Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asymmetric Unit
(-)Asym. Unit - sites
(-)Biological Unit 1
(-)Biol. Unit 1 - sites
(-)Biological Unit 2
collapse expand < >
Image Asymmetric Unit
Asymmetric Unit  (Jmol Viewer)
Image Asym. Unit - sites
Asym. Unit - sites  (Jmol Viewer)
Image Biological Unit 1
Biological Unit 1  (Jmol Viewer)
Image Biol. Unit 1 - sites
Biol. Unit 1 - sites  (Jmol Viewer)
Image Biological Unit 2
Biological Unit 2  (Jmol Viewer)

(-) Description

Title :  AMPPNP BOUND RAD50 IN COMPLEX WITH DSDNA
 
Authors :  A. Rojowska, K. Lammens
Date :  27 Aug 14  (Deposition) - 14 Jan 15  (Release) - 25 Feb 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym. Unit :  A,C,D,E,F,G,I,J,K,L,Y,Z
Biol. Unit 1:  A,C,D,E,F,Y  (1x)
Biol. Unit 2:  G,I,J,K,L,Z  (1x)
Keywords :  Atpase, Dna Amppnp Bound, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Rojowska, K. Lammens, F. U. Seifert, C. Direnberger, H. Feldmann, K. P. Hopfner
Structure Of The Rad50 Dna Double-Strand Break Repair Protein In Complex With Dna.
Embo J. V. 33 2847 2014
PubMed-ID: 25349191  |  Reference-DOI: 10.15252/EMBJ.201488889

(-) Compounds

Molecule 1 - DNA (5'-D(*GP*GP*TP*CP*GP*GP*TP*GP*AP*CP*CP*GP*AP*CP*C)- 3')
    Chains: Y, Z
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES
 
Molecule 2 - DNA (5'-D(*GP*GP*TP*CP*GP*GP*TP*CP*AP*CP*CP*GP*AP*CP*C)- 3')
    Chains: A, G
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES
 
Molecule 3 - PROBABLE DNA DOUBLE-STRAND BREAK REPAIR RAD50 ATPASE, PROBABLE DNA DOUBLE-STRAND BREAK REPAIR RAD50 ATPASE
    Chains: C, E, I, K
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: RAD50, TM_1636
    Organism Scientific: THERMOTOGA MARITIMA
    Organism Taxid: 243274
    Strain: ATCC 43589 / MSB8 / DSM 3109 / JCM 10099
 
Molecule 4 - EXONUCLEASE, PUTATIVE
    Chains: D, F, J, L
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: TM_1635, THEMA_06070
    Organism Scientific: THERMOTOGA MARITIMA
    Organism Taxid: 243274
    Strain: ATCC 43589 / MSB8 / DSM 3109 / JCM 10099
    Synonym: METALLOPHOSPHATASE

