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(-) Description

Title :  NEW CRYSTAL FORM OF GLUCOSE ISOMERASE GROWN IN SHORT PEPTIDE SUPRAMOLECULAR HYDROGELS
 
Authors :  J. A. Gavira, M. Conejero-Muriel, J. J. Diaz-Mochon, L. Alvarez De Ci
Date :  03 Jul 14  (Deposition) - 13 May 15  (Release) - 13 May 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.20
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Isomerase, New Polymorph (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Conejero-Muriel, J. A. Gavira, E. Pineda-Molina, A. Belsom, M. Bradley, M. Moral, J. D. D. Garcia-Lopez Duran, A. Luque Gonzalez J. J. Diaz-Mochon, R. Contreras-Montoya, A. Martinez-Peragon, J. M. Cuerva, L. Alvarez De Cienfuegos
Influence Of The Chirality Of Short Peptide Supramolecular Hydrogels In Protein Crystallogenesis.
Chem. Commun. (Camb. ) V. 51 3862 2015
PubMed-ID: 25655841  |  Reference-DOI: 10.1039/C4CC09024A

(-) Compounds

Molecule 1 - XYLOSE ISOMERASE
    Chains: A, B
    EC Number: 5.3.1.5
    Organism Scientific: STREPTOMYCES RUBIGINOSUS
    Organism Taxid: 1929

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 13)

Asymmetric Unit (4, 13)
No.NameCountTypeFull Name
1CA2Ligand/IonCALCIUM ION
2GOL6Ligand/IonGLYCEROL
3MG3Ligand/IonMAGNESIUM ION
4NA2Ligand/IonSODIUM ION
Biological Unit 1 (1, 12)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2GOL12Ligand/IonGLYCEROL
3MG-1Ligand/IonMAGNESIUM ION
4NA-1Ligand/IonSODIUM ION

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLU A:217 , HIS A:220 , ASP A:255 , ASP A:257 , HOH A:2333BINDING SITE FOR RESIDUE CA A1388
02AC2SOFTWAREGLU A:181 , GLU A:217 , ASP A:245 , ASP A:287 , GOL A:1390BINDING SITE FOR RESIDUE MG A1389
03AC3SOFTWAREHIS A:54 , TRP A:137 , GLU A:181 , GLU A:217 , HIS A:220 , ASP A:245 , ASP A:287 , MG A:1389 , GOL A:1392 , HOH A:2172 , HOH A:2333 , HOH A:2362BINDING SITE FOR RESIDUE GOL A1390
04AC4SOFTWARETYR A:254 , GLN A:256 , LYS A:289 , HOH A:2053 , HOH A:2312 , HOH A:2371 , HOH A:2372 , HOH A:2498BINDING SITE FOR RESIDUE GOL A1391
05AC5SOFTWARETRP A:16 , HIS A:54 , PHE A:94 , LYS A:289 , GOL A:1390 , HOH A:2095 , HOH A:2307 , HOH A:2333BINDING SITE FOR RESIDUE GOL A1392
06AC6SOFTWAREASP A:56 , ILE A:59 , HOH A:2099 , HOH A:2105 , HOH A:2122BINDING SITE FOR RESIDUE NA A1393
07AC7SOFTWAREHOH A:2258 , HOH A:2261 , HOH A:2267 , HOH A:2268 , HOH A:2499BINDING SITE FOR RESIDUE MG A1394
08AC8SOFTWAREGLU B:217 , HIS B:220 , ASP B:255 , ASP B:257 , HOH B:2283BINDING SITE FOR RESIDUE CA B1389
09AC9SOFTWAREGLU B:181 , GLU B:217 , ASP B:245 , ASP B:287 , GOL B:1391BINDING SITE FOR RESIDUE MG B1390
10BC1SOFTWAREHIS B:54 , TRP B:137 , GLU B:181 , GLU B:217 , HIS B:220 , ASP B:245 , ASP B:287 , MG B:1390 , GOL B:1392 , HOH B:2168 , HOH B:2283 , HOH B:2302BINDING SITE FOR RESIDUE GOL B1391
11BC2SOFTWAREPHE A:26 , TRP B:16 , HIS B:54 , TRP B:137 , LYS B:289 , GOL B:1391 , HOH B:2035 , HOH B:2036 , HOH B:2091 , HOH B:2267 , HOH B:2283BINDING SITE FOR RESIDUE GOL B1392
12BC3SOFTWAREASP B:255 , GLN B:256 , LYS B:289 , NA B:1394 , HOH B:2271 , HOH B:2310 , HOH B:2437BINDING SITE FOR RESIDUE GOL B1393
13BC4SOFTWAREPRO A:187 , HOH A:2247 , TYR B:254 , GOL B:1393 , HOH B:2436BINDING SITE FOR RESIDUE NA B1394

