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(-) Description

Title :  CRYSTAL STRUCTURE OF E. COLI TRANSKETOLASE TRIPLE VARIANT SER385TYR/ASP469THR/ARG520GLN
 
Authors :  S. Dai, K. Tittmann
Date :  11 Jan 16  (Deposition) - 02 Nov 16  (Release) - 02 Nov 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Thiamin Diphosphate, Transferase, Engineered Variant, Pentose Phosphate Pathway (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. E. Affaticati, S. B. Dai, P. Payongsri, H. C. Hailes, K. Tittmann, P. A. Dalby
Structural Analysis Of An Evolved Transketolase Reveals Divergent Binding Modes.
Sci Rep V. 6 35716 2016
PubMed-ID: 27767080  |  Reference-DOI: 10.1038/SREP35716

(-) Compounds

Molecule 1 - TRANSKETOLASE 1
    Chains: A, B
    EC Number: 2.2.1.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: TKTA, TKT, B2935, JW5478
    Mutation: YES
    Organism Scientific: ESCHERICHIA COLI K-12
    Organism Taxid: 83333
    Strain: K12
    Synonym: TK 1

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 40)

Asymmetric/Biological Unit (3, 40)
No.NameCountTypeFull Name
1CA2Ligand/IonCALCIUM ION
2EDO36Ligand/Ion1,2-ETHANEDIOL
3TDP2Ligand/IonTHIAMIN DIPHOSPHATE

(-) Sites  (40, 40)

