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(-) Description

Title :  CARBOXYPEPTIDASE T WITH N-SULFAMOYL-L-PHENYLALANINE
 
Authors :  S. A. Kuznetsov, V. I. Timofeev, V. K. Akparov, I. P. Kuranova
Date :  02 Feb 12  (Deposition) - 06 Feb 13  (Release) - 06 Feb 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.55
Chains :  Asym./Biol. Unit :  A
Keywords :  Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. A. Kuznetsov, V. I. Timofeev, V. K. Akparov, I. P. Kuranova
Carboxypeptidase T 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
    Fragment: UNP RESIDUES 99-421
    Gene: CPT
    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, 39)

Asymmetric/Biological Unit (5, 39)
No.NameCountTypeFull Name
1CA5Ligand/IonCALCIUM ION
2CXA1Ligand/IonPHENYLALANINE-N-SULFONAMIDE
3GOL29Ligand/IonGLYCEROL
4SO43Ligand/IonSULFATE ION
5ZN1Ligand/IonZINC ION

(-) Sites  (39, 39)

Asymmetric Unit (39, 39)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS A:69 , GLU A:72 , ARG A:129 , ASN A:146 , ARG A:147 , HIS A:204 , THR A:205 , ALA A:251 , TYR A:255 , THR A:257 , ASP A:260 , GLU A:277 , GOL A:415 , ZN A:420 , HOH A:629BINDING SITE FOR RESIDUE CXA A 401
02AC2SOFTWAREASP A:56 , GLU A:57 , GLU A:61 , GLU A:104 , HOH A:648 , HOH A:749BINDING SITE FOR RESIDUE CA A 402
03AC3SOFTWARESER A:50 , ASP A:51 , GLU A:57 , GLU A:59 , HOH A:651BINDING SITE FOR RESIDUE CA A 403
04AC4SOFTWARESER A:7 , TYR A:9 , GLU A:14 , HOH A:646 , HOH A:762 , HOH A:767BINDING SITE FOR RESIDUE CA A 404
05AC5SOFTWARETYR A:5 , ASP A:291 , GLU A:292 , HOH A:554 , HOH A:765 , HOH A:766BINDING SITE FOR RESIDUE CA A 405
06AC6SOFTWAREARG A:183 , ASN A:187 , TRP A:264 , GLN A:268 , GOL A:430 , HOH A:667 , HOH A:694BINDING SITE FOR RESIDUE SO4 A 406
07AC7SOFTWAREHIS A:10 , LYS A:18 , GOL A:414BINDING SITE FOR RESIDUE SO4 A 407
08AC8SOFTWARETYR A:81 , SER A:299 , LYS A:302 , GOL A:421 , GOL A:423BINDING SITE FOR RESIDUE GOL A 408
09AC9SOFTWAREARG A:95 , THR A:239 , GLN A:242 , THR A:243 , TYR A:307 , GLU A:310 , HOH A:763 , HOH A:773BINDING SITE FOR RESIDUE GOL A 409
10BC1SOFTWAREHOH A:584 , HOH A:593 , HOH A:617 , HOH A:624BINDING SITE FOR RESIDUE GOL A 410
11BC2SOFTWAREGLY A:137 , SER A:139 , TYR A:140 , ARG A:171 , HOH A:544 , HOH A:609BINDING SITE FOR RESIDUE GOL A 411
12BC3SOFTWARETYR A:118 , ARG A:132 , HOH A:503 , HOH A:644 , HOH A:698BINDING SITE FOR RESIDUE GOL A 412
13BC4SOFTWAREARG A:71 , LYS A:152 , GLU A:166 , TYR A:216BINDING SITE FOR RESIDUE GOL A 413
