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

(-) Description

Title :  CRYSTAL STRUCTURE OF GLUCOSE-1-PHOSPHATE THYMIDYLYLTRANSFERASE, RMLA, COMPLEX WITH DTDP
 
Authors :  A. Dong, D. Christendat, E. F. Pai, Northeast Structural Genomics C (Nesg)
Date :  29 May 02  (Deposition) - 29 Jul 03  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Protein Nucleotide Complex, Nucleotide Binding Fold, Structural Genomics, Psi, Protein Structure Initiative, Northeast Structural Genomics Consortium, Nesg, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  A. Dong, D. Christendat, E. F. Pai
Crystal Structure Of Glucose-1-Phosphate Thymidylyltransferase, Rmla, Complex With Dtdp
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - GLUCOSE-1-PHOSPHATE THYMIDYLYLTRANSFERASE
    ChainsA, B, C, D
    EC Number2.7.7.24
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET15B
    Expression System Taxid562
    GeneRMLA
    Organism ScientificMETHANOTHERMOBACTER THERMAUTOTROPHICUS
    Organism Taxid145262

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 26)

Asymmetric/Biological Unit (4, 26)
No.NameCountTypeFull Name
1CL5Ligand/IonCHLORIDE ION
2GOL11Ligand/IonGLYCEROL
3SO42Ligand/IonSULFATE ION
4TYD8Ligand/IonTHYMIDINE-5'-DIPHOSPHATE

(-) Sites  (26, 26)

