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(-) Description

Title :  CRYSTAL STRUCTURE OF N-TERMINAL MUTANT (V1L) OF AN ALKALI THERMOSTABLE GH10 XYLANASE FROM BACILLUS SP. NG-27
 
Authors :  P. Mahanta, A. Bhardwaj, V. S. Reddy, S. Ramakumar
Date :  14 May 14  (Deposition) - 20 May 15  (Release) - 21 Sep 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.96
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Gh10 Xylanase, (Beta/Alpha)8-Barrel, Glycosyl Hydrolase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. Mahanta, A. Bhardwaj, K. Kumar, V. S. Reddy, S. Ramakumar
Structural Insights Into N-Terminal To C-Terminal Interactions And Implications For Thermostability Of A (Beta/Alpha)8-Triosephosphate Isomerase Barrel Enzyme
Febs J. V. 282 3543 2015
PubMed-ID: 26102498  |  Reference-DOI: 10.1111/FEBS.13355

(-) Compounds

Molecule 1 - ALKALINE THERMOSTABLE ENDOXYLANASE
    Chains: A, B
    EC Number: 3.2.1.8
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 52-405
    Mutation: YES
    Organism Scientific: BACILLUS SP. NG-27
    Organism Taxid: 65673

 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  (3, 6)

Asymmetric Unit (3, 6)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL
2MG2Ligand/IonMAGNESIUM ION
3NA2Ligand/IonSODIUM ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2MG-1Ligand/IonMAGNESIUM ION
3NA-1Ligand/IonSODIUM ION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2MG-1Ligand/IonMAGNESIUM ION
3NA-1Ligand/IonSODIUM ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:292 , ARG A:351 , ASP A:354 , HOH A:514 , HOH A:535 , HOH A:682 , HOH A:695BINDING SITE FOR RESIDUE MG A 401
2AC2SOFTWAREGLN A:57 , GLU A:60 , GLY A:61 , TRP A:96 , ARG A:125 , THR A:128 , HIS A:129 , HOH A:643BINDING SITE FOR RESIDUE GOL A 402
3AC3SOFTWARESER A:18 , ASP A:302 , LEU A:305 , HOH A:573 , HOH A:631BINDING SITE FOR RESIDUE NA A 403
4AC4SOFTWAREASN B:292 , ARG B:351 , ASP B:354 , HOH B:529 , HOH B:542 , HOH B:701 , HOH B:708BINDING SITE FOR RESIDUE MG B 401
5AC5SOFTWAREGLN B:57 , GLU B:60 , GLY B:61 , TRP B:96 , ARG B:125 , THR B:128 , HIS B:129 , HOH B:656BINDING SITE FOR RESIDUE GOL B 402
6AC6SOFTWARESER B:18 , ASP B:302 , LEU B:305 , HOH B:558 , HOH B:618 , HOH B:651BINDING SITE FOR RESIDUE NA B 403

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (10, 10)

Asymmetric Unit
No.Residues
1His A:85 -Thr A:86
2Thr A:202 -Pro A:203
3Trp A:235 -Pro A:236
4Trp A:267 -Pro A:268
5Arg A:270 -Pro A:271
6His B:85 -Thr B:86
7Thr B:202 -Pro B:203
8Trp B:235 -Pro B:236
9Trp B:267 -Pro B:268
10Arg B:270 -Pro B:271

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4QDM)

(-) 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:354
                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhh.hhhhhh....eeeeeehhhhhhhhhhhhhhhhh.eeee....hhhhhh.......hhhhhhhhhhhhhh..eeeee........hhhhhh.....hhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeee...............hhhhhhhhhhhhhhhhhhhhhhhh....eeeee......hhhhhhhhhhhhhhhh.....eeee..eee....hhhhhhhhhhhhhhh..eeeeeeeeee...........hhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeee.......hhhhhhhhhhh.................hhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4qdm A   1 LQPFAWQVASLADRYEESFDIGAAVEPHQLNGRQGKVLKHHYNSIVAENAMKPISLQPEEGVFTWDGADAIVEFARKNNMNLRFHTLVWHNQVPDWFFLDEEGNPMVEETNEAKRQANKELLLERLETHIKTVVERYKDDVTAWDVVNEVVDDGTPNERGLRESVWYQITGDEYIRVAFETARKYAGEDAKLFINDYNTEVTPKRDHLYNLVQDLLADGVPIDGVGHQAHIQIDWPTIDEIRTSMEMFAGLGLDNQVTELDVSLYGWPPRPAFPTYDAIPQERFQAQADRYNQLFELYEELDADLSSVTFWGIADNHTWLDDRAREYNDGVGKDAPFVFDPNYRVKPAFWRIID 354
                                    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    


Chain B from PDB  Type:PROTEIN  Length:354
                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhh.hhhhhh....eeeeeehhhhhhhhhhhhhhhhh.eeee....hhhhhh.......hhhhhhhhhhhhhh..eeeee........hhhhhh.....hhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeee...............hhhhhhhhhhhhhhhhhhhhhhhh....eeeee......hhhhhhhhhhhhhhhh.....eeee..eee....hhhhhhhhhhhhhhh..eeeeeeeeee...........hhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeee.......hhhhhhhhhhh.................hhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4qdm B   1 LQPFAWQVASLADRYEESFDIGAAVEPHQLNGRQGKVLKHHYNSIVAENAMKPISLQPEEGVFTWDGADAIVEFARKNNMNLRFHTLVWHNQVPDWFFLDEEGNPMVEETNEAKRQANKELLLERLETHIKTVVERYKDDVTAWDVVNEVVDDGTPNERGLRESVWYQITGDEYIRVAFETARKYAGEDAKLFINDYNTEVTPKRDHLYNLVQDLLADGVPIDGVGHQAHIQIDWPTIDEIRTSMEMFAGLGLDNQVTELDVSLYGWPPRPAFPTYDAIPQERFQAQADRYNQLFELYEELDADLSSVTFWGIADNHTWLDDRAREYNDGVGKDAPFVFDPNYRVKPAFWRIID 354
                                    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
   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 4QDM)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (9, 9)

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        O30700_9BACI | O30700: 2f8q 2fgl 4qce 4qcf 5eb8 5eba 5efd 5eff

(-) Related Entries Specified in the PDB File

2f8q 2fgl 4qce 4qcf