl-CoA mutase alpha subunit, domain 1                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              d4reqc2 C:561-728 Methylmalonyl-CoA mutase alpha subunit, C-terminal domain                                                                                              SCOP domains
               CATH domains -----------------------------------4reqC01 C:38-559  [code=3.20.20.240, no name defined]                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     ---4reqC02 C:563-726  [code=3.40.50.280, no name defined]                                                                                                              -- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhh.........hhhhhhhhhhhhhh....ee.....ee....hhhhhh....................hhhhh...ee..ee...hhhhhhhhhhhhhhh....eee..hhhhhh.....hhhhhhhh........hhhhhhhhh.........eee....hhhhhhhhhhhhhhhh..hhhhh.eee...hhhhhhh......hhhhhhhhhhhhhhhhhhhh..ee.eeeehhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhh.eeeeeee..hhhhhhhhhhhhhhhhhhhhhh....hhhhhh..eeeee..........hhhhhhhhhhhhhhhhh...eee...........hhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh...........hhhhhh..hhhhhhhhhhhhhhhhhhh...eeeee.......hhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhhh..eeeeee...hhhhhhhhhhhhhhhh.....eeeeee..hhhhhhhhhhhheeeee....hhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4req C   3 TLPRFDSVDLGNAPVPADAARRFEELAAKAGTGEAWETAEQIPVGTLFNEDVYKDMDWLDTYAGIPPFVHGPYATMYAFRPWTIRQYAGFSTAKESNAFYRRNLAAGQKGLSVAFDLPTHRGYDSDNPRVAGDVGMAGVAIDSIYDMRELFAGIPLDQMSVSMTMNGAVLPILALYVVTAEEQGVKPEQLAGTIQNDILKEFMVRNTYIYPPQPSMRIISEIFAYTSANMPKWNSISISGYHMQEAGATADIEMAYTLADGVDYIRAGESVGLNVDQFAPRLSFFWGIGMNFFMEVAKLRAARMLWAKLVHQFGPKNPKSMSLRTHSQTSGWSLTAQDVYNNVVRTCIEAMAATQGHTQSLHTNSLDEAIALPTDFSARIARNTQLFLQQESGTTRVIDPWSGSAYVEELTWDLARKAWGHIQEVEKVGGMAKAIEKGIPKMRIEEAAARTQARIDSGRQPLIGVNKYRLEHEPPLDVLKVDNSTVLAEQKAKLVKLRAERDPEKVKAALDKITWAAGNPDDKDPDRNLLKLCIDAGRAMATVGEMSDALEKVFGRYTAQIRTISGVYSKEVKNTPEVEEARELVEEFEQAEGRRPRILLAKMGQDGHDRGQKVIATAYADLGFDVDVGPLFQTPEETARQAVEADVHVVGVSSLAGGHLTLVPALRKELDKLGRPDILITVGGVIPEQDFDELRKDGAVEIYTPGTVIPESAISLVKKLRASLDA 728
                                    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       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552       562       572       582       592       602       612       622       632       642       652       662       672       682       692       702       712       722      


