Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asym./Biol. Unit
(-)Asym./Biol. Unit - sites
collapse expand < >
Image Asym./Biol. Unit
Asym./Biol. Unit  (Jmol Viewer)
Image Asym./Biol. Unit - sites
Asym./Biol. Unit - sites  (Jmol Viewer)

(-) Description

Title :  CRYSTAL STRUCTURE OF PREDICTED NUCLEOTIDE-BINDING PROTEIN FROM VIBRIO CHOLERAE
 
Authors :  V. N. Malashkevich, R. Toro, S. Wasserman, J. M. Sauder, S. K. Burley, S. New York Sgx Research Center For Structural Genomics (Nysgx
Date :  02 Mar 09  (Deposition) - 10 Mar 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Structural Genomics, Protein Structure Initiative, New York Structural Genomix Research Consortium, Nysgxrc, Psi, Unknown Function, New York Sgx Research Center For Structural Genomics (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. N. Malashkevich, R. Toro, S. Wasserman, J. M. Sauder, S. K. Burley, S. C. Almo
Crystal Structure Of Predicted Nucleotide-Binding Protein From Vibrio Cholerae.
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PREDICTED NUCLEOTIDE-BINDING PROTEIN
    Atcc: 39315
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: BC-PSGX3(BC)
    Expression System Strain: BL21(DE3)CODON+RIL
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: VC_0899
    Organism Scientific: VIBRIO CHOLERAE O1 BIOVAR EL TOR STR. N16961
    Organism Taxid: 243277
    Strain: EL TOR INABA N16961 / SEROTYPE O1

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 72)

Asymmetric/Biological Unit (2, 72)
No.NameCountTypeFull Name
1MSE68Mod. Amino AcidSELENOMETHIONINE
2PO44Ligand/IonPHOSPHATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:155 , HIS A:156 , GLY A:256 , GLY A:257 , PRO A:258 , GLY A:259 , THR A:260 , HOH A:1024 , HOH A:1352 , HOH D:464BINDING SITE FOR RESIDUE PO4 A 501
2AC2SOFTWAREGLY B:155 , HIS B:156 , GLY B:257 , PRO B:258 , GLY B:259 , THR B:260 , HOH B:1078 , HOH D:566 , HOH D:569 , HOH D:590 , HOH D:986BINDING SITE FOR RESIDUE PO4 B 501
3AC3SOFTWAREGLY C:155 , HIS C:156 , GLY C:256 , GLY C:257 , PRO C:258 , GLY C:259 , THR C:260 , HOH C:1033 , HOH D:572BINDING SITE FOR RESIDUE PO4 C 501
4AC4SOFTWAREGLY D:155 , HIS D:156 , GLY D:257 , PRO D:258 , GLY D:259 , THR D:260 , HOH D:486 , HOH D:547 , HOH D:737 , HOH D:1257BINDING SITE FOR RESIDUE PO4 D 501

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3GH1)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3GH1)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3GH1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3GH1)

(-) Exons   (0, 0)

(no "Exon" information available for 3GH1)

(-) 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:448
 aligned with Q9KTK3_VIBCH | Q9KTK3 from UniProtKB/TrEMBL  Length:457

