|
|
(36 intermediate revisions by 3 users not shown) |
Line 1: |
Line 1: |
| [[Image:Opening 1igt.png|450px|left|thumb| Intact Immunoglobulin, [[1igt]]]]
| | <StructureSection load='1hzh' size='350' side='right' scene='' caption='Glycosylated human Igg with heavy chains (red and light red), light chains (aqua and green) (PDB code [[1hzh]])'> |
| {{STRUCTURE_1hzh| right| PDB=1hzh | SCENE=Antibody/1hzh_starting_scene/3 |CAPTION= Crystal Structure of the Intact Human IGG B12: A Template for a Potential HIV Vaccine, [[1hzh]] }}
| |
| '''Antibodies''', also known as '''Immunoglobulins''' (Ig) are gamma globulin proteins, primarily found in the blood of vertebrates. These [[glycoproteins]] serve as a critical component of the immune system when the host fails to activate alternative compliment pathways or phagocytic cells in response to invading microorganisms or other [http://en.wikipedia.org/wiki/Antigen antigens]. The incredible specificity with which immunoglobulins bind to an antigen is based upon structural complementarity between the antigen and antibody <scene name='Antibody/1hzh_heavy_chains/1'>heavy </scene>and <scene name='Antibody/1hzh_light_chains/1'>light chains </scene>. It is this specificity that has made <scene name='Antibody/1hzh_starting_scene/3'>antibodies</scene> a critical component in laboratory and medical research. See more in [[IgA]], [[Monoclonal Antibody]]. For Anti-HIV Fab see [[Human Fab PG16]]. | |
| | |
| {{TOC limit|limit=2}}
| |
| | |
| [[Image:230px-B cell activation2.png|270px|left|thumb| Production of Antibodies by Plasma Cells]]
| |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
| | |
|
| |
|
| | '''Antibodies''', also known as '''Immunoglobulins''' (Ig) are gamma globulin proteins, primarily found in the blood of vertebrates. These [[glycoproteins]] serve as a critical component of the immune system when the host fails to activate alternative compliment pathways or phagocytic cells in response to invading microorganisms or other [http://en.wikipedia.org/wiki/Antigen antigens]. The incredible specificity with which immunoglobulins bind to an antigen is based upon structural complementarity between the antigen and antibody <scene name='Antibody/1hzh_heavy_chains/1'>heavy </scene>and <scene name='Antibody/1hzh_light_chains/1'>light chains </scene>. It is this specificity that has made <scene name='Antibody/1hzh_starting_scene/3'>antibodies</scene> a critical component in laboratory and medical research. <br /> |
| | *'''Humanized mouse antibody (hmFab)''' is a modified mFab which resembles more hFab.<br /> |
| | *'''Broadly neutralizing Fab''' and '''Neutralizing Fab''' are anti-virus Fab. <br /> |
| | *'''Intrabody''' is intracellular antibody. <br /> |
| | *'''Sybody''' is synthetic nanobody (syVHH).<br /> |
| | *'''Diabody''' is a recombinant bispecific antibody constructed from heterogenous single chain antibody. <br /> |
| | *'''Lama antibodies''' or '''nanobodies''' or '''camelid''' or '''VHH''' are natural single-domain antibodies containing just the heavy chain.<br /> |
| | *'''scFv''' is a '''single chain variable fragment''' in a fusion protein of the variable regions of the heavy and light chains of immunoglobulin. <br /> |
| | *'''VH domain''' is the variable domain of the antibody heavy chain.<br /> |
| | *'''Bispecific antibody''' or '''biparatopic antibody''' can bind to two epitopes of an antigen simultaneously.<br /> |
| | *'''Polyclonal antibodies''' are a mixture of antibodies that bind to several epitopes of an antigen simultaneously.<br /> |
| | *'''Ultralong antibody''' is found in bovine. It has unusually long CDR H3 regions and has more effective defence against disease than typical antibodis <br /> |
|
| |
|
| | See more in<br /> |
| | [[IgA]]<br /> |
| | [[IgG Branco]]<br /> |
| | [[Monoclonal Antibody]].<br /> |
| | For Anti-HIV-1 antibodies see [[Human Fab PG16]] and [[VRC01 gp120 complex|VRC01 and VRC01-like antibodies are important in neutralizing HIV-1]]<br /> |
| | For Anti-VEGF Fab see [[Bevacizumab]] (Avastin)<br /> |
| | For Anti-factor IX Fab see [[Conformation-specific anti-Factor IX antibodies]]<br /> |
| | For blue luminescent Fab see [[Blue Luminescent Antibody Derived from House Mouse]]<br /> |
| | For Anti-vitamin Fab see [[MR1 Binds Vitamin Metabolites]]<br />. |
|
| |
|
|
| |
|
| | [[Image:230px-B cell activation2.png|270px|left|thumb| Production of Antibodies by Plasma Cells]] |
| | {{Clear}} |
| | __TOC__ |
| ==Cellular Basis of Antibody Production== | | ==Cellular Basis of Antibody Production== |
| When a foreign antigen binds to a B-lymphocyte ([http://en.wikipedia.org/wiki/B_cell B-cell]), it activates the B-cell, and upon stimulation by [http://en.wikipedia.org/wiki/Helper_t_cell helper T-cells], undergoes clonal proliferation and B-cell maturation into antibody forming [http://en.wikipedia.org/wiki/Plasma_cells plasma cells]. Each plasma cell is programmed to make an antibody of a single specificity, which it releases into the blood. <ref name="Roit"> Roit, I. M. Roit's Essential Immunology. Oxford: Blackwell Science Ltd., 1997.