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(-) Description

Title :  CO-CRYSTAL STRUCTURE OF NRPS ADENYLATION PROTEIN CYTC1 WITH D-VALINE AND AMP FROM STREPTOMYCES
 
Authors :  H. Okumura, M. Ueki, Y. Shiro, H. Osada
Date :  17 Jan 12  (Deposition) - 23 Jan 13  (Release) - 23 Jan 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Ligase, Adenylation, Atp-Binding, Non-Ribosomal Peptide Synthese, Nrps, Streptomyces (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Ueki, H. Okumura, H. Osada
Substrate Recognition Mechanism Of Nrps Adenylation Protein From Streptomyces
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - NRPS ADENYLATION PROTEIN CYTC1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: STREPTOMYCES SP.
    Organism Taxid: 1931
    Strain: RK95-74

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 2)

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1AMP1Ligand/IonADENOSINE MONOPHOSPHATE
2DVA1Ligand/IonD-VALINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:163 , GLY A:281 , GLU A:282 , LYS A:283 , ASN A:305 , GLY A:306 , TYR A:307 , GLY A:308 , THR A:310 , ASP A:401 , TYR A:413 , ARG A:416 , LYS A:507 , DVA A:602 , HOH A:730 , HOH A:838 , HOH A:909BINDING SITE FOR RESIDUE AMP A 601
2AC2SOFTWAREPHE A:207 , ASP A:208 , GLY A:281 , GLY A:308 , ILE A:309 , VAL A:314 , PHE A:315 , LYS A:507 , AMP A:601BINDING SITE FOR RESIDUE DVA A 602

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Arg A:300 -Pro A:301
2Gly A:506 -Lys A:507

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3VNS)

(-) 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:497
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains d3vnsa_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhh.hhhhhhhhhhhhh...eeeee..eeeehhhhhhhhhhhhhhhhhh......eeeee...hhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhhh..eeee..........eehhhhhhhh.............eeeeeee......eeeeeehhhhhhhhhhhhhh.......eeee......hhhhhhhhhhhhh..eeee.hhhhh.hhhhhhhhhhhh...eeeehhhhhhhhhhhhhhhh.......eeee.....hhhhhhhhhhhhh....eeeeee.hhhhh...eeee.hhhhhh....eeeee....eeeee...........eeeeeee..........hhhhhhhhh......eeeeeeeee.....eeeeee...eeee..eeeehhhhhhhhhh...eeeeeeeeee.....eeeeeeeee......hhhhhhhhhhh..hhhhh..eeee............hhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3vns A   7 TSDPIARNSDLVSLFREVAATAPERTALSAEDDRISYGRLDAWSDAVARTLLAEGVRPGDRVALRMSPGAEAIVAILAILKCGAAYVPVDLRNPVSRSDFILADSGASALIGEPHEGCAVTRVVRTAAVAECKDAEPAPGPGAEDMAYVIYTSGTGNPKGVPVRHANVLALLAGAPSVFDFSGDDRWLLFHSLSFDFSVWEIWGAFSTGAELVVLPHWAARTPEQYLAVIIDRGVTVINQTPTAFLALTEAAVRGGRDVSGLRYVIFGGEKLTAPMLRPWAKAFGLDRPRLVNGYGITETTVFTTFEEITEAYLAQDASIIGRALPSFGTRVVGDDGRDVAPGETGELWLSGAQLAEGYLRRPELTAEKFPEVVRYYRTGDLVSELPDGRFAYEGRADLQIKLRGYRIELSDIETAVRRHDDVVDAVVTVREFKPGDLRLVCAYVAREGSATTARELRNHIKTLLPAYMHPARYLPLPGLPRTVNGKVDRAAVARSW 517
                                    16        26        36        46        56        66        76        86        96       106       116       126       136      |151       161   ||  172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382  ||   400       410       420       430       440       450       460       470       480       490       500       510       
                                                                                                                                                                  143|             165|                                                                                                                                                                                                                       385|                                                                                                                           
                                                                                                                                                                   149              167                                                                                                                                                                                                                        394
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 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Multi-domain proteins (alpha and beta) (2421)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3VNS)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3VNS)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 3VNS)

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 Related Entries

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(-) Related Entries Specified in the PDB File

1amu 3dhv 3e7w 3fcc 3fce 3vnq 3vnr