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 :  X-RAY STRUCTURE OF ARCHAEAL CLASS II CPD PHOTOLYASE FROM METHANOSARCINA MAZEI IN COMPLEX WITH INTACT CPD-LESION
 
Authors :  S. Kiontke, Y. Geisselbrecht, R. Pokorny, T. Carell, A. Batschauer, L.
Date :  24 Sep 10  (Deposition) - 14 Sep 11  (Release) - 16 Nov 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,C,D  (1x)
Biol. Unit 2:  B,E,F  (1x)
Keywords :  Lyase-Dna Complex, Photolyase, Dna Damage, Dna Repair, Class Ii, Intact Cpd-Lesion, Protein-Dna Complex, Water Cluster (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Kiontke, Y. Geisselbrecht, R. Pokorny, T. Carell, A. Batschauer, L. O. Essen
Crystal Structures Of An Archaeal Class Ii Dna Photolyase And Its Complex With Uv-Damaged Duplex Dna.
Embo J. V. 30 4437 2011
PubMed-ID: 21892138  |  Reference-DOI: 10.1038/EMBOJ.2011.313

(-) Compounds

Molecule 1 - DEOXYRIBODIPYRIMIDINE PHOTOLYASE
    Chains: A, B
    EC Number: 4.1.99.3
    Engineered: YES
    Expression System Strain: BL21(DE3)
    Expression System Variant: GOLD
    Expression System Vector: PET28A
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 3-464
    Mutation: YES
    Organism Scientific: METHANOSARCINA MAZEI
    Organism Taxid: 192952
    Strain: GO1
    Synonym: CLASS II CPD PHOTOLYASE
 
Molecule 2 - CPD-COMPRISING OLIGONUCLEOTIDE
    Chains: C, E
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Other Details: OLIGONUCLEOTIDE WITH A SYNTHETIC FORMACETAL- LINKED THYMINE DIMER
    Synthetic: YES
 
Molecule 3 - COUNTERSTRAND-OLIGONUCLEOTIDE
    Chains: D, F
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): A CD  
Biological Unit 2 (1x):  B  EF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 14)

Asymmetric Unit (5, 14)
No.NameCountTypeFull Name
1ACT6Ligand/IonACETATE ION
2FAD2Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE
3GOL3Ligand/IonGLYCEROL
4SO41Ligand/IonSULFATE ION
5TT2Mod. Residue[(1R,3R,4S,9R,10S,12R,15AS,15BR,18BR,18CS)-10-HYDROXY-15A,15B-DIMETHYL-13,15,16,18-TETRAOXOHEXADECAHYDRO-8H-9,12-EPOXY-1,4-METHANO-2,5,7-TRIOXA-12A,14,17,18A-TETRAAZACYCLOHEXADECA[1,2,3,4-DEF]BIPHENYLEN-3-YL]METHYL DIHYDROGEN PHOSPHATE
Biological Unit 1 (4, 9)
No.NameCountTypeFull Name
1ACT4Ligand/IonACETATE ION
2FAD1Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE
3GOL3Ligand/IonGLYCEROL
4SO41Ligand/IonSULFATE ION
5TT-1Mod. Residue[(1R,3R,4S,9R,10S,12R,15AS,15BR,18BR,18CS)-10-HYDROXY-15A,15B-DIMETHYL-13,15,16,18-TETRAOXOHEXADECAHYDRO-8H-9,12-EPOXY-1,4-METHANO-2,5,7-TRIOXA-12A,14,17,18A-TETRAAZACYCLOHEXADECA[1,2,3,4-DEF]BIPHENYLEN-3-YL]METHYL DIHYDROGEN PHOSPHATE
Biological Unit 2 (2, 3)
No.NameCountTypeFull Name
1ACT2Ligand/IonACETATE ION
2FAD1Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE
3GOL-1Ligand/IonGLYCEROL
4SO4-1Ligand/IonSULFATE ION
5TT-1Mod. Residue[(1R,3R,4S,9R,10S,12R,15AS,15BR,18BR,18CS)-10-HYDROXY-15A,15B-DIMETHYL-13,15,16,18-TETRAOXOHEXADECAHYDRO-8H-9,12-EPOXY-1,4-METHANO-2,5,7-TRIOXA-12A,14,17,18A-TETRAAZACYCLOHEXADECA[1,2,3,4-DEF]BIPHENYLEN-3-YL]METHYL DIHYDROGEN PHOSPHATE

