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(-) Description

Title :  REFINED CRYSTAL STRUCTURE OF THE PHOSPHORYLASE-HEPTULOSE 2-PHOSPHATE-OLIGOSACCHARIDE-AMP COMPLEX
 
Authors :  K. R. Acharya, L. N. Johnson
Date :  04 Jun 90  (Deposition) - 15 Oct 92  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.86
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Glycogen Phosphorylase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. N. Johnson, K. R. Acharya, M. D. Jordan, P. J. Mclaughlin
Refined Crystal Structure Of The Phosphorylase-Heptulose 2-Phosphate-Oligosaccharide-Amp Complex.
J. Mol. Biol. V. 211 645 1990
PubMed-ID: 2106586  |  Reference-DOI: 10.1016/0022-2836(90)90271-M
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - GLYCOGEN PHOSPHORYLASE B
    Chains: A
    EC Number: 2.4.1.1
    Engineered: YES
    Organism Common: RABBIT
    Organism Scientific: ORYCTOLAGUS CUNICULUS

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 9)

Asymmetric Unit (4, 9)
No.NameCountTypeFull Name
1AMP2Ligand/IonADENOSINE MONOPHOSPHATE
2GLC5Ligand/IonALPHA-D-GLUCOSE
3H2P1Mod. ResidueHEPTULOSE-2-PHOSPHATE
4PLP1Ligand/IonPYRIDOXAL-5'-PHOSPHATE
Biological Unit 1 (4, 18)
No.NameCountTypeFull Name
1AMP4Ligand/IonADENOSINE MONOPHOSPHATE
2GLC10Ligand/IonALPHA-D-GLUCOSE
3H2P2Mod. ResidueHEPTULOSE-2-PHOSPHATE
4PLP2Ligand/IonPYRIDOXAL-5'-PHOSPHATE

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:135 , LEU A:136 , LEU A:139 , HIS A:377 , ASN A:484 , ARG A:569 , TYR A:573 , LYS A:574 , GLU A:672 , ALA A:673 , SER A:674 , GLY A:675 , THR A:676 , PLP A:999 , HOH A:1518BINDING SITE FOR RESIDUE H2P A 998
2AC2SOFTWAREVAL A:422 , LEU A:425 , ARG A:426 , GLC A:904BINDING SITE FOR RESIDUE GLC A 903
3AC3SOFTWAREGLU A:433 , GLC A:903 , GLC A:905BINDING SITE FOR RESIDUE GLC A 904
4AC4SOFTWARETYR A:404 , ASN A:407 , GLU A:433 , LYS A:437 , GLC A:904 , GLC A:906BINDING SITE FOR RESIDUE GLC A 905
5AC5SOFTWARETYR A:404 , GLN A:408 , GLC A:905 , GLC A:907 , HOH A:1392BINDING SITE FOR RESIDUE GLC A 906
6AC6SOFTWAREGLU A:405 , GLC A:906 , HOH A:1262BINDING SITE FOR RESIDUE GLC A 907
7AC7SOFTWARETRP A:491 , 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 , H2P A:998 , HOH A:1498 , HOH A:1499 , HOH A:1518BINDING SITE FOR RESIDUE PLP A 999
8AC8SOFTWAREPHE A:285 , GLU A:572 , TYR A:613 , MET A:615BINDING SITE FOR RESIDUE AMP A 913
9AC9SOFTWARETYR A:75 , ARG A:309 , ARG A:310 , HOH A:1545BINDING SITE FOR RESIDUE AMP A 997

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 6GPB)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 6GPB)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 6GPB)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 6GPB)

(-) Exons   (0, 0)

(no "Exon" information available for 6GPB)

