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(-) Description

Title :  CRYSTAL STRUCTURE OF ARG R 1 IN COMPLEX WITH HISTAMINE
 
Authors :  G. C. Paesen, C. Siebold, N. Syme, K. Harlos, S. C. Graham, C. Hilger, S. W F. Hentges, D. I. Stuart
Date :  28 Jan 10  (Deposition) - 09 Feb 11  (Release) - 09 Feb 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.40
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Keywords :  Allergen (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. C. Paesen, C. Siebold, N. Syme, K. Harlos, S. C. Graham, C. Hilger, S. W. Homans, F. Hentges, D. I. Stuart
Crystal Structure Of The Allergen Arg R 1, A Histamine-Binding Lipocalin From A Soft Tick
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - ALLERGEN ARG R 1
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: ORIGAMI(DE3)PLYSS
    Expression System Taxid: 562
    Expression System Vector: PET-23A
    Expression System Vector Type: PLASMID
    Organ: SALIVARY GLAND
    Organism Common: EUROPEAN PIGEON TICK
    Organism Scientific: ARGAS REFLEXUS
    Organism Taxid: 34604

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): A  
Biological Unit 2 (1x):  B 
Biological Unit 3 (1x):   C

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 9)

Asymmetric Unit (1, 9)
No.NameCountTypeFull Name
1HSM9Ligand/IonHISTAMINE
Biological Unit 1 (1, 3)
No.NameCountTypeFull Name
1HSM3Ligand/IonHISTAMINE
Biological Unit 2 (1, 3)
No.NameCountTypeFull Name
1HSM3Ligand/IonHISTAMINE
Biological Unit 3 (1, 3)
No.NameCountTypeFull Name
1HSM3Ligand/IonHISTAMINE

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:28 , TYR A:37 , TYR A:67 , ASP A:110 , TRP A:121 , HOH A:2237BINDING SITE FOR RESIDUE HSM A1160
2AC2SOFTWAREVAL A:53 , ILE A:92 , ASP A:97 , THR A:98 , SER A:99 , HSM A:1162 , HOH A:2210 , HOH A:2306BINDING SITE FOR RESIDUE HSM A1161
3AC3SOFTWARESER B:28 , TYR B:37 , TYR B:67 , ASP B:110 , TRP B:121 , HOH B:2161 , HOH B:2235BINDING SITE FOR RESIDUE HSM B1160
4AC4SOFTWAREVAL B:53 , TYR B:69 , ILE B:92 , VAL B:94 , ASP B:97 , THR B:98 , SER B:99 , HSM B:1162 , HOH B:2114 , HOH B:2208BINDING SITE FOR RESIDUE HSM B1161
5AC5SOFTWARESER C:28 , TYR C:37 , TYR C:67 , ASP C:110 , TRP C:121 , HOH C:2033 , HOH C:2230BINDING SITE FOR RESIDUE HSM C1160
6AC6SOFTWAREVAL C:53 , ILE C:92 , VAL C:94 , ASP C:97 , SER C:99 , HSM C:1162 , HOH C:2111 , HOH C:2205BINDING SITE FOR RESIDUE HSM C1161
7AC7SOFTWAREHIS A:114 , GLU A:119 , HSM A:1161 , HOH A:2090 , HOH A:2307 , HOH A:2308 , HOH A:2309BINDING SITE FOR RESIDUE HSM A1162
8AC8SOFTWAREGLU B:47 , HIS B:114 , GLU B:119 , HSM B:1161 , HOH B:2104 , HOH B:2301BINDING SITE FOR RESIDUE HSM B1162
9AC9SOFTWAREHIS C:114 , GLU C:119 , HSM C:1161 , HOH C:2296 , HOH C:2297BINDING SITE FOR RESIDUE HSM C1162

(-) SS Bonds  (9, 9)

Asymmetric Unit
No.Residues
1A:19 -A:134
2A:50 -A:155
3A:109 -A:135
4B:19 -B:134
5B:50 -B:155
6B:109 -B:135
7C:19 -C:134
8C:50 -C:155
9C:109 -C:135

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Met C:16 -Asp C:17

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2X45)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2X45)

(-) Exons   (0, 0)

(no "Exon" information available for 2X45)

(-) 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:144
 aligned with ARGR1_ARGRF | Q5GQ85 from UniProtKB/Swiss-Prot  Length:159

