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(-) Description

Title :  CRYSTAL STRUCTURE OF COBT E317A COMPLEXED WITH ITS REACTION PRODUCTS
 
Authors :  C. H. Chan, S. A. Newmister, K. C. Taylor, K. R. Claas, I. Rayment, J. C. Es Semerena
Date :  15 May 13  (Deposition) - 12 Mar 14  (Release) - 12 Mar 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.40
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. H. Chan, S. A. Newmister, K. Talyor, K. R. Claas, I. Rayment, J. C. Escalante-Semerena
Dissecting Cobamide Diversity Through Structural And Functional Analyses Of The Base-Activating Cobt Enzyme Of Salmonella Enterica.
Biochim. Biophys. Acta V. 1840 464 2014
PubMed-ID: 24121107  |  Reference-DOI: 10.1016/J.BBAGEN.2013.09.038

(-) Compounds

Molecule 1 - NICOTINATE-NUCLEOTIDE--DIMETHYLBENZIMIDAZOLE PHOSPHORIBOSYLTRANSFERASE
    Chains: A
    EC Number: 2.4.2.21
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PCOBT19
    Expression System Strain: JE2017
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: COBT, STM2016
    Mutation: YES
    Organism Scientific: SALMONELLA ENTERICA SUBSP. ENTERICA SEROVAR TYPHIMURIUM
    Organism Taxid: 99287
    Strain: LT2

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (3, 3)
No.NameCountTypeFull Name
1EDO1Ligand/Ion1,2-ETHANEDIOL
2NIO1Ligand/IonNICOTINIC ACID
3RBZ1Ligand/IonALPHA-RIBAZOLE-5'-PHOSPHATE
Biological Unit 1 (3, 6)
No.NameCountTypeFull Name
1EDO2Ligand/Ion1,2-ETHANEDIOL
2NIO2Ligand/IonNICOTINIC ACID
3RBZ2Ligand/IonALPHA-RIBAZOLE-5'-PHOSPHATE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPRO A:32 , ALA A:78 , SER A:80 , GLU A:174 , LEU A:175 , GLY A:176 , MET A:177 , ALA A:178 , ASN A:179 , THR A:180 , GLY A:202 , ALA A:203 , LEU A:315 , NIO A:403 , HOH A:513 , HOH A:534 , HOH A:544 , HOH A:583 , HOH A:647 , HOH A:649 , HOH A:680BINDING SITE FOR RESIDUE RBZ A 401
2AC2SOFTWARECYS A:100 , ALA A:108 , LYS A:109 , VAL A:110 , HOH A:713BINDING SITE FOR RESIDUE EDO A 402
3AC3SOFTWAREGLY A:202 , GLY A:264 , PHE A:265 , LEU A:266 , SER A:291 , GLU A:293 , ARG A:314 , GLY A:316 , RBZ A:401 , HOH A:633 , HOH A:635 , HOH A:649 , HOH A:680BINDING SITE FOR RESIDUE NIO A 403

(-) SS Bonds  (1, 1)

Asymmetric Unit
No.Residues
1A:160 -A:256

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4KQI)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4KQI)

(-) 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:340
                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains d4kqia_ A: automated matches                                                                                                                                                                                                                                                                                                                         SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhh....hhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhh......eeeeeeeee.hhhhhhh......hhhhhhhhhhhh..hhhhhhhhhhh.eeeeeeee.........ee................hhhhhhhhhhhhhhhhhhhhhh.eeeeeeeee...hhhhhhhhhhhhhh.hhhhhh......hhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhh...ee..hhhhhhhhhhhhhhhhhhhh.ee........hhhhhhhhh..............hhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kqi A   3 TLHALLRDIPAPDAEAMARAQQHIDGLLKPPGSLGRLETLAVQLAGMPGLNGTPQVGEKAVLVMCADHGVWDEGVAVSPKIVTAIQAANMTRGTTGVCVLAAQAGAKVHVIDVGIDAEPIPGVVNMRVARGCGNIAVGPAMSRLQAEALLLEVSRYTCDLAQRGVTLFGVGELGMANTTPAAAMVSVFTGSDAKEVVGIGANLPPSRIDNKVDVVRRAIAINQPNPRDGIDVLSKVGGFDLVGMTGVMLGAARCGLPVLLDGFLSYSAALAACQIAPAVRPYLIPSHFSAEKGARIALAHLSMEPYLHMAMRLGAGSGAALAMPIVEAACAMFHNMGELA 342
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342
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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  (1, 1)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)

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  COBT_SALTY | Q05603
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  2.4.2.21
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 Related Entries

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

UniProtKB/Swiss-Prot
        COBT_SALTY | Q05603: 1d0s 1d0v 1jh8 1jha 1jhm 1jho 1jhp 1jhq 1jhr 1jhu 1jhv 1jhx 1jhy 1l4b 1l4e 1l4f 1l4g 1l4h 1l4k 1l4l 1l4m 1l4n 1l5f 1l5k 1l5l 1l5m 1l5n 1l5o 4kqf 4kqg 4kqh 4kqj 4kqk

(-) Related Entries Specified in the PDB File

1d0v CRYSTAL STRUCTURE OF WILD TYPE COBT COMPLEXED WITH ITS REACTION PRODUCTS
4kqf CRYSTAL STRUCTURE OF COBT E174A COMPLEXED WITH ADENINE
4kqg CRYSTAL STRUCTURE OF COBT E174A COMPLEXED WITH DMB
4kqh CRYSTAL STRUCTURE OF COBT E317A
4kqj
4kqk