PASS2
  • Superfamily Details
  • Alignment & HMM
  • Jmol View
  • Tree View
  • Features

Superfamily Details

Superfamily summary
Superfamily Name:  Bcl-2 inhibitors of programmed cell death
Class Name:  Membrane and cell surface proteins and peptides
Fold Name:  Toxins' membrane translocation domains
Number of Members:  8
Average Size: 
Members
SCOP ID Name Source
d1pq1a- Apoptosis regulator Bcl-xL Mouse (Mus musculus) [TaxId: 10090]
d1zy3a1 Apoptosis regulator Bcl-w Human (Homo sapiens) [TaxId: 9606]
d2bida- Proapoptotic molecule Bid Human (Homo sapiens) [TaxId: 9606]
d1f16a- Proapoptotic molecule Bax Human (Homo sapiens) [TaxId: 9606]
d1ohua- Apoptosis regulator ced-9 Nematode (Caenorhabditis elegans) [TaxId: 6239]
d1q59a- Early antigen protein R Epstein-Barr virus [TaxId: 10376]
d2jm6b1 EAT/MCL-1 (Myeloid cell leukemia sequence 1) Mouse (Mus musculus) [TaxId: 10090]
d3bl2a1 Bcl-2 homolog V-bcl-2 Murid herpesvirus 4 [TaxId: 33708]
Outliers
SCOP ID Name Source
d1k3ka- Bcl-2 homolog Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]

Alignment Based On Similarities In Structural Features using Comparer

                             10        20        30        40        50  
d1f16a-  (   1 )    mdgsgeqprgggptsseqimktGalllqgFiqdragrmg-----------
d1ohua-  (  71 )                 ndweeprLdIegFVVDYFthrirqng---ewfgapgl
d1pq1a-  (   1 )                      msqsNreLVvdFLsykLsqkg-----------
d1q59a-  (   1 )                 m-----aystreillAlcirdSrvHGngtlhpvlela
d1zy3a1  (   1 )               atpasapd---tralvadfvgyklrqkg-----------
d2bida-  (   1 )        gsmdcevnngsslrdecitnllvfgFlqSCsdnsfrreldalghel
d2jm6b1  ( 147 )              gplgseddlyrqSleiiSrYlrEqAtg-------------
d3bl2a1  (   6 )                      sgtywatLItaFLktVSkve------------
                                          aaaaaaaaaaaaa               

                             60        70        80        90        100 
d1f16a-  (  40 )    ------------geapelaldpvpq--d-----astkklseclkriGdel
d1ohua-  ( 106 )    p--------------------------------sgvqpeHe---rvgtif
d1pq1a-  (  22 )    ----------------yswsqfsre--v-----ipmaaVkqALreaGdef
d1q59a-  (  33 )    are-------------------------tplrlspedtvvlrYhvlleei
d1zy3a1  (  26 )    ------------yvcg-----agpgegp-----aa-dplhqAmrAAGdef
d2bida-  (  47 )    pvlapqwegydelqtdgnrsshsrlgrieadsesqediirniArhlaqvg
d2jm6b1  ( 174 )    -----------------skdskplgeAg-----aaGrrAletlrrvGdgv
d3bl2a1  (  26 )    ----------------------eldcvd-----saVlvdVskIitlTqef
                                                         aaaaaaaaaaaaa

                             110       120       130       140       150 
d1f16a-  (  71 )    dsn--m----elq-rmiaavdtd--sprevFfrvAadMfsd--------g
d1ohua-  ( 124 )    ekkhae----nFe-tfSeqLlavprIsfslYqdvVrtVgn----------
d1pq1a-  (  98 )    elryrr----afs-dlTsqlhItpgtAyqsFeqvVnelFrd--------g
d1q59a-  (  58 )    iernse----tFt-etwnrfithtehvdldfnsvFleifhrg--------
d1zy3a1  (  53 )    etrfrr----tfs-dlaaqlhvtpgsaqqrftqvSDelFqg--------g
d2bida-  (  97 )    dsmdrsippglvn-glAlqlrn-tsrSeedRnrdlataleqllqayprdm
d2jm6b1  ( 202 )    qrnhet----aFq-gmlrkldiknegDvkSFsrvMvhvFkd--------g
d3bl2a1  (  49 )    rrhyds----vyradygpaLk----nWkrdLsklFtslFvd--------v
                    aaaa      aaa aaaaa        aaaaaaaaaaa            

                             160       170       180       190       200 
d1f16a-  ( 104 )    nfnwGRvvAlFyfASklvlkAlc-tkv-pelirtimgwtldflrerllgw
d1ohua-  ( 165 )    -psygrLiGLiSFGGfVAAk--esvel-qgqvrnLfvyTSlFIktrirnn
d1pq1a-  ( 135 )    -vnwgrIVaFFsfGGaLCveSvd-kem-qvLVsrIaswMatYLndhLepw
d1q59a-  (  95 )    dpslGrAlAWmAWcMhaCrtlccnqstpyyvvdlsvrgMleaSe-gldgw
d1zy3a1  (  90 )    -pnwgrlvaFfvfGaalCaeSvn-kem-evlvgqvqewmvayletrladw
d2bida-  ( 145 )    ekektmlvlAlllAkkvAshtp-------sllrdvFhttvnfinqnlrtY
d2jm6b1  ( 239 )    vtnwgrivtliSFGAfvAkhlks-vnq-esfieplAetitdvlvrtkrdw
d3bl2a1  (  83 )    -insgrIvgFFDvGrYVCeevlcpgsw-tedHelLndcMthfFienn--L
                       aaaaaaaaaaaaaaaaa          aaaaaaaaaaaaaa   aaa

                             210       220       230       240 
d1f16a-  ( 152 )    iqdqg-gWdgllsyFgtptwqtvtifvagvltaSltiwkkmg
d1ohua-  ( 214 )    WkehnrsWddf-tlgkqk---edyeraeae            
d1pq1a-  ( 182 )    Iqeng-gwdtFvdlyg                          
d1q59a-  ( 144 )    ihqqg-gWstliednipg------------ddddlehhhhhh
d1zy3a1  ( 137 )    ihssg-gwaeFtalygdgaleearrlregnwasvr       
d2bida-  ( 188 )    vrsl---ArnGmd                             
d2jm6b1  ( 287 )    lvkqr-GWdgFveffhvqdleg-------------------g
d3bl2a1  ( 129 )    mnhFp-l                                   
                    aaa                                       

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]