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Matrix metalloproteinase: Difference between revisions

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account for the entire binding effect between MT1-MMP and TIMP-1. Statistical analysis of the <scene name='MT1-MMP-TIMP-1_complex/Cv2/15'>key hydrogen bond</scene> stabilities in the TIMP-1 T98L mutant reveals that the hydrogen bonds network in mutant form is significantly more stable than that in WT-TIMP-1. Mutations that enhance hydrogen
account for the entire binding effect between MT1-MMP and TIMP-1. Statistical analysis of the <scene name='MT1-MMP-TIMP-1_complex/Cv2/15'>key hydrogen bond</scene> stabilities in the TIMP-1 T98L mutant reveals that the hydrogen bonds network in mutant form is significantly more stable than that in WT-TIMP-1. Mutations that enhance hydrogen
bond stability contribute to the stability of the bound-like, less flexible, conformation of TIMP-1, which eventually results in increasing binding affinity for MT1-MMP. Thus, mutation affected the instrinsic dynamics of the inhibitor rather than its structure, thereby facilitating the interaction <ref name="Grossman">PMID:20545310</ref>.   
bond stability contribute to the stability of the bound-like, less flexible, conformation of TIMP-1, which eventually results in increasing binding affinity for MT1-MMP. Thus, mutation affected the instrinsic dynamics of the inhibitor rather than its structure, thereby facilitating the interaction <ref name="Grossman">PMID:20545310</ref>.   
</StructureSection>


==3D structures of matrix metalloproteinase==
==3D structures of matrix metalloproteinase==
[[Matrix metalloproteinase 3D structures]]


Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
</StructureSection>
{{#tree:id=OrganizedByTopic|openlevels=0|
 
*MMP1 interstitial or fibroblast collagenase
 
**[[1su3]] – pro-hMMP – human<br />
**[[2clt]] – hMMP (mutant)<br />
**[[3shi]], [[1hfc]], [[1cge]], [[1cgf]] - hMMP catalytic domain<br />
**[[2tcl]], [[966c]], [[1cgl]] - hMMP catalytic domain + inhibitor<br />
**[[2ayk]], [[3ayk]], [[4ayk]], [[1ayk]] - hMMP catalytic domain - NMR<br />
**[[4auo]] - hMMP catalytic domain + collagen peptide<br />
**[[1fbl]] – MMP - pig
 
*MMP2 gelatinase-A
 
**[[1qib]], [[1ck7]] - hMMP catalytic domain (mutant) <BR />
**[[1rtg]] - hMMP hemopexin-like domain<BR />
**[[1ks0]] – hMMP first fibronectin type II domain – NMR<BR />
**[[1cxw]] - hMMP second fibronectin type II domain – NMR<BR />
**[[1j7m]] - hMMP third fibronectin type II domain (mutant) – NMR<BR />
**[[1gen]] – hMMP C terminal <br />
**[[1eak]] – pro-hMMP catalytic domain (mutant) + peptide inhibitor<br />
**[[3ayu]] - hMMP catalytic domain (mutant) + peptide inhibitor<br />
**[[1hov]], [[1eub]] - hMMP catalytic domain + inhibitor– NMR<BR />
**[[1gxd]] – pro-hMMP (mutant) + TIMP-2
 
*MMP3 stromelysin 1
 
**[[1qia]], [[1qic]], [[1cqr]], [[1slm]] - hMMP catalytic domain<BR />
**[[3ohl]], [[3oho]], [[1g49]], [[1ciz]], [[1b8y]], [[1caq]], [[1usn]], [[2usn]], [[1ums]], [[1umt]],  [[2d1n]], [[2d1o]], [[2ow9]], [[1bqo]], [[1g4k]], [[1b3d]], [[1biw]], [[1c3i]], [[1d5j]], [[1d7x]], [[1d8f]], [[1d8m]], [[1g05]], [[1hfs]], [[1hy7]], [[2srt]], [[4dpe]], [[4g9l]], [[4ja1]] - hMMP catalytic domain + inhibitor<br />
**[[1c8t]] - hMMP catalytic domain (mutant) + inhibitor<br />
**[[1uea]] - hMMP catalytic domain + TIMP-1<BR />
**[[1oo9]] - hMMP catalytic domain + TIMP-1 N terminal<BR />
**[[2jt5]], [[2jt6]], [[2jnp]], [[3usn]], [[1sln]], [[1bm6]] - hMMP catalytic domain + inhibitor – NMR<BR />
 
*MMP7 matrilysin
 
**[[2y6c]], [[2y6d]], [[2ddy]], [[1mmp]], [[1mmq]], [[1mmr]] – hMMP catalytic domain + inhibitor<br />
**[[2mze]] – hpro-MMP (mutant)  - NMR<br />
**[[2mzh]], [[2mzi]] – hpro-MMP (mutant) + membrane bilayer - NMR<br />
 
*MMP8 neutrophil collagenase
 
**[[2oy4]], [[1mnc]], [[1bzs]] - hMMP catalytic domain<br />
**[[3dng]], [[3dpe]], [[3dpf]], [[1zp5]], [[1jh1]], [[1jj9]], [[1i76]], [[1a85]], [[1mmb]], [[1zs0]], [[1zvx]], [[1kbc]], [[3tt4]], [[4qkz]], [[5h8x]]  – hMMP catalytic domain + inhibitor<br />
**[[1i73]], [[2oy2]], [[1jan]], [[1jao]], [[1jap]], [[1jaq]] - hMMP catalytic domain + peptide inhibitor<br />
**[[1a86]] - hMMP catalytic domain + aspartate-based inhibitor
 