</ref> Once in the blood, antibodies aid [http://en.wikipedia.org/wiki/Humoral_immune_system the humoral immune system] in three predominant ways: They coat foreign pathogens preventing them from entering healthy cells or disrupting antigen function; they coat pathogens, stimulating their removal via [http://en.wikipedia.org/wiki/Opsonization opsonization] by [http://en.wikipedia.org/wiki/Phagocytes phagocytes]; and they trigger destruction of pathogens by stimulating the [http://en.wikipedia.org/wiki/Complement_system complement pathway] or by [http://en.wikipedia.org/wiki/Antibody-dependent_cellular_cytotoxicity Antibody Dependent Cell-mediated Cytotoxicity], among other immune responses. <ref>PMID:8476565</ref> <ref>PMID:16234578</ref> All of these functions rely heavily on accurate antigen binding and communication with other immune effector cells. The amazing specificity antibodies operate with is made possible by the physical structure of the antibody, which appears simplistic, but contains several levels of additional complexity. | | When a foreign antigen binds to a B-lymphocyte ([http://en.wikipedia.org/wiki/B_cell B-cell]), it activates the B-cell, and upon stimulation by [http://en.wikipedia.org/wiki/Helper_t_cell helper T-cells], undergoes clonal proliferation and B-cell maturation into antibody forming [http://en.wikipedia.org/wiki/Plasma_cells plasma cells]. Each plasma cell is programmed to make an antibody of a single specificity, which it releases into the blood. <ref name="Roit"> Roit, I. M. Roit's Essential Immunology. Oxford: Blackwell Science Ltd., 1997.</ref> Once in the blood, antibodies aid [http://en.wikipedia.org/wiki/Humoral_immune_system the humoral immune system] in three predominant ways: They coat foreign pathogens preventing them from entering healthy cells or disrupting antigen function; they coat pathogens, stimulating their removal via [http://en.wikipedia.org/wiki/Opsonization opsonization] by [http://en.wikipedia.org/wiki/Phagocytes phagocytes]; and they trigger destruction of pathogens by stimulating the [http://en.wikipedia.org/wiki/Complement_system complement pathway] or by [http://en.wikipedia.org/wiki/Antibody-dependent_cellular_cytotoxicity Antibody Dependent Cell-mediated Cytotoxicity], among other immune responses. <ref>PMID:8476565</ref> <ref>PMID:16234578</ref> All of these functions rely heavily on accurate antigen binding and communication with other immune effector cells. The amazing specificity antibodies operate with is made possible by the physical structure of the antibody, which appears simplistic, but contains several levels of additional complexity. |
|
| |
|
| ==Structure of the Immunoglobulin== | | ==Structure of the Immunoglobulin== |
| {{STRUCTURE_1igt| right| |size=400| PDB=1igt | Size=400px| SCENE=Antibody/1igt_starting_scene/3 |CAPTION= Refined Structure of an Intact IgG2a Monoclonal Antibody, [[1igt]] }}
| | <scene name='Antibody/1igt_starting_scene/3'>Refined Structure of an Intact IgG2a Monoclonal Antibody</scene> ([[1igt]]). |
| | |
| The basic functional unit of an antibody is an immunoglobulin monomer, but antibodies secreted from plasma cells are typically dimeric with occasional higher order structures. Typical secreted antibodies have a basic four-peptide structure of two identical <scene name='Antibody/1igt_heavy_chains/1'>heavy chains </scene>and two identical <scene name='Antibody/1igt_light_chains/1'>light chains</scene> joined together by interchain <scene name='Antibody/1igt_disulfide_bonds/2'>disulfide bonds</scene>, forming a “Y” shaped molecule. The disulfide bonds are positioned within a flexible region called the <scene name='Antibody/1igt_hinge_region/1'>hinge region</scene>, which seperates the lobes of the antibody from one another and provides ample flexibility to bind antigens effectively. <ref name="Roit" /> Each domain (2 heavy and 2 light) contain between 70-110 amino acids and are classified into different categories according to size and function. <ref>PMID:10545762</ref> Both domains, heavy and light, contain variable and constant regions that are crucial to antibody function. <ref>PMID:107164</ref> | | The basic functional unit of an antibody is an immunoglobulin monomer, but antibodies secreted from plasma cells are typically dimeric with occasional higher order structures. Typical secreted antibodies have a basic four-peptide structure of two identical <scene name='Antibody/1igt_heavy_chains/1'>heavy chains </scene>and two identical <scene name='Antibody/1igt_light_chains/1'>light chains</scene> joined together by interchain <scene name='Antibody/1igt_disulfide_bonds/2'>disulfide bonds</scene>, forming a “Y” shaped molecule. The disulfide bonds are positioned within a flexible region called the <scene name='Antibody/1igt_hinge_region/1'>hinge region</scene>, which seperates the lobes of the antibody from one another and provides ample flexibility to bind antigens effectively. <ref name="Roit" /> Each domain (2 heavy and 2 light) contain between 70-110 amino acids and are classified into different categories according to size and function. <ref>PMID:10545762</ref> Both domains, heavy and light, contain variable and constant regions that are crucial to antibody function. <ref>PMID:107164</ref> |
|
| |
|
Line 91: |
Line 80: |
|
| |
|
| [[Image:VDJ recombination.png|400px|left|thumb| Image of V(D)J Recombination]] | | [[Image:VDJ recombination.png|400px|left|thumb| Image of V(D)J Recombination]] |
| <applet load="Object_Monomer.pdb" size="300" color="white" frame="true" spin="on" Scene ="Antibody/Rituxan_starting_scene/1" caption="Crystal structure of Rituximab Fab in complex with an epitope peptide, [[2osl]]" align="right"/> | | {{Clear}} |
