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(-) Description

Title :  THE CRYSTAL STRUCTURE OF A UNIVERSAL STRESS PROTEIN FROM ARCHAEOGLOBUS FULGIDUS DSM 4304
 
Authors :  K. Tan, A. Weger, R. Jedrzejczak, A. Joachimiak, Midwest Center For Structural Genomics (Mcsg)
Date :  04 Feb 10  (Deposition) - 16 Feb 10  (Release) - 22 Feb 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.32
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Structural Genomics, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Structure Genomics, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Tan, A. Weger, R. Jedrzejczak, A. Joachimiak
The Crystal Structure Of A Universal Stress Protein From Archaeoglobus Fulgidus Dsm 4304
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - UNIVERSAL STRESS PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG19B
    Expression System Strain: PPK1037
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: AF_1760
    Organism Scientific: ARCHAEOGLOBUS FULGIDUS
    Organism Taxid: 2234
    Strain: DSM 4304

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 31)

Asymmetric Unit (4, 31)
No.NameCountTypeFull Name
1ACT4Ligand/IonACETATE ION
2AMP3Ligand/IonADENOSINE MONOPHOSPHATE
3CL8Ligand/IonCHLORIDE ION
4MSE16Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (3, 13)
No.NameCountTypeFull Name
1ACT4Ligand/IonACETATE ION
2AMP1Ligand/IonADENOSINE MONOPHOSPHATE
3CL-1Ligand/IonCHLORIDE ION
4MSE8Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (2, 10)
No.NameCountTypeFull Name
1ACT-1Ligand/IonACETATE ION
2AMP2Ligand/IonADENOSINE MONOPHOSPHATE
3CL-1Ligand/IonCHLORIDE ION
4MSE8Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (15, 15)

Asymmetric Unit (15, 15)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREPRO A:4 , THR A:5 , ASP A:6 , ASN A:10 , SER A:11 , LEU A:32 , VAL A:34 , PRO A:89 , MSE A:105 , GLY A:106 , ARG A:108 , SER A:120 , VAL A:121 , SER A:122 , HOH A:295BINDING SITE FOR RESIDUE AMP A 271
02AC2SOFTWARELYS A:137 , HIS A:138 , VAL A:259 , PRO A:260BINDING SITE FOR RESIDUE CL A 272
03AC3SOFTWARESER A:107 , LYS A:115BINDING SITE FOR RESIDUE CL A 273
04AC4SOFTWAREPRO A:215 , HIS A:216 , THR A:249BINDING SITE FOR RESIDUE CL A 274
05AC5SOFTWARETYR A:153 , HIS A:181 , VAL A:182 , ACT A:276BINDING SITE FOR RESIDUE CL A 275
06AC6SOFTWAREALA A:152 , TYR A:153 , ASP A:154 , GLY A:234 , CL A:275BINDING SITE FOR RESIDUE ACT A 276
07AC7SOFTWAREASP A:154 , SER A:235 , ARG A:236BINDING SITE FOR RESIDUE ACT A 277
08AC8SOFTWAREGLY A:237 , ALA A:238 , MSE A:244 , SER A:248BINDING SITE FOR RESIDUE ACT A 278
09AC9SOFTWAREGLY A:234 , SER A:235 , SER A:248 , THR A:249 , SER A:250BINDING SITE FOR RESIDUE ACT A 279
10BC1SOFTWAREPRO B:4 , THR B:5 , ASP B:6 , SER B:11 , LEU B:32 , VAL B:34 , MSE B:105 , GLY B:106 , ARG B:108 , GLY B:119 , SER B:120 , VAL B:121 , SER B:122 , CL B:274BINDING SITE FOR RESIDUE AMP B 271
11BC2SOFTWAREGLU B:62 , ALA B:152 , TYR B:153 , ASP B:154 , TRP B:158 , ILE B:180 , VAL B:182 , MSE B:233 , GLY B:234 , ARG B:236 , THR B:249 , SER B:250 , HOH B:298BINDING SITE FOR RESIDUE AMP B 272
12BC3SOFTWARELYS B:137 , HIS B:138 , VAL B:259 , PRO B:260BINDING SITE FOR RESIDUE CL B 273
13BC4SOFTWARESER B:107 , ARG B:108 , GLY B:119 , SER B:122 , AMP B:271BINDING SITE FOR RESIDUE CL B 274
14BC5SOFTWAREPRO B:215 , HIS B:216 , THR B:249BINDING SITE FOR RESIDUE CL B 275
15BC6SOFTWARELYS B:115 , HIS B:216 , SER B:252 , ARG B:256BINDING SITE FOR RESIDUE CL B 276

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3LOQ)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Lys A:82 -Pro A:83
2Lys B:82 -Pro B:83

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3LOQ)

(-) 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:273
 aligned with O28514_ARCFU | O28514 from UniProtKB/TrEMBL  Length:270

