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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN CARBONIC ANHYDRASE ISOZYME XIII WITH THE INHIBITOR.
 
Authors :  A. Smirnov, E. Manakova, S. Grazulis
Date :  02 Nov 12  (Deposition) - 10 Apr 13  (Release) - 10 Apr 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.95
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  B  (1x)
Biol. Unit 2:  A  (1x)
Keywords :  Drug Design, Carbonic Anhydrase, Benzenesulfonamide, Metal-Binding, Lyase-Lyase Inhibitor Complex, Carbonate Dehydratase Activity, Carbon-Oxygen Lyase Activity (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. Dudutiene, A. Zubriene, A. Smirnov, J. Gylyte, D. Timm, E. Manakova S. Grazulis, D. Matulis
4-Substituted-2, 3, 5, 6-Tetrafluorobenzenesulfonamides As Inhibitors Of Carbonic Anhydrases I, Ii, Vii, Xii, And Xiii
Bioorg. Med. Chem. V. 21 2093 2013
PubMed-ID: 23394791  |  Reference-DOI: 10.1016/J.BMC.2013.01.008

(-) Compounds

Molecule 1 - CARBONIC ANHYDRASE 13
    Chains: B, A
    EC Number: 4.2.1.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET15B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: HUMAN CARBONIC ANHYDRASE XIII
    Gene: CA13
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: CARBONATE DEHYDRATASE XIII, CARBONIC ANHYDRASE XIII, CA- XIII

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 12)

Asymmetric Unit (4, 12)
No.NameCountTypeFull Name
1EDO7Ligand/Ion1,2-ETHANEDIOL
2PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
3V132Ligand/Ion2,3,5,6-TETRAFLUORO-4-[(2-HYDROXYETHYL)SULFONYL]BENZENESULFONAMIDE
4ZN2Ligand/IonZINC ION
Biological Unit 1 (2, 3)
No.NameCountTypeFull Name
1EDO2Ligand/Ion1,2-ETHANEDIOL
2PEG-1Ligand/IonDI(HYDROXYETHYL)ETHER
3V131Ligand/Ion2,3,5,6-TETRAFLUORO-4-[(2-HYDROXYETHYL)SULFONYL]BENZENESULFONAMIDE
4ZN-1Ligand/IonZINC ION
Biological Unit 2 (3, 7)
No.NameCountTypeFull Name
1EDO5Ligand/Ion1,2-ETHANEDIOL
2PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
3V131Ligand/Ion2,3,5,6-TETRAFLUORO-4-[(2-HYDROXYETHYL)SULFONYL]BENZENESULFONAMIDE
4ZN-1Ligand/IonZINC ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS B:96 , HIS B:98 , HIS B:121 , V13 B:302BINDING SITE FOR RESIDUE ZN B 301
02AC2SOFTWAREGLN B:94 , HIS B:96 , HIS B:98 , HIS B:121 , VAL B:123 , PHE B:133 , VAL B:145 , LEU B:200 , THR B:201 , VAL B:202 , ZN B:301 , HOH B:475 , HOH B:542BINDING SITE FOR RESIDUE V13 B 302
03AC3SOFTWAREGLY B:100 , SER B:101 , HIS B:105 , SER B:245 , HIS B:247BINDING SITE FOR RESIDUE EDO B 303
04AC4SOFTWAREARG B:10 , GLU B:11 , HIS B:12 , ASN B:13BINDING SITE FOR RESIDUE EDO B 304
05AC5SOFTWAREHIS A:96 , HIS A:98 , HIS A:121 , V13 A:302BINDING SITE FOR RESIDUE ZN A 301
06AC6SOFTWAREGLN A:94 , HIS A:96 , HIS A:98 , HIS A:121 , VAL A:123 , PHE A:133 , VAL A:145 , LEU A:200 , THR A:201 , VAL A:202 , TRP A:211 , ZN A:301 , HOH A:464 , HOH A:542 , HOH A:593BINDING SITE FOR RESIDUE V13 A 302
07AC7SOFTWARELYS A:59 , ILE A:60 , ARG A:177 , ASP B:28 , GLN B:29 , LEU B:253 , LYS B:254 , ARG B:256BINDING SITE FOR RESIDUE PEG A 303
08AC8SOFTWAREPRO A:189 , SER A:190 , ARG B:82BINDING SITE FOR RESIDUE EDO A 304
09AC9SOFTWARELYS A:38 , GLN A:160 , GLN A:223 , LYS A:227 , HOH A:425 , HOH A:645BINDING SITE FOR RESIDUE EDO A 305
10BC1SOFTWAREASP A:54 , SER A:56BINDING SITE FOR RESIDUE EDO A 306
11BC2SOFTWAREGLY A:100 , SER A:101 , HIS A:105 , SER A:245 , HIS A:247 , HOH A:414 , HOH A:693BINDING SITE FOR RESIDUE EDO A 307
12BC3SOFTWAREASP A:103 , ILE A:152 , THR B:75 , HOH B:638 , HOH B:639BINDING SITE FOR RESIDUE EDO A 308

