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(-) Description

Title :  CRYSTAL STRUCTURE OF A QUINONPROTEIN ALCOHOL DEHYDROGENASE-LIKE PROTEIN (BT1487) FROM BACTEROIDES THETAIOTAOMICRON VPI-5482 AT 2.64 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  21 Aug 14  (Deposition) - 10 Sep 14  (Release) - 10 Sep 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.64
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 :  Two Domain Protein, Immunoglobulin-Like Beta-Sandwich Fold, Pf16407 Family, Duf5015, 7-Bladed Beta-Propeller, Yvtn Repeat Family, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-Biology, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of A Quinonprotein Alcohol Dehydrogenase-Like Protein (Bt1487) From Bacteroides Thetaiotaomicron Vpi-5482 At 2. 64 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - QUINONPROTEIN ALCOHOL DEHYDROGENASE-LIKE PROTEIN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: SPEEDET
    Expression System Strain: PB1
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 23-448
    Gene: BT_1487
    Organism Scientific: BACTEROIDES THETAIOTAOMICRON VPI-5482
    Organism Taxid: 226186
    Strain: ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482

 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  (5, 31)

Asymmetric Unit (5, 31)
No.NameCountTypeFull Name
17PE12Ligand/Ion2-(2-(2-(2-(2-(2-ETHOXYETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHANOL
2ACT4Ligand/IonACETATE ION
3CA5Ligand/IonCALCIUM ION
4CL2Ligand/IonCHLORIDE ION
5MSE8Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (3, 7)
No.NameCountTypeFull Name
17PE3Ligand/Ion2-(2-(2-(2-(2-(2-ETHOXYETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHANOL
2ACT2Ligand/IonACETATE ION
3CA-1Ligand/IonCALCIUM ION
4CL-1Ligand/IonCHLORIDE ION
5MSE2Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (3, 9)
No.NameCountTypeFull Name
17PE5Ligand/Ion2-(2-(2-(2-(2-(2-ETHOXYETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHANOL
2ACT2Ligand/IonACETATE ION
3CA-1Ligand/IonCALCIUM ION
4CL-1Ligand/IonCHLORIDE ION
5MSE2Mod. Amino AcidSELENOMETHIONINE
Biological Unit 3 (2, 5)
No.NameCountTypeFull Name
17PE3Ligand/Ion2-(2-(2-(2-(2-(2-ETHOXYETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHANOL
2ACT-1Ligand/IonACETATE ION
3CA-1Ligand/IonCALCIUM ION
4CL-1Ligand/IonCHLORIDE ION
5MSE2Mod. Amino AcidSELENOMETHIONINE
Biological Unit 4 (2, 3)
No.NameCountTypeFull Name
17PE1Ligand/Ion2-(2-(2-(2-(2-(2-ETHOXYETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHANOL
2ACT-1Ligand/IonACETATE ION
3CA-1Ligand/IonCALCIUM ION
4CL-1Ligand/IonCHLORIDE ION
5MSE2Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (23, 23)

