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(-) Description

Title :  URACIL-DNA GLYCOSYLASE INHIBITOR PROTEIN
 
Authors :  C. D. Putnam, A. S. Arvai, C. D. Mol, J. A. Tainer
Date :  04 Nov 98  (Deposition) - 25 Mar 99  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.55
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Biol. Unit 5:  E  (1x)
Biol. Unit 6:  F  (1x)
Biol. Unit 7:  G  (1x)
Biol. Unit 8:  H  (1x)
Keywords :  Protein Mimicry Of Dna, Protein Inhibitor, Hydrolase Inhibitor (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. D. Putnam, M. J. Shroyer, A. J. Lundquist, C. D. Mol, A. S. Arvai, D. W. Mosbaugh, J. A. Tainer
Protein Mimicry Of Dna From Crystal Structures Of The Uracil-Dna Glycosylase Inhibitor Protein And Its Complex With Escherichia Coli Uracil-Dna Glycosylase
J. Mol. Biol. V. 287 331 1999
PubMed-ID: 10080896  |  Reference-DOI: 10.1006/JMBI.1999.2605
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - URACIL-DNA GLYCOSYLASE INHIBITOR
    Cellular Location: CYTOPLASM
    Chains: A, B, C, D, E, F, G, H
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Cellular Location: CYTOPLASM
    Expression System Gene: TAC
    Expression System Plasmid: PZWTAC1
    Expression System Strain: JM105
    Expression System Taxid: 562
    Expression System Vector: PKK223-3
    Expression System Vector Type: PLASMID
    Organism Scientific: BACILLUS PHAGE PBS2
    Organism Taxid: 10684
    Synonym: UGI

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDEFGH
Biological Unit 1 (1x): A       
Biological Unit 2 (1x):  B      
Biological Unit 3 (1x):   C     
Biological Unit 4 (1x):    D    
Biological Unit 5 (1x):     E   
Biological Unit 6 (1x):      F  
Biological Unit 7 (1x):       G 
Biological Unit 8 (1x):        H

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 24)

Asymmetric Unit (2, 24)
No.NameCountTypeFull Name
1IMD18Ligand/IonIMIDAZOLE
2SO46Ligand/IonSULFATE ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1IMD-1Ligand/IonIMIDAZOLE
2SO41Ligand/IonSULFATE ION
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1IMD2Ligand/IonIMIDAZOLE
2SO4-1Ligand/IonSULFATE ION
Biological Unit 3 (2, 5)
No.NameCountTypeFull Name
1IMD4Ligand/IonIMIDAZOLE
2SO41Ligand/IonSULFATE ION
Biological Unit 4 (2, 4)
No.NameCountTypeFull Name
1IMD3Ligand/IonIMIDAZOLE
2SO41Ligand/IonSULFATE ION
Biological Unit 5 (2, 6)
No.NameCountTypeFull Name
1IMD4Ligand/IonIMIDAZOLE
2SO42Ligand/IonSULFATE ION
Biological Unit 6 (1, 2)
No.NameCountTypeFull Name
1IMD2Ligand/IonIMIDAZOLE
2SO4-1Ligand/IonSULFATE ION
Biological Unit 7 (2, 2)
No.NameCountTypeFull Name
1IMD1Ligand/IonIMIDAZOLE
2SO41Ligand/IonSULFATE ION
Biological Unit 8 (1, 2)
No.NameCountTypeFull Name
1IMD2Ligand/IonIMIDAZOLE
2SO4-1Ligand/IonSULFATE ION

(-) Sites  (24, 24)

