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(-) Description

Title :  E138D VARIANT OF ESCHERICHIA COLI DCTP DEAMINASE IN COMPLEX WITH DUTP
 
Authors :  M. Thymark, E. Johansson, S. Larsen, M. Willemoes
Date :  28 Aug 07  (Deposition) - 20 Nov 07  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1:  A,B,C,J,K,L  (1x)
Biol. Unit 2:  D,E,F,G,H,I  (1x)
Keywords :  Dutpase, Hydrolase, Dctp Deaminase, Nucleotide Metabolism (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Thymark, E. Johansson, S. Larsen, M. Willemoes
Mutational Analysis Of The Nucleotide Binding Site Of Escherichia Coli Dctp Deaminase.
Arch. Biochem. Biophys. V. 470 20 2008
PubMed-ID: 17996716  |  Reference-DOI: 10.1016/J.ABB.2007.10.013

(-) Compounds

Molecule 1 - DEOXYCYTIDINE TRIPHOSPHATE DEAMINASE
    Chains: A, B, C, D, E, F, G, H, I, J, K, L
    EC Number: 3.5.4.13
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET11A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Mutation: YES
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Synonym: DCTP DEAMINASE

 Structural Features

(-) Chains, Units

  123456789101112
Asymmetric Unit : ABCDEFGHIJKL
Biological Unit 1 (1x): ABC      JKL
Biological Unit 2 (1x):    DEFGHI   

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 28)

Asymmetric Unit (3, 28)
No.NameCountTypeFull Name
1DUT12Ligand/IonDEOXYURIDINE-5'-TRIPHOSPHATE
2MG12Ligand/IonMAGNESIUM ION
3SO44Ligand/IonSULFATE ION
Biological Unit 1 (2, 8)
No.NameCountTypeFull Name
1DUT6Ligand/IonDEOXYURIDINE-5'-TRIPHOSPHATE
2MG-1Ligand/IonMAGNESIUM ION
3SO42Ligand/IonSULFATE ION
Biological Unit 2 (2, 8)
No.NameCountTypeFull Name
1DUT6Ligand/IonDEOXYURIDINE-5'-TRIPHOSPHATE
2MG-1Ligand/IonMAGNESIUM ION
3SO42Ligand/IonSULFATE ION

(-) Sites  (28, 28)