Asymmetric Unit (23, 23)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:163 , THR A:180 , THR A:182 , ARG A:185 , ASP B:130 , GLN B:145 , ASP B:435 , CYS B:436BINDING SITE FOR RESIDUE 7PE A 501
02AC2SOFTWAREASN A:76 , ARG A:95 , ASP A:97BINDING SITE FOR RESIDUE 7PE A 502
03AC3SOFTWAREASN A:166 , SER A:209 , TYR A:248 , ASN A:249 , LYS A:298 , THR A:349 , PRO A:397BINDING SITE FOR RESIDUE 7PE A 503
04AC4SOFTWAREASN A:76 , TYR A:88 , SER A:150 , ALA A:153BINDING SITE FOR RESIDUE ACT A 504
05AC5SOFTWAREASP A:130 , GLY A:131 , ILE A:159 , GLY A:160 , ASN A:161BINDING SITE FOR RESIDUE ACT A 505
06AC6SOFTWAREGLU A:58 , THR C:433 , HOH C:601BINDING SITE FOR RESIDUE CA A 506
07AC7SOFTWAREASP A:273 , HOH A:631 , HOH A:632 , HOH A:633 , HOH A:634BINDING SITE FOR RESIDUE CA A 507
08AC8SOFTWAREASP A:377 , ASP A:379 , ASP D:24BINDING SITE FOR RESIDUE CA A 508
09AC9SOFTWARETHR A:433 , HOH A:650 , HOH A:651 , GLU C:58BINDING SITE FOR RESIDUE CA A 509
10BC1SOFTWAREARG A:228 , VAL A:237BINDING SITE FOR RESIDUE CL A 510
11BC2SOFTWAREARG B:95 , ASP B:97 , TYR B:197BINDING SITE FOR RESIDUE 7PE B 501
12BC3SOFTWAREASN A:184 , ARG A:185 , ASP A:186 , VAL A:203 , TYR B:88 , ASP B:91 , CYS B:94BINDING SITE FOR RESIDUE 7PE B 502
13BC4SOFTWARETYR B:80 , SER B:87 , TYR B:88 , LYS B:89BINDING SITE FOR RESIDUE 7PE B 503
14BC5SOFTWAREGLU B:389 , TYR B:411 , LYS B:420 , TYR B:424 , THR B:433BINDING SITE FOR RESIDUE 7PE B 504
15BC6SOFTWAREGLU B:266 , LYS B:296 , SER B:314 , ALA B:315 , ASP B:316BINDING SITE FOR RESIDUE 7PE B 505
16BC7SOFTWAREASN B:76 , TYR B:88 , ARG B:95 , SER B:150 , GLY B:154BINDING SITE FOR RESIDUE ACT B 506
17BC8SOFTWAREASN B:401 , GLN B:402 , GLN B:403 , PHE B:446 , ASN B:448BINDING SITE FOR RESIDUE ACT B 507
18BC9SOFTWAREHOH B:713 , HOH B:714BINDING SITE FOR RESIDUE CA B 508
19CC1SOFTWARELEU C:53 , ASN C:118 , HIS C:119 , ASN C:120 , PHE C:135 , ASP C:137 , LYS C:140 , TYR C:144BINDING SITE FOR RESIDUE 7PE C 501
20CC2SOFTWAREGLU B:266 , LYS C:268 , GLU C:290 , ASP C:292BINDING SITE FOR RESIDUE 7PE C 502
21CC3SOFTWAREASN B:241 , GLU B:242 , ASP C:292 , GLU C:313 , SER C:314 , ALA C:315 , ASP C:316 , ASN C:320 , LYS C:332BINDING SITE FOR RESIDUE 7PE C 503
22CC4SOFTWAREARG C:228 , VAL C:237BINDING SITE FOR RESIDUE CL C 504
23CC5SOFTWAREASN D:76 , ALA D:96 , ASP D:97BINDING SITE FOR RESIDUE 7PE D 501

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4R5O)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4R5O)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4R5O)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4R5O)

(-) Exons   (0, 0)

(no "Exon" information available for 4R5O)

(-) 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:426
                                                                                                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......hhhhh...............eeee...eeee..........eeeeee..eeee....eeee.....eeeeeeeeee..eeeeeeeeeeee.....eeeeee..eeeeee....eee.hhhhhh............eeeeeee..eeeeeee........eeeee.....eeeee.......eeee....eeeee..eeeeee.....eeeeee.......eeeee..eeeee......eeeeeeehhhhhhh........eeeeeee......ee.....eeeeeee..eeeeeee.....eeeeee.................ee.....eeeee.....eeeee..hhhhhh.........eee....ee......eeeeeee....eeeeeee.....eeeeeeee.....eee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4r5o A  23 DDCEDLHLGNLAHYPNVLKGTFPTESQVLELGETLEITPELLNPEGATYSWLVNGKEYSTEPTFSYKIDNPCRADLSCIIKNKYGKVEmSTSFSSNHNFSKGFFYVADGTFNFYDTEKKTAYQDCYASLNAGKTLGIGNYDSANIIHSNGKFYLLVGTSTSNRDHFYIVDAKTLYYENSAVVGANLSGLTILNEQYGLVTGDGIRRIDLKSLNNVRIKNERLLCFYNSIIYNGKVLSNDTYKDESKVKYYDVNELIAAKEGEAPAVTELDIIQKQKINFVLAKDGNVYTLESADNGCNIVKIKNDFTLEKVFANFQPAKGPYHSSPTIGmVASETENIIYLVSTDGAIYKYILGDSDSLKAPFIAAESGVSITAPLQLNQQSGELYVTYTEERKDESKIVVYSKDGKVLHTVDCGESVPSQILFNN 448
                                    32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442      
                                                                                                                  111-MSE                                                                                                                                                                                                                                          352-MSE                                                                                            


