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(-) Description

Title :  CRYSTAL STRUCTURE OF DIHYDRODIPICOLINATE REDUCTASE (TM1520) FROM THERMOTOGA MARITIMA AT 2.27 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  03 Sep 04  (Deposition) - 21 Sep 04  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.27
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Tm1520, Dihydrodipicolinate Reductase, Structural Genomics, Jcsg, Protein Structure Initiative, Psi, Joint Center For Structural Genomics, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Dihydrodipicolinate Reductase (Tm1520) From Thermotoga Maritima At 2. 27 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - DIHYDRODIPICOLINATE REDUCTASE
    Chains: A, B, C, D
    EC Number: 1.3.1.26
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: DAPB, TM1520
    Organism Scientific: THERMOTOGA MARITIMA
    Organism Taxid: 2336
    Synonym: DHPR

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 21)

Asymmetric/Biological Unit (4, 21)
No.NameCountTypeFull Name
1ACT12Ligand/IonACETATE ION
2EDO1Ligand/Ion1,2-ETHANEDIOL
3NAD4Ligand/IonNICOTINAMIDE-ADENINE-DINUCLEOTIDE
4PG44Ligand/IonTETRAETHYLENE GLYCOL

(-) Sites  (21, 21)

Asymmetric Unit (21, 21)
No.NameEvidenceResiduesDescription
01AC1SOFTWARESER B:183 , ARG B:184BINDING SITE FOR RESIDUE ACT B 217
02AC2SOFTWAREHIS B:127 , HIS B:128 , LYS B:131 , ACT B:222 , NAD B:300 , HOH B:315 , HOH B:317 , HOH B:342BINDING SITE FOR RESIDUE ACT B 218
03AC3SOFTWAREASP C:43 , GLY C:67 , GLY C:200BINDING SITE FOR RESIDUE ACT C 217
04AC4SOFTWAREGLU B:176BINDING SITE FOR RESIDUE ACT B 219
05AC5SOFTWAREHIS A:127 , HIS A:128 , LYS A:131 , ACT A:218 , NAD A:300 , HOH A:318 , HOH A:326 , HOH A:392BINDING SITE FOR RESIDUE ACT A 217
06AC6SOFTWARESER B:110 , LYS B:114 , ALA B:145BINDING SITE FOR RESIDUE ACT B 220
07AC7SOFTWAREPHE B:98 , ILE B:100 , VAL B:186 , GLY B:190 , LYS B:193 , HOH C:309BINDING SITE FOR RESIDUE ACT B 221
08AC8SOFTWAREPHE B:108 , LEU B:112 , PHE C:108 , GLU C:111BINDING SITE FOR RESIDUE ACT C 218
09AC9SOFTWARETHR D:73 , ASP D:133 , NAD D:300 , HOH D:321 , HOH D:382BINDING SITE FOR RESIDUE ACT D 217
10BC1SOFTWARETHR A:73 , TYR A:96 , LYS A:131 , SER A:136 , GLY A:137 , THR A:138 , ACT A:217 , NAD A:300BINDING SITE FOR RESIDUE ACT A 218
11BC2SOFTWARETHR D:73 , TYR D:96 , LYS D:131 , SER D:136 , GLY D:137 , THR D:138BINDING SITE FOR RESIDUE ACT D 218
12BC3SOFTWARETHR B:73 , TYR B:96 , LYS B:131 , SER B:136 , GLY B:137 , THR B:138 , ACT B:218 , NAD B:300BINDING SITE FOR RESIDUE ACT B 222
