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(-) Description

Title :  CRYSTAL STRUCTURE OF THE COMPLEX OF LACTOPEROXIDASE WITH BROMO METHANE AT 2.41 ANGSTROM RESOLUTION
 
Authors :  H. V. Sirohi, T. K. Tyagi, A. K. Singh, M. Sinha, A. Bhushan, P. Kaur, S. Sh T. P. Singh
Date :  22 Feb 14  (Deposition) - 12 Mar 14  (Release) - 22 Feb 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.41
Chains :  Asym./Biol. Unit :  A
Keywords :  Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. K. Singh, H. V. Sirohi, N. Iqbal, P. Tiwari, P. Kaur, S. Sharma, T. P. Singh
Structure Of Bovine Lactoperoxidase With A Partially Linked Heme Moiety At 1. 98 Angstrom Resolution.
Biochim. Biophys. Acta V. 1865 329 2017
PubMed-ID: 27986533  |  Reference-DOI: 10.1016/J.BBAPAP.2016.12.006

(-) Compounds

Molecule 1 - LACTOPEROXIDASE
    Chains: A
    EC Number: 1.11.1.7
    Fragment: UNP RESIDUES 118-712
    Organism Common: BOVINE
    Organism Scientific: BOS TAURUS
    Organism Taxid: 9913
    Synonym: LPO

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 21)

Asymmetric/Biological Unit (6, 21)
No.NameCountTypeFull Name
1BMM1Ligand/IonBROMOMETHANE
2CA1Ligand/IonCALCIUM ION
3HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
4IOD13Ligand/IonIODIDE ION
5NAG4Ligand/IonN-ACETYL-D-GLUCOSAMINE
6SEP1Mod. Amino AcidPHOSPHOSERINE

(-) Sites  (19, 19)

Asymmetric Unit (19, 19)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:110 , THR A:184 , PHE A:186 , ASP A:188 , SER A:190BINDING SITE FOR RESIDUE CA A 601
02AC2SOFTWAREMET 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 , THR A:344 , PHE A:347 , ARG A:348 , GLY A:350 , HIS A:351 , PHE A:380 , LEU A:417 , GLN A:423 , ILE A:436 , ARG A:440 , BMM A:607BINDING SITE FOR RESIDUE HEM A 602
03AC3SOFTWAREASN A:95 , ILE A:315BINDING SITE FOR RESIDUE NAG A 603
04AC4SOFTWAREASN A:241 , ALA A:244 , TRP A:384 , HOH A:811BINDING SITE FOR RESIDUE NAG A 605
05AC5SOFTWAREASN A:332 , SER A:334BINDING SITE FOR RESIDUE NAG A 606
06AC6SOFTWAREGLN A:105 , HIS A:109 , GLU A:258 , HEM A:602BINDING SITE FOR RESIDUE BMM A 607
07AC7SOFTWARETRP A:46 , VAL A:342 , TRP A:452BINDING SITE FOR RESIDUE IOD A 608
08AC8SOFTWAREARG A:397 , THR A:560BINDING SITE FOR RESIDUE IOD A 609
09AC9SOFTWAREASN A:216 , PHE A:229BINDING SITE FOR RESIDUE IOD A 611
10BC1SOFTWAREASN A:95 , ARG A:96BINDING SITE FOR RESIDUE IOD A 612
11BC2SOFTWARELYS A:462 , THR A:463BINDING SITE FOR RESIDUE IOD A 613
12BC3SOFTWAREASN A:80 , PRO A:145BINDING SITE FOR RESIDUE IOD A 614
13BC4SOFTWARETHR A:425BINDING SITE FOR RESIDUE IOD A 615
14BC5SOFTWARESER A:359BINDING SITE FOR RESIDUE IOD A 616
15BC6SOFTWAREHIS A:377BINDING SITE FOR RESIDUE IOD A 617
16BC7SOFTWAREPRO A:375BINDING SITE FOR RESIDUE IOD A 618
17BC8SOFTWAREPRO A:149BINDING SITE FOR RESIDUE IOD A 619
18BC9SOFTWAREILE A:24BINDING SITE FOR RESIDUE IOD A 620
19CC1SOFTWAREASN A:205 , LEU A:212 , VAL A:215 , GLN A:217 , HOH A:725BINDING SITE FOR MONO-SACCHARIDE NAG A 604 BOUND TO ASN A 205

(-) 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 4PNX)

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4PNX)

(-) 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
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........................................ee...............................hhhhhhhhh.........eeeeeehhhhhhhhhhhhhhh..........hhhhhhhhhhh........ee....hhhhh....ee.....................ee.......hhhhhh.hhhhhhhh...............................hhhhhh..................hhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhh................hhhhhhhhhhhhh..eee.............eee.hhhh..hhhhhh...hhhhhhhhhhheee........hhhhhh.ee......eeehhhhhhhhhhhhh...hhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhh........hhhhhhhhhhhhhhhhhh.............hhhhhhh..hhhhhhhh.....eee............eee.hhh....hhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4pnx A   1 SWEVGCGAPVPLVKCDENSPYRTITGDCNNRRSPALGAANRALARWLPAEYEDGLALPFGWTQRKTRNGFRVPLAREVSNKIVGYLDEEGVLDQNRSLLFMQWGQIVDHDLDFAPETELGSNEHSKTQCEEYCIQGDNCFPIMFPKNDPKLKTQGKCMPFFRAGFVCPTPPYQSLAREQINAVTSFLDASLVYGSEPsLASRLRNLSSPLGLMAVNQEAWDHGLAYLPFNNKKPSPCEFINTTARVPCFLAGDFRASEQILLATAHTLLLREHNRLARELKKLNPHWNGEKLYQEARKILGAFIQIITFRDYLPIVLGSEMQKWIPPYQGYNNSVDPRISNVFTFAFRFGHMEVPSTVSRLDENYQPWGPEAELPLHTLFFNTWRIIKDGGIDPLVRGLLAKKSKLMNQDKMVTSELRNKLFQPTHKIHGFDLAAINLQRCRDHGMPGYNSWRGFCGLSQPKTLKGLQTVLKNKILAKKLMDLYKTPDNIDIWIGGNAEPMVERGRVGPLLACLLGRQFQQIRDGDRFWWENPGVFTEKQRDSLQKVSFSRLICDNTHITKVPLHAFQANNYPHDFVDCSTVDKLDLSPWASREN 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)
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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 4PNX)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (19, 19)

Asymmetric/Biological Unit(hide GO term definitions)

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        PERL_BOVIN | P80025: 2gj1 2ips 2nqx 2pt3 2pum 2qpk 2qqt 2qrb 3bxi 3eri 3gc1 3gcj 3gck 3gcl 3i6n 3krq 3nyh 3ogw 3py4 3q9k 3ql6 3r4x 3r5o 3s4f 3tgy 3tuw 3uba 3v6q 4gm7 4gn6 4ksz 4njb 4nt3 5b72 5gh0 5gls 5wv3

(-) Related Entries Specified in the PDB File

3ogw MODEL PDB