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(-) Description

Title :  E134C-CELLOBIOSE CO-CRYSTAL OF CELLULASE 12A FROM THERMOTOGA MARITIMA
 
Authors :  Y. -S. Cheng, T. -P. Ko, J. -R. Liu, R. -T. Guo
Date :  20 Aug 10  (Deposition) - 16 Mar 11  (Release) - 29 Jan 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Keywords :  Beta Jellyroll, Glucanase, Cellulose, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. -S. Cheng, T. -P. Ko, T. -H. Wu, Y. Ma, C. -H. Huang, H. -L. Lai, A. H. -J. Wang, J. -R. Liu, R. -T. Guo
Crystal Structure And Substrate-Binding Mode Of Cellulase 12A From Thermotoga Maritima
Proteins V. 79 1193 2011
PubMed-ID: 21268113  |  Reference-DOI: 10.1002/PROT.22953

(-) Compounds

Molecule 1 - ENDO-1,4-BETA-GLUCANASE
    Chains: A, B, C, D
    EC Number: 3.2.1.4
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET16B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Scientific: THERMOTOGA MARITIMA
    Organism Taxid: 2336
    Synonym: CELLULASE 12A

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A   
Biological Unit 2 (1x):  B  
Biological Unit 3 (1x):   C 
Biological Unit 4 (1x):    D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 7)

Asymmetric Unit (2, 7)
No.NameCountTypeFull Name
1BGC3Ligand/IonBETA-D-GLUCOSE
2CBK4Ligand/Ion4-O-BETA-D-GLUCOPYRANOSYL-ALPHA-D-GLUCOPYRANOSE
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
1BGC1Ligand/IonBETA-D-GLUCOSE
2CBK1Ligand/Ion4-O-BETA-D-GLUCOPYRANOSYL-ALPHA-D-GLUCOPYRANOSE
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
1BGC1Ligand/IonBETA-D-GLUCOSE
2CBK1Ligand/Ion4-O-BETA-D-GLUCOPYRANOSYL-ALPHA-D-GLUCOPYRANOSE
Biological Unit 3 (2, 2)
No.NameCountTypeFull Name
1BGC1Ligand/IonBETA-D-GLUCOSE
2CBK1Ligand/Ion4-O-BETA-D-GLUCOPYRANOSYL-ALPHA-D-GLUCOPYRANOSE
Biological Unit 4 (1, 1)
No.NameCountTypeFull Name
1BGC-1Ligand/IonBETA-D-GLUCOSE
2CBK1Ligand/Ion4-O-BETA-D-GLUCOPYRANOSYL-ALPHA-D-GLUCOPYRANOSE

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:24 , TRP A:26 , ARG A:60 , TYR A:65 , LYS A:73 , TRP A:75 , GLU A:116 , CYS A:134 , MET A:136 , GLU A:231 , HOH A:269 , HOH A:270 , HOH A:271 , HOH A:283 , HOH A:306 , HOH A:830 , BGC A:902BINDING SITE FOR RESIDUE CBK A 901
2AC2SOFTWAREARG A:60 , VAL A:62 , TRP A:138 , THR A:145 , PRO A:146 , GLY A:147 , TYR A:180 , GLU A:231 , HOH A:304 , HOH A:573 , CBK A:901BINDING SITE FOR RESIDUE BGC A 902
3AC3SOFTWAREASN B:24 , TRP B:26 , ARG B:60 , TYR B:65 , LYS B:73 , TRP B:75 , GLU B:116 , CYS B:134 , MET B:136 , TRP B:178 , GLU B:231 , HOH B:283 , HOH B:284 , HOH B:292 , HOH B:303 , HOH B:621 , BGC B:902 , HOH B:1022BINDING SITE FOR RESIDUE CBK B 901
4AC4SOFTWAREARG B:60 , MET B:136 , TRP B:138 , THR B:145 , PRO B:146 , GLY B:147 , TYR B:180 , GLU B:231 , HOH B:426 , HOH B:427 , CBK B:901BINDING SITE FOR RESIDUE BGC B 902
5AC5SOFTWAREASN C:24 , TRP C:26 , ARG C:60 , TYR C:65 , LYS C:73 , TRP C:75 , GLU C:116 , CYS C:134 , MET C:136 , TRP C:178 , GLU C:231 , HOH C:392 , HOH C:395 , HOH C:397 , HOH C:398 , HOH C:683 , BGC C:902BINDING SITE FOR RESIDUE CBK C 901
6AC6SOFTWAREARG C:60 , VAL C:62 , MET C:136 , TRP C:138 , THR C:145 , PRO C:146 , GLY C:147 , TRP C:176 , TYR C:180 , GLU C:231 , HOH C:420 , CBK C:901BINDING SITE FOR RESIDUE BGC C 902
7AC7SOFTWAREASN D:24 , TRP D:26 , ARG D:60 , TYR D:65 , LYS D:73 , GLU D:116 , TRP D:118 , CYS D:134 , MET D:136 , TRP D:176 , TRP D:178 , GLU D:231 , HOH D:484 , HOH D:487 , HOH D:707BINDING SITE FOR RESIDUE CBK D 901

