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(-) Description

Title :  CRYSTAL STRUCTURE OF THIOL-DISULFIDE OXIDOREDUCTASE FROM BACILLUS STR. 'AMES ANCESTOR'
 
Authors :  Y. Kim, M. Zhou, S. Shatsman, W. F. Anderson, A. Joachimiak, Center For Structural Genomics Of Infectious Diseases (Csgid)
Date :  15 Nov 13  (Deposition) - 18 Dec 13  (Release) - 18 Dec 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.35
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Keywords :  Structural Genomics, Niaid, National Institute Of Allergy And Infectious Diseases, Center For Structural Genomics Of Infectious Diseases, Csgid, Alpha-Beta Structure, Alpha-Beta-Alpha Sandwich, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Kim, M. Zhou, S. Shatsman, W. F. Anderson, A. Joachimiak, Center For Structural Genomics Of Infectious Diseases (Csgid)
Crystal Structure Of Thiol-Disulfide Oxidoreductase From Bacillus Str. 'Ames Ancestor'
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - THIOL-DISULFIDE OXIDOREDUCTASE RESA
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG53
    Expression System Strain: BL21(DE3) GOLD
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: BAS1383, BA_1494, GBAA_1494, RESA
    Organism Common: ANTHRAX,ANTHRAX BACTERIUM
    Organism Scientific: BACILLUS ANTHRACIS
    Organism Taxid: 1392
    Strain: AMES ANCESTOR

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A   
Biological Unit 2 (1x):  B  
Biological Unit 3 (1x):   C 
Biological Unit 4 (1x):    D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 36)

Asymmetric Unit (6, 36)
No.NameCountTypeFull Name
1ACY5Ligand/IonACETIC ACID
2EDO15Ligand/Ion1,2-ETHANEDIOL
3GOL2Ligand/IonGLYCEROL
4MG1Ligand/IonMAGNESIUM ION
5MSE12Mod. Amino AcidSELENOMETHIONINE
6PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
Biological Unit 1 (4, 8)
No.NameCountTypeFull Name
1ACY1Ligand/IonACETIC ACID
2EDO3Ligand/Ion1,2-ETHANEDIOL
3GOL1Ligand/IonGLYCEROL
4MG-1Ligand/IonMAGNESIUM ION
5MSE3Mod. Amino AcidSELENOMETHIONINE
6PEG-1Ligand/IonDI(HYDROXYETHYL)ETHER
Biological Unit 2 (3, 10)
No.NameCountTypeFull Name
1ACY3Ligand/IonACETIC ACID
2EDO4Ligand/Ion1,2-ETHANEDIOL
3GOL-1Ligand/IonGLYCEROL
4MG-1Ligand/IonMAGNESIUM ION
5MSE3Mod. Amino AcidSELENOMETHIONINE
6PEG-1Ligand/IonDI(HYDROXYETHYL)ETHER
Biological Unit 3 (3, 9)
No.NameCountTypeFull Name
1ACY-1Ligand/IonACETIC ACID
2EDO5Ligand/Ion1,2-ETHANEDIOL
3GOL1Ligand/IonGLYCEROL
4MG-1Ligand/IonMAGNESIUM ION
5MSE3Mod. Amino AcidSELENOMETHIONINE
6PEG-1Ligand/IonDI(HYDROXYETHYL)ETHER
Biological Unit 4 (4, 8)
No.NameCountTypeFull Name
1ACY1Ligand/IonACETIC ACID
2EDO3Ligand/Ion1,2-ETHANEDIOL
3GOL-1Ligand/IonGLYCEROL
4MG-1Ligand/IonMAGNESIUM ION
5MSE3Mod. Amino AcidSELENOMETHIONINE
6PEG1Ligand/IonDI(HYDROXYETHYL)ETHER

(-) Sites  (24, 24)