| | <scene name='Antibody/Rituxan_starting_scene/1'>Crystal structure of Rituximab Fab in complex with an epitope peptide</scene> ([[2osl]]). |
|
| |
|
| === Antibody Diversity ===
| | == Antibody Diversity == |
| Considering the nearly infinite number of possible antigens that can invade the body, the immune system had to develop a method for accurately targeting each one of these compounds, ranging from small molecules, to stray proteins, to viruses capable of infecting cells. The antibody was the immune systems response to this problem. It has been estimated that humans generate about 10^10 different antigens, each capable of binding a unique epitope of an antigen. Since antibodies are proteins, and proteins are controlled by the genes from which they are transcribed, a clever system of gene shuffling and manipulations developed to enable the immune system to create a huge repertoire of antibodies from a limited number of genes. <ref>PMID:8612345</ref> The variable region of each immunoglobulin chain is encoded in several pieces known as gene segments. For heavy chains, these segments are called the variable (V), diversity (D), and joining (J) segments. (Only V and J exist for light chains) 50 V segments, 25 D segments, and 6 J segments exist and are randomly arranged and rearranged in the genome in a process called [http://en.wikipedia.org/wiki/VDJ_recombination V(D)J recombination]. Each B-cell is programmed to produce antibodies of a single V(D)J recombination order. | | Considering the nearly infinite number of possible antigens that can invade the body, the immune system had to develop a method for accurately targeting each one of these compounds, ranging from small molecules, to stray proteins, to viruses capable of infecting cells. The antibody was the immune systems response to this problem. It has been estimated that humans generate about 10^10 different antigens, each capable of binding a unique epitope of an antigen. Since antibodies are proteins, and proteins are controlled by the genes from which they are transcribed, a clever system of gene shuffling and manipulations developed to enable the immune system to create a huge repertoire of antibodies from a limited number of genes. <ref>PMID:8612345</ref> The variable region of each immunoglobulin chain is encoded in several pieces known as gene segments. For heavy chains, these segments are called the variable (V), diversity (D), and joining (J) segments. (Only V and J exist for light chains) 50 V segments, 25 D segments, and 6 J segments exist and are randomly arranged and rearranged in the genome in a process called [http://en.wikipedia.org/wiki/VDJ_recombination V(D)J recombination]. Each B-cell is programmed to produce antibodies of a single V(D)J recombination order. |
|
| |
|
Line 99: |
Line 89: |
|
| |
|
| [[Image:FluorescentCells.jpg|300px|right|thumb| Direct Immuno fluorescence Antibody labeling]] | | [[Image:FluorescentCells.jpg|300px|right|thumb| Direct Immuno fluorescence Antibody labeling]] |
| | {{Clear}} |
| ==Antibody Applications== | | ==Antibody Applications== |
| Detection of particular antibodies is very common in medical diagnostic testing. Numerous biochemical assays exist to detect whether antibodies for specific antigens are present in the blood or other bodily fluids such as antibodies against [http://en.wikipedia.org/wiki/Lyme_disease Lyme disease] or [http://en.wikipedia.org/wiki/HIV HIV], etc. Another common medical test involving antibodies is blood type detection in which an individual’s blood is screened against anti-A and anti-B antibodies to determine the identity of that individual’s [http://en.wikipedia.org/wiki/Blood_type blood antigen type]. <ref>PMID:13477267</ref> | | Detection of particular antibodies is very common in medical diagnostic testing. Numerous biochemical assays exist to detect whether antibodies for specific antigens are present in the blood or other bodily fluids such as antibodies against [http://en.wikipedia.org/wiki/Lyme_disease Lyme disease] or [http://en.wikipedia.org/wiki/HIV HIV], etc. Another common medical test involving antibodies is blood type detection in which an individual’s blood is screened against anti-A and anti-B antibodies to determine the identity of that individual’s [http://en.wikipedia.org/wiki/Blood_type blood antigen type]. <ref>PMID:13477267</ref> |
Line 106: |
Line 97: |
| The last two decades have seen a dramatic increase in antibody based technologies both for the lab and medicine thanks to the invention of the monoclonal antiboy, a discovery that won Niels K. Jerne, Georges J.F. Köhler, César Milstein the [http://nobelprize.org/nobel_prizes/medicine/laureates/1984/press.html Nobel Prize in Medicine in 1984]. See: [[Monoclonal Antibody]] for additional information. | | The last two decades have seen a dramatic increase in antibody based technologies both for the lab and medicine thanks to the invention of the monoclonal antiboy, a discovery that won Niels K. Jerne, Georges J.F. Köhler, César Milstein the [http://nobelprize.org/nobel_prizes/medicine/laureates/1984/press.html Nobel Prize in Medicine in 1984]. See: [[Monoclonal Antibody]] for additional information. |
|
| |
|
| == 3D Structures of the Immunoglobulin == | | ==3D structures of antibody== |
| | | [[3D structures of antibody]] |
| Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
| | </StructureSection> |
| | | __NOTOC__ |
| Humanized mouse antibody (hmFab) is a modified mFab which resembles more hFab.