Asymmetric Unit (28, 28)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREALA A:124 , ARG A:126 , ASP A:128 , TRP A:131 , ILE A:135 , VAL A:136 , TYR A:171 , ARG A:174 , ALA A:177 , LYS A:178 , TYR A:179 , GLN A:182 , MG A:1195 , HOH A:2039 , HOH A:2044 , ARG C:110 , SER C:111 , SER C:112 , ARG C:115 , HOH C:2035 , HOH C:2036BINDING SITE FOR RESIDUE DUT A1194
02AC2SOFTWAREARG A:110 , SER A:111 , SER A:112 , ARG A:115 , HOH A:2023 , ALA B:124 , ARG B:126 , ASP B:128 , TRP B:131 , ILE B:135 , VAL B:136 , TYR B:171 , ARG B:174 , ALA B:177 , LYS B:178 , GLN B:182 , MG B:1195 , HOH B:2045 , HOH B:2046 , HOH B:2047 , HOH B:2048BINDING SITE FOR RESIDUE DUT B1194
03AC3SOFTWAREARG B:110 , SER B:111 , SER B:112 , ARG B:115 , HOH B:2009 , HOH B:2025 , HOH B:2026 , ALA C:124 , ARG C:126 , ASP C:128 , TRP C:131 , ILE C:135 , VAL C:136 , TYR C:171 , ARG C:174 , ALA C:177 , LYS C:178 , TYR C:179 , GLN C:182 , MG C:1195 , HOH C:2052 , HOH C:2053 , HOH C:2054BINDING SITE FOR RESIDUE DUT C1194
04AC4SOFTWAREALA J:124 , ARG J:126 , ASP J:128 , TRP J:131 , ILE J:135 , VAL J:136 , TYR J:171 , MG J:1195 , HOH J:2030 , HOH J:2031 , HOH J:2032 , ARG L:110 , SER L:111 , SER L:112 , HOH L:2002BINDING SITE FOR RESIDUE DUT J1194
05AC5SOFTWAREARG J:110 , SER J:111 , SER J:112 , ARG J:115 , HOH J:2010 , HOH J:2011 , HOH J:2021 , ALA K:124 , ARG K:126 , ASP K:128 , TRP K:131 , ILE K:135 , VAL K:136 , TYR K:171 , ARG K:174 , ALA K:177 , LYS K:178 , TYR K:179 , GLN K:182 , MG K:1195 , HOH K:2022 , HOH K:2037BINDING SITE FOR RESIDUE DUT K1194
06AC6SOFTWAREARG K:110 , SER K:111 , SER K:112 , ARG K:115 , HOH K:2006 , HOH K:2019 , ALA L:124 , ARG L:126 , ASP L:128 , TRP L:131 , ILE L:135 , VAL L:136 , TYR L:171 , MG L:1195 , HOH L:2017 , HOH L:2025BINDING SITE FOR RESIDUE DUT L1194
07AC7SOFTWAREALA D:124 , ARG D:126 , ASP D:128 , TRP D:131 , ILE D:135 , VAL D:136 , TYR D:171 , ARG D:174 , LYS D:178 , TYR D:179 , GLN D:182 , MG D:1195 , HOH D:2027 , HOH D:2035 , HOH D:2036 , ARG F:110 , SER F:111 , SER F:112 , ARG F:115 , HOH F:2019BINDING SITE FOR RESIDUE DUT D1194
08AC8SOFTWAREARG D:110 , SER D:111 , SER D:112 , ARG D:115 , HOH D:2007 , HOH D:2021 , ALA E:124 , ARG E:126 , ASP E:128 , ILE E:135 , VAL E:136 , TYR E:171 , ARG E:174 , ALA E:177 , LYS E:178 , TYR E:179 , GLN E:182 , MG E:1195 , HOH E:2038 , HOH E:2039 , HOH E:2040BINDING SITE FOR RESIDUE DUT E1194
09AC9SOFTWAREARG E:110 , SER E:111 , SER E:112 , ARG E:115 , HOH E:2007 , HOH E:2008 , ALA F:124 , ARG F:126 , ASP F:128 , TRP F:131 , ILE F:135 , VAL F:136 , TYR F:171 , ARG F:174 , ALA F:177 , LYS F:178 , TYR F:179 , GLN F:182 , MG F:1195 , HOH F:2032 , HOH F:2033BINDING SITE FOR RESIDUE DUT F1194
10BC1SOFTWAREARG H:110 , SER H:111 , SER H:112 , ARG H:115 , HOH H:2027 , ALA I:124 , ARG I:126 , ASP I:128 , ILE I:135 , VAL I:136 , TYR I:171 , ARG I:174 , ALA I:177 , LYS I:178 , TYR I:179 , GLN I:182 , MG I:1195 , HOH I:2026 , HOH I:2040 , HOH I:2041BINDING SITE FOR RESIDUE DUT I1194
11BC2SOFTWAREALA G:124 , ARG G:126 , ASP G:128 , TRP G:131 , ILE G:135 , VAL G:136 , TYR G:171 , ARG G:174 , LYS G:178 , TYR G:179 , GLN G:182 , MG G:1195 , HOH G:2025 , ARG I:110 , SER I:111 , SER I:112 , ARG I:115 , HOH I:2004 , HOH I:2021BINDING SITE FOR RESIDUE DUT G1194
12BC3SOFTWAREARG G:110 , SER G:111 , SER G:112 , ARG G:115 , HOH G:2002 , HOH G:2012 , HOH G:2013 , ALA H:124 , ARG H:126 , ASP H:128 , TRP H:131 , ILE H:135 , VAL H:136 , TYR H:171 , ARG H:174 , ALA H:177 , LYS H:178 , TYR H:179 , GLN H:182 , MG H:1195 , HOH H:2043 , HOH H:2044 , HOH H:2045BINDING SITE FOR RESIDUE DUT H1194
13BC4SOFTWAREDUT A:1194 , HOH C:2011BINDING SITE FOR RESIDUE MG A1195
14BC5SOFTWAREHOH A:2009 , DUT B:1194 , HOH B:2045BINDING SITE FOR RESIDUE MG B1195
15BC6SOFTWAREHOH B:2009 , DUT C:1194 , HOH C:2052BINDING SITE FOR RESIDUE MG C1195
16BC7SOFTWAREDUT D:1194 , HOH D:2035BINDING SITE FOR RESIDUE MG D1195
17BC8SOFTWAREHOH D:2007 , DUT E:1194 , HOH E:2039BINDING SITE FOR RESIDUE MG E1195
18BC9SOFTWAREHOH E:2007 , HOH E:2008 , DUT F:1194 , HOH F:2032BINDING SITE FOR RESIDUE MG F1195
19CC1SOFTWAREDUT G:1194 , HOH I:2004BINDING SITE FOR RESIDUE MG G1195
20CC2SOFTWAREHOH G:2002 , DUT H:1194 , HOH H:2044BINDING SITE FOR RESIDUE MG H1195
21CC3SOFTWAREDUT I:1194 , HOH I:2040BINDING SITE FOR RESIDUE MG I1195
22CC4SOFTWAREDUT J:1194 , HOH L:2002BINDING SITE FOR RESIDUE MG J1195
23CC5SOFTWAREHOH J:2010 , HOH J:2011 , DUT K:1194 , HOH K:2037BINDING SITE FOR RESIDUE MG K1195
24CC6SOFTWAREHOH K:2006 , DUT L:1194BINDING SITE FOR RESIDUE MG L1195
25CC7SOFTWAREARG A:2 , HIS A:125 , ARG B:2 , HIS B:125 , ARG C:2 , HIS C:125BINDING SITE FOR RESIDUE SO4 C1197
26CC8SOFTWARELEU K:107 , ASP K:108 , HIS K:121 , HIS K:125 , THR L:123 , HIS L:125BINDING SITE FOR RESIDUE SO4 K1197
27CC9SOFTWAREARG G:2 , HIS G:125 , ARG H:2 , HIS H:125 , ARG I:2 , HIS I:125BINDING SITE FOR RESIDUE SO4 G1197
28DC1SOFTWAREARG D:2 , HIS D:125 , ARG E:2 , HIS E:125 , ARG F:2 , HIS F:125BINDING SITE FOR RESIDUE SO4 D1197

