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Title :   CRYSTAL STRUCTURE OF MITHRAMYCIN ANALOGUE MTM SA-TRP IN COMPLEX WITH A 10-MER DNA AGAGGCCTCT.

Authors :   C. Hou, J. Rohr, O. V. Tsodikov

Date :   11 May 16 (Deposition) - 14 Sep 16 (Release) - 26 Oct 16 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A,B  (1x)
Biol. Unit 2: C,D  (1x)

Keywords :   Anti-Cancer Agent, Ewing Sarcoma, Transcription Factor, Minor Groove, Dna Binding, Dna-Antibiotic Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. Hou, S. Weidenbach, K. E. Cano, Z. Wang, P. Mitra, D. N. Ivanov, J. Rohr, O. V. Tsodikov
Structures Of Mithramycin Analogues Bound To Dna And Implications For Targeting Transcription Factor Fli1.
Nucleic Acids Res. V. 44 8990 2016
PubMed-ID: 27587584 | Reference-DOI: 10.1093/NAR/GKW761

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 24)

Sites (24, 24)

Asymmetric Unit (24, 24)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	DG A:4 , HOH A:217 , HOH A:218 , HOH A:224 , HOH A:230 , HOH A:243	binding site for residue ZN A 101
02	AC2	SOFTWARE	HOH A:201 , 6O6 B:101 , 6O6 C:101 , HOH C:208	binding site for residue ZN A 102
03	AC3	SOFTWARE	DA A:1 , HOH A:221 , HOH A:226 , HOH A:233 , HOH A:242	binding site for residue ZN A 103
04	AC4	SOFTWARE	DG A:2 , DA A:3	binding site for residue NA A 104
05	AC5	SOFTWARE	DG A:4 , DG A:5 , DC A:7 , ZN A:102 , HOH A:201 , DG B:5 , DC B:6 , DC B:7 , DT B:8 , DC B:9 , HOH B:202 , HOH B:205 , HOH B:206 , HOH B:212 , HOH B:216 , HOH B:222 , HOH B:227 , HOH B:228 , HOH B:230 , HOH B:242 , HOH B:254 , 6O6 C:101 , HOH C:208	binding site for residue 6O6 B 101
06	AC6	SOFTWARE	DT A:10 , DA B:1 , HOH B:201 , HOH B:208 , HOH B:211 , HOH B:217 , HOH B:221 , HOH B:224 , HOH B:235 , HOH B:237 , HOH B:238 , HOH B:244 , DG C:4 , DG C:5 , 6O6 C:102 , ZN C:105 , HOH C:215 , DA D:3 , DG D:5 , DC D:6 , DC D:7 , DT D:8 , DC D:9 , HOH D:201	binding site for residue 6O6 B 102
07	AC7	SOFTWARE	DG B:4 , ZN B:105 , HOH B:232 , HOH B:243 , HOH B:248 , HOH B:252	binding site for residue ZN B 103
08	AC8	SOFTWARE	DA B:1 , HOH B:219 , HOH B:223 , HOH B:246 , HOH B:261 , HOH D:212	binding site for residue ZN B 104
09	AC9	SOFTWARE	DG B:5 , ZN B:103 , HOH B:248	binding site for residue ZN B 105
10	AD1	SOFTWARE	DG B:5 , HOH B:258	binding site for residue NA B 106
11	AD2	SOFTWARE	DG A:5 , DC A:6 , DC A:7 , DT A:8 , ZN A:102 , HOH A:201 , DG B:4 , DG B:5 , 6O6 B:101 , DA C:1 , HOH C:201 , HOH C:202 , HOH C:208 , HOH C:210 , HOH C:214 , HOH C:228 , HOH C:235 , DT D:10	binding site for residue 6O6 C 101
12	AD3	SOFTWARE	6O6 B:102 , HOH B:201 , DG C:5 , DC C:6 , DC C:7 , DT C:8 , DC C:9 , ZN C:105 , NA C:109 , HOH C:207 , HOH C:213 , HOH C:215 , HOH C:217 , HOH C:218 , HOH C:229 , HOH C:234 , HOH C:236 , DG D:4 , DG D:5 , NA D:103	binding site for residue 6O6 C 102
13	AD4	SOFTWARE	DG C:4 , ZN C:106	binding site for residue ZN C 103
14	AD5	SOFTWARE	DA C:1 , ZN C:107 , HOH C:219 , HOH C:230 , HOH C:232 , HOH C:237 , HOH C:243	binding site for residue ZN C 104
15	AD6	SOFTWARE	6O6 B:102 , HOH B:201 , 6O6 C:102 , HOH C:215	binding site for residue ZN C 105
16	AD7	SOFTWARE	DA C:3 , ZN C:103	binding site for residue ZN C 106
17	AD8	SOFTWARE	DA C:1 , DG C:2 , ZN C:104 , HOH C:230 , HOH C:237	binding site for residue ZN C 107
18	AD9	SOFTWARE	DC C:7	binding site for residue NA C 108
19	AE1	SOFTWARE	DT C:8 , 6O6 C:102 , HOH C:218	binding site for residue NA C 109
20	AE2	SOFTWARE	DG D:4 , HOH D:215 , HOH D:225 , HOH D:233	binding site for residue ZN D 101
21	AE3	SOFTWARE	DA D:1 , HOH D:213 , HOH D:220 , HOH D:223 , HOH D:232	binding site for residue ZN D 102
22	AE4	SOFTWARE	6O6 C:102 , HOH C:213 , DA D:3 , HOH D:231	binding site for residue NA D 103
23	AE5	SOFTWARE	DG D:5	binding site for residue NA D 104
24	AE6	SOFTWARE	DA D:1 , DG D:2 , HOH D:226 , HOH D:236	binding site for residue NA D 105

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Asymmetric Unit

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Chain A from PDB  Type:DNA  Length:10
                                         
                  5jvw A  1 AGAGGCCTCT 10
                                    10

Chain B from PDB  Type:DNA  Length:10
                                         
                  5jvw B  1 AGAGGCCTCT 10
                                    10

Chain C from PDB  Type:DNA  Length:10
                                         
                  5jvw C  1 AGAGGCCTCT 10
                                    10

Chain D from PDB  Type:DNA  Length:10
                                         
                  5jvw D  1 AGAGGCCTCT 10
                                    10

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