Asymmetric Unit (24, 24)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLY A:34 , ASN A:35 , LYS A:36 , HOH A:2004 , HOH A:2554BINDING SITE FOR RESIDUE SO4 A 1100
02AC2SOFTWAREGLY E:34 , ASN E:35 , LYS E:36 , HOH E:2318 , HOH E:2361 , HOH E:2462BINDING SITE FOR RESIDUE SO4 E 1101
03AC3SOFTWAREASN G:35 , LYS G:36 , HOH G:2360 , HOH G:2523BINDING SITE FOR RESIDUE SO4 G 1102
04AC4SOFTWAREASN C:35 , LYS C:36 , HOH C:2520BINDING SITE FOR RESIDUE SO4 C 1103
05AC5SOFTWARESER D:21 , TYR D:65 , IMD D:1004 , HOH D:2021BINDING SITE FOR RESIDUE SO4 D 1104
06AC6SOFTWAREMET E:24 , VAL E:43 , MET E:56BINDING SITE FOR RESIDUE SO4 E 1105
07AC7SOFTWAREGLY E:77 , ASN E:79 , GLU F:78 , LEU G:23 , LEU G:25 , GLU G:28 , IMD G:1016BINDING SITE FOR RESIDUE IMD E 1000
08AC8SOFTWARELYS E:82 , MET E:83 , HOH E:2127 , ILE F:33 , ASN F:35 , ILE F:81BINDING SITE FOR RESIDUE IMD E 1001
09AC9SOFTWARELEU E:23 , LEU E:25 , GLU E:28 , GLN G:73 , GLY G:77 , ASN G:79 , GLU H:78BINDING SITE FOR RESIDUE IMD E 1002
10BC1SOFTWARESER F:21 , LEU F:42 , GLN H:73 , ASP H:74 , SER H:75 , GLY H:77 , HOH H:2200 , HOH H:2392BINDING SITE FOR RESIDUE IMD F 1003
11BC2SOFTWAREGLN B:73 , ASP B:74 , SER B:75 , HOH B:2042 , SER D:21 , LEU D:42 , SO4 D:1104 , HOH D:2383BINDING SITE FOR RESIDUE IMD D 1004
12BC3SOFTWAREILE C:33 , ILE D:72 , GLU D:78 , LYS D:80 , HOH D:2260BINDING SITE FOR RESIDUE IMD D 1005
13BC4SOFTWARELEU A:23 , GLU A:28 , GLY C:77 , ASN C:79 , GLU D:78BINDING SITE FOR RESIDUE IMD C 1006
14BC5SOFTWAREILE A:33 , ILE B:72 , ASP B:74 , GLU B:78 , LYS B:80 , HOH B:2267 , HOH B:2326BINDING SITE FOR RESIDUE IMD B 1007
15BC6SOFTWAREGLY A:77 , ASN A:79 , GLU B:78 , LEU C:25 , GLU C:28BINDING SITE FOR RESIDUE IMD B 1008
16BC7SOFTWAREGLN A:73 , ASP A:74 , SER A:75 , GLY A:77 , SER C:21 , LEU C:42BINDING SITE FOR RESIDUE IMD C 1009
17BC8SOFTWARESER B:21 , GLN D:73 , ASP D:74 , SER D:75BINDING SITE FOR RESIDUE IMD D 1010
18BC9SOFTWAREGLN F:73 , GLY F:77 , SER H:21 , LEU H:42BINDING SITE FOR RESIDUE IMD H 1011
19CC1SOFTWAREILE G:33 , GLU H:53 , ILE H:72 , GLU H:78 , LYS H:80BINDING SITE FOR RESIDUE IMD H 1012
20CC2SOFTWARESER E:21 , LEU E:42 , HOH E:2086 , GLN G:73 , SER G:75BINDING SITE FOR RESIDUE IMD E 1013
21CC3SOFTWAREILE E:33 , ILE F:72 , ASP F:74 , GLU F:78 , LYS F:80BINDING SITE FOR RESIDUE IMD F 1014
22CC4SOFTWARELYS C:82 , MET C:83 , HOH C:2225 , ASN D:35 , ILE D:81BINDING SITE FOR RESIDUE IMD C 1015
23CC5SOFTWAREGLN E:73 , ASN E:79 , IMD E:1000 , LEU G:23 , MET G:24 , GLU G:28BINDING SITE FOR RESIDUE IMD G 1016
24CC6SOFTWAREHOH A:2212BINDING SITE FOR RESIDUE IMD C 1017

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (8, 8)

Asymmetric Unit
No.Residues
1Ala A:62 -Pro A:63
2Ala B:62 -Pro B:63
3Ala C:62 -Pro C:63
4Ala D:62 -Pro D:63
5Ala E:62 -Pro E:63
6Ala F:62 -Pro F:63
7Ala G:62 -Pro G:63
8Ala H:62 -Pro H:63

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1UGI)

(-) 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:83
 aligned with UNGI_BPPB2 | P14739 from UniProtKB/Swiss-Prot  Length:84

    Alignment length:83
                                    11        21        31        41        51        61        71        81   
            UNGI_BPPB2    2 TNLSDIIEKETGKQLVIQESILMLPEEVEEVIGNKPESDILVHTAYDESTDENVMLLTSDAPEYKPWALVIQDSNGENKIKML 84
               SCOP domains d1ugia_ A: Uracil-DNA glycosylase inhibitor protein                                 SCOP domains
               CATH domains 1ugiA00 A:2-84  [code=3.10.450.20, no name defined]                                 CATH domains
               Pfam domains ----------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhh.........eee.hhhhhhhh.......eeeeeeee....eeeeeeee......eeeeeee.....eeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------- Transcript
                  1ugi A  2 TNLSDIIEKETGKQLVIQESILMLPEEVEEVIGNKPESDILVHTAYDESTDENVMLLTSDAPEYKPWALVIQDSNGENKIKML 84
                                    11        21        31        41        51        61        71        81   