Asymmetric Unit (26, 26)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETHR A:198 , ASN A:201 , HOH A:1053BINDING SITE FOR RESIDUE CL A 4001
02AC2SOFTWARETHR B:198 , ASN B:201 , HOH B:1151BINDING SITE FOR RESIDUE CL B 4002
03AC3SOFTWARETHR C:198 , ASN C:201 , HOH C:1247 , HOH C:1250BINDING SITE FOR RESIDUE CL C 4003
04AC4SOFTWARETHR D:198 , ASN D:201BINDING SITE FOR RESIDUE CL D 4004
05AC5SOFTWARELYS A:165 , HOH A:1444 , ASP B:149 , SER B:150 , HIS C:291BINDING SITE FOR RESIDUE CL C 4005
06AC6SOFTWARESER A:199 , ARG A:206 , HOH A:1176 , HOH A:1302BINDING SITE FOR RESIDUE SO4 A 5001
07AC7SOFTWARETHR C:262 , ARG C:263 , GLU C:264 , HOH C:1727 , TYR D:256 , ARG D:263 , HOH D:1202BINDING SITE FOR RESIDUE SO4 D 5002
08AC8SOFTWARELEU A:6 , GLY A:8 , LYS A:23 , GLN A:24 , GLN A:80 , PRO A:83 , ARG A:84 , GLY A:85 , LEU A:106 , GLY A:107 , ASP A:108 , GLU A:194 , HOH A:1618 , HOH A:1619 , GOL A:2007BINDING SITE FOR RESIDUE TYD A 3001
09AC9SOFTWARELEU A:43 , TYR A:112 , GLY A:113 , HIS A:114 , ARG A:115 , PHE A:116 , SER A:117 , ILE A:248 , ALA A:249 , GLU A:253 , ILE A:254 , HOH A:1007 , HOH A:1023 , HOH A:1026 , HOH A:1035 , HOH A:1048 , HOH A:1190 , HOH A:1315 , ARG C:217BINDING SITE FOR RESIDUE TYD A 3002
10BC1SOFTWARELEU B:6 , GLY B:8 , GLY B:9 , LYS B:23 , GLN B:24 , GLN B:80 , PRO B:83 , ARG B:84 , GLY B:85 , LEU B:106 , ASP B:108 , GLU B:194 , HOH B:1683BINDING SITE FOR RESIDUE TYD B 3003
11BC2SOFTWARELEU B:43 , TYR B:112 , GLY B:113 , HIS B:114 , ARG B:115 , PHE B:116 , SER B:117 , ILE B:248 , ALA B:249 , GLU B:253 , ILE B:254 , HOH B:1002 , HOH B:1013 , HOH B:1043 , HOH B:1055 , HOH B:1102 , HOH B:1129 , HOH B:1570 , ARG D:217BINDING SITE FOR RESIDUE TYD B 3004
12BC3SOFTWARELEU C:6 , GLY C:8 , GLY C:9 , LYS C:23 , GLN C:24 , GLN C:80 , PRO C:83 , ARG C:84 , GLY C:85 , LEU C:106 , ASP C:108 , GOL C:2003BINDING SITE FOR RESIDUE TYD C 3005
13BC4SOFTWAREARG A:217 , HOH A:1078 , LEU C:43 , TYR C:112 , GLY C:113 , HIS C:114 , ARG C:115 , PHE C:116 , SER C:117 , ILE C:248 , ALA C:249 , ILE C:254 , HOH C:1011 , HOH C:1018 , HOH C:1069 , HOH C:1081 , HOH C:1091 , HOH C:1093 , HOH C:1405BINDING SITE FOR RESIDUE TYD C 3006
14BC5SOFTWARELEU D:6 , GLY D:8 , GLY D:9 , LYS D:23 , GLN D:24 , GLN D:80 , PRO D:83 , ARG D:84 , GLY D:85 , LEU D:106 , ASP D:108 , GOL D:2004BINDING SITE FOR RESIDUE TYD D 3007
15BC6SOFTWAREARG B:217 , HOH B:1107 , LEU D:43 , TYR D:112 , GLY D:113 , HIS D:114 , ARG D:115 , PHE D:116 , SER D:117 , ILE D:248 , ALA D:249 , ILE D:254 , HOH D:1037 , HOH D:1060 , HOH D:1075 , HOH D:1089 , HOH D:1217 , HOH D:1427 , HOH D:1645BINDING SITE FOR RESIDUE TYD D 3008
16BC7SOFTWARELYS A:242 , ARG A:243 , GLY A:245 , ARG C:138 , ASP C:139 , HOH C:1178 , HOH C:1293 , GOL C:2010BINDING SITE FOR RESIDUE GOL C 2001
17BC8SOFTWAREARG B:138 , ASP B:139 , HOH B:1307 , HOH B:1697 , LYS D:242 , ARG D:243 , GLY D:245BINDING SITE FOR RESIDUE GOL B 2002
18BC9SOFTWARELYS C:23 , ASP C:108 , LEU C:222 , ASP C:223 , THR C:224 , GLY C:225 , GOL C:2010 , TYD C:3005BINDING SITE FOR RESIDUE GOL C 2003
19CC1SOFTWAREGOL B:2011 , LYS D:23 , ASP D:108 , LEU D:222 , ASP D:223 , THR D:224 , GLY D:225 , TYD D:3007BINDING SITE FOR RESIDUE GOL D 2004
20CC2SOFTWAREARG A:138 , ASP A:139 , PHE A:143 , HOH A:1294 , LYS C:242 , ARG C:243 , GLY C:245BINDING SITE FOR RESIDUE GOL A 2005
21CC3SOFTWARELYS B:242 , ARG B:243 , GLY B:245 , ARG D:138 , ASP D:139 , PHE D:143 , HOH D:1297 , HOH D:1536BINDING SITE FOR RESIDUE GOL D 2006
22CC4SOFTWARELYS A:23 , ASP A:108 , LEU A:222 , ASP A:223 , THR A:224 , GLY A:225 , HOH A:1015 , HOH A:1206 , TYD A:3001 , HOH C:1591BINDING SITE FOR RESIDUE GOL A 2007
23CC5SOFTWAREGLU B:151 , GLY B:152 , VAL B:212 , GLU B:213 , HOH B:1295BINDING SITE FOR RESIDUE GOL B 2008
24CC6SOFTWAREGLU A:147 , PHE A:148 , LYS A:165 , SER A:166 , HOH A:1034BINDING SITE FOR RESIDUE GOL A 2009
25CC7SOFTWAREARG A:243 , PHE C:143 , TRP C:221 , LEU C:222 , ASP C:223 , HOH C:1178 , HOH C:1544 , GOL C:2001 , GOL C:2003BINDING SITE FOR RESIDUE GOL C 2010
26CC8SOFTWAREARG B:243 , HOH B:1700 , TRP D:221 , LEU D:222 , HOH D:1536 , GOL D:2004BINDING SITE FOR RESIDUE GOL B 2011

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Tyr A:15 -Pro A:16
2Tyr B:15 -Pro B:16
3Tyr C:15 -Pro C:16
4Tyr D:15 -Pro D:16

