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(-) Description

Title :  CRYSTAL STRUCTURE OF A CAMELISED HUMAN VH
 
Authors :  T. Dottorini, C. K. Vaughan, M. A. Walsh, P. Losurdo, M. Sollazzo
Date :  02 Aug 03  (Deposition) - 22 Jan 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Immunoglobulin, Camelised Variable Heavy Domain (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Dottorini, C. K. Vaughan, M. A. Walsh, P. Losurdo, M. Sollazzo
Crystal Structure Of A Human Vh: Requirements For Maintaining A Monomeric Fragment
Biochemistry V. 43 622 2004
PubMed-ID: 14730966  |  Reference-DOI: 10.1021/BI035800B
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - IMMUNOGLOBULIN G
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: B834
    Expression System Taxid: 562
    Fragment: VARIABLE HEAVY DOMAIN
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 14)

Asymmetric Unit (3, 14)
No.NameCountTypeFull Name
1GOL5Ligand/IonGLYCEROL
2MSE4Mod. Amino AcidSELENOMETHIONINE
3SO45Ligand/IonSULFATE ION
Biological Unit 1 (3, 7)
No.NameCountTypeFull Name
1GOL4Ligand/IonGLYCEROL
2MSE2Mod. Amino AcidSELENOMETHIONINE
3SO41Ligand/IonSULFATE ION
Biological Unit 2 (3, 7)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2MSE2Mod. Amino AcidSELENOMETHIONINE
3SO44Ligand/IonSULFATE ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREPHE A:27 , THR A:28 , TYR A:32 , ARG A:101 , HOH A:2049 , HOH A:2194BINDING SITE FOR RESIDUE SO4 A1122
02AC2SOFTWAREGLY A:8 , GLU B:44 , ARG B:45 , HOH B:2078 , HOH B:2122 , HOH B:2183 , HOH B:2184 , HOH B:2185 , HOH B:2186 , HOH B:2187BINDING SITE FOR RESIDUE SO4 B1122
03AC3SOFTWAREARG A:65 , HOH A:2102 , ARG B:104 , HOH B:2188BINDING SITE FOR RESIDUE SO4 B1123
04AC4SOFTWAREPHE B:27 , THR B:28 , TYR B:32 , ARG B:101 , HOH B:2055BINDING SITE FOR RESIDUE SO4 B1124
05AC5SOFTWAREARG A:104 , ARG B:65 , HOH B:2091 , HOH B:2190BINDING SITE FOR RESIDUE SO4 B1125
06AC6SOFTWARETHR A:58 , TYR A:60 , HOH A:2127 , HOH A:2195 , THR B:58 , TYR B:60 , HOH B:2108BINDING SITE FOR RESIDUE GOL A1123
07AC7SOFTWAREGLN A:13 , SER A:120 , SER A:121 , HOH A:2018 , HOH A:2196 , PRO B:41BINDING SITE FOR RESIDUE GOL A1124
08AC8SOFTWAREARG A:19 , HOH A:2036 , HOH A:2144 , ARG B:19 , HOH B:2121BINDING SITE FOR RESIDUE GOL A1125
09AC9SOFTWAREPHE A:27 , THR A:28 , PHE A:29 , ASN A:77 , HOH A:2051BINDING SITE FOR RESIDUE GOL A1126
10BC1SOFTWAREGLU B:46 , ASP B:62 , SER B:63 , HOH B:2191 , HOH B:2192BINDING SITE FOR RESIDUE GOL B1126

(-) SS Bonds  (2, 2)

Asymmetric Unit
No.Residues
1A:22 -A:96
2B:22 -B:96

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Ile A:102 -Pro A:103
2Ile B:102 -Pro B:103

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1OL0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1OL0)

(-) Exons   (0, 0)

(no "Exon" information available for 1OL0)

