Citations in PubMed

Primary Citation PubMed: 10205047 Citations in PubMed

PDB ID Mentions in PubMed Central Article count: 7

Citations in PubMed

This linkout lists citations, indexed by PubMed, to the Primary Citation for this PDB ID.

PDB ID Mentions in PubMed Central

Data mentions are occurrences of PDB IDs in the full text articles from the PubMedCentral Open Access Subset of currently about 1 million articles. For each article, the sentences containing the PDB ID are listed. Article titles can be filtered by keywords and sorted by year.

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Sequence and structural analysis of BTB domain proteins.

(2005) Genome Biol 6

PubMed: 16207353 | PubMedCentral: PMC1257465 | DOI: 10.1186/gb-2005-6-10-r82

Representative structures from the Protein Data Bank are labeled as follows: a 1buo :A and 1cs3 :A; b 1nex :a; c 1ldk :D, 1p22 :b, 1fqv :B, 1fs1 :B, 1fs2 :B; d 1hv2 :a; e 1vcb :B, 1lm8 :C, 1lqb :B; f ... a68 :_, 1eod :A, 1eoe :A, 1eof :A, 1t1d :A, 1exb :E (rat Kv1.1); g 1s1g :A; h 1r28 :A, 1r29 :A, 1r2b :A.

The BTB-ZF, Skp1, ElonginC and T1 families are represented here by the domains from Protein Data Bank (PDB) structures 1buo :A, 1fqv :B, 1vcb :B, 1t1d :A. (b) Schematic of the BTB fold topology.

Publication Year: 2005


Small but versatile: the extraordinary functional and structural diversity of the beta-grasp fold.

(2007) Biol Direct 2

PubMed: 17605815 | PubMedCentral: PMC1949818 | DOI: 10.1186/1745-6150-2-18

In a few instances, the obscured face of the RA (PDB: 1LFD [ 116 ]) and elongin domains (PDB: 1VCB [ 117 ]) might mediate specific interactions suggesting that their adapter function might depend on u... ing both faces to mediate different sets of specific interactions.

Publication Year: 2007


Molecular architecture of the ankyrin SOCS box family of Cul5-dependent E3 ubiquitin ligases.

(2013) J Mol Biol 425

PubMed: 23806657 | PubMedCentral: PMC3779351 | DOI: 10.1016/j.jmb.2013.06.015

(a) Superposition of the SOCS box domains of ASB9, SOCS4 (PDB ID: 2IZV ) [29] , and VHL (PDB ID: 1VCB ) [31] reveals a three-residue insertion in ASB9, which enables the SOCS box residues Ile172 and G... n273 to contact AR4 and AR5.

Publication Year: 2013


HopDock: a probabilistic search algorithm for decoy sampling in protein-protein docking.

(2013) Proteome Sci 11

PubMed: 24564839 | PubMedCentral: PMC3909090 | DOI: 10.1186/1477-5956-11-S1-S6

PDB ID (Chains) HopDock (HH:MM) pyDock [ 4 ] (HH:MM) ClusPro [ 6 ] (HH:MM) 1C1Y (A,B) 04:00 01:30 00:53 1DS6 (A,B) 06:26 02:00 01.30 1TX4 (A,B) 10:42 02:30 01:00 1WWW (W,Y) 03:12 01:00 00:53 1FLT (V,Y... 02:36 00:30 00:53 1IKN (A,C) 06:00 01:30 01.24 1IKN (C,D) 03:54 00:18 01.24 1VCB (A,B) 01:04 00:33 00.54 1VCB (B,C) 01:36 01:08 00:58 1OHZ (A,B) 00:57 02:30 01:00 1T6G (A,C) 11:04 04:00 00:59 1ZHI (A,B) 03:17 04:45 00:59 2HQS (A,C) 12:07 01:00 01:00 1QAV (A,B) 01:05 01:30 00:40 1G4Y (B,R) 03:13 05:29 00:59 1CSE (E,I) 02:48 02:00 00:38 1G4U (R,S) 09:19 01:14 01:26 Timing comparison (HH:MM) of HopDock to other web servers is presented on each of the seventeen systems studied here.

