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(-) Description

Title :  CRYSTAL STRUCTURE OF A NIPSNAP FAMILY PROTEIN (ATU5224) FROM AGROBACTERIUM TUMEFACIENS STR. C58 AT 2.40 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  07 Jan 05  (Deposition) - 18 Jan 05  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F,G,H
Keywords :  Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Hypothetical Protein (Np_396154. 1) Fro Agrobacterium Tumefaciens At 2. 40 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - HYPOTHETICAL PROTEIN AGR_PAT_315
    Chains: A, B, C, D, E, F, G, H
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: AGR_PAT_315
    Organism Scientific: AGROBACTERIUM TUMEFACIENS STR. C58
    Organism Taxid: 176299
    Strain: C58 / ATCC 33970

 Structural Features

(-) Chains, Units

  12345678
Asymmetric/Biological Unit : ABCDEFGH

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 25)

Asymmetric/Biological Unit (2, 25)
No.NameCountTypeFull Name
1MSE24Mod. Amino AcidSELENOMETHIONINE
2PO41Ligand/IonPHOSPHATE ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE G:100 , HOH G:112 , HOH G:139BINDING SITE FOR RESIDUE PO4 G 105

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1VQY)

(-) 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:105
 aligned with A9CLJ4_AGRFC | A9CLJ4 from UniProtKB/TrEMBL  Length:104

    Alignment length:105
                             1                                                                                                       
                             |       9        19        29        39        49        59        69        79        89        99     
         A9CLJ4_AGRFC     - -MIVEERIYRIRGGKMQEYLKLVREEGIAIQAPILGNLIGYFVTDIGPLSQVIHMWGYASLDDRAERRGKLAEDQRWQAFIPRLSVLIESSENRILLPTDFSPLR 104
               SCOP domains -d1vqya1 A:1-104 Hypothetical protein Atu5224                                                             SCOP domains
               CATH domains 1vqyA00 A:0-104  [code=3.30.70.900, no name defined]                                                      CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeee...hhhhhhhhhhhhhhhhhhhhhh.eeeeeeeee....eeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------- Transcript
                 1vqy A   0 HmIVEERIYRIRGGKmQEYLKLVREEGIAIQAPILGNLIGYFVTDIGPLSQVIHmWGYASLDDRAERRGKLAEDQRWQAFIPRLSVLIESSENRILLPTDFSPLR 104
                             |       9     |  19        29        39        49    |   59        69        79        89        99     
                             |            15-MSE                                 54-MSE                                              
                             1-MSE                                                                                                   


Chain B from PDB  Type:PROTEIN  Length:114
 aligned with A9CLJ4_AGRFC | A9CLJ4 from UniProtKB/TrEMBL  Length:104

    Alignment length:114
                                      1                                                                                                       
                                     -|       10        20        30        40        50        60        70        80        90       100    
         A9CLJ4_AGRFC     - ----------MIVEERIYRIRGGKMQEYLKLVREEGIAIQAPILGNLIGYFVTDIGPLSQVIHMWGYASLDDRAERRGKLAEDQRWQAFIPRLSVLIESSENRILLPTDFSPLR 104
               SCOP domains d1vqyb_ B: automated matches                                                                                       SCOP domains
               CATH domains -----------1vqyB01 B:2-96  [code=3.30.70.900, no name defined]                                            -------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...........eeeeeeeee...hhhhhhhhhhhhhhhhhhhhhh.eeeeeeeee....eeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeee....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------ Transcript
                 1vqy B  -9 SDKIHHHHHHmIVEERIYRIRGGKmQEYLKLVREEGIAIQAPILGNLIGYFVTDIGPLSQVIHmWGYASLDDRAERRGKLAEDQRWQAFIPRLSVLIESSENRILLPTDFSPLR 104
                                     0|       10    |   20        30        40        50   |    60        70        80        90       100    
                                      1-MSE        15-MSE                                 54-MSE                                              


