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(-) Description

Title :  VALL FROM STREPTOMYCES HYGROSCOPICUS IN COMPLEX WITH TREHALOSE
 
Authors :  H. Zhang, L. Zheng, H. Qian, J. Chen
Date :  29 Jul 11  (Deposition) - 01 Aug 12  (Release) - 01 Aug 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Gtb, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Zhang, L. Zheng, H. Qian, J. Chen
Structural Basis For The Substrate Specificity Of Vall
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PUTATIVE GLYCOSYLTRANSFERASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET
    Expression System Strain: BL21(DE3) ROSSETTA
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: VLDE
    Organism Scientific: STREPTOMYCES HYGROSCOPICUS
    Organism Taxid: 264445
    Strain: LIMONEUS
    Synonym: VALIDOXYLAMINE A 7-PHOSPHATE SYNTHASE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 38)

Asymmetric/Biological Unit (4, 38)
No.NameCountTypeFull Name
1IMD2Ligand/IonIMIDAZOLE
2MG18Ligand/IonMAGNESIUM ION
3MSE16Mod. Amino AcidSELENOMETHIONINE
4TRE2Ligand/IonTREHALOSE

(-) Sites  (22, 22)

Asymmetric Unit (22, 22)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG A:12 , TRP A:105 , HIS A:182 , ARG A:290 , ARG A:326 , ASP A:383 , GLY A:384 , GLN A:385 , ASN A:386 , HOH A:510 , HOH A:521 , HOH A:522 , HOH A:570 , HOH A:591 , HOH A:615 , HOH A:714BINDING SITE FOR RESIDUE TRE A 498
02AC2SOFTWARELYS A:11 , THR A:100 , GLN A:160 , ARG A:326BINDING SITE FOR RESIDUE MG A 499
03AC3SOFTWAREARG A:78 , SER A:260 , PRO A:261 , LEU A:262 , GLU A:461BINDING SITE FOR RESIDUE MG A 500
04AC4SOFTWAREARG A:249 , ASP A:474 , ALA A:477 , HOH A:629BINDING SITE FOR RESIDUE MG A 501
05AC5SOFTWAREPRO A:232 , ASP A:233 , TRP A:245 , ARG A:246 , HOH A:813BINDING SITE FOR RESIDUE MG A 502
06AC6SOFTWAREARG A:267BINDING SITE FOR RESIDUE MG A 503
07AC7SOFTWAREARG A:125 , LYS A:196 , GLU A:197 , HOH A:717BINDING SITE FOR RESIDUE MG A 504
08AC8SOFTWARESER A:119BINDING SITE FOR RESIDUE MG A 505
09AC9SOFTWAREALA A:13 , ILE A:15 , ASP A:55 , ASP A:59BINDING SITE FOR RESIDUE MG A 506
10BC1SOFTWAREMSE A:104 , VAL A:162 , ILE A:202 , MG A:508BINDING SITE FOR RESIDUE MG A 507
11BC2SOFTWAREMSE A:104 , MG A:507BINDING SITE FOR RESIDUE MG A 508
12BC3SOFTWAREARG B:12 , TRP B:105 , HIS B:182 , PHE B:215 , ARG B:290 , ASN B:325 , ARG B:326 , ASP B:383 , GLY B:384 , GLN B:385 , ASN B:386 , MG B:506 , HOH B:516 , HOH B:522 , HOH B:533 , HOH B:559 , HOH B:578 , HOH B:622BINDING SITE FOR RESIDUE TRE B 498
13BC4SOFTWAREVAL B:153 , ALA B:472BINDING SITE FOR RESIDUE IMD B 499
14BC5SOFTWAREASN B:47 , GLU B:79BINDING SITE FOR RESIDUE IMD B 500
15BC6SOFTWARELYS B:11 , THR B:100 , GLN B:160 , ARG B:326BINDING SITE FOR RESIDUE MG B 501
16BC7SOFTWAREVAL B:243 , TRP B:245 , HIS B:248 , THR B:250BINDING SITE FOR RESIDUE MG B 502
17BC8SOFTWAREALA B:188 , ASP B:229 , LEU B:230BINDING SITE FOR RESIDUE MG B 503
18BC9SOFTWAREGLY B:289 , ARG B:290 , LYS B:295 , HOH B:696BINDING SITE FOR RESIDUE MG B 504
19CC1SOFTWARELYS A:196 , GLU B:406 , SER B:420BINDING SITE FOR RESIDUE MG B 505
20CC2SOFTWARETRP B:105 , ASP B:292 , ARG B:326 , TRE B:498 , MG B:507 , HOH B:623 , HOH B:657BINDING SITE FOR RESIDUE MG B 506
21CC3SOFTWARETRP B:105 , ASP B:292 , PRO B:293 , ASN B:332 , MG B:506 , MG B:508 , HOH B:623BINDING SITE FOR RESIDUE MG B 507
22CC4SOFTWAREALA B:101 , TRP B:105 , VAL B:329 , ASN B:332 , MG B:507 , HOH B:623 , HOH B:664BINDING SITE FOR RESIDUE MG B 508