13BC4SOFTWAREGLY A:7 , SER A:9 , GLY A:10 , ARG A:11 , MET A:12 , ASP A:32 , VAL A:33 , PHE A:48 , SER A:49 , SER A:50 , ALA A:53 , GLY A:71 , THR A:73 , ALA A:95 , TYR A:96 , ASN A:97 , PHE A:98 , LYS A:131 , PHE A:187 , ACT A:217 , ACT A:218 , HOH A:313 , HOH A:314 , HOH A:318 , HOH A:326BINDING SITE FOR RESIDUE NAD A 300
14BC5SOFTWAREGLY B:7 , SER B:9 , GLY B:10 , ARG B:11 , MET B:12 , ASP B:32 , VAL B:33 , PHE B:48 , SER B:49 , SER B:50 , GLU B:52 , ALA B:53 , GLY B:71 , THR B:73 , ALA B:95 , TYR B:96 , ASN B:97 , PHE B:98 , LYS B:131 , ASP B:133 , PHE B:187 , ACT B:218 , ACT B:222 , HOH B:307 , HOH B:315 , HOH B:316 , HOH B:338 , HOH B:342 , HOH B:387 , HOH B:435 , HOH B:485BINDING SITE FOR RESIDUE NAD B 300
15BC6SOFTWAREGLY C:7 , SER C:9 , GLY C:10 , ARG C:11 , MET C:12 , ASP C:32 , VAL C:33 , PHE C:48 , SER C:49 , SER C:50 , GLU C:52 , ALA C:53 , GLY C:71 , THR C:72 , THR C:73 , ALA C:95 , TYR C:96 , ASN C:97 , PHE C:98 , PHE C:187 , PG4 C:302 , HOH C:337 , HOH C:342 , HOH C:384BINDING SITE FOR RESIDUE NAD C 300
16BC7SOFTWAREGLY D:7 , SER D:9 , GLY D:10 , ARG D:11 , MET D:12 , ASP D:32 , VAL D:33 , PHE D:48 , SER D:49 , SER D:50 , ALA D:53 , GLY D:71 , THR D:72 , THR D:73 , ALA D:95 , TYR D:96 , ASN D:97 , PHE D:98 , LYS D:131 , ASP D:133 , PHE D:187 , ACT D:217 , HOH D:319 , HOH D:325 , HOH D:331 , HOH D:367 , HOH D:395 , HOH D:431BINDING SITE FOR RESIDUE NAD D 300
17BC8SOFTWAREHIS B:-1 , HIS B:-2 , MET B:1 , ASP B:43 , HOH B:355 , HOH B:436 , ARG C:84 , SER C:87 , GLY C:204 , MET C:205BINDING SITE FOR RESIDUE EDO C 301
18BC9SOFTWARETYR C:96 , PRO C:161 , SER C:183 , ARG C:184 , NAD C:300 , HOH C:326BINDING SITE FOR RESIDUE PG4 C 302
19CC1SOFTWARETYR B:8 , GLN B:17 , LYS B:30 , GLU B:37 , LEU B:39BINDING SITE FOR RESIDUE PG4 B 301
20CC2SOFTWARELEU B:75 , LEU B:80 , TYR B:96 , HOH B:492 , HOH B:493BINDING SITE FOR RESIDUE PG4 B 302
21CC3SOFTWAREARG B:107 , PHE B:108 , PHE B:213BINDING SITE FOR RESIDUE PG4 B 303

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1VM6)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Ala A:134 -Pro A:135
2Ala B:134 -Pro B:135
3Ala C:134 -Pro C:135
4Ala D:134 -Pro D:135

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1VM6)

(-) PROSITE Motifs  (1, 4)

Asymmetric/Biological Unit (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1DAPBPS01298 Dihydrodipicolinate reductase signature.DAPB_THEMA122-139
 
 
 		  4A:122-139
B:122-139
C:122-139
D:122-139

(-) Exons   (0, 0)

(no "Exon" information available for 1VM6)

(-) 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:215
 aligned with DAPB_THEMA | Q9X1K8 from UniProtKB/Swiss-Prot  Length:216