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Leu A:85 -Pro A:86
2Leu B:85 -Pro B:86
3Leu C:85 -Pro C:86
4Leu D:85 -Pro D:86

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3AMQ)

(-) 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:257
 aligned with Q60032_THEMT | Q60032 from UniProtKB/TrEMBL  Length:257

    Alignment length:257
                                    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       
         Q60032_THEMT     1 MVLMTKPGTSDFVWNGIPLSMELNLWNIKEYSGSVAMKFDGEKITFDADIQNLSPKEPERYVLGYPEFYYGYKPWENHTAEGSKLPVPVSSMKSFSVEVSFDIHHEPSLPLNFAMETWLTREKYQTEASIGDVEIMVWFYFNNLTPGGEKIEEFTIPFVLNGESVEGTWELWLAEWGWDYLAFRLKDPVKKGRVKFDVRHFLDAAGKALSSSARVKDFEDLYFTVWEIGTEFGSPETKSAQFGWKFENFSIDLEVRE 257
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee...eeeeeee..eeeeeee....eeeeeeeeeeee....eeeeeeeeeeee.hhhhh.....eeeeeeehhhhee.......ee...eeeeeeeeeeeeee.....eeeeeeeeee............eeeeeeeeee......eeeeeeeeeeee..eeeeeeeeeeeee...eeeeeee.....eeeeeeehhhhhhhhhhhh.......hhhh.ee.eeeee..........eeeeeeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3amq A   1 MVLMTKPGTSDFVWNGIPLSMELNLWNIKEYSGSVAMKFDGEKITFDADIQNLSPKEPERYVLGYPEFYYGYKPWENHTAEGSKLPVPVSSMKSFSVEVSFDIHHEPSLPLNFAMETWLTREKYQTEASIGDVCIMVWFYFNNLTPGGEKIEEFTIPFVLNGESVEGTWELWLAEWGWDYLAFRLKDPVKKGRVKFDVRHFLDAAGKALSSSARVKDFEDLYFTVWEIGTEFGSPETKSAQFGWKFENFSIDLEVRE 257
                                    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       


Chain B from PDB  Type:PROTEIN  Length:256
 aligned with Q60032_THEMT | Q60032 from UniProtKB/TrEMBL  Length:257

    Alignment length:256
                                    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      
         Q60032_THEMT     1 MVLMTKPGTSDFVWNGIPLSMELNLWNIKEYSGSVAMKFDGEKITFDADIQNLSPKEPERYVLGYPEFYYGYKPWENHTAEGSKLPVPVSSMKSFSVEVSFDIHHEPSLPLNFAMETWLTREKYQTEASIGDVEIMVWFYFNNLTPGGEKIEEFTIPFVLNGESVEGTWELWLAEWGWDYLAFRLKDPVKKGRVKFDVRHFLDAAGKALSSSARVKDFEDLYFTVWEIGTEFGSPETKSAQFGWKFENFSIDLEVR 256
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee...eeeeeee..eeeeeee....eeeeeeeeeeee...eeeeeeeeeeeee.hhhhh.....eeeeeeehhhhee.......ee...eeeeeeeeeeeeee.....eeeeeeeeee............eeeeeeeeee......eeeeeeeeeeee..eeeeeeeeeeeee...eeeeeee.....eeeeeeehhhhhhhhhhhh.......hhhh.ee.eeeee..........eeeeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3amq B   1 MVLMTKPGTSDFVWNGIPLSMELNLWNIKEYSGSVAMKFDGEKITFDADIQNLSPKEPERYVLGYPEFYYGYKPWENHTAEGSKLPVPVSSMKSFSVEVSFDIHHEPSLPLNFAMETWLTREKYQTEASIGDVCIMVWFYFNNLTPGGEKIEEFTIPFVLNGESVEGTWELWLAEWGWDYLAFRLKDPVKKGRVKFDVRHFLDAAGKALSSSARVKDFEDLYFTVWEIGTEFGSPETKSAQFGWKFENFSIDLEVR 256
                                    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      


Chain C from PDB  Type:PROTEIN  Length:256
 aligned with Q60032_THEMT | Q60032 from UniProtKB/TrEMBL  Length:257

