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(-) Description

Title :  CRYSTAL STRUCTURE OF THE (SR) CALCIUM ATPASE E2.BEF3-COMPLEX BOUND TO TNP-AMPPCP
 
Authors :  J. D. Clausen, M. Bublitz, B. Arnou, C. Olesen, J. P. Andersen, J. V. Moll P. Nissen
Date :  02 Jun 15  (Deposition) - 13 Apr 16  (Release) - 20 Apr 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.05
Chains :  Asym./Biol. Unit :  A
Keywords :  Hydrolase, Sarco(Endo)Plasmic, Sarco(Endo)Plasmic Reticulum Calcium Atpase, Beryllium Fluoride, P-Type Atpase, Serca, Trinitrophenyl-Nucleotide Analoges, Tnp-Amppcp, Calcium Transport, Inhibition, Transition State (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. D. Clausen, M. Bublitz, B. Arnou, C. Olesen, J. P. Andersen, J. V. Moller, P. Nissen
Crystal Structure Of The Vanadate-Inhibited Ca(2+)-Atpase.
Structure V. 24 617 2016
PubMed-ID: 27050689  |  Reference-DOI: 10.1016/J.STR.2016.02.018

(-) Compounds

Molecule 1 - SARCOPLASMIC/ENDOPLASMIC RETICULUM CALCIUM ATPASE 1
    Chains: A
    EC Number: 3.6.3.8
    Organ: HIND LEG
    Organism Common: RABBIT
    Organism Scientific: ORYCTOLAGUS CUNICULUS
    Organism Taxid: 9986
    Synonym: SERCA1, SR CA(2+)-ATPASE 1, CALCIUM PUMP 1, CALCIUM- TRANSPORTING ATPASE SARCOPLASMIC RETICULUM TYPE, FAST TWITCH SKELETAL MUSCLE ISOFORM, ENDOPLASMIC RETICULUM CLASS 1/2 CA(2+) ATPASE, SARCOP SARCOPLASMIC RETICULUM CALCIUM ATPASE 1
    Tissue: SKELETAL MUSCLE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 6)

Asymmetric/Biological Unit (4, 6)
No.NameCountTypeFull Name
1BFD1Mod. Amino AcidASPARTATE BERYLLIUM TRIFLUORIDE
2DL51Ligand/IonSPIRO(2,4,6-TRINITROBENZENE[1,2A]-O2',O3'-METHYLENE-ADENOSINE (BETA,GAMMA-METHYLENE)TRIPHOSPHATE
3K1Ligand/IonPOTASSIUM ION
4MG3Ligand/IonMAGNESIUM ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:174 , ILE A:188 , GLU A:439 , THR A:441 , GLU A:442 , PHE A:487 , LYS A:492 , SER A:493 , MET A:494 , LYS A:515 , GLY A:516 , ALA A:517 , ARG A:560 , CYS A:561 , LEU A:562 , GLU A:884 , MG A:1007 , HOH A:2003 , HOH A:2004 , HOH A:2005 , HOH A:2006 , HOH A:2007BINDING SITE FOR RESIDUE DL5 A1000
2AC2SOFTWAREGLN A:244 , LEU A:711 , ALA A:714 , GLY A:717 , GLU A:732BINDING SITE FOR RESIDUE K A1006
3AC3SOFTWAREDL5 A:1000 , HOH A:2004 , HOH A:2005BINDING SITE FOR RESIDUE MG A1007
4AC4SOFTWAREGLU A:90 , GLU A:309BINDING SITE FOR RESIDUE MG A1008
5AC5SOFTWAREBFD A:351 , THR A:353 , ASP A:703 , ASP A:707 , HOH A:2001 , HOH A:2002BINDING SITE FOR RESIDUE MG A1009

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:876 -A:888

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5A3R)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5A3R)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5A3R)

(-) Exons   (0, 0)

(no "Exon" information available for 5A3R)

