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(-) Description

Title :  THE FIRST JACK BEAN UREASE (CANAVALIA ENSIFORMIS) COMPLEX OBTAINED AT 1.52 RESOLUTION
 
Authors :  A. Begum, M. I. Choudhary, C. Betzel
Date :  24 Sep 12  (Deposition) - 24 Oct 12  (Release) - 24 Oct 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.52
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (3x)
Keywords :  Jack Bean, Canavalia Ensiformis, Acetohydroxamic Acid, Hydrolase, Metal-Binding, Nickel (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Begum, M. I. Choudhary, C. Betzel
The First Jack Bean Urease (Canavalia Ensiformis) Complex Obtained At 1. 52 Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - UREASE
    Chains: A
    EC Number: 3.5.1.5
    Organism Common: HORSE BEAN
    Organism Scientific: CANAVALIA ENSIFORMIS
    Organism Taxid: 3823
    Other Details: PLANT SOURCE
    Synonym: UREA AMIDOHYDROLASE

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (3x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 40)

Asymmetric Unit (5, 40)
No.NameCountTypeFull Name
1CME6Mod. Amino AcidS,S-(2-HYDROXYETHYL)THIOCYSTEINE
2EDO29Ligand/Ion1,2-ETHANEDIOL
3HAE1Ligand/IonACETOHYDROXAMIC ACID
4KCX2Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID
5NI2Ligand/IonNICKEL (II) ION
Biological Unit 1 (4, 114)
No.NameCountTypeFull Name
1CME18Mod. Amino AcidS,S-(2-HYDROXYETHYL)THIOCYSTEINE
2EDO87Ligand/Ion1,2-ETHANEDIOL
3HAE3Ligand/IonACETOHYDROXAMIC ACID
4KCX6Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID
5NI-1Ligand/IonNICKEL (II) ION

(-) Sites  (32, 32)

