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(-) Description

Title :  CRYSTAL STRUCTURE OF THE COMPLEX OF GOAT LACTOPEROXIDASE WITH AMITROLE AT 2.1 A RESOLUTION
 
Authors :  N. Pandey, R. P. Singh, A. K. Singh, M. Sinha, P. Kaur, S. Sharma, T. P. Sin
Date :  15 Jul 11  (Deposition) - 17 Aug 11  (Release) - 24 Aug 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A
Keywords :  Goat Lactoperoxidase, Oxidoreductase-Oxidoreductase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Pandey, R. P. Singh, A. K. Singh, M. Sinha, P. Kaur, S. Sharma, T. P. Singh
Crystal Structure Of The Complex Of Goat Lactoperoxidase With Amitrole At 2. 1 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - LACTOPEROXIDASE
    Chains: A
    EC Number: 1.11.1.7
    Fragment: UNP RESIDUES 118-712
    Organism Common: GOAT
    Organism Scientific: CAPRA HIRCUS
    Organism Taxid: 9925

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (12, 33)

Asymmetric/Biological Unit (12, 33)
No.NameCountTypeFull Name
13TR2Ligand/Ion3-AMINO-1,2,4-TRIAZOLE
2CA1Ligand/IonCALCIUM ION
3EDO5Ligand/Ion1,2-ETHANEDIOL
4GOL2Ligand/IonGLYCEROL
5HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
6IOD12Ligand/IonIODIDE ION
7MPD1Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
8NAG5Ligand/IonN-ACETYL-D-GLUCOSAMINE
9PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
10SCN1Ligand/IonTHIOCYANATE ION
11SEP1Mod. Amino AcidPHOSPHOSERINE
12ZN1Ligand/IonZINC ION

(-) Sites  (32, 32)

Asymmetric Unit (32, 32)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASN A:95 , PRO A:209 , ILE A:315 , HOH A:758BINDING SITE FOR RESIDUE NAG A 596
02AC2SOFTWAREASN A:205 , SER A:208 , LEU A:210 , LEU A:212 , ALA A:214 , VAL A:215 , GLN A:217 , HOH A:710BINDING SITE FOR RESIDUE NAG A 599
03AC3SOFTWAREASN A:241 , ALA A:244 , TRP A:384 , NAG A:602 , HOH A:677 , HOH A:899 , HOH A:900BINDING SITE FOR RESIDUE NAG A 601
04AC4SOFTWARENAG A:601BINDING SITE FOR RESIDUE NAG A 602
05AC5SOFTWAREASN A:332 , VAL A:335BINDING SITE FOR RESIDUE NAG A 604
06AC6SOFTWAREMET A:101 , GLY A:104 , GLN A:105 , ASP A:108 , ASP A:112 , PHE A:113 , ALA A:114 , ARG A:255 , GLU A:258 , GLN A:259 , THR A:344 , PHE A:347 , ARG A:348 , GLY A:350 , HIS A:351 , LEU A:417 , GLN A:423 , LEU A:433 , ILE A:436 , ARG A:440 , 3TR A:597BINDING SITE FOR RESIDUE HEM A 618