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETYR A:252 , LEU A:264 , SER A:265 , ASN A:266 , LEU A:267 , SER A:268 , LEU A:271 , PHE A:298 , GLU A:301 , ILE A:302 , TRP A:305 , LYS A:306 , SER A:309 , LYS A:372 , GLY A:375 , ARG A:378 , MET A:379 , ALA A:382 , ASN A:403 , ASP A:409 , GLY A:410 , ASN A:414 , GLY A:415 , SER A:422 , HOH A:2268 , HOH A:2270 , HOH A:2296 , HOH A:2325 , HOH A:2326 , TT C:7 , HOH C:2005BINDING SITE FOR RESIDUE FAD A 998
02AC2SOFTWAREILE A:66 , ARG A:67 , ARG A:215 , ALA A:216 , PHE A:225 , ARG A:405 , HOH A:2048 , HOH A:2155 , HOH A:2156BINDING SITE FOR RESIDUE SO4 A1463
03AC3SOFTWAREPHE A:230 , ASN A:266 , GLU A:366 , THR A:370 , LYS A:372 , HOH A:2200 , HOH A:2327 , HOH A:2328BINDING SITE FOR RESIDUE GOL A1464
04AC4SOFTWARETYR A:158 , SER A:327 , TRP A:328 , HOH A:2329 , HOH A:2330 , DC D:10 , DC D:11BINDING SITE FOR RESIDUE GOL A1465
05AC5SOFTWARESER A:26 , CYS A:56 , GLU A:60 , TRP A:126 , HOH A:2332 , HOH A:2333BINDING SITE FOR RESIDUE GOL A1466
06AC6SOFTWAREASP A:320 , HOH A:2226 , GLU B:390 , LYS B:394BINDING SITE FOR RESIDUE ACT A1467
07AC7SOFTWARELYS A:383 , LYS A:384 , GLU A:387 , THR A:437 , ARG A:441 , TYR A:442 , MET A:443BINDING SITE FOR RESIDUE ACT A1468
08AC8SOFTWAREGLN A:77 , GLU A:80 , SER A:201 , HOH A:2055BINDING SITE FOR RESIDUE ACT A1469
09AC9SOFTWAREARG A:256 , ALA A:297 , ASP A:300 , GLU A:301 , TRP A:305 , TT C:7BINDING SITE FOR RESIDUE ACT A1470
10BC1SOFTWARETYR B:252 , LEU B:264 , SER B:265 , ASN B:266 , LEU B:267 , SER B:268 , LEU B:271 , PHE B:298 , GLU B:301 , ILE B:302 , TRP B:305 , LYS B:306 , SER B:309 , LYS B:372 , GLY B:375 , ARG B:378 , ALA B:382 , ASN B:403 , ASP B:409 , GLY B:410 , ASN B:414 , GLY B:415 , SER B:422 , HOH B:2066 , HOH B:2211 , HOH B:2234 , HOH B:2262 , HOH B:2263 , HOH B:2264 , TT E:7BINDING SITE FOR RESIDUE FAD B 998
11BC2SOFTWAREGLN B:16 , ILE B:43 , ALA B:47 , VAL B:49 , GLY B:111 , THR B:112 , HOH B:2265BINDING SITE FOR RESIDUE ACT B1463
12BC3SOFTWARELYS B:383 , GLU B:387 , THR B:437 , ARG B:441 , TYR B:442 , MET B:443BINDING SITE FOR RESIDUE ACT B1464

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2XRZ)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2XRZ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2XRZ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2XRZ)

(-) Exons   (0, 0)

(no "Exon" information available for 2XRZ)

(-) 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:450
 aligned with Q8PYK9_METMA | Q8PYK9 from UniProtKB/TrEMBL  Length:464