Asymmetric Unit (32, 32)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS A:407 , HIS A:409 , KCX A:490 , ASP A:633 , NI A:902 , HAE A:929BINDING SITE FOR RESIDUE NI A 901
02AC2SOFTWAREKCX A:490 , HIS A:492 , HIS A:519 , HIS A:545 , GLY A:550 , NI A:901 , HAE A:929BINDING SITE FOR RESIDUE NI A 902
03AC3SOFTWARELEU A:111 , PHE A:112 , GLY A:113 , SER A:114 , LEU A:115 , HOH A:1235 , HOH A:1643BINDING SITE FOR RESIDUE EDO A 903
04AC4SOFTWAREALA A:80 , VAL A:81 , GLN A:82 , THR A:740 , GLU A:742 , HOH A:1644BINDING SITE FOR RESIDUE EDO A 904
05AC5SOFTWAREILE A:154 , SER A:209 , VAL A:210 , THR A:211 , EDO A:919 , HOH A:1509 , HOH A:1657BINDING SITE FOR RESIDUE EDO A 905
06AC6SOFTWAREARG A:6 , LYS A:10 , ASN A:735 , HOH A:1180 , HOH A:1196BINDING SITE FOR RESIDUE EDO A 906
07AC7SOFTWAREPRO A:72 , ARG A:835 , HOH A:1100 , HOH A:1396BINDING SITE FOR RESIDUE EDO A 907
08AC8SOFTWAREPRO A:373 , MET A:376 , ASN A:377 , GLY A:378 , VAL A:379 , HOH A:1628BINDING SITE FOR RESIDUE EDO A 908
09AC9SOFTWAREASN A:225 , KCX A:247 , PRO A:499 , HOH A:1110 , HOH A:1303 , HOH A:1741BINDING SITE FOR RESIDUE EDO A 909
10BC1SOFTWAREGLY A:362 , LEU A:702 , GLY A:723 , ALA A:759 , LEU A:760 , ARG A:783 , HOH A:1314 , HOH A:1418 , HOH A:1595 , HOH A:1603BINDING SITE FOR RESIDUE EDO A 910
11BC2SOFTWARETHR A:350 , HOH A:1151 , HOH A:1514 , HOH A:1631 , HOH A:1685 , HOH A:1736BINDING SITE FOR RESIDUE EDO A 911
12BC3SOFTWAREALA A:280 , ASN A:281 , GLU A:395 , GLY A:396 , HOH A:1159BINDING SITE FOR RESIDUE EDO A 912
13BC4SOFTWAREARG A:26 , GLY A:27 , ASP A:49 , HOH A:1564 , HOH A:1771BINDING SITE FOR RESIDUE EDO A 913
14BC5SOFTWAREMET A:1 , LEU A:3 , GLY A:12 , LEU A:13 , PRO A:743 , LYS A:745 , HOH A:1214 , HOH A:1479BINDING SITE FOR RESIDUE EDO A 914
15BC6SOFTWAREALA A:196 , GLY A:197 , VAL A:314 , LYS A:319 , HOH A:1237 , HOH A:1737BINDING SITE FOR RESIDUE EDO A 915
16BC7SOFTWAREALA A:334 , GLU A:480 , LYS A:483 , HOH A:1207BINDING SITE FOR RESIDUE EDO A 916
17BC8SOFTWARESER A:473 , ALA A:500 , ASP A:503 , ASN A:504 , HOH A:1858BINDING SITE FOR RESIDUE EDO A 917
18BC9SOFTWARESER A:120 , SER A:258 , HOH A:1472BINDING SITE FOR RESIDUE EDO A 918
19CC1SOFTWAREARG A:102 , ASN A:104 , GLY A:105 , GLU A:106 , SER A:209 , EDO A:905 , HOH A:1599BINDING SITE FOR RESIDUE EDO A 919
20CC2SOFTWAREHOH A:1425 , HOH A:1712BINDING SITE FOR RESIDUE EDO A 920
21CC3SOFTWAREGLY A:317 , HIS A:593 , PHE A:605 , HOH A:1376 , HOH A:1581 , HOH A:1909BINDING SITE FOR RESIDUE EDO A 921
22CC4SOFTWAREASN A:218 , HOH A:1384 , HOH A:1500 , HOH A:1855BINDING SITE FOR RESIDUE EDO A 922
23CC5SOFTWARELEU A:770 , VAL A:784 , GLU A:785 , HOH A:1124 , HOH A:1355 , HOH A:1429BINDING SITE FOR RESIDUE EDO A 923
24CC6SOFTWAREILE A:335 , LYS A:360 , ALA A:365 , ASN A:382 , HOH A:1896BINDING SITE FOR RESIDUE EDO A 924
25CC7SOFTWAREASP A:810 , SER A:813 , THR A:815 , HOH A:1959BINDING SITE FOR RESIDUE EDO A 925
26CC8SOFTWAREGLY A:316 , GLY A:317 , ASP A:494 , HIS A:593 , HOH A:1581 , HOH A:1658BINDING SITE FOR RESIDUE EDO A 926
27CC9SOFTWAREHIS A:511 , HOH A:1325 , HOH A:1540BINDING SITE FOR RESIDUE EDO A 927
28DC1SOFTWAREGLY A:538 , THR A:540 , LYS A:792 , LEU A:793BINDING SITE FOR RESIDUE EDO A 928
29DC2SOFTWAREHIS A:407 , ALA A:440 , KCX A:490 , HIS A:492 , HIS A:519 , HIS A:545 , GLY A:550 , ASP A:633 , NI A:901 , NI A:902BINDING SITE FOR RESIDUE HAE A 929
30DC3SOFTWARETHR A:339 , THR A:432 , GLN A:449 , GLY A:724 , MET A:725 , VAL A:726 , HOH A:1618BINDING SITE FOR RESIDUE EDO A 930
31DC4SOFTWAREARG A:132 , ASN A:297 , HOH A:1257 , HOH A:1700BINDING SITE FOR RESIDUE EDO A 931
32DC5SOFTWAREVAL A:232 , ASN A:233 , GLU A:234 , HOH A:1841BINDING SITE FOR RESIDUE EDO A 932

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4H9M)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Ala A:554 -Pro A:555
2Arg A:575 -Pro A:576
3Glu A:742 -Pro A:743

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4H9M)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4H9M)