Chain D from PDB  Type:PROTEIN  Length:619
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains d4reqd1 D:20-475 Methylmalonyl-CoA mutase beta subunit, domain 1                                                                                                                                                                                                                                                                                                                                                                                                        d4reqd2 D:476-638 Methylmalonyl-CoA mutase beta subunit, C-terminal domain                                                                                          SCOP domains
               CATH domains -------------------------------------------4reqD01 D:63-499  [code=3.20.20.240, no name defined]                                                                                                                                                                                                                                                                                                                                                                                                4reqD02 D:500-638  [code=3.40.50.280, no name defined]                                                                                      CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhh...hhhhhhhhhhhhhhh........hhhhhhhhhhee.....ee....hhhhh..........................eeeeee...hhhhhhhhhhhhhhh...eeeee.........hhhhhh........eeeee...hhhhhhhhhhhhhhh...hhhhh.eeeeehhhhhhhhhh......hhhhhhhhh.......eeeeeehhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhh.eeeeeee..hhhhhhhhhhhhhhhhhhhhhhh..hhhhh...eeeee..........hhhhhhhhhhhhhhhhhh..eee.............hhhhhhhhhhhhhhhhh.hhhhh......hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhh......................................hhhhhhhhhhhhhh......eeee..hhhhhhhhhhhhhhhhhhh.....eee..hhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhhhhhhhh...eeeee.hhhhhhhhhhhhhhhh..ee....hhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4req D  20 TLSLAGDFPKATEEQWEREVEKVLNRGRPPEKQLTFAECLKRLTVHTVDGIDIVPMYRPKDAPKKLGYPGVAPFTRGTTVRNGDMDAWDVRALHEDPDEKFTRKAILEGLERGVTSLLLRVDPDAIAPEHLDEVLSDVLLEMTKVEVFSRYDQGAAAEALVSVYERSDKPAKDLALNLGLDPIGFAALQGTEPDLTVLGDWVRRLAKFSPDSRAVTIDANIYHNAGAGDVAELAWALATGAEYVRALVEQGFTATEAFDTINFRVTATHDQFLTIARLRALREAWARIGEVFGVDEDKRGARQNAITSWRELTREDPYVNILRGSIATFSASVGGAESITTLPFTQALGLPEDDFPLRIARNTGIVLAEEVNIGRVNDPAGGSYYVESLTRSLADAAWKEFQEVEKLGGMSKAVMTEHVTKVLDACNAERAKRLANRKQPITAVSEFPMIGARSIETKPFPAAPARKGLAWHRDSEVFEQLMDRSTSVSERPKVFLACLGTRRDFGGREGFSSPVWHIAGIDTPQVEGGTTAEIVEAFKKSGAQVADLCSSAKVYAQQGLEVAKALKAAGAKALYLSGAFKEFGDDAAEAEKLIDGRLFMGMDVVDTLSSTLDILGVAK 638
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489       499       509       519       529       539       549       559       569       579       589       599       609       619       629
   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, 8)

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

(-) CATH Domains  (2, 8)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (9, 17)

Asymmetric Unit(hide GO term definitions)

 Visualization

(-) Interactive Views

Asymmetric Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    5AD  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    B12  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    GOL  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    MCA  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    SCA  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
    AC3  [ RasMol ]  +environment [ RasMol ]
    AC4  [ RasMol ]  +environment [ RasMol ]
    AC5  [ RasMol ]  +environment [ RasMol ]
    AC6  [ RasMol ]  +environment [ RasMol ]
    AC7  [ RasMol ]  +environment [ RasMol ]
    AC8  [ RasMol ]  +environment [ RasMol ]
    AC9  [ RasMol ]  +environment [ RasMol ]
    BC1  [ RasMol ]  +environment [ RasMol ]
    BC2  [ RasMol ]  +environment [ RasMol ]
    BC3  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
    Ala B:91 - Pro B:92   [ RasMol ]  
    Ala D:91 - Pro D:92   [ RasMol ]  
    Pro A:68 - Pro A:69   [ RasMol ]  
    Pro C:68 - Pro C:69   [ RasMol ]  
 
Biological Units
  Complete Structure
    Biological Unit 1  [ Jena3D ]
    Biological Unit 2  [ Jena3D ]

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym. Unit PNG format | Asym. Unit - sites PNG format | Biol. Unit 1 PNG format | Biol. Unit 1 - sites PNG format | Biol. Unit 2 PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  4req
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  MUTA_PROFR | P11652
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
  MUTB_PROFR | P11653
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  5.4.99.2
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  MUTA_PROFR | P11652
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)
  MUTB_PROFR | P11653
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/Swiss-Prot
        MUTA_PROFR | P11652: 1e1c 1req 2req 3req 5req 6req 7req
        MUTB_PROFR | P11653: 1e1c 1req 2req 3req 5req 6req 7req

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4REQ)