Chain C from PDB  Type:PROTEIN  Length:105
 aligned with A9CLJ4_AGRFC | A9CLJ4 from UniProtKB/TrEMBL  Length:104

    Alignment length:105
                             1                                                                                                       
                             |       9        19        29        39        49        59        69        79        89        99     
         A9CLJ4_AGRFC     - -MIVEERIYRIRGGKMQEYLKLVREEGIAIQAPILGNLIGYFVTDIGPLSQVIHMWGYASLDDRAERRGKLAEDQRWQAFIPRLSVLIESSENRILLPTDFSPLR 104
               SCOP domains d1vqyc_ C: automated matches                                                                              SCOP domains
               CATH domains 1vqyC00 C:0-104  [code=3.30.70.900, no name defined]                                                      CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeee...hhhhhhhhhhhhhhhhhhhhhh.eeeeeeeee....eeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------- Transcript
                 1vqy C   0 HmIVEERIYRIRGGKmQEYLKLVREEGIAIQAPILGNLIGYFVTDIGPLSQVIHmWGYASLDDRAERRGKLAEDQRWQAFIPRLSVLIESSENRILLPTDFSPLR 104
                             |       9     |  19        29        39        49    |   59        69        79        89        99     
                             1-MSE        15-MSE                                 54-MSE                                              


Chain D from PDB  Type:PROTEIN  Length:104
 aligned with A9CLJ4_AGRFC | A9CLJ4 from UniProtKB/TrEMBL  Length:104

    Alignment length:104
                                    10        20        30        40        50        60        70        80        90       100    
         A9CLJ4_AGRFC     1 MIVEERIYRIRGGKMQEYLKLVREEGIAIQAPILGNLIGYFVTDIGPLSQVIHMWGYASLDDRAERRGKLAEDQRWQAFIPRLSVLIESSENRILLPTDFSPLR 104
               SCOP domains d1vqyd_ D: automated matches                                                                             SCOP domains
               CATH domains -1vqyD00 D:2-104  [code=3.30.70.900, no name defined]                                                    CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeee...hhhhhhhhhhhhhhhhhhhhhh.eeeeeeeee....eeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeee....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------- Transcript
                 1vqy D   1 mIVEERIYRIRGGKmQEYLKLVREEGIAIQAPILGNLIGYFVTDIGPLSQVIHmWGYASLDDRAERRGKLAEDQRWQAFIPRLSVLIESSENRILLPTDFSPLR 104
                            |       10    |   20        30        40        50   |    60        70        80        90       100    
                            1-MSE        15-MSE                                 54-MSE                                              


Chain E from PDB  Type:PROTEIN  Length:104
 aligned with A9CLJ4_AGRFC | A9CLJ4 from UniProtKB/TrEMBL  Length:104

    Alignment length:104
                                    10        20        30        40        50        60        70        80        90       100    
         A9CLJ4_AGRFC     1 MIVEERIYRIRGGKMQEYLKLVREEGIAIQAPILGNLIGYFVTDIGPLSQVIHMWGYASLDDRAERRGKLAEDQRWQAFIPRLSVLIESSENRILLPTDFSPLR 104
               SCOP domains d1vqye_ E: automated matches                                                                             SCOP domains
               CATH domains -1vqyE00 E:2-104  [code=3.30.70.900, no name defined]                                                    CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeee...hhhhhhhhhhhhhhhhhhhhhh.eeeeeeeee....eeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeee....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------- Transcript
                 1vqy E   1 mIVEERIYRIRGGKmQEYLKLVREEGIAIQAPILGNLIGYFVTDIGPLSQVIHmWGYASLDDRAERRGKLAEDQRWQAFIPRLSVLIESSENRILLPTDFSPLR 104
                            |       10    |   20        30        40        50   |    60        70        80        90       100    
                            1-MSE        15-MSE                                 54-MSE                                              