(-) Sequences/Alignments

Asymmetric 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:828
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains d6gpba_ A: Glycogen phosphorylase                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains 6gpbA01 A:14-485,A:813-836 Glycogen Phosphorylase B;                                                                                                                                                                                                                                                                                                                                                                                                                                    6gpbA02 A:486-812 Glycogen Phosphorylase B;                                                                                                                                                                                                                                                                                            6gpbA01                 ----- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
     Sec.struct. author (1) ......hhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeee..eeee.hhhhhhhhh.hhhhhhhhhhhh..hhhhhhh....eee..hhhhhhhhhhhhhhhhh..eeeeeeee.ee...eeeee..eeeee............eee....eeeeeeeeeeee..eeeeeeeeeeeeeeeeeeeee....eeeeeeeeeee.............hhhhhhhhhhhhhh.eeee.........hhhhhhhhhhhhhhhhhhhhhhhhhh.............hhhhhh------....hhhhhhhhhhhh....hhhhhhhhhhhhh----........---hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhheee....---hhhhhhhhh..eeee.hhhhhhhhhhh.hhhhhhhh..eeeeeee...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh........eeeeeeeee....hhhhhhhhhhhhhhhhhhh......eeeeeeeee....hhhhhhhhhhhhhhhhhhh.......eeeeeee...hhhhhhhhh...eeeee..........hhhhhhhhh..eeeee...hhhhhhhhhh....eee..hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhh................ Sec.struct. author (1)
     Sec.struct. author (2) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------eeeeeeee-------------------------------eeeeee--------eeeee-----------------------------------------------eeeee---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Sec.struct. author (2)
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 6gpb A  14 SVRGLAGVENVTELKKNFNRHLHFTLVKDRNVATPRDYYFALAHTVRDHLVGRWIRTQQHYYEKDPKRIYYLSLEFYMGRTLQNTMVNLALENACDEATYQLGLDMEELEEIEEDAGLGNGGLGRLAACFLDSMATLGLAAYGYGIRYEFGIFNQKICGGWQMEEADDWLRYGNPWEKARPEFTLPVHFYGRVEHTSQGAKWVDTQVVLAMPYDTPVPGYRNNVVNTMRLWSAKAPNDFNLKDFNVGGYIQAVLDRNLAENISRVLYPNDNFFEGKELRLKQEYFVVAATLQDIIRRFKSSKFGCRDPVRTNFDAFPDKVAIQLNDTHPSLAIPELMRVLVDLERLDWDKAWEVTVKTCAYTNHTVIPEALERWPVHLLETLLPRHLQIIYEINQRFLNRVAAAFPGDVDRLRRMSLVEEGAVKRINMAHLCIAGSHAVNGVARIHSEILKKTIFKDFYELEPHKFQNKTNGITPRRWLVLCNPGLAEIIAERIGEEYISDLDQLRKLLSYVDDEAFIRDVAKVKQENKLKFAAYLEREYKVHINPNSLFDVQVKRIHEYKRQLLNCLHVITLYNRIKKEPNKFVVPRTVMIGGKAAPGYHMAKMIIKLITAIGDVVNHDPVVGDRLRVIFLENYRVSLAEKVIPAADLSEQISTAGTEASGTGNMKFMLNGALTIGTMDGANVEMAEEAGEENFFIFGMRVEDVDRLDQRGYNAQEYYDRIPELRQIIEQLSSGFFSPKQPDLFKDIVNMLMHHDRFKVFADYEEYVKCQERVSALYKNPREWTRMVIRNIATSGKFSSDRTIAQYAREIWGVEPSRQRLPAPDEKI 841
                                    23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633       643       653       663       673       683       693       703       713       723       733       743       753       763       773       783       793       803       813       823       833
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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  (1, 1)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 6GPB)

(-) Gene Ontology  (10, 10)

Asymmetric Unit(hide GO term definitions)

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  6gpb
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  2.4.1.1
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        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 4yi5 4yua 4z5x 5gpb 5jtt 5jtu 5lrc 5lrd 5lre 5lrf 7gpb 8gpb 9gpb

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