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(-) Description

Title :  CRYSTAL STRUCTURE OF THE BACILLUS CEREUS SPORE CORTEX-LYTIC ENZYME SLEL
 
Authors :  G. Christie, D. Y. Chirgadze, F. I. Ustok
Date :  04 Feb 15  (Deposition) - 19 Aug 15  (Release) - 23 Sep 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Keywords :  Tim Barrel, N-Acetylglucosaminidase, Spore Cortex, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. I. Ustok, D. Y. Chirgadze, G. Christie
Structural And Functional Analysis Of Slel, A Peptidoglycan Lysin Involved In Germination Of Bacillus Spores.
Proteins V. 83 1787 2015
PubMed-ID: 26190134  |  Reference-DOI: 10.1002/PROT.24861

(-) Compounds

Molecule 1 - CORTICAL-LYTIC ENZYME
    Chains: A, B, C
    Engineered: YES
    Expression System: LACTOCOCCUS LACTIS
    Expression System Plasmid: PNZ
    Expression System Taxid: 1358
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 2-430
    Gene: BCERE0002_33520, DJ50_4346
    Organism Scientific: BACILLUS CEREUS
    Organism Taxid: 526980
    Strain: ATCC 10876
    Synonym: LYSM DOMAIN PROTEIN

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): A  
Biological Unit 2 (1x):  B 
Biological Unit 3 (1x):   C

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric Unit (1, 3)
No.NameCountTypeFull Name
1EDO3Ligand/Ion1,2-ETHANEDIOL
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1EDO1Ligand/Ion1,2-ETHANEDIOL
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1EDO1Ligand/Ion1,2-ETHANEDIOL
Biological Unit 3 (1, 1)
No.NameCountTypeFull Name
1EDO1Ligand/Ion1,2-ETHANEDIOL

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:0 , ALA A:1 , LYS A:50 , ASN A:52 , ASN A:53 , TYR A:69 , VAL A:96 , HOH A:606 , HOH A:756BINDING SITE FOR RESIDUE EDO A 501
2AC2SOFTWARETHR B:49 , ASN B:52 , ASN B:53 , VAL B:96 , HOH B:729BINDING SITE FOR RESIDUE EDO B 501
3AC3SOFTWAREALA C:1 , THR C:49 , ASN C:53 , VAL C:96BINDING SITE FOR RESIDUE EDO C 501

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4S3J)

(-) Cis Peptide Bonds  (12, 12)

Asymmetric Unit
No.Residues
1Ile A:115 -Pro A:116
2Phe A:138 -Ser A:139
3Leu A:330 -Pro A:331
4Trp A:407 -Lys A:408
5Ile B:115 -Pro B:116
6Phe B:138 -Ser B:139
7Leu B:330 -Pro B:331
8Trp B:407 -Lys B:408
9Ile C:115 -Pro C:116
10Phe C:138 -Ser C:139
11Leu C:330 -Pro C:331
12Trp C:407 -Lys C:408

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4S3J)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4S3J)

(-) Exons   (0, 0)

(no "Exon" information available for 4S3J)

(-) 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:429
                                                                                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee.....hhhhhhhhhh.hhhhhhhhh............eeeee....eee.....hhhhhhhhhh.hhhhhhhhh............eee.......eeeeeeee.......hhhhhhhhhhhhhhh.eeeeeeeee.....ee...hhhhhhhhhhhh..eeeeeee.ee..eehhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhhhhhhh....eeeeee..............hhhhhhhhh.eeee................hhhhhhhhhhhhhhhhhhh.eeeeee..eeeee..........eeehhhhhhhhhhhh....eee....eeeeeee.....eeeee..hhhhhhhhhhhhhhhh..eeeee.....hhhhhhhhhhhhee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4s3j A   0 FAIQIVTVRSGDSVYSLASKYGSTPDEIVKDNGLNPAETLVVGQALIVNTKGNNYYVQPGDSLYRISQTYNVPLASLAKVNNLSLKSILHVGQQLYVPKGTKRSVESIAYLQPSTIPIKESLVNATRAINPFLTYLAYFSFEAKRDGTLKEPTETAKIANIATQGQTIPMLVITNIENGNFSADLTSVILRDATIQNKFITNILQTAEKYGMRDIHFDFESVAPEDREAYNRFLRNVKIRLPSGYTLSTTLVPKTSSNQKFFEAHDYKAQGQIVDFVVIMTYDWGWQGGPPMAISPIGPVKEVLQYAKSQMPPQKIMMGQNLYGFDWKLPFKQGNPPAKAVSSVAAVALARKYNVPIRYDFTAQAPHFNYFDENGVQHEVWFEDARSIQSKFNLMKEQGIGGISYWKIGLPFPQNWRLLVENFTITKKG 430
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421         
                                                                                                                                                                                                                                                                                            258|                                                                                                                                                                         
                                                                                                                                                                                                                                                                                             261                                                                                                                                                                         


