PASS2
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Superfamily Details

Superfamily summary
Superfamily Name:  His-Me finger endonucleases
Class Name:  Alpha and beta proteins (a+b)
Fold Name:  His-Me finger endonucleases
Number of Members:  8
Average Size: 
Members
SCOP ID Name Source
d1ouoa- Periplasmic endonuclease Vvn Vibrio vulnificus [TaxId: 672]
d2gykb1 DNase domain of colicin E9 Escherichia coli [TaxId: 562]
d1g8ta- Sm endonuclease Serratia marcescens [TaxId: 615]
d2o3ba1 Nuclease NucA Anabaena sp., PCC 7120 [TaxId: 1167]
d1a73a- Intron-encoded homing endonuclease I-PpoI Physarum polycephalum [TaxId: 5791]
d1u3em1 Intron-encoded homing endonuclease I-HmuI Bacteriophage SP01 [TaxId: 10685]
d1e7la2 Recombination endonuclease VII, N-terminal domain Bacteriophage T4 [TaxId: 10665]
d1v0da- Caspase-activated DNase, CAD (DffB, DFF40) Mouse (Mus musculus) [TaxId: 10090]

Alignment Based On Similarities In Structural Features using Comparer

                             10        20        30        40        50  
d1a73a-  (   2 )                                                      
d1e7la2  (   1 )                                                      
d1g8ta-  (   5 )                                                      
d1ouoa-  (  19 )                                                      
d1u3em1  (   1 )                                                      
d1v0da-  (  85 )                                             vsditrfls
d2gykb1  (   4 )    krnkpgkAtgkGkpvgdkWlddAgkdsGApIPdrIAdkLrd---------
d2o3ba1  (  35 )                                                      
                                                                      

                             60        70        80        90        100 
d1a73a-  (   2 )                                                      
d1e7la2  (   1 )                                                      
d1g8ta-  (   5 )                                                      
d1ouoa-  (  19 )                                                      
d1u3em1  (   1 )                                                      
d1v0da-  (  94 )    vfnephagviqaarqqlsdeqaplrqklladllhhvsqnitAetreqdps
d2gykb1  (  45 )    --------------------------------------------------
d2o3ba1  (  35 )                                                      
                                                                      

                             110       120       130       140       150 
d1a73a-  (   2 )       altn--aqilaVidsWeetVgqF--pvi---thhVplGg--------
d1e7la2  (   1 )                                                      
d1g8ta-  (   5 )                                                      
d1ouoa-  (  19 )       apps---sfsaAkqqAvkIYqdh--piSfYÇGÇdIeWqg--------
d1u3em1  (   1 )                                      mewkdIkg--------
d1v0da-  ( 144 )    WFeglesrfrnKsgyLrysCesrIrgylr--eVs-------aytsmVdea
d2gykb1  (  45 )    ---kefk---sfddFrkaVWeeVskd--peLsknLn--------------
d2o3ba1  (  35 )                                                      
                                                                      

                             160       170       180       190       200 
d1a73a-  (  34 )    -------------------------g-lqgtlhCyeIplaapygvgFakn
d1e7la2  (   1 )                                                      
d1g8ta-  (   5 )               sidNÇavgçPtgGss------nvsivrh---AYTLNnns
d1ouoa-  (  53 )    --------------------------------kkGiPnletçgYqvrkq-
d1u3em1  (   9 )    -----------------------yeghyqVSntGeVySiksgktlkhqip
d1v0da-  ( 185 )    aqeeYlrVlgsMcqkLksvqynGsyFdrgaeassrlCtp--eGwFsCqGp
d2gykb1  (  73 )    -------------------psnkssVs---kGySPfTp-knqqvg-----
d2o3ba1  (  35 )              sisvHlllGnPsgAtptkltpdnyLmvkn---qYALSYnn
                                                                      

                             210       220       230       240       250 
d1a73a-  (  58 )    gptrWq--Ykrtin-------q---vvhrwg-----SHtVpfl-lep---
d1e7la2  (   1 )                                  mlltgklykeekqkfydaqn
d1g8ta-  (  35 )    ttkFAnWVAYhItkdtpas-g-ktrnwktDpalnp-adTLapadYt----
d1ouoa-  (  70 )    -------------q-------trAsrIeWEh-----VVPAwqfGhhrqçw
d1u3em1  (  36 )    kdgyhr--IgLfkg-------g---kGktfq-----VHrLVAiHfce---
d1v0da-  ( 233 )    fdlesClskhsiNPYGnresrilFstWnLdh-----iiekkrtVVptLae
d2gykb1  (  95 )    ----------------------grkvYeLHH-----dkpisq--------
d2o3ba1  (  72 )    skgTAnWVaWqLnsswlgnae-rqdnfrpDktLpagwvrVtpsmYs----
                                                                      