07AC7SOFTWAREASP A:110 , THR A:184 , PHE A:186 , ASP A:188 , SER A:190BINDING SITE FOR RESIDUE CA A 607
08AC8SOFTWAREHIS A:222 , HIS A:558BINDING SITE FOR RESIDUE ZN A 608
09AC9SOFTWARETRP A:46 , VAL A:342 , TRP A:452BINDING SITE FOR RESIDUE IOD A 609
10BC1SOFTWAREPHE A:229BINDING SITE FOR RESIDUE IOD A 610
11BC2SOFTWAREARG A:397BINDING SITE FOR RESIDUE IOD A 611
12BC3SOFTWAREASN A:80BINDING SITE FOR RESIDUE IOD A 612
13BC4SOFTWAREARG A:96BINDING SITE FOR RESIDUE IOD A 613
14BC5SOFTWARETRP A:530BINDING SITE FOR RESIDUE IOD A 615
15BC6SOFTWARELEU A:12 , LYS A:462BINDING SITE FOR RESIDUE IOD A 616
16BC7SOFTWAREALA A:566 , PHE A:567BINDING SITE FOR RESIDUE IOD A 617
17BC8SOFTWAREALA A:225BINDING SITE FOR RESIDUE IOD A 620
18BC9SOFTWAREGLU A:373BINDING SITE FOR RESIDUE IOD A 624
19CC1SOFTWARETHR A:425BINDING SITE FOR RESIDUE IOD A 626
20CC2SOFTWAREARG A:31BINDING SITE FOR RESIDUE IOD A 627
21CC3SOFTWAREASN A:230 , CYS A:248 , HOH A:721BINDING SITE FOR RESIDUE SCN A 700
22CC4SOFTWARESER A:254 , ARG A:255 , PHE A:381 , 3TR A:597BINDING SITE FOR RESIDUE 3TR A 751
23CC5SOFTWAREGLN A:105 , HIS A:109 , ARG A:255 , GLU A:258 , HEM A:618 , 3TR A:751 , HOH A:816BINDING SITE FOR RESIDUE 3TR A 597
24CC6SOFTWAREHIS A:377 , HIS A:429 , HOH A:901BINDING SITE FOR RESIDUE EDO A 598
25CC7SOFTWARESER A:33 , ALA A:35 , LEU A:36 , ARG A:41 , ARG A:338 , HOH A:675 , HOH A:793BINDING SITE FOR RESIDUE EDO A 600
26CC8SOFTWAREPRO A:197 , LYS A:472BINDING SITE FOR RESIDUE EDO A 603
27CC9SOFTWAREPHE A:229 , VAL A:246BINDING SITE FOR RESIDUE EDO A 605
28DC1SOFTWARESER A:359 , LEU A:361 , PRO A:367 , LYS A:402 , HOH A:883BINDING SITE FOR RESIDUE EDO A 606
29DC2SOFTWAREARG A:76 , ASN A:80 , PRO A:149 , ARG A:418 , ASN A:419 , HOH A:747BINDING SITE FOR RESIDUE GOL A 614
30DC3SOFTWAREGLU A:123 , SER A:125 , CYS A:129 , ASP A:137 , GLU A:138 , CYS A:139 , PHE A:161BINDING SITE FOR RESIDUE GOL A 619
31DC4SOFTWARESEP A:198 , LEU A:199 , ARG A:202 , ASN A:473 , LYS A:474 , VAL A:475BINDING SITE FOR RESIDUE MPD A 621
32DC5SOFTWARELYS A:81 , LYS A:479 , ASP A:482 , LEU A:483 , HOH A:656BINDING SITE FOR RESIDUE PEG A 622

