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(-) Description

Title :  STRUCTURE OF BACILLUS PUMILUS CATALASE
 
Authors :  P. C. Loewen
Date :  20 Jun 14  (Deposition) - 25 Feb 15  (Release) - 29 Apr 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.65
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Catalase Fold, Catalase, Peroxidase, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. C. Loewen, J. Villanueva, J. Switala, L. J. Donald, A. Ivancich
Unprecedented Access Of Phenolic Substrates To The Heme Active Site Of A Catalase: Substrate Binding And Peroxidase-Like Reactivity Of Bacillus Pumilus Catalase Monitored By X-Ray Crystallography And Epr Spectroscopy.
Proteins V. 83 853 2015
PubMed-ID: 25663126  |  Reference-DOI: 10.1002/PROT.24777

(-) Compounds

Molecule 1 - CATALASE
    Chains: A, B, C, D
    EC Number: 1.11.1.6
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PBLUESCRIPT
    Expression System Strain: UM255
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: BW16_04845, KATX2
    Organism Scientific: BACILLUS PUMILUS
    Organism Taxid: 1408

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 20)

Asymmetric/Biological Unit (4, 20)
No.NameCountTypeFull Name
1ACT4Ligand/IonACETATE ION
2CL6Ligand/IonCHLORIDE ION
3HEM8Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
4NA2Ligand/IonSODIUM ION

(-) Sites  (20, 20)

Asymmetric Unit (20, 20)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG A:54 , VAL A:55 , VAL A:56 , HIS A:57 , ARG A:94 , GLY A:113 , VAL A:128 , GLY A:129 , ASN A:130 , PHE A:135 , ALA A:140 , PHE A:143 , VAL A:199 , PHE A:316 , LEU A:332 , ARG A:336 , SER A:339 , TYR A:340 , THR A:343 , GLN A:344 , ARG A:347 , HOH A:627 , HOH A:696 , HOH A:787 , ASP D:47BINDING SITE FOR RESIDUE HEM A 501
02AC2SOFTWAREARG A:54 , VAL A:55 , VAL A:56 , HIS A:57 , ARG A:94 , GLY A:113 , VAL A:128 , GLY A:129 , ASN A:130 , PHE A:135 , ALA A:140 , PHE A:143 , VAL A:199 , HIS A:200 , PHE A:316 , LEU A:332 , ARG A:336 , SER A:339 , TYR A:340 , THR A:343 , GLN A:344 , ARG A:347 , HOH A:627 , HOH A:696 , HOH A:787 , LEU D:43 , ASP D:47BINDING SITE FOR RESIDUE HEM A 502
03AC3SOFTWAREARG A:48 , ARG B:48BINDING SITE FOR RESIDUE CL A 503
04AC4SOFTWAREASN A:367BINDING SITE FOR RESIDUE CL A 504
05AC5SOFTWARESER A:72 , GLU A:85 , HOH A:850 , HOH A:851 , HOH A:852 , HOH A:853BINDING SITE FOR RESIDUE NA A 505
06AC6SOFTWAREARG A:109 , ASP A:110 , GLN A:159 , HOH A:635 , HOH A:1069BINDING SITE FOR RESIDUE ACT A 506
07AC7SOFTWAREARG B:54 , VAL B:55 , VAL B:56 , HIS B:57 , ARG B:94 , GLY B:113 , VAL B:128 , GLY B:129 , ASN B:130 , PHE B:135 , ALA B:140 , PHE B:143 , VAL B:199 , PHE B:316 , LEU B:332 , ARG B:336 , SER B:339 , TYR B:340 , THR B:343 , GLN B:344 , ARG B:347 , HOH B:694 , HOH B:696 , HOH B:725 , HOH B:990 , ASP C:47BINDING SITE FOR RESIDUE HEM B 501
08AC8SOFTWAREARG B:54 , VAL B:55 , VAL B:56 , HIS B:57 , ARG B:94 , GLY B:113 , VAL B:128 , GLY B:129 , ASN B:130 , PHE B:135 , PHE B:143 , VAL B:199 , HIS B:200 , PHE B:316 , LEU B:332 , ARG B:336 , SER B:339 , TYR B:340 , THR B:343 , GLN B:344 , ARG B:347 , HOH B:694 , HOH B:696 , HOH B:725 , HOH B:990BINDING SITE FOR RESIDUE HEM B 502
09AC9SOFTWAREASN B:366 , ASN B:367BINDING SITE FOR RESIDUE CL B 503
10BC1SOFTWARESER B:72 , GLU B:85 , HOH B:974BINDING SITE FOR RESIDUE NA B 504
11BC2SOFTWAREARG B:109 , ASP B:110 , GLN B:159 , HOH B:965BINDING SITE FOR RESIDUE ACT B 505
12BC3SOFTWAREASP B:47 , ARG C:54 , VAL C:55 , VAL C:56 , HIS C:57 , ARG C:94 , GLY C:113 , VAL C:128 , GLY C:129 , ASN C:130 , PHE C:135 , ALA C:140 , PHE C:143 , VAL C:199 , PHE C:316 , LEU C:332 , ARG C:336 , SER C:339 , TYR C:340 , THR C:343 , GLN C:344 , ARG C:347 , HOH C:610 , HOH C:682 , HOH C:709 , HOH C:997BINDING SITE FOR RESIDUE HEM C 501
13BC4SOFTWAREASP B:47 , ARG C:54 , VAL C:56 , HIS C:57 , ARG C:94 , GLY C:113 , VAL C:128 , GLY C:129 , ASN C:130 , PHE C:135 , PHE C:143 , VAL C:199 , HIS C:200 , PHE C:316 , LEU C:332 , ARG C:336 , SER C:339 , TYR C:340 , THR C:343 , GLN C:344 , ARG C:347 , HOH C:610 , HOH C:682 , HOH C:709 , HOH C:997BINDING SITE FOR RESIDUE HEM C 502
14BC5SOFTWAREASN C:367BINDING SITE FOR RESIDUE CL C 503
15BC6SOFTWAREARG C:109 , ASP C:110 , GLN C:159 , HOH C:849BINDING SITE FOR RESIDUE ACT C 504
16BC7SOFTWAREASP A:47 , ARG D:54 , VAL D:55 , VAL D:56 , HIS D:57 , ARG D:94 , GLY D:113 , VAL D:128 , GLY D:129 , ASN D:130 , PHE D:135 , ALA D:140 , PHE D:143 , VAL D:199 , PHE D:316 , LEU D:332 , ARG D:336 , SER D:339 , TYR D:340 , THR D:343 , GLN D:344 , ARG D:347 , HOH D:654 , HOH D:688 , HOH D:714 , HOH D:993BINDING SITE FOR RESIDUE HEM D 501
17BC8SOFTWAREASP A:47 , ARG D:54 , VAL D:55 , VAL D:56 , HIS D:57 , ARG D:94 , GLY D:113 , VAL D:128 , GLY D:129 , ASN D:130 , PHE D:135 , PHE D:143 , VAL D:199 , HIS D:200 , PHE D:316 , LEU D:332 , ARG D:336 , SER D:339 , TYR D:340 , THR D:343 , GLN D:344 , ARG D:347 , HOH D:654 , HOH D:688 , HOH D:714 , HOH D:993BINDING SITE FOR RESIDUE HEM D 502
18BC9SOFTWAREARG C:48 , ARG D:48BINDING SITE FOR RESIDUE CL D 503
19CC1SOFTWAREHOH C:605 , ASN D:367BINDING SITE FOR RESIDUE CL D 504
20CC2SOFTWAREARG D:109 , ASP D:110 , LEU D:150 , GLN D:159 , HOH D:880BINDING SITE FOR RESIDUE ACT D 505