Asymmetric Unit (24, 24)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLU A:133 , GLU A:136 , HOH A:400BINDING SITE FOR RESIDUE ACY A 201
02AC2SOFTWAREVAL A:16 , VAL A:17 , THR A:18 , HOH A:319 , HOH A:343 , HOH A:362 , HOH A:382 , LYS D:90BINDING SITE FOR RESIDUE EDO A 202
03AC3SOFTWARELYS A:62 , LYS A:90 , HOH A:341 , HOH A:386 , HOH A:415BINDING SITE FOR RESIDUE EDO A 203
04AC4SOFTWARETHR A:42 , GLU A:48 , GLN A:86BINDING SITE FOR RESIDUE GOL A 204
05AC5SOFTWAREGLY A:106 , LYS B:33BINDING SITE FOR RESIDUE EDO A 205
06AC6SOFTWAREILE B:8 , GLU B:124 , GLN B:125BINDING SITE FOR RESIDUE ACY B 201
07AC7SOFTWARELYS B:118 , ASP B:119 , HOH B:348BINDING SITE FOR RESIDUE ACY B 202
08AC8SOFTWAREPRO A:109 , LYS B:62 , HOH B:387 , HOH B:427BINDING SITE FOR RESIDUE ACY B 203
09AC9SOFTWARELYS B:90 , HOH B:385 , VAL C:16 , LYS C:24BINDING SITE FOR RESIDUE EDO B 204
10BC1SOFTWAREGLU B:133 , GLY B:137 , LYS B:140BINDING SITE FOR RESIDUE EDO B 205
11BC2SOFTWAREASN B:14 , PHE B:15 , VAL B:16 , LYS B:100 , HOH B:419BINDING SITE FOR RESIDUE EDO B 206
12BC3SOFTWARELYS A:90 , HOH A:323 , GLN B:99 , VAL B:107 , GLY B:108 , LEU B:110BINDING SITE FOR RESIDUE EDO B 207
13BC4SOFTWAREHOH A:364 , LYS B:118 , PRO B:144 , HOH B:322 , HOH B:417 , TYR C:61 , LYS C:140 , THR C:143 , EDO C:202BINDING SITE FOR RESIDUE GOL C 201
14BC5SOFTWARELYS B:118 , THR B:143 , PRO B:144 , HOH B:325 , LYS C:60 , TYR C:61 , LYS C:64 , LYS C:140 , GOL C:201 , HOH C:301BINDING SITE FOR RESIDUE EDO C 202
15BC6SOFTWAREGLU C:21 , LYS C:90BINDING SITE FOR RESIDUE EDO C 203
16BC7SOFTWAREPRO C:59 , LYS C:90 , EDO C:205BINDING SITE FOR RESIDUE EDO C 204
17BC8SOFTWAREPRO C:59 , LYS C:62 , GLU C:63 , EDO C:204BINDING SITE FOR RESIDUE EDO C 205
18BC9SOFTWARELYS C:23 , HOH C:340BINDING SITE FOR RESIDUE EDO C 206
19CC1SOFTWARELYS D:45 , GLU D:48 , HOH D:312 , HOH D:317 , HOH D:335 , HOH D:449BINDING SITE FOR RESIDUE MG D 201
20CC2SOFTWARELYS D:132 , GLU D:133 , HOH D:384BINDING SITE FOR RESIDUE ACY D 202
21CC3SOFTWAREILE D:8 , GLN D:125 , ILE D:127BINDING SITE FOR RESIDUE PEG D 203
22CC4SOFTWAREGLU C:21 , HOH C:321 , HOH C:335 , HOH C:380 , GLN D:99 , HOH D:405BINDING SITE FOR RESIDUE EDO D 204
23CC5SOFTWAREVAL D:16 , GLU D:56 , LYS D:132 , HOH D:364BINDING SITE FOR RESIDUE EDO D 205
24CC6SOFTWAREPRO B:52 , HOH B:304 , HOH B:433 , THR D:76 , ILE D:78BINDING SITE FOR RESIDUE EDO D 206

(-) SS Bonds  (2, 2)

Asymmetric Unit
No.Residues
1A:44 -A:47
2B:44 -B:47

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Leu A:110 -Pro A:111
2Leu B:110 -Pro B:111
3Leu C:110 -Pro C:111
4Leu D:110 -Pro D:111