    Alignment length:461
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461 
         Q8PYK9_METMA     2 IMNPKRIRALKSGKQGDGPVVYWMSRDQRAEDNWALLFSRAIAKEANVPVVVVFCLTDEFLEAGIRQYEFMLKGLQELEVSLSRKKIPSFFLRGDPGEKISRFVKDYNAGTLVTDFSPLRIKNQWIEKVISGISIPFFEVDAHNVVPCWEASQKHEYAAHTFRPKLYALLPEFLEEFPELEPNSVTPELSAGAGMVETLSDVLETGVKALLPERALLKNKDPLFEPWHFEPGEKAAKKVMESFIADRLDSYGALRNDPTKNMLSNLSPYLHFGQISSQRVVLEVEKAESNPGSKKAFLDEILIWKEISDNFCYYNPGYDGFESFPSWAKESLNAHRNDVRSHIYTLEEFEAGKTHDPLWNASQMELLSTGKMHGYMRMYWAKKILEWSESPEKALEIAICLNDRYELDGRDPNGYAGIAWSIGGVHDRAWGEREVTGKIRYMSYEGCKRKFDVKLYIEKYS 462
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhheeeee........eeee..........hhhhhhhhhhhhh...eeeeeee..hhhh..hhhhhhhhhhhhhhhhhhhhh...eeeee..hhhhhhhhhhhh...eeee.....hhhhhhhhhhhh.....eeee.......hhhh.......hhhhhhhhhhhhhhh............-----------..hhhhhhhhhhhhhhh...................hhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhh....hhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhh......hhh..hhhhhhhhhh..........hhhhhh.....hhhhhhhhhhhhh....hhhhhhhhhhhhhh...hhhhhhhhhhhhhhh......hhhhhhhhhhhh....................hhhhhh...hhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2xrz A   2 HMNPKRIRALKSGKQGDGPVVYWMSRDQRAEDNWALLFSRAIAKEANVPVVVVFCLTDEFLEAGIRQYEFMLKGLQELEVSLSRKKIPSFFLRGDPGEKISRFVKDYNAGTLVTDFSPLRIKNQWIEKVISGISIPFFEVDAHNVVPCWEASQKHEYAAHTFRPKLYALLPEFLEEFPELEPNSV-----------ETLSDVLETGVKALLPERALLKNKDPLFEPWHFEPGEKAAKKVMESFIADRLDSYGALRNDPTKNMLSNLSPYLHFGQISSQRVVLEVEKAESNPGSKKAFLDEILIWKEISDNFCYYNPGYDGFESFPSWAKESLNAHRNDVRSHIYTLEEFEAGKTHDPLWNASQMELLSTGKMHGYTRMYWAKKILEWSESPEKALEIAICLNDRYELDGRDPNGYAGIAWSIGGVHDRAWGEREVTGKIRYMSYEGCKRKFDVKLYIEKYS 462
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181    |    -      |201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461 
                                                                                                                                                                                                                  186         198                                                                                                                                                                                                                                                                        


Chain B from PDB  Type:PROTEIN  Length:434
 aligned with Q8PYK9_METMA | Q8PYK9 from UniProtKB/TrEMBL  Length:464