Asymmetric Unit (40, 40)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREILE A:615 , ASP A:617 , THR A:633 , HOH A:1304 , HOH A:1331 , ARG B:483 , HOH B:852binding site for residue EDO A 701
02AC2SOFTWAREASP A:155 , ASN A:185 , ILE A:187 , TDP A:703 , HOH A:980binding site for residue CA A 702
03AC3SOFTWAREALA A:29 , HIS A:66 , GLY A:114 , LEU A:116 , ASP A:155 , GLY A:156 , GLU A:160 , ASN A:185 , ILE A:187 , ILE A:189 , ILE A:247 , HIS A:261 , CA A:702 , HOH A:813 , HOH A:1074 , HOH A:1136 , ASP B:381 , GLU B:411 , PHE B:437 , TYR B:440 , HIS B:473binding site for residue TDP A 703
04AC4SOFTWARELYS A:394 , ALA A:395 , GLU A:398 , HIS A:406 , HOH A:814 , HOH A:1357binding site for residue EDO A 704
05AC5SOFTWARESER A:559 , GLU A:560 , PHE A:645 , HOH A:846 , HOH A:1010 , HOH A:1346binding site for residue EDO A 705
06AC6SOFTWARELEU A:45 , LYS A:46 , HIS A:47 , ALA A:296 , ALA A:299 , LYS A:303 , HOH A:837 , HOH A:1001binding site for residue EDO A 706
07AC7SOFTWAREPHE A:325 , THR A:326 , HOH A:922 , HOH A:1118binding site for residue EDO A 707
08AC8SOFTWAREGLN A:136 , PHE A:137 , HOH A:829 , HOH A:942 , HOH A:1206 , HOH A:1362binding site for residue EDO A 708
09AC9SOFTWARELEU A:45 , HIS A:47 , ASP A:58 , PHE A:60 , GLU A:110 , HOH A:1034 , HOH A:1081binding site for residue EDO A 709
10AD1SOFTWARELYS A:21 , GLU A:85 , LYS A:88 , ASN A:89 , HOH A:812 , HOH A:832 , HOH A:943 , GLU B:598binding site for residue EDO A 710
11AD2SOFTWAREPHE A:375 , TRP A:390 , SER A:393 , ASN A:403 , TYR A:404 , TYR A:430binding site for residue EDO A 711
12AD3SOFTWAREGLU A:110 , LEU A:423 , EDO A:717 , HOH A:824binding site for residue EDO A 712
13AD4SOFTWAREPRO A:352 , ALA A:353 , LYS A:354 , ALA A:524 , GLN A:525 , HOH A:859 , SER B:305 , GLU B:309binding site for residue EDO A 713
14AD5SOFTWAREHIS A:192 , GLY A:256 , HOH A:889 , HOH A:929 , HOH A:1062binding site for residue EDO A 714
15AD6SOFTWARELYS A:131 , THR A:172 , LYS A:174 , ASN A:397 , HOH A:1159 , HOH A:1216binding site for residue EDO A 715
16AD7SOFTWAREILE A:345 , LEU A:533 , ALA A:534 , ILE A:536 , ALA A:537 , HOH A:940binding site for residue EDO A 716
17AD8SOFTWAREPRO A:52 , ALA A:107 , GLY A:108 , VAL A:109 , EDO A:712binding site for residue EDO A 717
18AD9SOFTWAREGLU B:6 , GLY B:278 , TRP B:279 , LYS B:280 , TYR B:281 , HOH B:1015 , HOH B:1252binding site for residue EDO B 701
19AE1SOFTWAREALA B:271 , TYR B:505 , GLU B:508 , ARG B:509 , EDO B:722 , HOH B:888 , HOH B:1007binding site for residue EDO B 702
20AE2SOFTWAREARG B:274 , GLU B:275 , TRP B:279 , ARG B:538 , GLN B:592 , HOH B:929 , HOH B:1030 , HOH B:1152binding site for residue EDO B 703
21AE3SOFTWARELEU B:272 , GLU B:275 , ARG B:509 , ASP B:511 , LYS B:591 , HOH B:1178binding site for residue EDO B 704
22AE4SOFTWAREPHE B:375 , TRP B:390 , SER B:393 , ASN B:403 , TYR B:404 , TYR B:430 , HOH B:1116binding site for residue EDO B 705
23AE5SOFTWAREPRO B:52 , GLY B:108 , VAL B:109binding site for residue EDO B 706
24AE6SOFTWARESER B:559 , GLU B:560 , PHE B:650 , HOH B:853 , HOH B:1208binding site for residue EDO B 707
25AE7SOFTWARELYS B:131 , THR B:172 , LEU B:173 , LYS B:174 , HOH B:990 , HOH B:1168 , HOH B:1213binding site for residue EDO B 708
26AE8SOFTWARELEU B:435 , ASP B:462 , PRO B:475 , VAL B:479 , ARG B:492 , ALA B:613 , GLY B:614 , HOH B:1173binding site for residue EDO B 709
27AE9SOFTWAREPHE B:311 , THR B:326 , EDO B:720 , HOH B:937binding site for residue EDO B 710
28AF1SOFTWAREASP A:381 , GLU A:411 , PHE A:437 , TYR A:440 , HIS A:473 , ALA B:29 , HIS B:66 , GLY B:114 , LEU B:116 , ASP B:155 , GLY B:156 , GLU B:160 , ASN B:185 , ILE B:187 , ILE B:189 , ILE B:247 , HIS B:261 , CA B:712 , HOH B:837 , HOH B:865 , HOH B:1190binding site for residue TDP B 711
29AF2SOFTWAREASP B:155 , ASN B:185 , ILE B:187 , TDP B:711 , HOH B:997binding site for residue CA B 712
30AF3SOFTWAREASP B:399 , HOH B:838 , HOH B:914 , HOH B:936 , HOH B:1198 , HOH B:1310binding site for residue EDO B 713
31AF4SOFTWARETYR B:182 , ASP B:184 , PHE B:197 , ASP B:199 , THR B:201 , HOH B:802 , HOH B:907 , HOH B:1144binding site for residue EDO B 714
32AF5SOFTWARELYS A:23 , GLU B:468 , HOH B:825 , HOH B:826 , HOH B:995binding site for residue EDO B 715
33AF6SOFTWARELYS B:21 , LYS B:88 , GLN B:92 , HOH B:935 , HOH B:954 , HOH B:961binding site for residue EDO B 716
34AF7SOFTWARELYS B:394 , ALA B:395 , GLU B:398 , HIS B:406 , HOH B:906binding site for residue EDO B 717
35AF8SOFTWARELEU B:45 , HIS B:47 , ARG B:57 , ASP B:58 , PHE B:60 , GLU B:110 , HOH B:916 , HOH B:1133binding site for residue EDO B 718
36AF9SOFTWAREARG B:358 , PRO B:384 , TYR B:385 , HOH B:817 , HOH B:862binding site for residue EDO B 719
37AG1SOFTWARESER B:53 , ALA B:55 , MET B:329 , EDO B:710 , HOH B:807binding site for residue EDO B 720
38AG2SOFTWARELYS B:254 , ASP B:259 , ALA B:263 , PRO B:264 , HOH B:1164binding site for residue EDO B 721
39AG3SOFTWAREALA B:271 , GLU B:275 , EDO B:702 , HOH B:999binding site for residue EDO B 722
40AG4SOFTWAREILE B:246 , PHE B:249 , GLY B:250 , ALA B:255 , GLN B:276 , HOH B:1019binding site for residue EDO B 723

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5HHT)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5HHT)