| |
| | |
| ===Fab===
| |
| | |
| [[7fab]] - hFab - human<br /> | |
| [[3o2v]] – hFab 1e9 (mutant) <br />
| |
| [[3na9]] – hFab 15<br />
| |
| [[3naa]], [[3nab]], [[3nac]], [[3ncj]] - hFab 15 (mutant)<br />
| |
| [[3qct]] – hFab anti-lysophosphatidic acid<br />
| |
| [[3nfs]] – hFab commercial<br />
| |
| [[3lrs]], [[3mme]] – hFab PG16<br />
| |
| [[3hi5]] – hFab AL-57<br />
| |
| [[1vge]] – hFab TR1.9<br />
| |
| [[1hkl]] – hFab catalytic<br />
| |
| [[3f12]] – hFab M2J1<br />
| |
| [[8fab]] – hFab HIL<br />
| |
| [[1opg]] - hFab OPG2<br />
| |
| [[3inu]] – hFab anti-Ebola<br />
| |
| [[3u6r]] – hFab anti-Hepatitis<br />
| |
| [[4gxv]] – hFab anti-influenza<br />
| |
| [[4fnl]] – hFab C05<br />
| |
| [[4fqh]] – hFab CR9114<br />
| |
| [[1om3]] – hFab 2G12<br />
| |
| [[1aqk]] – hFab B7-15A2<br />
| |
| [[2hff]] – hFab CB2<br />
| |
| [[2agj]] – hFab YVO<br />
| |
| [[3ls5]] – hFab anti-tetrahydrocannabinol<br />
| |
| [[3hc0]] – hFab BHA10<br />
| |
| [[3hc3]], [[3hc4]] - hFab BHA10 (mutant)<br />
| |
| [[3g6a]] – hFab CNTO607<br />
| |
| [[3dgg]], [[3dif]] – hFab OX108<br />
| |
| [[3eyo]], [[3eyq]] – hFab 8F9<br />
| |
| [[2aj3]] – hFab M18<br />
| |
| [[3fzu]] – hFab igG1<br />
| |
| [[3aaz]], [[3gje]] – hFab<br />
| |
| [[3i75]] – mFab – mouse<br />
| |
| [[3iy2]] – mFab 6 – Cryo EM<br />
| |
| [[3iy3]] – mFab 8 – Cryo EM<br />
| |
| [[3iy4]] – mFab 15 – Cryo EM<br />
| |
| [[3iy5]] – mFab IggA2 – Cryo EM<br />
| |
| [[3iy6]] – rFab E – Cryo EM <br />
| |
| [[3iy7]] – rFab F – Cryo EM<br />
| |
| [[1jpt]] - hmFab D3H44<br />
| |
| [[3mxv]] – mFab/hFab<br />
| |
| [[2o5x]] - mFab/hFab 1E9-DB3<br />
| |
| [[1ucb]] - mFab/hFab BR96<br />
| |
| [[1f4w]] – mFab S-20-4<br />
| |
| [[1aif]] – mFab 409.5.3<br />
| |
| [[1ghf]] – mFab GH1002<br />
| |
| [[2z91]] – mFab 10C9<br />
| |
| [[1ind]] – mFab CHA255<br />
| |
| [[3bkc]], [[3bkm]] – mFab WO2<br />
| |
| [[3iy0]] – mFab 14<br />
| |
| [[3pp3]], [[3pp4]] – mFab GA101<br />
| |
| [[3okm]] - mFab S25-39 igG1<br />
| |
| [[6fab]] – mFab 36-71<br />
| |
| [[2hkh]] – mFab M75<br />
| |
| [[1ay1]] – mFab TP7<br />
| |
| [[1nbv]] – mFab BV04-01<br />
| |
| [[1qbm]] – mFab E8B<br />
| |
| [[1bbd]] - mFab 8F5<br />
| |
| [[1igf]] – mFab B13I2<br />
| |
| [[1for]] - mFab 17-IA<br />
| |
| [[2gfb]] – mFab CNJ206<br />
| |
| [[2rcs]] – mFab 48G7<br />
| |
| [[2aju]] – mFab 7A1<br />
| |
| [[1k6q]] – mFab D3<br />
| |
| [[2fbj]] – mFab anti-galactan<br />
| |
| [[1mcp]] – mFab anti-phosphocholine<br />
| |
| [[1dqd]] – mFab HGR-2 F6<br />
| |
| [[2ipt]] – mFab PFA1<br />
| |
| [[1ct8]] – mFab 7C8<br />
| |
| [[1yeh]], [[1yec]], [[1yed]], [[1yee]], [[1eap]], [[3bd3]], [[3bd4]], [[3bd5]] - mFab catalytic<br />
| |
| [[2iq9]], [[2iqa]] – mFab PFA2<br />
| |
| [[2w60]] – mFab ACC4<br />
| |
| [[2w9d]] – mFab ICSM<br />
| |
| [[3eot]] – mFab LAC031 (mutant)<br />
| |
| [[3iu4]] – mFab CHP3<br />
| |
| [[1hq4]] – mFab HA5-19A4<br />
| |
| [[1q9k]], [[1q9l]] – mFab S25-2<br />
| |
| [[1q9o]] - mFab S45-18<br />
| |
| [[2z4q]] – mFab 528<br />
| |
| [[1cr9]] – mFab 3F4<br />
| |
| [[1gig]] – mFab HC19<br />
| |
| [[1uyw]] – mFab 4G2<br />
| |
| [[1cgs]], [[2cgr]] – mFab NC6.8<br />
| |
| [[1q0x]] – mFab 9B1<br />
| |
| [[1ibg]] – mFab 40-50<br />
| |
| [[3eo0]] – mFab GC-1008<br />
| |
| [[2op4]] – mFab RS2-1G9<br />
| |
| [[2q76]] – mFab F10.6.6<br />