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4NMU)

(-) 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:147
                                                                                                                                                                                   
               SCOP domains d4nmua_ A: automated matches                                                                                                                        SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhh.....ee....eee.....eee.hhhh..eeeeeee...hhhhhhhhhhhhhhhhhhhhh.eeeeeee...hhhhhhhhhhhhh....eee...hhhhhhhh.....eeeee....eeeeeee...hhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nmu A  -2 SNAADKEKmQIGKEAPNFVVTDLEGKKIELKDLKGKGVFLNFWGTWCKPCEKEmPYmNELYPKYKEKGVEIIALDADETDIAVKNFVNQYGLKFPVAIDKGQKIIGTYGVGPLPTSFLIDKDGKVVEQIIGEQTKEQLEGYLKKITP 144
                                    |7        17        27        37        47   |  | 57        67        77        87        97       107       117       127       137       
                                    6-MSE                                       51-MSE                                                                                         
                                                                                   54-MSE                                                                                      


Chain B from PDB  Type:PROTEIN  Length:140
                                                                                                                                                                            
               SCOP domains d4nmub_ B: automated matches                                                                                                                 SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eee.....eee.hhhh..eeeeeee...hhhhhhhhhhhhhhhhhhhh..eeeeeee...hhhhhhhhhhhhh....eee...hhhhhhh......eeeee.....eeeeee...hhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nmu B   5 KmQIGKEAPNFVVTDLEGKKIELKDLKGKGVFLNFWGTWCKPCEKEmPYmNELYPKYKEKGVEIIALDADETDIAVKNFVNQYGLKFPVAIDKGQKIIGTYGVGPLPTSFLIDKDGKVVEQIIGEQTKEQLEGYLKKITP 144
                             |      14        24        34        44      | 54        64        74        84        94       104       114       124       134       144
                             6-MSE                                       51-MSE                                                                                         
                                                                            54-MSE                                                                                      


Chain C from PDB  Type:PROTEIN  Length:147
                                                                                                                                                                                   
               SCOP domains d4nmuc_ C: automated matches                                                                                                                        SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..................eee.....eee.hhhh..eeeeeee...hhhhhhhhhhhhhhhhhhhh..eeeeeee...hhhhhhhhhhhh.....eee...hhhhhhh......eeeee.....eeeeee...hhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nmu C  -2 SNAADKEKmQIGKEAPNFVVTDLEGKKIELKDLKGKGVFLNFWGTWCKPCEKEmPYmNELYPKYKEKGVEIIALDADETDIAVKNFVNQYGLKFPVAIDKGQKIIGTYGVGPLPTSFLIDKDGKVVEQIIGEQTKEQLEGYLKKITP 144
                                    |7        17        27        37        47   |  | 57        67        77        87        97       107       117       127       137       
                                    6-MSE                                       51-MSE                                                                                         
                                                                                   54-MSE                                                                                      


Chain D from PDB  Type:PROTEIN  Length:139
                                                                                                                                                                           
               SCOP domains d4nmud_ D: automated matches                                                                                                                SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eee.....eee.hhhh..eeeeeee...hhhhhhhhhhhhhhhhhhhh..eeeeeee...hhhhhhhhhhhhh....eee...hhhhhhh......eeeee.....eeeeee...hhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nmu D   6 mQIGKEAPNFVVTDLEGKKIELKDLKGKGVFLNFWGTWCKPCEKEmPYmNELYPKYKEKGVEIIALDADETDIAVKNFVNQYGLKFPVAIDKGQKIIGTYGVGPLPTSFLIDKDGKVVEQIIGEQTKEQLEGYLKKITP 144
                            |       15        25        35        45     |  55        65        75        85        95       105       115       125       135         
                            6-MSE                                       51-MSE                                                                                         
                                                                           54-MSE
   Legend:   → Mismatch (orange background)
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    → 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 Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4NMU)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (11, 11)

Asymmetric Unit(hide GO term definitions)

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