    Alignment length:467
                                 1                                                                                                                                                                                                                                                                                                                                                                                                                                                                             
                                 |   5        15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       
         Q8PYK9_METMA     - -----MIMNPKRIRALKSGKQGDGPVVYWMSRDQRAEDNWALLFSRAIAKEANVPVVVVFCLTDEFLEAGIRQYEFMLKGLQELEVSLSRKKIPSFFLRGDPGEKISRFVKDYNAGTLVTDFSPLRIKNQWIEKVISGISIPFFEVDAHNVVPCWEASQKHEYAAHTFRPKLYALLPEFLEEFPELEPNSVTPELSAGAGMVETLSDVLETGVKALLPERALLKNKDPLFEPWHFEPGEKAAKKVMESFIADRLDSYGALRNDPTKNMLSNLSPYLHFGQISSQRVVLEVEKAESNPGSKKAFLDEILIWKEISDNFCYYNPGYDGFESFPSWAKESLNAHRNDVRSHIYTLEEFEAGKTHDPLWNASQMELLSTGKMHGYMRMYWAKKILEWSESPEKALEIAICLNDRYELDGRDPNGYAGIAWSIGGVHDRAWGEREVTGKIRYMSYEGCKRKFDVKLYIEKYS 462
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhheeeee........eeee..........hhhhhhhhhhhhh...eeeeeee.hhhhhh.hhhhhhhhhhhhhhhhhhhhh...eeeee..hhhhhhhhhhhh...eeee.....hhhhhhhhhhhhh....eeee.......hhhh.......hhhhhhhhhhhhhhh.............---------------------------------.............hhhhhhhhhhhhhhh..hhhhhh..........hhhhhhh....hhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhh......hhh..hhhhhhhhh...........hhhhhh.....hhhhhhhhhhhhh....hhhhhhhhhhhhhh...hhhhhhhhhhhhhhh......hhhhhhhhhhhh....................hhhhhh...hhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2xrz B  -4 LVPRGSHMNPKRIRALKSGKQGDGPVVYWMSRDQRAEDNWALLFSRAIAKEANVPVVVVFCLTDEFLEAGIRQYEFMLKGLQELEVSLSRKKIPSFFLRGDPGEKISRFVKDYNAGTLVTDFSPLRIKNQWIEKVISGISIPFFEVDAHNVVPCWEASQKHEYAAHTFRPKLYALLPEFLEEFPELEPNSVT---------------------------------KDPLFEPWHFEPGEKAAKKVMESFIADRLDSYGALRNDPTKNMLSNLSPYLHFGQISSQRVVLEVEKAESNPGSKKAFLDEILIWKEISDNFCYYNPGYDGFESFPSWAKESLNAHRNDVRSHIYTLEEFEAGKTHDPLWNASQMELLSTGKMHGYTRMYWAKKILEWSESPEKALEIAICLNDRYELDGRDPNGYAGIAWSIGGVHDRAWGEREVTGKIRYMSYEGCKRKFDVKLYIEKYS 462
                                     5        15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185 |       -         -         -     | 225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       
                                                                                                                                                                                                                         187                               221                                                                                                                                                                                                                                                 


Chain C from PDB  Type:DNA  Length:11
                                           
                 2xrz C   3 CGGCtCGCGCA  14
                                ||  13 
                                7-TT   
                                 9     


Chain D from PDB  Type:DNA  Length:14
                                              
                 2xrz D   1 TGCGCGAAGCCGAT  14
                                    10    


Chain E from PDB  Type:DNA  Length:10
                                          
                 2xrz E   4 GGCtCGCGCA  14
                               ||   14
                               7-TT   
                                9     


Chain F from PDB  Type:DNA  Length:13
                                             
                 2xrz F   1 TGCGCGAAGCCGA  13
                                    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 2XRZ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2XRZ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2XRZ)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q8PYK9_METMA | Q8PYK9)
molecular function
    GO:0003904    deoxyribodipyrimidine photo-lyase activity    Catalysis of the reaction: cyclobutadipyrimidine (in DNA) = 2 pyrimidine residues (in DNA). This reaction represents the reactivation of irradiated DNA by light.
    GO:0016829    lyase activity    Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
biological process
    GO:0006281    DNA repair    The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations, chemical mutagens, fungal and bacterial toxins, etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal, base excision repair, nucleotide excision repair, photoreactivation, bypass, double-strand break repair pathway, and mismatch repair pathway.

 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
    ACT  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    FAD  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    GOL  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    SO4  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    TT  [ 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 ]
    BC1  [ RasMol ]  +environment [ RasMol ]
    BC2  [ RasMol ]  +environment [ RasMol ]
    BC3  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 2xrz)
 
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
  2xrz
    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
  Q8PYK9_METMA | Q8PYK9
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/TrEMBL
 
Access by Enzyme Classificator   (EC Number)
  4.1.99.3
    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
  Q8PYK9_METMA | Q8PYK9
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/TrEMBL
        Q8PYK9_METMA | Q8PYK9: 2xry 4cdm 4cdn

(-) Related Entries Specified in the PDB File

2xry X-RAY STRUCTURE OF ARCHAEAL CLASS II CPD PHOTOLYASE FROM METHANOSARCINA MAZEI