 Structural Features

(-) Chains, Units

  123456789101112
Asymmetric Unit : ACDEFGIJKLYZ
Biological Unit 1 (1x): ACDEF     Y 
Biological Unit 2 (1x):      GIJKL Z

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 8)
No.NameCountTypeFull Name
1ANP4Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2MG4Ligand/IonMAGNESIUM ION
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1ANP2Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1ANP2Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU C:12 , GLY C:13 , ASN C:32 , GLY C:33 , ALA C:34 , GLY C:35 , LYS C:36 , SER C:37 , SER C:38 , ARG C:53 , TYR C:54 , ASP C:59 , VAL C:61 , ASN C:62 , ARG C:63 , GLN C:142 , MG C:902 , HOH C:1009 , HOH C:1011 , ARG E:741 , ARG E:762 , GLY E:766 , SER E:768 , GLY E:769 , GLY E:770 , GLU E:771binding site for residue ANP C 901
2AC2SOFTWARESER C:37 , GLN C:142 , ANP C:901 , HOH C:1009 , HOH C:1011binding site for residue MG C 902
3AC3SOFTWAREARG C:741 , ARG C:762 , GLY C:766 , SER C:768 , GLY C:769 , GLY C:770 , GLU C:771 , LEU E:12 , GLY E:13 , ASN E:32 , GLY E:33 , ALA E:34 , GLY E:35 , LYS E:36 , SER E:37 , SER E:38 , ARG E:53 , TYR E:54 , ASP E:59 , VAL E:61 , ASN E:62 , ARG E:63 , GLN E:142 , GLU E:798 , MG E:902 , HOH E:1048binding site for residue ANP E 901
4AC4SOFTWARESER E:37 , GLN E:142 , ANP E:901 , HOH E:1048binding site for residue MG E 902
5AC5SOFTWARELEU I:12 , GLY I:13 , ASN I:32 , GLY I:33 , ALA I:34 , GLY I:35 , LYS I:36 , SER I:37 , SER I:38 , ARG I:53 , TYR I:54 , ASP I:59 , VAL I:61 , ASN I:62 , ARG I:63 , GLN I:142 , MG I:902 , HOH I:1005 , HOH I:1037 , ARG K:741 , ARG K:762 , GLY K:766 , SER K:768 , GLY K:769 , GLY K:770 , GLU K:771binding site for residue ANP I 901
6AC6SOFTWARESER I:37 , GLN I:142 , ANP I:901 , HOH I:1005binding site for residue MG I 902
7AC7SOFTWAREARG I:762 , GLY I:766 , SER I:768 , GLY I:769 , GLY I:770 , GLU I:771 , LEU K:12 , GLY K:13 , PRO K:31 , ASN K:32 , GLY K:33 , ALA K:34 , GLY K:35 , LYS K:36 , SER K:37 , SER K:38 , ARG K:53 , TYR K:54 , ASP K:59 , VAL K:61 , ASN K:62 , ARG K:63 , GLN K:142 , GLU K:798 , MG K:902 , HOH K:1022 , HOH K:1023 , HOH K:1034 , HOH K:1055binding site for residue ANP K 901
8AC8SOFTWARESER K:37 , GLN K:142 , ANP K:901 , HOH K:1022 , HOH K:1055binding site for residue MG K 902
9AC9SOFTWAREDG G:27 , SER I:101 , GLU I:102 , LYS I:108 , ALA I:111 , ILE I:112binding site for Di-peptide LYS I 109 and ALA I 110

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4W9M)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Lys K:711 -Ser K:712

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4W9M)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4W9M)

(-) Exons   (0, 0)

(no "Exon" information available for 4W9M)

(-) 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:DNA  Length:15
                                               
                 4w9m A  16 GGTCGGTCACCGACC  30
                                    25     


Chain C from PDB  Type:PROTEIN  Length:352
                                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee......eeeee...eeeeee.....hhhhhhhhhhhhhhh......hhhhhh.......eeeeeeeeee..eeeeeeeeee....eeeeeeeee.....eeeee.hhhhhhhhhhhhhh.hhhhhhhhhee...........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeee....eeeeee..eeee.hhhhhhhhhhhhhhhhhhhhhhh.....eeeee......hhhhhhhhhhhhhh......eeeee..hhhhhh....eeeee..eee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4w9m C   1 MRPERLTVRNFLGLKNVDIEFQSGITVVEGPNGAGKSSLFEAISFALFGNGIRYPNSYDYVNRNAVDGTARLVFQFERGGKRYEIIREINALQRKHNAKLSEILENGKKAAIAAKPTSVKQEVEKILGIEHRTFIRTVFLPQGEIDKLLISPPSEITEIISDVFQSKETLEKLEKLLKEKMKKLENEIEKKLKEMSDEYNNLDLLRKYLFDKSNFSRYFTGRVLEAVLKRTKAYLDILTNGRFDIDFDDEKGGFIIKDWGIERPARGLSGGERALISISLAMSLAEVASGRLDAFFIDEGFSSLDTENKEKIASVLKELERLNKVIVFITHDREFSEAFDRKLRITGGVVVN 851
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       689       699       709       719       729       739       749       759       769       779       789       799       809       819       829       839       849  
                                                                                                                                                                                                                     188|                                                                                                                                                                   
                                                                                                                                                                                                                      688                                                                                                                                                                   


Chain D from PDB  Type:PROTEIN  Length:36
                                                                    
               SCOP domains ------------------------------------ SCOP domains
               CATH domains ------------------------------------ CATH domains
               Pfam domains ------------------------------------ Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------ PROSITE
                 Transcript ------------------------------------ Transcript
                 4w9m D 348 KLDYFELFKEYLKKREENHEKLLKILDELLDEVKKS 383
                                   357       367       377      


