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(-) Description

Title :  CRYSTAL STRUCTURE OF THIT WITH SMALL MOLECULE BAT-25
 
Authors :  L. J. Y. M. Swier, A. Guskov, D. J. Slotboom
Date :  30 Aug 13  (Deposition) - 03 Sep 14  (Release) - 03 Sep 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  S-Component, Ecf Transporter, Abc Transporter, Substrate Binding Domain For Thiamin, Transport Protein, 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
Crystal Structure Of Thit With Small Molecules Modulators
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 SUBSP. CREMORIS
    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  (8, 36)

Asymmetric Unit (8, 36)
No.NameCountTypeFull Name
10YN2Ligand/Ion2-{4-[(4-AMINO-2-METHYLPYRIMIDIN-5-YL)METHYL]-3-METHYLTHIOPHEN-2-YL}ETHANOL
21PE2Ligand/IonPENTAETHYLENE GLYCOL
3BNG3Ligand/IonB-NONYLGLUCOSIDE
4P6G2Ligand/IonHEXAETHYLENE GLYCOL
5PE41Ligand/Ion2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL
6PEG16Ligand/IonDI(HYDROXYETHYL)ETHER
7PG05Ligand/Ion2-(2-METHOXYETHOXY)ETHANOL
8PG45Ligand/IonTETRAETHYLENE GLYCOL
Biological Unit 1 (8, 16)
No.NameCountTypeFull Name
10YN1Ligand/Ion2-{4-[(4-AMINO-2-METHYLPYRIMIDIN-5-YL)METHYL]-3-METHYLTHIOPHEN-2-YL}ETHANOL
21PE1Ligand/IonPENTAETHYLENE GLYCOL
3BNG1Ligand/IonB-NONYLGLUCOSIDE
4P6G2Ligand/IonHEXAETHYLENE GLYCOL
5PE41Ligand/Ion2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL
6PEG6Ligand/IonDI(HYDROXYETHYL)ETHER
7PG01Ligand/Ion2-(2-METHOXYETHOXY)ETHANOL
8PG43Ligand/IonTETRAETHYLENE GLYCOL
Biological Unit 2 (6, 20)
No.NameCountTypeFull Name
10YN1Ligand/Ion2-{4-[(4-AMINO-2-METHYLPYRIMIDIN-5-YL)METHYL]-3-METHYLTHIOPHEN-2-YL}ETHANOL
21PE1Ligand/IonPENTAETHYLENE GLYCOL
3BNG2Ligand/IonB-NONYLGLUCOSIDE
4P6G-1Ligand/IonHEXAETHYLENE GLYCOL
5PE4-1Ligand/Ion2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL
6PEG10Ligand/IonDI(HYDROXYETHYL)ETHER
7PG04Ligand/Ion2-(2-METHOXYETHOXY)ETHANOL
8PG42Ligand/IonTETRAETHYLENE GLYCOL

(-) Sites  (34, 34)

