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(-) Description

Title :  CRYSTAL STRUCTURE OF YCF54 PROTEIN FROM THERMOSYNECHOCOCCUS ELONGATUS, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET TER59
 
Authors :  A. Kuzin, M. Abashidze, J. Seetharaman, S. Sahdev, R. Xiao, C. Ciccosan J. K. Everett, R. Nair, T. B. Acton, B. Rost, G. T. Montelione, L. Tong, J Northeast Structural Genomics Consortium (Nesg)
Date :  23 Jun 09  (Deposition) - 07 Jul 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Biol. Unit 5:  E  (1x)
Biol. Unit 6:  F  (1x)
Keywords :  Structural Genomics, Psi-2, Protein Structure Initiative, Northeast Structural Genomics Consortium, Nesg, Ter59, Q8Dit2_synel, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Kuzin, M. Abashidze, J. Seetharaman, S. Sahdev, R. Xiao, C. Ciccosanti, D. Lee, J. K. Everett, R. Nair, T. B. Acton, B. Rost, G. T. Montelione, J. F. Hunt, L. Tong
Northeast Structural Genomics Consortium Target Ter59
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - YCF54 PROTEIN
    Chains: A, B, C, D, E, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: BL21
    Expression System Strain: BL21(DE3)+ MAGIC
    Expression System Taxid: 562
    Expression System Vector: PET 21-23C
    Expression System Vector Type: PLASMID
    Gene: TLL1499, YCF54
    Organism Scientific: THERMOSYNECHOCOCCUS ELONGATUS
    Organism Taxid: 197221
    Strain: BP-1

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): A     
Biological Unit 2 (1x):  B    
Biological Unit 3 (1x):   C   
Biological Unit 4 (1x):    D  
Biological Unit 5 (1x):     E 
Biological Unit 6 (1x):      F

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 8)

Asymmetric Unit (2, 8)
No.NameCountTypeFull Name
1MSE7Mod. Amino AcidSELENOMETHIONINE
2PO41Ligand/IonPHOSPHATE ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1MSE1Mod. Amino AcidSELENOMETHIONINE
2PO4-1Ligand/IonPHOSPHATE ION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1MSE1Mod. Amino AcidSELENOMETHIONINE
2PO4-1Ligand/IonPHOSPHATE ION
Biological Unit 3 (2, 2)
No.NameCountTypeFull Name
1MSE1Mod. Amino AcidSELENOMETHIONINE
2PO41Ligand/IonPHOSPHATE ION
Biological Unit 4 (1, 1)
No.NameCountTypeFull Name
1MSE1Mod. Amino AcidSELENOMETHIONINE
2PO4-1Ligand/IonPHOSPHATE ION
Biological Unit 5 (1, 2)
No.NameCountTypeFull Name
1MSE2Mod. Amino AcidSELENOMETHIONINE
2PO4-1Ligand/IonPHOSPHATE ION
Biological Unit 6 (1, 1)
No.NameCountTypeFull Name
1MSE1Mod. Amino AcidSELENOMETHIONINE
2PO4-1Ligand/IonPHOSPHATE ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG C:27 , PHE C:75 , TRP C:78 , HOH C:123 , HOH C:124 , ARG D:82BINDING SITE FOR RESIDUE PO4 C 115

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (6, 6)

Asymmetric Unit
No.Residues
1Gln A:63 -Pro A:64
2Gln B:63 -Pro B:64
3Gln C:63 -Pro C:64
4Gln D:63 -Pro D:64
5Gln E:63 -Pro E:64
6Gln F:63 -Pro F:64

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3HZE)

(-) 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:107
 aligned with Q8DIT2_THEEB | Q8DIT2 from UniProtKB/TrEMBL  Length:106

    Alignment length:107
                                                                                                                                  106  
                                    11        21        31        41        51        61        71        81        91       101    |  
         Q8DIT2_THEEB     2 ATYYYILASKKFLTEEEPLEEVFRERQRHYREQGKEIDFWLVPEPAFLEQPQFAEQKARCPQPAAAIISTNQQFIQWLKLRLEYVLMGQFTSEEVPNPLASLASV--   -
               SCOP domains ----------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee.hhhhhh..hhhhhhhhhhhhhhhh....eeeee.hhhhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhhhh..eeeeee................ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------- Transcript
                 3hze A   2 ATYYYILASKKFLTEEEPLEEVFRERQRHYREQGKEIDFWLVPEPAFLEQPQFAEQKARCPQPAAAIISTNQQFIQWLKLRLEYVLmGQFTSEEVPNPLASLASVLE 108
                                    11        21        31        41        51        61        71        81      | 91       101       
                                                                                                                 88-MSE                


Chain B from PDB  Type:PROTEIN  Length:107
 aligned with Q8DIT2_THEEB | Q8DIT2 from UniProtKB/TrEMBL  Length:106