Chain B from PDB  Type:PROTEIN  Length:416
                                                                                                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................eee....eeee..........eeeeee..eeee....eeee.....eeeeeeeeee..eeeeeeeeeee......eeeeee..eeeeee....eee.hhhhhhh...........eeeeeee..eeeeeee........eeeee.....eeeee.......eeee....eeeee..eeeeee.....eeeeee.......eeeee..eeeee......eeeeeeehhhhhhh.......eeeeeeee......ee.....eeeeeee..eeeeeee.....eeeeee.................ee.....eeeee.....eeeee..hhhhhh.........eee....ee......eeeeeee....eeeeeee.....eeeeeeee.....eee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4r5o B  33 LAHYPNVLKGTFPTESQVLELGETLEITPELLNPEGATYSWLVNGKEYSTEPTFSYKIDNPCRADLSCIIKNKYGKVEmSTSFSSNHNFSKGFFYVADGTFNFYDTEKKTAYQDCYASLNAGKTLGIGNYDSANIIHSNGKFYLLVGTSTSNRDHFYIVDAKTLYYENSAVVGANLSGLTILNEQYGLVTGDGIRRIDLKSLNNVRIKNERLLCFYNSIIYNGKVLSNDTYKDESKVKYYDVNELIAAKEGEAPAVTELDIIQKQKINFVLAKDGNVYTLESADNGCNIVKIKNDFTLEKVFANFQPAKGPYHSSPTIGmVASETENIIYLVSTDGAIYKYILGDSDSLKAPFIAAESGVSITAPLQLNQQSGELYVTYTEERKDESKIVVYSKDGKVLHTVDCGESVPSQILFNN 448
                                    42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442      
                                                                                                        111-MSE                                                                                                                                                                                                                                          352-MSE                                                                                            


Chain C from PDB  Type:PROTEIN  Length:416
                                                                                                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................eee....eeee..........eeeeee..eeee....eeee.....eeeeeeeee....eeeeeeeeee......eeeeee..eeeeee....eee.hhhhhh............eeeeeee..eeeeeee........eeeee.....eeeee.......eeee....eeeee..eeeeee.....eeeeee.......eeeee..eeeee......eeeeeeehhhhhhh........eeeeeee......ee.....eeeeeee..eeeeeee.....eeeeee.................ee.....eeeee.....eeeee..hhhhhh.........eee....ee......eeeeeee....eeeeeee.....eeeeeeee.....eee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4r5o C  33 LAHYPNVLKGTFPTESQVLELGETLEITPELLNPEGATYSWLVNGKEYSTEPTFSYKIDNPCRADLSCIIKNKYGKVEmSTSFSSNHNFSKGFFYVADGTFNFYDTEKKTAYQDCYASLNAGKTLGIGNYDSANIIHSNGKFYLLVGTSTSNRDHFYIVDAKTLYYENSAVVGANLSGLTILNEQYGLVTGDGIRRIDLKSLNNVRIKNERLLCFYNSIIYNGKVLSNDTYKDESKVKYYDVNELIAAKEGEAPAVTELDIIQKQKINFVLAKDGNVYTLESADNGCNIVKIKNDFTLEKVFANFQPAKGPYHSSPTIGmVASETENIIYLVSTDGAIYKYILGDSDSLKAPFIAAESGVSITAPLQLNQQSGELYVTYTEERKDESKIVVYSKDGKVLHTVDCGESVPSQILFNN 448
                                    42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442      
                                                                                                        111-MSE                                                                                                                                                                                                                                          352-MSE                                                                                            


Chain D from PDB  Type:PROTEIN  Length:425
                                                                                                                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhh...............eee....eeee..........eeeeee..eeee....eeee.....eeeeeeeeee..eeeeeeeeeee......eeeeee..eeeeee....eee.hhhhhhh...........eeeeeee..eeeeeee........eeeee.....eeeee.......eeee....eeeee..eeeeee.....eeeeee.......eeeee..eeeee......eeeeeeehhhhhhh........eeeeeee......ee.....eeeeeee..eeeeeee.....eeeeee.................ee.....eeeee.....eeeee..hhhhhh.........eee....ee......eeeeeee....eeeeeee.....eeeeeeee.....eee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4r5o D  24 DCEDLHLGNLAHYPNVLKGTFPTESQVLELGETLEITPELLNPEGATYSWLVNGKEYSTEPTFSYKIDNPCRADLSCIIKNKYGKVEmSTSFSSNHNFSKGFFYVADGTFNFYDTEKKTAYQDCYASLNAGKTLGIGNYDSANIIHSNGKFYLLVGTSTSNRDHFYIVDAKTLYYENSAVVGANLSGLTILNEQYGLVTGDGIRRIDLKSLNNVRIKNERLLCFYNSIIYNGKVLSNDTYKDESKVKYYDVNELIAAKEGEAPAVTELDIIQKQKINFVLAKDGNVYTLESADNGCNIVKIKNDFTLEKVFANFQPAKGPYHSSPTIGmVASETENIIYLVSTDGAIYKYILGDSDSLKAPFIAAESGVSITAPLQLNQQSGELYVTYTEERKDESKIVVYSKDGKVLHTVDCGESVPSQILFNN 448
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443     
                                                                                                                 111-MSE                                                                                                                                                                                                                                          352-MSE
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

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(-) Pfam Domains  (0, 0)

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(-) Gene Ontology  (1, 1)

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