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(-) Description

Title :  CYTOCHROME C IN COMPLEX WITH PHOSPHONATO-CALIX[6]ARENE
 
Authors :  M. L. Rennie, P. B. Crowley
Date :  27 Sep 16  (Deposition) - 10 May 17  (Release) - 10 May 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Calixarene, Dimer, Surface-Binding, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. L. Rennie, A. M. Doolan, C. L. Raston, P. B. Crowley
Protein Dimerization On A Phosphonated Calix[6]Arene Disc.
Angew. Chem. Int. Ed. Engl. V. 56 5517 2017
PubMed-ID: 28407337  |  Reference-DOI: 10.1002/ANIE.201701500

(-) Compounds

Molecule 1 - CYTOCHROME C ISO-1
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 469008
    Gene: CYC1, YJR048W, J1653
    Mutation: YES
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE (STRAIN ATCC 204508 / S288C)
    Organism Taxid: 559292
    Strain: ATCC 204508 / S288C

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 9)

Asymmetric/Biological Unit (3, 9)
No.NameCountTypeFull Name
17AZ2Ligand/IonPHOSPHONATO-CALIX[6]ARENE
2HEM2Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
3SO45Ligand/IonSULFATE ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG A:13 , CYS A:14 , CYS A:17 , HIS A:18 , VAL A:28 , ILE A:35 , SER A:40 , GLY A:41 , TYR A:46 , TYR A:48 , THR A:49 , ASN A:52 , TRP A:59 , MET A:64 , TYR A:67 , THR A:78 , LYS A:79 , MET A:80 , PHE A:82 , HOH A:335 , HOH A:341binding site for residue HEM A 201
02AC2SOFTWARESER A:2 , ALA A:3 , LYS A:4 , ALA A:7 , LYS A:11 , TYR A:97 , LYS A:100 , GLU A:103 , HOH A:311 , HOH A:312 , LYS B:4 , LYS B:100 , 7AZ B:202binding site for residue 7AZ A 202
03AC3SOFTWAREARG A:38 , HIS A:39 , GLN A:42binding site for residue SO4 A 203
04AC4SOFTWARELYS A:22 , HIS A:33binding site for residue SO4 A 204
05AC5SOFTWARELYS A:4 , LYS A:100 , 7AZ A:202 , HOH A:311 , SER B:2 , ALA B:3 , LYS B:4 , ALA B:7 , LYS B:11 , TYR B:97 , LYS B:100 , GLU B:103 , HOH B:310 , HOH B:315 , HOH B:327binding site for residue 7AZ B 202
06AC6SOFTWAREARG B:38 , HIS B:39 , GLN B:42binding site for residue SO4 B 203
07AC7SOFTWAREARG B:13 , LYS B:86 , HOH B:333 , HOH B:353binding site for residue SO4 B 204
08AC8SOFTWAREHOH A:303 , LYS B:22 , HIS B:33binding site for residue SO4 B 205
09AC9SOFTWAREARG B:13 , CYS B:14 , LEU B:15 , GLN B:16 , HIS B:18 , LYS B:27 , VAL B:28 , GLY B:29 , ILE B:35 , SER B:40 , GLY B:41 , TYR B:46 , TYR B:48 , THR B:49 , ASN B:52 , TRP B:59 , MET B:64 , TYR B:67 , THR B:78 , LYS B:79 , MET B:80 , LEU B:94 , HOH B:338 , HOH B:339binding site for Di-peptide HEM B 201 and CYS B 17
10AD1SOFTWAREPHE B:10 , ARG B:13 , LEU B:15 , GLN B:16 , CYS B:17 , HIS B:18 , VAL B:28 , ILE B:35 , SER B:40 , GLY B:41 , TYR B:46 , TYR B:48 , THR B:49 , ASN B:52 , TRP B:59 , MET B:64 , TYR B:67 , THR B:78 , LYS B:79 , MET B:80 , LEU B:94 , HOH B:338 , HOH B:339binding site for Di-peptide HEM B 201 and CYS B 14

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5LYC)

(-) 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:107
                                                                                                                                           
               SCOP domains ----------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhh..................................hhhhhhhh...hhhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------- Transcript
                 5lyc A  -4 EFKAGSAKKGATLFKTRCLQCHTVEKGGPHKVGPNLHGIFGRHSGQAEGYSYTDANIKKNVLWDENNMSEYLTNPKKYIPGTKMAFGGLKKEKDRNDLITYLKKATE 103
                               ||    6        16        26        36        46        56        66        76        86        96       
                              -1|                                                                                                      
                                1                                                                                                      


Chain B from PDB  Type:PROTEIN  Length:108
                                                                                                                                            
               SCOP domains ------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhh...................hhhhh..........hhhhhhhh...hhhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------ Transcript
                 5lyc B  -5 AEFKAGSAKKGATLFKTRCLQCHTVEKGGPHKVGPNLHGIFGRHSGQAEGYSYTDANIKKNVLWDENNMSEYLTNPKKYIPGTKMAFGGLKKEKDRNDLITYLKKATE 103
                                ||   5        15        25        35        45        55        65        75        85        95        
                               -1|                                                                                                      
                                 1
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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 5LYC)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)

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  5lyc
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  CYC1_YEAST | P00044
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 Related Entries

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

UniProtKB/Swiss-Prot
        CYC1_YEAST | P00044: 1chh 1chi 1chj 1cie 1cif 1cig 1cih 1crg 1crh 1cri 1crj 1csu 1csv 1csw 1csx 1cty 1ctz 1fhb 1irv 1irw 1kyo 1lms 1nmi 1rap 1raq 1s6v 1u74 1ycc 1yfc 1yic 2b0z 2b10 2b11 2b12 2bcn 2gb8 2hv4 2jqr 2jti 2lir 2lit 2mhm 2n18 2orl 2pcc 2ycc 3cx5 3tyi 4mu8 4n0k 4p4q 4q5p 4qao 4ye1 5cib 5cic 5cid 5cie 5cif 5cig 5cih 5kke 5klu 5kpf 5lft 5t7h

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5LYC)