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1LVW)

(-) Exons   (0, 0)

(no "Exon" information available for 1LVW)

(-) 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:295
 aligned with O27819_METTH | O27819 from UniProtKB/TrEMBL  Length:292

    Alignment length:295
                               1                                                                                                                                                                                                                                                                                                   
                               |     7        17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287     
         O27819_METTH     - ---MKGIVLAGGSGTRLYPITRAVSKQLLPIYDKPMIYYPLSVLMLAGIRDILIISTPRDLPLYRDLLGDGSQFGVRFSYRVQEEPRGIADAFIVGKDFIGDSKVALVLGDNVFYGHRFSEILRRAASLEDGAVIFGYYVRDPRPFGVVEFDSEGRVISIEEKPSRPKSNYVVPGLYFYDNQVVEIARRIEPSDRGELEITSVNEEYLRMGKLRVELMGRGMAWLDTGTHDGLLEASSFIETIQKRQGFYIACLEEIAYNNGWITREDVLEMAEKLEKTDYGKYLRDLAEGNFHG 292
               SCOP domains d1lvwa_ A: RmlA (RfbA)                                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains 1lvwA00 A:-2-292 Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A                                                                                                                                                                                                                           CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee...............hhhh.ee..ee.hhhhhhhhhhh...eeeeee...hhhhhhhhhh.hhhhh.eeeeee.....hhhhhhhhhhhhhh...eeeee....ee..hhhhhhhhhhh....eeeeeee.......eeeee.....eeeeee........ee...eeee..hhhhhhhhh........hhhhhhhhhhhh..eeeeee....ee....hhhhhhhhhhhhhhhhhhhh....hhhhhhhhh...hhhhhhhhhhhh..hhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1lvw A  -2 GAHMKGIVLAGGSGTRLYPITRAVSKQLLPIYDKPMIYYPLSVLMLAGIRDILIISTPRDLPLYRDLLGDGSQFGVRFSYRVQEEPRGIADAFIVGKDFIGDSKVALVLGDNVFYGHRFSEILRRAASLEDGAVIFGYYVRDPRPFGVVEFDSEGRVISIEEKPSRPKSNYVVPGLYFYDNQVVEIARRIEPSDRGELEITSVNEEYLRMGKLRVELMGRGMAWLDTGTHDGLLEASSFIETIQKRQGFYIACLEEIAYNNGWITREDVLEMAEKLEKTDYGKYLRDLAEGNFHG 292
                                     7        17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287     

Chain B from PDB  Type:PROTEIN  Length:292
 aligned with O27819_METTH | O27819 from UniProtKB/TrEMBL  Length:292

    Alignment length:292
                             1                                                                                                                                                                                                                                                                                                  
                             |       9        19        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  
         O27819_METTH     - -MKGIVLAGGSGTRLYPITRAVSKQLLPIYDKPMIYYPLSVLMLAGIRDILIISTPRDLPLYRDLLGDGSQFGVRFSYRVQEEPRGIADAFIVGKDFIGDSKVALVLGDNVFYGHRFSEILRRAASLEDGAVIFGYYVRDPRPFGVVEFDSEGRVISIEEKPSRPKSNYVVPGLYFYDNQVVEIARRIEPSDRGELEITSVNEEYLRMGKLRVELMGRGMAWLDTGTHDGLLEASSFIETIQKRQGFYIACLEEIAYNNGWITREDVLEMAEKLEKTDYGKYLRDLAEGNFH 291
               SCOP domains d1lvwb_ B: RmlA (RfbA)                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains 1lvwB00 B:0-291 Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A                                                                                                                                                                                                                         CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...............hhhh.ee..ee.hhhhhhhhhhh...eeeeee...hhhhhhhhhh.hhhhh.eeeeee.....hhhhhhhhhhhhhh...eeeee....ee..hhhhhhhhhhh....eeeeeee.......eeeee.....eeeeee........ee...eeee..hhhhhhhhh........hhhhhhhhhhhh..eeeeee....ee....hhhhhhhhhhhhhhhhhhhh....hhhhhhhhh...hhhhhhhhhhhh..hhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1lvw B   0 HMKGIVLAGGSGTRLYPITRAVSKQLLPIYDKPMIYYPLSVLMLAGIRDILIISTPRDLPLYRDLLGDGSQFGVRFSYRVQEEPRGIADAFIVGKDFIGDSKVALVLGDNVFYGHRFSEILRRAASLEDGAVIFGYYVRDPRPFGVVEFDSEGRVISIEEKPSRPKSNYVVPGLYFYDNQVVEIARRIEPSDRGELEITSVNEEYLRMGKLRVELMGRGMAWLDTGTHDGLLEASSFIETIQKRQGFYIACLEEIAYNNGWITREDVLEMAEKLEKTDYGKYLRDLAEGNFH 291
                                     9        19        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  

