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(-)Asym./Biol. Unit
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Asym./Biol. Unit  (Jmol Viewer)

(-) Description

Title :  MATALPHA2 HOMEODOMAIN BOUND TO DNA
 
Authors :  J. Aishima, R. K. Gitti, J. E. Noah, H. H. Gan, T. Schlick, C. Wolberger
Date :  14 Oct 01  (Deposition) - 11 Dec 02  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F
Keywords :  Protein-Dna Complex, Homeodomain, Hoogsteen Base Pair, Transcription/Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Aishima, R. K. Gitti, J. E. Noah, H. H. Gan, T. Schlick, C. Wolberger
A Hoogsteen Base Pair Embedded In Undistorted B-Dna
Nucleic Acids Res. V. 30 5244 2002
PubMed-ID: 12466549  |  Reference-DOI: 10.1093/NAR/GKF661
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - 5'- D(*AP*CP*AP*TP*GP*TP*AP*AP*TP*TP*CP*AP*TP*TP*TP*AP*CP*AP*CP *GP*C)-3'
    Chains: E
    Engineered: YES
    Other Details: THIS SEQUENCE IS DERIVED FROM THE STE6 PROMOTER REGION, WITH THE MCM1 BINDING SITES REMOVED.
    Synthetic: YES
 
Molecule 2 - 5'-D(*(5IU) P*GP*CP*GP*TP*GP*TP*AP*AP*AP*TP*GP*AP*AP*TP*TP*AP*CP*AP*TP* G)-3'
    Chains: F
    Engineered: YES
    Other Details: THIS SEQUENCE IS DERIVED FROM THE STE6 PROMOTER REGION, WITH THE MCM1 BINDING SITES REMOVED.
    Synthetic: YES
 
Molecule 3 - MATING-TYPE PROTEIN ALPHA-2
    Chains: A, B, C, D
    Engineered: YES
    Fragment: RESIDUES 132-191, HOMEODOMAIN
    Other Details: THE SEQUENCE NATURALLY OCCURS IN YEAST. THE PROTEIN WAS SYNTHESIZED BY THE FMOC METHOD.
    Synonym: ALPHA-2 REPRESSOR
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123456
Asymmetric/Biological Unit : ABCDEF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
15IU1Mod. Nucleotide5-IODO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE

(-) Sites  (0, 0)

(no "Site" information available for 1K61)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1K61)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1K61)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1K61)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1K61)

(-) Exons   (1, 4)

Asymmetric/Biological Unit (1, 4)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1YCR039C1YCR039C.1III:200174-199542633MTAL2_YEAST1-2102104A:132-191
B:132-190
C:134-189
D:132-189		60
59
56
58

(-) 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:60
 aligned with HMAL2_YEAST | P0CY09 from UniProtKB/Swiss-Prot  Length:210

    Alignment length:60
                                   141       151       161       171       181       191
          HMAL2_YEAST   132 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKTIT 191
               SCOP domains d1k61a_ A: mat alpha2 Homeodomain                            SCOP domains
               CATH domains 1k61A00 A:132-191 Homeodomain-like                           CATH domains
               Pfam domains ------------------------------------------------------------ Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhh......hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------ Transcript
                 1k61 A 132 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKTIT 191
                                   141       151       161       171       181       191


Chain A from PDB  Type:PROTEIN  Length:60
 aligned with HMRA2_YEAST | P0CY13 from UniProtKB/Swiss-Prot  Length:119

    Alignment length:60
                                    50        60        70        80        90       100
          HMRA2_YEAST    41 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKTIT 100
               SCOP domains d1k61a_ A: mat alpha2 Homeodomain                            SCOP domains
               CATH domains 1k61A00 A:132-191 Homeodomain-like                           CATH domains
               Pfam domains ------------------------------------------------------------ Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhh......hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------ Transcript
                 1k61 A 132 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKTIT 191
                                   141       151       161       171       181       191


Chain A from PDB  Type:PROTEIN  Length:60
 aligned with MATA2_YEASX | P0CY12 from UniProtKB/Swiss-Prot  Length:119

    Alignment length:60
                                    50        60        70        80        90       100
          MATA2_YEASX    41 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKTIT 100
               SCOP domains d1k61a_ A: mat alpha2 Homeodomain                            SCOP domains
               CATH domains 1k61A00 A:132-191 Homeodomain-like                           CATH domains
               Pfam domains ------------------------------------------------------------ Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhh......hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------ Transcript
                 1k61 A 132 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKTIT 191
                                   141       151       161       171       181       191


Chain A from PDB  Type:PROTEIN  Length:60
 aligned with MTAL2_YEAST | P0CY08 from UniProtKB/Swiss-Prot  Length:210