14BC5SOFTWAREHIS A:10 , LYS A:18 , GLU A:77 , ASP A:84 , SO4 A:407 , HOH A:594 , HOH A:637 , HOH A:772BINDING SITE FOR RESIDUE GOL A 414
15BC6SOFTWARETYR A:206 , SER A:207 , TYR A:255 , GLU A:277 , CXA A:401BINDING SITE FOR RESIDUE GOL A 415
16BC7SOFTWARELYS A:126 , SER A:127 , TRP A:128 , LYS A:152 , GLU A:166 , GOL A:428 , HOH A:699BINDING SITE FOR RESIDUE GOL A 416
17BC8SOFTWAREVAL A:16 , ASN A:20 , ASN A:25 , LYS A:32 , TRP A:45 , GOL A:419 , HOH A:548 , HOH A:733BINDING SITE FOR RESIDUE SO4 A 417
18BC9SOFTWAREGLY A:193 , LYS A:194 , GLN A:195 , HIS A:269 , HOH A:608 , HOH A:643BINDING SITE FOR RESIDUE GOL A 418
19CC1SOFTWAREASN A:13 , ASN A:17 , SO4 A:417BINDING SITE FOR RESIDUE GOL A 419
20CC2SOFTWAREHIS A:69 , GLU A:72 , HIS A:204 , CXA A:401BINDING SITE FOR RESIDUE ZN A 420
21CC3SOFTWAREASN A:89 , ASP A:93 , LYS A:302 , GOL A:408 , HOH A:634 , HOH A:756BINDING SITE FOR RESIDUE GOL A 421
22CC4SOFTWARESER A:4 , TYR A:5 , GOL A:426 , HOH A:766BINDING SITE FOR RESIDUE GOL A 422
23CC5SOFTWAREGLN A:88 , ASN A:89 , GOL A:408 , HOH A:637BINDING SITE FOR RESIDUE GOL A 423
24CC6SOFTWAREGLU A:310 , LYS A:311 , ASP A:313 , CYS A:314 , SER A:317 , HOH A:718BINDING SITE FOR RESIDUE GOL A 424
25CC7SOFTWAREGLU A:40 , ARG A:132BINDING SITE FOR RESIDUE GOL A 425
26CC8SOFTWAREPRO A:3 , SER A:4 , TYR A:5 , GOL A:422 , HOH A:724 , HOH A:761BINDING SITE FOR RESIDUE GOL A 426
27CC9SOFTWARELYS A:31 , TYR A:106BINDING SITE FOR RESIDUE GOL A 427
28DC1SOFTWARELYS A:126 , GOL A:416 , HOH A:699BINDING SITE FOR RESIDUE GOL A 428
29DC2SOFTWARESER A:159 , THR A:167 , HOH A:550 , HOH A:713BINDING SITE FOR RESIDUE GOL A 429
30DC3SOFTWAREGLY A:150 , TRP A:264 , SO4 A:406 , HOH A:607 , HOH A:665BINDING SITE FOR RESIDUE GOL A 430
31DC4SOFTWARETHR A:226 , GLN A:227 , HOH A:527BINDING SITE FOR RESIDUE GOL A 431
32DC5SOFTWAREGLN A:249 , ASP A:253 , LEU A:254 , HOH A:739 , HOH A:780BINDING SITE FOR RESIDUE GOL A 432
33DC6SOFTWAREPRO A:60 , ASN A:102 , ASP A:313BINDING SITE FOR RESIDUE GOL A 433
34DC7SOFTWAREPHE A:174 , SER A:175 , ALA A:180 , HOH A:567BINDING SITE FOR RESIDUE GOL A 434
35DC8SOFTWAREASN A:25 , PRO A:27 , ASN A:28 , LYS A:31 , LYS A:32 , PHE A:33 , GOL A:438 , HOH A:561BINDING SITE FOR RESIDUE GOL A 435
36DC9SOFTWAREGLU A:40 , HOH A:676BINDING SITE FOR RESIDUE GOL A 436
37EC1SOFTWAREGLY A:192 , HOH A:621BINDING SITE FOR RESIDUE GOL A 437
38EC2SOFTWAREASN A:28 , LYS A:31 , GOL A:435BINDING SITE FOR RESIDUE GOL A 438
39EC3SOFTWAREASP A:51 , GLU A:57 , GLU A:59 , ASN A:101 , HOH A:764 , HOH A:769BINDING SITE FOR RESIDUE CA A 439