Asymmetric Unit (34, 34)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETRP A:34 , ILE A:36 , GLU A:38 , GLU A:84 , TYR A:85 , HIS A:125 , ALA A:128 , GLY A:129 , TRP A:133 , TYR A:146 , ASN A:151 , HOH A:309 , HOH A:320BINDING SITE FOR RESIDUE 0YN A 201
02AC2SOFTWAREILE A:153 , LEU B:112 , BNG B:202 , PEG B:206BINDING SITE FOR RESIDUE BNG A 202
03AC3SOFTWAREILE A:94 , LEU A:97 , PHE A:98 , VAL A:116 , LEU A:119 , PHE A:123 , 1PE B:204BINDING SITE FOR RESIDUE P6G A 203
04AC4SOFTWARELEU A:148 , GLY A:152 , ILE A:153 , ILE A:156 , PEG B:209 , PG4 B:220BINDING SITE FOR RESIDUE P6G A 204
05AC5SOFTWAREPRO A:28 , THR A:30 , PG4 A:216 , PEG B:210BINDING SITE FOR RESIDUE 1PE A 205
06AC6SOFTWARETYR A:122 , LEU A:148 , ASN A:151 , GLY A:152 , PEG B:209BINDING SITE FOR RESIDUE PEG A 206
07AC7SOFTWARELEU A:57 , VAL A:90 , SER A:91BINDING SITE FOR RESIDUE PEG A 207
08AC8SOFTWARELEU A:57 , LEU A:61 , VAL A:90BINDING SITE FOR RESIDUE PEG A 208
09AC9SOFTWAREASN A:7BINDING SITE FOR RESIDUE PEG A 209
10BC1SOFTWAREILE A:167BINDING SITE FOR RESIDUE PEG A 210
11BC2SOFTWARELEU A:157 , ILE A:160 , PG4 A:216 , PEG B:206 , PEG B:210BINDING SITE FOR RESIDUE PEG A 211
12BC3SOFTWAREALA A:15 , PHE A:22BINDING SITE FOR RESIDUE PE4 A 212
13BC4SOFTWARELEU A:10 , LEU A:11BINDING SITE FOR RESIDUE PG0 A 213
14BC5SOFTWAREILE A:75 , LEU A:76 , LEU A:78 , PG4 A:215BINDING SITE FOR RESIDUE PG4 A 214
15BC6SOFTWAREMET A:68 , PG4 A:214BINDING SITE FOR RESIDUE PG4 A 215
16BC7SOFTWAREPRO A:28 , ASN A:29 , THR A:30 , VAL A:31 , VAL A:37 , 1PE A:205 , PEG A:211BINDING SITE FOR RESIDUE PG4 A 216
17BC8SOFTWARETRP B:34 , GLU B:38 , GLU B:84 , TYR B:85 , HIS B:125 , GLY B:129 , TRP B:133 , TYR B:146 , ASN B:151 , HOH B:302 , HOH B:303 , HOH B:307BINDING SITE FOR RESIDUE 0YN B 201
18BC9SOFTWAREBNG A:202 , LEU B:97 , PHE B:98 , ARG B:99 , PRO B:109BINDING SITE FOR RESIDUE BNG B 202
19CC1SOFTWAREALA B:15BINDING SITE FOR RESIDUE BNG B 203
20CC2SOFTWARELEU A:119 , P6G A:203 , TRP B:141 , ALA B:145BINDING SITE FOR RESIDUE 1PE B 204
21CC3SOFTWAREILE B:75 , LEU B:78 , LEU B:86 , PG4 B:219BINDING SITE FOR RESIDUE PEG B 205
22CC4SOFTWAREBNG A:202 , PEG A:211BINDING SITE FOR RESIDUE PEG B 206
23CC5SOFTWAREALA A:108 , TYR B:32 , TRP B:138BINDING SITE FOR RESIDUE PEG B 207
24CC6SOFTWAREPG4 B:219BINDING SITE FOR RESIDUE PEG B 208
25CC7SOFTWAREP6G A:204 , PEG A:206 , PG4 B:220BINDING SITE FOR RESIDUE PEG B 209
26CC8SOFTWARE1PE A:205 , PEG A:211BINDING SITE FOR RESIDUE PEG B 210
27CC9SOFTWAREILE B:39 , ILE B:42BINDING SITE FOR RESIDUE PEG B 211
28DC1SOFTWARELEU B:157 , ILE B:160BINDING SITE FOR RESIDUE PEG B 212
29DC2SOFTWAREARG B:99 , PEG B:214BINDING SITE FOR RESIDUE PEG B 213
30DC3SOFTWARELEU B:11 , PEG B:213BINDING SITE FOR RESIDUE PEG B 214
31DC4SOFTWAREVAL B:87 , SER B:91BINDING SITE FOR RESIDUE PG0 B 215
32DC5SOFTWAREASN B:29 , THR B:30 , GLY B:33 , TRP B:34 , ILE B:36BINDING SITE FOR RESIDUE PG0 B 216
33DC6SOFTWAREMET B:68 , ILE B:69 , PEG B:205 , PEG B:208BINDING SITE FOR RESIDUE PG4 B 219
34DC7SOFTWAREP6G A:204 , LEU B:119 , GLY B:152 , GLY B:155 , PEG B:209BINDING SITE FOR RESIDUE PG4 B 220

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Ala A:103 -Pro A:104
2Ala B:103 -Pro B:104

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4MHW)

(-) 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:177
                                                                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhh....eee..ee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mhw A   6 FNVRLLTEIAFMAALAFIISLIPNTVYGWIIVEIACIPILLLSLRRGLTAGLVGGLIWGILSMITGHAYILSLSQAFLEYLVAPVSLGIAGLFRQKTAPLKLAPVLLGTFVAVLLKYFFHFIAGIIFWSQYAWKGWGAVAYSLAVNGISGILTAIAAFVILIIFVKKFPKLFIHSNY 182
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       


Chain B from PDB  Type:PROTEIN  Length:176
                                                                                                                                                                                                                
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhh....eee..ee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mhw B   7 NVRLLTEIAFMAALAFIISLIPNTVYGWIIVEIACIPILLLSLRRGLTAGLVGGLIWGILSMITGHAYILSLSQAFLEYLVAPVSLGIAGLFRQKTAPLKLAPVLLGTFVAVLLKYFFHFIAGIIFWSQYAWKGWGAVAYSLAVNGISGILTAIAAFVILIIFVKKFPKLFIHSNY 182
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176
   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  (0, 0)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

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    (no "Gene Ontology" information available for 4MHW)

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  4mhw
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3rlb STRUCTURE OF THIT WITH NATIVE SUBSTRATE BOUND