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4HU1)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Ser B:31 -Pro B:32
2Pro B:203 -Pro B:204
3Ser A:31 -Pro A:32
4Pro A:203 -Pro A:204

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4HU1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4HU1)

(-) Exons   (0, 0)

(no "Exon" information available for 4HU1)

(-) 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:259
                                                                                                                                                                                                                                                                                                   
               SCOP domains d4hu1a_ A: automated matches                                                                                                                                                                                                                                        SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhhhhhhhhhh......eehhhhhee......eeee.....eeeeee....eeeee.......eeee......eeeeeeeeee..........ee......eeeeeeeee.....hhhhhh.....eeeeeeeeee...hhhhhhhhhhhhhhh....eee....hhhhhh.....eeeeee..........eeeeee...eeehhhhhhhhhh............................ee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hu1 A   5 LSWGYREHNGPIHWKEFFPIADGDQQSPIEIKTKEVKYDSSLRPLSIKYDPSSAKIISNSGHSFNVDFDDTENKSVLRGGPLTGSYRLRQVHLHWGSADDHGSEHIVDGVSYAAELHVVHWNSDKYPSFVEAAHEPDGLAVLGVFLQIGEPNSQLQKITDTLDSIKEKGKQTRFTNFDLLSLLPPSWDYWTYPGSLTVPPLLESVTWIVLKQPINISSQQLAKFRSLLCTAEGEAAAFLVSNHRPPQPLKGRKVRASFH 263
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254         


Chain B from PDB  Type:PROTEIN  Length:260
                                                                                                                                                                                                                                                                                                    
               SCOP domains d4hu1b_ B: automated matches                                                                                                                                                                                                                                         SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhhh......eehhhhhee....eeeeee.hhh.eeeeee....eeeee.......eeeee.....eeeeeeeeee..........ee......eeeeeeeee.....hhhhhh.....eeeeeeeeee...hhhhhhhhh..........eee.....hhhhh.....eeeeee..........eeeeee...eeehhhhhhhhh.............................ee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hu1 B   4 RLSWGYREHNGPIHWKEFFPIADGDQQSPIEIKTKEVKYDSSLRPLSIKYDPSSAKIISNSGHSFNVDFDDTENKSVLRGGPLTGSYRLRQVHLHWGSADDHGSEHIVDGVSYAAELHVVHWNSDKYPSFVEAAHEPDGLAVLGVFLQIGEPNSQLQKITDTLDSIKEKGKQTRFTNFDLLSLLPPSWDYWTYPGSLTVPPLLESVTWIVLKQPINISSQQLAKFRSLLCTAEGEAAAFLVSNHRPPQPLKGRKVRASFH 263
                                    13        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
   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  (1, 2)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4HU1)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4HU1)

(-) Gene Ontology  (9, 9)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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        CAH13_HUMAN | Q8N1Q1: 3czv 3d0n 3da2 4knm 4knn 4qiz 4qjp 4qjx 4qsj 5e2n

(-) Related Entries Specified in the PDB File

4ht0 4ht2