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(-) Description

Title :  CPF_2247, A NOVEL ALPHA-AMYLASE FROM CLOSTRIDIUM PERFRINGENS
 
Authors :  E. Ficko-Blean, C. P. Stuart, A. B. Boraston
Date :  04 Apr 11  (Deposition) - 18 May 11  (Release) - 04 Sep 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  (Alpha/Alpha)6-Barrel Fold, Alpha-Amylase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. Ficko-Blean, C. P. Stuart, A. B. Boraston
Structural Analysis Of Cpf_2247, A Novel Alpha-Amylase From Clostridium Perfringens.
Proteins V. 79 2771 2011
PubMed-ID: 21905105  |  Reference-DOI: 10.1002/PROT.23116

(-) Compounds

Molecule 1 - GLYCOSYL HYDROLASE, FAMILY 8
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 43-371
    Gene: CPF_2247
    Organism Scientific: CLOSTRIDIUM PERFRINGENS
    Organism Taxid: 1502

 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  (4, 31)

Asymmetric Unit (4, 31)
No.NameCountTypeFull Name
1EDO13Ligand/Ion1,2-ETHANEDIOL
2MG3Ligand/IonMAGNESIUM ION
3MSE12Mod. Amino AcidSELENOMETHIONINE
4SO43Ligand/IonSULFATE ION
Biological Unit 1 (3, 14)
No.NameCountTypeFull Name
1EDO7Ligand/Ion1,2-ETHANEDIOL
2MG-1Ligand/IonMAGNESIUM ION
3MSE6Mod. Amino AcidSELENOMETHIONINE
4SO41Ligand/IonSULFATE ION
Biological Unit 2 (3, 14)
No.NameCountTypeFull Name
1EDO6Ligand/Ion1,2-ETHANEDIOL
2MG-1Ligand/IonMAGNESIUM ION
3MSE6Mod. Amino AcidSELENOMETHIONINE
4SO42Ligand/IonSULFATE ION

(-) Sites  (19, 19)

Asymmetric Unit (19, 19)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:371 , HOH A:687 , HOH A:688 , HOH A:689 , HOH A:690 , HOH A:691 , HOH A:745BINDING SITE FOR RESIDUE MG A 1
02AC2SOFTWAREASP A:54 , HOH A:692 , HOH A:693 , HOH A:694 , HOH A:695 , HOH A:904BINDING SITE FOR RESIDUE MG A 372
03AC3SOFTWARETRP A:121 , ARG A:122 , SER A:129 , HOH A:380BINDING SITE FOR RESIDUE SO4 A 2
04AC4SOFTWARETYR A:92 , ASN A:98 , EDO B:376 , EDO B:377BINDING SITE FOR RESIDUE EDO A 373
05AC5SOFTWAREHOH A:15 , LYS A:53 , HOH A:724 , HOH A:774 , TYR B:66 , HIS B:79BINDING SITE FOR RESIDUE EDO A 374
06AC6SOFTWARELYS A:57 , SER A:58 , GLY A:59 , GLU A:104 , HIS A:105 , ILE A:108 , EDO A:376 , HOH A:461BINDING SITE FOR RESIDUE EDO A 375
07AC7SOFTWARESER A:56 , ILE A:62 , MSE A:89 , LEU A:101 , HIS A:105 , EDO A:375BINDING SITE FOR RESIDUE EDO A 376
08AC8SOFTWAREPRO A:198 , LEU A:202 , HOH A:499BINDING SITE FOR RESIDUE EDO A 377
09AC9SOFTWARELYS A:216 , SER A:219 , ILE A:220 , ASN A:223 , PHE A:237 , TYR A:244BINDING SITE FOR RESIDUE EDO A 378
10BC1SOFTWAREGLN A:334 , ILE A:335 , LYS A:336 , ASN A:337 , GLU A:349 , HOH A:710BINDING SITE FOR RESIDUE EDO A 379
11BC2SOFTWAREASP B:54 , HOH B:682 , HOH B:683 , HOH B:684 , HOH B:685 , HOH B:686BINDING SITE FOR RESIDUE MG B 1
12BC3SOFTWAREGLY B:39 , GLU B:43 , TYR B:369 , HOH B:410BINDING SITE FOR RESIDUE SO4 B 372
13BC4SOFTWARETRP B:121 , ARG B:122 , SER B:129 , PRO B:130 , HOH B:906BINDING SITE FOR RESIDUE SO4 B 3
14BC5SOFTWARESER B:56 , LYS B:57 , SER B:58 , GLY B:59 , GLU B:104 , ILE B:108 , EDO B:374 , HOH B:696BINDING SITE FOR RESIDUE EDO B 373
15BC6SOFTWARESER B:56 , ILE B:62 , MSE B:89 , LEU B:101 , GLU B:104 , HIS B:105 , EDO B:373 , HOH B:594BINDING SITE FOR RESIDUE EDO B 374
16BC7SOFTWARESER A:40 , MSE A:42 , TYR B:180 , GLY B:187 , ASN B:188 , THR B:189 , HOH B:383BINDING SITE FOR RESIDUE EDO B 375
17BC8SOFTWARELYS A:45 , EDO A:373 , HOH A:719 , ASN B:188 , EDO B:377BINDING SITE FOR RESIDUE EDO B 376
18BC9SOFTWAREALA A:96 , EDO A:373 , TYR B:238 , THR B:241 , EDO B:376 , HOH B:406 , HOH B:453BINDING SITE FOR RESIDUE EDO B 377
19CC1SOFTWAREGLU B:111 , MSE B:112 , LYS B:123 , ASP B:126 , ASN B:128 , HOH B:711BINDING SITE FOR RESIDUE EDO B 378

