Citations in PubMed

Primary Citation PubMed: 1606141 Citations in PubMed

PDB ID Mentions in PubMed Central Article count: 4

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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Fast dynamics perturbation analysis for prediction of protein functional sites.

(2008) BMC Struct Biol 8

PubMed: 18234095 | PubMedCentral: PMC2276503 | DOI: 10.1186/1472-6807-8-5

Figure 3 Values of D x (y-axis) and D x λ (x-axis) calculated using original DPA are plotted for four PDB entries (values of the Pearson correlation, C , between the two, are listed here paren... hetically): a) 1AEC [65], from an actinidin-E-64 complex ( C = 0.988); b) 1FKI [66], from a FKBP complex (0.989); c) 1JEF [50], from a lysozyme complex (0.992); and d) 1STP [67], from a biotin complex (0.989).

Publication Year: 2008


cDNA cloning and molecular modeling of procerain B, a novel cysteine endopeptidase isolated from Calotropis procera.

(2013) PLoS One 8

PubMed: 23527269 | PubMedCentral: PMC3603856 | DOI: 10.1371/journal.pone.0059806

g004 Figure 4 Multiple sequence alignment of translated Pro_B sequence with five top hits of BLASTp analysis (PDB ID: 3P5W, 3P5U, 1AEC, 1IDW and 1YAL) by CLUSTAL V. The active site residues (Cys 25 , ... is 156 , Asn 176 ) and other crucial conserved amino acids are highlighted in red.

Publication Year: 2013


Structure of allergens and structure based epitope predictions.

(2014) Methods 66

PubMed: 23891546 | PubMedCentral: PMC3969231 | DOI: 10.1016/j.ymeth.2013.07.024

B Yellow lupine Lupinus luteus 2QIM [189] 

 Tryp_alpha_amyl (PF00234): Protease inhibitor/seed storage/lipid transfer proteins (LTP) family Ara h 2 Peanut Arachis hypogaea 3OB4 [10] A... a h 6 Peanut Arachis hypogaea 1W2Q [30] Ber e 1 Brazilian nut Bertholletia excelsa 2LVF [190] Bra n 1 Rapeseed Brassica napus 1PNB [191] Hor v 1 Barley Hordeum vulgare 1JTB, 1BE2 [192,193] Pru p 3 Peach Prunus persica 2ALG, 2B5S [46] Ric c 3 Castor bean Ricinus communis 1PSY [43] Zea m 14 Corn Zea mays 1MZL, 1MZM, 1FK0–7 1AFH [194–196] 

 Cupin_1 (PF00190): Cupin superfamily Ara h 1 Peanut Arachis hypogaea 3S7E, 3S7I, 3SMH [197–199] Ara h 3 Peanut Arachis hypogaea 3C3 V [200,201] Gly m 6.0101 Soybean Glycine max 1FXZ [202] Gly m 6.0501 Soybean Glycine max 1OD5, 2D5F, 2D5H [203,204] Gly m conglycinin Soybean Glycine max 1IPK, 1IPJ [205] Pru du 6 Almond Prunus dulcis 3FZ3 [206,207] 

 Lipocalin (PF00061): Lipocalin/cytosolic fatty-acid binding protein family Arg R 1 Pigeon tick Argas reflexus 2X46, 2X45 - Bla g 4 German cockroach Blattella germanica 3EBK [55] Bos d 2 Cow Bos taurus 1BJ7 [208] Bos d 5 Cow Bos taurus 1BSO [209] Can f 2 Dog Canis familiaris 3L4R [54] Der f 13 House dust mite Dermatophagoides farinae 2A0A [210] Equ c 1 Horse Equus caballus 1EW3 [211,212] Mus m 1 Mouse Mus musculus 1MUP, 1JV4 1DF3 [213–215] Per a 4 American cockroach Periplaneta americana 3EBW [55] Rat n 1 Rat (urine) Rattus norvegicus 2A2U, 2A2G [216] 

 EF hand (PF00036): EF hand family Bet v 4 White birch Betula verrucosa 1H4B [31] Che a 3 Lamb’s Quarters, White goosefoot Chenopodium album 2OPO [62] Cyp c 1 Carp Cyprinus carpio 4CPV, 5CPV and other∗ [58,59] Phl p 7 Timothy-grass Phleum pratense 1K9U 2LVK, 2LVJ, 2LVI {Verdino, 2002 #13 [63] 

 Peptidase_C1 (PF00112): Papain-like cysteine protease Act d 1 Kiwi fruit Actinidia delicionsa 2ACT, 1AEC [217–219] Car p 1 Papaya Carica papaya 1PPN, 1KHQ [220,221] Der p 1 House dust mite Dermatophagoides pteronyssinus 1XKG, 2AS8, 3F5 V, 3RVX, 3RVW [66,115,222] Der f 1 House dust mite Dermatophagoides farinae 3D6S, 3RVV [115,223] 