    Alignment length:459
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              457      
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454  |      
         Q9KTK3_VIBCH     5 TMIIQVSPAGSMDLLSQLEVERLKKTASSDLYQLYRNCSLAVLNSGSHTDNSKELLDKYKNFDITVMRRERGIKLELANPPEHAFVDGQIIKGIQEHLFSVLRDIVYVNMHLADSQRLNLTNATHITNLVFGILRNAGALIPGATPNLVVCWGGHSINEVEYQYTREVGHELGLRELNICTGCGPGAMEGPMKGAAVGHAKQRYSEYRYLGLTEPSIIAAEPPNPIVNELVIMPDIEKRLEAFVRMAHGIIIFPGGPGTAEELLYILGIMMHPENADQPMPIVLTGPKQSEAYFRSLDKFITDTLGEAARKHYSIAIDNPAEAARIMSNAMPLVRQHRKDKEDAYSFNWSLKIEPEFQLPFEPNHESMANLDLHLNQRPEVLAANLRRAFSGVVAGNVKAEGIREIERHGPFEMHGDPVLMKKMDQLLNDFVAQNRMKLPGGSAYEPCYKIVT------   -
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3gh1A01 A:2-122 MoCo carri  er protein-like                                                                              3gh1A02 A:123-452  [code=3.40.50.450, no name defined]                                                                                                                                                                                                                                                                                    -------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee.........hhhhhhh....--.hhhhhhhhhhhhhhh.---..............eeeeeee..eeeeeee..hhh.ee..eehhhhhhhhhhhhhhhhhhhhh...------hhhhhhhhhhhhhhhhh..........eeeee.....hhhhhhhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhhhhhh......eeeee...............eeee..hhhhhhhhhhhhh.eeee...hhhhhhhhhhhhhhhhhhhhh.....eeeeehhhhhhhhhhhhhhhhhhhhhhhhhhheeee.hhhhhhhhhhhhhhhhhhhhhhh............hhhhhh....hhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eee..hhhhhhhhhhhhhhhhhh..............eee........ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3gh1 A   2 SLIIQVSPAGSmDLLSQLEVERLKKT--SDLYQLYRNCSLAVLNS---TDNSKELLDKYKNFDITVmRRERGIKLELANPPEHAFVDGQIIKGIQEHLFSVLRDIVYVNmHLAD------TNATHITNLVFGILRNAGALIPGATPNLVVCWGGHSINEVEYQYTREVGHELGLRELNICTGCGPGAmEGPmKGAAVGHAKQRYSEYRYLGLTEPSIIAAEPPNPIVNELVImPDIEKRLEAFVRmAHGIIIFPGGPGTAEELLYILGImmHPENADQPmPIVLTGPKQSEAYFRSLDKFITDTLGEAARKHYSIAIDNPAEAARImSNAmPLVRQHRKDKEDAYSFNWSLKIEPEFQLPFEPNHESmANLDLHLNQRPEVLAANLRRAFSGVVAGNVKAEGIREIERHGPFEmHGDPVLmKKmDQLLNDFVAQNRmKLPGGSAYEPCYKIVTEGHHHH 462
                                    11 |      21     |  31        41    |   51        61      | 71        81        91       101       111   |     -|      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       451    ||   
                                      13-MSE        27 30              46  50                68-MSE                                    111-MSE    122                                                                189-MSE                                      234-MSE      247-MSE                 271-MSE   281-MSE                                        328-MSE                                  369-MSE                                       415-MSE  |  |          438-MSE           456|   
                                                                                                                                                                                                                         193-MSE                                                                        272-MSE                                                     332-MSE                                                                                   422-MSE                            459   
                                                                                                                                                                                                                                                                                                                                                                                                                                                                 425-MSE                               


Chain B from PDB  Type:PROTEIN  Length:446
 aligned with Q9KTK3_VIBCH | Q9KTK3 from UniProtKB/TrEMBL  Length:457

