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(-) Description

Title :  STRUCTURE OF THIT WITH PYRITHIAMINE BOUND
 
Authors :  L. J. Y. M. Swier, A. Guskov, D. J. Slotboom
Date :  23 Sep 13  (Deposition) - 17 Sep 14  (Release) - 17 Sep 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  S-Component, Ecf Transporter, Abc Transporter, Thiamine Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. J. Y. M. Swier, L. Gomez, A. Guskov, A. K. H. Hirsch, D. J. Slotboom
Structural Studies On The Thiamin Binding Protein Thit
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - THIAMINE TRANSPORTER THIT
    Chains: A, B
    Engineered: YES
    Expression System: LACTOCOCCUS LACTIS
    Expression System Strain: NZ9000
    Expression System Taxid: 746361
    Gene: LLNZ_01755
    Organism Scientific: LACTOCOCCUS LACTIS
    Organism Taxid: 746361
    Strain: NZ9000
    Synonym: THIAMINE ECF TRANSPORTER S COMPONENT THIT

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (9, 41)

Asymmetric Unit (9, 41)
No.NameCountTypeFull Name
11PE1Ligand/IonPENTAETHYLENE GLYCOL
22182Ligand/Ion1-[(4-AMINO-2-METHYLPYRIMIDIN-5-YL)METHYL]-3-(2-HYDROXYETHYL)-2-METHYLPYRIDINIUM
3BNG3Ligand/IonB-NONYLGLUCOSIDE
4P6G4Ligand/IonHEXAETHYLENE GLYCOL
5PE51Ligand/Ion3,6,9,12,15,18,21,24-OCTAOXAHEXACOSAN-1-OL
6PEG10Ligand/IonDI(HYDROXYETHYL)ETHER
7PG08Ligand/Ion2-(2-METHOXYETHOXY)ETHANOL
8PG49Ligand/IonTETRAETHYLENE GLYCOL
9PGE3Ligand/IonTRIETHYLENE GLYCOL
Biological Unit 1 (7, 22)
No.NameCountTypeFull Name
11PE1Ligand/IonPENTAETHYLENE GLYCOL
22181Ligand/Ion1-[(4-AMINO-2-METHYLPYRIMIDIN-5-YL)METHYL]-3-(2-HYDROXYETHYL)-2-METHYLPYRIDINIUM
3BNG1Ligand/IonB-NONYLGLUCOSIDE
4P6G-1Ligand/IonHEXAETHYLENE GLYCOL
5PE5-1Ligand/Ion3,6,9,12,15,18,21,24-OCTAOXAHEXACOSAN-1-OL
6PEG7Ligand/IonDI(HYDROXYETHYL)ETHER
7PG06Ligand/Ion2-(2-METHOXYETHOXY)ETHANOL
8PG45Ligand/IonTETRAETHYLENE GLYCOL
9PGE1Ligand/IonTRIETHYLENE GLYCOL
Biological Unit 2 (8, 19)
No.NameCountTypeFull Name
11PE-1Ligand/IonPENTAETHYLENE GLYCOL
22181Ligand/Ion1-[(4-AMINO-2-METHYLPYRIMIDIN-5-YL)METHYL]-3-(2-HYDROXYETHYL)-2-METHYLPYRIDINIUM
3BNG2Ligand/IonB-NONYLGLUCOSIDE
4P6G4Ligand/IonHEXAETHYLENE GLYCOL
5PE51Ligand/Ion3,6,9,12,15,18,21,24-OCTAOXAHEXACOSAN-1-OL
6PEG3Ligand/IonDI(HYDROXYETHYL)ETHER
7PG02Ligand/Ion2-(2-METHOXYETHOXY)ETHANOL
8PG44Ligand/IonTETRAETHYLENE GLYCOL
9PGE2Ligand/IonTRIETHYLENE GLYCOL

(-) Sites  (41, 41)

