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(-) Description

Title :  CRYSTAL STRUCTURE OF GPB IN COMPLEX WITH 4B
 
Authors :  A. L. Kantsadi, D. S. M. Chatzileontiadou, G. A. Stravodimos, D. D. Leon
Date :  27 Feb 15  (Deposition) - 18 Nov 15  (Release) - 18 Nov 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A
Keywords :  Alpha And Beta Protein, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. L. Kantsadi, V. Parmenopoulou, D. N. Bakalov, L. Snelgrove, G. A. Stravodimos, D. S. Chatzileontiadou, S. Manta, A. Panagiotopoulou, J. M. Hayes, D. Komiotis, D. D. Leonidas
Glycogen Phosphorylase As A Target For Type 2 Diabetes: Synthetic, Biochemical, Structural And Computational Evaluation Of Novel N-Acyl-N -( Beta-D-Glucopyranosyl) Urea Inhibitors.
Curr Top Med Chem V. 15 2373 2015
PubMed-ID: 26088352  |  Reference-DOI: 10.2174/1568026615666150619142253

(-) Compounds

Molecule 1 - GLYCOGEN PHOSPHORYLASE, MUSCLE FORM
    Chains: A
    EC Number: 2.4.1.1
    Organism Common: RABBIT
    Organism Scientific: ORYCTOLAGUS CUNICULUS
    Organism Taxid: 9986
    Synonym: MYOPHOSPHORYLASE
    Tissue: MUSCLE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 3)

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
14D11Ligand/IonN-({(2E)-3-[4-(PROPAN-2-YL)PHENYL]PROP-2-ENOYL}CARBAMOYL)-BETA-D-GLUCOPYRANOSYLAMINE
2IMP1Ligand/IonINOSINIC ACID
3PLP1Ligand/IonPYRIDOXAL-5'-PHOSPHATE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:134 , LYS A:568 , LYS A:574 , TYR A:648 , ARG A:649 , VAL A:650 , GLY A:675 , THR A:676 , GLY A:677 , LYS A:680 , HOH A:1105 , HOH A:1148 , HOH A:1149 , HOH A:1153 , HOH A:1160binding site for residue PLP A 901
2AC2SOFTWAREGLU A:88 , ASN A:133 , GLY A:135 , LEU A:136 , ASN A:282 , ARG A:292 , HIS A:341 , HIS A:377 , GLU A:385 , ASN A:484 , TYR A:573 , GLU A:672 , ALA A:673 , SER A:674 , GLY A:675 , HOH A:1122 , HOH A:1160 , HOH A:1284 , HOH A:1288 , HOH A:1313 , HOH A:1376binding site for residue 4D1 A 902
3AC3SOFTWAREVAL A:45 , GLN A:72 , TYR A:75 , ARG A:309 , ARG A:310 , HOH A:1006binding site for residue IMP A 903

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4YI5)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4YI5)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4YI5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4YI5)

(-) Exons   (0, 0)