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2V9X)

(-) Cis Peptide Bonds  (12, 12)

Asymmetric Unit
No.Residues
1Asn A:20 -Pro A:21
2Asn B:20 -Pro B:21
3Asn C:20 -Pro C:21
4Asn D:20 -Pro D:21
5Asn E:20 -Pro E:21
6Asn F:20 -Pro F:21
7Asn G:20 -Pro G:21
8Asn H:20 -Pro H:21
9Asn I:20 -Pro I:21
10Asn J:20 -Pro J:21
11Asn K:20 -Pro K:21
12Asn L:20 -Pro L:21

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2V9X)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2V9X)

(-) Exons   (0, 0)

(no "Exon" information available for 2V9X)

(-) 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:193
 aligned with DCD_ECOLI | P28248 from UniProtKB/Swiss-Prot  Length:193

    Alignment length:193
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190   
            DCD_ECOLI     1 MRLCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDLSGPKDEVSAALDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSGCIVLEFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPYNRREDAKYRNQQGAVASRIDKD 193
               SCOP domains d2v9xa_ A: Deoxycytidine triphosphate deaminase (dCTP deaminase)                                                                                                                                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhh...eee...hhh.ee..eeeee...ee...hhhhh..ee...hhhhhhhhhhhhh...ee......eee....eeeeeeeeeee....eeeeee.hhhhhh..ee......ee....eeeeeeeeee.....eee....eeeeeeeee.......hhhhh..............hhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2v9x A   1 MRLCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDLSGPKDEVSAALDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSGCIVLDFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPYNRREDAKYRNQQGAVASRIDKD 193
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190   


Chain B from PDB  Type:PROTEIN  Length:193
 aligned with DCD_ECOLI | P28248 from UniProtKB/Swiss-Prot  Length:193

    Alignment length:193
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190   
            DCD_ECOLI     1 MRLCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDLSGPKDEVSAALDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSGCIVLEFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPYNRREDAKYRNQQGAVASRIDKD 193
               SCOP domains d2v9xb_ B: Deoxycytidine triphosphate deaminase (dCTP deaminase)                                                                                                                                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhh...eee...hhh.ee..eeeee...ee...hhhhh..ee...hhhhhhhhhhhhh...ee......eee....eeeeeeeeeee....eeeeee.hhhhhh..ee......ee....eeeeeeeeee.....eee....eeeeeeeee.......hhhhh..............hhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2v9x B   1 MRLCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDLSGPKDEVSAALDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSGCIVLDFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPYNRREDAKYRNQQGAVASRIDKD 193
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190   


Chain C from PDB  Type:PROTEIN  Length:193
 aligned with DCD_ECOLI | P28248 from UniProtKB/Swiss-Prot  Length:193

