PASS2.8 - Home

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
positive phi: italic x

                             10        20        30        40        50  
d1iega-  (   9 )    qavapVyVGGFLARydqspdeaeLllprdvVehwl----alpLNInhddt
d2pbka-  (   3 )    q---gLyVGGFVDVvscpkleqelyLdpdqVtdyLpvteplpItIehlpe
d4v08a-  (   2 )       gpVyVSGYLALYdrdg--gelaltreiVaaAlppagpLpINIdhrp-
                          bbbbb          333   aaaa          bbbb     

                             60        70        80        90        100 
d1iega-  (  67 )    AvVGhVaAMqsVrdGLFCLGcVtSprFLeiVrraSekselVsrgPvsplq
d2pbka-  (  50 )    TeVGwTLGLFqVshGIFCTGAItSpaFlelAsrlAdtshvArapvk-nlp
d4v08a-  (  47 )    CdIGAVLaVVdDdrGPFFLGVVnCpqLgaVlaravgp-dffgdm---rls
                       bbbbbbbbb  bbbbbbbb  aaaaaaaaaa                

                             110       120       130       140       150 
d1iega-  ( 117 )    p-dkVVEfLSgsYaGLsla--------------pfkAVALCsVGrrrGTL
d2pbka-  (  99 )    k-eplLEiLHtwLPGLsLsSihpreLsqtpsgpVFqhVSLCalGrrrGTV
d4v08a-  (  93 )    deerllylLsnyLPSAsLssr-------apdetlFahVALcviGrrvGTI
                       aaaaaaaaa  bbbbb                 bbbbb         

                             160       170       180       190       200 
d1iega-  ( 171 )    AVYGrdpewVTqrFpdLtaadrdgLraqwq--------gdpFrsdsygll
d2pbka-  ( 148 )    AVYGhdaewVVsrFssVskserahIlqhVsscrledlstPnfvSpletLm
d4v08a-  ( 142 )    VvYdaspeaAVapFq-LsarArseLlaAaespdrervwhmseeaLtrALl
                     bbb  aaaaa       aaaaaaaa                   aaaaa

                             210       220       230  
d1iega-  ( 223 )    gnsvdalyirerlpkLryDkqlVgVtereSyVka
d2pbka-  ( 198 )    akaidagfirdrldllktDrgvAsIl-spVYLka
d4v08a-  ( 193 )    sTavnnmllrdrwelVaarrreAgv         
                    aaaaaa     aaaaaaaaaaa