Chain B from PDB  Type:PROTEIN  Length:83
 aligned with UNGI_BPPB2 | P14739 from UniProtKB/Swiss-Prot  Length:84

    Alignment length:83
                                    11        21        31        41        51        61        71        81   
            UNGI_BPPB2    2 TNLSDIIEKETGKQLVIQESILMLPEEVEEVIGNKPESDILVHTAYDESTDENVMLLTSDAPEYKPWALVIQDSNGENKIKML 84
               SCOP domains d1ugib_ B: Uracil-DNA glycosylase inhibitor protein                                 SCOP domains
               CATH domains 1ugiB00 B:2-84  [code=3.10.450.20, no name defined]                                 CATH domains
               Pfam domains ----------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhh.........eee.hhhhhhhh.......eeeeeeee....eeeeeeee......eeeeeee.....eeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------- Transcript
                  1ugi B  2 TNLSDIIEKETGKQLVIQESILMLPEEVEEVIGNKPESDILVHTAYDESTDENVMLLTSDAPEYKPWALVIQDSNGENKIKML 84
                                    11        21        31        41        51        61        71        81   


Chain C from PDB  Type:PROTEIN  Length:83
 aligned with UNGI_BPPB2 | P14739 from UniProtKB/Swiss-Prot  Length:84

    Alignment length:83
                                    11        21        31        41        51        61        71        81   
            UNGI_BPPB2    2 TNLSDIIEKETGKQLVIQESILMLPEEVEEVIGNKPESDILVHTAYDESTDENVMLLTSDAPEYKPWALVIQDSNGENKIKML 84
               SCOP domains d1ugic_ C: Uracil-DNA glycosylase inhibitor protein                                 SCOP domains
               CATH domains 1ugiC00 C:2-84  [code=3.10.450.20, no name defined]                                 CATH domains
               Pfam domains ----------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhh.........eee.hhhhhhhh.......eeeeeeee....eeeeeeee......eeeeeee.....eeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------- Transcript
                  1ugi C  2 TNLSDIIEKETGKQLVIQESILMLPEEVEEVIGNKPESDILVHTAYDESTDENVMLLTSDAPEYKPWALVIQDSNGENKIKML 84
                                    11        21        31        41        51        61        71        81   


Chain D from PDB  Type:PROTEIN  Length:82
 aligned with UNGI_BPPB2 | P14739 from UniProtKB/Swiss-Prot  Length:84

    Alignment length:82
                                    12        22        32        42        52        62        72        82  
            UNGI_BPPB2    3 NLSDIIEKETGKQLVIQESILMLPEEVEEVIGNKPESDILVHTAYDESTDENVMLLTSDAPEYKPWALVIQDSNGENKIKML 84
               SCOP domains d1ugid_ D: Uracil-DNA glycosylase inhibitor protein                                SCOP domains
               CATH domains 1ugiD00 D:3-84  [code=3.10.450.20, no name defined]                                CATH domains
               Pfam domains ---------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhh.........eee.hhhhhhhh.......eeeeeeee....eeeeeeee......eeeeeee.....eeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------- Transcript
                  1ugi D  3 NLSDIIEKETGKQLVIQESILMLPEEVEEVIGNKPESDILVHTAYDESTDENVMLLTSDAPEYKPWALVIQDSNGENKIKML 84
                                    12        22        32        42        52        62        72        82  


Chain E from PDB  Type:PROTEIN  Length:83
 aligned with UNGI_BPPB2 | P14739 from UniProtKB/Swiss-Prot  Length:84

    Alignment length:83
                                    11        21        31        41        51        61        71        81   
            UNGI_BPPB2    2 TNLSDIIEKETGKQLVIQESILMLPEEVEEVIGNKPESDILVHTAYDESTDENVMLLTSDAPEYKPWALVIQDSNGENKIKML 84
               SCOP domains d1ugie_ E: Uracil-DNA glycosylase inhibitor protein                                 SCOP domains
               CATH domains 1ugiE00 E:2-84  [code=3.10.450.20, no name defined]                                 CATH domains
               Pfam domains ----------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhh.........eee.hhhhhhhh.......eeeeeeeehhh.eeeeeeee......eeeeeee.....eeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------- Transcript
                  1ugi E  2 TNLSDIIEKETGKQLVIQESILMLPEEVEEVIGNKPESDILVHTAYDESTDENVMLLTSDAPEYKPWALVIQDSNGENKIKML 84
                                    11        21        31        41        51        61        71        81   