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3T7D)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Gln A:117 -Pro A:118
2Arg A:309 -Gly A:310
3Gln B:117 -Pro B:118
4Gly B:310 -Gly B:311

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3T7D)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3T7D)

(-) Exons   (0, 0)

(no "Exon" information available for 3T7D)

(-) Sequences/Alignments

Asymmetric/Biological 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:459
 aligned with Q15JG1_STRHY | Q15JG1 from UniProtKB/TrEMBL  Length:497

    Alignment length:478
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470        
         Q15JG1_STRHY     1 MTGSEIFLASKRAAITYDTDPATGEPRAWLAPGGTGNVVAEQAGVLNISWIASADSEDDRRASALNPDGVTMELHSGREILVRLIRHDPAVFRNVQNFMTANLMWAANNYGWDRWTQPSFGSDAREGWADFGRFTRDFADAILKSSAQSADPVYLVHDYQLVGVPALLREQRPDAPILLFVHIPWPSADYWRILPKEIRTGILHGMLPATTIGFFADRWCRNFLESVADLLPDARIDREAMTVEWRGHRTRLRTMPLGYSPLTLDGRNPQLPEGIEEWADGHRLVVHSGRTDPIKNAERAVRAFVLAARGGGLEKTRMLVRMNPNRLYVPANADYVHRVETAVAEANAELGSDTVRIDNDNDVNHTIACFRRADLLIFNSTVDGQNLSTFEAPLVNERDADVILSETCGAAEVLGEYCRSVNPFDLVEQAEAISAALAAGPRQRAEAAARRRDAARPWTLEAWVQAQLDGLAADHAAR 478
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee.......-------------------.hhhhhhhhhh..eeee..hhhhhhhhhhh...eeee.....eeeeeee..hhhhhhhhhhh...hhhhhhhh...........hhhhhhhhhhhhhhhhhhhhhhhhhh......eeeee.hhhhhhhhhhhhhh....eeee......hhhhhh..hhhhhhhhhhhhh...eeee.hhhhhhhhhhhhhhhh...eee....eeee..eeeeeee.....hhhhh.........hhhhhh...eeeeeeee.hhhhhhhhhhhhhhhhhh......eeeeeeee.....hhhhhhhhhhhhhhhhhhhhhhh...eeeee..hhhhhhhhhhhh.eeee........hhhhhhhhhh....eeeee....hhhhhhhhheee...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3t7d A   1 FTGSEIFLASKRAAITY-------------------NVVAEQAGVLNISWIASADSEDDRRASALNPDGVTmELHSGREILVRLIRHDPAVFRNVQNFmTANLmWAANNYGWDRWTQPSFGSDAREGWADFGRFTRDFADAILKSSAQSADPVYLVHDYQLVGVPALLREQRPDAPILLFVHIPWPSADYWRILPKEIRTGILHGmLPATTIGFFADRWCRNFLESVADLLPDARIDREAmTVEWRGHRTRLRTmPLGYSPLTLDGRNPQLPEGIEEWADGHRLVVHSGRTDPIKNAERAVRAFVLAARGGGLEKTRmLVRmNPNRLYVPANADYVHRVETAVAEANAELGSDTVRIDNDNDVNHTIACFRRADLLIFNSTVDGQNLSTFEAPLVNERDADVILSETCGAAEVLGEYCRSVNPFDLVEQAEAISAALAAGPRQRAEAAARRRDAARPWTLEAWVQAQLDGLAADHAAR 478
                                    10      |  -         -      | 40        50        60        70 |      80        90       100   |   110       120       130       140       150       160       170       180       190       200     | 210       220       230       240|      250    |  260       270       280       290       300       310       320 |     330       340       350       360       370       380       390       400       410       420       430       440       450       460       470        
                                           17                  37                                 72-MSE                     99-MSE|                                                                                                   206-MSE                            241-MSE       255-MSE                                                        318-MSE                                                                                                                                                            
                                                                                                                                 104-MSE                                                                                                                                                                                                                   322-MSE                                                                                                                                                        


