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(-) Description

Title :  CRYSTAL STRUCTURE OF THE COMPLEX OF LACTOPEROXIDASE FROM BOVINE WITH 3,3-OXYDIPYRIDINE AT 2.31 A RESOLUTION
 
Authors :  S. Yamini, H. V. Sirohi, M. Sinha, A. Bhushan, P. Kaur, S. Sharma, T. P. Si
Date :  09 Nov 13  (Deposition) - 27 Nov 13  (Release) - 27 Nov 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.31
Chains :  Asym./Biol. Unit :  A
Keywords :  Bovine Lactoperoxidase, Iodide, Peg, 3, 3-Oxydipyridine, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Yamini, H. V. Sirohi, M. Sinha, A. Bhushan, P. Kaur, S. Sharma, T. P. Singh
Crystal Structure Of The Complex Of Lactoperoxidase From Bovine With 3, 3-Oxydipyridine At 2. 31 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: BOVINE,COW,DOMESTIC CATTLE,DOMESTIC COW
    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  (8, 24)

Asymmetric/Biological Unit (8, 24)
No.NameCountTypeFull Name
13OP1Ligand/Ion3,3'-OXYDIPYRIDINE
2CA1Ligand/IonCALCIUM ION
3EDO2Ligand/Ion1,2-ETHANEDIOL
4HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
5IOD11Ligand/IonIODIDE ION
6NAG6Ligand/IonN-ACETYL-D-GLUCOSAMINE
7PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
8SEP1Mod. Amino AcidPHOSPHOSERINE

(-) Sites  (20, 20)

Asymmetric Unit (20, 20)
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 , GLU A:258 , GLN A:259 , THR A:344 , PHE A:347 , ARG A:348 , GLY A:350 , HIS A:351 , VAL A:354 , PHE A:380 , LEU A:417 , LEU A:433 , ILE A:436 , ARG A:440 , 3OP A:623 , HOH A:872 , HOH A:1125BINDING SITE FOR RESIDUE HEM A 602
03AC3SOFTWARETHR A:560BINDING SITE FOR RESIDUE IOD A 609
04AC4SOFTWAREASN A:80 , PRO A:145BINDING SITE FOR RESIDUE IOD A 610
05AC5SOFTWAREPRO A:236 , THR A:425BINDING SITE FOR RESIDUE IOD A 611
06AC6SOFTWARELYS A:462BINDING SITE FOR RESIDUE IOD A 613
07AC7SOFTWAREHIS A:565 , ALA A:566 , PHE A:567 , HOH A:1075 , HOH A:1100BINDING SITE FOR RESIDUE IOD A 614
08AC8SOFTWAREALA A:225BINDING SITE FOR RESIDUE IOD A 615
09AC9SOFTWARETRP A:46 , VAL A:342BINDING SITE FOR RESIDUE IOD A 616
10BC1SOFTWARETRP A:530 , HOH A:854BINDING SITE FOR RESIDUE IOD A 617
11BC2SOFTWAREARG A:202 , HOH A:1105BINDING SITE FOR RESIDUE IOD A 618
12BC3SOFTWARESER A:359BINDING SITE FOR RESIDUE IOD A 619
13BC4SOFTWAREARG A:76 , ASN A:80 , ARG A:418 , ASN A:419 , HOH A:1057BINDING SITE FOR RESIDUE PEG A 620
14BC5SOFTWAREPHE A:229 , ILE A:387BINDING SITE FOR RESIDUE EDO A 621
15BC6SOFTWAREPRO A:197 , HOH A:903 , HOH A:973BINDING SITE FOR RESIDUE EDO A 622
16BC7SOFTWAREHIS A:109 , PHE A:254 , ARG A:255 , GLU A:258 , PHE A:381 , HEM A:602 , HOH A:1125BINDING SITE FOR RESIDUE 3OP A 623
17BC8SOFTWAREASN A:95 , ARG A:96 , ILE A:315 , GLN A:568 , HOH A:1100BINDING SITE FOR MONO-SACCHARIDE NAG A 603 BOUND TO ASN A 95
18BC9SOFTWAREASN A:205 , SER A:208 , ALA A:214 , VAL A:215 , GLN A:217 , HOH A:819 , HOH A:1039BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 205 RESIDUES 604 TO 605
19CC1SOFTWAREASN A:241 , ALA A:244 , TRP A:384 , HOH A:929 , HOH A:987 , HOH A:1093BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 241 RESIDUES 606 TO 607
20CC2SOFTWAREASN A:332 , SER A:334 , VAL A:335BINDING SITE FOR MONO-SACCHARIDE NAG A 608 BOUND TO ASN A 332

(-) 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 4NJB)

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4NJB)

(-) 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...............................hhhhhhhhhh........eeeeeehhhhhhhhhhhhhhh...........hhhhhhhhhh........ee.....hhhhhh..ee.....................ee.......hhhhhh.hhhhhhhhh..............................hhhhhh..................hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhh................hhhhhhhhhhhh...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
                 4njb 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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  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 4NJB)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) 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 4nt3 4pnx 5b72 5gh0 5gls 5wv3

(-) Related Entries Specified in the PDB File

3ogw