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(-) Description

Title :  SCRYSTAL STRUCTURE OF PROTEIN WITH UNKNOWN FUNCTION FROM VIBRIO CHOLERAE AT P22121 SPACEGROUP
 
Authors :  K. M. Boyko, M. A. Gorbacheva, T. V. Rakitina, D. A. Korgenevsky, P. V. Dorovatovsky, A. V. Lipkin, W. Minor, I. A. Shumilin, V. O. Popov
Date :  21 Nov 13  (Deposition) - 11 Dec 13  (Release) - 11 Dec 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Unknown Function, Structural Genomics (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. M. Boyko, M. A. Gorbacheva, T. V. Rakitina, D. A. Korgenevsky, P. V. Dorovatovsky, A. V. Lipkin, W. Minor, I. A. Shumilin, V. O. Popov
Crystal Structure Of Protein With Unknown Function From Vibrio Cholerae At P22121 Spacegroup
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PUTATIVE UNCHARACTERIZED PROTEIN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-24
    Expression System Strain: LT2
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 7-457
    Gene: VC_0899
    Organism Scientific: VIBRIO CHOLERAE O1 BIOVAR EL TOR
    Organism Taxid: 243277
    Strain: ATCC 39315 / EL TOR INABA N16961

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 5)

Asymmetric/Biological Unit (3, 5)
No.NameCountTypeFull Name
1PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
2PO43Ligand/IonPHOSPHATE ION
3SO41Ligand/IonSULFATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:158 , HIS A:159 , GLY A:260 , PRO A:261 , GLY A:262 , THR A:263 , HOH A:622 , HOH A:657BINDING SITE FOR RESIDUE SO4 A 501
2AC2SOFTWAREGLY B:158 , HIS B:159 , GLY B:260 , PRO B:261 , GLY B:262 , THR B:263 , HOH B:628BINDING SITE FOR RESIDUE PO4 B 501
3AC3SOFTWAREGLY C:158 , HIS C:159 , GLY C:259 , GLY C:260 , PRO C:261 , GLY C:262 , THR C:263 , HOH C:652BINDING SITE FOR RESIDUE PO4 C 501
4AC4SOFTWAREGLY D:158 , HIS D:159 , GLY D:260 , PRO D:261 , GLY D:262 , THR D:263 , HOH D:604BINDING SITE FOR RESIDUE PO4 D 501
5AC5SOFTWAREPRO D:415 , PHE D:416BINDING SITE FOR RESIDUE PEG D 502

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4NPA)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4NPA)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4NPA)

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4NPA)

(-) 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:418
                                                                                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee.........hhhhhhh......hhhhhhhhhhhhhhhh..hhhhh..eeeeeee..eeeeeee............hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh.........eeeee.....hhhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhhhhhhhh......eeeee...............eeee..hhhhhhhhhhhhh.eeee...hhhhhhhhhhhhhhhhhhhhh.....eeeeehhhhhhhhhhhhhhhhhhhhhhhhhhheeee.hhhhhhhhhhhhhhhhhhhhhhh............hhhhhh....hhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4npa A   5 SLIIQVSPAGSMDLLSQLEVERLKKTASSDLYQLYRNCSLAVLNSGLDKYKNFDITVMRRERGIKLELANPPEHAFVDGQIIKGIQEHLFSVLRDIVYVNMHNATHITNLVFGILRNAGALIPGATPNLVVCWGGHSINEVEYQYTREVGHELGLRELNICTGCGPGAMEGPMKGAAVGHAKQRYSEYRYLGLTEPSIIAAEPPNPIVNELVIMPDIEKRLEAFVRMAHGIIIFPGGPGTAEELLYILGIMMHPENADQPMPIVLTGPKQSEAYFRSLDKFITDTLGEAARKHYSIAIDNPAEAARIMSNAMPLVRQHRKDKEDAYSFNWSLKIEPEFQLPFEPNHESMANLDLHLNQRPEVLAANLRRAFSGVVAGNVKAEGIREIERHGPFEMHGDPVLMKKMDQLLNDFVAQNRM 441
                                    14        24        34        44     || 63        73        83        93       103       113 ||    133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433        
                                                                        50|                                                    115|                                                                                                                                                                                                                                                                                                                           
                                                                         60                                                     126                                                                                                                                                                                                                                                                                                                           