(-) 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:121
                                                                                                                                                         
               SCOP domains d1ol0a_ A: Immunoglobulin heavy chain variable domain, VH                                                                 SCOP domains
               CATH domains 1ol0A00 A:1-121 Immunoglobulins                                                                                           CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee.eee.....eeeeeeee..hhhhh.eeeeee......eeeeee......eee.hhhh..eeeeee....eeeeee...hhhhheeeeeee......hhhhhee...eeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ol0 A   1 QVQLVESGGGLVQPGGSLRLSCAASGFTFSSYAmSWFRQAPGKEREIVSAVSGSGGSTYYADSVRGRFTISRDNSKNTLYLQmNSLRAEDTAVYYCAREPRIPRPPSFDYWGQGTLVTVSS 121
                                    10        20        30   |    40        50        60        70        80  |     90       100       110       120 
                                                            34-MSE                                           83-MSE                                  


Chain B from PDB  Type:PROTEIN  Length:121
                                                                                                                                                         
               SCOP domains d1ol0b_ B: Immunoglobulin heavy chain variable domain, VH                                                                 SCOP domains
               CATH domains 1ol0B00 B:1-121 Immunoglobulins                                                                                           CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee.eee.....eeeeeeee..hhhhh.eeeeee......eeeeee......eee.hhhh..eeeeee....eeeeee...hhhhheeeeeee......hhhhhee...eeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ol0 B   1 QVQLVESGGGLVQPGGSLRLSCAASGFTFSSYAmSWFRQAPGKEREIVSAVSGSGGSTYYADSVRGRFTISRDNSKNTLYLQmNSLRAEDTAVYYCAREPRIPRPPSFDYWGQGTLVTVSS 121
                                    10        20        30   |    40        50        60        70        80  |     90       100       110       120 
                                                            34-MSE                                           83-MSE
   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  (1, 2)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1OL0)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 1OL0)

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 Related Entries

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

(no "Entries Sharing at Least One Protein Chain" available for 1OL0)

