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(-) Description

Title :  CRYSTAL STRUCTURE OF THE FIMD USHER TRAVERSED BY THE PILUS TIP COMPLEX ASSEMBLY COMPOSED OF FIMC:FIMF:FIMG:FIMH
 
Authors :  S. Geibel, G. Waksman
Date :  06 Feb 13  (Deposition) - 10 Apr 13  (Release) - 24 Apr 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.80
Chains :  Asym./Biol. Unit :  C,D,F,G,H
Keywords :  Beta Barrel, Immunglobuline-Like Fold, Type 1 Pilus Assembly, Pilus Subunit Translocation, Adhesion, D-Mannose-Binding, Bacterial Outer Membrane, Cell Adhesion-Chaperone-Membrane Protein Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Geibel, E. Procko, S. J. Hultgren, D. Baker, G. Waksman
Structural And Energetic Basis Of Folded-Protein Transport By The Fimd Usher.
Nature V. 496 243 2013
PubMed-ID: 23579681  |  Reference-DOI: 10.1038/NATURE12007

(-) Compounds

Molecule 1 - PROTEIN FIMG
    Chains: G
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 24-167
    Gene: FIMG, B4319, JW4282
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K12
 
Molecule 2 - PROTEIN FIMH
    Chains: H
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 22-300
    Gene: FIMH, B4320, JW4283
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K12
 
Molecule 3 - CHAPERONE PROTEIN FIMC
    Chains: C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 37-241
    Gene: FIMC, B4316, JW4279
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K12
 
Molecule 4 - PROTEIN FIMF
    Chains: F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 21-176
    Gene: FIMF, B4318, JW4281
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K12
 
Molecule 5 - OUTER MEMBRANE USHER PROTEIN FIMD
    Chains: D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 46-878
    Gene: FIMD, B4317, JW5780
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K12

 Structural Features

(-) Chains, Units

  12345
Asymmetric/Biological Unit : CDFGH

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 4J3O)

(-) Sites  (0, 0)

(no "Site" information available for 4J3O)

(-) SS Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1D:63 -D:90
2D:810 -D:832
3F:16 -F:56
4G:16 -G:54
5H:3 -H:44
6H:161 -H:187

(-) Cis Peptide Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1Phe H:84 -Pro H:85
2Tyr H:175 -Pro H:176
3Thr C:51 -Pro C:52
4Lys F:35 -Gln F:36
5Ser F:54 -Pro F:55
6Val F:136 -Pro F:137

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4J3O)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4J3O)

(-) Exons   (0, 0)

(no "Exon" information available for 4J3O)

(-) 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 C from PDB  Type:PROTEIN  Length:199
                                                                                                                                                                                                                                       
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee...eeeee....ee..eeee......eeeeeeee.........eeee..eeee....eee.eeee...........eeeeeeeeeee....eee..eeeeeeeeee......hhhhh....eeeee..eeeeee.....eeeeeeee.......eee...eeeeee........eeeeee.........ee.ee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4j3o C   1 GVALGATRVIYPAGQKQEQLAVTNNDENSTYLIQSWVENADGVKDGRFIVTPPLFAMKGKKENTLRILDATNNQLPQDRESLFWMNVKAIPSMENTLQLAIISRIKLYYRPAKLALPPDQAAEKLRFRRSANSLTLINPTPYYLTVTELNAGTRVLENALVPPMGESTVKLPSDAGSNITYRTINDYGALTPKMTGVME 205
                                    10        20        30        40        50        60        70        80        90  ||   106       116       126       136       146       156       166       176       186       196         
                                                                                                                       93|                                                                                                         
                                                                                                                       100                                                                                                         


Chain D from PDB  Type:PROTEIN  Length:778
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeee....eeeeeeeeeee......eeee.hhhhhh.....................hhhhhh...eeeee....eeeee.hhhhh........hhhhh.....eeeeeeee..eeeee....eee.eeeeeeeeeee..eeeeeeeeeee....eeeeeeeeeeee....eeeeeeeee.........eeeeeeeee...............eeeee...eeeeeee..eeeeeeee..eeeee.....hhhhh.eeeeee.....eeeeee.............eeeeeeeeee..........eeeeeeeeee....eeee..eeee...eeeee..eee.....eeeeeeeeeeeee...eeeeeeeeeeeee.......eeeeeeeeeee.....hhhhhh...........eeeeeeeeeeee....eeeeeeeeeeee.....eeeeeeeeeeeee..eeeeeeeeeee.......eeeeeeeeeee.hhhh.....hhhh.eeeeeeeee.....eeeeeeeeee.......eeeeeeeeee......ee.eeeeeeee....eeeeeeeee..eeeee..eeeeeee....eeee......eeeee........ee...........eeee........eeeee.hhhh...eee...eeee......eeeee..eee.eeeeeee...........eeee.....eee.hhh.eeeeeee..eeeeeee......eeeee..........eeeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4j3o D  26 QELPPGTYRVDIYLNNGYMATRDVTFNTGDSEQGIVPCLTRAQLASMGLNTASVAGMNLLADDACVPLTTMVQDATAHLDVGQQRLNLTIPQAFMSNRARGYIPPELWDPGINAGLLNYNFSGNSVQNRIGGNSHYAYLNLQSGLNIGAWRLRDNTTWSYNSNKWQHINTWLERDIIPLRSRLTLGDGYTQGDIFDGINFRGAQLASDDNMLPDSQRGFAPVIHGIARGTAQVTIKQNGYDIYNSTVPPGPFTINDIYAAGNSGDLQVTIKEADGSTQIFTVPYSSVPLLQREGHTRYSITAGEYRSGNAQQEKPRFFQSTLLHGLPAGWTIYGGTQLADRYRAFNFGIGKNMGALGALSVDMTQANSTLPDDSQHDGQSVRFLYNKSLNESGTNIQLVGYRYSTSGYFNFADTTYSRMNYNLAYNKRGKLQLTVTQQLGRTSTLYLSGSHQTYWGTSNVDEQFQAGLNTAFEDINWTLSYSLTKNAWQKGRDQMLALNVNIPFSHWLRSDSKSQWRHASASYSMSHDLNGRMTNLAGVYGTLLEDNNLSYSVQTGYAGGGDGNSGSTGYATLNYRGGYGNANIGYSHSDDIKQLYYGVSGGVLAHANGVTLGQPLNDTVVLVKAPGAKDAKVENQTGVRTDWRGYAVLPYATEYRENRVALDTNTLADNVDLDNAVANVVPTRGAIVRAEFKARVGIKLLMTLTHNNKPLPFGAMVTSESSQSSGIVADNGQVYLSGMPLAGKVQVKWGEAHCVANYQLPPESQQQLLTQLSAECRS 834
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185 ||    203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453|      483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633       643       653       663       673       683       693       703       713       723       733       743       753       763       773       783       793       803||     816       826        
                                                                                                                                                                                           187|                                                                                                                                                                                                                                                              453|                                                                                                                                                                                                                                                                                                                                       804|                          
                                                                                                                                                                                            196                                                                                                                                                                                                                                                               474                                                                                                                                                                                                                                                                                                                                        808                          