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d1iega- # Domain Specific Files ATM file: Atomic coordinates by ASTRAL ATM2ALI file: Amino acid sequences by ATM2ALI SST file: Secondary structure by SSTRUC PSA file: solvent accessibility by PSA HBD file: Hydrogen bonds by HBOND PSE file: PyMol session file for conserved interactions PDBSUM1: Topological diagram d1iega- # Links to other databases and tools RCSB-PDB: Research Collaboratory for Structural Bioinformatics SCOP: Structural Classification of Proteins EBI: European Bioinformatics Institute HOMSTRAD: Homologous Structure Alignment Database DDBASE: Dial-Derived Domain Database CATH: Class Architecture Topology and Homologous sfily PALI: Phylogeny and ALIgnment of homologous protein structures MODBASE: A Database of Annotated Comparative Protein Structure Models 3Dee: A Database of Protein Domain Definition PQS: Protein Quaternary Structure Query Form at the EBI LPC/CSU: Ligand-Protein Contacts & Contacts of Structural LPFC: A Library of Protein Family Cores MMDB: Molecular Modelling DataBase,NCBI CE: Databases and Tools for 3-D Protein Structure Comparison and Alignment PDBSUM: Summaries and structural analyses of PDB data files Pfam: Protein families database of alignments and HMMs	Human cytomegalovirus protease	Herpes virus serine proteinase, assemblin	Human cytomegalovirus [TaxId: 10359]	view
d2pbka- # Domain Specific Files ATM file: Atomic coordinates by ASTRAL ATM2ALI file: Amino acid sequences by ATM2ALI SST file: Secondary structure by SSTRUC PSA file: solvent accessibility by PSA HBD file: Hydrogen bonds by HBOND PSE file: PyMol session file for conserved interactions PDBSUM1: Topological diagram d2pbka- # Links to other databases and tools RCSB-PDB: Research Collaboratory for Structural Bioinformatics SCOP: Structural Classification of Proteins EBI: European Bioinformatics Institute HOMSTRAD: Homologous Structure Alignment Database DDBASE: Dial-Derived Domain Database CATH: Class Architecture Topology and Homologous sfily PALI: Phylogeny and ALIgnment of homologous protein structures MODBASE: A Database of Annotated Comparative Protein Structure Models 3Dee: A Database of Protein Domain Definition PQS: Protein Quaternary Structure Query Form at the EBI LPC/CSU: Ligand-Protein Contacts & Contacts of Structural LPFC: A Library of Protein Family Cores MMDB: Molecular Modelling DataBase,NCBI CE: Databases and Tools for 3-D Protein Structure Comparison and Alignment PDBSUM: Summaries and structural analyses of PDB data files Pfam: Protein families database of alignments and HMMs	KSHV protease	Herpes virus serine proteinase, assemblin	Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]	view
d4v08a- # Domain Specific Files ATM file: Atomic coordinates by ASTRAL ATM2ALI file: Amino acid sequences by ATM2ALI SST file: Secondary structure by SSTRUC PSA file: solvent accessibility by PSA HBD file: Hydrogen bonds by HBOND PSE file: PyMol session file for conserved interactions PDBSUM1: Topological diagram d4v08a- # Links to other databases and tools RCSB-PDB: Research Collaboratory for Structural Bioinformatics SCOP: Structural Classification of Proteins EBI: European Bioinformatics Institute HOMSTRAD: Homologous Structure Alignment Database DDBASE: Dial-Derived Domain Database CATH: Class Architecture Topology and Homologous sfily PALI: Phylogeny and ALIgnment of homologous protein structures MODBASE: A Database of Annotated Comparative Protein Structure Models 3Dee: A Database of Protein Domain Definition PQS: Protein Quaternary Structure Query Form at the EBI LPC/CSU: Ligand-Protein Contacts & Contacts of Structural LPFC: A Library of Protein Family Cores MMDB: Molecular Modelling DataBase,NCBI CE: Databases and Tools for 3-D Protein Structure Comparison and Alignment PDBSUM: Summaries and structural analyses of PDB data files Pfam: Protein families database of alignments and HMMs	automated matches	automated matches	Suid herpesvirus 1 [TaxId: 10345]	view

No outliers

Feature	Download
Superfamily
Distance Matrix
Conserved Interactions
Cusp Results
Alistat - Alignment Statistics
SMotif - Conserved Structural Motifs
MeanRMS
PCSSE Details
Absolutely Conserved Residues
Highly Conserved Residues