    Alignment length:60
                                   141       151       161       171       181       191
          MTAL2_YEAST   132 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKTIT 191
               SCOP domains d1k61a_ A: mat alpha2 Homeodomain                            SCOP domains
               CATH domains 1k61A00 A:132-191 Homeodomain-like                           CATH domains
               Pfam domains ------------------------------------------------------------ Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhh......hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------ PROSITE
               Transcript 1 Exon 1.1  PDB: A:132-191 UniProt: 1-210 [INCOMPLETE]         Transcript 1
                 1k61 A 132 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKTIT 191
                                   141       151       161       171       181       191


Chain B from PDB  Type:PROTEIN  Length:59
 aligned with HMAL2_YEAST | P0CY09 from UniProtKB/Swiss-Prot  Length:210

    Alignment length:59
                                   141       151       161       171       181         
          HMAL2_YEAST   132 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKTI 190
               SCOP domains d1k61b_ B: mat alpha2 Homeodomain                           SCOP domains
               CATH domains 1k61B00 B:132-190 Homeodomain-like                          CATH domains
               Pfam domains ----------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhh......hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------- Transcript
                 1k61 B 132 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKTI 190
                                   141       151       161       171       181         


Chain B from PDB  Type:PROTEIN  Length:59
 aligned with HMRA2_YEAST | P0CY13 from UniProtKB/Swiss-Prot  Length:119

    Alignment length:59
                                    50        60        70        80        90         
          HMRA2_YEAST    41 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKTI  99
               SCOP domains d1k61b_ B: mat alpha2 Homeodomain                           SCOP domains
               CATH domains 1k61B00 B:132-190 Homeodomain-like                          CATH domains
               Pfam domains ----------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhh......hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------- Transcript
                 1k61 B 132 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKTI 190
                                   141       151       161       171       181         


Chain B from PDB  Type:PROTEIN  Length:59
 aligned with MATA2_YEASX | P0CY12 from UniProtKB/Swiss-Prot  Length:119

    Alignment length:59
                                    50        60        70        80        90         
          MATA2_YEASX    41 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKTI  99
               SCOP domains d1k61b_ B: mat alpha2 Homeodomain                           SCOP domains
               CATH domains 1k61B00 B:132-190 Homeodomain-like                          CATH domains
               Pfam domains ----------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhh......hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------- Transcript
                 1k61 B 132 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKTI 190
                                   141       151       161       171       181         


Chain B from PDB  Type:PROTEIN  Length:59
 aligned with MTAL2_YEAST | P0CY08 from UniProtKB/Swiss-Prot  Length:210

    Alignment length:59
                                   141       151       161       171       181         
          MTAL2_YEAST   132 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKTI 190
               SCOP domains d1k61b_ B: mat alpha2 Homeodomain                           SCOP domains
               CATH domains 1k61B00 B:132-190 Homeodomain-like                          CATH domains
               Pfam domains ----------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhh......hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: B:132-190 UniProt: 1-210 [INCOMPLETE]        Transcript 1
                 1k61 B 132 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKTI 190
                                   141       151       161       171       181         


Chain C from PDB  Type:PROTEIN  Length:56
 aligned with HMAL2_YEAST | P0CY09 from UniProtKB/Swiss-Prot  Length:210

    Alignment length:56
                                   143       153       163       173       183      
          HMAL2_YEAST   134 HRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT 189
               SCOP domains d1k61c_ C: mat alpha2 Homeodomain                        SCOP domains
               CATH domains 1k61C00 C:134-189 Homeodomain-like                       CATH domains
               Pfam domains -------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhh......hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------- Transcript
                 1k61 C 134 HRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT 189
                                   143       153       163       173       183      


Chain C from PDB  Type:PROTEIN  Length:56
 aligned with HMRA2_YEAST | P0CY13 from UniProtKB/Swiss-Prot  Length:119

    Alignment length:56
                                    52        62        72        82        92      
          HMRA2_YEAST    43 HRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT  98
               SCOP domains d1k61c_ C: mat alpha2 Homeodomain                        SCOP domains
               CATH domains 1k61C00 C:134-189 Homeodomain-like                       CATH domains
               Pfam domains -------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhh......hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------- Transcript
                 1k61 C 134 HRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT 189
                                   143       153       163       173       183      


Chain C from PDB  Type:PROTEIN  Length:56
 aligned with MATA2_YEASX | P0CY12 from UniProtKB/Swiss-Prot  Length:119

    Alignment length:56
                                    52        62        72        82        92      
          MATA2_YEASX    43 HRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT  98
               SCOP domains d1k61c_ C: mat alpha2 Homeodomain                        SCOP domains
               CATH domains 1k61C00 C:134-189 Homeodomain-like                       CATH domains
               Pfam domains -------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhh......hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------- Transcript
                 1k61 C 134 HRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT 189
                                   143       153       163       173       183      