(-) Related Entries Specified in the PDB File

1a8j IMMUNOGLOBULIN LAMBDA LIGHT CHAIN DIMER (MCG ) COMPLEX WITH ASPARTAME
1aj7 IMMUNOGLOBULIN 48G7 GERMLINE FAB ANTIBODY COMPLEXED WITH HAPTEN 5-(PARA-NITROPHENYL PHOSPHONATE)-PENTANOIC ACID. AFFINITY MATURATION OF AN ESTEROLYTIC ANTIBODY
1ar2 DISULFIDE-FREE IMMUNOGLOBULIN FRAGMENT
1b6d BENCE JONES PROTEIN DEL: AN ENTIRE IMMUNOGLOBULIN KAPPALIGHT-CHAIN DIMER
1bm3 IMMUNOGLOBULIN OPG2 FAB-PEPTIDE COMPLEX
1bre IMMUNOGLOBULIN LIGHT CHAIN PROTEIN 1BRE 3
1bww BENCE-JONES IMMUNOGLOBULIN REI VARIABLE PORTION, T39K MUTANT
1cmo IMMUNOGLOBULIN MOTIF DEOXYRIBONUCLEIC ACID- RECOGNITION AND HETERODIMERIZATION FOR THE PEBP2/CBF RUNT-DOMAIN
1ek3 KAPPA-4 IMMUNOGLOBULIN VL, REC
1epf CRYSTAL STRUCTURE OF THE TWO N-TERMINAL IMMUNOGLOBULIN DOMAINS OF THE NEURAL CELL ADHESION MOLECULE (NCAM)
1fig IMMUNOGLOBULIN G1 (KAPPA LIGHT CHAIN) FAB' FRAGMENT
1ie5 NMR STRUCTURE OF THE THIRD IMMUNOGLOBULIN DOMAIN FROM THENEURAL CELL ADHESION MOLECULE.
1igm IMMUNOGLOBULIN M (IG-M) FV FRAGMENT
1ikf IMMUNOGLOBULIN IGG1-KAPPA ANTIBODY FRAGMENT FAB COMPLEXED WITH CYCLOSPORIN
1ind CHA255 IMMUNOGLOBULIN FAB' FRAGMENT (IGG1- LAMBDA) COMPLEX WITH 4-[N'-(2-HYDROXYETHYL )-THIOUREIDO]-L-BENZYL- EDTA-IN(3+) (INDIUM (3+)-EOTUBE)
1ine CHA255 IMMUNOGLOBULIN FAB' FRAGMENT (IGG1- LAMBDA) COMPLEX WITH 4-[N'-(2-HYDROXYETHYL )-THIOUREIDO]-L-BENZYL- EDTA-FE(3+) (IRON( 3+)-EOTUBE)
1ivl IMMUNOGLOBULIN VL DOMAIN (VARIABLE DOMAIN OF KAPPA LIGHT CHAIN) OF DESIGNED ANTIBODY M29B
1jgl CRYSTAL STRUCTURE OF IMMUNOGLOBULIN FAB FRAGMENT COMPLEXEDWITH 17-BETA-ESTRADIOL
1jvk THREE-DIMENSIONAL STRUCTURE OF AN IMMUNOGLOBULIN LIGHTCHAIN DIMER ACTING AS A LETHAL AMYLOID PRECURSOR
1koa TWITCHIN KINASE FRAGMENT (C.ELEGANS), AUTOREGULATEDPROTEIN KINASE AND IMMUNOGLOBULIN DOMAINS
1ksr THE REPEATING SEGMENTS OF THE F-ACTIN CROSS-LINKING GELATION FACTOR (ABP-120) HAVE AN IMMUNOGLOBULIN FOLD, NMR, 20 STRUCTURES
1lve STRUCTURE OF THE VARIABLE DOMAIN OF HUMAN IMMUNOGLOBULIN K-4 LIGHT CHAIN LEN
1mcb IMMUNOGLOBULIN LAMBDA LIGHT CHAIN DIMER (MCG ) COMPLEX WITH N-ACETYL-L-GLN-D-PHE-L- HIS-D-PRO-OH
1mcc IMMUNOGLOBULIN LAMBDA LIGHT CHAIN DIMER (MCG ) COMPLEX WITH N-ACETYL-L-GLN-D-PHE-L- HIS-D-PRO-NH2
1mcd IMMUNOGLOBULIN LAMBDA LIGHT CHAIN DIMER (MCG ) COMPLEX WITH N-ACETYL-D-PHE-B-ALA-L- HIS-D-PRO-NH2
1mce IMMUNOGLOBULIN LAMBDA LIGHT CHAIN DIMER (MCG ) COMPLEX WITH N-ACETYL-L-GLN-D-PHE-L- HIS-D-PRO-B-ALA-OH
