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

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d2b7ea1  (   4 )              eaekeFitMlken--qvdstWsfsriiselGtrdprYwmv
d2cqna1  ( 743 )            mkrkesaFksmlkqaappieldavWedirerfv-kepaFedi
d2doea1  ( 784 )    ekedsktrgekiksdFfellsnh--hldsqsrwskvkdkve-sdprykav
d2dofa1  ( 888 )    drereqhkreeAiqnFkallsdmvr--ssdvswsdtrrtlr-kdhrwesG
d2kisa1  ( 618 )            learmkqFkdMller--gvsAfstwekElhkiv-fdprylll
d2l9va-  (  11 )         wntkeeakqafkeAlkek--rvpsnasweqamkmii-nDprysal
                             aaaaaaaaaaaaa          aaaaaaaa          

                             60        70        80  
d2b7ea1  (  42 )    d-ddplwKkeMfekylsnr           
d2cqna1  ( 784 )    t--leserkrifkdfmhvlehecqh     
d2doea1  ( 831 )    d--sssmredlFkqyiekiaknlds     
d2dofa1  ( 935 )    sllereeKeklFnehiealtkkkre     
d2kisa1  ( 657 )    n---pkerkqvfdqYvktraeeerrekknk
d2l9va-  (  53 )    Aklsekk                       
                        aaaaaaaaaaaaa

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d2b7ea1 # 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 d2b7ea1 # 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	Pre-mRNA-processing protein PRP40	FF domain	Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]	view
d2cqna1 # 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 d2cqna1 # 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	Hypa/FBP11	FF domain	Human (Homo sapiens) [TaxId: 9606]	view
d2doea1 # 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 d2doea1 # 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	Transcription elongation regulator 1	FF domain	Human (Homo sapiens) [TaxId: 9606]	view
d2dofa1 # 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 d2dofa1 # 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	Transcription elongation regulator 1	FF domain	Human (Homo sapiens) [TaxId: 9606]	view
d2kisa1 # 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 d2kisa1 # 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	FF domain	Human (Homo sapiens) [TaxId: 9606]	view
d2l9va- # 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 d2l9va- # 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	FF domain	Human (Homo sapiens) [TaxId: 9606]	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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E	K	E	D	S	K	T	R	G	E	K	I	K	S	D	F	F	E	L	L	S	N	H	-	-	H	L	D	S	Q	S	R	W	S	K	V	K	D	K	V	E	-	S	D	P	R	Y	K	A	V	D	-	-	S	S	S	M	R	E	D	L	F	K	Q	Y	I	E	K	I	A	K	N	L	D	S	-	-	-	-	-
D	R	E	R	E	Q	H	K	R	E	E	A	I	Q	N	F	K	A	L	L	S	D	M	V	R	-	-	S	S	D	V	S	W	S	D	T	R	R	T	L	R	-	K	D	H	R	W	E	S	G	S	L	L	E	R	E	E	K	E	K	L	F	N	E	H	I	E	A	L	T	K	K	K	R	E	-	-	-	-	-
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Member	Chain	UniProtKB	GO term
d2doea1	A	O14776	GO:0070063
d2doea1	A	O14776	GO:0070063
d2dofa1	A	O14776	GO:0070063
d2dofa1	A	O14776	GO:0070063

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