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(-) Description

Title :  CREATING NOVEL F1 INHIBITORS THROUGH FRAGMENT BASED LEAD GENERATION AND STRUCTURE AIDED DRUG DESIGN
 
Authors :  J. Sandmark, L. Oster, O. Fjellstrom, S. Akkaya, H. G. Beisel, P. O. Erik K. Erixon, D. Gustafsson, U. Jurva, D. Kang, D. Karis, W. Knecht, V. Ner I. Nilsson, T. Olsson, A. Redzic, R. Roth, A. Tigerstrom
Date :  26 Feb 14  (Deposition) - 11 Feb 15  (Release) - 11 Feb 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (3x)
Keywords :  Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  O. Fjellstrom, S. Akkaya, H. Beisel, P. Eriksson, K. Erixon, D. Gustafsson, U. Jurva, D. Kang, D. Karis, W. Knecht, V. Nerme, I. Nilsson, T. Olsson, A. Redzic, R. Roth, J. Sandmark, A. Tigerstrom, L. Oster
Creating Novel Activated Factor Xi Inhibitors Through Fragment Based Lead Generation And Structure Aided Drug Design.
Plos One V. 10 13705 2015
PubMed-ID: 25629509  |  Reference-DOI: 10.1371/JOURNAL.PONE.0113705

(-) Compounds

Molecule 1 - COAGULATION FACTOR XI
    Chains: A
    EC Number: 3.4.21.27
    Engineered: YES
    Expression System: PICHIA PASTORIS
    Expression System Taxid: 4922
    Fragment: CATALYTIC DOMAIN, RESIDUES 388-625
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: FXI, PLASMA THROMBOPLASTIN ANTECEDENT, PTA, COAGULATION FACTOR XIA LIGHT CHAIN

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (3x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
1OTJ1Ligand/IonMETHYL N-[4-[5-CHLORO-2-[[3-[5-CHLORO-2-(TETRAZOL-1-YL)PHENYL]PROPANOYLAMINO]METHYL]-1H-IMIDAZOL-4-YL]PHENYL]CARBAMATE
2SO43Ligand/IonSULFATE ION
Biological Unit 1 (2, 12)
No.NameCountTypeFull Name
1OTJ3Ligand/IonMETHYL N-[4-[5-CHLORO-2-[[3-[5-CHLORO-2-(TETRAZOL-1-YL)PHENYL]PROPANOYLAMINO]METHYL]-1H-IMIDAZOL-4-YL]PHENYL]CARBAMATE
2SO49Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:37D , HIS A:38 , LEU A:39 , ASN A:113 , ILE A:151 , ASP A:189 , CYS A:191 , LYS A:192 , GLY A:193 , ASP A:194 , SER A:195 , SER A:214 , TRP A:215 , GLY A:216 , GLY A:218 , CYS A:219 , GLY A:226 , VAL A:227 , TYR A:228 , HOH A:2013 , HOH A:2057BINDING SITE FOR RESIDUE OTJ A1244
2AC2SOFTWARELYS A:127 , ARG A:130BINDING SITE FOR RESIDUE SO4 A1245
3AC3SOFTWARETYR A:184A , ARG A:185 , GLU A:186BINDING SITE FOR RESIDUE SO4 A1246
4AC4SOFTWAREASN A:131BINDING SITE FOR RESIDUE SO4 A1247

(-) SS Bonds  (5, 5)

Asymmetric Unit
No.Residues
1A:40 -A:58
2A:40 -A:58
3A:136 -A:201
4A:168 -A:182
5A:191 -A:219

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Ser A:37 -Pro A:37A

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4CRD)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4CRD)

(-) Exons   (0, 0)

(no "Exon" information available for 4CRD)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
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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:236
                                                                                                                                                                                                                                                                             