(-) 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:662
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhh..............eeee.hhhhhhhhhhhhhhhh...hhhhhh............................hhhhhhhhhhhhhhhhhhhhhh..........eeeeehhhhhhhhhhhhhhhhhhhh....eeeeeee..ee..ee.hhh...hhhhhhhhh..eeeeeee..hhhhhhhhhhhhhhh....eeeeee............hhhhh....hhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh...eehhhhhhhhhhhhh.....eeeee..hhhhhh................eee...hhhhhhhhhhhhhhhh..eeeeeee.hhhhhhhhhhhhhhhh....eeeee..hhhhh.........hhhhhhhh....eee...hhhhhhhhhhhhhhh....eeeee...ee.....hhhhhhhhhhh.eeee.......eeeee...hhhhhhhhhhhhhhhh..eeeee..hhhhhhh.hhhhhhhhh......eeeeeeee...hhhhhh...eeeee.......hhhhhhhhh..hhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5hht A   2 SSRKELANAIRALSMDAVQKAKSGHPGAPMGMADIAEVLWRDFLKHNPQNPSWADRDRFVLSNGHGSMLIYSLLHLTGYDLPMEELKNFRQLHSKTPGHPEVGYTAGVETTTGPLGQGIANAVGMAIAEKTLAAQFNRPGHDIVDHYTYAFMGDGCMMEGISHEVCSLAGTLKLGKLIAFYDDNGISIDGHVEGWFTDDTAMRFEAYGWHVIRDIDGHDAASIKRAVEEARAVTDKPSLLMCKTIIGFGSPNKAGTHDSHGAPLGDAEIALTREQLGWKYAPFEIPSEIYAQWDAKEAGQAKESAWNEKFAAYAKAYPQEAAEFTRRMKGEMPSDFDAKAKEFIAKLQANPAKIASRKASQNAIEAFGPLLPEFLGGSADLAPYNLTLWSGSKAINEDAAGNYIHYGVREFGMTAIANGISLHGGFLPYTSTFLMFVEYARNAVRMAALMKQRQVMVYTHDSIGLGETGPTHQPVEQVASLRVTPNMSTWRPCDQVESAVAWKYGVERQDGPTALILSQQNLAQQERTEEQLANIARGGYVLKDCAGQPELIFIATGSEVELAVAAYEKLTAEGVKARVVSMPSTDAFDKQDAAYRESVLPKAVTARVAVEAGIADYWYKYVGLNGAIVGMTTFGESAPAELLFEEFGFTVDNVVAKAKELL 663
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601       611       621       631       641       651       661  


Chain B from PDB  Type:PROTEIN  Length:667
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhh..............eeee.hhhhhhhhhhhhhhhh...hhhhhh............................hhhhhhhhhhhhhhhhhhhhhh..........eeeeehhhhhhhhhhhhhhhhhhhh....eeeeeee..ee..ee.hhh...hhhhhhhhh..eeeeeee..hhhhhhhhhhhhhhh....eeeeee............hhhhh....hhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh...eehhhhhhhhhhhhh.....eeeee..hhhhhh................eee...hhhhhhhhhhhhhhhh..eeeeeee.hhhhhhhhhhhhhhhh....eeeee..hhhhh.........hhhhhhhh....eee...hhhhhhhhhhhhhhh....eeeee...ee.....hhhhhhhhhhh.eeee.......eeeee...hhhhhhhhhhhhhhh...eeeee..hhhhhhhhhhhhhhhhh......eeeeeeee...hhhhhh...eeeee.......hhhhhhhhh..hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5hht B   2 SSRKELANAIRALSMDAVQKAKSGHPGAPMGMADIAEVLWRDFLKHNPQNPSWADRDRFVLSNGHGSMLIYSLLHLTGYDLPMEELKNFRQLHSKTPGHPEVGYTAGVETTTGPLGQGIANAVGMAIAEKTLAAQFNRPGHDIVDHYTYAFMGDGCMMEGISHEVCSLAGTLKLGKLIAFYDDNGISIDGHVEGWFTDDTAMRFEAYGWHVIRDIDGHDAASIKRAVEEARAVTDKPSLLMCKTIIGFGSPNKAGTHDSHGAPLGDAEIALTREQLGWKYAPFEIPSEIYAQWDAKEAGQAKESAWNEKFAAYAKAYPQEAAEFTRRMKGEMPSDFDAKAKEFIAKLQANPAKIASRKASQNAIEAFGPLLPEFLGGSADLAPYNLTLWSGSKAINEDAAGNYIHYGVREFGMTAIANGISLHGGFLPYTSTFLMFVEYARNAVRMAALMKQRQVMVYTHDSIGLGETGPTHQPVEQVASLRVTPNMSTWRPCDQVESAVAWKYGVERQDGPTALILSQQNLAQQERTEEQLANIARGGYVLKDCAGQPELIFIATGSEVELAVAAYEKLTAEGVKARVVSMPSTDAFDKQDAAYRESVLPKAVTARVAVEAGIADYWYKYVGLNGAIVGMTTFGESAPAELLFEEFGFTVDNVVAKAKELLHHHHH 668
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601       611       621       631       641       651       661
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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 5HHT)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (9, 9)

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  5hht
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        TKT1_ECOLI | P27302: 1qgd 2r5n 2r8o 2r8p

(-) Related Entries Specified in the PDB File

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