*MMP9 gelatinase-B
 
**[[1l6j]] - pro-hMMP<BR />
**[[1itv]] – hMMP haemopexin-like domain<br />
**[[1gkc]], [[4xct]], [[4wzv]], [[5cuh]], [[5i12]] - hMMP catalytic domain + inhibitor<br />
**[[2ovx]], [[2ovz]], [[2ow0]], [[2ow1]], [[2ow2]], [[1gkd]], [[4h1q]], [[4h82]], [[4hma]], [[4h2e]], [[4h3x]] - hMMP catalytic domain (mutant) + inhibitor<br />
**[[4jij]], [[4jqg]] - hMMP catalytic domain (mutant) + FRET substrate<br />
 
*MMP10 stromelysin 2
 
**[[1q3a]] - hMMP catalytic domain (mutant)<br />
**[[3v96]], [[4ilw]] - hMMP catalytic domain + metalloproteinase inhibitor
 
*MMP11 stromelysin 3
 
**[[1hv5]] - hMMP catalytic domain + inhibitor<br />
 
*MMP12 macrophage metalloelastase
 
**[[3ba0]], [[2oxu]] - hMMP<BR />
**[[2krj]], [[2k9c]] - hMMP catalytic domain – NMR<BR />
**[[1jk3]], [[1jiz]], [[2oxu]] -  hMMP catalytic domain <BR />
**[[4ijo]] - hMMP catalytic domain (mutant)<br />
**[[2poj]] - hMMP catalytic domain (mutant) - NMR<BR />
**[[2jxy]] - hMMP hemopexin-like domain - NMR<BR />
**[[3n2u]], [[3n2v]], [[2wo8]], [[2wo9]], [[2woa]], [[1utt]], [[1utz]], [[1ros]], [[3rts]], [[3rtt]] – hMMP catalytic domain + inhibitor<br />
**[[3lk8]], [[3lik]], [[3lil]], [[3lir]], [[3ljg]], [[3nx7]], [[3lka]], [[3ehx]], [[3ehy]], [[3f15]], [[3f16]], [[3f17]], [[3f18]], [[3f19]], [[3f1a]], [[1y93]], [[1rmz]], [[1os2]], [[1os9]], [[2hu6]], [[3ts4]], [[3tsk]], [[3uvc]], [[4gql]], [[4gr0]], [[4gr3]], [[4gr8]], [[4h30]], [[4h49]], [[4h76]], [[4h84]], [[4io3]], [[1jk3]],[[4efs]], [[4gql]], [[4gr0]], [[4gr3]], [[4gr8]], [[4guy]], [[4h30]], [[4h49]], [[4h76]], [[4h84]], [[4i03]], [[5cxa]], [[5czm]], [[5d2b]], [[5d3c]], [[5i0l]], [[5i2z]], [[5i3m]], [[5i43]], [[5i4o]], [[5l79]], [[5l7f]], [[5lab]] - hMMP catalytic domain (mutant) + inhibitor<br />
**[[2oxn]], [[2oxz]], [[2oxw]] - hMMP catalytic domain (mutant) + peptide<br />
**[[2n8r]] - hMMP catalytic domain (mutant) + collagen peptide – NMR<br />
**[[2k2g]], [[2z2d]] - hMMP catalytic domain + inhibitor - NMR<BR />
**[[2mlr]], [[2mls]] - hMMP catalytic domain + membrane billayer<br />
**[[2w0d]], [[1ycm]], [[1z3j]] - hMMP catalytic domain (mutant) + inhibitor - NMR<BR />
 
*MMP13 collagenase 3
 
**[[1cxv]] - MMP catalytic domain - mouse<BR />
**[[1pex]] – hMMP hemopexin-like domain<br />
**[[2yig]], [[3ljz]], [[3kec]], [[3kej]], [[3kek]], [[3kry]], [[3i7g]], [[3i7i]], [[3elm]], [[2pjt]], [[2ozr]], [[1xuc]], [[1xud]], [[1xur]], [[1you]], [[1ztq]], [[3o2x]], [[3zxh]], [[4a7b]], [[1fls]], [[1fm1]], [[456c]], [[830c]], [[3tvc]], [[4jp4]], [[4jpa]], [[3wv1]], [[3wv2]], [[3wv3]], [[4l19]], [[5b5o]], [[5b5p]], [[5bot]], [[5boy]], [[5bpa]] – hMMP catalytic domain + inhibitor<br />
**[[2e2d]] - hMMP catalytic domain + TIMP-2<br />
**[[4fu4]], [[4fvl]], [[4g0d]] - hMMP catalytic domain (mutant) + pro-domain peptide<br />
 
*MMP14 Membrane T1
 
**[[3ma2]] – hMMP residues 112-292 + TIMP-1 (mutant) <BR />
**[[1buv]], [[1bqq]] - hMMP + TIMP-2<BR />
**[[3c7x]] – hMMP hemopexin-like domain<br />
**[[2mqs]] - hMMP + collagen<br />
 
*MMP16 Membrane T3
 
**[[1rm8]] - hMMP catalytic domain + inhibitor<br />
 
*MMP20 enamelysin
 
**[[2jsd]] - hMMP catalytic domain + inhibitor - NMR<BR />
 
*MMP23 CA-MMP
 
**[[2k72]] – hMMP residues 254-290 - NMR<BR />
 
*MMP adamalysin
 
**[[1iag]] – MMP – diamondback rattlesnake<br />
**[[3k7l]] - MMP - cobra<br />
}}


==References==
==References==

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

Michal Harel, Alexander Berchansky
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