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee........eeeeee.....eeeeeeeeee..eeeehhhhhh...hhh.eeee.....hhhh......eeeeeeee.....hhhhh...eeeee................hhhhh......eeeee..............eeee..eehhhhhhhhh........eeee................eeeeee..eeeeeeeeee..........eeeee...hhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4crd A   16 IVGGTASVRGEWPWQVTLHTTSPTQRHLCGGSIIGNQWILTAAHCFYGVESPKILRVYSGILNQAEIAEDTSFFGVQEIIIHDQYKMAESGYDIALLKLETTVNYADSQRPISLPSKGDRNVIYTDCWVTGWGYRKLRDKIQNTLQKAKIPLVTNEECQKRYRGHKITHKMICAGYREGGKDACKGDSGGPLSCKHNEVWHLVGITSWGEGCAQRERPGVYTNVVEYVDWILEKTQ  243
                                    25        35  ||||  41      ||53      ||60        70        80 |      89        99       109       119|      130  |    139       149|      160       170   |   179     | 188|      197 ||| ||203||     217       227       237      
                                                37A|||         48|      59A||                    81A                                   119|        132A              149|                   173A        184A 188A       198A|| |||| ||                                  
                                                 37B||          51       59B|                                                           121                           151                                                198B| |||| ||                                  
                                                  37C|                    59C                                                                                                                                              201 |||| ||                                  
                                                   37D                                                                                                                                                                      202A||| ||                                  
                                                                                                                                                                                                                             202B|| ||                                  
                                                                                                                                                                                                                              202C| ||                                  
                                                                                                                                                                                                                               202D ||                                  
                                                                                                                                                                                                                                  204|                                  
                                                                                                                                                                                                                                   209
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4CRD)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4CRD)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4CRD)

(-) Gene Ontology  (19, 19)

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  4crd
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 Related Entries

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

UniProtKB/Swiss-Prot
        FA11_HUMAN | P03951: 1xx9 1xxd 1xxf 1zhm 1zhp 1zhr 1zjd 1zlr 1zmj 1zml 1zmn 1zom 1zpb 1zpc 1zpz 1zrk 1zsj 1zsk 1zsl 1ztj 1ztk 1ztl 2f83 2fda 2j8j 2j8l 3bg8 3sor 3sos 4cr5 4cr9 4cra 4crb 4crc 4cre 4crf 4crg 4d76 4d7f 4d7g 4na7 4na8 4ty6 4ty7 4wxi 4x6m 4x6n 4x6o 4x6p 4y8x 4y8y 4y8z 5e2o 5e2p 5eod 5eok 5exl 5exm 5exn 5i25 5q0d 5q0e 5q0f 5q0g 5q0h 5tks 5tkt 5tku

(-) Related Entries Specified in the PDB File

4cr5 CREATING NOVEL F1 INHIBITORS THROUGH FRAGMENT BASED LEAD GENERATION AND STRUCTURE AIDED DRUG DESIGN
4cr9 CREATING NOVEL F1 INHIBITORS THROUGH FRAGMENT BASED LEAD GENERATION AND STRUCTURE AIDED DRUG DESIGN
4cra CREATING NOVEL F1 INHIBITORS THROUGH FRAGMENT BASED LEAD GENERATION AND STRUCTURE AIDED DRUG DESIGN
4crb CREATING NOVEL F1 INHIBITORS THROUGH FRAGMENT BASED LEAD GENERATION AND STRUCTURE AIDED DRUG DESIGN
4crc CREATING NOVEL F1 INHIBITORS THROUGH FRAGMENT BASED LEAD GENERATION AND STRUCTURE AIDED DRUG DESIGN
4cre CREATING NOVEL F1 INHIBITORS THROUGH FRAGMENT BASED LEAD GENERATION AND STRUCTURE AIDED DRUG DESIGN
4crf CREATING NOVEL F1 INHIBITORS THROUGH FRAGMENT BASED LEAD GENERATION AND STRUCTURE AIDED DRUG DESIGN
4crg CREATING NOVEL F1 INHIBITORS THROUGH FRAGMENT BASED LEAD GENERATION AND STRUCTURE AIDED DRUG DESIGN