    Alignment length:457
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              457    
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454  |    
         Q9KTK3_VIBCH     5 TMIIQVSPAGSMDLLSQLEVERLKKTASSDLYQLYRNCSLAVLNSGSHTDNSKELLDKYKNFDITVMRRERGIKLELANPPEHAFVDGQIIKGIQEHLFSVLRDIVYVNMHLADSQRLNLTNATHITNLVFGILRNAGALIPGATPNLVVCWGGHSINEVEYQYTREVGHELGLRELNICTGCGPGAMEGPMKGAAVGHAKQRYSEYRYLGLTEPSIIAAEPPNPIVNELVIMPDIEKRLEAFVRMAHGIIIFPGGPGTAEELLYILGIMMHPENADQPMPIVLTGPKQSEAYFRSLDKFITDTLGEAARKHYSIAIDNPAEAARIMSNAMPLVRQHRKDKEDAYSFNWSLKIEPEFQLPFEPNHESMANLDLHLNQRPEVLAANLRRAFSGVVAGNVKAEGIREIERHGPFEMHGDPVLMKKMDQLLNDFVAQNRMKLPGGSAYEPCYKIVT----   -
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3gh1B01 B:2-122 MoCo carrier protein-like                                                                                3gh1B02 B:123-452  [code=3.40.50.450, no name defined]                                                                                                                                                                                                                                                                                    ------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee.........hhhhhhh......hhhhhhhhhhhhhhhh.---......hhhhhh..eeeeeee..eeeeeee..hhh.ee..eehhhhhhhhhhhhhhhhhhhhh.--------hhhhhhhhhhhhhhhhh..........eeeee.....hhhhhhhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhhhhhh......eeeee...............eeee..hhhhhhhhhhhhh.eeee...hhhhhhhhhhhhhhhhhhhhh.....eeeeehhhhhhhhhhhhhhhhhhhhhhhhhhheeee.hhhhhhhhhhhhhhhhhhhhhhh............hhhhhh....hhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eee..hhhhhhhhhhhhhhhhhh..............eee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3gh1 B   2 SLIIQVSPAGSmDLLSQLEVERLKKTASSDLYQLYRNCSLAVLNS---TDNSKELLDKYKNFDITVmRRERGIKLELANPPEHAFVDGQIIKGIQEHLFSVLRDIVYVNmHL--------TNATHITNLVFGILRNAGALIPGATPNLVVCWGGHSINEVEYQYTREVGHELGLRELNICTGCGPGAmEGPmKGAAVGHAKQRYSEYRYLGLTEPSIIAAEPPNPIVNELVImPDIEKRLEAFVRmAHGIIIFPGGPGTAEELLYILGImmHPENADQPmPIVLTGPKQSEAYFRSLDKFITDTLGEAARKHYSIAIDNPAEAARImSNAmPLVRQHRKDKEDAYSFNWSLKIEPEFQLPFEPNHESmANLDLHLNQRPEVLAANLRRAFSGVVAGNVKAEGIREIERHGPFEmHGDPVLmKKmDQLLNDFVAQNRmKLPGGSAYEPCYKIVTHHHH 462
                                    11 |      21        31        41    |   51        61      | 71        81        91       101       111 |       -|      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       451  ||   
                                      13-MSE                           46  50                68-MSE                                    111-MSE    122                                                                189-MSE                                      234-MSE      247-MSE                 271-MSE   281-MSE                                        328-MSE                                  369-MSE                                       415-MSE  |  |          438-MSE         454|   
                                                                                                                                         113                                                                             193-MSE                                                                        272-MSE                                                     332-MSE                                                                                   422-MSE                          459   
                                                                                                                                                                                                                                                                                                                                                                                                                                                                 425-MSE                             


Chain C from PDB  Type:PROTEIN  Length:441
 aligned with Q9KTK3_VIBCH | Q9KTK3 from UniProtKB/TrEMBL  Length:457