[ 16 ] (Å) pyDock [ 4 ] (Å) ClusPro [ 6 ] (Å) HopDock (Å) 1C1Y (A,B) 2034 1.2 1.3 10.4 7.2 1.9 1DS6 (A,B) 2839 1.2 1.8 0.8 1.7 3.4 1TX4 (A,B) 2957 1.4 2.4 18.5 4.7 1.0 1WWW (W,Y) 1644 11.4 2.2 18.2 17.2 2.2 1FLT (V,Y) 1528 1.5 1.1 2.8 4.7 1.5 1IKN (A,C) 3178 1.2 2.0 20.1 19.7 2.2 1IKN (C,D) 2505 2.0 2.0 16.7 20.9 4.6 1VCB (A,B) 1447 0.7 2.1 1.4 1.9 3.6 1VCB (B,C) 1846 1.3 1.3 22.7 1.9 1.7 1OHZ (A,B) 1443 1.8 1.7 7.5 3.3 2.2 1T6G (A,C) 4022 1.6 2.5 0.1 14.8 2.5 1ZHI (A,B) 2633 25.3 1.7 23.8 24.1 3.3 2HQS (A,C) 3983 29.1 2.2 15.2 16.6 2.6 1QAV (A,B) 1503 1.4 1.0 9.6 1.7 2.6 1G4Y (B,R) 1838 0.8 2.3 26.2 1.9 4.1 1CSE (E,I) 2442 0.7 1.5 13.2 1.1 2.7 1G4U (R,S) 4188 1.0 2.2 27.6 16.1 5.6 A comparative analysis has been performed on all seventeen dimers.

PDB ID (Chains) Size(Number of Atoms) Functional Classification 1C1Y (A,B) 1376, 658 Signaling Protein 1DS6 (A,B) 1413, 1426 Signaling Protein 1TX4 (A,B) 1579, 1378 Complex(gtpase Activatn/proto Oncogene) 1WWW (W,Y) 862, 782 Nerve Growth Factor/trka Complex 1FLT (V,Y) 770, 758 Complex (growth Factor/transferase) 1IKN (A,C) 2262, 916 Transcription Factor 1IKN (C,D) 916, 1589 Transcription Factor 1VCB (A,B) 755, 692 Transcription 1VCB (B,C) 692, 1154 Transcription 1OHZ * (A,B) 1027, 416 Cell Adhesion 1T6G * (A,C) 2628, 1394 Hydrolase Inhibitor 1ZHI * (A,B) 1597, 1036 Transcription/replication 2HQS * (A,C) 3127, 856 Transport Protein/lipoprotein 1QAV (A,B) 663, 840 Membrane Protein/oxidoreductase 1G4Y (B,R) 682, 1156 Signaling Protein 1CSE (E,I) 1920, 522 Complex(serine Proteinase Inhibitor) 1G4U (R,S) 1398, 2790 Signaling Protein Details are provided on the dimers selected in this study.

Publication Year: 2013


A conservation and biophysics guided stochastic approach to refining docked multimeric proteins.

(2013) BMC Struct Biol 13 Suppl 1

PubMed: 24565106 | PubMedCentral: PMC3952451 | DOI: 10.1186/1472-6807-13-S1-S7

In addition to these dimers, we produced multimeric input structures by running the Multi-LZerD multimeric docking program without refinement [ 11 ] for protein complexes with the following PDB IDs: 1... 3O , 1JYO , 1LOG , 1QGW , 1VCB , 1W88 , 1WWW , 2BBK , 2PRG and 6RLX .

Publication Year: 2013


PubMed ID is not available.

Published in 2015

PubMedCentral: PMC4403949

( B ) VHL-box domain of receptor VHL in complex with adaptor subunit ElonginC (PDB code 1VCB).

Publication Year: 2015


PubMed ID is not available.

Published in 2015

PubMedCentral: PMC4509718

Since the basic burial trace model works best on α-helical structures, each input sequence was truncated to residues 63–204, corresponding to the region that can be crystallized (PDB: ... VCB ) in an attempt to improve accuracy within the region that can adopt a well-defined folding state ( Stebbins et al., 1999 ).

The experimental burial trace obtained directly from the crystal structure of wild-type VHL (PDB: 1VCB chain C) is also shown.

Publication Year: 2015