Asymmetric Unit (41, 41)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETRP A:44 , ILE A:46 , GLU A:48 , GLU A:94 , TYR A:95 , HIS A:135 , GLY A:139 , TRP A:143 , TYR A:156 , ASN A:161 , 1PE A:221 , HOH A:320BINDING SITE FOR RESIDUE 218 A 201
02AC2SOFTWAREALA A:25 , ALA A:29 , ILE A:75 , LEU A:76 , ILE A:79 , PG4 A:218BINDING SITE FOR RESIDUE BNG A 202
03AC3SOFTWAREPHE A:108 , ALA A:118 , LEU A:122 , PG4 A:220 , TRP B:148BINDING SITE FOR RESIDUE PEG A 203
04AC4SOFTWARELEU A:88 , LEU A:96 , PEG A:205BINDING SITE FOR RESIDUE PEG A 204
05AC5SOFTWARELEU A:86 , SER A:87 , PEG A:204BINDING SITE FOR RESIDUE PEG A 205
06AC6SOFTWARETRP A:148 , ILE A:163 , PEG A:207 , PEG B:204BINDING SITE FOR RESIDUE PEG A 206
07AC7SOFTWAREILE A:163 , PEG A:206 , PG4 A:216 , LEU B:122 , PEG B:204BINDING SITE FOR RESIDUE PEG A 207
08AC8SOFTWAREVAL A:174 , ILE A:177 , ILE B:170BINDING SITE FOR RESIDUE PEG A 208
09AC9SOFTWARELYS A:181 , LEU B:167 , ILE B:170BINDING SITE FOR RESIDUE PEG A 209
10BC1SOFTWAREPRO A:38 , THR A:40 , VAL A:47 , ILE A:49BINDING SITE FOR RESIDUE PG0 A 210
11BC2SOFTWAREPG4 A:218BINDING SITE FOR RESIDUE PG0 A 211
12BC3SOFTWARELEU A:129 , LEU A:130 , P6G B:210BINDING SITE FOR RESIDUE PG0 A 212
13BC4SOFTWARELEU A:129 , BNG B:203BINDING SITE FOR RESIDUE PG0 A 213
14BC5SOFTWARELEU A:20 , HOH A:346BINDING SITE FOR RESIDUE PG0 A 214
15BC6SOFTWAREILE A:170 , PHE B:173 , ILE B:177BINDING SITE FOR RESIDUE PG0 A 215
16BC7SOFTWAREVAL A:41 , PEG A:207 , LEU B:122 , PGE B:219BINDING SITE FOR RESIDUE PG4 A 216
17BC8SOFTWAREGLY A:150 , TRP A:151 , GLY A:152 , ALA A:155BINDING SITE FOR RESIDUE PG4 A 217
18BC9SOFTWAREPHE A:32 , MET A:78 , ILE A:79 , THR A:80 , GLY A:81 , BNG A:202 , PG0 A:211BINDING SITE FOR RESIDUE PG4 A 218
19CC1SOFTWARELEU A:30 , ILE A:34BINDING SITE FOR RESIDUE PG4 A 219
20CC2SOFTWARELEU A:107 , PHE A:108 , ARG A:109 , GLN A:110 , PEG A:203 , HOH A:309 , P6G B:210BINDING SITE FOR RESIDUE PG4 A 220
21CC3SOFTWARESER A:35 , ASN A:39 , THR A:40 , GLY A:43 , TRP A:44 , ILE A:46 , GLU A:48 , ALA A:50 , TYR A:84 , 218 A:201 , PGE A:222 , HOH A:317 , HOH A:330 , HOH A:335BINDING SITE FOR RESIDUE 1PE A 221
22CC4SOFTWARETHR A:40 , GLY A:43 , 1PE A:221BINDING SITE FOR RESIDUE PGE A 222
23CC5SOFTWARETRP B:44 , ILE B:46 , GLU B:48 , GLU B:94 , TYR B:95 , HIS B:135 , GLY B:139 , TRP B:143 , TYR B:156 , ASN B:161 , P6G B:208 , HOH B:312BINDING SITE FOR RESIDUE 218 B 201
24CC6SOFTWAREILE B:104 , LEU B:107 , PHE B:108 , ARG B:109 , PRO B:119 , VAL B:126 , PGE B:219 , HOH B:331BINDING SITE FOR RESIDUE BNG B 202
25CC7SOFTWARELEU A:158 , GLY A:162 , ILE A:166 , PG0 A:213 , LEU B:129 , PHE B:133BINDING SITE FOR RESIDUE BNG B 203
26CC8SOFTWAREPEG A:206 , PEG A:207 , VAL B:126BINDING SITE FOR RESIDUE PEG B 204
27CC9SOFTWARETYR B:42 , GLY B:43 , TYR B:146 , TRP B:148 , TYR B:156 , P6G B:208 , HOH B:342BINDING SITE FOR RESIDUE PEG B 205
28DC1SOFTWAREALA B:113 , PRO B:114 , LEU B:115 , ALA B:147 , TRP B:148 , GLY B:150 , TRP B:151 , HOH B:311BINDING SITE FOR RESIDUE PEG B 206
29DC2SOFTWAREMET B:27 , LEU B:30 , ILE B:34 , ILE B:52 , LEU B:56 , PHE B:179 , PG4 B:213BINDING SITE FOR RESIDUE P6G B 207
30DC3SOFTWAREASN B:39 , THR B:40 , GLY B:43 , TRP B:44 , ILE B:46 , TRP B:143 , TYR B:146 , 218 B:201 , PEG B:205 , P6G B:209 , HOH B:312BINDING SITE FOR RESIDUE P6G B 208
31DC4SOFTWARETHR B:40 , GLY B:81 , ALA B:83 , TYR B:84 , P6G B:208 , HOH B:318 , HOH B:320BINDING SITE FOR RESIDUE P6G B 209
32DC5SOFTWAREPG0 A:212 , PG4 A:220 , GLY B:150 , TRP B:151 , VAL B:154 , ALA B:155BINDING SITE FOR RESIDUE P6G B 210
33DC6SOFTWARELEU B:88 , ALA B:91 , PGE B:218BINDING SITE FOR RESIDUE PG0 B 211
34DC7SOFTWAREPHE B:16 , ARG B:19 , GLU B:23 , HIS B:189 , SER B:190 , ASN B:191 , HOH B:316BINDING SITE FOR RESIDUE PG0 B 212
35DC8SOFTWARETHR B:40 , VAL B:47 , P6G B:207BINDING SITE FOR RESIDUE PG4 B 213
36DC9SOFTWARELEU B:20 , ARG B:61 , VAL B:68 , ARG B:109 , PE5 B:217 , HOH B:327BINDING SITE FOR RESIDUE PG4 B 214
37EC1SOFTWARELYS B:116 , LEU B:117 , ALA B:118 , LYS B:149 , VAL B:180BINDING SITE FOR RESIDUE PG4 B 215
38EC2SOFTWARELEU A:115 , LYS A:116 , HOH A:308 , THR B:40 , VAL B:41 , TYR B:42 , GLY B:43 , HOH B:343BINDING SITE FOR RESIDUE PG4 B 216
39EC3SOFTWAREALA B:25 , ALA B:29 , LEU B:76 , PG4 B:214 , HOH B:352BINDING SITE FOR RESIDUE PE5 B 217
40EC4SOFTWAREPG0 B:211BINDING SITE FOR RESIDUE PGE B 218
41EC5SOFTWAREPG4 A:216 , PHE B:108 , PRO B:119 , LEU B:122 , BNG B:202BINDING SITE FOR RESIDUE PGE B 219