(-) 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 4DJL)

(-) PROSITE Motifs  (2, 2)

Asymmetric/Biological Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CARBOXYPEPT_ZN_1PS00132 Zinc carboxypeptidases, zinc-binding region 1 signature.CBPT_THEVU158-180  1A:60-82
2CARBOXYPEPT_ZN_2PS00133 Zinc carboxypeptidases, zinc-binding region 2 signature.CBPT_THEVU302-312  1A:204-214

(-) Exons   (0, 0)

(no "Exon" information available for 4DJL)

(-) 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
 aligned with CBPT_THEVU | P29068 from UniProtKB/Swiss-Prot  Length:424

    Alignment length:323
                                   108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418   
           CBPT_THEVU    99 DFPSYDSGYHNYNEMVNKINTVASNYPNIVKKFSIGKSYEGRELWAVKISDNVGTDENEPEVLYTALHHAREHLTVEMALYTLDLFTQNYNLDSRITNLVNNREIYIVFNINPDGGEYDISSGSYKSWRKNRQPNSGSSYVGTDLNRNYGYKWGCCGGSSGSPSSETYRGRSAFSAPETAAMRDFINSRVVGGKQQIKTLITFHTYSELILYPYGYTYTDVPSDMTQDDFNVFKTMANTMAQTNGYTPQQASDLYITDGDMTDWAYGQHKIFAFTFEMYPTSYNPGFYPPDEVIGRETSRNKEAVLYVAEKADCPYSVIGKSC 421
               SCOP domains d4djla_ A: Carboxypeptidase T                                                                                                                                                                                                                                                                                                       SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhh...hhhhhhhhhhhhhhhh...eeeeeeee.....eeeeeee...........eeeeee......hhhhhhhhhhhhhhhhh...hhhhhhhhh..eeeee...hhhhhhhhhh......................hhhhh...........................hhhhhhhhhhhhhhee..ee.eeeeeeee....eeee.............hhhhhhhhhhhhhhhhhhhh.eeeehhhhh....hhhhhhhhhhh.eeeeee............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------CARBOXYPEPT_ZN_1       -------------------------------------------------------------------------------------------------------------------------CARBOXYPEPT------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4djl A   1 DFPSYDSGYHNYNEMVNKINTVASNYPNIVKKFSIGKSYEGRELWAVKISDNVGTDENEPEVLYTALHHAREHLTVEMALYTLDLFTQNYNLDSRITNLVNNREIYIVFNINPDGGEYDISSGSYKSWRKNRQPNSGSSYVGTDLNRNYGYKWGCCGGSSGSPSSETYRGRSAFSAPETAAMRDFINSRVVGGKQQIKTLITFHTYSELILYPYGYTYTDVPSDMTQDDFNVFKTMANTMAQTNGYTPQQASDLYITDGDMTDWAYGQHKIFAFTFEMYPTSYNPGFYPPDEVIGRETSRNKEAVLYVAEKADCPYSVIGKSC 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 4DJL)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (CBPT_THEVU | P29068)
molecular function
    GO:0004180    carboxypeptidase activity    Catalysis of the hydrolysis of the terminal or penultimate peptide bond at the C-terminal end of a peptide or polypeptide.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0004181    metallocarboxypeptidase activity    Catalysis of the hydrolysis of C-terminal amino acid residues from a polypeptide chain by a mechanism in which water acts as a nucleophile, one or two metal ions hold the water molecule in place, and charged amino acid side chains are ligands for the metal ions.
    GO:0008237    metallopeptidase activity    Catalysis of the hydrolysis of peptide bonds by a mechanism in which water acts as a nucleophile, one or two metal ions hold the water molecule in place, and charged amino acid side chains are ligands for the metal ions.
    GO:0008233    peptidase activity    Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid.
    GO:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.

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 Related Entries

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

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

(-) Related Entries Specified in the PDB File

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