    Alignment length:107
                                                                                                                                  106  
                                    11        21        31        41        51        61        71        81        91       101    |  
         Q8DIT2_THEEB     2 ATYYYILASKKFLTEEEPLEEVFRERQRHYREQGKEIDFWLVPEPAFLEQPQFAEQKARCPQPAAAIISTNQQFIQWLKLRLEYVLMGQFTSEEVPNPLASLASV--   -
               SCOP domains ----------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeehhhhhhh.hhhhhhhhhhhhhhhhh....eeeee..hhhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhhhh..eeeeee................ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------- Transcript
                 3hze B   2 ATYYYILASKKFLTEEEPLEEVFRERQRHYREQGKEIDFWLVPEPAFLEQPQFAEQKARCPQPAAAIISTNQQFIQWLKLRLEYVLmGQFTSEEVPNPLASLASVLE 108
                                    11        21        31        41        51        61        71        81      | 91       101       
                                                                                                                 88-MSE                


Chain C from PDB  Type:PROTEIN  Length:107
 aligned with Q8DIT2_THEEB | Q8DIT2 from UniProtKB/TrEMBL  Length:106

    Alignment length:107
                                                                                                                                  106  
                                    11        21        31        41        51        61        71        81        91       101    |  
         Q8DIT2_THEEB     2 ATYYYILASKKFLTEEEPLEEVFRERQRHYREQGKEIDFWLVPEPAFLEQPQFAEQKARCPQPAAAIISTNQQFIQWLKLRLEYVLMGQFTSEEVPNPLASLASV--   -
               SCOP domains ----------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeehhhhhh..hhhhhhhhhhhhhhhh.....eeeee..hhhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhhhh..eeeeee................ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------- Transcript
                 3hze C   2 ATYYYILASKKFLTEEEPLEEVFRERQRHYREQGKEIDFWLVPEPAFLEQPQFAEQKARCPQPAAAIISTNQQFIQWLKLRLEYVLmGQFTSEEVPNPLASLASVLE 108
                                    11        21        31        41        51        61        71        81      | 91       101       
                                                                                                                 88-MSE                


Chain D from PDB  Type:PROTEIN  Length:107
 aligned with Q8DIT2_THEEB | Q8DIT2 from UniProtKB/TrEMBL  Length:106

    Alignment length:107
                                                                                                                                  106  
                                    11        21        31        41        51        61        71        81        91       101    |  
         Q8DIT2_THEEB     2 ATYYYILASKKFLTEEEPLEEVFRERQRHYREQGKEIDFWLVPEPAFLEQPQFAEQKARCPQPAAAIISTNQQFIQWLKLRLEYVLMGQFTSEEVPNPLASLASV--   -
               SCOP domains ----------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeehhhhhh...hhhhhhhhhhhhhhhh....eeeee.hhhhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhhhh..eeeeee................ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------- Transcript
                 3hze D   2 ATYYYILASKKFLTEEEPLEEVFRERQRHYREQGKEIDFWLVPEPAFLEQPQFAEQKARCPQPAAAIISTNQQFIQWLKLRLEYVLmGQFTSEEVPNPLASLASVLE 108
                                    11        21        31        41        51        61        71        81      | 91       101       
                                                                                                                 88-MSE                


Chain E from PDB  Type:PROTEIN  Length:108
 aligned with Q8DIT2_THEEB | Q8DIT2 from UniProtKB/TrEMBL  Length:106

    Alignment length:108
                                                                                                                                   106  
                                    10        20        30        40        50        60        70        80        90       100     |  
         Q8DIT2_THEEB     1 MATYYYILASKKFLTEEEPLEEVFRERQRHYREQGKEIDFWLVPEPAFLEQPQFAEQKARCPQPAAAIISTNQQFIQWLKLRLEYVLMGQFTSEEVPNPLASLASV--   -
               SCOP domains ------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeeeeehhhhhh..hhhhhhhhhhhhhhhh.....eeeee.hhhhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhhhh..eeeeee................ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------ Transcript
                 3hze E   1 mATYYYILASKKFLTEEEPLEEVFRERQRHYREQGKEIDFWLVPEPAFLEQPQFAEQKARCPQPAAAIISTNQQFIQWLKLRLEYVLmGQFTSEEVPNPLASLASVLE 108
                            |       10        20        30        40        50        60        70        80       |90       100        
                            1-MSE                                                                                 88-MSE                


Chain F from PDB  Type:PROTEIN  Length:107
 aligned with Q8DIT2_THEEB | Q8DIT2 from UniProtKB/TrEMBL  Length:106

    Alignment length:107
                                                                                                                                  106  
                                    11        21        31        41        51        61        71        81        91       101    |  
         Q8DIT2_THEEB     2 ATYYYILASKKFLTEEEPLEEVFRERQRHYREQGKEIDFWLVPEPAFLEQPQFAEQKARCPQPAAAIISTNQQFIQWLKLRLEYVLMGQFTSEEVPNPLASLASV--   -
               SCOP domains ----------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeehhhhhhh..hhhhhhhhhhhhhhh.....eeeee.hhhhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhhhh..eeeeee................ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------- Transcript
                 3hze F   2 ATYYYILASKKFLTEEEPLEEVFRERQRHYREQGKEIDFWLVPEPAFLEQPQFAEQKARCPQPAAAIISTNQQFIQWLKLRLEYVLmGQFTSEEVPNPLASLASVLE 108
                                    11        21        31        41        51        61        71        81      | 91       101       
                                                                                                                 88-MSE
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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  (0, 0)

(no "SCOP Domain" information available for 3HZE)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

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

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  3hze
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