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(-) Description

Title :  ATP-GAMMA-S BOUND RAD50 FROM CHAETOMIUM THERMOPHILUM IN COMPLEX WITH THE RAD50-BINDING DOMAIN OF MRE11
 
Authors :  F. U. Seifert, K. Lammens, G. Stoehr, B. Kessler, K. -P. Hopfner
Date :  19 Aug 15  (Deposition) - 02 Mar 16  (Release) - 13 Apr 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Atpase, Atpys Bound, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. U. Seifert, K. Lammens, G. Stoehr, B. Kessler, K. P. Hopfner
Structural Mechanism Of Atp-Dependent Dna Binding And Dna End Bridging By Eukaryotic Rad50.
Embo J. V. 35 759 2016
PubMed-ID: 26896444  |  Reference-DOI: 10.15252/EMBJ.201592934

(-) Compounds

Molecule 1 - PUTATIVE UNCHARACTERIZED PROTEIN,PUTATIVE UNCHARACTERIZED PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: CTHT_0073630
    Organism Scientific: CHAETOMIUM THERMOPHILUM VAR. THERMOPHILUM DSM 1495
    Organism Taxid: 759272
 
Molecule 2 - PUTATIVE DOUBLE-STRAND BREAK PROTEIN
    Chains: C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: CTHT_0007600
    Organism Scientific: CHAETOMIUM THERMOPHILUM VAR. THERMOPHILUM DSM 1495
    Organism Taxid: 759272

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 28)

Asymmetric/Biological Unit (3, 28)
No.NameCountTypeFull Name
1AGS2Ligand/IonPHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER
2MG2Ligand/IonMAGNESIUM ION
3MSE24Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:41 , GLN A:159 , ASP A:1237 , AGS A:1402 , HOH A:1501 , HOH A:1502binding site for residue MG A 1401
2AC2SOFTWAREARG A:13 , SER A:14 , ASN A:36 , GLY A:37 , SER A:38 , GLY A:39 , LYS A:40 , THR A:41 , THR A:42 , ALA A:64 , ILE A:66 , HIS A:67 , ASP A:68 , GLN A:159 , HIS A:1275 , ARG A:1297 , MG A:1401 , HOH A:1501 , HOH A:1502 , MSE B:1194 , ARG B:1206 , SER B:1208 , ALA B:1209 , GLY B:1210 , GLN B:1211binding site for residue AGS A 1402
3AC3SOFTWARETHR B:41 , GLN B:159 , AGS B:1402 , HOH B:1502 , HOH B:1503binding site for residue MG B 1401
4AC4SOFTWAREASP A:1164 , MSE A:1201 , ARG A:1206 , SER A:1208 , ALA A:1209 , GLY A:1210 , GLN A:1211 , ARG B:13 , SER B:14 , ASN B:36 , GLY B:37 , SER B:38 , GLY B:39 , LYS B:40 , THR B:41 , THR B:42 , ALA B:64 , ILE B:66 , ASP B:68 , GLN B:159 , HIS B:1275 , MG B:1401 , HOH B:1502 , HOH B:1503binding site for residue AGS B 1402

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5DA9)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Thr A:27 -Pro A:28
2Thr B:27 -Pro B:28

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5DA9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5DA9)

(-) Exons   (0, 0)

(no "Exon" information available for 5DA9)

(-) 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:433
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee..........eeee....eeeee.....hhhhhhhhhhhhhhh...............hhhhh..eeeeeeeeeee.....eeeeeeeeeeee.....eeeeeeeeeeeeee..eeeeee.hhhhhhhhhhhhhh.hhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......eeeeeeeeeee....eeeeeeeeeee.....ee.....hhhhhhhhhhhhhhhhhhhhh...eeeeee......hhhhhhhhhhhhhhhhhhhhh...eeeeeee.hhhhhhhhhh.....eeeeeee.....eeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5da9 A    2 SKIEKLSILGVRSFGPHHPETIAFNTPLTLIVGYNGSGKTTVIECLKYATTGELPPNSTRNGAFIHDPDLVGEKEVRAQVKLSFRSTIGESYVVTRNIQLLVQRNNKRTQKTLEGSLLLRNNGERTVISTRVAELDKLVSEKLGVPPAILDAVIFCHQDDSLWPmSEPAALKKRFDEIFEAQKYTKVIENIRLLKKKKGDELKILKEREVQDKANKERAEKVDELDLKDAKAKYKETHIKVETTKAAIEDLGRGmAAVDHAImQYHSKmmEQINRTIAELWQSTYQGTDIDTIQIRSDVESTTSSTRRNYNYRVSmVKGDTEmDmRGRCSAGQKVLASIIIRLALAESFCANCGLIALDEPTTNLDSDNIRSLAESLHGIIKARQAQGNLQLIVITHDEEFLKYmQCSDFCDDFYRVKRDEKQNSVIVRESIT 1311
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161    |  171       181       191       201       211       221  ||  1105      1115      1125    | 1135  |   1145      1155      1165      1175    ||1188     |1198  | | 1208      1218      1228      1238      1248      1258      1268      1278    | 1288      1298      1308   
                                                                                                                                                                                              166-MSE                                                   224|                           1130-MSE   |     ||                               1180|      1194-MSE  | |                                                                            1283-MSE                        
                                                                                                                                                                                                                                                        1099                                   1138-MSE ||                                1184             1201-MSE                                                                                                          
                                                                                                                                                                                                                                                                                                     1144-MSE                                                1203-MSE                                                                                                        
                                                                                                                                                                                                                                                                                                      1145-MSE                                                                                                                                                               