| |
| [[2ojz]] – mFab ED10<br />
| |
| [[2g60]] – mFab M2<br />
| |
| [[2dbl]], [[1dbj]], [[1dbk]], [[1dbm]], [[1dba]] – mFab DB3<br />
| |
| [[1mrc]] – mFab JEL103<br />
| |
| [[2gcy]] – mFab C25<br />
| |
| [[1flr]] – mFab 4-4-20<br />
| |
| [[1uz6]] – mFab 291-2G3-A<br />
| |
| [[1rfd]] – mFab M82G2<br />
| |
| [[1t2q]] - mFab NNA7<br />
| |
| [[15c8]] – mFab 5C8<br />
| |
| [[1ggb]], [[1ggc]] – mFab 50.1<br />
| |
| [[1bm3]] – mFab OPG2<br />
| |
| [[2d03]] – mFab NNA7 (mutant)<br />
| |
| [[2eh7]] – mFab KR127<br />
| |
| [[2fat]] – mFab ATN-615<br />
| |
| [[1c12]] – mFab anti-traseolide<br />
| |
| [[3cfc]] – mFab EP2-19g2<br />
| |
| [[3cfe]] – mFab EP2-25c10<br />
| |
| [[3d69]] – mFab anti-factor IX<br />
| |
| [[3esu]] – mFab anthrax-neutralizing<br />
| |
| [[3esv]] – mFab M18 (mutant)<br />
| |
| [[3et9]] – mFab 1H (mutant)<br />
| |
| [[3qg7]] – mFab AP4-24H11<br />
| |
| [[3rvt]] – mFab 4C1<br />
| |
| [[3s62]] – mFab 2A8<br />
| |
| [[4gay]] – mFab AP33<br />
| |
| [[3cfj]], [[3cfk]] – hFab/mFab 34E4<br />
| |
| [[1bbj]] - hFab/mFab B72.3<br />
| |
| [[3mj8]] – AhFab HL4E10 – Armenian hamster<br />
| |
| [[3r06]] – AhFab 2C11<br />
| |
| [[3iy1]] – rFab B – rat<br />
| |
| [[1zan]] – rFab AD11<br />
| |
| [[1t04]] – hmFab HUZAF<br />
| |
| [[2fgw]] – hmFab H52<br />
| |
| [[1fvd]], [[1fve]] – hmFab 4D5<br />
| |
| | |
| ===Anti-HIV Fab===
| |
| | |
| [[3lmj]] – hFab 21C anti-HIV<br />
| |
| [[1rhh]] - hFab X5 anti-HIV<br />
| |
| [[1rz7]], [[1rz8]], [[1rzf]], [[1rzg]], [[1rzi]] - hFab gp120-reactive anti-HIV<br />
| |
| [[3mug]] - hFab PG16<br />
| |
| [[3juy]] – hFab 3B3<br />
| |
| [[3qeh]] – hFab N12-I15<br />
| |
| [[3tnn]] – hFab N5-I5<br />
| |
| [[3rpi]] – hFab 3BNC60<br />
| |
| [[3tnm]] – hFab A32<br />
| |
| [[3nz8]] – mFab 7C8 anti-HIV<br />
| |
| [[3o6k]] – mFab 11H6H1 anti-HIV<br />
| |
| [[3ntc]] – mFab KD-247 anti-HIV<br />
| |
| [[3qeg]] – mFab N12-I2
| |
| | |
| ===Fab: small molecule complex===
| |
| | |
| [[3o2w]] - hFab 1e9 (mutant) + transition state analog<br />
| |
| [[3ra7]] – mFab + digoxigenin – mouse<br />
| |
| [[3okd]], [[3oke]], [[3okk]], [[3okl]], [[3okn]], [[3oko]], [[3hzk]], [[3hzm]], [[3hzv]], [[3hzy]], [[3pho]], [[3phq]], [[3hns]], [[3hnt]], [[3hnv]] - mFab + liposaccharide<br />
| |
| [[3oau]] – hFab 2g12 (mutant) + mannose<br />
| |
| [[1ikf]] – hFab R45 + cyclosporin<br />
| |
| [[3oay]], [[3oaz]], [[3ob0]], [[1zls]], [[1zlu]], [[1zlv]], [[1zlw]] - hFab 2g12 + glycan<br />
| |
| [[2jb5]], [[2jb6]], [[1y0l]] - hFab/mFab + hapten<br />
| |
| [[2o5y]], [[2o5z]] - mFab/hFab 1E9-DB3 + steroid<br />
| |
| [[3fo0]] – hFab + hapten<br />
| |
| [[1wcb]], [[2bmk]], [[1a0q]], [[1aj7]], [[1ine]] - mFab + hapten<br />
| |
| [[3fo1]], [[3fo2]] - hFab/mFab 13G5 (mutant) + hapten<br />
| |
| [[3ls4]] – mFab + tetrahydrocannabinol<br />
| |
| [[1a4k]], [[1kno]] - mFab + transition state analog<br />
| |
| [[1mfc]], [[1mfd]], [[1mfe]] – mFab + polysaccharide<br />
| |
| [[1op3]], [[1op5]] - hFab + polysaccharide<br />
| |
| [[3eyv]] - hFab/mFab 13G5 (mutant) + hapten<br />
| |
| [[2ntf]] - mFab RS2-1G9 + lactone analog<br />
| |
| [[2ajs]] – mFab 7A1 + heptaethylene glycol<br />
| |
| [[2ajv]], [[2ajx]], [[2ajy]], [[2ajz]], [[2ak1]], [[1riu]], [[1riv]], [[1qyg]], [[1q72]] - mFab + cocaine derivative<br />
| |
| [[1ynk]], [[1ynl]], [[1etz]] – mFab + sweetener<br />
