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  
d1go3e2  (   1 )                           mykileiadvV-Vppeef-gkdlktVk
d1y14b2  (   1 )                           mffikdlslnItLhpsffgprmkqyLk
d4c2mg1  (  14 )    arfikkhkkqvtnpidekngtsncivrvpialyvsLapmyl-enplqGVm
                                            bbbbbbbbb                 

                             60        70        80        90        100 
d1go3e2  (  29 )    iLm-ekyegrldd--vGfvlsIvdVdiggvvh---------------gdg
d1y14b2  (  28 )    tkLleevegsctgk-fgyilcVld-------------ydnIdiq------
d4c2mg1  (  63 )    kqhLnplvmkynnkvggvVlgyegLkIldadplskedtseklikitpdtp
                     a        bb    bbbbbb                            

                             110  
d1go3e2  (  65 )    sayhpVvFeTlVyi
d1y14b2  (  70 )    ---fnVkYrAvVfk
d4c2mg1  ( 113 )    fGfTwChVnLyVwq
                        bbbbbbbbb

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d1go3e2 # 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 d1go3e2 # 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	N-terminal, heterodimerisation domain of RBP7 (RpoE)	N-terminal, heterodimerisation domain of RBP7 (RpoE)	Methanococcus jannaschii [TaxId: 2190]	view
d1y14b2 # 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 d1y14b2 # 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	N-terminal, heterodimerisation domain of RBP7 (RpoE)	N-terminal, heterodimerisation domain of RBP7 (RpoE)	Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]	view
d4c2mg1 # 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 d4c2mg1 # 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	RNA polymerase I subunit A43, N-terminal domain	RNA polymerase I subunit A43, N-terminal domain	Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]	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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-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	M	Y	K	I	L	E	I	A	D	V	V	-	V	P	P	E	E	F	-	G	K	D	L	K	T	V	K	I	L	M	-	E	K	Y	E	G	R	L	D	D	-	-	V	G	F	V	L	S	I	V	D	V	D	I	G	G	V	V	H	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	G	D	G	S	A	Y	H	P	V	V	F	E	T	L	V	Y	I
-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	M	F	F	I	K	D	L	S	L	N	I	T	L	H	P	S	F	F	G	P	R	M	K	Q	Y	L	K	T	K	L	L	E	E	V	E	G	S	C	T	G	K	-	F	G	Y	I	L	C	V	L	D	-	-	-	-	-	-	-	-	-	-	-	-	-	Y	D	N	I	D	I	Q	-	-	-	-	-	-	-	-	-	F	N	V	K	Y	R	A	V	V	F	K
A	R	F	I	K	K	H	K	K	Q	V	T	N	P	I	D	E	K	N	G	T	S	N	C	I	V	R	V	P	I	A	L	Y	V	S	L	A	P	M	Y	L	-	E	N	P	L	Q	G	V	M	K	Q	H	L	N	P	L	V	M	K	Y	N	N	K	V	G	G	V	V	L	G	Y	E	G	L	K	I	L	D	A	D	P	L	S	K	E	D	T	S	E	K	L	I	K	I	T	P	D	T	P	F	G	F	T	W	C	H	V	N	L	Y	V	W	Q