    Alignment length:256
                                    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      
         Q60032_THEMT     1 MVLMTKPGTSDFVWNGIPLSMELNLWNIKEYSGSVAMKFDGEKITFDADIQNLSPKEPERYVLGYPEFYYGYKPWENHTAEGSKLPVPVSSMKSFSVEVSFDIHHEPSLPLNFAMETWLTREKYQTEASIGDVEIMVWFYFNNLTPGGEKIEEFTIPFVLNGESVEGTWELWLAEWGWDYLAFRLKDPVKKGRVKFDVRHFLDAAGKALSSSARVKDFEDLYFTVWEIGTEFGSPETKSAQFGWKFENFSIDLEVR 256
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee...eeeeeee..eeeeeee....eeeeeeeeeeee...eeeeeeeeeeeee.hhhhh.....eeeeeeehhhhee.......ee...eeeeeeeeeeeeee.....eeeeeeeeee............eeeeeeeeee......eeeeeeeeeeee..eeeeeeeeeeeee...eeeeeee.....eeeeeeehhhhhhhhhhhh.......hhhh.ee.eeeee..........eeeeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3amq C   1 MVLMTKPGTSDFVWNGIPLSMELNLWNIKEYSGSVAMKFDGEKITFDADIQNLSPKEPERYVLGYPEFYYGYKPWENHTAEGSKLPVPVSSMKSFSVEVSFDIHHEPSLPLNFAMETWLTREKYQTEASIGDVCIMVWFYFNNLTPGGEKIEEFTIPFVLNGESVEGTWELWLAEWGWDYLAFRLKDPVKKGRVKFDVRHFLDAAGKALSSSARVKDFEDLYFTVWEIGTEFGSPETKSAQFGWKFENFSIDLEVR 256
                                    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      


Chain D from PDB  Type:PROTEIN  Length:256
 aligned with Q60032_THEMT | Q60032 from UniProtKB/TrEMBL  Length:257

    Alignment length:256
                                    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      
         Q60032_THEMT     1 MVLMTKPGTSDFVWNGIPLSMELNLWNIKEYSGSVAMKFDGEKITFDADIQNLSPKEPERYVLGYPEFYYGYKPWENHTAEGSKLPVPVSSMKSFSVEVSFDIHHEPSLPLNFAMETWLTREKYQTEASIGDVEIMVWFYFNNLTPGGEKIEEFTIPFVLNGESVEGTWELWLAEWGWDYLAFRLKDPVKKGRVKFDVRHFLDAAGKALSSSARVKDFEDLYFTVWEIGTEFGSPETKSAQFGWKFENFSIDLEVR 256
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee...eeeeeee..eeeeeee....eeeeeeeeeeee....eeeeeeeeeeee.hhhhh.....eeeee.hhhhh.........ee...eeeeeeeeeeeeee.....eeeeeeeeee............eeeeeeeeee......eeeeeeeeeeee..eeeeeeeeeeeee...eeeeeee.....eeeeeeehhhhhhhhhhhhh......hhhh.ee.eeeee..........eeeeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3amq D   1 MVLMTKPGTSDFVWNGIPLSMELNLWNIKEYSGSVAMKFDGEKITFDADIQNLSPKEPERYVLGYPEFYYGYKPWENHTAEGSKLPVPVSSMKSFSVEVSFDIHHEPSLPLNFAMETWLTREKYQTEASIGDVCIMVWFYFNNLTPGGEKIEEFTIPFVLNGESVEGTWELWLAEWGWDYLAFRLKDPVKKGRVKFDVRHFLDAAGKALSSSARVKDFEDLYFTVWEIGTEFGSPETKSAQFGWKFENFSIDLEVR 256
                                    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
   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 3AMQ)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (Q60032_THEMT | Q60032)
molecular function
    GO:0008810    cellulase activity    Catalysis of the endohydrolysis of (1->4)-beta-D-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0016798    hydrolase activity, acting on glycosyl bonds    Catalysis of the hydrolysis of any glycosyl bond.
    GO:0004553    hydrolase activity, hydrolyzing O-glycosyl compounds    Catalysis of the hydrolysis of any O-glycosyl bond.
biological process
    GO:0005975    carbohydrate metabolic process    The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
    GO:0000272    polysaccharide catabolic process    The chemical reactions and pathways resulting in the breakdown of a polysaccharide, a polymer of many (typically more than 10) monosaccharide residues linked glycosidically.

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  3amq
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 Related Entries

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

UniProtKB/TrEMBL
        Q60032_THEMT | Q60032: 3amh 3amm 3amn 3amp 3vhn 3vho 3vhp

(-) Related Entries Specified in the PDB File

3amh NATIVE WILD-TYPE PROTEIN
3amm WILD-TYPE PROTEIN CELLOTETRAOSE COMPLEX
3amn E134C MUTANT CRYSTAL SOAKED WITH CELLOBIOSE
3amp E134C MUTANT CRYSTAL SOAKED WITH CELLOTETRAOSE