Chain C from PDB  Type:PROTEIN  Length:56
 aligned with MTAL2_YEAST | P0CY08 from UniProtKB/Swiss-Prot  Length:210

    Alignment length:56
                                   143       153       163       173       183      
          MTAL2_YEAST   134 HRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT 189
               SCOP domains d1k61c_ C: mat alpha2 Homeodomain                        SCOP domains
               CATH domains 1k61C00 C:134-189 Homeodomain-like                       CATH domains
               Pfam domains -------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhh......hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: C:134-189 UniProt: 1-210 [INCOMPLETE]     Transcript 1
                 1k61 C 134 HRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT 189
                                   143       153       163       173       183      


Chain D from PDB  Type:PROTEIN  Length:58
 aligned with HMAL2_YEAST | P0CY09 from UniProtKB/Swiss-Prot  Length:210

    Alignment length:58
                                   141       151       161       171       181        
          HMAL2_YEAST   132 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT 189
               SCOP domains d1k61d_ D: mat alpha2 Homeodomain                          SCOP domains
               CATH domains 1k61D00 D:132-189 Homeodomain-like                         CATH domains
           Pfam domains (1) Homeobox-1k61D01 D:132-189                                 Pfam domains (1)
           Pfam domains (2) Homeobox-1k61D02 D:132-189                                 Pfam domains (2)
           Pfam domains (3) Homeobox-1k61D03 D:132-189                                 Pfam domains (3)
           Pfam domains (4) Homeobox-1k61D04 D:132-189                                 Pfam domains (4)
         Sec.struct. author .....hhhhhhhhhhhhhhh......hhhhhhhhhhhhh.hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------- Transcript
                 1k61 D 132 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT 189
                                   141       151       161       171       181        


Chain D from PDB  Type:PROTEIN  Length:58
 aligned with HMRA2_YEAST | P0CY13 from UniProtKB/Swiss-Prot  Length:119

    Alignment length:58
                                    50        60        70        80        90        
          HMRA2_YEAST    41 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT  98
               SCOP domains d1k61d_ D: mat alpha2 Homeodomain                          SCOP domains
               CATH domains 1k61D00 D:132-189 Homeodomain-like                         CATH domains
           Pfam domains (1) Homeobox-1k61D01 D:132-189                                 Pfam domains (1)
           Pfam domains (2) Homeobox-1k61D02 D:132-189                                 Pfam domains (2)
           Pfam domains (3) Homeobox-1k61D03 D:132-189                                 Pfam domains (3)
           Pfam domains (4) Homeobox-1k61D04 D:132-189                                 Pfam domains (4)
         Sec.struct. author .....hhhhhhhhhhhhhhh......hhhhhhhhhhhhh.hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------- Transcript
                 1k61 D 132 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT 189
                                   141       151       161       171       181        


Chain D from PDB  Type:PROTEIN  Length:58
 aligned with MATA2_YEASX | P0CY12 from UniProtKB/Swiss-Prot  Length:119

    Alignment length:58
                                    50        60        70        80        90        
          MATA2_YEASX    41 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT  98
               SCOP domains d1k61d_ D: mat alpha2 Homeodomain                          SCOP domains
               CATH domains 1k61D00 D:132-189 Homeodomain-like                         CATH domains
           Pfam domains (1) Homeobox-1k61D01 D:132-189                                 Pfam domains (1)
           Pfam domains (2) Homeobox-1k61D02 D:132-189                                 Pfam domains (2)
           Pfam domains (3) Homeobox-1k61D03 D:132-189                                 Pfam domains (3)
           Pfam domains (4) Homeobox-1k61D04 D:132-189                                 Pfam domains (4)
         Sec.struct. author .....hhhhhhhhhhhhhhh......hhhhhhhhhhhhh.hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------- Transcript
                 1k61 D 132 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT 189
                                   141       151       161       171       181        


Chain D from PDB  Type:PROTEIN  Length:58
 aligned with MTAL2_YEAST | P0CY08 from UniProtKB/Swiss-Prot  Length:210

    Alignment length:58
                                   141       151       161       171       181        
          MTAL2_YEAST   132 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT 189
               SCOP domains d1k61d_ D: mat alpha2 Homeodomain                          SCOP domains
               CATH domains 1k61D00 D:132-189 Homeodomain-like                         CATH domains
           Pfam domains (1) Homeobox-1k61D01 D:132-189                                 Pfam domains (1)
           Pfam domains (2) Homeobox-1k61D02 D:132-189                                 Pfam domains (2)
           Pfam domains (3) Homeobox-1k61D03 D:132-189                                 Pfam domains (3)
           Pfam domains (4) Homeobox-1k61D04 D:132-189                                 Pfam domains (4)
         Sec.struct. author .....hhhhhhhhhhhhhhh......hhhhhhhhhhhhh.hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: D:132-189 UniProt: 1-210 [INCOMPLETE]       Transcript 1
                 1k61 D 132 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT 189
                                   141       151       161       171       181        


