Citations in PubMed

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PDB ID Mentions in PubMed Central Article count: 1

Citations in PubMed

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PDB ID Mentions in PubMed Central

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PubMed ID is not available.

Published in 2015

PubMedCentral: PMC4446451

This observation would be expected to have important consequences with respect to the rational design of small molecules targeted towards HTQs, however, the almost paradoxical observation of both type... 1 and non-type-1 loops within a single ligand-bound HTQ structure (e.g. PDB IDs 3CDM, 3CE5, 3SC8, 3UYH, 4DA3, 4DAQ) precludes a clear conclusion: small molecule compounds are able to elicit both dramatic and negligible effects on TTA loop geometry.

Structures represented are: PDB IDs 3SC8, 3T5E, 3UYH, 4DA3 and 4DAQ.

Sugar pucker distributions for each non-type-1 loop 2RHI 2* 2RHI 3 3CCO 4 3CDM 5 3CDM 6 3CE5 7 3MIJ 8 3QSC 9 3QSF 9 3SC8 10 3SC8 11 3UYH 10 3UYH 11 4DA3 10 4DA3 12 4DAQ 10 4DAQ 12 T C3’- endo C2’- endo C2’- endo C1’- endo C2’- endo C2’- endo C3’- exo C2’- endo C2’- endo C2’- endo C3’- endo C2’- endo O4’- endo C2’- endo C3’- exo C1’- exo C4’- exo T C1’- exo C1’- exo C2’- endo C2’- endo C3’- endo C2’- endo C3’- endo C2’- endo C2’- endo C3’- exo C2’- exo C2’- endo C3’- endo C2’- endo C2’- endo C2’- endo C2’- endo A C2’- endo O4’- endo C4’- exo C2’- endo C2’- endo C2’- endo C2’- endo C2’- endo C2’- endo C1’- exo C4’- exo C1’- exo C2’- endo C1’- exo C1’- exo C1’- exo C1’- exo *Numbers below PDB codes denote loop type.

3.20 P6 2 22 0.378 0.346 1 d NA ( 71 ) 3SC8 d[AG 3 (T 2 AG 3 ) 3 ] ND complex 2.30 P3 1 21 0.288 0.260 3 Type-1 ( 72 ) Type-10 Type-11 3T5E d[AG 3 (T 2 AG 3 ) 3 ] ND complex 2.10 P6 0.282 0.245 3 Type-1 (x3) ( 72 ) 3QSC d[AG 3 T 2 AG 3 T 2 ] Salphen complex 2.40 C222 0.234 0.214 1 Type-9 ( 75 ) 3QSF d[AG 3 T 2 AG 3 T 2 ] Salphen complex 2.40 C222 0.320 0.240 1 Type-9 ( 75 ) 3UYH d[AG 3 (T 2 AG 3 ) 3 ] ND complex 1.95 P3 1 21 0.275 0.231 3 Type-1 ( 76 ) Type-10 Type-11 4DA3 d[G 3 (T 2 AG 3 ) 3 ] ND complex 2.40 P3 1 21 0.282 0.242 3 Type-1 ( 76 ) Type-10 Type-12 4DAQ d[G 3 (T 2 AG 3 ) 3 ] ND complex 2.75 P3 1 21 0.275 0.212 3 Type-1 ( 76 ) Type-10 Type-12 3R6R d[AG 3 (T 2 AG 3 ) 3 ] Berberine complex 2.30 P6 0.252 0.217 3 Type-1 (x3) ( 73 ) 4G0F d[AG 3 (T 2 AG 3 ) 3 ] Mesoporphyrin complex 2.15 P6 0.262 0.239 3 Type-1 (x3) ( 74 ) 4FXM d[AG 3 (T 2 AG 3 ) 3 ] Mesoporphyrin complex 1.65 P2 1 2 1 2 0.262 0.224 3 Type-1 (x3) ( 74 ) Total no.

Pucker distributions for TTA/UUAs of all type-1 loops 1KF1-a 1KF1-b 1KF1-c 1K8P 3IBK 3CDM-a 3CDM-b 3CDM-c 3CDM-d 3CE5 3SC8 3UYH 3T5E-a T C1’- exo C1’- exo C1’- exo C1’- exo C1’- exo C1’- exo C4’- exo C1’- exo C1’- exo C1’- exo C1’- exo C1’- exo C2’- endo T C3’- endo C3’- endo C3’- endo C3’- endo C3’- endo C3’- endo C3’- endo C3’- endo C3’- endo C3’- endo C3’- endo C3’- endo C3’- endo A C2’- endo C2’- endo C2’- endo C2’- endo C2’- endo C2’- endo C2’- endo C2’- endo C1’- exo C2’- endo C2’- endo C2’- endo C2’- endo 3T5E-b 3T5E-c 4DA3 4DAQ 3R6R-a 3R6R-b 3R6R-c 4FXM-a 4FXM-b 4FXM-c 4G0F-a 4G0F-b 4G0F-c T C1’- exo C2’- endo C1’- exo C1’- exo C1’- exo C1’- exo C4’- exo C2’- endo C1’- exo C1’- exo C2’- endo C2’- endo C2’- endo T C3’- endo C3’- endo C3’- endo C3’- endo C3’- endo C3’- endo C3’- endo C3’- endo C3’- endo C3’- endo C3’- endo C3’- endo C3’- endo A C2’- endo C2’- endo C2’- endo C2’- endo C2’- endo C2’- endo C2’- endo C2’- endo C2’- endo C2’- endo C1’- exo C1’- exo C2’- endo Yellow indicates a sugar which deviates from the consensus pucker conformation.

Publication Year: 2015