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Glu A:385 -Pro A:386
2Glu B:385 -Pro B:386
3Glu C:385 -Pro C:386
4Glu D:385 -Pro D:386

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4QOL)

(-) 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:480
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...................ee.........hhhhhhhhhhhh............eeeeeeeeee.........hhhhh....eeeeeeeee................eeeeeeee..eeeeeeee........hhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhh........ee....eeee.....eeeeeeeeee.......hhhhhhhhhh...hhhhhhhhhhhhhh...eeeeeeeeee.hhhhhh..................eeeeeeeeee...hhhhhh.............eee..hhhhhhhhhhhhhhhhhhhh.hhhhhhhhh....................................hhhhh..........ee.........hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4qol A   6 HKNLTTNQGVPVGDNQNSRTAGHRGPSFLDDYHLIEKLAHFDRERIPERVVHARGAGAYGVFEVENSMEKHTRAAFLSEEGKQTDVFVRFSTVIHPKGSPETLRDPRGFAVKFYTEEGNYDLVGNNLPIFFIRDALKFPDMVHSLKPDPVTNIQDPDRYWDFMTLTPESTHMLTWLFSDEGIPANYAEMRGSGVHTFRWVNKYGETKYVKYHWRPSEGIRNLSMEEAAEIQANDFQHATRDLYDRIEKGNYPAWDLYVQLMPLSDYDELDYDPCDPTKTWSEEDYPLQKVGRMTLNRNPENFFAETEQAAFTPSALVPGIEASEDKLLQGRLFSYPDTQRHRLGANYMRIPVNCPYAPVHNNQQDGFMTTTRPSGHINYEPNRYDDQPKENPHYKESEPVLHGDRMVRQKIEKPNDFKQAGEKYRSYSEEEKQALIKNLTADLKGVNEKTKLLAICNFYRADEDYGQRLADSLGVDIRSY 485
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485