    Alignment length:278
                                    1                                                                                                                                                                                                                                                                             
                                    |2        12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262        
         O28514_ARCFU     - --------MLLPTDLSENSFKVLEYLGDFKKVGVEEIGVLFVINLTKLSTVSGGIDIDHYIDEMSEKAEEVLPEVAQKIEAAGIKAEVIKPFPAGDPVVEIIKASENYSFIAMGSRGASKFKKILLGSVSEGVLHDSKVPVYIFKHDMVVNSLFDRVLVAYDFSKWADRALEYAKFVVKKTGGELHIIHVSEDGDKTADLRVMEEVIGAEGIEVHVHIESGTPHKAILAKREEINATTIFMGSRGAGSVMTMILGSTSESVIRRSPVPVFVCKRGDDE 270
               SCOP domains d3loqa1 A:-7-144 automated matches                                                                                                                      d3loqa2 A:145-270 automated matches                                                                                            SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeee....hhhhhhhhhhhhhhhh...eeeee..ee....-----....hhhhhhhhhhhhhhhhhhhhhhhhh..eeee.....eehhhhhhhhhhh...eeeee....hhhhhhhhhhhhhhhhhhh...eeee...........eeeee...hhhhhhhhhhhhhhhhhhh.eeeeeee.....hhhhhhhhhhhhhhh...eeeeee..hhhhhhhhhhhhh...eeeee.....hhhhhhhhhhhhhhhhhh...eeee...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3loq A  -7 NLYFQSNAmLLPTDLSENSFKVLEYLGDFKKVGVEEIGVLFVINLTKL-----GIDIDHYIDEmSEKAEEVLPEVAQKIEAAGIKAEVIKPFPAGDPVVEIIKASENYSFIAmGSRGASKFKKILLGSVSEGVLHDSKVPVYIFKHDmVVNSLFDRVLVAYDFSKWADRALEYAKFVVKKTGGELHIIHVSEDGDKTADLRVmEEVIGAEGIEVHVHIESGTPHKAILAKREEINATTIFmGSRGAGSVmTmILGSTSESVIRRSPVPVFVCKRGDDE 270
                                    |2        12        22        32       | -   |    52   |    62        72        82        92       102  |    112       122       132       142       152       162       172       182       192  |    202       212       222       232|      242 |     252       262        
                                    1-MSE                                 40    46        56-MSE                                          105-MSE                            140-MSE                                                195-MSE                               233-MSE  242-MSE                        
                                                                                                                                                                                                                                                                                     244-MSE                      


Chain B from PDB  Type:PROTEIN  Length:266
 aligned with O28514_ARCFU | O28514 from UniProtKB/TrEMBL  Length:270

    Alignment length:272
                                 1                                                                                                                                                                                                                                                                          
                                 |   5        15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265  
         O28514_ARCFU     - -----MLLPTDLSENSFKVLEYLGDFKKVGVEEIGVLFVINLTKLSTVSGGIDIDHYIDEMSEKAEEVLPEVAQKIEAAGIKAEVIKPFPAGDPVVEIIKASENYSFIAMGSRGASKFKKILLGSVSEGVLHDSKVPVYIFKHDMVVNSLFDRVLVAYDFSKWADRALEYAKFVVKKTGGELHIIHVSEDGDKTADLRVMEEVIGAEGIEVHVHIESGTPHKAILAKREEINATTIFMGSRGAGSVMTMILGSTSESVIRRSPVPVFVCKRG 267
               SCOP domains d3loqb1 B:-4-144 automated matches                                                                                                                   --------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee...hhhhhhhhhhhhhhhhhh..eeeee..ee.....------hhhhhhhhhhhhhhhhhhhhhhhhhhh..eeee.....eehhhhhhhhhhh...eeeee............hhhhhhhhhhh...eeee...........eeeee...hhhhhhhhhhhhhhhhhhh.eeeeeee.....hhhhhhhhhhhhhhh...eeeeee..hhhhhhhhhhhhh...eeeee.............hhhhhhhhhh...eeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3loq B  -4 FQSNAmLLPTDLSENSFKVLEYLGDFKKVGVEEIGVLFVINLTKLS------DIDHYIDEmSEKAEEVLPEVAQKIEAAGIKAEVIKPFPAGDPVVEIIKASENYSFIAmGSRGASKFKKILLGSVSEGVLHDSKVPVYIFKHDmVVNSLFDRVLVAYDFSKWADRALEYAKFVVKKTGGELHIIHVSEDGDKTADLRVmEEVIGAEGIEVHVHIESGTPHKAILAKREEINATTIFmGSRGAGSVmTmILGSTSESVIRRSPVPVFVCKRG 267
                                 |   5        15        25        35     |   -  |     55|       65        75        85        95       105       115       125       135    |  145       155       165       175       185       195       205       215       225       235      |245       255       265  
                                 1-MSE                                  41     48      56-MSE                                          105-MSE                            140-MSE                                                195-MSE                               233-MSE  242-MSE                     
                                                                                                                                                                                                                                                                                  244-MSE
   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  (1, 3)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (O28514_ARCFU | O28514)
molecular function
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
biological process
    GO:0006950    response to 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 a disturbance in organismal or cellular homeostasis, usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation).

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