 Profilin (PF00235): Profilin family Ara h 5 Peanut Arachis hypogaea 4ESP [224] Ara t 8 Mouse-ear crest Arabidopsis thaliana 1A0 K [225] Bet v 2 White birch Betula verrucosa 1CQA [226] Hev b 8 Latex Hevea brasiliensis 1G5U - Thaumatin (PF00314): Thaumatin-like protein Act d 2 Kiwi fruit Actinidia deliciosa 4BCT - Mal d 2 Apple Malus x domestica 3ZS3 - Mus a 4 Banana Musa acuminata 1Z3Q [74] Pru av 2 Sweet cherry Prunus avium 2AHN [73] 

 Pollen_allerg_1 (PF01357): Expansin, C-terminal domain Phl p 1 (C-term domain) Timothy-grass Phleum pratense 1N10 [78] Phl p 2 Timothy-grass Phleum pratense 1WHO, 1WHP, 2VXQ 1BMW [15,81] Phl p 3 Timothy-grass Phleum pratense 3FT1, 3FT9 2JNZ [80] Zea m 1 (C-term domain) Corn Zea mays 2HCZ [79] 

 DPBB_1 (PF03330): rare lipoprotein A (RlpA)-like double-psi beta-barrel; Expansin, N-terminal domain Phl p 1 (N-term domain) Timothy-grass Phleum pratense 1N10 [78] Zea m 1 (N-termn domain) Corn Zea mays 2HCZ [79] 

 Pollen_allerg_2 (PF01620): Ribonuclease; Group 5/6 grass pollen allergen Phl p 5b Timothy-grass Phleum pratense 1L3P [83] Phl p 6 Timothy-grass Phleum pratense 1NLX - 

 Blo-t-5 (PF11642): Group 5/21 mite allergen Blo t 5 Storage mite Blomia tropicalis 2JMH, 2JRK [27,29] Der p 5 House dust mite Dermatophagoides pteronyssinus 3MQ1 [84,227] Blo t 21 Storage mite Blomia tropicalis 2LM9 [228] 

 CAP (PF00188): CRISP; PR-1; antigen 5 (Ag5) Sol i 3 Fire ant Solenopsis invicta 2VZN [229] Ves v 5 Common wasp Vespula vulgaris 1QNX [87] 

 Chitin_bind_1 (PF00187): Chitin recognition protein; Hevein-like domain Hev b 6.02 Latex Hevea brasiliensis 1WKX, 1Q9B 1HEV, 1T0 W [89,230] Tri a 18 Wheat Triticum aestivum 1WGC, 2CWG, 7WGA, 9WGA, 2UVO, 4AML, 2X3T [231–233] 

 E1_DerP2_DerF2 (PF02221): MD-2-related lipid-recognition (ML) domain; Group 2 mite allergen Der f 2 House dust mite Dermatophagoides farinae 1XWV, 2F08 1AHK, 1AHM, 1WRF [93,94,234,235] Der p 2 House dust mite Dermatophagoides pteronyssinus 1KTJ 1A9 V [90,92] 

 Glyco_hydro_17 (PF00332): Glycosyl hydrolases family 17/endo-1,3-beta-glucosidase Hev b 2 Latex Hevea brasiliensis 3EM5, 3F55 - Mus a 5 Banana Musa acuminata 2CYG [96] 

 Glyco_hydro_56 (PF01630): Hyaluronidase Api m 2 Honey bee Apis mellifera 1FCQ, 1FCU, 1FCV, 2J88 [98,120] Ves v 2 Common wasp Vespula vulgaris 2ATM [99] 

 Pro_isomerase (PF00160): Cyclophilin type peptidyl-prolyl cis–trans isomerase/CLD Asp f 11 Mold Aspergillus fumigatus 2C3B [105] Mala s 6 Mold Malassezia sympodialis 2CFE [104] 

 FAD linked oxidase (PF01565) / BBE-like (PF08031) Cyn d 4 Bermuda grass Cynodon dactylon 4DNS [106] Phl p 4 Timothy-grass Phleum pratense 3TSH, 3TSJ [107] Many parvalbumin structures have been solved (37 PDB entries currently) comprising proteins from 9 different species (from fish to human).

Publication Year: 2014


Computational study on substrate specificity of a novel cysteine protease 1 precursor from Zea mays.

(2014) Int J Mol Sci 15

PubMed: 24921705 | PubMedCentral: PMC4100162 | DOI: 10.3390/ijms150610459

It was reported that in 1S4V [ 13 ] and 2FO5 [ 25 ], Gln20, Ser25, and Cys26 (residue number according to PDB ID 1S4V) function as oxyanion hole, while in 1AEC [ 26 ], only Gln20, and Cys26 (residue n... mber according to 1S4V) function as oxyanion hole.

Figure 1 ( a ) Phylogenetic analysis of nine proteins; ( b ) Sequence alignment of zmCP1 and KDEL-tailed cysteine endopeptidase (PDB ID 1S4V, sequence identity 59%), 2FO5, barley cysteine endoprotease B isoform 2 (EP-B2) (PDB ID 2FO5, sequence identity 56%); 3P5W, Actinidin (PDB ID 3P5W, sequence identity 55%); 1AEC: Actinidin (PDB ID 1AEC, sequence identity 53.

Publication Year: 2014