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(-) Description

Title :  STRUCTURE OF THERMOLYSIN PREPARED BY THE 'SOAK-AND-FREEZE' METHOD UNDER 45 BAR OF OXYGEN PRESSURE
 
Authors :  B. Lafumat, C. Mueller-Dieckmann, N. Colloch, T. Prange, A. Royant, P. Van Der Linden, P. Carpentier
Date :  06 Jan 16  (Deposition) - 26 Oct 16  (Release) - 16 Nov 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.20
Chains :  Asym./Biol. Unit :  A
Keywords :  Hydrolase, Metalloproteinase, Thermolysine, Dioxygen, Pressure, Flash Freezing (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  B. Lafumat, C. Mueller-Dieckmann, N. Colloch, T. Prange, A. Royant, P. Van Der Linden, P. Carpentier
Gas-Sensitive Biological Crystals Processed In Pressurized Oxygen And Krypton Atmospheres: Deciphering Gas Channels In Proteins Using A Novel `Soak-And-Freeze' Methodology.
J. Appl. Crystallogr. V. 49 1478 2016
PubMed: search  |  Reference-DOI: 10.1107/S1600576716010992

(-) Compounds

Molecule 1 - THERMOLYSIN
    ChainsA
    EC Number3.4.24.27
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    FragmentUNP RESIDUES 233-548
    Organism ScientificBACILLUS THERMOPROTEOLYTICUS
    Organism Taxid1427
    SynonymTHERMOSTABLE NEUTRAL PROTEINASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 10)

Asymmetric/Biological Unit (5, 10)
No.NameCountTypeFull Name
1CA5Ligand/IonCALCIUM ION
2LYS1Mod. Amino AcidLYSINE
3OXY1Ligand/IonOXYGEN MOLECULE
4VAL1Mod. Amino AcidVALINE
5ZN2Ligand/IonZINC ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:193 , THR A:194 , ILE A:197 , ASP A:200 , HOH A:2371 , HOH A:2375BINDING SITE FOR RESIDUE CA A1003
2AC2SOFTWAREGLU A:177 , ASN A:183 , ASP A:185 , GLU A:190 , HOH A:2353 , HOH A:2361BINDING SITE FOR RESIDUE CA A1004
3AC3SOFTWAREASP A:59 , GLN A:61 , CA A:1010 , HOH A:2172 , HOH A:2179 , HOH A:2545BINDING SITE FOR RESIDUE CA A1005
4AC4SOFTWAREHIS A:142 , HIS A:146 , TYR A:157 , GLU A:166 , HIS A:231 , VAL A:1001 , ZN A:1007BINDING SITE FOR RESIDUE ZN A1006
5AC5SOFTWAREHIS A:142 , HIS A:146 , GLU A:166 , ZN A:1006BINDING SITE FOR RESIDUE ZN A1007
6AC6SOFTWARETYR A:84 , SER A:92 , TYR A:93 , ILE A:100 , LEU A:144BINDING SITE FOR RESIDUE OXY A1008
7AC7SOFTWAREASP A:138 , GLU A:177 , ASP A:185 , GLU A:187 , GLU A:190 , HOH A:2318BINDING SITE FOR RESIDUE CA A1009
8AC8SOFTWAREASP A:57 , ASP A:59 , GLN A:61 , CA A:1005 , HOH A:2171 , HOH A:2172BINDING SITE FOR RESIDUE CA A1010
9AC9SOFTWAREASN A:111 , ASN A:112 , ALA A:113 , PHE A:130 , GLU A:143 , LEU A:202 , ARG A:203 , HIS A:231 , ZN A:1006 , HOH A:2435 , HOH A:2541 , HOH A:2542 , HOH A:2544BINDING SITE FOR DI-PEPTIDE VAL A1001 AND LYS A1002

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5FSJ)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Leu A:50 -Pro A:51

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5FSJ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5FSJ)

(-) Exons   (0, 0)

(no "Exon" information available for 5FSJ)

(-) 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:318
                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeeeeee.....eeeeeeee...ee.ee......eeeee.........ee.ee...ee.hhhhhhhhhhhhhhhhhhhhhhhhhh..........eeeeeee......eee....eeee........hhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhh.....ee..............ee..hhhhhh...hhhhh...hhhhhhh..hhhhhhhhhhhhhhheee..eee...hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                5fsj A    1 ITGTSTVGVGRGVLGDQKNINTTYSTYYYLQDNTRGNGIFTYDAKYRTTLPGSLWADADNQFFASYDAPAVDAHYYAGVTYDYYKNVHNRLSYDGNNAAIRSSVHYSQGYNNAFWNGSQMVYGDGDGQTFIPLSGGIDVVAHELTHAVTDYTAGLIYQNESGAINEAISDIFGTLVEFYANKNPDWEIGEDVYTPGISGDSLRSMSDPAKYGDPDHYSKRYTGTQDNGGVHINSGIINKAAYLISQGGTHYGVSVVGIGRDKLGKIFYRALTQYLTPTSNFSQLRAAAVQSATDLYGSTSQEVASVKQAFDAVGVKVK 1002
                                    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     || 
                                                                                                                                                                                                                                                                                                                                                     316| 
                                                                                                                                                                                                                                                                                                                                                     1001 

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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 5FSJ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5FSJ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5FSJ)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        THER_BACTH | P008001fj3 1fjo 1fjq 1fjt 1fju 1fjv 1fjw 1gxw 1hyt 1kei 1kjo 1kjp 1kkk 1kl6 1kr6 1kro 1ks7 1kto 1l3f 1lna 1lnb 1lnc 1lnd 1lne 1lnf 1os0 1pe5 1pe7 1pe8 1qf0 1qf1 1qf2 1thl 1tli 1tlp 1tlx 1tmn 1trl 1y3g 1z9g 1zdp 2a7g 2g4z 2tli 2tlx 2tmn 2whz 2wi0 3dnz 3do0 3do1 3do2 3eim 3f28 3f2p 3fb0 3fbo 3fcq 3fgd 3flf 3for 3fv4 3fvp 3fxp 3fxs 3ls7 3ms3 3msa 3msf 3msn 3n21 3nn7 3p7p 3p7q 3p7r 3p7s 3p7t 3p7u 3p7v 3p7w 3qgo 3qh1 3qh5 3ssb 3t2h 3t2i 3t2j 3t73 3t74 3t87 3t8c 3t8d 3t8f 3t8g 3t8h 3tli 3tmn 3zi6 4d91 4d9w 4h57 4mtw 4mwp 4mxj 4mzn 4n4e 4n5p 4n66 4oi5 4ow3 4tli 4tln 4tmn 4tnl 5a3y 5dpe 5dpf 5fsp 5fss 5fxn 5js3 5jss 5jt9 5jvi 5jxn 5k7t 5l3u 5l41 5l8p 5lif 5lwd 5mnr 5n2t 5n2x 5n2z 5n31 5n34 5n3v 5n3y 5tli 5tln 5tmn 5un3 5uu7 5uu8 5uu9 5uua 5uub 5uuc 5uud 5uue 6tli 6tmn 7tli 7tln 8tli 8tln

(-) Related Entries Specified in the PDB File

5fsp THERMOLYSIN SOAK-AND-FREEZE UNDER 100BAR KRYPTON
5fss THERMOLYSIN SOAK-AND-FREEZE UNDER 40BAR OF KRYPTON
5fst LYSOZYME SOAK-AND-FREEZE UNDER 100BAR KRYPTON