(-) Exons   (0, 0)

(no "Exon" information available for 4H9M)

(-) 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:836
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh.hhhhh..hhhhhh.eeeeeeee..eeeeeeee........hhhhhh........hhhhh........ee....eee.....eeeeeeeee.....eeee...hhhhh...ee.hhhhhh.eee......eeee....eeeeeeee.....ee........ee.hhhhhhhhhhhhhhh...........eee...........eeehhhhhhhhh.....eee......eee..ee..........................hhhhh..eeeeeeeeee..eeeeeeeeee..eeeeee.....................eeee....eeee.eeeeeee...hhhhhhhhhh.eeeeeee....hhhhhhh....hhhhhhhhhhhh.....eeeeeee.....hhhhhhhhhhh..eeeee.hhh.hhhhhhhhhhhhhhhh.eeeee........hhhhhhhhhh...eee............hhhhhhhh..eeeeee........hhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhh....eee.......hhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhh.hhhhhhhhh...............eeeehhhhh.....eeee..eeeeeee.............eeee.hhhh.hhhhhh.eeeehhhhhhhhhhhhhh...eeee.......hhhhh........eee......eee..ee.................. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4h9m A   1 MKLSPREVEKLGLHNAGYLAQKRLARGVRLNYTEAVALIASQIMEYARDGEKTVAQLMcLGQHLLGRRQVLPAVPHLLNAVQVEATFPDGTKLVTVHDPISRENGELQEALFGSLLPVPSLDKFAENRIPGEILcEDEcLTLNIGRKAVILKVTSKGDRPIQVGSHYHFIEVNPYLTFDRRKAYGMRLNIAAGTAVRFEPGDcKSVTLVSIEGNKVIRGGNAIADGPVNETNLEAAMHAVRSkGFGHEEEKDASEGFTKEDPNCPFNTFIHRKEYANKYGPTTGDKIRLGDTNLLAEIEKDYALYGDECVFGGGKVIRDGMGQScGHPPAISLDTVITNAVIIDYTGIIKADIGIKDGLIASIGKAGNPDIMNGVFSNMIIGANTEVIAGEGLIVTAGAIDCHVHYICPQLVYEAISSGITTLVGGGTGPAAGTRATTCTPSPTQMRLMLQSTDDLPLNFGFTGKGSSSKPDELHEIIKAGAMGLkLHEDWGSTPAAIDNCLTIAEHHDIQINIHTDTLNEAGFVEHSIAAFKGRTIHTYHSEGAGGGHAPDIIKVCGIKNVLPSSTNPTRPLTSNTIDEHLDMLMVcHHLDREIPEDLAFAHSRIRKKTIAAEDVLNDIGAISIISSDSQAMGRVGEVISRTWQTADKMKAQTGPLKCDSSDNDNFRIRRYIAKYTINPAIANGFSQYVGSVEVGKLADLVMWKPSFFGTKPEMVIKGGMVAWADIGDPNASIPTPEPVKMRPMYGTLGKAGGALSIAFVSKAALDQRVNVLYGLNKRVEAVSNVRKLTKLDMKLNDALPEITVDPESYTVKADGKLLCVSEATTVPLSRNYFLF 840
                                    10        20        30        40        50        60        70        80        90       100       110       120     ||134    |  144       154       164       174       184       194       204  |    214       224       234       244  |    254       264       274       284       294       304       314       324    |  334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484     | 494       504       514       524       534       544       554       564       574       584       594       604       614       624       634       644       654       664       674       684       694       704       714       724       734       744       754       764       774       784       794       804       814       824       834      
                                                                                     59-CME                                                            126|     139-CME                                                             207-CME                                 247-KCX                                                                           329-CME                                                                                                                                                          490-KCX                                                                                               592-CME                                                                                                                                                                                                                                                    
                                                                                                                                                        131         143-CME
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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  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 4H9M)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4H9M)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4H9M)

(-) Gene Ontology  (7, 7)

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  Cis Peptide Bonds
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  4h9m
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  UREA_CANEN | P07374
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 Related Entries

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

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        UREA_CANEN | P07374: 3la4 4goa 4gy7

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