                             260       270       280       290       300 
d1a73a-  (  87 )    -dnin---gkt-------CtaShl----------ChntrCHnplhL-cwe
d1e7la2  (  21 )    GkClicqreLn--pdvqaNhLdhdhel--------ngpkagk---vrGLL
d1g8ta-  (  78 )    -----------gAnaalkVdrGhQAPLaSLAgvs-dweSLNyLSNI-TPQ
d1ouoa-  (  95 )    qkggrknÇskn-------d---------------qqFrleAdLHnL-TPA
d1u3em1  (  66 )    -gyee---g---------lvVdhk----------dgnkdnNlstnL-rWv
d1v0da-  ( 278 )    AI---qdg-----------reVnw---------eYFyslLFtaeNL-kLV
d2gykb1  ( 110 )    ------------------------------------gGeVydMdnI-rVT
d2o3ba1  ( 117 )    -----------gs----gyarGhIAPSaDRtkttedNaaTFlMTNM-MPQ
                                                              333b bbb

                             310       320       330       340       350 
d1a73a-  ( 115 )    slddnk-gRnwc------pGpnggCvhavvClrqGplygpgatvagpqqr
d1e7la2  (  58 )    Cnlcda-aegqmkhkFnrsglkgq--------------------------
d1g8ta-  ( 115 )    ksdLnqGAWarLedqErk--LIdradIssVyTVTGPLyer--dmgkLpgT
d1ouoa-  ( 123 )    IGEvng-DRsnf------nFsqwngvdgvsYgrçeqvnfkqrkVPpdrAr
d1u3em1  (  92 )    tqkinv-enqms------rgt                             
d1v0da-  ( 304 )    hiachk-k------------------------------------------
d2gykb1  ( 123 )    TPkrhi-dihr--------------------g                  
d2o3ba1  ( 151 )    TpdNnrnTWgnLedyCre--LVsq--gkELYIvAGPngsl--g-kplkg-
                     aaaaa aa                                         

                             360       370       380       390       400 
d1a73a-  ( 158 )    gshfvv                                            
d1e7la2  (  81 )    --------------------------------------------------
d1g8ta-  ( 161 )    qkaHtIPSaYWKVIFin----nsPa----vnhyAAFlFdQnTpkgadfçq
d1ouoa-  ( 168 )    gsIaRTylYsqeygfqLskqqqqlqaWnksypvd--------------ew
d1u3em1                                                               
d1v0da-  ( 311 )    ----------ttHkleCdrsriyrpqtg                      
d2gykb1                                                               
d2o3ba1  ( 193 )    --kVtVPksTWKIVVVLdspgsglegItantrVIAVnIpNdpeLnndWra
                                                                      

                             410       420       430       440  
d1a73a-                                                         
d1e7la2  (  81 )    ------------------gvdylewlenlltyl---ksdytqnn
d1g8ta-  ( 203 )    frvtVdeIekrtgLiIWagLp-ddvqaslKskpgvLPelMgÇkn
d1ouoa-  ( 206 )    eçtrDdrIAkiQgnhNpfvqqsç                     
d1u3em1                                                         
d1v0da-                                                         
d2gykb1                                                         
d2o3ba1  ( 241 )    ykvsVdeLeslTgydFLsnVs-pniqtsIEskvdn         
                                                                

solvent inaccessible: UPPER CASE X
solvent accesible: lower case x
alpha helix: red x
beta strand: blue x
3 - 10 helix: maroon x
hydrogen bond to main chain amide: bold x
hydrogen bond to mainchain carbonyl: underline x
disulphide bond: cedilla ç
positive phi: italic x

Jmol view

Jmol Model View
Jmol Command prompt
Response Logs

Tree based on RMSD between structures

Matrices

1. Percentage Identity Matrix  [View | Download]
2. Distance Matrix  [View | Download]

PCA based on sequence identity

1. PCA  [View]
2. Plot file  [Download]

CUSP Results

CUSP Result   [View | Download]

Alistat - Alignment Statistics

Alignment Statistics  [Download]

SMotif - Conserved Structural Motifs

SMotif Result   [View | Download]

MeanRMS

MeanRMS  [Download]