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Q	A	V	A	P	V	Y	V	G	G	F	L	A	R	Y	D	Q	S	P	D	E	A	E	L	L	L	P	R	D	V	V	E	H	W	L	-	-	-	-	A	L	P	L	N	I	N	H	D	D	T	A	V	V	G	H	V	A	A	M	Q	S	V	R	D	G	L	F	C	L	G	C	V	T	S	P	R	F	L	E	I	V	R	R	A	S	E	K	S	E	L	V	S	R	G	P	V	S	P	L	Q	P	-	D	K	V	V	E	F	L	S	G	S	Y	A	G	L	S	L	A	-	-	-	-	-	-	-	-	-	-	-	-	-	-	P	F	K	A	V	A	L	C	S	V	G	R	R	R	G	T	L	A	V	Y	G	R	D	P	E	W	V	T	Q	R	F	P	D	L	T	A	A	D	R	D	G	L	R	A	Q	W	Q	-	-	-	-	-	-	-	-	G	D	P	F	R	S	D	S	Y	G	L	L	G	N	S	V	D	A	L	Y	I	R	E	R	L	P	K	L	R	Y	D	K	Q	L	V	G	V	T	E	R	E	S	Y	V	K	A
Q	-	-	-	G	L	Y	V	G	G	F	V	D	V	V	S	C	P	K	L	E	Q	E	L	Y	L	D	P	D	Q	V	T	D	Y	L	P	V	T	E	P	L	P	I	T	I	E	H	L	P	E	T	E	V	G	W	T	L	G	L	F	Q	V	S	H	G	I	F	C	T	G	A	I	T	S	P	A	F	L	E	L	A	S	R	L	A	D	T	S	H	V	A	R	A	P	V	K	-	N	L	P	K	-	E	P	L	L	E	I	L	H	T	W	L	P	G	L	S	L	S	S	I	H	P	R	E	L	S	Q	T	P	S	G	P	V	F	Q	H	V	S	L	C	A	L	G	R	R	R	G	T	V	A	V	Y	G	H	D	A	E	W	V	V	S	R	F	S	S	V	S	K	S	E	R	A	H	I	L	Q	H	V	S	S	C	R	L	E	D	L	S	T	P	N	F	V	S	P	L	E	T	L	M	A	K	A	I	D	A	G	F	I	R	D	R	L	D	L	L	K	T	D	R	G	V	A	S	I	L	-	S	P	V	Y	L	K	A
-	-	-	G	P	V	Y	V	S	G	Y	L	A	L	Y	D	R	D	G	-	-	G	E	L	A	L	T	R	E	I	V	A	A	A	L	P	P	A	G	P	L	P	I	N	I	D	H	R	P	-	C	D	I	G	A	V	L	A	V	V	D	D	D	R	G	P	F	F	L	G	V	V	N	C	P	Q	L	G	A	V	L	A	R	A	V	G	P	-	D	F	F	G	D	M	-	-	-	R	L	S	D	E	E	R	L	L	Y	L	L	S	N	Y	L	P	S	A	S	L	S	S	R	-	-	-	-	-	-	-	A	P	D	E	T	L	F	A	H	V	A	L	C	V	I	G	R	R	V	G	T	I	V	V	Y	D	A	S	P	E	A	A	V	A	P	F	Q	-	L	S	A	R	A	R	S	E	L	L	A	A	A	E	S	P	D	R	E	R	V	W	H	M	S	E	E	A	L	T	R	A	L	L	S	T	A	V	N	N	M	L	L	R	D	R	W	E	L	V	A	A	R	R	R	E	A	G	V	-	-	-	-	-	-	-	-	-

Member	Chain	UniProtKB	GO term
d1iega_	A	P16753	GO:0004252
d1iega_	A	P16753	GO:0006508

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Q	A	V	A	P	V	Y	V	G	G	F	L	A	R	Y	D	Q	S	P	D	E	A	E	L	L	L	P	R	D	V	V	E	H	W	L	-	-	-	-	A	L	P	L	N	I	N	H	D	D	T	A	V	V	G	H	V	A	A	M	Q	S	V	R	D	G	L	F	C	L	G	C	V	T	S	P	R	F	L	E	I	V	R	R	A	S	E	K	S	E	L	V	S	R	G	P	V	S	P	L	Q	P	-	D	K	V	V	E	F	L	S	G	S	Y	A	G	L	S	L	A	-	-	-	-	-	-	-	-	-	-	-	-	-	-	P	F	K	A	V	A	L	C	S	V	G	R	R	R	G	T	L	A	V	Y	G	R	D	P	E	W	V	T	Q	R	F	P	D	L	T	A	A	D	R	D	G	L	R	A	Q	W	Q	-	-	-	-	-	-	-	-	G	D	P	F	R	S	D	S	Y	G	L	L	G	N	S	V	D	A	L	Y	I	R	E	R	L	P	K	L	R	Y	D	K	Q	L	V	G	V	T	E	R	E	S	Y	V	K	A
Q	-	-	-	G	L	Y	V	G	G	F	V	D	V	V	S	C	P	K	L	E	Q	E	L	Y	L	D	P	D	Q	V	T	D	Y	L	P	V	T	E	P	L	P	I	T	I	E	H	L	P	E	T	E	V	G	W	T	L	G	L	F	Q	V	S	H	G	I	F	C	T	G	A	I	T	S	P	A	F	L	E	L	A	S	R	L	A	D	T	S	H	V	A	R	A	P	V	K	-	N	L	P	K	-	E	P	L	L	E	I	L	H	T	W	L	P	G	L	S	L	S	S	I	H	P	R	E	L	S	Q	T	P	S	G	P	V	F	Q	H	V	S	L	C	A	L	G	R	R	R	G	T	V	A	V	Y	G	H	D	A	E	W	V	V	S	R	F	S	S	V	S	K	S	E	R	A	H	I	L	Q	H	V	S	S	C	R	L	E	D	L	S	T	P	N	F	V	S	P	L	E	T	L	M	A	K	A	I	D	A	G	F	I	R	D	R	L	D	L	L	K	T	D	R	G	V	A	S	I	L	-	S	P	V	Y	L	K	A
-	-	-	G	P	V	Y	V	S	G	Y	L	A	L	Y	D	R	D	G	-	-	G	E	L	A	L	T	R	E	I	V	A	A	A	L	P	P	A	G	P	L	P	I	N	I	D	H	R	P	-	C	D	I	G	A	V	L	A	V	V	D	D	D	R	G	P	F	F	L	G	V	V	N	C	P	Q	L	G	A	V	L	A	R	A	V	G	P	-	D	F	F	G	D	M	-	-	-	R	L	S	D	E	E	R	L	L	Y	L	L	S	N	Y	L	P	S	A	S	L	S	S	R	-	-	-	-	-	-	-	A	P	D	E	T	L	F	A	H	V	A	L	C	V	I	G	R	R	V	G	T	I	V	V	Y	D	A	S	P	E	A	A	V	A	P	F	Q	-	L	S	A	R	A	R	S	E	L	L	A	A	A	E	S	P	D	R	E	R	V	W	H	M	S	E	E	A	L	T	R	A	L	L	S	T	A	V	N	N	M	L	L	R	D	R	W	E	L	V	A	A	R	R	R	E	A	G	V	-	-	-	-	-	-	-	-	-