| |
| [[1yef]] – mFab D2.3 + substrate analog<br />
| |
| [[1yeg]] - mFab D2.3 + product<br />
| |
| [[1p7k]] – mFab + HEPES<br />
| |
| [[1q0y]] – mFab 9B1 + morphine<br />
| |
| [[1q9q]], [[1q9r]], [[1q9t]], [[1q9v]], [[1q9w]], [[1f4x]], [[1f4y]], [[1mfa]], [[1mfb]] - mFab + carbohydrate<br />
| |
| [[1mex]] – mFab 29G12 + benzoic acid derivative<br />
| |
| [[1mrd]], [[1mre]], [[1mrf]] – mFab JEL103 + nucleotide<br />
| |
| [[1fig]] – mFab 1F7 + bicarboxylic acid<br />
| |
| [[1dbb]] – mFab DB3 + progesterone<br />
| |
| [[1igj]] - mFab 26-10 + digoxin<br />
| |
| [[4fab]] – mFab 4-4-20 + fluorescin<br />
| |
| [[2mcp]] - mFab MCPC603 + phosphocholine<br />
| |
| [[3cfb]], [[3cfd]] – mFab EP2-19g2 + stilbene hapten
| |
| | |
| ===Fab: peptide complex===
| |
| | |
| [[3e8u]] - mFab + BNP peptide<br />
| |
| [[3hr5]] – mFab + M1prime peptide<br />
| |
| [[3eys]], [[3eyu]] - mFab + amyloid-β-related peptide<br />
| |
| [[3ggw]] – mFab + carbohydrate-mimetic peptide<br />
| |
| [[3cxd]], [[3dsf]] – mFab + osteopontin peptide<br />
| |
| [[2zpk]] – mFab + proteinase-activated receptor peptide<br />
| |
| [[3ifl]], [[3ifn]], [[3ifo]], [[3ifp]] - mFab + amyloid peptide<br />
| |
| [[3h0t]] - hFab + hepcidin peptide<br />
| |
| [[3eyf]] – hFab + cytomegalovirus peptide<br />
| |
| [[2hfg]], [[2h9g]] – hFab + TNF receptor peptide<br />
| |
| [[3csy]] - hFab + Ebola envelope glycoprotein peptide<br />
| |
| [[2eh8]] - mFab + PRES1 peptide<br />
| |
| [[2brr]] – mFab + outer membrane protein peptide<br />
| |
| [[1xgy]] – mFab + rhodopsin peptide<br />
| |
| [[1pz5]] – mFab SYA/J6 + peptide<br />
| |
| [[1a3r]] – mFab + rhinovirus capsid peptide<br />
| |
| [[1cu4]] - mFab + prion protein peptide<br />
| |
| [[1fpt]] – mFab + poliovirus peptide<br />
| |
| [[2hh0]] – hFab/mFab + prion protein peptide<br />
| |
| [[1frg]], [[1him]], [[1hin]], [[1ifh]] - mFab + hemagglutinin peptide<br />
| |
| [[1tet]] – mFab + cholera toxin peptide<br />
| |
| [[4gag]], [[4gaj]] – mFab + genome polyprotein peptide<br />
| |
| [[3bky]] – hFab/mFab + CD20 peptide<br />
| |
| | |
| ===Anti-HIV Fab: peptide complex===
| |
| | |
| [[3egs]], [[3drt]], [[3drq]], [[3dro]], [[2fx7]], [[2fx8]], [[2fx9]], [[2cmr]], [[1tzg]], [[1tjg]], [[3mnw]], [[3moa]], [[3mob]], [[3mod]]– hFab anti-HIV + gp41 peptide<br />
| |
| [[3ghb]], [[3ghe]], [[3c2a]] - hFab anti-HIV + envelope glycoprotein peptide<br />
| |
| [[3go1]] - hFab anti-HIV + envelope glycoprotein gp160 peptide<br />
| |
| [[3fn0]] - hFab Z13E1 anti-HIV + peptide<br />
| |
| [[2oqj]] – hFab 2G12 anti-HIV + peptide<br />
| |
| [[2b0s]], [[2b1a]], [[2b1h]], [[3se8]], [[3se9]] - hFab anti-HIV + glycoprotein gp120 peptide<br />
| |
| [[1nak]], [[2f58]], [[3f58]], [[1f58]], [[1acy]] - mFab anti-HIV + glycoprotein gp120 peptide<br />
| |
| [[1ai1]], [[1ggi]] – mFab anti-HIV + V3 peptide<br />
| |
| [[3o6l]], [[3o6m]] - mFab 11H6H1 anti-HIV + Tat peptide<br />
| |
| | |
| ===Fab: protein complex===
| |
| | |
| [[3r1g]] – hFab + beta-secretase 1<br />
| |
| [[3raj]] – mFab HB7 + CD38<br />
| |
| [[3o0r]] – mFab + nitric oxide reductase<br />
| |
| [[3mac]], [[3ma9]] – hFab 8062 anti-HIV + transmembrane glycoprotein<br />
| |
| [[3pnw]] – hFab + Tudor domain-containing protein 3<br />
| |
| [[3h42]] - hFab LDLR + proprotein convertase subtilisin/kexin<br />
