Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asym./Biol. Unit
(-)Asym./Biol. Unit - sites
collapse expand < >
Image Asym./Biol. Unit
Asym./Biol. Unit  (Jmol Viewer)
Image Asym./Biol. Unit - sites
Asym./Biol. Unit - sites  (Jmol Viewer)

(-) Description

Title :  G215S, A251G, T257A, D260G, T262D MUTANT OF CARBOXYPEPTIDASE T FROM THERMOACTINOMYCES VULGARIS WITH N-SULFAMOYL-L-PHENYLALANINE
 
Authors :  V. I. Timofeev, S. A. Kuznetsov, V. K. Akparov, I. P. Kuranova
Date :  07 Dec 12  (Deposition) - 11 Dec 13  (Release) - 11 Dec 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.35
Chains :  Asym./Biol. Unit :  A
Keywords :  Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. I. Timofeev, S. A. Kuznetsov, V. K. Akparov, I. P. Kuranova
G215S, A251G, T257A, D260G, T262D Mutant Of Carboxypeptidas T From Thermoactinomyces Vulgaris With N-Sulfamoyl-L-Phenylalanine
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - CARBOXYPEPTIDASE T
    Chains: A
    EC Number: 3.4.17.18
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: CPT
    Mutation: YES
    Organism Scientific: THERMOACTINOMYCES VULGARIS
    Organism Taxid: 2026

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 20)

Asymmetric/Biological Unit (5, 20)
No.NameCountTypeFull Name
1CA5Ligand/IonCALCIUM ION
2CXA1Ligand/IonPHENYLALANINE-N-SULFONAMIDE
3GOL10Ligand/IonGLYCEROL
4SO43Ligand/IonSULFATE ION
5ZN1Ligand/IonZINC ION

(-) Sites  (20, 20)

Asymmetric Unit (20, 20)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS A:69 , GLU A:72 , HIS A:204 , CXA A:402BINDING SITE FOR RESIDUE ZN A 401
02AC2SOFTWAREHIS A:69 , GLU A:72 , ARG A:129 , ASN A:146 , ARG A:147 , HIS A:204 , THR A:205 , LEU A:211 , GLY A:251 , TYR A:255 , ALA A:257 , GLU A:277 , ZN A:401 , HOH A:660BINDING SITE FOR RESIDUE CXA A 402
03AC3SOFTWARESER A:7 , TYR A:9 , GLU A:14 , HOH A:570 , HOH A:676 , HOH A:755BINDING SITE FOR RESIDUE CA A 403
04AC4SOFTWARETYR A:125 , SER A:223 , TYR A:288 , HOH A:595 , HOH A:625 , HOH A:711 , HOH A:768BINDING SITE FOR RESIDUE GOL A 404
05AC5SOFTWARESER A:50 , ASP A:51 , GLU A:57 , GLU A:59 , HOH A:587BINDING SITE FOR RESIDUE CA A 405
06AC6SOFTWAREASP A:56 , GLU A:57 , GLU A:61 , GLU A:104 , HOH A:685 , HOH A:686BINDING SITE FOR RESIDUE CA A 406
07AC7SOFTWAREARG A:183 , ASN A:187 , TRP A:264 , GLN A:268 , HOH A:607 , HOH A:654BINDING SITE FOR RESIDUE SO4 A 407
08AC8SOFTWAREVAL A:16 , ASN A:20 , ASN A:25 , LYS A:32 , TRP A:45 , HOH A:548BINDING SITE FOR RESIDUE SO4 A 408
09AC9SOFTWAREGLY A:193 , LYS A:194 , GLN A:195 , HIS A:269 , HOH A:596 , HOH A:637 , HOH A:751BINDING SITE FOR RESIDUE GOL A 409
10BC1SOFTWARELYS A:126 , SER A:127 , TRP A:128 , LYS A:152 , GLU A:166 , HOH A:635BINDING SITE FOR RESIDUE GOL A 410
11BC2SOFTWARESER A:34 , GLY A:36 , LYS A:37 , GLU A:43 , HOH A:593 , HOH A:790BINDING SITE FOR RESIDUE GOL A 411
12BC3SOFTWAREHIS A:10 , LYS A:18 , HOH A:682BINDING SITE FOR RESIDUE GOL A 412
13BC4SOFTWARELYS A:48 , TYR A:106 , HOH A:575BINDING SITE FOR RESIDUE GOL A 413
14BC5SOFTWAREGLY A:137 , SER A:138 , SER A:139 , TYR A:140 , ARG A:171 , SER A:172 , HOH A:544 , HOH A:602BINDING SITE FOR RESIDUE GOL A 414
15BC6SOFTWAREPRO A:3 , SER A:4 , TYR A:5 , HOH A:681 , HOH A:743BINDING SITE FOR RESIDUE GOL A 415
16BC7SOFTWAREGLU A:303 , HOH A:599 , HOH A:706BINDING SITE FOR RESIDUE GOL A 416
17BC8SOFTWARETYR A:5 , ASP A:291 , GLU A:292 , HOH A:591 , HOH A:753 , HOH A:754 , HOH A:762BINDING SITE FOR RESIDUE CA A 417
18BC9SOFTWARETYR A:206 , SER A:207BINDING SITE FOR RESIDUE SO4 A 418
19CC1SOFTWARESER A:139 , TYR A:140 , HOH A:787 , HOH A:788BINDING SITE FOR RESIDUE GOL A 419
20CC2SOFTWAREASP A:51 , GLU A:57 , GLU A:59 , ASN A:101 , HOH A:756 , HOH A:757BINDING SITE FOR RESIDUE CA A 420