Chain C from PDB  Type:PROTEIN  Length:292
 aligned with O27819_METTH | O27819 from UniProtKB/TrEMBL  Length:292

    Alignment length:294
                              1                                                                                                                                                                                                                                                                                                   
                              |      8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288    
         O27819_METTH     - --MKGIVLAGGSGTRLYPITRAVSKQLLPIYDKPMIYYPLSVLMLAGIRDILIISTPRDLPLYRDLLGDGSQFGVRFSYRVQEEPRGIADAFIVGKDFIGDSKVALVLGDNVFYGHRFSEILRRAASLEDGAVIFGYYVRDPRPFGVVEFDSEGRVISIEEKPSRPKSNYVVPGLYFYDNQVVEIARRIEPSDRGELEITSVNEEYLRMGKLRVELMGRGMAWLDTGTHDGLLEASSFIETIQKRQGFYIACLEEIAYNNGWITREDVLEMAEKLEKTDYGKYLRDLAEGNFHG 292
               SCOP domains d1lvwc_ C:   RmlA (RfbA)                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains 1lvwC00 C:-  1-292 Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A                                                                                                                                                                                                                        CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeee...--..........hhhh.ee..ee.hhhhhhhhhhh...eeeeee...hhhhhhhhhh.hhhhh.eeeeee.....hhhhhhhhhhhhhh...eeeee....ee...hhhhhhhhhh....eeeeeee.......eeeee.....eeeeee........ee...eeee..hhhhhhhhh........hhhhhhhhhhhh..eeeeee....ee....hhhhhhhhhhhhhhhhhhhh....hhhhhhhhh...hhhhhhhhhhhh..hhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1lvw C  -1 AHMKGIVLAGG--TRLYPITRAVSKQLLPIYDKPMIYYPLSVLMLAGIRDILIISTPRDLPLYRDLLGDGSQFGVRFSYRVQEEPRGIADAFIVGKDFIGDSKVALVLGDNVFYGHRFSEILRRAASLEDGAVIFGYYVRDPRPFGVVEFDSEGRVISIEEKPSRPKSNYVVPGLYFYDNQVVEIARRIEPSDRGELEITSVNEEYLRMGKLRVELMGRGMAWLDTGTHDGLLEASSFIETIQKRQGFYIACLEEIAYNNGWITREDVLEMAEKLEKTDYGKYLRDLAEGNFHG 292
                                     8|  |    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288    
                                      9 12                                                                                                                                                                                                                                                                                        

Chain D from PDB  Type:PROTEIN  Length:291
 aligned with O27819_METTH | O27819 from UniProtKB/TrEMBL  Length:292

    Alignment length:293
                             1                                                                                                                                                                                                                                                                                                   
                             |       9        19        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   
         O27819_METTH     - -MKGIVLAGGSGTRLYPITRAVSKQLLPIYDKPMIYYPLSVLMLAGIRDILIISTPRDLPLYRDLLGDGSQFGVRFSYRVQEEPRGIADAFIVGKDFIGDSKVALVLGDNVFYGHRFSEILRRAASLEDGAVIFGYYVRDPRPFGVVEFDSEGRVISIEEKPSRPKSNYVVPGLYFYDNQVVEIARRIEPSDRGELEITSVNEEYLRMGKLRVELMGRGMAWLDTGTHDGLLEASSFIETIQKRQGFYIACLEEIAYNNGWITREDVLEMAEKLEKTDYGKYLRDLAEGNFHG 292
               SCOP domains d1lvwd_ D:   RmlA (RfbA)                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains 1lvwD00 D:  0-292 Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A                                                                                                                                                                                                                        CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...--..........hhhh.ee..ee.hhhhhhhhhhh...eeeeee...hhhhhhhhhh.hhhhh.eeeeee.....hhhhhhhhhhhhhh...eeeee....ee...hhhhhhhhhh....eeeeeee.......eeeee.....eeeeee........ee...eeee..hhhhhhhhh........hhhhhhhhhhh...eeeeee....ee....hhhhhhhhhhhhhhhhhhhh....hhhhhhhhh...hhhhhhhhhhhh..hhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1lvw D   0 HMKGIVLAGG--TRLYPITRAVSKQLLPIYDKPMIYYPLSVLMLAGIRDILIISTPRDLPLYRDLLGDGSQFGVRFSYRVQEEPRGIADAFIVGKDFIGDSKVALVLGDNVFYGHRFSEILRRAASLEDGAVIFGYYVRDPRPFGVVEFDSEGRVISIEEKPSRPKSNYVVPGLYFYDNQVVEIARRIEPSDRGELEITSVNEEYLRMGKLRVELMGRGMAWLDTGTHDGLLEASSFIETIQKRQGFYIACLEEIAYNNGWITREDVLEMAEKLEKTDYGKYLRDLAEGNFHG 292
                                     9  |     19        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   
                                     9 12                                                                                                                                                                                                                                                                                        