    Alignment length:452
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454  
         Q9KTK3_VIBCH     5 TMIIQVSPAGSMDLLSQLEVERLKKTASSDLYQLYRNCSLAVLNSGSHTDNSKELLDKYKNFDITVMRRERGIKLELANPPEHAFVDGQIIKGIQEHLFSVLRDIVYVNMHLADSQRLNLTNATHITNLVFGILRNAGALIPGATPNLVVCWGGHSINEVEYQYTREVGHELGLRELNICTGCGPGAMEGPMKGAAVGHAKQRYSEYRYLGLTEPSIIAAEPPNPIVNELVIMPDIEKRLEAFVRMAHGIIIFPGGPGTAEELLYILGIMMHPENADQPMPIVLTGPKQSEAYFRSLDKFITDTLGEAARKHYSIAIDNPAEAARIMSNAMPLVRQHRKDKEDAYSFNWSLKIEPEFQLPFEPNHESMANLDLHLNQRPEVLAANLRRAFSGVVAGNVKAEGIREIERHGPFEMHGDPVLMKKMDQLLNDFVAQNRMKLPGGSAYEPCYKIV 456
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3gh1C01 C:2-113 MoCo carrier protein-like                                                                                3gh1C02 C:123-452  [code=3.40.50.450, no name defined]                                                                                                                                                                                                                                                                                    - CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee.........hhhhhhhhh.....hhhhhhhhhhhhhhh....--...hhhhhh...eeeeeee..eeeeeee..hhh.ee..eehhhhhhhhhhhhhhhhhhhhhh---------hhhhhhhhhhhhhhhh..........eeeee.....hhhhhhhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhhhhhhh.....eeeee...............eeee..hhhhhhhhhhhhh.eeee...hhhhhhhhhhhhhhhhhhhhh.....eeeeehhhhhhhhhhhhhhhhhhhhhhhhhhheeee.hhhhhhhhhhhhhhhhhhhhhhh............hhhhh.....hhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eee..hhhhhhhhhhhhhhhhhh..............eee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3gh1 C   2 SLIIQVSPAGSmDLLSQLEVERLKKTASSDLYQLYRNCSLAVLNSGSH--NSKELLDKYKNFDITVmRRERGIKLELANPPEHAFVDGQIIKGIQEHLFSVLRDIVYVNmHL---------NATHITNLVFGILRNAGALIPGATPNLVVCWGGHSINEVEYQYTREVGHELGLRELNICTGCGPGAmEGPmKGAAVGHAKQRYSEYRYLGLTEPSIIAAEPPNPIVNELVImPDIEKRLEAFVRmAHGIIIFPGGPGTAEELLYILGImmHPENADQPmPIVLTGPKQSEAYFRSLDKFITDTLGEAARKHYSIAIDNPAEAARImSNAmPLVRQHRKDKEDAYSFNWSLKIEPEFQLPFEPNHESmANLDLHLNQRPEVLAANLRRAFSGVVAGNVKAEGIREIERHGPFEmHGDPVLmKKmDQLLNDFVAQNRmKLPGGSAYEPCYKIV 453
                                    11 |      21        31        41       | -|       61      | 71        81        91       101       111 |       - |     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       451  
                                      13-MSE                              49 52              68-MSE                                    111-MSE     123                                                               189-MSE                                      234-MSE      247-MSE                 271-MSE   281-MSE                                        328-MSE                                  369-MSE                                       415-MSE  |  |          438-MSE           
                                                                                                                                         113                                                                             193-MSE                                                                        272-MSE                                                     332-MSE                                                                                   422-MSE                           
                                                                                                                                                                                                                                                                                                                                                                                                                                                                 425-MSE                        


Chain D from PDB  Type:PROTEIN  Length:444
 aligned with Q9KTK3_VIBCH | Q9KTK3 from UniProtKB/TrEMBL  Length:457