Chain B from PDB  Type:PROTEIN  Length:433
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.....hhhhhhhhh..hhhhhhhhh............eeeeee...eee.....hhhhhhhhhh.hhhhhhhhh............eee......eeeeeeeee.......hhhhhhhhhhhhhhh.eeeeeeeee.....ee...hhhhhhhhhhhh..eeeeeee.ee..eehhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhhhhhh.....eeeeee................hhhhhhhhh.eeee................hhhhhhhhhhhhhhhhhhh.eeeeee..eeeee..........eeehhhhhhhhhhhhh...eee....eeeeeee.....eeeee..hhhhhhhhhhhhhhhh..eeeee.....hhhhhhhhhhheee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4s3j B   0 FAIQIVTVRSGDSVYSLASKYGSTPDEIVKDNGLNPAETLVVGQALIVNTKGNNYYVQPGDSLYRISQTYNVPLASLAKVNNLSLKSILHVGQQLYVPKGTKRSVESIAYLQPSTIPIKESLVNATRAINPFLTYLAYFSFEAKRDGTLKEPTETAKIANIATQGQTIPMLVITNIENGNFSADLTSVILRDATIQNKFITNILQTAEKYGMRDIHFDFESVAPEDREAYNRFLRNVKIRLPSGYTLSTTLVPKTSSNQKGKFFEAHDYKAQGQIVDFVVIMTYDWGWQGGPPMAISPIGPVKEVLQYAKSQMPPQKIMMGQNLYGFDWKLPFKQGNPPAKAVSSVAAVALARKYNVPIRYDFTAQAPHFNYFDENGVQHEVWFEDARSIQSKFNLMKEQGIGGISYWKIGLPFPQNWRLLVENFTITKKGEN 432
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429   


Chain C from PDB  Type:PROTEIN  Length:422
                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee.....hhhhhhhhh..hhhhhhhhh............eeeee....eee.....hhhhhhhhhh.hhhhhhhhh............eee......eeeeeeeee.......hhhhhhhhhhhhhhh.eeee..eee.....ee...hhhhhhhhhhhh..eeeeeee.ee..eehhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhhhhhhh....eeeeee........hhhhhhhhh.eeee................hhhhhhhhhhhhhhhhhhh.eeeeee..eeeee..........eeehhhhhhhhhhhh....eee....eeeeeee.....eeeee..hhhhhhhhhhhhhhhh..eeeee.....hhhhhhhhhhheee.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4s3j C   1 AIQIVTVRSGDSVYSLASKYGSTPDEIVKDNGLNPAETLVVGQALIVNTKGNNYYVQPGDSLYRISQTYNVPLASLAKVNNLSLKSILHVGQQLYVPKGTKRSVESIAYLQPSTIPIKESLVNATRAINPFLTYLAYFSFEAKRDGTLKEPTETAKIANIATQGQTIPMLVITNIENGNFSADLTSVILRDATIQNKFITNILQTAEKYGMRDIHFDFESVAPEDREAYNRFLRNVKIRLPSGYTLSTTLVPKTSEAHDYKAQGQIVDFVVIMTYDWGWQGGPPMAISPIGPVKEVLQYAKSQMPPQKIMMGQNLYGFDWKLPFKQGNPPAKAVSSVAAVALARKYNVPIRYDFTAQAPHFNYFDENGVQHEVWFEDARSIQSKFNLMKEQGIGGISYWKIGLPFPQNWRLLVENFTITKKG 430
                                    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    || 268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428  
                                                                                                                                                                                                                                                                                        255|                                                                                                                                                                      
                                                                                                                                                                                                                                                                                         264
   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 4S3J)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4S3J)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4S3J)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)

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(-) Related Entries Specified in the PDB File

3cz8 CRYSTAL STRUCTURE OF PUTATIVE SPORULATION-SPECIFIC GLYCOSYLASE YDHD FROM BACILLUS SUBTILIS
4f55 CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF THE BACILLUS CEREUS SLEB PROTEIN
4fet CATALYTIC DOMAIN OF GERMINATION-SPECIFIC LYTIC TRANSGLYCOSYLASE SLEB FROM BACILLUS ANTHRACIS
4s3k