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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN CARBONIC ANHYDRASE ISOZYME XIII WITH INHIBITOR
 
Authors :  E. Manakova, A. Smirnov, S. Grazulis
Date :  04 Jun 14  (Deposition) - 15 Apr 15  (Release) - 15 Apr 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.62
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 (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. Dudutiene, A. Zubriene, A. Smirnov, D. D. Timm, J. Smirnoviene, J. Kazokaite, V. Michailoviene, A. Zaksauskas, E. Manakova, S. Grazulis, D. Matulis
Functionalization Of Fluorinated Benzenesulfonamides And Their Inhibitory Properties Toward Carbonic Anhydrases
Chemmedchem V. 10 662 2015
PubMed-ID: 25758852  |  Reference-DOI: 10.1002/CMDC.201402490

(-) 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
    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  (5, 10)

Asymmetric Unit (5, 10)
No.NameCountTypeFull Name
1CIT1Ligand/IonCITRIC ACID
2EDO4Ligand/Ion1,2-ETHANEDIOL
3PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
4V1F2Ligand/Ion3-(BENZYLAMINO)-2,5,6-TRIFLUORO-4-[(2-PHENYLETHYL)SULFONYL]BENZENESULFONAMIDE
5ZN2Ligand/IonZINC ION
Biological Unit 1 (3, 3)
No.NameCountTypeFull Name
1CIT-1Ligand/IonCITRIC ACID
2EDO1Ligand/Ion1,2-ETHANEDIOL
3PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
4V1F1Ligand/Ion3-(BENZYLAMINO)-2,5,6-TRIFLUORO-4-[(2-PHENYLETHYL)SULFONYL]BENZENESULFONAMIDE
5ZN-1Ligand/IonZINC ION
Biological Unit 2 (3, 5)
No.NameCountTypeFull Name
1CIT1Ligand/IonCITRIC ACID
2EDO3Ligand/Ion1,2-ETHANEDIOL
3PEG-1Ligand/IonDI(HYDROXYETHYL)ETHER
4V1F1Ligand/Ion3-(BENZYLAMINO)-2,5,6-TRIFLUORO-4-[(2-PHENYLETHYL)SULFONYL]BENZENESULFONAMIDE
5ZN-1Ligand/IonZINC ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS B:96 , HIS B:98 , HIS B:121 , V1F B:303BINDING SITE FOR RESIDUE ZN B 301
02AC2SOFTWARELYS 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 B 302
03AC3SOFTWARESER B:64 , HIS B:66 , ASN B:69 , GLN B:94 , HIS B:96 , HIS B:98 , HIS B:121 , VAL B:123 , PHE B:133 , ALA B:137 , LEU B:200 , THR B:201 , VAL B:202 , PRO B:204 , ZN B:301 , HOH B:608 , HOH B:637 , HOH B:639BINDING SITE FOR RESIDUE V1F B 303
04AC4SOFTWAREGLY B:100 , SER B:101 , HIS B:105 , SER B:245 , HIS B:247 , HOH B:420BINDING SITE FOR RESIDUE EDO B 304
05AC5SOFTWAREHIS A:96 , HIS A:98 , HIS A:121 , V1F A:303BINDING SITE FOR RESIDUE ZN A 301
06AC6SOFTWAREGLY A:100 , SER A:101 , HIS A:105 , SER A:245 , HIS A:247 , HOH A:485 , HOH A:618 , HOH B:499BINDING SITE FOR RESIDUE CIT A 302
07AC7SOFTWAREHIS A:66 , ASN A:69 , GLN 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:487 , HOH A:590 , HOH A:641 , HOH A:643BINDING SITE FOR RESIDUE V1F A 303
08AC8SOFTWAREGLN A:160 , GLN A:223 , LYS A:227 , HOH A:458 , HOH A:611 , HOH A:614BINDING SITE FOR RESIDUE EDO A 304
09AC9SOFTWARELEU A:166 , ASP A:167 , LYS A:170 , SER A:230BINDING SITE FOR RESIDUE EDO A 305
10BC1SOFTWAREASP A:104 , VAL A:114 , SER A:115 , SER A:157 , HOH A:639BINDING SITE FOR RESIDUE EDO A 306

(-) SS Bonds  (0, 0)

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

(-) 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 4QJP)

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4QJP)

(-) 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:258
                                                                                                                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhh......ee.....ee......eeee.hhh.eeeeee....eeeee.......eeee......eeeeeeeeee..........ee......eeeeeeeee.....hhhhhh.....eeeeeeeeee...hhhhhhhhhhhhhhh....eee....hhhhhh.....eeeeee..........eeeeee...eeehhhhhhhhh.............................ee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4qjp A   6 SWGYREHNGPIHWKEFFPIADGDQQSPIEIKTKEVKYDSSLRPLSIKYDPSSAKIISNSGHSFNVDFDDTENKSVLRGGPLTGSYRLRQVHLHWGSADDHGSEHIVDGVSYAAELHVVHWNSDKYPSFVEAAHEPDGLAVLGVFLQIGEPNSQLQKITDTLDSIKEKGKQTRFTNFDLLSLLPPSWDYWTYPGSLTVPPLLESVTWIVLKQPINISSQQLAKFRSLLCTAEGEAAAFLVSNHRPPQPLKGRKVRASFH 263
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255        


Chain B from PDB  Type:PROTEIN  Length:258
                                                                                                                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhh......eehhhhhee....eeeeee.....eeeeee....eeeee.......eeeee.....eeeeeeeeee..........ee......eeeeeeeee.....hhhhhh.....eeeeeeeeee...hhhhhhhhhhhhhhh....eee.....hhhhh.....eeeeee..........eeeeee...eeehhhhhhhhh.............................ee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4qjp B   6 SWGYREHNGPIHWKEFFPIADGDQQSPIEIKTKEVKYDSSLRPLSIKYDPSSAKIISNSGHSFNVDFDDTENKSVLRGGPLTGSYRLRQVHLHWGSADDHGSEHIVDGVSYAAELHVVHWNSDKYPSFVEAAHEPDGLAVLGVFLQIGEPNSQLQKITDTLDSIKEKGKQTRFTNFDLLSLLPPSWDYWTYPGSLTVPPLLESVTWIVLKQPINISSQQLAKFRSLLCTAEGEAAAFLVSNHRPPQPLKGRKVRASFH 263
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255
   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 4QJP)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (9, 9)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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UniProtKB/Swiss-Prot
        CAH13_HUMAN | Q8N1Q1: 3czv 3d0n 3da2 4hu1 4knm 4knn 4qiz 4qjx 4qsj 5e2n

(-) Related Entries Specified in the PDB File

4qiy 4qiz 4qj0 4qjm 4qjo 4qjw 4qjx 4qtl