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(-) Description

Title :  CRYSTAL STRUCTURE OF LEVAN FRUCTOTRANSFERASE D54N MUTANT FROM ARTHROBACTER UREAFACIENS IN COMPLEX WITH LEVANBIOSE
 
Authors :  J. Park, S. Rhee
Date :  01 Jun 12  (Deposition) - 18 Jul 12  (Release) - 26 Sep 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
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 :  Glycoside Hydrolase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Park, M. I. Kim, Y. D. Park, I. Shin, J. Cha, C. H. Kim, S. Rhee
Structural And Functional Basis For Substrate Specificity And Catalysis Of Levan Fructotransferase.
J. Biol. Chem. V. 287 31233 2012
PubMed-ID: 22810228  |  Reference-DOI: 10.1074/JBC.M112.389270

(-) Compounds

Molecule 1 - LEVAN FRUCTOTRANSFERASE
    Chains: A, B, C, D
    EC Number: 4.2.2.16
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 41-521
    Gene: LFTA
    Mutation: YES
    Organism Scientific: ARTHROBACTER UREAFACIENS
    Organism Taxid: 37931

 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, 10)

Asymmetric Unit (2, 10)
No.NameCountTypeFull Name
10UB1Ligand/IonBETA-D-FRUCTOFURANOSYL-(2->6)-BETA-D-FRUCTOFURANOSYL-(2->6)-BETA-D-FRUCTOFURANOSE
2LBS9Ligand/Ion6-O-BETA-D-FRUCTOFURANOSYL-BETA-D-FRUCTOFURANOSE
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
10UB-1Ligand/IonBETA-D-FRUCTOFURANOSYL-(2->6)-BETA-D-FRUCTOFURANOSYL-(2->6)-BETA-D-FRUCTOFURANOSE
2LBS2Ligand/Ion6-O-BETA-D-FRUCTOFURANOSYL-BETA-D-FRUCTOFURANOSE
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
10UB1Ligand/IonBETA-D-FRUCTOFURANOSYL-(2->6)-BETA-D-FRUCTOFURANOSYL-(2->6)-BETA-D-FRUCTOFURANOSE
2LBS1Ligand/Ion6-O-BETA-D-FRUCTOFURANOSYL-BETA-D-FRUCTOFURANOSE
Biological Unit 3 (1, 3)
No.NameCountTypeFull Name
10UB-1Ligand/IonBETA-D-FRUCTOFURANOSYL-(2->6)-BETA-D-FRUCTOFURANOSYL-(2->6)-BETA-D-FRUCTOFURANOSE
2LBS3Ligand/Ion6-O-BETA-D-FRUCTOFURANOSYL-BETA-D-FRUCTOFURANOSE
Biological Unit 4 (1, 3)
No.NameCountTypeFull Name
10UB-1Ligand/IonBETA-D-FRUCTOFURANOSYL-(2->6)-BETA-D-FRUCTOFURANOSYL-(2->6)-BETA-D-FRUCTOFURANOSE
2LBS3Ligand/Ion6-O-BETA-D-FRUCTOFURANOSYL-BETA-D-FRUCTOFURANOSE

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:168 , ASN A:180 , ARG A:204 , TYR A:207 , ASN A:224 , ASP A:226 , HOH A:769BINDING SITE FOR RESIDUE LBS A 601
02AC2SOFTWAREASN A:408 , ASN A:424 , TYR A:428 , TYR A:433 , ASP A:435 , ARG A:451 , ASP A:503 , HOH A:730 , HOH A:876BINDING SITE FOR RESIDUE LBS A 602
03AC3SOFTWAREASP B:168 , ASN B:180 , TYR B:207 , LEU B:221 , ASN B:224 , ASP B:226 , HOH B:780BINDING SITE FOR RESIDUE LBS B 601
04AC4SOFTWARESER B:385 , ASN B:408 , SER B:412 , ASN B:424 , TYR B:433 , ASP B:435 , ARG B:451 , SER B:499 , TYR B:501 , THR B:502 , ASP B:503 , HOH B:737 , HOH B:758BINDING SITE FOR RESIDUE 0UB B 602
05AC5SOFTWARETRP C:51 , CYS C:53 , ASN C:54 , SER C:72 , ASN C:76 , GLY C:77 , GLY C:79 , VAL C:107 , TRP C:108 , ARG C:185 , GLU C:236 , TRP C:322 , HOH C:757 , HOH C:761 , HOH C:923 , HOH C:924 , HOH C:925 , HOH C:926BINDING SITE FOR RESIDUE LBS C 601
06AC6SOFTWAREASP C:168 , ASN C:180 , ARG C:204 , TYR C:207 , ASN C:224 , ASP C:226 , HOH C:791 , HOH C:795 , HOH C:800 , HOH C:833BINDING SITE FOR RESIDUE LBS C 602
07AC7SOFTWAREASN C:408 , ASN C:424 , TYR C:428 , TYR C:433 , ASP C:435 , ARG C:451 , ASP C:503 , HOH C:837BINDING SITE FOR RESIDUE LBS C 603
08AC8SOFTWARETRP D:51 , CYS D:53 , ASN D:54 , SER D:72 , ASN D:76 , GLY D:77 , GLY D:79 , VAL D:107 , TRP D:108 , ARG D:185 , GLU D:236 , TRP D:322 , HOH D:875 , HOH D:915BINDING SITE FOR RESIDUE LBS D 601
09AC9SOFTWAREASP D:168 , ASN D:180 , ARG D:204 , TYR D:207 , ASN D:224 , ASP D:226 , HOH D:839 , HOH D:848BINDING SITE FOR RESIDUE LBS D 602
10BC1SOFTWAREASN D:408 , ASN D:424 , TYR D:428 , TYR D:433 , ASP D:435 , ARG D:451 , ASP D:503 , HOH D:748 , HOH D:792 , HOH D:802 , HOH D:906BINDING SITE FOR RESIDUE LBS D 603