    Alignment length:453
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454   
         Q9KTK3_VIBCH     5 TMIIQVSPAGSMDLLSQLEVERLKKTASSDLYQLYRNCSLAVLNSGSHTDNSKELLDKYKNFDITVMRRERGIKLELANPPEHAFVDGQIIKGIQEHLFSVLRDIVYVNMHLADSQRLNLTNATHITNLVFGILRNAGALIPGATPNLVVCWGGHSINEVEYQYTREVGHELGLRELNICTGCGPGAMEGPMKGAAVGHAKQRYSEYRYLGLTEPSIIAAEPPNPIVNELVIMPDIEKRLEAFVRMAHGIIIFPGGPGTAEELLYILGIMMHPENADQPMPIVLTGPKQSEAYFRSLDKFITDTLGEAARKHYSIAIDNPAEAARIMSNAMPLVRQHRKDKEDAYSFNWSLKIEPEFQLPFEPNHESMANLDLHLNQRPEVLAANLRRAFSGVVAGNVKAEGIREIERHGPFEMHGDPVLMKKMDQLLNDFVAQNRMKLPGGSAYEPCYKIVT 457
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3gh1D01 D:2-114 MoCo carri  er protein-like                                                                             3gh1D02 D:122-452  [code=3.40.50.450, no name defined]                                                                                                                                                                                                                                                                                     -- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee.........hhhhhhhhh..--hhhhhhhhhhhhhhhh..........hhhhhh..eeeeeee..eeeeeee..hhh.ee..eehhhhhhhhhhhhhhhhhhhhh..-------hhhhhhhhhhhhhhhhh..........eeeee.....hhhhhhhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhhhhhh......eeeee...............eeee..hhhhhhhhhhhhh.eeee...hhhhhhhhhhhhhhhhhhhhh.....eeeeehhhhhhhhhhhhhhhhhhhhhhhhhhheeee.hhhhhhhhhhhhhhhhhhhhhhh............hhhhhh....hhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eee..hhhhhhhhhhhhhhhhhh..............eee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3gh1 D   2 SLIIQVSPAGSmDLLSQLEVERLKKT--SDLYQLYRNCSLAVLNSGSHTDNSKELLDKYKNFDITVmRRERGIKLELANPPEHAFVDGQIIKGIQEHLFSVLRDIVYVNmHLA-------TNATHITNLVFGILRNAGALIPGATPNLVVCWGGHSINEVEYQYTREVGHELGLRELNICTGCGPGAmEGPmKGAAVGHAKQRYSEYRYLGLTEPSIIAAEPPNPIVNELVImPDIEKRLEAFVRmAHGIIIFPGGPGTAEELLYILGImmHPENADQPmPIVLTGPKQSEAYFRSLDKFITDTLGEAARKHYSIAIDNPAEAARImSNAmPLVRQHRKDKEDAYSFNWSLKIEPEFQLPFEPNHESmANLDLHLNQRPEVLAANLRRAFSGVVAGNVKAEGIREIERHGPFEmHGDPVLmKKmDQLLNDFVAQNRmKLPGGSAYEPCYKIVT 454
                                    11 |      21     |  31        41        51        61      | 71        81        91       101       111  |      -|      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       451   
                                      13-MSE        27 30                                    68-MSE                                    111-MSE    122                                                                189-MSE                                      234-MSE      247-MSE                 271-MSE   281-MSE                                        328-MSE                                  369-MSE                                       415-MSE  |  |          438-MSE            
                                                                                                                                          114                                                                            193-MSE                                                                        272-MSE                                                     332-MSE                                                                                   422-MSE                            
                                                                                                                                                                                                                                                                                                                                                                                                                                                                 425-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  (0, 0)

(no "SCOP Domain" information available for 3GH1)

(-) CATH Domains  (2, 8)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3GH1)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (Q9KTK3_VIBCH | Q9KTK3)
molecular function
    GO:0016799    hydrolase activity, hydrolyzing N-glycosyl compounds    Catalysis of the hydrolysis of any N-glycosyl bond.
    GO:0003674    molecular_function    Elemental activities, such as catalysis or binding, describing the actions of a gene product at the molecular level. A given gene product may exhibit one or more molecular functions.
biological process
    GO:0008150    biological_process    Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.
    GO:0009691    cytokinin biosynthetic process    The chemical reactions and pathways resulting in the formation of cytokinins, a class of adenine-derived compounds that can function in plants as growth regulators.
cellular component
    GO:0005575    cellular_component    The part of a cell, extracellular environment or virus in which a gene product is located. A gene product may be located in one or more parts of a cell and its location may be as specific as a particular macromolecular complex, that is, a stable, persistent association of macromolecules that function together.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

 Visualization

(-) Interactive Views

Asymmetric/Biological Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    MSE  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    PO4  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
    AC3  [ RasMol ]  +environment [ RasMol ]
    AC4  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 3gh1)
 

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym./Biol. Unit PNG format | Asym./Biol. Unit - sites PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  3gh1
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  Q9KTK3_VIBCH | Q9KTK3
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/TrEMBL
 
Access by Enzyme Classificator   (EC Number)
  (no 'Enzyme Classificator' available)
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  Q9KTK3_VIBCH | Q9KTK3
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/TrEMBL
        Q9KTK3_VIBCH | Q9KTK3: 2pmb 4npa

(-) Related Entries Specified in the PDB File

2pmb CRYSTAL STRUCTURE OF PREDICTED NUCLEOTIDE-BINDING PROTEIN FROM VIBRIO CHOLERAE RELATED ID: NYSGXRC-10386B RELATED DB: TARGETDB