Chain F from PDB  Type:PROTEIN  Length:154
                                                                                                                                                                                          
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeee...eeee...ee.....hhhhhh.............eeeeeeee.....eeeeeeee.........ee..........eeeeee.................eee......eeeeeeeeeee...........eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4j3o F   1 ADSTITIRGYVRDNGCSVAAESTNFTVDLMENAAKQFNNIGATTPVVPFRILLSPCGNAVSAVKVGFTGVADSHNANLLALENTVSAASGLGIQLLNEQQNQIPLNAPSSALSWTTLTPGKPNTLNFYARLMATQVPVTAGHINATATFTLEYQ 154
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150    


Chain G from PDB  Type:PROTEIN  Length:144
                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeeeeee.....ee.....eeeeeeee.............eeeeeeee.......eeeeeee..................eeeeee..........eeeee.......eeeeeeeeee........eeeeeeeeeeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4j3o G   1 ADVTITVNGKVVAKPCTVSTTNATVDLGDLYSFSLMSAGAASAWHDVALELTNCPVGTSRVTASFSGAADSTGYYKNQGTAQNIQLELQDDSGNTLNTGATKTVQVDDSSQSAHFPLQVRALTVNGGATQGTIQAVISITYTYS 144
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140    


Chain H from PDB  Type:PROTEIN  Length:279
                                                                                                                                                                                                                                                                                                                       
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee............eeeee..........eeeee....eeee........eeeee....ee.hhhh...eeeee..eeeee........eee.....ee...eeee.......eeee....eeeeeeeeeee......eeeeeeeee...eeee...eee.....eee......eee...eeee......eeeee......................eeeeeee..ee.....eee........ee..eeeeeee.......eeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4j3o H   1 FACKTANGTAIPIGGGSANVYVNLAPVVNVGQNLVVDLSTQIFCHNDYPETITDYVTLQRGSAYGGVLSNFSGTVKYSGSSYPFPTTSETPRVVYNSRTDKPWPVALYLTPVSSAGGVAIKAGSLIAVLILRQTNNYNSDDFQFVWNIYANNDVVVPTGGCDVSARDVTVTLPDYPGSVPIPLTVYCAKSQNLGYYLSGTTADAGNSIFTNTASFSPAQGVGVQLTRNGTIIPANNTVSLGAVGTSAVSLGLTANYARTGGQVTAGNVQSIIGVTFVYQ 279
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270
   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 4J3O)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4J3O)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4J3O)

(-) Gene Ontology  (18, 23)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Lys F:35 - Gln F:36   [ RasMol ]  
    Phe H:84 - Pro H:85   [ RasMol ]  
    Ser F:54 - Pro F:55   [ RasMol ]  
    Thr C:51 - Pro C:52   [ RasMol ]  
    Tyr H:175 - Pro H:176   [ RasMol ]  
    Val F:136 - Pro F:137   [ RasMol ]  
 

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  4j3o
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 Related Entries

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

UniProtKB/Swiss-Prot
        FIMC_ECOLI | P31697: 1bf8 1kiu 1klf 1qun 1ze3 3bwu 3jwn 3rfz 3sqb 4dwh
        FIMD_ECOLI | P30130: 1zdv 1zdx 1ze3 3bwu 3ohn 3rfz
        FIMF_ECOLI | P08189: 2jmr 3bfq 3bfw 3bwu 3jwn 4xob 5iqm 5iqn 5iqo
        FIMG_ECOLI | P08190: 3bfq 3bfw 3jwn 4xo9 4xoa 4xod 5iqm 5iqn 5iqo
        FIMH_ECOLI | P08191: 1kiu 1klf 1qun 1tr7 1uwf 1ze3 2vco 3rfz 3zl1 3zl2 4att 4auj 4auu 4auy 4av0 4av4 4av5 4avh 4avi 4avj 4avk 4css 4cst 4lov 4x50 4x5p 4x5q 4x5r 4xo8 4xo9 4xoa 4xob 4xod 5ab1 5abz 5cgb 5f2f 5f3f 5fx3 5jcq 5jcr 5l4t 5l4u 5l4v 5l4w 5l4x 5l4y 5mts

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4J3O)