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(-) Description

Title :  CRYSTAL STRUCTURE OF CRISPR-ASSOCIATED PROTEIN
 
Authors :  A. Ke, K. H. Nam
Date :  09 May 12  (Deposition) - 15 Aug 12  (Release) - 26 Sep 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.71
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  A,B  (1x)
Keywords :  Crispr, Ferredoxin Fold, Endoribonuclease, Rna, Rna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. H. Nam, C. Haitjema, X. Liu, F. Ding, H. Wang, M. P. Delisa, A. Ke
Cas5D Protein Processes Pre-Crrna And Assembles Into A Cascade-Like Interference Complex In Subtype I-C/Dvulg Crispr-Cas System.
Structure V. 20 1574 2012
PubMed-ID: 22841292  |  Reference-DOI: 10.1016/J.STR.2012.06.016

(-) Compounds

Molecule 1 - BH0337 PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: MODIFIED PSUMO
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: BH0337
    Organism Scientific: BACILLUS HALODURANS
    Organism Taxid: 272558
    Strain: ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B
Biological Unit 3 (1x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 7)

Asymmetric Unit (2, 7)
No.NameCountTypeFull Name
1EDO6Ligand/Ion1,2-ETHANEDIOL
2SO41Ligand/IonSULFATE ION
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
1EDO1Ligand/Ion1,2-ETHANEDIOL
2SO41Ligand/IonSULFATE ION
Biological Unit 2 (1, 5)
No.NameCountTypeFull Name
1EDO5Ligand/Ion1,2-ETHANEDIOL
2SO4-1Ligand/IonSULFATE ION
Biological Unit 3 (2, 7)
No.NameCountTypeFull Name
1EDO6Ligand/Ion1,2-ETHANEDIOL
2SO41Ligand/IonSULFATE ION

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:110 , ARG A:112 , LYS A:126 , PRO A:146 , HOH A:452 , HOH A:502BINDING SITE FOR RESIDUE EDO A 301
2AC2SOFTWARETHR A:17 , LYS A:22 , LYS A:27 , HOH A:467 , GLN B:224BINDING SITE FOR RESIDUE SO4 A 302
3AC3SOFTWAREALA B:109 , PHE B:110 , ARG B:112 , LYS B:126 , HOH B:422 , HOH B:511BINDING SITE FOR RESIDUE EDO B 301
4AC4SOFTWAREARG B:72 , PRO B:73 , GLU B:139BINDING SITE FOR RESIDUE EDO B 302
5AC5SOFTWARELYS B:39 , GLU B:43 , TRP B:47BINDING SITE FOR RESIDUE EDO B 303
6AC6SOFTWAREARG A:112 , GLU B:227 , GLN B:228 , HOH B:480BINDING SITE FOR RESIDUE EDO B 304
7AC7SOFTWARETYR A:13 , LYS A:69 , GLU A:139 , GLN B:228 , HOH B:534BINDING SITE FOR RESIDUE EDO B 305

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4F3M)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Thr A:81 -Leu A:82

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4F3M)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4F3M)

(-) Exons   (0, 0)

(no "Exon" information available for 4F3M)

(-) 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:213
                                                                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeee...hhhhh....ee.....hhhhhhhhhhhhh....eeeeeeeeee.....eeeeeeee.........eeeeeeeeeeeeeeeeeee...hhhhhhhhhhhhhhhhhhhhhhh...............eeee..............eeeeeeeeeeee......eeeeeeeeee..eee..hhhhh.eeee..hhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4f3m A   2 RNEVQFELFGDYALFTDPLTKIGGEKLSYSVPTYQALKGIAESIYWKPTIVFVIDELRVMKPIQMESKGVRPIEYGGGNTLAHYTYLKDVHYQVKAHFEFNLHRPDLAFDRNEGKHYSILQRSLKAGGRRDIFLGARECQGYVAPCEFGSGDGFYDGQGKYHLGTMVHGFNYPQHQLDVRLWSAVMENGYIQFPRPEDCPIVRPVKEPKIFNP 220
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171  ||   185       195       205     ||217   
                                                                                                                                                                                                      174|                             211|      
                                                                                                                                                                                                       179                              214      


Chain B from PDB  Type:PROTEIN  Length:216
                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeeeeeeeee...hhhhhhhh.ee.....hhhhhhhhhhhhh....eeeeeeeeee.....eeeeee....eeeeeeeeeeeeeeeeeee...hhhhhhhhhhhhhhhhhhhhhhh.....ee......eeeeee..............eeeeeeeeeeee....eeeeeeeeee..eee..hhhhh.eeee..hhhhh....eee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4f3m B   1 MRNEVQFELFGDYALFTDPLTKIGGEKLSYSVPTYQALKGIAESIYWKPTIVFVIDELRVMKPIQMESKGVRPILAHYTYLKDVHYQVKAHFEFNLHRPDLAFDRNEGKHYSILQRSLKAGGRRDIFLGARECQGYVAPCEFGSGDGFYDGQGKYHLGTMVHGFNYHQLDVRLWSAVMENGYIQFPRPEDCPIVRPVKEPKIFNVQSAEQLLHDLG 234
                                    10        20        30        40        50        60        70   ||   87        97       107       117       127       137       147       157       167     ||183       193       203       215   ||  228      
                                                                                                    74|                                                                                        173|                            211|  219|           
                                                                                                     82                                                                                         180                             214   223
   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 4F3M)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4F3M)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4F3M)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)

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