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:155 -A:156
2A:314 -A:323

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Thr A:205 -Tyr A:206
2Pro A:213 -Tyr A:214
3Tyr A:279 -Pro A:280
4Asn A:284 -Pro A:285

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4IAV)

(-) 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:323
                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains d4iava_ A: Carboxypeptidase T                                                                                                                                                                                                                                                                                                       SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhh...hhhhhhhhhhhhhhhh...eeeeeeee.....eeeeeee...........eeeeee......hhhhhhhhhhhhhhhhh...hhhhhhhhhhheeeee...hhhhhhhhhh......................hhhhh...........................hhhhhhhhhhhhhhee..ee.eeeeeeee....eeee.............hhhhhhhhhhhhhhhhhhhh.eeee.hhh.....hhhhhhhhhhh.eeeeee............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4iav A   1 DFPSYDSGYHNYNEMVNKINTVASNYPNIVKKFSIGKSYEGRELWAVKISDNVGTDENEPEVLYTALHHAREHLTVEMALYTLDLFTQNYNLDSRITNLVNNREIYIVFNINPDGGEYDISSGSYKSWRKNRQPNSGSSYVGTDLNRNYGYKWGCCGGSSGSPSSETYRGRSAFSAPETAAMRDFINSRVVGGKQQIKTLITFHTYSELILYPYSYTYTDVPSDMTQDDFNVFKTMANTMAQTNGYTPQQGSDLYIADGGMDDWAYGQHKIFAFTFEMYPTSYNPGFYPPDEVIGRETSRNKEAVLYVAEKADCPYSVIGKSC 323
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320
   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, 1)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)

 Visualization

(-) Interactive Views

Asymmetric/Biological Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    CA  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    CXA  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    GOL  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    SO4  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    ZN  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
    AC3  [ RasMol ]  +environment [ RasMol ]
    AC4  [ RasMol ]  +environment [ RasMol ]
    AC5  [ RasMol ]  +environment [ RasMol ]
    AC6  [ RasMol ]  +environment [ RasMol ]
    AC7  [ RasMol ]  +environment [ RasMol ]
    AC8  [ RasMol ]  +environment [ RasMol ]
    AC9  [ RasMol ]  +environment [ RasMol ]
    BC1  [ RasMol ]  +environment [ RasMol ]
    BC2  [ RasMol ]  +environment [ RasMol ]
    BC3  [ RasMol ]  +environment [ RasMol ]
    BC4  [ RasMol ]  +environment [ RasMol ]
    BC5  [ RasMol ]  +environment [ RasMol ]
    BC6  [ RasMol ]  +environment [ RasMol ]
    BC7  [ RasMol ]  +environment [ RasMol ]
    BC8  [ RasMol ]  +environment [ RasMol ]
    BC9  [ RasMol ]  +environment [ RasMol ]
    CC1  [ RasMol ]  +environment [ RasMol ]
    CC2  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
    Asn A:284 - Pro A:285   [ RasMol ]  
    Pro A:213 - Tyr A:214   [ RasMol ]  
    Thr A:205 - Tyr A:206   [ RasMol ]  
    Tyr A:279 - Pro A:280   [ RasMol ]  
 

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym./Biol. Unit PNG format | Asym./Biol. Unit - sites PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  4iav
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  CBPT_THEVU | P29068
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  3.4.17.18
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  CBPT_THEVU | P29068
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/Swiss-Prot
        CBPT_THEVU | P29068: 1obr 3prt 3qnv 3v38 3v7z 4djl 4duk 4f8z 4gm5 4ihm 4ik2

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4IAV)