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3REN)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3REN)

(-) 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:337
 aligned with A0A0H2YP60_C | A0A0H2YP60 from UniProtKB/TrEMBL  Length:371

    Alignment length:367
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       
         A0A0H2YP60_C     5 LIAIGGILIIAIFILFFNREYLKPVHMDINWNDNFNPPEEKMLFDFIEKDLSKSGYGIYTNYIDKSSEGDITKGHSVLSESEGLMMLYSVNANNKELFDEHFDIVKEMRLKNGLISWRKEGDENSPSSATIDELRIIKALLLANNRWNSFYYKFYAINIANSLLKHAEENETLVDYIDNYGKGNTTTLCYLDLPTMKLLSQVDKKWEGIYEKSNSIIENGKISEEVPLYRKVFYEETQKYDEEENVDFLLSTIVILNRIEAGENEESSIKWIKEKFKKDGFLVATYNGKNGDATSQIESPSIYSNVALIANYIGDKELFNKAIDKLKYYQIKNKDSVLYGGFGDEKTNSVYSFDNLNALLAFQKYKD 371
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....-------------------.hh-----------hhhhhhhhhhhhhee...ee..................eehhhhhhhhhhhhhh.hhhhhhhhhhhhhh..........eee..ee...eehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhee..ee..ee.......eee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh............eee....ee....eeehhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh....eee...........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....................hhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ren A  35 LVPRG-------------------SHm-----------EEKmLFDFIEKDLSKSGYGIYTNYIDKSSEGDITKGHSVLSESEGLmmLYSVNANNKELFDEHFDIVKEmRLKNGLISWRKEGDENSPSSATIDELRIIKALLLANNRWNSFYYKFYAINIANSLLKHAEENETLVDYIDNYGKGNTTTLCYLDLPTmKLLSQVDKKWEGIYEKSNSIIENGKISEEVPLYRKVFYEETQKYDEEENVDFLLSTIVILNRIEAGENEESSIKWIKEKFKKDGFLVATYNGKNGDATSQIESPSIYSNVALIANYIGDKELFNKAIDKLKYYQIKNKDSVLYGGFGDEKTNSVYSFDNLNALLAFQKYKD 371
                                |    -         -    | |  -        44 |      54        64        74        84    ||  94       104       114       124       134       144       154       164       174       184       194     | 204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       
                               39                  40 |          43  |                                         89-MSE                112-MSE                                                                                 200-MSE                                                                                                                                                                       
                                                     42-MSE         46-MSE                                      90-MSE                                                                                                                                                                                                                                                                                     


Chain B from PDB  Type:PROTEIN  Length:332
 aligned with A0A0H2YP60_C | A0A0H2YP60 from UniProtKB/TrEMBL  Length:371

    Alignment length:365
                                    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     
         A0A0H2YP60_C     6 IAIGGILIIAIFILFFNREYLKPVHMDINWNDNFNPPEEKMLFDFIEKDLSKSGYGIYTNYIDKSSEGDITKGHSVLSESEGLMMLYSVNANNKELFDEHFDIVKEMRLKNGLISWRKEGDENSPSSATIDELRIIKALLLANNRWNSFYYKFYAINIANSLLKHAEENETLVDYIDNYGKGNTTTLCYLDLPTMKLLSQVDKKWEGIYEKSNSIIENGKISEEVPLYRKVFYEETQKYDEEENVDFLLSTIVILNRIEAGENEESSIKWIKEKFKKDGFLVATYNGKNGDATSQIESPSIYSNVALIANYIGDKELFNKAIDKLKYYQIKNKDSVLYGGFGDEKTNSVYSFDNLNALLAFQKYK 370
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....-------------------.hh-----------hhhhhhhhhhhhhee...ee........---.......eehhhhhhhhhhhhhh.hhhhhhhhhhhhhhh.........eee..ee...eehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhee..ee..ee.......eee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh............eee....ee....eeehhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh....eee...........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....................hhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ren B  36 VPRG-------------------SHm-----------EEKmLFDFIEKDLSKSGYGIYTNYIDKS---DITKGHSVLSESEGLmmLYSVNANNKELFDEHFDIVKEmRLKNGLISWRKEGDENSPSSATIDELRIIKALLLANNRWNSFYYKFYAINIANSLLKHAEENETLVDYIDNYGKGNTTTLCYLDLPTmKLLSQVDKKWEGIYEKSNSIIENGKISEEVPLYRKVFYEETQKYDEEENVDFLLSTIVILNRIEAGENEESSIKWIKEKFKKDGFLVATYNGKNGDATSQIESPSIYSNVALIANYIGDKELFNKAIDKLKYYQIKNKDSVLYGGFGDEKTNSVYSFDNLNALLAFQKYK 370
                               |     -         -   | |   -       |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     
                              39                  40 |          43  |                      70  74             89-MSE                112-MSE                                                                                 200-MSE                                                                                                                                                                      
                                                    42-MSE         46-MSE                                      90-MSE
   Legend:   → Mismatch (orange background)
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

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