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(-) Description

Title :  CRYSTAL STRUCTURE OF CONSERVED DOMAIN PROTEIN FROM VIBRIO CHOLERAE O1 BIOVAR ELTOR STR. N16961
 
Authors :  B. Nocek, E. Duggan, J. Abdullah, A. Joachimiak, Midwest Center For Structural Genomics (Mcsg)
Date :  27 Jan 10  (Deposition) - 02 Mar 10  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Atpase Binding Cassette, Psi, Mcsg, Structural Genomics, Protein Structure Initiative, Midwest Center For Structural Genomics, Atp Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Nocek, E. Duggan, J. Abdullah, A. Joachimiak
Crystal Structure Of Conserved Domain Protein From Vibrio Cholerae O1 Biovar Eltor Str. N16961
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - UNCHARACTERIZED CONSERVED DOMAIN PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21-DE3
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: VC_1101
    Organism Scientific: VIBRIO CHOLERAE
    Organism Taxid: 243277
    Strain: O1 BIOVAR EL TOR STR. N16961

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 8)

Asymmetric Unit (5, 8)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2MSE2Mod. Amino AcidSELENOMETHIONINE
3PHE1Mod. Amino AcidPHENYLALANINE
4SO41Ligand/IonSULFATE ION
5ZN3Ligand/IonZINC ION
Biological Unit 1 (4, 10)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL
2MSE4Mod. Amino AcidSELENOMETHIONINE
3PHE2Mod. Amino AcidPHENYLALANINE
4SO42Ligand/IonSULFATE ION
5ZN-1Ligand/IonZINC ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:38 , ALA A:40 , ALA A:96 , THR A:97 , ALA A:116 , VAL A:117 , THR A:118 , ASP A:141 , ASN A:172 , ILE A:220 , ASN A:222 , TYR A:249 , TYR A:262BINDING SITE FOR RESIDUE PHE A 601
2AC2SOFTWAREGLU A:64 , ASP A:66BINDING SITE FOR RESIDUE ZN A 401
3AC3SOFTWAREGLU A:130 , GLU A:211 , ALA A:238 , ASP A:286BINDING SITE FOR RESIDUE ZN A 402
4AC4SOFTWAREALA A:210 , SER A:213 , THR A:240 , HOH A:669 , HOH A:718BINDING SITE FOR RESIDUE ZN A 403
5AC5SOFTWAREGLU A:59BINDING SITE FOR RESIDUE SO4 A 501
6AC6SOFTWARELYS A:55 , GLY A:56BINDING SITE FOR RESIDUE GOL A 1001

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3LKV)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3LKV)

(-) 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:297
 aligned with Q9KT04_VIBCH | Q9KT04 from UniProtKB/TrEMBL  Length:321

    Alignment length:297
                                                                                                                                                                                                                                                                                                                                 321 
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315     | 
         Q9KT04_VIBCH    26 KTAKVAVSQIVEHPALDATRQGLLDGLKAKGYEEGKNLEFDYKTAQGNPAIAVQIARQFVGENPDVLVGIATPTAQALVSATKTIPIVFTAVTDPVGAKLVKQLEQPGKNVTGLSDLSPVEQHVELIKEILPNVKSIGVVYNPGEANAVSLMELLKLSAAKHGIKLVEATALKSADVQSATQAIAEKSDVIYALIDNTVASAIEGMIVAANQAKTPVFGAATSYVERGAIASLGFDYYQIGVQTADYVAAILEGKEPGSLDVQVAKGSDLVINKTAAEQLGITIPEAVLARATSTK-   -
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee...hhhhhhhhhhhhhhhhhh.......eeeeeee...hhhhhhhhhhhhhh....eeeeehhhhhhhhhhhh....eeeeee..................eeeee...hhhhhhhhhhhhh....eeeeee...hhhhhhhhhhhhhhhhhh..eeeeee..hhhhhhhhhhhhhh...eeee..hhhhhhhhhhhhhhhhhh...eee.hhhhhhh...eeee.hhhhhhhhhhhhhhhhhh..hhhhh..ee....eeeehhhhhhhh....hhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3lkv A  26 KTAKVAVSQIVEHPALDATRQGLLDGLKAKGYEEGKNLEFDYKTAQGNPAIAVQIARQFVGENPDVLVGIATPTAQALVSATKTIPIVFTAVTDPVGAKLVKQLEQPGKNVTGLSDLSPVEQHVELIKEILPNVKSIGVVYNPGEANAVSLmELLKLSAAKHGIKLVEATALKSADVQSATQAIAEKSDVIYALIDNTVASAIEGmIVAANQAKTPVFGAATSYVERGAIASLGFDYYQIGVQTADYVAAILEGKEPGSLDVQVAKGSDLVINKTAAEQLGITIPEAVLARATSTKF 601
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175 |     185       195       205       215       225     | 235       245       255       265       275       285       295       305       315     ||
                                                                                                                                                                                 177-MSE                                               231-MSE                                                                                   321|
                                                                                                                                                                                                                                                                                                                                  601
   Legend:   → Mismatch (orange background)
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  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 3LKV)

(-) CATH Domains  (0, 0 ; only for superseded entry 2QH8: 1,2)

(no "CATH Domain" information available for 3LKV, only for superseded entry 2QH8 replaced by 3LKV)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q9KT04_VIBCH | Q9KT04)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0003674    molecular_function    A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs. These actions are described from two distinct but related perspectives: (1) biochemical activity, and (2) role as a component in a larger system/process.
biological process
    GO:0008150    biological_process    A biological process represents a specific objective that the organism is genetically programmed to achieve. Biological processes are often described by their outcome or ending state, e.g., the biological process of cell division results in the creation of two daughter cells (a divided cell) from a single parent cell. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence.
cellular component
    GO:0005575    cellular_component    A location, relative to cellular compartments and structures, occupied by a macromolecular machine when it carries out a molecular function. There are two ways in which the gene ontology describes locations of gene products: (1) relative to cellular structures (e.g., cytoplasmic side of plasma membrane) or compartments (e.g., mitochondrion), and (2) the stable macromolecular complexes of which they are parts (e.g., the ribosome).

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