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4MUU)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Ala A:113 -Pro A:114
2Ala B:113 -Pro B:114

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4MUU)

(-) 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:178
                                                                                                                                                                                                                  
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhh....eee..ee...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4muu A  15 KFNVRLLTEIAFMAALAFIISLIPNTVYGWIIVEIACIPILLLSLRRGLTAGLVGGLIWGILSMITGHAYILSLSQAFLEYLVAPVSLGIAGLFRQKTAPLKLAPVLLGTFVAVLLKYFFHFIAGIIFWSQYAWKGWGAVAYSLAVNGISGILTAIAAFVILIIFVKKFPKLFIHSNY 192
                                    24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184        


Chain B from PDB  Type:PROTEIN  Length:177
                                                                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhh...eee..ee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4muu B  16 FNVRLLTEIAFMAALAFIISLIPNTVYGWIIVEIACIPILLLSLRRGLTAGLVGGLIWGILSMITGHAYILSLSQAFLEYLVAPVSLGIAGLFRQKTAPLKLAPVLLGTFVAVLLKYFFHFIAGIIFWSQYAWKGWGAVAYSLAVNGISGILTAIAAFVILIIFVKKFPKLFIHSNY 192
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185
   Legend:   → Mismatch (orange background)
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  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  (0, 0)

(no "SCOP Domain" information available for 4MUU)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4MUU)

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3rlb STRUCTURE OF THIT WITH NATIVE SUBSTRATE BOUND