Chain E from PDB  Type:PROTEIN  Length:351
                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee......eeeee...eeeeee.....hhhhhhhhhhhhhhh......hhhhhh.......eeeeeeeeee..eeeeeeeeee....eeeeeeeee.....eeeeeehhhhhhhhhhhhhh.hhhhhhhhhee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeee....eeeeee..eeee.hhhhhhhhhhhhhhhhhhhhhhh.....eeeee......hhhhhhhhhhhhhh......eeeeee.hhhhhh....eeeee..ee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4w9m E   1 MRPERLTVRNFLGLKNVDIEFQSGITVVEGPNGAGKSSLFEAISFALFGNGIRYPNSYDYVNRNAVDGTARLVFQFERGGKRYEIIREINALQRKHNAKLSEILENGKKAAIAAKPTSVKQEVEKILGIEHRTFIRTVFLPQGEIDKLLISPPSEITEIISDVFQSKETLEKLEKLLKEKMKKLENEIKKLKEMSDEYNNLDLLRKYLFDKSNFSRYFTGRVLEAVLKRTKAYLDILTNGRFDIDFDDEKGGFIIKDWGIERPARGLSGGERALISISLAMSLAEVASGRLDAFFIDEGFSSLDTENKEKIASVLKELERLNKVIVFITHDREFSEAFDRKLRITGGVVVN 851
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       690       700       710       720       730       740       750       760       770       780       790       800       810       820       830       840       850 
                                                                                                                                                                                                                     188|                                                                                                                                                                  
                                                                                                                                                                                                                      689                                                                                                                                                                  


Chain F from PDB  Type:PROTEIN  Length:36
                                                                    
               SCOP domains ------------------------------------ SCOP domains
               CATH domains ------------------------------------ CATH domains
               Pfam domains ------------------------------------ Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------ PROSITE
                 Transcript ------------------------------------ Transcript
                 4w9m F 347 DKLDYFELFKEYLKKREENHEKLLKILDELLDEVKK 382
                                   356       366       376      


Chain G from PDB  Type:DNA  Length:15
                                               
                 4w9m G  16 GGTCGGTCACCGACC  30
                                    25     


Chain I from PDB  Type:PROTEIN  Length:352
                                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeee..eeeeeee...eeeeee.....hhhhhhhhhhhhhhh......hhhhhh.......eeeeeeeeee..eeeeeeeeee....eeeeeeeee.....eeeee.hhhhhhhhhhhhhh.hhhhhhhhhee...........hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeee....eeeeee...eee.hhhhhhhhhhhhhhhhhhhhhhh.....eeeee......hhhhhhhhhhhhhhhhhh..eeeeee.hhhhhh....eeeee..eee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4w9m I   1 MRPERLTVRNFLGLKNVDIEFQSGITVVEGPNGAGKSSLFEAISFALFGNGIRYPNSYDYVNRNAVDGTARLVFQFERGGKRYEIIREINALQRKHNAKLSEILENGKKAAIAAKPTSVKQEVEKILGIEHRTFIRTVFLPQGEIDKLLISPPSEITEIISDVFQSKETLEKLEKLLKEKMKKLENEIEKKLKEMSDEYNNLDLLRKYLFDKSNFSRYFTGRVLEAVLKRTKAYLDILTNGRFDIDFDDEKGGFIIKDWGIERPARGLSGGERALISISLAMSLAEVASGRLDAFFIDEGFSSLDTENKEKIASVLKELERLNKVIVFITHDREFSEAFDRKLRITGGVVVN 851
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       689       699       709       719       729       739       749       759       769       779       789       799       809       819       829       839       849  
                                                                                                                                                                                                                     188|                                                                                                                                                                   
                                                                                                                                                                                                                      688                                                                                                                                                                   


Chain J from PDB  Type:PROTEIN  Length:36
                                                                    
               SCOP domains ------------------------------------ SCOP domains
               CATH domains ------------------------------------ CATH domains
               Pfam domains ------------------------------------ Pfam domains
         Sec.struct. author ..hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------ PROSITE
                 Transcript ------------------------------------ Transcript
                 4w9m J 348 KLDYFELFKEYLKKREENHEKLLKILDELLDEVKKS 383
                                   357       367       377      