(no "Exon" information available for 4YI5)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
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:809
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhh..hhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee...eeee.hhhhhhhhhhhhhhhhhhhhhh..hhhhhhh....eee..hhhhhhhhhhhhhhhhh...eeeeee.......eeeee..eeeee............ee.hhhheeeee..eeeee..eeeee..eeeeeeeeeeeee......eeeeeeeeee........hhhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhheeeeee.....hhhhhhhhhhhhh...hhhhhhhhhhhheeee....hhhhh.eeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhh.ee.....eeehhhhhhhh..eeee.hhhhhhhhhhh.hhhhhhhh...eee.....hhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhh.......eeeeee.......hhhhhhhhhhhhhhhhhhh.......eeeeee......hhhhhhhhhhhhhhhhhhh....hhh.eeeeee...hhhhhhhhhhhh.eeee..........hhhhhhhhh..eeee....hhhhhhhhhhhhhhee...hhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4yi5 A  12 QISVRGLAGVENVTELKKNFNRHLHFTLVKDRNVATPRDYYFALAHTVRDHLVGRWIRTQQHYYEKDPKRIYYLSLEFYMGRTLQNTMVNLALENACDEATYQLGLDMEELEEIEEDAGLGNGGLGRLAACFLDSMATLGLAAYGYGIRYEFGIFNQKICGGWQMEEADDWLRYGNPWEKARPEFTLPVHFYGRVEHTSQGAKWVDTQVVLAMPYDTPVPGYRNNVVNTMRLWSAKAPNDFNLGYIQAVLDRNLAENISRVLYPNDNFFEGKELRLKQEYFVVAATLQDIIRRFKSSNFDAFPDKVAIQLNDTHPSLAIPELMRVLVDLERLDWDKAWEVTVKTCAYTNHTVLPEALERWPVHLLETLLPRHLQIIYEINQRFLNRVAAAFPGDVDRLRRMSLVEEGAVKRINMAHLCIAGSHAVNGVARIHSEILKKTIFKDFYELEPHKFQNKTNGITPRRWLVLCNPGLAEIIAERIGEEYISDLDQLRKLLSYVDDEAFIRDVAKVKQENKLKFAAYLEREYKVHINPNSLFDVQVKRIHEYKRQLLNCLHVITLYNRIKKEPNKFVVPRTVMIGGKAAPGYHMAKMIIKLITAIGDVVNHDPVVGDRLRVIFLENYRVSLAEKVIPAADLSEQISTAGTEASGTGNMKFMLNGALTIGTMDGANVEMAEEAGEENFFIFGMRVEDVDRLDQRGYNAQEYYDRIPELRQIIEQLSSGFFSPKQPDLFKDIVNMLMHHDRFKVFADYEEYVKCQERVSALYKNPREWTRMVIRNIATSGKFSSDRTIAQYAREIWGVEPSRQRLPA 836
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251  ||   267       277       287       297       307      |327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557       567       577       587       597       607       617       627       637       647       657       667       677       687       697       707       717       727       737       747       757       767       777       787       797       807       817       827         
                                                                                                                                                                                                                                                                            254|                                                  314|                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               
                                                                                                                                                                                                                                                                             261                                                   325
   Legend:   → Mismatch (orange background)
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  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 4YI5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4YI5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4YI5)

(-) Gene Ontology  (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)

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  PYGM_RABIT | P00489
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  2.4.1.1
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 Related Entries

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

UniProtKB/Swiss-Prot
        PYGM_RABIT | P00489: 1a8i 1abb 1axr 1b4d 1bx3 1c50 1c8k 1c8l 1e1y 1fs4 1ftq 1ftw 1fty 1fu4 1fu7 1fu8 1gfz 1gg8 1ggn 1gpa 1gpb 1gpy 1h5u 1hlf 1k06 1k08 1kti 1lwn 1lwo 1noi 1noj 1nok 1p29 1p2b 1p2d 1p2g 1p4g 1p4h 1p4j 1pyg 1uzu 1wut 1wuy 1wv0 1wv1 1ww2 1ww3 1xc7 1xkx 1xl0 1xl1 1z62 1z6p 1z6q 2amv 2f3p 2f3q 2f3s 2f3u 2fet 2ff5 2ffr 2g9q 2g9r 2g9u 2g9v 2gj4 2gm9 2gpa 2gpb 2gpn 2ieg 2iei 2off 2pri 2prj 2pyd 2pyi 2qlm 2qln 2qn1 2qn2 2qn3 2qn7 2qn8 2qn9 2qnb 2qrg 2qrh 2qrm 2qrp 2qrq 2skc 2skd 2ske 3amv 3bcr 3bcs 3bcu 3bd6 3bd7 3bd8 3bda 3cut 3cuu 3cuv 3cuw 3e3l 3e3n 3e3o 3ebo 3ebp 3g2h 3g2i 3g2j 3g2k 3g2l 3g2n 3gpb 3l79 3l7a 3l7b 3l7c 3l7d 3mqf 3mrt 3mrv 3mrx 3ms2 3ms4 3ms7 3msc 3mt7 3mt8 3mt9 3mta 3mtb 3mtd 3nc4 3np7 3np9 3npa 3s0j 3sym 3syr 3t3d 3t3e 3t3g 3t3h 3t3i 3zcp 3zcq 3zcr 3zcs 3zct 3zcu 3zcv 4ctm 4ctn 4cto 4ej2 4eke 4eky 4el0 4el5 4gpb 4mho 4mhs 4mi3 4mi6 4mi9 4mic 4mra 4yi3 4yua 4z5x 5gpb 5jtt 5jtu 5lrc 5lrd 5lre 5lrf 6gpb 7gpb 8gpb 9gpb

(-) Related Entries Specified in the PDB File

4yi3 SAME PROTEIN IN COMPLEX WITH 4A