    Alignment length:144
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155    
          ARGR1_ARGRF    16 ADDCSGKTDAWTSIKGPKTGGYWLKQTTKTGENECTYVKGTDFKENTKTATYTYGYKDASGKLTKTTGTATAKGSDIVVGSDTSTVIYTDGKTCDVVKHGGHTELWVHSSKTSGGYNNCCDKKFTETRGSTPANEVYKKCPGMP 159
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhh...hhhhhhhh.....eeeeee.........eeeeeeee....eeeeeee..........eeeeeeee..eeee..eeeeeeee....eeeeee..eeeeeee.hhh....hhhhhhhhhhhhh............... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2x45 A  16 MDDCSGKTDAWTSIKGPKTGGYWLKQTTKTGENECTYVKGTDFKENTKTATYTYGYKDASGKLTKTTGTATAKGSDIVVGSDTSTVIYTDGKTCDVVKHGGHTELWVHSSKTSGGYNNCCDKKFTETRGSTPANEVYKKCPGMP 159
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155    


Chain B from PDB  Type:PROTEIN  Length:144
 aligned with ARGR1_ARGRF | Q5GQ85 from UniProtKB/Swiss-Prot  Length:159

    Alignment length:144
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155    
          ARGR1_ARGRF    16 ADDCSGKTDAWTSIKGPKTGGYWLKQTTKTGENECTYVKGTDFKENTKTATYTYGYKDASGKLTKTTGTATAKGSDIVVGSDTSTVIYTDGKTCDVVKHGGHTELWVHSSKTSGGYNNCCDKKFTETRGSTPANEVYKKCPGMP 159
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhh...hhhhhhhh.....eeeeee.........eeeeeeee....eeeeeee..........eeeeeeee..eeee..eeeeeeee....eeeeee..eeeeeee.hhh....hhhhhhhhhhhhh............... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2x45 B  16 MDDCSGKTDAWTSIKGPKTGGYWLKQTTKTGENECTYVKGTDFKENTKTATYTYGYKDASGKLTKTTGTATAKGSDIVVGSDTSTVIYTDGKTCDVVKHGGHTELWVHSSKTSGGYNNCCDKKFTETRGSTPANEVYKKCPGMP 159
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155    


Chain C from PDB  Type:PROTEIN  Length:144
 aligned with ARGR1_ARGRF | Q5GQ85 from UniProtKB/Swiss-Prot  Length:159

    Alignment length:144
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155    
          ARGR1_ARGRF    16 ADDCSGKTDAWTSIKGPKTGGYWLKQTTKTGENECTYVKGTDFKENTKTATYTYGYKDASGKLTKTTGTATAKGSDIVVGSDTSTVIYTDGKTCDVVKHGGHTELWVHSSKTSGGYNNCCDKKFTETRGSTPANEVYKKCPGMP 159
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) ----His_binding-2x45C01 C:20-142                                                                                               ----------------- Pfam domains (1)
           Pfam domains (2) ----His_binding-2x45C02 C:20-142                                                                                               ----------------- Pfam domains (2)
           Pfam domains (3) ----His_binding-2x45C03 C:20-142                                                                                               ----------------- Pfam domains (3)
         Sec.struct. author ........hhhhhhhh.....eeeeee.........eeeeeeee....eeeeeee..........eeeeeeee..eeee..eeeeeeee....eeeeee..eeeeeee.hhh....hhhhhhhhhhhhh....ee......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2x45 C  16 MDDCSGKTDAWTSIKGPKTGGYWLKQTTKTGENECTYVKGTDFKENTKTATYTYGYKDASGKLTKTTGTATAKGSDIVVGSDTSTVIYTDGKTCDVVKHGGHTELWVHSSKTSGGYNNCCDKKFTETRGSTPANEVYKKCPGMP 159
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155
   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 2X45)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2X45)

(-) Pfam Domains  (1, 3)

Asymmetric Unit
(-)
Clan: Calycin (163)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C   (ARGR1_ARGRF | Q5GQ85)
molecular function
    GO:0043176    amine binding    Interacting selectively and non-covalently with any organic compound that is weakly basic in character and contains an amino or a substituted amino group.
biological process
    GO:0030682    evasion or tolerance of host defense response    Any process, either active or passive, by which an organism avoids or tolerates the effects of its host organism's defense response. The host defense response is mounted by the host in response to the presence of the organism. The host is defined as the larger of the organisms involved in a symbiotic interaction.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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        ARGR1_ARGRF | Q5GQ85: 2x46

(-) Related Entries Specified in the PDB File

2x46 CRYSTAL STRUCTURE OF SEMET ARG R 1