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  
d1bgva2  (   1 )          skyVdrViaeVekkyadepeFvqTVeevLsslgpvVdahpeyee
d1c1da2  (   1 )                                                      
d1gtma2  (   3 )          adpyeiVikqleraaqy------m------------------ei
d1hwxa3  (   1 )    adreddpnffkmVegffdrgasi------vedklvedlktrqtqeqkrnr
d3vpxa1  (   1 )                                                      
                                                                      

                             60        70        80        90        100 
d1bgva2  (  45 )    -valLermV--iPerviefrVpWeddngkvhvntGyRVQFngaigpykgG
d1c1da2  (   1 )      sidsal-nwdgemtvtrfda-------mtgAhFVIRLdstqlgpAAgG
d1gtma2  (  23 )    seealeflk--rpqrivevtIpVemddgsvkvftGFRVQHnwargpTkgG
d1hwxa3  (  45 )    Vrgilriik--pCnhvlslsFpirrddgswevIeGyRAQHshqrtpCkGG
d3vpxa1  (   1 )     meifkymehqdYeqLvicqdk-------aSgLkAIIAIhdttlgpAlGG
                       aaaaa      bbbbbbb           bbbbbbbbb     bb  

                             110       120       130       140       150 
d1bgva2  (  92 )    LrFap----sVnlSiMKflGFeqafkDslttlpmgGAKGGSdF--dpngk
d1c1da2  (  41 )    TrAaqysnladALtdAGklAgamtlkmavsnlpmGGGKSVIaLpaprhsI
d1gtma2  (  71 )    IrWhp----eEtlstVkalAAwmtwkTavmdlpygGGkGGIiv--dpkkL
d1hwxa3  (  93 )    IrYst----dVsvdeVkAlASlmTykcavvdvpfGGAkAGVkI--npkny
d3vpxa1  (  43 )    TrMwtYaseeeAIedALrlArgmtykNaaaglnlgGGKTVIig--npktd
                    bbb         aaaaaaaaaaaaaaaaa     bbbbbbb         

                             160       170       180       190       200 
d1bgva2  ( 136 )    sdreVmrFCqaFMteLyr--hIgpdiDvPagdlgVgarEigyMygqYrki
d1c1da2  (  91 )    dpstwarILrIHAenIdk----lsgnYwTgpdvnTnsadMdtLndtTe--
d1gtma2  ( 115 )    sdrekerLArgYIraIyd--vIsPyeDiPapdvyTnpqIMawMMdeYe-t
d1hwxa3  ( 137 )    tdeDLekITrrFTmeLAkkgfIgpgvDVPapnmsTgerEMswIAdtyast
d3vpxa1  (  91 )    kn---deMFraFGryIeg----lngrYiTaedvgTteadmdlInleTd--
                     aaaaaaaaaaaaaaa          bb        aaaaaaaaaa    

                             210       220  
d1bgva2  ( 184 )    vg---gfyngVLtg          
d1c1da2  ( 135 )    ----------fVfgrslerggags
d1gtma2  ( 162 )    isrrktpAfgIItgkplsi     
d1hwxa3  ( 187 )    iGhydinAhaCVtgKpisqggi  
d3vpxa1  ( 132 )    ----------yV