    Alignment length:215
                             1                                                                                                                                                                                                                     
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209     
           DAPB_THEMA     - -MKYGIVGYSGRMGQEIQKVFSEKGHELVLKVDVNGVEELDSPDVVIDFSSPEALPKTVDLCKKYRAGLVLGTTALKEEHLQMLRELSKEVPVVQAYNFSIGINVLKRFLSELVKVLEDWDVEIVETHHRFKKDAPSGTAILLESALGKSVPIHSLRVGGVPGDHVVVFGNIGETIEIKHRAISRTVFAIGALKAAEFLVGKDPGMYSFEEVIFG 214
               SCOP domains -d1vm6a3 A:1-96,A:183-214 Dihydrodipicolinate reductase                                          d1vm6a2 A:97-182 Dihydrodipicolinate reductase                                        d1vm6a3 A:1-96,A:183-214         SCOP domains
               CATH domains 1vm6A01 A:0-99,A:183-214 NAD(P)-binding Rossmann-like Domain                                        1vm6A02 A:100-182 Dihydrodipicolinate Reductase; domain 2                          1vm6A01 A:0-99,A:183-214         CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...hhhhhhhhhhhhhh..eeeeeee..eeee.....eeee..hhhhhhhhhhhhhhhh.eeee.....hhhhhhhhhhhh...eeee....hhhhhhhhhhhhhhhhhh...eeeeeeee........hhhhhhhhhhh.....eeeee......eeeeeee...eeeeeeeee..hhhhhhhhhhhhhhhh....eeehhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------DAPB              --------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1vm6 A   0 HMKYGIVGYSGRMGQEIQKVFSEKGHELVLKVDVNGVEELDSPDVVIDFSSPEALPKTVDLCKKYRAGLVLGTTALKEEHLQMLRELSKEVPVVQAYNFSIGINVLKRFLSELVKVLEDWDVEIVETHHRFKKDAPSGTAILLESALGKSVPIHSLRVGGVPGDHVVVFGNIGETIEIKHRAISRTVFAIGALKAAEFLVGKDPGMYSFEEVIFG 214
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209     


Chain B from PDB  Type:PROTEIN  Length:218
 aligned with DAPB_THEMA | Q9X1K8 from UniProtKB/Swiss-Prot  Length:216

    Alignment length:218
                                 1                                                                                                                                                                                                                    
                                 |   5        15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205        
           DAPB_THEMA     - -----MKYGIVGYSGRMGQEIQKVFSEKGHELVLKVDVNGVEELDSPDVVIDFSSPEALPKTVDLCKKYRAGLVLGTTALKEEHLQMLRELSKEVPVVQAYNFSIGINVLKRFLSELVKVLEDWDVEIVETHHRFKKDAPSGTAILLESALGKSVPIHSLRVGGVPGDHVVVFGNIGETIEIKHRAISRTVFAIGALKAAEFLVGKDPGMYSFEEVIF 213
               SCOP domains -----d1vm6b1 B:1-96,B:183-213 Dihydrodipicolinate reductase                                          d1vm6b2 B:97-182 Dihydrodipicolinate reductase                                        d1vm6b1 B:1-96,B:183-213        SCOP domains
               CATH domains 1vm6B01 B:-4-99,B:183-213 NAD(P)-binding Rossmann-like Domain                                           1vm6B02 B:100-182 Dihydrodipicolinate Reductase; domain 2                          1vm6B01 B:-4-99,B:183-213       CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeee...hhhhhhhhhhhhhh..eeeeeee..eeee.....eeee..hhhhhhhhhhhhhhhh.eeee.....hhhhhhhhhhhh...eeee....hhhhhhhhhhhhhhhhhh...eeeeeeee........hhhhhhhhhhhh....eeeee......eeeeeee...eeeeeeeee..hhhhhhhhhhhhhhhh....eeehhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------DAPB              -------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1vm6 B  -4 HHHHHMKYGIVGYSGRMGQEIQKVFSEKGHELVLKVDVNGVEELDSPDVVIDFSSPEALPKTVDLCKKYRAGLVLGTTALKEEHLQMLRELSKEVPVVQAYNFSIGINVLKRFLSELVKVLEDWDVEIVETHHRFKKDAPSGTAILLESALGKSVPIHSLRVGGVPGDHVVVFGNIGETIEIKHRAISRTVFAIGALKAAEFLVGKDPGMYSFEEVIF 213
                                     5        15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205        


Chain C from PDB  Type:PROTEIN  Length:215
 aligned with DAPB_THEMA | Q9X1K8 from UniProtKB/Swiss-Prot  Length:216