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Ala A:447 -Pro A:448
2Ala B:447 -Pro B:448
3Ala C:447 -Pro C:448
4Ala D:447 -Pro D:448

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4FFI)

(-) 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:480
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .........eeeeeeeeeeee..eeeeeeeee.......eeeeeee......eeeeeee..........eeeeee..........eeeeeeeee.hhhhh.eeeeeeee.......ee.......hhhhhhh...hhhhhhh.eeeeeeeee....eeeeeeee..eeeeeee......ee..............eeeeeeeee.....eeeeeeee..hhhhh....eeeeeeee....eee.....ee.......eeeeeee........eeeeee..........hhhhhhhhee......eeeeeeee...eeeeeeee.hhhhh.eeeeee...eee..eee.......eeeeeeeee....eeeeeeee.......eeeeee..eeeee.hhhh..........eeeee......eeeeeeeee..eeeeee....eeeeee........eeeeeee...eeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4ffi A  41 AVYHMTPPSGWLCNPQRPVTTHGAYQLYYLHSDQNNGPGGWDHASTTDGVAFTHHGTVMPLRPDFPVWSGSAVVDTANTAGFGAGAVVALATQPTDGVRKYQEQYLYWSTDGGFTFTALPDPVIVNTDGRAATTPAEIENAEWFRDPKIHWDTARGEWVCVIGRLRYAAFYTSPNLRDWTLRRNFDYPNHALGGIECPDLFEITADDGTRHWVLAASMDAYGIGLPMTYAYWTGTWDGEQFHADDLTPQWLDWGWDWYAAVTWPSIDAPETKRLAIAWMNNWKYAARDVPTDASDGYNGQNSIVRELRLARQPGGWYTLLSTPVAALTNYVTATTTLPDRTVDGSAVLPWNGRAYEIELDIAWDTATNVGISVGRSPDGTRHTNIGKYGADLYVDRGPSDLAGYSLAPYSRAAAPIDPGARSVHLRILVDTQSVEVFVNAGHTVLSQQVHFAEGDTGISLYTDGGPAHFTGIVVREIGQA 520
                                    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       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520


Chain B from PDB  Type:PROTEIN  Length:480
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .........eeeeeeeeeeee..eeeeeeeee.......eeeeeee......eeeeeee..........eeeee............eeeeeeee.hhhhh.eeeeeeee.......ee.......hhhhhhh.hhhhhhhhh.eeeeeeeee....eeeeeeee..eeeeeee......ee.......hhhhh..eeeeeeeee.....eeeeeeee..hhhhh....eeeeeeee....eee.....ee.......eeeeeee........eeeeee..........hhhhhhhhee......eeeeeeee...eeeeeeee.hhhhh.eeeeeee..eee..eee.......eeeeeeeee....eeeeeeee.......eeeeee..eeeee.hhhh..........eeeee......eeeeeeeee..eeeeee....eeeeee........eeeeeee...eeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4ffi B  41 AVYHMTPPSGWLCNPQRPVTTHGAYQLYYLHSDQNNGPGGWDHASTTDGVAFTHHGTVMPLRPDFPVWSGSAVVDTANTAGFGAGAVVALATQPTDGVRKYQEQYLYWSTDGGFTFTALPDPVIVNTDGRAATTPAEIENAEWFRDPKIHWDTARGEWVCVIGRLRYAAFYTSPNLRDWTLRRNFDYPNHALGGIECPDLFEITADDGTRHWVLAASMDAYGIGLPMTYAYWTGTWDGEQFHADDLTPQWLDWGWDWYAAVTWPSIDAPETKRLAIAWMNNWKYAARDVPTDASDGYNGQNSIVRELRLARQPGGWYTLLSTPVAALTNYVTATTTLPDRTVDGSAVLPWNGRAYEIELDIAWDTATNVGISVGRSPDGTRHTNIGKYGADLYVDRGPSDLAGYSLAPYSRAAAPIDPGARSVHLRILVDTQSVEVFVNAGHTVLSQQVHFAEGDTGISLYTDGGPAHFTGIVVREIGQA 520
                                    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       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520