Member	Chain	UniProtKB	GO term
d1go3e2	E	Q57840	GO:0000428
d1go3e2	E	Q57840	GO:0003676
d1go3e2	E	Q57840	GO:0003677
d1go3e2	E	Q57840	GO:0003899
d1go3e2	E	Q57840	GO:0005737
d1go3e2	E	Q57840	GO:0006351
d1go3e2	E	Q57840	GO:0006352
d1go3e2	E	Q57840	GO:0016779
d1go3e2	E	Q57840	GO:0034062
d1go3e2	E	Q60351	GO:0000428
d1go3e2	E	Q60351	GO:0003676
d1go3e2	E	Q60351	GO:0003677
d1go3e2	E	Q60351	GO:0003899
d1go3e2	E	Q60351	GO:0005737
d1go3e2	E	Q60351	GO:0006351
d1go3e2	E	Q60351	GO:0006352
d1go3e2	E	Q60351	GO:0016779
d1go3e2	E	Q60351	GO:0034062
d1go3e2	E	Q57840	GO:0000428
d1go3e2	E	Q57840	GO:0003676
d1go3e2	E	Q57840	GO:0003677
d1go3e2	E	Q57840	GO:0003899
d1go3e2	E	Q57840	GO:0005737
d1go3e2	E	Q57840	GO:0006351
d1go3e2	E	Q57840	GO:0006352
d1go3e2	E	Q57840	GO:0016779
d1go3e2	E	Q57840	GO:0034062
d1go3e2	E	Q60351	GO:0000428
d1go3e2	E	Q60351	GO:0003676
d1go3e2	E	Q60351	GO:0003677
d1go3e2	E	Q60351	GO:0003899
d1go3e2	E	Q60351	GO:0005737
d1go3e2	E	Q60351	GO:0006351
d1go3e2	E	Q60351	GO:0006352
d1go3e2	E	Q60351	GO:0016779
d1go3e2	E	Q60351	GO:0034062
d1y14b2	B	P20433	GO:0006352
d1y14b2	B	P20433	GO:0000288
d1y14b2	B	P20433	GO:0000428
d1y14b2	B	P20433	GO:0000932
d1y14b2	B	P20433	GO:0000956
d1y14b2	B	P20433	GO:0001172
d1y14b2	B	P20433	GO:0003676
d1y14b2	B	P20433	GO:0003697
d1y14b2	B	P20433	GO:0003727
d1y14b2	B	P20433	GO:0003968
d1y14b2	B	P20433	GO:0005515
d1y14b2	B	P20433	GO:0005634
d1y14b2	B	P20433	GO:0005665
d1y14b2	B	P20433	GO:0005737
d1y14b2	B	P20433	GO:0006351
d1y14b2	B	P20433	GO:0006366
d1y14b2	B	P20433	GO:0006367
d1y14b2	B	P20433	GO:0006368
d1y14b2	B	P20433	GO:0031369
d1y14b2	B	P20433	GO:0045948
d1y14b2	B	P20433	GO:0055029
d1y14b2	B	P20433	GO:0060213
d1y14b2	B	P20433	GO:1990328
d1y14b2	B	P34087	GO:0006352
d1y14b2	B	P34087	GO:0000288
d1y14b2	B	P34087	GO:0000428
d1y14b2	B	P34087	GO:0000932
d1y14b2	B	P34087	GO:0000956
d1y14b2	B	P34087	GO:0001172
d1y14b2	B	P34087	GO:0003676
d1y14b2	B	P34087	GO:0003697
d1y14b2	B	P34087	GO:0003727
d1y14b2	B	P34087	GO:0003968
d1y14b2	B	P34087	GO:0005515
d1y14b2	B	P34087	GO:0005634
d1y14b2	B	P34087	GO:0005665
d1y14b2	B	P34087	GO:0005737
d1y14b2	B	P34087	GO:0006351
d1y14b2	B	P34087	GO:0006366
d1y14b2	B	P34087	GO:0006367
d1y14b2	B	P34087	GO:0006368
d1y14b2	B	P34087	GO:0031369
d1y14b2	B	P34087	GO:0045948
d1y14b2	B	P34087	GO:0055029
d1y14b2	B	P34087	GO:0060213
d1y14b2	B	P34087	GO:1990328
d1y14b2	B	P20433	GO:0006352
d1y14b2	B	P20433	GO:0000288
d1y14b2	B	P20433	GO:0000428
d1y14b2	B	P20433	GO:0000932
d1y14b2	B	P20433	GO:0000956
d1y14b2	B	P20433	GO:0001172
d1y14b2	B	P20433	GO:0003676
d1y14b2	B	P20433	GO:0003697
d1y14b2	B	P20433	GO:0003727
d1y14b2	B	P20433	GO:0003968
d1y14b2	B	P20433	GO:0005515
d1y14b2	B	P20433	GO:0005634
d1y14b2	B	P20433	GO:0005665
d1y14b2	B	P20433	GO:0005737
d1y14b2	B	P20433	GO:0006351
d1y14b2	B	P20433	GO:0006366
d1y14b2	B	P20433	GO:0006367
d1y14b2	B	P20433	GO:0006368
d1y14b2	B	P20433	GO:0031369
d1y14b2	B	P20433	GO:0045948
d1y14b2	B	P20433	GO:0055029
d1y14b2	B	P20433	GO:0060213
d1y14b2	B	P20433	GO:1990328
d1y14b2	B	P34087	GO:0006352
d1y14b2	B	P34087	GO:0000288
d1y14b2	B	P34087	GO:0000428
d1y14b2	B	P34087	GO:0000932
d1y14b2	B	P34087	GO:0000956
d1y14b2	B	P34087	GO:0001172
d1y14b2	B	P34087	GO:0003676
d1y14b2	B	P34087	GO:0003697
d1y14b2	B	P34087	GO:0003727
d1y14b2	B	P34087	GO:0003968
d1y14b2	B	P34087	GO:0005515
d1y14b2	B	P34087	GO:0005634
d1y14b2	B	P34087	GO:0005665
d1y14b2	B	P34087	GO:0005737
d1y14b2	B	P34087	GO:0006351
d1y14b2	B	P34087	GO:0006366
d1y14b2	B	P34087	GO:0006367
d1y14b2	B	P34087	GO:0006368
d1y14b2	B	P34087	GO:0031369
d1y14b2	B	P34087	GO:0045948
d1y14b2	B	P34087	GO:0055029
d1y14b2	B	P34087	GO:0060213
d1y14b2	B	P34087	GO:1990328