(-) 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:994
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhh.......hhhhhhhhh...................hhhhhhhhhhhhhhhhhhh.hhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........eeeee.......eeee.hhh....eeee........eeeeeee.....eeehhhhhh....ee...........hhhhh..ee....eeee..eeeeeeehhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.................hhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh.eee.hhhhhhhhhhh.eeee.hhhhh.....eeeeeeeeeeee..eeeeeeeee..........ee......hhhhhhhhhhhhhhhhhh...eeeee....eeeee.hhhhhhhhhhhhhhh...............hhhhhhhh..eeeeeee.......eeeeeeee..........eeeeeehhhhhhh.eeeeee..eeee.hhhhhhhhhhhhhhhhhhhhh.eeeeeeee....hhhhh...hhhhhhhhh..eeeeeeeeee.....hhhhhhhhhhhh..eeeee...hhhhhhhhhhhhh...........eeehhhhhhhhhhhhhhh.....eee..hhhhhhhhhhhhhhh...eeeee.hhhhhhhhhhh.eeeee...hhhhhhh..eee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhh...hhhhhhhhh..hhhhh............hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhh...hhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhhhhhh..hhhhhh......hhhhhhhhhhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5a3r A   1 MEAAHSKSTEECLAYFGVSETTGLTPDQVKRHLEKYGHNELPAEEGKSLWELVIEQFEDLLVRILLLAACISFVLAWFEEGEETITAFVEPFVILLILIANAIVGVWQERNAENAIEALKEYEPEMGKVYRADRKSVQRIKARDIVPGDIVEVAVGDKVPADIRILSIKSTTLRVDQSILTGESVSVIKHTEPVPDPRAVNQDKKNMLFSGTNIAAGKALGIVATTGVSTEIGKIRDQMAATEQDKTPLQQKLDEFGEQLSKVISLICVAVWLINIGHFNDPVHGGSWIRGAIYYFKIAVALAVAAIPEGLPAVITTCLALGTRRMAKKNAIVRSLPSVETLGCTSVICSdKTGTLTTNQMSVCKMFIIDKVDGDFCSLNEFSITGSTYAPEGEVLKNDKPIRSGQFDGLVELATICALCNDSSLDFNETKGVYEKVGEATETALTTLVEKMNVFNTEVRNLSKVERANACNSVIRQLMKKEFTLEFSRDRKSMSVYCSPAKSSRAAVGNKMFVKGAPEGVIDRCNYVRVGTTRVPMTGPVKEKILSVIKEWGTGRDTLRCLALATRDTPPKREEMVLDDSSRFMEYETDLTFVGVVGMLDPPRKEVMGSIQLCRDAGIRVIMITGDNKGTAIAICRRIGIFGENEEVADRAYTGREFDDLPLAEQREACRRACCFARVEPSHKSKIVEYLQSYDEITAMTGDGVNDAPALKKAEIGIAMGSGTAVAKTASEMVLADDNFSTIVAAVEEGRAIYNNMKQFIRYLISSNVGEVVCIFLTAALGLPEALIPVQLLWVNLVTDGLPATALGFNPPDLDIMDRPPRSPKEPLISGWLFFRYMAIGGYVGAATVGAAAWWFMYAEDGPGVTYHQLTHFMQCTEDHPHFEGLDCEIFEAPEPMTMALSVLVTIEMCNALNSLSENQSLMRMPPWVNIWLLGSICLSMSLHFLILYVDPLPMIFKLKALDLTQWLMVLKISLPVIGLDEILKFIARNYLEG 994
                                    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       600       610       620       630       640       650       660       670       680       690       700       710       720       730       740       750       760       770       780       790       800       810       820       830       840       850       860       870       880       890       900       910       920       930       940       950       960       970       980       990    
                                                                                                                                                                                                                                                                                                                                                                                        351-BFD
   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 5A3R)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5A3R)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5A3R)

(-) Gene Ontology  (24, 24)

Asymmetric/Biological Unit(hide GO term definitions)

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  5a3r
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  AT2A1_RABIT | P04191
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 Related Entries

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

UniProtKB/Swiss-Prot
        AT2A1_RABIT | P04191: 1fqu 1iwo 1kju 1su4 1t5s 1t5t 1vfp 1wpg 1xp5 2agv 2by4 2c88 2c8k 2c8l 2c9m 2dqs 2ear 2eat 2eau 2o9j 2oa0 2voy 2yfy 2zbd 2zbe 2zbf 2zbg 3ar2 3ar3 3ar4 3ar5 3ar6 3ar7 3ar8 3ar9 3b9b 3b9r 3ba6 3fgo 3fpb 3fps 3j7t 3n5k 3n8g 3w5a 3w5b 3w5c 3w5d 4bew 4h1w 4j2t 4kyt 4nab 4uu0 4uu1 4xou 4y3u 4ycl 4ycm 4ycn 5a3q 5a3s 5xa7 5xa8 5xa9 5xaa 5xab

(-) Related Entries Specified in the PDB File

5a3q CRYSTAL STRUCTURE OF THE (SR) CALCIUM ATPASE E2- VANADATE COMPLEX BOUND TO THAPSIGARGIN AND TNP-AMPPCP
5a3s CRYSTAL STRUCTURE OF THE (SR) CALCIUM ATPASE E2- VANADATE COMPLEX BOUND TO THAPSIGARGIN AND TNP-ATP