Chain B from PDB  Type:PROTEIN  Length:420
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeee.........hhhhhhh......hhhhhhhhhhhhhhhh.......eeeeeee..eeeeeee..hhh.ee..eehhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh..........eeeee.....hhhhhhhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhhhhhhh.....eeeeehhhhhh.........eeee..hhhhhhhhhhhhh.eeee...hhhhhhhhhhhhhhhhhhhhh.....eeeeehhhhhhhhhhhhhhhhhhhhhhhhhhheeee.hhhhhhhhhhhhhhhhhhhhhhh............hhhhh.....hhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4npa B   5 SLIIQVSPAGSMDLLSQLEVERLKKTASSDLYQLYRNCSLAVLNSDKYKNFDITVMRRERGIKLELANPPEHAFVDGQIIKGIQEHLFSVLRDIVYVNMHLALTNATHITNLVFGILRNAGALIPGATPNLVVCWGGHSINEVEYQYTREVGHELGLRELNICTGCGPGAMEGPMKGAAVGHAKQRYSEYRYLGLTEPSIIAAEPPNPIVNELVIMPDIEKRLEAFVRMAHGIIIFPGGPGTAEELLYILGIMMHPENADQPMPIVLTGPKQSEAYFRSLDKFITDTLGEAARKHYSIAIDNPAEAARIMSNAMPLVRQHRKDKEDAYSFNWSLKIEPEFQLPFEPNHESMANLDLHLNQRPEVLAANLRRAFSGVVAGNVKAEGIREIERHGPFEMHGDPVLMKKMDQLLNDFVAQNRM 441
                                    14        24        34        44    ||  65        75        85        95       105       115 ||    131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441
                                                                       49|                                                     117|                                                                                                                                                                                                                                                                                                                             
                                                                        61                                                      124                                                                                                                                                                                                                                                                                                                             


Chain C from PDB  Type:PROTEIN  Length:418
                                                                                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee.........hhhhhhh.......hhhhhhhhhhhhhh........eeeeeee..eeeeeee..hhhhh.....hhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh..........eeeee.....hhhhhhhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhhhhhh......eeeee...............eeee..hhhhhhhhhhhhh.eeee...hhhhhhhhhhhhhhhhhhhhh.....eeeeehhhhhhhhhhhhhhhhhhhhhhhhhhheeee.hhhhhhhhhhhhhhhhhhhhhhhh...........hhhhhh....hhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4npa C   5 SLIIQVSPAGSMDLLSQLEVERLKKTASSDLYQLYRNCSLAVLNSDKYKNFDITVMRRERGIKLELANPPEHAFVDGQIIKGIQEHLFSVLRDIVYVNMHLANATHITNLVFGILRNAGALIPGATPNLVVCWGGHSINEVEYQYTREVGHELGLRELNICTGCGPGAMEGPMKGAAVGHAKQRYSEYRYLGLTEPSIIAAEPPNPIVNELVIMPDIEKRLEAFVRMAHGIIIFPGGPGTAEELLYILGIMMHPENADQPMPIVLTGPKQSEAYFRSLDKFITDTLGEAARKHYSIAIDNPAEAARIMSNAMPLVRQHRKDKEDAYSFNWSLKIEPEFQLPFEPNHESMANLDLHLNQRPEVLAANLRRAFSGVVAGNVKAEGIREIERHGPFEMHGDPVLMKKMDQLLNDFVAQNRM 441
                                    14        24        34        44    ||  65        75        85        95       105       115 ||    133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433        
                                                                       49|                                                     117|                                                                                                                                                                                                                                                                                                                           
                                                                        61                                                      126                                                                                                                                                                                                                                                                                                                           


Chain D from PDB  Type:PROTEIN  Length:413
                                                                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee.........hhhhhhh.....hhhhhhhhhhhhhh........eeeeeee..eeeeeee..hhh.ee..eehhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh..........eeeee.....hhhhhhhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhhhhhhh.....eeeee...............eeee..hhhhhhhhhhhhh.eeee...hhhhhhhhhhhhhhhhh.........eeeeehhhhhhhhhhhhhhhhhhhhhhhhhhheeee.hhhhhhhhhhhhhhhhhhhhhhh............hhhhhh....hhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4npa D   6 LIIQVSPAGSMDLLSQLEVERLKKTSDLYQLYRNCSLAVLNSDKYKNFDITVMRRERGIKLELANPPEHAFVDGQIIKGIQEHLFSVLRDIVYVNMHNATHITNLVFGILRNAGALIPGATPNLVVCWGGHSINEVEYQYTREVGHELGLRELNICTGCGPGAMEGPMKGAAVGHAKQRYSEYRYLGLTEPSIIAAEPPNPIVNELVIMPDIEKRLEAFVRMAHGIIIFPGGPGTAEELLYILGIMMHPENADQPMPIVLTGPKQSEAYFRSLDKFITDTLGEAARKHYSIAIDNPAEAARIMSNAMPLVRQHRKDKEDAYSFNWSLKIEPEFQLPFEPNHESMANLDLHLNQRPEVLAANLRRAFSGVVAGNVKAEGIREIERHGPFEMHGDPVLMKKMDQLLNDFVAQNRM 441
                                    15        25    ||  37        47 ||     68        78        88        98       108      |128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438   
                                                   30|              49|                                                   115|                                                                                                                                                                                                                                                                                                                           
                                                    33               61                                                    126
   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 4NPA)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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UniProtKB/TrEMBL
        Q9KTK3_VIBCH | Q9KTK3: 2pmb 3gh1

(-) Related Entries Specified in the PDB File

2pmb 4npo