    Alignment length:193
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190   
            DCD_ECOLI     1 MRLCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDLSGPKDEVSAALDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSGCIVLEFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPYNRREDAKYRNQQGAVASRIDKD 193
               SCOP domains d2v9xc_ C: Deoxycytidine triphosphate deaminase (dCTP deaminase)                                                                                                                                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhh...eee...hhh.ee..eeeee...ee...hhhhh..ee...hhhhhhhhhhhhh...ee......eee....eeeeeeeeeee....eeeeee.hhhhhh..ee......ee....eeeeeeeeee.....eee....eeeeeeeee.......hhhhh..............hhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2v9x C   1 MRLCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDLSGPKDEVSAALDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSGCIVLDFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPYNRREDAKYRNQQGAVASRIDKD 193
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190   


Chain D from PDB  Type:PROTEIN  Length:193
 aligned with DCD_ECOLI | P28248 from UniProtKB/Swiss-Prot  Length:193

    Alignment length:193
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190   
            DCD_ECOLI     1 MRLCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDLSGPKDEVSAALDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSGCIVLEFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPYNRREDAKYRNQQGAVASRIDKD 193
               SCOP domains d2v9xd_ D: Deoxycytidine triphosphate deaminase (dCTP deaminase)                                                                                                                                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhh...eee...hhh.ee..eeeee...ee...hhhhh..ee...hhhhhhhhhhhhh...ee......eee....eeeeeeeeeee....eeeeee.hhhhhh..ee......ee....eeeeeeeeee.....eee....eeeeeeeee.......hhhhh..............hhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2v9x D   1 MRLCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDLSGPKDEVSAALDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSGCIVLDFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPYNRREDAKYRNQQGAVASRIDKD 193
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190   


Chain E from PDB  Type:PROTEIN  Length:193
 aligned with DCD_ECOLI | P28248 from UniProtKB/Swiss-Prot  Length:193

    Alignment length:193
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190   
            DCD_ECOLI     1 MRLCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDLSGPKDEVSAALDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSGCIVLEFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPYNRREDAKYRNQQGAVASRIDKD 193
               SCOP domains d2v9xe_ E: Deoxycytidine triphosphate deaminase (dCTP deaminase)                                                                                                                                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhh...eee...hhh.....eeeeeeeeeee..hhhhh..ee...hhhhhhhhhhhhh...........eee....eeeeeeeeeee...........hhhhhh..ee............eeeeeeeeee.....eee.......................................hhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2v9x E   1 MRLCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDLSGPKDEVSAALDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSGCIVLDFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPYNRREDAKYRNQQGAVASRIDKD 193
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190   


Chain F from PDB  Type:PROTEIN  Length:193
 aligned with DCD_ECOLI | P28248 from UniProtKB/Swiss-Prot  Length:193

    Alignment length:193
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190   
            DCD_ECOLI     1 MRLCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDLSGPKDEVSAALDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSGCIVLEFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPYNRREDAKYRNQQGAVASRIDKD 193
               SCOP domains d2v9xf_ F: Deoxycytidine triphosphate deaminase (dCTP deaminase)                                                                                                                                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhh...eee...hhh.ee..eeeee...ee...hhhhh..ee...hhhhhhhhhhhhh...ee......eee....eeeeeeeeeee....eeeeee.hhhhhh..ee......ee....eeeeeeeeee.....eee....eeeeeeeee.......hhhhh..............hhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2v9x F   1 MRLCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDLSGPKDEVSAALDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSGCIVLDFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPYNRREDAKYRNQQGAVASRIDKD 193
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190   


Chain G from PDB  Type:PROTEIN  Length:193
 aligned with DCD_ECOLI | P28248 from UniProtKB/Swiss-Prot  Length:193

    Alignment length:193
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190   
            DCD_ECOLI     1 MRLCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDLSGPKDEVSAALDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSGCIVLEFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPYNRREDAKYRNQQGAVASRIDKD 193
               SCOP domains d2v9xg_ G: Deoxycytidine triphosphate deaminase (dCTP deaminase)                                                                                                                                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhh...eee...hhh.ee..eeeee...ee...hhhhh..ee...hhhhhhhhhhhhh...ee......eee....eeeeeeeeeee....eeeeee.hhhhhh..ee......ee....eeeeeeeeee.....eee....eeeeeeeee.......hhhhh..............hhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2v9x G   1 MRLCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDLSGPKDEVSAALDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSGCIVLDFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPYNRREDAKYRNQQGAVASRIDKD 193
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190   