Chain K from PDB  Type:PROTEIN  Length:352
                                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee......eeeee...eeeeee.....hhhhhhhhhhhhhhh......hhhhhh.......eeeeeeeeee..eeeeeeeeee....eeeeeeeee.....eeeeeehhhhhhhhhhhhhh.hhhhhhh..ee.....hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh.hhhhh.hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeee....eeeeee..eeee.hhhhhhhhhhhhhhhhhhhhhhh.....eeeee......hhhhhhhhhhhhhh......eeeeee.hhhhhhh...eeeee..eee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4w9m K   1 MRPERLTVRNFLGLKNVDIEFQSGITVVEGPNGAGKSSLFEAISFALFGNGIRYPNSYDYVNRNAVDGTARLVFQFERGGKRYEIIREINALQRKHNAKLSEILENGKKAAIAAKPTSVKQEVEKILGIEHRTFIRTVFLPQGEIDKLLISPPSEITEIISDVFQSKETLEKLEKLLKEKMKKLENEISKKLKEMSDEYNNLDLLRKYLFDKSNFSRYFTGRVLEAVLKRTKAYLDILTNGRFDIDFDDEKGGFIIKDWGIERPARGLSGGERALISISLAMSLAEVASGRLDAFFIDEGFSSLDTENKEKIASVLKELERLNKVIVFITHDREFSEAFDRKLRITGGVVVN 851
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       689       699       709       719       729       739       749       759       769       779       789       799       809       819       829       839       849  
                                                                                                                                                                                                                      189|                                                                                                                                                                  
                                                                                                                                                                                                                       689                                                                                                                                                                  


Chain L from PDB  Type:PROTEIN  Length:35
                                                                   
               SCOP domains ----------------------------------- SCOP domains
               CATH domains ----------------------------------- CATH domains
               Pfam domains ----------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhh...hhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------- PROSITE
                 Transcript ----------------------------------- Transcript
                 4w9m L 348 KLDYFELFKEYLKKREENHEKLLKILDELLDEVKK 382
                                   357       367       377     


Chain Y from PDB  Type:DNA  Length:15
                                               
                 4w9m Y   1 GGTCGGTGACCGACC  15
                                    10     


Chain Z from PDB  Type:DNA  Length:15
                                               
                 4w9m Z   1 GGTCGGTGACCGACC  15
                                    10
   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 4W9M)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4W9M)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4W9M)

(-) Gene Ontology  (16, 19)

Asymmetric Unit(hide GO term definitions)

 Visualization

(-) Interactive Views

Asymmetric Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    ANP  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    MG  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
    AC3  [ RasMol ]  +environment [ RasMol ]
    AC4  [ RasMol ]  +environment [ RasMol ]
    AC5  [ RasMol ]  +environment [ RasMol ]
    AC6  [ RasMol ]  +environment [ RasMol ]
    AC7  [ RasMol ]  +environment [ RasMol ]
    AC8  [ RasMol ]  +environment [ RasMol ]
    AC9  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
    Lys K:711 - Ser K:712   [ RasMol ]  
 
Biological Units
  Complete Structure
    Biological Unit 1  [ Jena3D ]
    Biological Unit 2  [ Jena3D ]

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym. Unit PNG format | Asym. Unit - sites PNG format | Biol. Unit 1 PNG format | Biol. Unit 1 - sites PNG format | Biol. Unit 2 PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  4w9m
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  Q9X1X0_THEMA | Q9X1X0
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/TrEMBL
  RAD50_THEMA | Q9X1X1
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  (no 'Enzyme Classificator' available)
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  Q9X1X0_THEMA | Q9X1X0
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)
  RAD50_THEMA | Q9X1X1
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/Swiss-Prot
        RAD50_THEMA | Q9X1X1: 3qf7 3qg5 3tho
UniProtKB/TrEMBL
        Q9X1X0_THEMA | Q9X1X0: 2q8u 3qf7 3qg5 3thn 3tho 4nzv 4o24 4o43 4o4k 4o5g

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4W9M)