Chain F from PDB  Type:PROTEIN  Length:83
 aligned with UNGI_BPPB2 | P14739 from UniProtKB/Swiss-Prot  Length:84

    Alignment length:83
                                    11        21        31        41        51        61        71        81   
            UNGI_BPPB2    2 TNLSDIIEKETGKQLVIQESILMLPEEVEEVIGNKPESDILVHTAYDESTDENVMLLTSDAPEYKPWALVIQDSNGENKIKML 84
               SCOP domains d1ugif_ F: Uracil-DNA glycosylase inhibitor protein                                 SCOP domains
               CATH domains 1ugiF00 F:2-84  [code=3.10.450.20, no name defined]                                 CATH domains
               Pfam domains ----------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhh.........eee.hhhhhhhh.......eeeeeeee....eeeeeeee......eeeeeee.....eeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------- Transcript
                  1ugi F  2 TNLSDIIEKETGKQLVIQESILMLPEEVEEVIGNKPESDILVHTAYDESTDENVMLLTSDAPEYKPWALVIQDSNGENKIKML 84
                                    11        21        31        41        51        61        71        81   


Chain G from PDB  Type:PROTEIN  Length:83
 aligned with UNGI_BPPB2 | P14739 from UniProtKB/Swiss-Prot  Length:84

    Alignment length:83
                                    11        21        31        41        51        61        71        81   
            UNGI_BPPB2    2 TNLSDIIEKETGKQLVIQESILMLPEEVEEVIGNKPESDILVHTAYDESTDENVMLLTSDAPEYKPWALVIQDSNGENKIKML 84
               SCOP domains d1ugig_ G: Uracil-DNA glycosylase inhibitor protein                                 SCOP domains
               CATH domains 1ugiG00 G:2-84  [code=3.10.450.20, no name defined]                                 CATH domains
               Pfam domains ----------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhh.........eee.hhhhhhhh.......eeeeeeee....eeeeeeee......eeeeeee.....eeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------- Transcript
                  1ugi G  2 TNLSDIIEKETGKQLVIQESILMLPEEVEEVIGNKPESDILVHTAYDESTDENVMLLTSDAPEYKPWALVIQDSNGENKIKML 84
                                    11        21        31        41        51        61        71        81   


Chain H from PDB  Type:PROTEIN  Length:83
 aligned with UNGI_BPPB2 | P14739 from UniProtKB/Swiss-Prot  Length:84

    Alignment length:83
                                    11        21        31        41        51        61        71        81   
            UNGI_BPPB2    2 TNLSDIIEKETGKQLVIQESILMLPEEVEEVIGNKPESDILVHTAYDESTDENVMLLTSDAPEYKPWALVIQDSNGENKIKML 84
               SCOP domains d1ugih_ H: Uracil-DNA glycosylase inhibitor protein                                 SCOP domains
               CATH domains 1ugiH00 H:2-84  [code=3.10.450.20, no name defined]                                 CATH domains
               Pfam domains ----------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhh.........eee.hhhhhhhh.......eeeeeeee....eeeeeeee......eeeeeee.....eeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------- Transcript
                  1ugi H  2 TNLSDIIEKETGKQLVIQESILMLPEEVEEVIGNKPESDILVHTAYDESTDENVMLLTSDAPEYKPWALVIQDSNGENKIKML 84
                                    11        21        31        41        51        61        71        81
   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, 8)

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

(-) CATH Domains  (1, 8)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F,G,H   (UNGI_BPPB2 | P14739)
molecular function
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).

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  Cis Peptide Bonds
    Ala A:62 - Pro A:63   [ RasMol ]  
    Ala B:62 - Pro B:63   [ RasMol ]  
    Ala C:62 - Pro C:63   [ RasMol ]  
    Ala D:62 - Pro D:63   [ RasMol ]  
    Ala E:62 - Pro E:63   [ RasMol ]  
    Ala F:62 - Pro F:63   [ RasMol ]  
    Ala G:62 - Pro G:63   [ RasMol ]  
    Ala H:62 - Pro H:63   [ RasMol ]  
 
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  1ugi
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  UNGI_BPPB2 | P14739
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 Related Entries

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

UniProtKB/Swiss-Prot
        UNGI_BPPB2 | P14739: 1eui 1lqg 1lqm 1udi 1ugh 1uug 2j8x 2ugi 2uug 2zhx 4lyl

(-) Related Entries Specified in the PDB File

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