Chain C from PDB  Type:PROTEIN  Length:479
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeeeeeeeeeee..eeeeeeeee.......eeeeeee......eeeeeee..........eeeee............eeeeeeee.hhhhh.eeeeeeee.......ee.......hhhhhhh.hhhhhhhhh.eeeeeeeee....eeeeeeee....eeeee......ee.......hhhhh..eeeeeeeee.....eeeeeeee..hhhhh....eeeeeeee....eee.....ee.......eeeeeee........eeeeee..........hhhhhhhhee......eeeeeeee...eeeeeeee.hhhhh.eeeeee...eee..eee.......eeeeeeeee....eeeeeeee.......eeeeee..eeeee.hhhh..........eeeee......eeeeeeeee..eeeeee.....eeeee........eeeeeee...eeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ffi C  41 AVYHMTPPSGWLCNPQRPVTTHGAYQLYYLHSDQNNGPGGWDHASTTDGVAFTHHGTVMPLRPDFPVWSGSAVVDTANTAGFGAGAVVALATQPTDGVRKYQEQYLYWSTDGGFTFTALPDPVIVNTDGRAATTPAEIENAEWFRDPKIHWDTARGEWVCVIGRLRYAAFYTSPNLRDWTLRRNFDYPNHALGGIECPDLFEITADDGTRHWVLAASMDAYGIGLPMTYAYWTGTWDGEQFHADDLTPQWLDWGWDWYAAVTWPSIDAPETKRLAIAWMNNWKYAARDVPTDASDGYNGQNSIVRELRLARQPGGWYTLLSTPVAALTNYVTATTTLPDRTVDGSAVLPWNGRAYEIELDIAWDTATNVGISVGRSPDGTRHTNIGKYGADLYVDRGPSDLAGYSLAPYSRAAAPIDPGARSVHLRILVDTQSVEVFVNAGHTVLSQQVHFAEGDTGISLYTDGGPAHFTGIVVREIGQ 519
                                    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       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510         


Chain D from PDB  Type:PROTEIN  Length:478
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeeeeeeeeeee..eeeeeeeee.......eeeeeee......eeeeeee..........eeeee............eeeeeeee.hhhhh.eeeeeeee......eee.........hhhhh.hhhhhhhhh.eeeeeeeee....eeeeeeee..eeeeeee......ee.......hhhhh..eeeeeeeee.....eeeeeeee..hhhhh....eeeeeeee....eee.....ee.......eeeeeee........eeeeee..........hhhhhhhhee......eeeeeeee...eeeeeeee.hhhhh.eeeeee...eee..eeeeeee...eeeeeeeee....eeeeeeee.......eeeeee..eeeee.hhhh..........eeeee......eeeeeeeee..eeeeee.....eeeee........eeeeeee...eeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ffi D  41 AVYHMTPPSGWLCNPQRPVTTHGAYQLYYLHSDQNNGPGGWDHASTTDGVAFTHHGTVMPLRPDFPVWSGSAVVDTANTAGFGAGAVVALATQPTDGVRKYQEQYLYWSTDGGFTFTALPDPVIVNTDGRAATTPAEIENAEWFRDPKIHWDTARGEWVCVIGRLRYAAFYTSPNLRDWTLRRNFDYPNHALGGIECPDLFEITADDGTRHWVLAASMDAYGIGLPMTYAYWTGTWDGEQFHADDLTPQWLDWGWDWYAAVTWPSIDAPETKRLAIAWMNNWKYAARDVPTDASDGYNGQNSIVRELRLARQPGGWYTLLSTPVAALTNYVTATTTLPDRTVDGSAVLPWNGRAYEIELDIAWDTATNVGISVGRSPDGTRHTNIGKYGADLYVDRGPSDLAGYSLAPYSRAAAPIDPGARSVHLRILVDTQSVEVFVNAGHTVLSQQVHFAEGDTGISLYTDGGPAHFTGIVVREIG 518
                                    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       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510
   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 '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4FFI)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (6, 6)

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 Related Entries

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        Q9KJD0_9MICC | Q9KJD0: 4fff 4ffg 4ffh

(-) Related Entries Specified in the PDB File

4ffg 4ffh