Chain H from PDB  Type:PROTEIN  Length:193
 aligned with DCD_ECOLI | P28248 from UniProtKB/Swiss-Prot  Length:193

    Alignment length:193
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190   
            DCD_ECOLI     1 MRLCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDLSGPKDEVSAALDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSGCIVLEFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPYNRREDAKYRNQQGAVASRIDKD 193
               SCOP domains d2v9xh_ H: Deoxycytidine triphosphate deaminase (dCTP deaminase)                                                                                                                                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhh...eee...hhh.ee..eeeee...ee...hhhhh..ee...hhhhhhhhhhhhh...ee......eee....eeeeeeeeeee....eeeeee.hhhhhh..ee......ee....eeeeeeeeee.....eee....eeeeeeeee.......hhhhh..............hhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2v9x H   1 MRLCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDLSGPKDEVSAALDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSGCIVLDFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPYNRREDAKYRNQQGAVASRIDKD 193
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190   


Chain I from PDB  Type:PROTEIN  Length:193
 aligned with DCD_ECOLI | P28248 from UniProtKB/Swiss-Prot  Length:193

    Alignment length:193
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190   
            DCD_ECOLI     1 MRLCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDLSGPKDEVSAALDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSGCIVLEFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPYNRREDAKYRNQQGAVASRIDKD 193
               SCOP domains d2v9xi_ I: Deoxycytidine triphosphate deaminase (dCTP deaminase)                                                                                                                                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhh...eee...hhh.ee..eeeee...ee...hhhhh..ee...hhhhhhhhhhhhh...ee......eee....eeeeeeeeeee....eeeeee.hhhhhh..ee......ee....eeeeeeeeee.....eee....eeeeeeeee.......hhhhh..............hhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2v9x I   1 MRLCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDLSGPKDEVSAALDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSGCIVLDFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPYNRREDAKYRNQQGAVASRIDKD 193
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190   


Chain J from PDB  Type:PROTEIN  Length:161
 aligned with DCD_ECOLI | P28248 from UniProtKB/Swiss-Prot  Length:193

    Alignment length:171
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170 
            DCD_ECOLI     1 MRLCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDLSGPKDEVSAALDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSGCIVLEFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPY 171
               SCOP domains d2v9xj_ J: Deoxycytidine triphosphate deaminase (dCTP           deaminase)                                                                                                  SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhh...eee...hhh.ee..eeeee........hhhhh..ee.----------................eee....eeeeeeeeeee....eeeeee.hhhhhh..ee......ee....eeeeeeeeee.....eee....eeeeeeeee......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2v9x J   1 MRLCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDL----------LDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSGCIVLDFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPY 171
                                    10        20        30        40        50   |     -    |   70        80        90       100       110       120       130       140       150       160       170 
                                                                                54         65                                                                                                          


Chain K from PDB  Type:PROTEIN  Length:193
 aligned with DCD_ECOLI | P28248 from UniProtKB/Swiss-Prot  Length:193

    Alignment length:193
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190   
            DCD_ECOLI     1 MRLCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDLSGPKDEVSAALDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSGCIVLEFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPYNRREDAKYRNQQGAVASRIDKD 193
               SCOP domains d2v9xk_ K: Deoxycytidine triphosphate deaminase (dCTP deaminase)                                                                                                                                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhh...eee...hhh.ee..eeeee...ee...hhhhh..ee...hhhhhhhhhhhhh...ee......eee....eeeeeeeeeee....eeeeee.hhhhhh..ee......ee....eeeeeeeeee.....eee....eeeeeeeee.......hhhhh..............hhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2v9x K   1 MRLCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDLSGPKDEVSAALDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSGCIVLDFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPYNRREDAKYRNQQGAVASRIDKD 193
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190   


Chain L from PDB  Type:PROTEIN  Length:174
 aligned with DCD_ECOLI | P28248 from UniProtKB/Swiss-Prot  Length:193

