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(-) Description

Title :  THE 2.0-ANGSTROM RESOLUTION CRYSTAL STRUCTURE OF A SURVIVAL PROTEIN E (SURE) HOMOLOG FROM PYROBACULUM AEROPHILUM
 
Authors :  C. Mura, J. E. Katz, S. G. Clarke, D. Eisenberg
Date :  08 Mar 02  (Deposition) - 25 Feb 03  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  A,B  (2x)
Keywords :  Structural Genomics, Putative Acid Phosphatase, Mixed Alpha/Beta Protein, N-Terminal Rossmann-Fold Like, Novel C-Terminal Domain With Beta-Hairpin Extensions, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Mura, J. E. Katz, S. G. Clarke, D. Eisenberg
Structure And Function Of An Archaeal Homolog Of Survival Protein E (Sure-Alpha): An Acid Phosphatase With Purine Nucleotide Specificity
J. Mol. Biol. V. 326 1559 2003
PubMed-ID: 12595266
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SURVIVAL PROTEIN E
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET-22B(+)
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PET PLASMID
    Gene: PAE2908
    Organism Scientific: PYROBACULUM AEROPHILUM
    Organism Taxid: 13773
    Synonym: SURE STATIONARY-PHASE SURVIVAL PROTEIN HOMOLOG

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 21)

Asymmetric Unit (3, 21)
No.NameCountTypeFull Name
1ACY2Ligand/IonACETIC ACID
2GOL7Ligand/IonGLYCEROL
3MSE12Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (3, 21)
No.NameCountTypeFull Name
1ACY2Ligand/IonACETIC ACID
2GOL7Ligand/IonGLYCEROL
3MSE12Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (3, 42)
No.NameCountTypeFull Name
1ACY4Ligand/IonACETIC ACID
2GOL14Ligand/IonGLYCEROL
3MSE24Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:20 , VAL A:31 , ARG A:62 , ILE A:64 , HOH A:495 , HOH A:525 , HOH A:547BINDING SITE FOR RESIDUE GOL A 301
2AC2SOFTWAREASP A:30 , ILE A:64 , LEU A:81 , TYR A:85BINDING SITE FOR RESIDUE GOL A 302
3AC3SOFTWAREGLY A:212 , ASP A:214 , PRO B:202 , ARG B:203BINDING SITE FOR RESIDUE GOL A 303
4AC4SOFTWAREALA A:116 , ASP A:166 , HOH A:545 , LYS B:189BINDING SITE FOR RESIDUE GOL A 304
5AC5SOFTWARELEU A:190 , ALA A:193 , GLN A:194 , ARG A:213 , HOH A:451 , HOH A:500 , GLU B:218BINDING SITE FOR RESIDUE GOL A 305
6AC6SOFTWARETRP A:209 , LEU A:210 , LEU B:47 , ASP B:201 , PRO B:202 , ARG B:203 , HOH B:380BINDING SITE FOR RESIDUE GOL A 306
7AC7SOFTWARELEU A:129 , ASN A:138 , ALA A:141 , ARG A:174 , LEU A:176BINDING SITE FOR RESIDUE GOL A 307
8AC8SOFTWAREGLY A:164 , THR A:238 , ARG A:248 , VAL A:250 , ASP B:245BINDING SITE FOR RESIDUE ACY A 401
9AC9SOFTWAREGLY A:95 , ASP A:96 , TYR A:128 , LEU A:129BINDING SITE FOR RESIDUE ACY A 402

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1L5X)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1L5X)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1L5X)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1L5X)

(-) Exons   (0, 0)

(no "Exon" information available for 1L5X)

(-) 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:276
 aligned with SURE1_PYRAE | Q8ZU79 from UniProtKB/Swiss-Prot  Length:266