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4US6)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Glu A:186 -Pro A:187
2Glu B:186 -Pro B:187
3Arg B:387 -Gly B:388

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4US6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4US6)

(-) Exons   (0, 0)

(no "Exon" information available for 4US6)

(-) 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:386
                                                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhh.eeeehhhhh...............hhhhhhhhhhhh...eeeeehhhhh....hhhhhhhhhhhhhhhhhhhh....eee.....hhhhh.......hhhhhhhhhhhhhhhhhhhhhh...eeee.....ee......hhhhhhhhhhhhhhhhhhhhhhhh...eeee.........ee...hhhhhhhhhh...hhh.eee..hhhhhhh...hhhhhhhhhhhh......ee.................hhhhhhhhhhhhhhhh....eee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhh...hhhhhhhh..hhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4us6 A   2 NYQPTPEDRFTFGLWTVGWQGRDPFGDATRRALDPVESVRRLAELGAHGVTFHDDDLIPFGSSDSEREEHVKRFRQALDDTGMKVPMATTNLFTHPVFKDGGFTANDRDVRRYALRKTIRNIDLAVELGAETYVAWGGREGAESGGAKDVRDALDRMKEAFDLLGEYVTSQGYDIRFAIEPKPNEPRGDILLPTVGHALAFIERLERPELYGVNPEVGHEQMAGLNFPHGIAQALWAGKLFHIDLNGQNGIKYDQDLRFGAGDLRAAFWLVDLLESAGYSGPRHFDFKPPRTEDFDGVWASAAGCMRNYLILKERAAAFRADPEVQEALRASRLDELARPTAADGLQALLDDRSAFEEFDVDAAAARGMAFERLDQLAMDHLLGAR 387
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381      


Chain B from PDB  Type:PROTEIN  Length:387
                                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhh.eeeehhhhh...............hhhhhhhhhhhh...eeeeehhhhh....hhhhhhhhhhhhhhhhhhhh.eeeeee.....hhhhh.......hhhhhhhhhhhhhhhhhhhhhhh..eeee.....ee......hhhhhhhhhhhhhhhhhhhhhhhh...eeee.........ee...hhhhhhhhhh...hhh.eee..hhhhhhh...hhhhhhhhhhhh......ee.................hhhhhhhhhhhhhhhh....eee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhh...hhhhhhhh..hhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4us6 B   2 NYQPTPEDRFTFGLWTVGWQGRDPFGDATRRALDPVESVRRLAELGAHGVTFHDDDLIPFGSSDSEREEHVKRFRQALDDTGMKVPMATTNLFTHPVFKDGGFTANDRDVRRYALRKTIRNIDLAVELGAETYVAWGGREGAESGGAKDVRDALDRMKEAFDLLGEYVTSQGYDIRFAIEPKPNEPRGDILLPTVGHALAFIERLERPELYGVNPEVGHEQMAGLNFPHGIAQALWAGKLFHIDLNGQNGIKYDQDLRFGAGDLRAAFWLVDLLESAGYSGPRHFDFKPPRTEDFDGVWASAAGCMRNYLILKERAAAFRADPEVQEALRASRLDELARPTAADGLQALLDDRSAFEEFDVDAAAARGMAFERLDQLAMDHLLGARG 388
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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 4US6)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4US6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4US6)

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)

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  4us6
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  XYLA_STRRU | P24300
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  5.3.1.5
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 Related Entries

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

UniProtKB/Swiss-Prot
        XYLA_STRRU | P24300: 1gw9 1mnz 1o1h 1oad 1xib 1xic 1xid 1xie 1xif 1xig 1xih 1xii 1xij 1xis 2g4j 2glk 2gub 2gve 2xis 3cwh 3gnx 3kbj 3kbm 3kbn 3kbs 3kbv 3kbw 3kcj 3kcl 3kco 3n4a 3qys 3qza 3u3h 3xis 4a8i 4a8l 4a8n 4a8r 4duo 4dvo 4e3v 4j4k 4lnc 4qdp 4qdw 4qe1 4qe4 4qe5 4qee 4qeh 4w4q 4xis 4zb0 4zb2 4zb5 4zbc 5avh 5avn 5i7g 8xia 9xia

(-) Related Entries Specified in the PDB File

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