Chain B from PDB  Type:PROTEIN  Length:400
                                                                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee..........eeee....eeeeee....hhhhhhhhhhhhhhh..............hhhhh...eeeeeeeeeee.....eeeeeeeeeeee.hhh.eeeeeeeeeeeeee..eeeeee.hhhhhhhhhhhhhh.hhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......eeeeeeeeeeee.....eeeeeeeeeeeee..eeee.....hhhhhhhhhhhhhhhhhhhhh...eeeeee......hhhhhhhhhhhhhhhhhhhhh...eeeeeee.hhhhhhhhhh.....eeeeeee.....eeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5da9 B    2 SKIEKLSILGVRSFGPHHPETIAFNTPLTLIVGYNGSGKTTVIECLKYATTGELPPNSTRNGAFIHDPDLVGEKEVRAQVKLSFRSTIGESYVVTRNIQLLVQRNNKRTQKTLEGSLLLRNNGERTVISTRVAELDKLVSEKLGVPPAILDAVIFCHQDDSLWPmSEPAALKKRFDEIFEAQKYTKVIENIRLLKKKKGDELKVETTKAAIEDLGRGmAAVDHAImQYHSKmmEQINRTIAELWQSTYQGTDIDTIQIRSDVESTTSSDSGTRRNYNYRVSmVKGDTEmDmRGRCSAGQKVLASIIIRLALAESFCANCGLIALDEPTTNLDSDNIRSLAESLHGIIKARQAQGNLQLIVITHDEEFLKYmQCSDFCDDFYRVKRDEKQNSVIVRESITR 1312
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161    |  171       181       191       201 ||   1122      1132     |1142 ||   1152      1162      1172      1182      1192 |    1202|     1212      1222      1232      1242      1252      1262      1272      1282|     1292      1302      1312
                                                                                                                                                                                              166-MSE                              203|           1130-MSE   |     ||                                             1194-MSE  | |                                                                            1283-MSE                         
                                                                                                                                                                                                                                   1115                   1138-MSE ||                                                    1201-MSE                                                                                                           
                                                                                                                                                                                                                                                                1144-MSE                                                   1203-MSE                                                                                                         
                                                                                                                                                                                                                                                                 1145-MSE                                                                                                                                                                   


Chain C from PDB  Type:PROTEIN  Length:85
                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhh.....hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------- Transcript
                5da9 C  438 SISVDALVQEFFAQQSLKILPQAPFGDAVNQFVSKDDKHAVEmFVmDSLSSQVRGLLQLDDDKINEGLDSHIEDFRKVmEKNFLS  522
                                   447       457       467       477  |  | 487       497       507       517     
                                                                    480-MSE                             516-MSE  
                                                                       483-MSE                                   


Chain D from PDB  Type:PROTEIN  Length:60
                                                                                             
               SCOP domains ------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------ Pfam domains
         Sec.struct. author ..hhhhhhhhhhhh.....hhhhhhhhhhhhhhh...hhhhhhhhhhh.hhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------ Transcript
                5da9 D  439 ISVDALVQEFFAQQSLKILPQAPFGDAVNQFVSKDDKHAVEmFVmDSLIEDFRKVmEKNF  520
                                   448       458       468       478 |  |  510     | 520
                                                                   480-MSE ||      |    
                                                                      483-MSE      |    
                                                                         486|      |    
                                                                          509      |    
                                                                                 516-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 5DA9)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5DA9)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5DA9)

(-) Gene Ontology  (20, 23)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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        G0RYR3_CHATD | G0RYR3: 4yke
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