Chain F from PDB  Type:PROTEIN  Length:105
 aligned with A9CLJ4_AGRFC | A9CLJ4 from UniProtKB/TrEMBL  Length:104

    Alignment length:105
                             1                                                                                                       
                             |       9        19        29        39        49        59        69        79        89        99     
         A9CLJ4_AGRFC     - -MIVEERIYRIRGGKMQEYLKLVREEGIAIQAPILGNLIGYFVTDIGPLSQVIHMWGYASLDDRAERRGKLAEDQRWQAFIPRLSVLIESSENRILLPTDFSPLR 104
               SCOP domains d1vqyf_ F: automated matches                                                                              SCOP domains
               CATH domains 1vqyF00 F:0-104  [code=3.30.70.900, no name defined]                                                      CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeee...hhhhhhhhhhhhhhhhhhhhhh.eeeeeeeee....eeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------- Transcript
                 1vqy F   0 HmIVEERIYRIRGGKmQEYLKLVREEGIAIQAPILGNLIGYFVTDIGPLSQVIHmWGYASLDDRAERRGKLAEDQRWQAFIPRLSVLIESSENRILLPTDFSPLR 104
                             |       9     |  19        29        39        49    |   59        69        79        89        99     
                             1-MSE        15-MSE                                 54-MSE                                              


Chain G from PDB  Type:PROTEIN  Length:105
 aligned with A9CLJ4_AGRFC | A9CLJ4 from UniProtKB/TrEMBL  Length:104

    Alignment length:105
                             1                                                                                                       
                             |       9        19        29        39        49        59        69        79        89        99     
         A9CLJ4_AGRFC     - -MIVEERIYRIRGGKMQEYLKLVREEGIAIQAPILGNLIGYFVTDIGPLSQVIHMWGYASLDDRAERRGKLAEDQRWQAFIPRLSVLIESSENRILLPTDFSPLR 104
               SCOP domains d1vqyg_ G: automated matches                                                                              SCOP domains
               CATH domains 1vqyG00 G:0-104  [code=3.30.70.900, no name defined]                                                      CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeee...hhhhhhhhhhhhhhhhhhhhhh.eeeeeeeee....eeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------- Transcript
                 1vqy G   0 HmIVEERIYRIRGGKmQEYLKLVREEGIAIQAPILGNLIGYFVTDIGPLSQVIHmWGYASLDDRAERRGKLAEDQRWQAFIPRLSVLIESSENRILLPTDFSPLR 104
                             |       9     |  19        29        39        49    |   59        69        79        89        99     
                             1-MSE        15-MSE                                 54-MSE                                              


Chain H from PDB  Type:PROTEIN  Length:105
 aligned with A9CLJ4_AGRFC | A9CLJ4 from UniProtKB/TrEMBL  Length:104

    Alignment length:105
                             1                                                                                                       
                             |       9        19        29        39        49        59        69        79        89        99     
         A9CLJ4_AGRFC     - -MIVEERIYRIRGGKMQEYLKLVREEGIAIQAPILGNLIGYFVTDIGPLSQVIHMWGYASLDDRAERRGKLAEDQRWQAFIPRLSVLIESSENRILLPTDFSPLR 104
               SCOP domains d1vqyh_ H: automated matches                                                                              SCOP domains
               CATH domains 1vqyH00 H:0-104  [code=3.30.70.900, no name defined]                                                      CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeee...hhhhhhhhhhhhhhhhhhhhhh.eeeeeeeee....eeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------- Transcript
                 1vqy H   0 HmIVEERIYRIRGGKmQEYLKLVREEGIAIQAPILGNLIGYFVTDIGPLSQVIHmWGYASLDDRAERRGKLAEDQRWQAFIPRLSVLIESSENRILLPTDFSPLR 104
                             |       9     |  19        29        39        49    |   59        69        79        89        99     
                             1-MSE        15-MSE                                 54-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  (2, 8)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 8)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1VQY)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
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