   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  (1, 4)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1LVW)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (O27819_METTH | O27819)
molecular function
    GO:0008879    glucose-1-phosphate thymidylyltransferase activity    Catalysis of the reaction: alpha-D-glucose 1-phosphate + dTTP = diphosphate + dTDP-glucose.
    GO:0016779    nucleotidyltransferase activity    Catalysis of the transfer of a nucleotidyl group to a reactant.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:0009058    biosynthetic process    The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.
    GO:0045226    extracellular polysaccharide biosynthetic process    The chemical reactions and pathways resulting in the formation of polysaccharides used in extracellular structures.

 Visualization

(-) Interactive Views

Asymmetric/Biological 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
    CL  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    GOL  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    SO4  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    TYD  [ 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 ]
    BC4  [ RasMol ]  +environment [ RasMol ]
    BC5  [ RasMol ]  +environment [ RasMol ]
    BC6  [ RasMol ]  +environment [ RasMol ]
    BC7  [ RasMol ]  +environment [ RasMol ]
    BC8  [ RasMol ]  +environment [ RasMol ]
    BC9  [ RasMol ]  +environment [ RasMol ]
    CC1  [ RasMol ]  +environment [ RasMol ]
    CC2  [ RasMol ]  +environment [ RasMol ]
    CC3  [ RasMol ]  +environment [ RasMol ]
    CC4  [ RasMol ]  +environment [ RasMol ]
    CC5  [ RasMol ]  +environment [ RasMol ]
    CC6  [ RasMol ]  +environment [ RasMol ]
    CC7  [ RasMol ]  +environment [ RasMol ]
    CC8  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
    Tyr A:15 - Pro A:16   [ RasMol ]  
    Tyr B:15 - Pro B:16   [ RasMol ]  
    Tyr C:15 - Pro C:16   [ RasMol ]  
    Tyr D:15 - Pro D:16   [ RasMol ]  
 

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  1lvw
    Family and Domain InformationProDom | SYSTERS
    General Structural InformationGlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in MembranesOPM
    Protein SurfaceSURFACE
    Secondary StructureDSSP (structure derived) | HSSP (homology derived)
    Structural GenomicsGeneCensus
    Structural NeighboursCE | VAST
    Structure ClassificationCATH | Dali | SCOP
    Validation and Original DataBMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  O27819_METTH | O27819
    Comparative Protein Structure ModelsModBase
    Genomic InformationEnsembl
    Protein-protein InteractionDIP
    Sequence, Family and Domain InformationInterPro | Pfam | SMART | UniProtKB/TrEMBL
 
Access by Enzyme Classificator   (EC Number)
  2.7.7.24
    General Enzyme InformationBRENDA | EC-PDB | Enzyme | IntEnz
    PathwayKEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease InformationOMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related InformationGenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain InformationXDom
    Interatomic Contacts of Structural UnitsCSU
    Ligand-protein ContactsLPC
    Protein CavitiescastP
    Sequence and Secondary StructurePDBCartoon
    Structure AlignmentSTRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence BrowserSTING
 
Access by UniProt ID/Accession number
  O27819_METTH | O27819
    Protein Disorder PredictionDisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

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

(-) Related Entries Specified in the PDB File

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