    Alignment length:215
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210     
           DAPB_THEMA     1 MKYGIVGYSGRMGQEIQKVFSEKGHELVLKVDVNGVEELDSPDVVIDFSSPEALPKTVDLCKKYRAGLVLGTTALKEEHLQMLRELSKEVPVVQAYNFSIGINVLKRFLSELVKVLEDWDVEIVETHHRFKKDAPSGTAILLESALGKSVPIHSLRVGGVPGDHVVVFGNIGETIEIKHRAISRTVFAIGALKAAEFLVGKDPGMYSFEEVIFGG 215
               SCOP domains d1vm6c3 C:1-96,C:183-214 Dihydrodipicolinate reductase                                          d1vm6c2 C:97-182 Dihydrodipicolinate reductase                                        d1vm6c3 C:1-96,C:183-214        - SCOP domains
               CATH domains 1vm6C01 C:1-99,C:183-215 NAD(P)-binding Rossmann-like Domain                                       1vm6C02 C:100-182 Dihydrodipicolinate Reductase; domain 2                          1vm6C01 C:1-99,C:183-215          CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee...hhhhhhhhhhhhhh..eeeeeee..eeee.....eeee..hhhhhhhhhhhhhhhh.eeee.....hhhhhhhhhhhh...eeee....hhhhhhhhhhhhhhhhhh...eeeeeeee........hhhhhhhhhhh.....eeeee......eeeeeee...eeeeeeeee..hhhhhhhhhhhhhhhh....ee.hhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------DAPB              ---------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1vm6 C   1 MKYGIVGYSGRMGQEIQKVFSEKGHELVLKVDVNGVEELDSPDVVIDFSSPEALPKTVDLCKKYRAGLVLGTTALKEEHLQMLRELSKEVPVVQAYNFSIGINVLKRFLSELVKVLEDWDVEIVETHHRFKKDAPSGTAILLESALGKSVPIHSLRVGGVPGDHVVVFGNIGETIEIKHRAISRTVFAIGALKAAEFLVGKDPGMYSFEEVIFGG 215
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210     


Chain D from PDB  Type:PROTEIN  Length:217
 aligned with DAPB_THEMA | Q9X1K8 from UniProtKB/Swiss-Prot  Length:216

    Alignment length:217
                                1                                                                                                                                                                                                                    
                                |    6        16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       
           DAPB_THEMA     - ----MKYGIVGYSGRMGQEIQKVFSEKGHELVLKVDVNGVEELDSPDVVIDFSSPEALPKTVDLCKKYRAGLVLGTTALKEEHLQMLRELSKEVPVVQAYNFSIGINVLKRFLSELVKVLEDWDVEIVETHHRFKKDAPSGTAILLESALGKSVPIHSLRVGGVPGDHVVVFGNIGETIEIKHRAISRTVFAIGALKAAEFLVGKDPGMYSFEEVIF 213
               SCOP domains ----d1vm6d1 D:1-96,D:183-213 Dihydrodipicolinate reductase                                          d1vm6d2 D:97-182 Dihydrodipicolinate reductase                                        d1vm6d1 D:1-96,D:183-213        SCOP domains
               CATH domains 1vm6D01 D:-3-99,D:183-213 NAD(P)-binding Rossmann-like Domain                                          1vm6D02 D:100-182 Dihydrodipicolinate Reductase; domain 2                          1vm6D01 D:-3-99,D:183-213       CATH domains
           Pfam domains (1) ----DapB_N-1vm6D01 D:1-98                                                                             --DapB_C-1vm6D05 D:101-212                                                                                        - Pfam domains (1)
           Pfam domains (2) ----DapB_N-1vm6D02 D:1-98                                                                             --DapB_C-1vm6D06 D:101-212                                                                                        - Pfam domains (2)
           Pfam domains (3) ----DapB_N-1vm6D03 D:1-98                                                                             --DapB_C-1vm6D07 D:101-212                                                                                        - Pfam domains (3)
           Pfam domains (4) ----DapB_N-1vm6D04 D:1-98                                                                             --DapB_C-1vm6D08 D:101-212                                                                                        - Pfam domains (4)
         Sec.struct. author .....eeeee...hhhhhhhhhhhhhh..eeeeeee..eeee.....eeee..hhhhhhhhhhhhhhhh.eeee.....hhhhhhhhhhhh...eeee....hhhhhhhhhhhhhhhhhh...eeeeeeee........hhhhhhhhhhhh....eeeee......eeeeeee...eeeeeeeee..hhhhhhhhhhhhhhhh....eeehhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------DAPB              -------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1vm6 D  -3 HHHHMKYGIVGYSGRMGQEIQKVFSEKGHELVLKVDVNGVEELDSPDVVIDFSSPEALPKTVDLCKKYRAGLVLGTTALKEEHLQMLRELSKEVPVVQAYNFSIGINVLKRFLSELVKVLEDWDVEIVETHHRFKKDAPSGTAILLESALGKSVPIHSLRVGGVPGDHVVVFGNIGETIEIKHRAISRTVFAIGALKAAEFLVGKDPGMYSFEEVIF 213
                                     6        16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206
   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  (2, 8)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (2, 8)