| |
| [[3nh7]] – hFab ABD1556 + bone morphogenetic protein receptor<br />
| |
| [[3hi6]] – hFab AL-57 + integrin<br />
| |
| [[2vxs]] - hFab + interleukin<br />
| |
| [[3b2u]], [[3b2v]] – hFab IMC-11F8 + EGFR<br />
| |
| [[2r0k]], [[2r0l]] – hFab + HGFA<br />
| |
| [[3ld8]], [[3ldb]] – AhFab + bifunctional arginine demethylase <br />
| |
| [[3be1]], [[3n85]], [[1n8z]] - hFab + ERBB-2<br />
| |
| [[3kr3]] – hFab + IGF-II<br />
| |
| [[3g6d]] – hFab CNTO607 + IL-13<br />
| |
| [[3idx]], [[3idy]] - hFab B13 anti-HIV + gp120 core<br />
| |
| [[2x7l]] – Fab anti-HIV + HIV REV<br />
| |
| [[3gbm]], [[3gbn]], [[3lzf]], [[3fku]], [[3sdy]], [[3ztj]], [[3ztn]], [[4fp8]], [[4fqi]], [[4fqj]], [[4fqk]], [[4fql]], [[4fqr]], [[4fqv]], [[4fqy]], [[4gxu]]- hFab + hemagglutinin<br />
| |
| [[3g6j]] – hFab + complement C3<br />
| |
| [[2vxq]] – hFab + pollen allergen PHL<br />
| |
| [[2wub]], [[3k2u]] – hFab 40 + hepatocyte growth factor activator<br />
| |
| [[3grw]] - hFab + fibroblast growth factor receptor<br />
| |
| [[3bdy]], [[2qr0]], [[2fjg]], [[2fjh]] – hFab + VEGF<br />
| |
| [[1tzh]], [[1tzi]] - mFab + VEGF<br />
| |
| [[3bqu]] – hFab 2F5 anti-HIV + mFab 3H6<br />
| |
| [[2j6e]], [[1adq]] – hFab IGM + igG1 Fc<br />
| |
| [[3dvg]], [[3dvn]] – hFab igG1 + ubiquitin<br />
| |
| [[3bn9]] – hFab E2 + membrane-type serine protease<br />
| |
| [[2jix]] – hFab ABT-007 + erythropoietin receptor<br />
| |
| [[1za3]] - hFab YSD1 + TNF receptor<br />
| |
| [[3l95]] – Fab + NRR1<br />
| |
| [[1uj3]], [[4dtg]] – hFab + tissue factor<br />
| |
| [[3lev]] – hFab 2F5 + RNA polymerase sigma factor<br />
| |
| [[3ru8]] – hFab B12 + epitope scaffold 2BODX43<br />
| |
| [[3skj]] – hFab + ephrin receptor<br />
| |
| [[3sob]] – hFab + LPR6<br />
| |
| [[3t2n]] – hFab + serine protease hepsin<br />
| |
| [[3ux9]] – hFab anti-interferon + interferon<br />
| |
| [[3vg9]] – hFab + adenosine receptor<br />
| |
| [[3vga]] – hFab + adenosine receptor (mutant)<br />
| |
| [[1jps]] - hmFab D3H44 + tissue factor<br />
| |
| [[1ahw]] - mFab 5G9+ tissue factor<br />
| |
| [[2w9e]], [[1tpx]], [[1tqb]], [[1tqc]] – mFAB + major prion protein<br />
| |
| [[2oz4]] – mFab + intercellular adhesion molecule<br />
| |
| [[3eo1]] - mFab GC-1008 + transforming growth factor β-3<br />
| |
| [[3d9a]], [[1bql]], [[1fbi]], [[2iff]], [[1fdl]], [[3hfm]] – mFab HYHEL10 + lysozyme<br />
| |
| [[1ic4]], [[1ic5]], [[1ic7]] - mFab HYHEL10 (mutant) + lysozyme<br />
| |
| [[2dtg]] – mFab 83 + insulin receptor<br />
| |
| [[1yjd]] – mFab 5.11A1 + CD28<br />
| |
| [[1sy6]] – mFab OKT3 + CD3<br />
| |
| [[1afv]] – mFab anti-HIV + capsid protein C<br />
| |
| [[2b2x]] – rFab AQC2 + integrin<br />
| |
| [[2r56]] – Fab igE + β-lactoglobulin - bovine<br />
| |
| [[2r9h]] – mFab + exchange transporter ClCA<br />
| |
| [[1nca]], [[1ncb]], [[1ncc]], [[1ncd]] – mFab + neuraminidase<br />
| |
| [[1rjl]] – mFab + outer surface protein<br />
| |
| [[1mhh]] – mFab + protein L (mutant)<br />
| |
| [[1pg7]] – mFab 6A6 + hmFab D3H44<br />
| |
| [[1pkq]] – hFab/mFab 8-18C5 + myelin glycoprotein<br />
| |
| [[2jel]] – mFab JEL42 + histidine-containing protein<br />
| |
| [[1nsn]] – mFab N10 + nuclease<br />
| |
| [[1rvf]] – mFab 17-IA + intact rhinovirus<br />
| |
| [[1nfd]] – mFab H57 + T-cell receptor<br />
| |
| [[1igc]] – mFab MOPC21 + streptococcal protein G<br />