Chain B from PDB  Type:PROTEIN  Length:454
 aligned with Q15JG1_STRHY | Q15JG1 from UniProtKB/TrEMBL  Length:497

    Alignment length:476
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474      
         Q15JG1_STRHY     5 EIFLASKRAAITYDTDPATGEPRAWLAPGGTGNVVAEQAGVLNISWIASADSEDDRRASALNPDGVTMELHSGREILVRLIRHDPAVFRNVQNFMTANLMWAANNYGWDRWTQPSFGSDAREGWADFGRFTRDFADAILKSSAQSADPVYLVHDYQLVGVPALLREQRPDAPILLFVHIPWPSADYWRILPKEIRTGILHGMLPATTIGFFADRWCRNFLESVADLLPDARIDREAMTVEWRGHRTRLRTMPLGYSPLTLDGRNPQLPEGIEEWADGHRLVVHSGRTDPIKNAERAVRAFVLAARGGGLEKTRMLVRMNPNRLYVPANADYVHRVETAVAEANAELGSDTVRIDNDNDVNHTIACFRRADLLIFNSTVDGQNLSTFEAPLVNERDADVILSETCGAAEVLGEYCRSVNPFDLVEQAEAISAALAAGPRQRAEAAARRRDAARPWTLEAWVQAQLDGLAADHAARTA 480
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee.......-------------------.hhhhhhhhhh..eeee..hhhhhhhhhhh...eeee.....eeeeeee..hhhhhhhhhhh...hhhhhhhh...........hhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeeee.hhhhhhhhhhhhhh....eeee......hhhhhh..hhhhhhhhhhhhh...eeee.hhhhhhhhhhhhhhhh...eee....eeee..eeeeeee.....hhhhhh---.....hhhhhhh..eeeeeeee.hhhhhhhhhhhhhhhhhh......eeeeeeee.....hhhhhhhhhhhhhhhhhhhhhhh...eeeee..hhhhhhhhhhhh.eeee........hhhhhhhhhh....eeeee....hhhhhhhhheee...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3t7d B   5 EIFLASKRAAITY-------------------NVVAEQAGVLNISWIASADSEDDRRASALNPDGVTmELHSGREILVRLIRHDPAVFRNVQNFmTANLmWAANNYGWDRWTQPSFGSDAREGWADFGRFTRDFADAILKSSAQSADPVYLVHDYQLVGVPALLREQRPDAPILLFVHIPWPSADYWRILPKEIRTGILHGmLPATTIGFFADRWCRNFLESVADLLPDARIDREAmTVEWRGHRTRLRTmPLGYSPLTLD---PQLPEGIEEWADGHRLVVHSGRTDPIKNAERAVRAFVLAARGGGLEKTRmLVRmNPNRLYVPANADYVHRVETAVAEANAELGSDTVRIDNDNDVNHTIACFRRADLLIFNSTVDGQNLSTFEAPLVNERDADVILSETCGAAEVLGEYCRSVNPFDLVEQAEAISAALAAGPRQRAEAAARRRDAARPWTLEAWVQAQLDGLAADHAARTA 480
                                    14  |      -         -  |     44        54        64       |74        84        94    |  104       114       124       134       144       154       164       174       184       194       204 |     214       224       234      |244       254|      264|   |  274       284       294       304       314   |   324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474      
                                       17                  37                                 72-MSE                     99-MSE|                                                                                                   206-MSE                            241-MSE       255-MSE   265 269                                              318-MSE                                                                                                                                                              
                                                                                                                             104-MSE                                                                                                                                                                                                                   322-MSE
   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 3T7D)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3T7D)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3T7D)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q15JG1_STRHY | Q15JG1)
molecular function
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:0005992    trehalose biosynthetic process    The chemical reactions and pathways resulting in the formation of trehalose, a disaccharide isomeric with sucrose and obtained from certain lichens and fungi.

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  3t7d
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 Related Entries

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

UniProtKB/TrEMBL
        Q15JG1_STRHY | Q15JG1: 3t5t 3vdm 3vdn 4f96 4f97 4f9f

(-) Related Entries Specified in the PDB File

3t5r 3t5t