Chain E from PDB  Type:DNA  Length:21
                                                     
                 1k61 E   1 ACATGTAATTCATTTACACGC  21
                                    10        20 


Chain F from PDB  Type:DNA  Length:21
                                                     
                 1k61 F  22 uGCGTGTAAATGAATTACATG  42
                            |       31        41 
                           22-5IU
   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  (1, 4)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 4)

Asymmetric/Biological Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (1, 4)

Asymmetric/Biological Unit
(-)
Clan: HTH (544)

(-) Gene Ontology  (11, 23)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (HMRA2_YEAST | P0CY13)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
biological process
    GO:0008150    biological_process    A biological process represents a specific objective that the organism is genetically programmed to achieve. Biological processes are often described by their outcome or ending state, e.g., the biological process of cell division results in the creation of two daughter cells (a divided cell) from a single parent cell. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence.
cellular component
    GO:0005575    cellular_component    A location, relative to cellular compartments and structures, occupied by a macromolecular machine when it carries out a molecular function. There are two ways in which the gene ontology describes locations of gene products: (1) relative to cellular structures (e.g., cytoplasmic side of plasma membrane) or compartments (e.g., mitochondrion), and (2) the stable macromolecular complexes of which they are parts (e.g., the ribosome).
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

Chain A,B,C,D   (MATA2_YEASX | P0CY12)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
cellular component
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

Chain A,B,C,D   (MTAL2_YEAST | P0CY08)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0008301    DNA binding, bending    The activity of binding selectively and non-covalently to and distorting the original structure of DNA, typically a straight helix, into a bend, or increasing the bend if the original structure was intrinsically bent due to its sequence.
    GO:0001227    DNA-binding transcription repressor activity, RNA polymerase II-specific    A protein or a member of a complex that interacts selectively and non-covalently with a specific DNA sequence (sometimes referred to as a motif) within the regulatory region of a RNA polymerase II-transcribed gene to repress or decrease transcription. Regulatory regions include promoters (proximal and distal) and enhancers. Genes are transcriptional units.
    GO:0043565    sequence-specific DNA binding    Interacting selectively and non-covalently with DNA of a specific nucleotide composition, e.g. GC-rich DNA binding, or with a specific sequence motif or type of DNA e.g. promotor binding or rDNA binding.
biological process
    GO:0001198    negative regulation of mating-type specific transcription from RNA polymerase II promoter    Any mating-type specific process that stops, prevents or reduces the rate of transcription from an RNA polymerase II promoter.
    GO:0000122    negative regulation of transcription by RNA polymerase II    Any process that stops, prevents, or reduces the frequency, rate or extent of transcription mediated by RNA polymerase II.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
cellular component
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

Chain A,B,C,D   (HMAL2_YEAST | P0CY09)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0008301    DNA binding, bending    The activity of binding selectively and non-covalently to and distorting the original structure of DNA, typically a straight helix, into a bend, or increasing the bend if the original structure was intrinsically bent due to its sequence.
    GO:0001227    DNA-binding transcription repressor activity, RNA polymerase II-specific    A protein or a member of a complex that interacts selectively and non-covalently with a specific DNA sequence (sometimes referred to as a motif) within the regulatory region of a RNA polymerase II-transcribed gene to repress or decrease transcription. Regulatory regions include promoters (proximal and distal) and enhancers. Genes are transcriptional units.
biological process
    GO:0001198    negative regulation of mating-type specific transcription from RNA polymerase II promoter    Any mating-type specific process that stops, prevents or reduces the rate of transcription from an RNA polymerase II promoter.
    GO:0000122    negative regulation of transcription by RNA polymerase II    Any process that stops, prevents, or reduces the frequency, rate or extent of transcription mediated by RNA polymerase II.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
cellular component
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

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 Related Entries

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

UniProtKB/Swiss-Prot
        HMAL2_YEAST | P0CY09: 1akh 1apl 1mnm 1yrn
        HMRA2_YEAST | P0CY13: 1le8
        MATA2_YEASX | P0CY12: 1le8
        MTAL2_YEAST | P0CY08: 1akh 1apl 1le8 1mnm 1yrn

(-) Related Entries Specified in the PDB File

1apl CRYSTAL STRUCTURE OF A MATALPHA2 HOMEODOMAIN-OPERATOR COMPLEX SUGGESTS A GENERAL MODEL FOR HOMEODOMAIN-DNA INTERACTIONS
1mnm YEAST MATALPHA2/MCM1/DNA TERNARY TRANSCRIPTION COMPLEX CRYSTAL STRUCTURE
1yrn MAT A1/ALPHA2/DNA TERNARY COMPLEX (HOMEODOMAIN)