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Q	A	V	A	P	V	Y	V	G	G	F	L	A	R	Y	D	Q	S	P	D	E	A	E	L	L	L	P	R	D	V	V	E	H	W	L	-	-	-	-	A	L	P	L	N	I	N	H	D	D	T	A	V	V	G	H	V	A	A	M	Q	S	V	R	D	G	L	F	C	L	G	C	V	T	S	P	R	F	L	E	I	V	R	R	A	S	E	K	S	E	L	V	S	R	G	P	V	S	P	L	Q	P	-	D	K	V	V	E	F	L	S	G	S	Y	A	G	L	S	L	A	-	-	-	-	-	-	-	-	-	-	-	-	-	-	P	F	K	A	V	A	L	C	S	V	G	R	R	R	G	T	L	A	V	Y	G	R	D	P	E	W	V	T	Q	R	F	P	D	L	T	A	A	D	R	D	G	L	R	A	Q	W	Q	-	-	-	-	-	-	-	-	G	D	P	F	R	S	D	S	Y	G	L	L	G	N	S	V	D	A	L	Y	I	R	E	R	L	P	K	L	R	Y	D	K	Q	L	V	G	V	T	E	R	E	S	Y	V	K	A
Q	-	-	-	G	L	Y	V	G	G	F	V	D	V	V	S	C	P	K	L	E	Q	E	L	Y	L	D	P	D	Q	V	T	D	Y	L	P	V	T	E	P	L	P	I	T	I	E	H	L	P	E	T	E	V	G	W	T	L	G	L	F	Q	V	S	H	G	I	F	C	T	G	A	I	T	S	P	A	F	L	E	L	A	S	R	L	A	D	T	S	H	V	A	R	A	P	V	K	-	N	L	P	K	-	E	P	L	L	E	I	L	H	T	W	L	P	G	L	S	L	S	S	I	H	P	R	E	L	S	Q	T	P	S	G	P	V	F	Q	H	V	S	L	C	A	L	G	R	R	R	G	T	V	A	V	Y	G	H	D	A	E	W	V	V	S	R	F	S	S	V	S	K	S	E	R	A	H	I	L	Q	H	V	S	S	C	R	L	E	D	L	S	T	P	N	F	V	S	P	L	E	T	L	M	A	K	A	I	D	A	G	F	I	R	D	R	L	D	L	L	K	T	D	R	G	V	A	S	I	L	-	S	P	V	Y	L	K	A
-	-	-	G	P	V	Y	V	S	G	Y	L	A	L	Y	D	R	D	G	-	-	G	E	L	A	L	T	R	E	I	V	A	A	A	L	P	P	A	G	P	L	P	I	N	I	D	H	R	P	-	C	D	I	G	A	V	L	A	V	V	D	D	D	R	G	P	F	F	L	G	V	V	N	C	P	Q	L	G	A	V	L	A	R	A	V	G	P	-	D	F	F	G	D	M	-	-	-	R	L	S	D	E	E	R	L	L	Y	L	L	S	N	Y	L	P	S	A	S	L	S	S	R	-	-	-	-	-	-	-	A	P	D	E	T	L	F	A	H	V	A	L	C	V	I	G	R	R	V	G	T	I	V	V	Y	D	A	S	P	E	A	A	V	A	P	F	Q	-	L	S	A	R	A	R	S	E	L	L	A	A	A	E	S	P	D	R	E	R	V	W	H	M	S	E	E	A	L	T	R	A	L	L	S	T	A	V	N	N	M	L	L	R	D	R	W	E	L	V	A	A	R	R	R	E	A	G	V	-	-	-	-	-	-	-	-	-