    Alignment length:276
                                                                                                                                                                                                                                                                                                   266          
                                    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     |   -      
          SURE1_PYRAE     1 MKILVTNDDGVHSPGLRLLYQFALSLGDVDVVAPESPKSATGLGITLHKPLRMYEVDLCGFRAIATSGTPSDTVYLATFGLGRKYDIVLSGINLGDNTSLQVILSSGTLGAAFQAALLGIPALAYSAYLENWNELLNNKEAVEIMGAVVSSTASYVLKNGMPQGVDVISVNFPRRLGRGVRAKLVKAAKLRYAQQVVERVDPRGVRYYWLYGRDLAPEPETDVYVVLKEGGIAITPLTLNLNAVDAHREVDMDSLNRMVEYINASL----------   -
               SCOP domains d1l5xa_ A: SurE homolog PAE2908 (SurE-alpha)                                                                                                                                                                                                                                         SCOP domains
               CATH domains -1l5xA00 A:2-276  [code=3.40.1210.10, no name defined]                                                                                                                                                                                                                               CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeee......hhhhhhhhhhhhhhheeeeeee..................eeeee....eeeee..hhhhhhhhhhhhhh....eeeeeeee....hhhhhh.hhhhhhhhhhhhh...eeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh......eeeee..........eee............eeee.....eeee...........hhhhhhhh...eeeeee.............hhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1l5x A   1 mKILVTNDDGVHSPGLRLLYQFALSLGDVDVVAPESPKSATGLGITLHKPLRmYEVDLCGFRAIATSGTPSDTVYLATFGLGRKYDIVLSGINLGDNTSLQVILSSGTLGAAFQAALLGIPALAYSAYLENWNELLNNKEAVEImGAVVSSTASYVLKNGmPQGVDVISVNFPRRLGRGVRAKLVKAAKLRYAQQVVERVDPRGVRYYWLYGRDLAPEPETDVYVVLKEGGIAITPLTLNLNAVDAHREVDmDSLNRmVEYINASLSKLAAALEHH 276
                            |       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      
                            |                                                  53-MSE                                                                                     145-MSE         161-MSE                                                                                    252-MSE |                  
                            1-MSE                                                                                                                                                                                                                                                          258-MSE              


Chain B from PDB  Type:PROTEIN  Length:278
 aligned with SURE1_PYRAE | Q8ZU79 from UniProtKB/Swiss-Prot  Length:266

    Alignment length:278
                                                                                                                                                                                                                                                                                                   266            
                                    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     |   -        
          SURE1_PYRAE     1 MKILVTNDDGVHSPGLRLLYQFALSLGDVDVVAPESPKSATGLGITLHKPLRMYEVDLCGFRAIATSGTPSDTVYLATFGLGRKYDIVLSGINLGDNTSLQVILSSGTLGAAFQAALLGIPALAYSAYLENWNELLNNKEAVEIMGAVVSSTASYVLKNGMPQGVDVISVNFPRRLGRGVRAKLVKAAKLRYAQQVVERVDPRGVRYYWLYGRDLAPEPETDVYVVLKEGGIAITPLTLNLNAVDAHREVDMDSLNRMVEYINASL------------   -
               SCOP domains d1l5xb_ B: SurE homolog PAE2908 (SurE-alpha)                                                                                                                                                                                                                                           SCOP domains
               CATH domains -1l5xB00 B:2-278  [code=3.40.1210.10, no name defined]                                                                                                                                                                                                                                 CATH domains
           Pfam domains (1) SurE-1l5xB01 B:1-196                                                                                                                                                                                ---------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) SurE-1l5xB02 B:1-196                                                                                                                                                                                ---------------------------------------------------------------------------------- Pfam domains (2)
         Sec.struct. author .eeeee......hhhhhhhhhhhh...eeeeeee..................eeeee....eeeee.....hhhhhhhhhhh....eeeeeeee....hhhhhh.hhhhhhhhhhhhh...eeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh......eeeee..........eee............eeee.....eeee...........hhhhhhhh...eeeeee.............hhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1l5x B   1 mKILVTNDDGVHSPGLRLLYQFALSLGDVDVVAPESPKSATGLGITLHKPLRmYEVDLCGFRAIATSGTPSDTVYLATFGLGRKYDIVLSGINLGDNTSLQVILSSGTLGAAFQAALLGIPALAYSAYLENWNELLNNKEAVEImGAVVSSTASYVLKNGmPQGVDVISVNFPRRLGRGVRAKLVKAAKLRYAQQVVERVDPRGVRYYWLYGRDLAPEPETDVYVVLKEGGIAITPLTLNLNAVDAHREVDmDSLNRmVEYINASLSKLAAALEHHHH 278
                            |       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        
                            1-MSE                                              53-MSE                                                                                     145-MSE         161-MSE                                                                                    252-MSE |                    
                                                                                                                                                                                                                                                                                           258-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, 2)

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

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: no clan defined [family: SurE] (4)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (SURE1_PYRAE | Q8ZU79)
molecular function
    GO:0008253    5'-nucleotidase activity    Catalysis of the reaction: a 5'-ribonucleotide + H2O = a ribonucleoside + phosphate.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0008252    nucleotidase activity    Catalysis of the reaction: a nucleotide + H2O = a nucleoside + phosphate.
    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:0016311    dephosphorylation    The process of removing one or more phosphoric (ester or anhydride) residues from a molecule.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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 Related Entries

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

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(-) Related Entries Specified in the PDB File

1ilv THERMATOGA MARITIMA SURE (NATIVE)
1j9j THERMATOGA MARITIMA SURE (NATIVE)
1j9k THERMATOGA MARITIMA SURE WITH BOUND TUNGSTATE
1j9l THERMATOGA MARITIMA SURE WITH BOUND VANADATE