(-) SS Bonds  (7, 7)

Asymmetric/Biological Unit
No.Residues
1A:6 -A:167
2A:15 -A:28
3A:129 -A:139
4A:133 -A:157
5A:237 -A:248
6A:456 -A:513
7A:554 -A:579

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Lys A:233 -Pro A:234
2Tyr A:572 -Pro A:573

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3SXV)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3SXV)

(-) Exons   (0, 0)

(no "Exon" information available for 3SXV)

(-) 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:595
 aligned with A3F9D6_CAPHI | A3F9D6 from UniProtKB/TrEMBL  Length:712

    Alignment length:595
                                   127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557       567       577       587       597       607       617       627       637       647       657       667       677       687       697       707     
         A3F9D6_CAPHI   118 SWEVGCGAPVPLVTCDEQSPYRTITGDCNNRRSPALGAANRALARWLPAEYEDGLAVPFGWTQRKTRNGFRVPLAREVSNKIVGYLDEEGVLDQNRSLLFMQWGQIVDHDLDFAPETELGSSEHSKVQCEEYCVQGDECFPIMFPKNDPKLKTQGKCMPFFRAGFVCPTPPYQSLARDQINAVTSFLDASLVYGSEPSLASRLRNLSSPLGLMAVNQEAWDHGLAYPPFNNVKPSPCEFINTTAHVPCFQAGDSRASEQILLATVHTLLLREHNRLARELKRLNPHWDGEMLYQEARKILGAFIQIITFRDYLPIVLGSEMQKWIPPYQGYNNSVDPRISNVFTFAFRFGHMEVPSTVSRLDENYQPWGPEAELPLHTLFFNTWRIIKDGGIDPLVRGLLAKNSKLMNQNKMVTSELRNKLFQPTHKVHGFDLAAINLQRCRDHGMPGYNSWRGFCGLSQPKTLKGLQAVLKNKVLAKKLLDLYKTPDNIDIWIGGNAEPMVERGRVGPLLACLLGRQFQQIRDGDRFWWENPGVFTEKQRDSLQKVSFSRLICDNTHITKVPLHAFQANNYPHDFVDCSAVDKLDLSPWASREN 712
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........................................ee...............................hhhhhhhhhh........eeeeeehhhhhhhhhhhhhhh...........hhhhhhhhhh........ee....hhhhhhh..ee.....................ee.......hhhhhh.hhhhhhhh...............................hhhhhh..................hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhh................hhhhhhhhhhhhh..eee.............eee.hhhh..hhhhhh...hhhhhhhhhhheee........hhhhhh.ee......eeehhhhhhhhhhhhh...hhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhh...........hhhhhhhhh..hhhhhhhhhh...ee..............ee.hhh....hhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3sxv A   1 SWEVGCGAPVPLVTCDEQSPYRTITGDCNNRRSPALGAANRALARWLPAEYEDGLAVPFGWTQRKTRNGFRVPLAREVSNKIVGYLDEEGVLDQNRSLLFMQWGQIVDHDLDFAPETELGSSEHSKVQCEEYCVQGDECFPIMFPKNDPKLKTQGKCMPFFRAGFVCPTPPYQSLARDQINAVTSFLDASLVYGSEPsLASRLRNLSSPLGLMAVNQEAWDHGLAYPPFNNVKPSPCEFINTTAHVPCFQAGDSRASEQILLATVHTLLLREHNRLARELKRLNPHWDGEMLYQEARKILGAFIQIITFRDYLPIVLGSEMQKWIPPYQGYNNSVDPRISNVFTFAFRFGHMEVPSTVSRLDENYQPWGPEAELPLHTLFFNTWRIIKDGGIDPLVRGLLAKNSKLMNQNKMVTSELRNKLFQPTHKVHGFDLAAINLQRCRDHGMPGYNSWRGFCGLSQPKTLKGLQAVLKNKVLAKKLLDLYKTPDNIDIWIGGNAEPMVERGRVGPLLACLLGRQFQQIRDGDRFWWENPGVFTEKQRDSLQKVSFSRLICDNTHITKVPLHAFQANNYPHDFVDCSAVDKLDLSPWASREN 595
                                    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       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590     
                                                                                                                                                                                                                               198-SEP
   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 3SXV)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3SXV)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3SXV)

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (A3F9D6_CAPHI | A3F9D6)
molecular function
    GO:0020037    heme binding    Interacting selectively and non-covalently with heme, any compound of iron complexed in a porphyrin (tetrapyrrole) ring.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0004601    peroxidase activity    Catalysis of the reaction: donor + hydrogen peroxide = oxidized donor + 2 H2O.
    GO:0036393    thiocyanate peroxidase activity    Catalysis of the reaction: thiocyanate (SCN-) + hydrogen peroxide (H2O2) = hypothiocyanite (OSCN-) + 2 H2O. Catalyzes the hydrogen peroxide oxidation of thiocyanate.
biological process
    GO:0098869    cellular oxidant detoxification    Any process carried out at the cellular level that reduces or removes the toxicity superoxide radicals or hydrogen peroxide.
    GO:0042742    defense response to bacterium    Reactions triggered in response to the presence of a bacterium that act to protect the cell or organism.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
    GO:0006979    response to oxidative stress    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of oxidative stress, a state often resulting from exposure to high levels of reactive oxygen species, e.g. superoxide anions, hydrogen peroxide (H2O2), and hydroxyl radicals.
    GO:0018969    thiocyanate metabolic process    The chemical reactions and pathways involving thiocyanate, the anion of thiocyanic acid, a toxic cyanide derivative commonly formed as a by-product in the production of gas for fuel, coke, and substances for chemical industries.

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UniProtKB/TrEMBL
        A3F9D6_CAPHI | A3F9D6: 2e9e 2efb 2eha 2ojv 2r5l 3n8f 3nak 3niu 3qf1 3r55 3rke 4ig5 4ljj 4msf 4n7a 4oek 4qjq 4qyq 5ff1 5hpw

(-) Related Entries Specified in the PDB File

2r5l CRYSTAL STRUCTURES OF GOAT LACTOPEROXIDASE