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Q	A	V	A	P	V	Y	V	G	G	F	L	A	R	Y	D	Q	S	P	D	E	A	E	L	L	L	P	R	D	V	V	E	H	W	L	-	-	-	-	A	L	P	L	N	I	N	H	D	D	T	A	V	V	G	H	V	A	A	M	Q	S	V	R	D	G	L	F	C	L	G	C	V	T	S	P	R	F	L	E	I	V	R	R	A	S	E	K	S	E	L	V	S	R	G	P	V	S	P	L	Q	P	-	D	K	V	V	E	F	L	S	G	S	Y	A	G	L	S	L	A	-	-	-	-	-	-	-	-	-	-	-	-	-	-	P	F	K	A	V	A	L	C	S	V	G	R	R	R	G	T	L	A	V	Y	G	R	D	P	E	W	V	T	Q	R	F	P	D	L	T	A	A	D	R	D	G	L	R	A	Q	W	Q	-	-	-	-	-	-	-	-	G	D	P	F	R	S	D	S	Y	G	L	L	G	N	S	V	D	A	L	Y	I	R	E	R	L	P	K	L	R	Y	D	K	Q	L	V	G	V	T	E	R	E	S	Y	V	K	A
Q	-	-	-	G	L	Y	V	G	G	F	V	D	V	V	S	C	P	K	L	E	Q	E	L	Y	L	D	P	D	Q	V	T	D	Y	L	P	V	T	E	P	L	P	I	T	I	E	H	L	P	E	T	E	V	G	W	T	L	G	L	F	Q	V	S	H	G	I	F	C	T	G	A	I	T	S	P	A	F	L	E	L	A	S	R	L	A	D	T	S	H	V	A	R	A	P	V	K	-	N	L	P	K	-	E	P	L	L	E	I	L	H	T	W	L	P	G	L	S	L	S	S	I	H	P	R	E	L	S	Q	T	P	S	G	P	V	F	Q	H	V	S	L	C	A	L	G	R	R	R	G	T	V	A	V	Y	G	H	D	A	E	W	V	V	S	R	F	S	S	V	S	K	S	E	R	A	H	I	L	Q	H	V	S	S	C	R	L	E	D	L	S	T	P	N	F	V	S	P	L	E	T	L	M	A	K	A	I	D	A	G	F	I	R	D	R	L	D	L	L	K	T	D	R	G	V	A	S	I	L	-	S	P	V	Y	L	K	A
-	-	-	G	P	V	Y	V	S	G	Y	L	A	L	Y	D	R	D	G	-	-	G	E	L	A	L	T	R	E	I	V	A	A	A	L	P	P	A	G	P	L	P	I	N	I	D	H	R	P	-	C	D	I	G	A	V	L	A	V	V	D	D	D	R	G	P	F	F	L	G	V	V	N	C	P	Q	L	G	A	V	L	A	R	A	V	G	P	-	D	F	F	G	D	M	-	-	-	R	L	S	D	E	E	R	L	L	Y	L	L	S	N	Y	L	P	S	A	S	L	S	S	R	-	-	-	-	-	-	-	A	P	D	E	T	L	F	A	H	V	A	L	C	V	I	G	R	R	V	G	T	I	V	V	Y	D	A	S	P	E	A	A	V	A	P	F	Q	-	L	S	A	R	A	R	S	E	L	L	A	A	A	E	S	P	D	R	E	R	V	W	H	M	S	E	E	A	L	T	R	A	L	L	S	T	A	V	N	N	M	L	L	R	D	R	W	E	L	V	A	A	R	R	R	E	A	G	V	-	-	-	-	-	-	-	-	-