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(-) Description

Title :  CRYSTAL STRUCTURE AND FUNCTIONAL STUDIES OF AN UNUSUAL L-CYSTEINE DESULFURASE FROM ARCHAEOGLOBUS FULGIDUS.
 
Authors :  Y. Yamanaka, L. Zeppieri, Y. Nicolet, E. N. Marinoni, J. S. De Oliveira O. Masafumi, D. R. Dean, J. C. Fontecilla-Camps
Date :  06 Nov 12  (Deposition) - 05 Dec 12  (Release) - 24 Apr 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.43
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Transferase And Iscs, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Yamanaka, L. Zeppieri, Y. Nicolet, E. N. Marinoni, J. S. De Oliveira, M. Odaka, D. R. Dean, J. C. Fontecilla-Camps
Crystal Structure And Functional Studies Of An Unusual L-Cysteine Desulfurase From Archaeoglobus Fulgidus.
Dalton Trans V. 42 3092 2013
PubMed-ID: 23160436  |  Reference-DOI: 10.1039/C2DT32101G

(-) Compounds

Molecule 1 - PROBABLE CYSTEINE DESULFURASE 2
    Chains: A
    EC Number: 2.8.1.7
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: C41
    Expression System Taxid: 562
    Gene: AF0564, AF_0564, ISCS2
    Organism Scientific: ARCHAEOGLOBUS FULGIDUS
    Organism Taxid: 224325
    Strain: ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 14)

Asymmetric Unit (4, 14)
No.NameCountTypeFull Name
1CA2Ligand/IonCALCIUM ION
2CL1Ligand/IonCHLORIDE ION
3PG410Ligand/IonTETRAETHYLENE GLYCOL
4PMP1Ligand/Ion4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE
Biological Unit 1 (2, 22)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2CL-1Ligand/IonCHLORIDE ION
3PG420Ligand/IonTETRAETHYLENE GLYCOL
4PMP2Ligand/Ion4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE

(-) Sites  (14, 14)

Asymmetric Unit (14, 14)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREPG4 A:405 , HOH A:814BINDING SITE FOR RESIDUE CA A 401
02AC2SOFTWAREGLY A:121 , LYS A:122 , TYR A:123 , GLY A:124 , GLU A:125 , HOH A:829BINDING SITE FOR RESIDUE CL A 402
03AC3SOFTWAREASN A:73 , HIS A:98 , ASP A:173 , THR A:175BINDING SITE FOR RESIDUE CA A 403
04AC4SOFTWARETHR A:7 , ALA A:69 , THR A:70 , ASN A:73 , HIS A:98 , SER A:100 , ASN A:149 , ASP A:173 , THR A:175 , SER A:234 , HOH A:509 , HOH A:556 , HOH A:585 , HOH A:593 , HOH A:665 , HOH A:709 , HOH A:790 , HOH A:825 , HOH A:826 , HOH A:827 , HOH A:867BINDING SITE FOR RESIDUE PMP A 404
05AC5SOFTWARETYR A:123 , GLY A:166 , LYS A:213 , PRO A:284 , CA A:401 , HOH A:764BINDING SITE FOR RESIDUE PG4 A 405
06AC6SOFTWARELEU A:55 , VAL A:178 , GLY A:179 , ILE A:181 , GLU A:182 , VAL A:183 , TRP A:254 , HOH A:870BINDING SITE FOR RESIDUE PG4 A 406
07AC7SOFTWAREGLU A:26 , LYS A:40BINDING SITE FOR RESIDUE PG4 A 407
08AC8SOFTWAREASN A:103 , LYS A:110 , LEU A:222 , PG4 A:410 , HOH A:828BINDING SITE FOR RESIDUE PG4 A 408
09AC9SOFTWAREILE A:102 , LYS A:106 , TYR A:117BINDING SITE FOR RESIDUE PG4 A 409
10BC1SOFTWARELYS A:110 , PG4 A:408 , HOH A:775 , HOH A:828BINDING SITE FOR RESIDUE PG4 A 410
11BC2SOFTWAREARG A:295 , GLU A:341BINDING SITE FOR RESIDUE PG4 A 411
12BC3SOFTWARETYR A:298BINDING SITE FOR RESIDUE PG4 A 412
13BC4SOFTWAREARG A:15 , ALA A:19 , LYS A:245 , GLU A:248BINDING SITE FOR RESIDUE PG4 A 413
14BC5SOFTWARETHR A:25 , TYR A:353 , HOH A:730 , HOH A:864BINDING SITE FOR RESIDUE PG4 A 414

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4HVK)

(-) 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:369
                                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains d4hvka_ A: automated matches                                                                                                                                                                                                                                                                                                                                                      SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........hhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhh....eeeeee.hhhhhhhhhhhhhhhhhhhhh.eeeee...hhhhhhhhhhhhhh..eeeee........hhhhhhhhh...eeeee............hhhhhhhhhh...eeeee..........hhhhhh..eeeee.hhhh.....eeeeee.............hhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eee..........eeeeee...hhhhhhhhhhhh.........hhhhhhh..hhhhhhheeeee.....hhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hvk A   2 AYFDYTSAKPVDERILEAMLPYMTESFGNPSSVHSYGFKAREAVQEAREKVAKLVNGGGGTVVFTSGATEANNLAIIGYAMRNARKGKHILVSAVEHMSVINPAKFLQKQGFEVEYIPVGKYGEVDVSFIDQKLRDDTILVSVQHANNEIGTIQPVEEISEVLAGKAALHIDATASVGQIEVDVEKIGADMLTISSNDIYGPKGVGALWIRKEAKLQPVILGGGQENGLRSGSENVPSIVGFGKAAEITAMEWREEAERLRRLRDRIIDNVLKIEESYLNGHPEKRLPNNVNVRFSYIEGESIVLSLDMAGIQASTGQPSHVLMACGLKHEEAHGTLLLTLGRYNTDEDVDRLLEVLPGVIERLRSMSP 378
                                    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      |329       339       349       359       369         
                                                                                                                                                                                                                                                                                                                                                      318|                                                   
                                                                                                                                                                                                                                                                                                                                                       327
   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  (1, 1)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (9, 9)

Asymmetric Unit(hide GO term definitions)

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  2.8.1.7
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 Related Entries

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

UniProtKB/Swiss-Prot
        ISCS2_ARCFU | O29689: 4eb5 4eb7 4r5f

(-) Related Entries Specified in the PDB File

4eb5 COMPLEX BETWEEN THE CYSTEINE DESULFURASE AND THE SCAFFOLD PROTEIN ISCU
4eb7 COMPLEX BETWEEN THE CYSTEINE DESULFURASE AND THE SCAFFOLD PROTEIN ISCU