| |
| [[1iai]] – mFab idiotipic + mFab anti-idiotypic<br />
| |
| [[3ivk]], [[2r8s]] – mFab + RNA<br />
| |
| [[2fr4]], [[1xf2]], [[1xf3]], [[1xf4]], [[1i8m]], [[1cbv]] – mFab + DNA<br />
| |
| [[1mhp]], [[3q3g]], [[3qa3]] – mFab + integrin<br />
| |
| [[3ab0]] – mFab + BCLA protein<br />
| |
| [[3etb]] – mFab M18 (mutant) + anthrax-protective antigen<br />
| |
| [[3f5w]], [[3pjs]], [[3efd]], [[3eff]] – mFab + KcsA K+ channel<br />
| |
| [[3stl]], [[3stz]] - mFab + KcsA K+ channel (mutant)<br />
| |
| [[3fmg]] – mFab + glycoprotein VP7<br />
| |
| [[3ve0]] - mFab + Ebola envelope glycoprotein<br />
| |
| [[4f9l]], [[4f9p]] – mFab anti-BTN3A1 + butyrophilin A1<br />
| |
| [[3k7u]], [[3k80]] – LgFab + MP18 RNA editing protein – Lama glama<br />
| |
| [[3mj9]] – AhFab HL4E10 + JAML <br />
| |
| [[3r08]] - AhFab 2C11 + CD3ε
| |
| | |
| ===Fab: protein ternary complex===
| |
|
| |
|
| [[3ixx]], [[3ixy]] - mFab E53 + envelope glycoprotein + West Nile virus peptide<br />
| | ==3D Printed Physical Model of an Anitbody== |
| [[2wuc]] - hFab 40 + hepatocyte growth factor activator + inhibitor<br />
| |
| [[3lqa]] - hFab 21C anti-HIV + CD4 + gp160<br />
| |
| [[3jwd]], [[3jwo]] - hFab 48D anti-HIV + CD4 + gp120<br />
| |
| [[3d85]] - hFab 7G10 + IL-12 + IL-23<br />
| |
| [[3bt2]] – hFab anti-UPAR + urokinase-type plasminogen activator + vitronectin<br />
| |
| [[3gjf]], [[3hae]] – hFab + β-2-microglobulin + MHC antigen + NYESO peptide<br />
| |
| [[3gb7]], [[2p7t]], [[2h8p]], [[2hfe]], [[2atk]] - mFab + KcsA K+ channel + ion<br />
| |
| [[3or6]], [[3or7]], [[3ogc]], [[3fb7]], [[3f7v]], [[3f7y]], [[3fb5]], [[3fb6]], [[3fb8]], [[3iga]], [[2itc]], [[2itd]], [[2nlj]], [[2bob]], [[2boc]], [[1s5h]], [[1r3i]], [[1r3j]], [[1r3k]], [[1r3l]], [[1k4c]], [[1k4d]], [[3hpl]] - mFab + KcsA K+ channel (mutant) + ion<br />
| |
| [[2fd6]] – mFab ATN-615 + urokinase-type plasminogen activator + urokinase plasminogen receptor<br />
| |
| [[3v0a]] – LgFab + BONT/A1 + NTNH
| |
|
| |
|
| ===Full Immunoglobulin===
| | Shown below is a 3D printed physical model of an Antibody. The protein is displayed as an alpha carbon backbone, with the heavy chains colored white, the light chains colored red, and the glycan colored blue. |
| | [[Image:antibody1_centerForBioMolecularModeling.jpg|550px]] |
|
| |
|
| [[1hzh]] - hFab IgG B12<br />
| |
| [[1iga]] - hIgA1 - model<br />
| |
|
| |
|
| ===Fc Fragments=== | | ====The MSOE Center for BioMolecular Modeling==== |
|
| |
|
| [[3dnk]] - hFc Igg1br /> | | [[Image:CbmUniversityLogo.jpg | left | 150px]] |
| [[1f6a]] - hFc IgE + high-affinity receptor Fc (ε) RI (α)<br />
| |
| [[1e4k]] - hFc Igg1 + Fc-γ-Riii Complex<br />
| |
| [[1fp5]] - hFc IgE C ε 3-C ε 4<br />
| |
|
| |
|
| ===Fv Fragments===
| | The [http://cbm.msoe.edu MSOE Center for BioMolecular Modeling] uses 3D printing technology to create physical models of protein and molecular structures, making the invisible molecular world more tangible and comprehensible. To view more protein structure models, visit our [http://cbm.msoe.edu/educationalmedia/modelgallery/ Model Gallery]. |
|
| |
|
| [[3dur]], [[3dus]], [[3duu]], [[3dv4]], [[3dv6]] – mFv + Ig-like protein<br />
| |
| [[3h3b]] – mFv + ERBB2<br />
| |
| [[3hb3]] – mFv + cytochrome c oxidase subunit 1-beta
| |
|
| |
|
| ==References== | | ==References== |