1mcf IMMUNOGLOBULIN LAMBDA LIGHT CHAIN DIMER (MCG ) COMPLEX WITH N-ACETYL-L-GLN-D-PHE-L- HIS-D-PRO-B-ALA-B-ALA-OH
1mch IMMUNOGLOBULIN LAMBDA LIGHT CHAIN DIMER (MCG ) COMPLEX WITH N-ACETYL-L-GLN-D-PHE-L- HIS-D-PRO-B-ALA-B-ALA-OH
1mci IMMUNOGLOBULIN LAMBDA LIGHT CHAIN DIMER (MCG ) COMPLEX WITH N-ACETYL-D-PHE-L-HIS-D- PRO-OH
1mcj IMMUNOGLOBULIN LAMBDA LIGHT CHAIN DIMER (MCG ) COMPLEX WITH N-ACETYL-D-PHE-L-HIS-D- PRO-NH2
1mck IMMUNOGLOBULIN LAMBDA LIGHT CHAIN DIMER (MCG ) COMPLEXED WITH N-ACETYL-D-GLU-L-HIS-D -PRO-NH2
1mcl IMMUNOGLOBULIN LAMBDA LIGHT CHAIN DIMER (MCG ) COMPLEX WITH N-ACETYL-D-HIS-L-PRO-OH
1mcn IMMUNOGLOBULIN LAMBDA LIGHT CHAIN DIMER (MCG ) COMPLEX WITH N-ACETYL-D-HIS-L-PRO-NH2
1mco IMMUNOGLOBULIN G1 (IGG1) (MCG) WITH A HINGE DELETION
1mcp IMMUNOGLOBULIN FAB FRAGMENT (MCPC603)
1mcq IMMUNOGLOBULIN LAMBDA LIGHT CHAIN DIMER (MCG ) COMPLEX WITH N-ACETYL-L-HIS-D-PRO-NH2
1mcr IMMUNOGLOBULIN LAMBDA LIGHT CHAIN DIMER (MCG ) COMPLEX WITH N-ACETYL-L-HIS-D-PRO-OH
1mcs IMMUNOGLOBULIN LAMBDA LIGHT CHAIN DIMER (MCG ) COMPLEX WITH N-ACETYL-L-GLN-D-PHE-L- HIS-D-PRO-OH
1mcw IMMUNOGLOBULIN HETEROLOGOUS LIGHT CHAIN DIMER ( MCG-WEIR HYBRID)
1rei BENCE-JONES IMMUNOGLOBULIN REI VARIABLE PORTION
1vkx CRYSTAL STRUCTURE OF THE NFKB P50/P65 HETERODIMER COMPLEXED TO THE IMMUNOGLOBULIN KB DEOXYRIBONUCLEIC ACID
1wit TWITCHIN IMMUNOGLOBULIN SUPERFAMILY DOMAIN (IGSF MODULE) (IG 18'), NMR, MINIMIZED AVERAGE STRUCTURE
1wiu TWITCHIN IMMUNOGLOBULIN SUPERFAMILY DOMAIN (IGSF MODULE) (IG 18'), NMR, 30 STRUCTURES
2dl2 KILLER IMMUNOGLOBULIN RECEPTOR 2DL2
2dli KILLER IMMUNOGLOBULIN RECEPTOR 2DL2,TRIGONAL FORM
2fb4 IMMUNOGLOBULIN FAB
2ig2 IMMUNOGLOBULIN G1
2imm IMMUNOGLOBULIN VL DOMAIN (VARIABLE DOMAIN OF KAPPA LIGHT CHAIN) OF MCPC603
2imn IMMUNOGLOBULIN VL DOMAIN (VARIABLE DOMAIN OF KAPPA LIGHT CHAIN) OF MCPC603 MUTANT IN WHICH COMPLEMENTARITY-DETERMINING REGION I HAS BEEN REPLACED BY THAT FROM MOPC167
2loi IMMUNOGLOBULIN LAMBDA LIGHT CHAIN DIMER LOI FROM A HUMAN PATIENT
2mcg IMMUNOGLOBULIN LAMBDA LIGHT CHAIN DIMER (MCG ) (TRIGONAL FORM)
2mcp IMMUNOGLOBULIN MCPC603 FAB-PHOSPHOCHOLINE COMPLEX
2rcs IMMUNOGLOBULIN 48G7 GERMLINE FAB - AFFINITY MATURATION OF AN ESTEROLYTIC ANTIBODY
3mcg IMMUNOGLOBULIN LAMBDA LIGHT CHAIN DIMER (MCG ) (ORTHORHOMBIC FORM)
5lve STRUCTURE OF THE VARIABLE DOMAIN OF HUMAN IMMUNOGLOBULIN K- 4 LIGHT CHAIN LEN
7fab IMMUNOGLOBULIN FAB' NEW (LAMBDA LIGHT CHAIN)
8fab FAB FRAGMENT FROM HUMAN IMMUNOGLOBULIN IGG1 ( LAMBDA, HIL)