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d1bgva2 # 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 d1bgva2 # 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	Glutamate dehydrogenase	Aminoacid dehydrogenases	Clostridium symbiosum [TaxId: 1512]	view
d1c1da2 # 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 d1c1da2 # 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	Phenylalanine dehydrogenase	Aminoacid dehydrogenases	Rhodococcus sp., M4 [TaxId: 1831]	view
d1gtma2 # 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 d1gtma2 # 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	Glutamate dehydrogenase	Aminoacid dehydrogenases	Pyrococcus furiosus [TaxId: 2261]	view
d1hwxa3 # 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 d1hwxa3 # 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	Glutamate dehydrogenase	Aminoacid dehydrogenases	Cow (Bos taurus) [TaxId: 9913]	view
d3vpxa1 # 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 d3vpxa1 # 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	Sporosarcina psychrophila [TaxId: 1476]	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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Member	Chain	UniProtKB	GO term
d1bgva2	A	P24295	GO:0004352
d1bgva2	A	P24295	GO:0004353
d1bgva2	A	P24295	GO:0004354
d1bgva2	A	P24295	GO:0005829
d1bgva2	A	P24295	GO:0006520
d1bgva2	A	P24295	GO:0006537
d1bgva2	A	P24295	GO:0016491
d1bgva2	A	P24295	GO:0016639
d1bgva2	A	P24295	GO:0019552
d1bgva2	A	P24295	GO:0055114
d1bgva2	A	P24295	GO:0004352
d1bgva2	A	P24295	GO:0004353
d1bgva2	A	P24295	GO:0004354
d1bgva2	A	P24295	GO:0005829
d1bgva2	A	P24295	GO:0006520
d1bgva2	A	P24295	GO:0006537
d1bgva2	A	P24295	GO:0016491
d1bgva2	A	P24295	GO:0016639
d1bgva2	A	P24295	GO:0019552
d1bgva2	A	P24295	GO:0055114
d1c1da2	A	Q59771	GO:0000166
d1c1da2	A	Q59771	GO:0006520
d1c1da2	A	Q59771	GO:0006559
d1c1da2	A	Q59771	GO:0009094
d1c1da2	A	Q59771	GO:0016491
d1c1da2	A	Q59771	GO:0016639
d1c1da2	A	Q59771	GO:0050175
d1c1da2	A	Q59771	GO:0000166
d1c1da2	A	Q59771	GO:0006520
d1c1da2	A	Q59771	GO:0006559
d1c1da2	A	Q59771	GO:0009094
d1c1da2	A	Q59771	GO:0016491
d1c1da2	A	Q59771	GO:0016639
d1c1da2	A	Q59771	GO:0050175
d1gtma2	A	P80319	GO:0004352
d1gtma2	A	P80319	GO:0004353
d1gtma2	A	P80319	GO:0004354
d1gtma2	A	P80319	GO:0005737
d1gtma2	A	P80319	GO:0006520
d1gtma2	A	P80319	GO:0006538
d1gtma2	A	P80319	GO:0016491
d1gtma2	A	P80319	GO:0016639
d1gtma2	A	P80319	GO:0004352
d1gtma2	A	P80319	GO:0004353
d1gtma2	A	P80319	GO:0004354
d1gtma2	A	P80319	GO:0005737
d1gtma2	A	P80319	GO:0006520
d1gtma2	A	P80319	GO:0006538
d1gtma2	A	P80319	GO:0016491
d1gtma2	A	P80319	GO:0016639

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-	-	-	-	-	-	A	D	P	Y	E	I	V	I	K	Q	L	E	R	A	A	Q	Y	-	-	-	-	-	-	M	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	E	I	S	E	E	A	L	E	F	L	K	-	-	R	P	Q	R	I	V	E	V	T	I	P	V	E	M	D	D	G	S	V	K	V	F	T	G	F	R	V	Q	H	N	W	A	R	G	P	T	K	G	G	I	R	W	H	P	-	-	-	-	E	E	T	L	S	T	V	K	A	L	A	A	W	M	T	W	K	T	A	V	M	D	L	P	Y	G	G	G	K	G	G	I	I	V	-	-	D	P	K	K	L	S	D	R	E	K	E	R	L	A	R	G	Y	I	R	A	I	Y	D	-	-	V	I	S	P	Y	E	D	I	P	A	P	D	V	Y	T	N	P	Q	I	M	A	W	M	M	D	E	Y	E	-	T	I	S	R	R	K	T	P	A	F	G	I	I	T	G	K	P	L	S	I	-	-	-	-	-
A	D	R	E	D	D	P	N	F	F	K	M	V	E	G	F	F	D	R	G	A	S	I	-	-	-	-	-	-	V	E	D	K	L	V	E	D	L	K	T	R	Q	T	Q	E	Q	K	R	N	R	V	R	G	I	L	R	I	I	K	-	-	P	C	N	H	V	L	S	L	S	F	P	I	R	R	D	D	G	S	W	E	V	I	E	G	Y	R	A	Q	H	S	H	Q	R	T	P	C	K	G	G	I	R	Y	S	T	-	-	-	-	D	V	S	V	D	E	V	K	A	L	A	S	L	M	T	Y	K	C	A	V	V	D	V	P	F	G	G	A	K	A	G	V	K	I	-	-	N	P	K	N	Y	T	D	E	D	L	E	K	I	T	R	R	F	T	M	E	L	A	K	K	G	F	I	G	P	G	V	D	V	P	A	P	N	M	S	T	G	E	R	E	M	S	W	I	A	D	T	Y	A	S	T	I	G	H	Y	D	I	N	A	H	A	C	V	T	G	K	P	I	S	Q	G	G	I	-	-
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									10										20										30										40										50										60										70										80										90										100										110										120										130										140										150										160										170										180										190										200										210										220
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									10										20										30										40										50										60										70										80										90										100										110										120										130										140										150										160										170										180										190										200										210										220
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