    Alignment length:174
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170    
            DCD_ECOLI     1 MRLCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDLSGPKDEVSAALDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSGCIVLEFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPYNRR 174
               SCOP domains d2v9xl_ L: Deoxycytidine triphosphate deaminase (dCTP deaminase)                                                                                                               SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) -----------------------------------------------------------------------dUTPase-2v9xL01 L:72-174                                                                                Pfam domains (1)
           Pfam domains (2) -----------------------------------------------------------------------dUTPase-2v9xL02 L:72-174                                                                                Pfam domains (2)
           Pfam domains (3) -----------------------------------------------------------------------dUTPase-2v9xL03 L:72-174                                                                                Pfam domains (3)
           Pfam domains (4) -----------------------------------------------------------------------dUTPase-2v9xL04 L:72-174                                                                                Pfam domains (4)
           Pfam domains (5) -----------------------------------------------------------------------dUTPase-2v9xL05 L:72-174                                                                                Pfam domains (5)
           Pfam domains (6) -----------------------------------------------------------------------dUTPase-2v9xL06 L:72-174                                                                                Pfam domains (6)
           Pfam domains (7) -----------------------------------------------------------------------dUTPase-2v9xL07 L:72-174                                                                                Pfam domains (7)
           Pfam domains (8) -----------------------------------------------------------------------dUTPase-2v9xL08 L:72-174                                                                                Pfam domains (8)
           Pfam domains (9) -----------------------------------------------------------------------dUTPase-2v9xL09 L:72-174                                                                                Pfam domains (9)
          Pfam domains (10) -----------------------------------------------------------------------dUTPase-2v9xL10 L:72-174                                                                                Pfam domains (10)
          Pfam domains (11) -----------------------------------------------------------------------dUTPase-2v9xL11 L:72-174                                                                                Pfam domains (11)
          Pfam domains (12) -----------------------------------------------------------------------dUTPase-2v9xL12 L:72-174                                                                                Pfam domains (12)
         Sec.struct. author ...hhhhhhhhhhhh..eee...hhh.ee..eeeee...ee...hhhhh..ee..........hhhhhh...ee......eee....eeeee...eee....eeeeee.hhhhhh..ee......ee....ee..eeeeee.....eee....eeeeeeeee............ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2v9x L   1 MRLCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDLSGPKDEVSAALDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSGCIVLDFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPYNRR 174
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170
   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, 12)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2V9X)

(-) Pfam Domains  (1, 12)

Asymmetric Unit
(-)
Clan: dUTPase (38)

(-) Gene Ontology  (9, 9)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F,G,H,I,J,K,L   (DCD_ECOLI | P28248)
molecular function
    GO:0008829    dCTP deaminase activity    Catalysis of the reaction: dCTP + H2O = dUTP + NH3.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
biological process
    GO:0006226    dUMP biosynthetic process    The chemical reactions and pathways resulting in the formation of dUMP, deoxyuridine monophosphate (2'-deoxyuridine 5'-phosphate).
    GO:0006229    dUTP biosynthetic process    The chemical reactions and pathways resulting in the formation of dUTP, deoxyuridine (5'-)triphosphate.
    GO:0046080    dUTP metabolic process    The chemical reactions and pathways involving dUTP, deoxyuridine (5'-)triphosphate.
    GO:0015949    nucleobase-containing small molecule interconversion    The chemical reactions and pathways by which a nucleobase, nucleoside or nucleotide small molecule is synthesized from another nucleobase, nucleoside or nucleotide small molecule.
    GO:0009117    nucleotide metabolic process    The chemical reactions and pathways involving a nucleotide, a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the glycose moiety; may be mono-, di- or triphosphate; this definition includes cyclic nucleotides (nucleoside cyclic phosphates).
    GO:0009220    pyrimidine ribonucleotide biosynthetic process    The chemical reactions and pathways resulting in the formation of a pyrimidine ribonucleotide, a compound consisting of nucleoside (a pyrimidine base linked to a ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.
cellular component
    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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  2v9x
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 Related Entries

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

UniProtKB/Swiss-Prot
        DCD_ECOLI | P28248: 1xs1 1xs4 1xs6 2j4h 2j4q

(-) Related Entries Specified in the PDB File

1xs1 DCTP DEAMINASE FROM ESCHERICHIA COLI IN COMPLEX WITH DUTP
1xs4 DCTP DEAMINASE FROM ESCHERICHIA COLI- E138A MUTANT ENZYMEIN COMPLEX WITH DCTP
1xs6 DCTP DEAMINASE FROM ESCHERICHIA COLI. E138A MUTANT ENZYMEIN COMPLEX WITH DUTP
2j4h CRYSTAL STRUCTURE OF A H121A ESCHERICHIA COLI DCTP DEAMINASE MUTANT ENZYME
2j4q CRYSTAL STRUCTURE OF A E138A ESCHERICHIA COLI DCTP DEAMINASE MUTANT ENZYME IN COMPLEX WITH DTTP