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

(-) Pfam Domains  (2, 8)

Asymmetric/Biological Unit
(-)
Clan: NADP_Rossmann (1239)
(-)
Clan: no clan defined [family: DapB_C] (5)
(-)
Family: DapB_C (5)
(-)
Thermotoga maritima (1)
2aDapB_C-1vm6D05D:101-212
2bDapB_C-1vm6D06D:101-212
2cDapB_C-1vm6D07D:101-212
2dDapB_C-1vm6D08D:101-212

(-) Gene Ontology  (12, 12)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (DAPB_THEMA | Q9X1K8)
molecular function
    GO:0008839    4-hydroxy-tetrahydrodipicolinate reductase    Catalysis of the reaction: (S)-2,3,4,5-tetrahydropyridine-2,6-dicarboxylate + NAD(P)+ + H2O = (2S,4S)-4-hydroxy-2,3,4,5-tetrahydrodipicolinate + NAD(P)H + H+.
    GO:0051287    NAD binding    Interacting selectively and non-covalently with nicotinamide adenine dinucleotide, a coenzyme involved in many redox and biosynthetic reactions; binding may be to either the oxidized form, NAD+, or the reduced form, NADH.
    GO:0050661    NADP binding    Interacting selectively and non-covalently with nicotinamide-adenine dinucleotide phosphate, a coenzyme involved in many redox and biosynthetic reactions; binding may be to either the oxidized form, NADP+, or the reduced form, NADPH.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
    GO:0016726    oxidoreductase activity, acting on CH or CH2 groups, NAD or NADP as acceptor    Catalysis of an oxidation-reduction (redox) reaction in which a CH2 group acts as a hydrogen or electron donor and reduces NAD+ or NADP.
biological process
    GO:0008652    cellular amino acid biosynthetic process    The chemical reactions and pathways resulting in the formation of amino acids, organic acids containing one or more amino substituents.
    GO:0019877    diaminopimelate biosynthetic process    The chemical reactions and pathways resulting in the formation of diaminopimelate, both as an intermediate in lysine biosynthesis and as a component (as meso-diaminopimelate) of the peptidoglycan of Gram-negative bacterial cell walls.
    GO:0009085    lysine biosynthetic process    The chemical reactions and pathways resulting in the formation of lysine, 2,6-diaminohexanoic acid.
    GO:0009089    lysine biosynthetic process via diaminopimelate    The chemical reactions and pathways resulting in the formation of lysine, via the intermediate diaminopimelate.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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  Cis Peptide Bonds
    Ala A:134 - Pro A:135   [ RasMol ]  
    Ala B:134 - Pro B:135   [ RasMol ]  
    Ala C:134 - Pro C:135   [ RasMol ]  
    Ala D:134 - Pro D:135   [ RasMol ]  
 

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  1vm6
    Family and Domain Information: ProDom | SYSTERS
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  1.3.1.26
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 Related Entries

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

(no "Entries Sharing at Least One Protein Chain" available for 1VM6)

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 1VM6)