Chain B from PDB  Type:PROTEIN  Length:480
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...................ee.........hhhhhhhhhhhh............eeeeeeeeee.........hhhhh....eeeeeeeee................eeeeeeee..eeeeeeee........hhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhh........ee....eeee.....eeeeeeeeee.......hhhhhhhhhh...hhhhhhhhhhhhhh...eeeeeeeeee.hhhhhh..................eeeeeeeeee...hhhhhh.............eee..hhhhhhhhhhhhhhhhhhhh.hhhhhhhhh....................................hhhhh..........ee.........hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4qol B   6 HKNLTTNQGVPVGDNQNSRTAGHRGPSFLDDYHLIEKLAHFDRERIPERVVHARGAGAYGVFEVENSMEKHTRAAFLSEEGKQTDVFVRFSTVIHPKGSPETLRDPRGFAVKFYTEEGNYDLVGNNLPIFFIRDALKFPDMVHSLKPDPVTNIQDPDRYWDFMTLTPESTHMLTWLFSDEGIPANYAEMRGSGVHTFRWVNKYGETKYVKYHWRPSEGIRNLSMEEAAEIQANDFQHATRDLYDRIEKGNYPAWDLYVQLMPLSDYDELDYDPCDPTKTWSEEDYPLQKVGRMTLNRNPENFFAETEQAAFTPSALVPGIEASEDKLLQGRLFSYPDTQRHRLGANYMRIPVNCPYAPVHNNQQDGFMTTTRPSGHINYEPNRYDDQPKENPHYKESEPVLHGDRMVRQKIEKPNDFKQAGEKYRSYSEEEKQALIKNLTADLKGVNEKTKLLAICNFYRADEDYGQRLADSLGVDIRSY 485
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485


Chain C from PDB  Type:PROTEIN  Length:480
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...................ee.........hhhhhhhhhhhh............eeeeeeeeee.........hhhhh....eeeeeeeee................eeeeeeee..eeeeeeee........hhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhh........ee....eeee.....eeeeeeeeee.......hhhhhhhhhhhh.hhhhhhhhhhhhhh...eeeeeeeeee.hhhhhh..................eeeeeeeeee...hhhhhh.............eee..hhhhhhhhhhhhhhhhhhhh.hhhhhhhhh....................................hhhhh..........ee.........hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4qol C   6 HKNLTTNQGVPVGDNQNSRTAGHRGPSFLDDYHLIEKLAHFDRERIPERVVHARGAGAYGVFEVENSMEKHTRAAFLSEEGKQTDVFVRFSTVIHPKGSPETLRDPRGFAVKFYTEEGNYDLVGNNLPIFFIRDALKFPDMVHSLKPDPVTNIQDPDRYWDFMTLTPESTHMLTWLFSDEGIPANYAEMRGSGVHTFRWVNKYGETKYVKYHWRPSEGIRNLSMEEAAEIQANDFQHATRDLYDRIEKGNYPAWDLYVQLMPLSDYDELDYDPCDPTKTWSEEDYPLQKVGRMTLNRNPENFFAETEQAAFTPSALVPGIEASEDKLLQGRLFSYPDTQRHRLGANYMRIPVNCPYAPVHNNQQDGFMTTTRPSGHINYEPNRYDDQPKENPHYKESEPVLHGDRMVRQKIEKPNDFKQAGEKYRSYSEEEKQALIKNLTADLKGVNEKTKLLAICNFYRADEDYGQRLADSLGVDIRSY 485
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485


Chain D from PDB  Type:PROTEIN  Length:480
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...................ee.........hhhhhhhhhhhh............eeeeeeeeee.........hhhhh....eeeeeeeee................eeeeeeee..eeeeeeee........hhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhh........ee....eeee.....eeeeeeeeee.......hhhhhhhhhh...hhhhhhhhhhhhhh...eeeeeeeeee.hhhhhh..................eeeeeeeeee...hhhhhh.............eee..hhhhhhhhhhhhhhhhhhhh.hhhhhhhhh....................................hhhhh..........ee.........hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4qol D   6 HKNLTTNQGVPVGDNQNSRTAGHRGPSFLDDYHLIEKLAHFDRERIPERVVHARGAGAYGVFEVENSMEKHTRAAFLSEEGKQTDVFVRFSTVIHPKGSPETLRDPRGFAVKFYTEEGNYDLVGNNLPIFFIRDALKFPDMVHSLKPDPVTNIQDPDRYWDFMTLTPESTHMLTWLFSDEGIPANYAEMRGSGVHTFRWVNKYGETKYVKYHWRPSEGIRNLSMEEAAEIQANDFQHATRDLYDRIEKGNYPAWDLYVQLMPLSDYDELDYDPCDPTKTWSEEDYPLQKVGRMTLNRNPENFFAETEQAAFTPSALVPGIEASEDKLLQGRLFSYPDTQRHRLGANYMRIPVNCPYAPVHNNQQDGFMTTTRPSGHINYEPNRYDDQPKENPHYKESEPVLHGDRMVRQKIEKPNDFKQAGEKYRSYSEEEKQALIKNLTADLKGVNEKTKLLAICNFYRADEDYGQRLADSLGVDIRSY 485
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485
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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 4QOL)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)

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        W8QL66_BACPU | W8QL66: 4qom 4qon 4qoo 4qop 4qoq 4qor

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