									10										20										30										40										50										60										70										80										90										100										110
-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	M	Y	K	I	L	E	I	A	D	V	V	-	V	P	P	E	E	F	-	G	K	D	L	K	T	V	K	I	L	M	-	E	K	Y	E	G	R	L	D	D	-	-	V	G	F	V	L	S	I	V	D	V	D	I	G	G	V	V	H	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	G	D	G	S	A	Y	H	P	V	V	F	E	T	L	V	Y	I
-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	M	F	F	I	K	D	L	S	L	N	I	T	L	H	P	S	F	F	G	P	R	M	K	Q	Y	L	K	T	K	L	L	E	E	V	E	G	S	C	T	G	K	-	F	G	Y	I	L	C	V	L	D	-	-	-	-	-	-	-	-	-	-	-	-	-	Y	D	N	I	D	I	Q	-	-	-	-	-	-	-	-	-	F	N	V	K	Y	R	A	V	V	F	K
A	R	F	I	K	K	H	K	K	Q	V	T	N	P	I	D	E	K	N	G	T	S	N	C	I	V	R	V	P	I	A	L	Y	V	S	L	A	P	M	Y	L	-	E	N	P	L	Q	G	V	M	K	Q	H	L	N	P	L	V	M	K	Y	N	N	K	V	G	G	V	V	L	G	Y	E	G	L	K	I	L	D	A	D	P	L	S	K	E	D	T	S	E	K	L	I	K	I	T	P	D	T	P	F	G	F	T	W	C	H	V	N	L	Y	V	W	Q

									10										20										30										40										50										60										70										80										90										100										110
-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	M	Y	K	I	L	E	I	A	D	V	V	-	V	P	P	E	E	F	-	G	K	D	L	K	T	V	K	I	L	M	-	E	K	Y	E	G	R	L	D	D	-	-	V	G	F	V	L	S	I	V	D	V	D	I	G	G	V	V	H	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	G	D	G	S	A	Y	H	P	V	V	F	E	T	L	V	Y	I
-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	M	F	F	I	K	D	L	S	L	N	I	T	L	H	P	S	F	F	G	P	R	M	K	Q	Y	L	K	T	K	L	L	E	E	V	E	G	S	C	T	G	K	-	F	G	Y	I	L	C	V	L	D	-	-	-	-	-	-	-	-	-	-	-	-	-	Y	D	N	I	D	I	Q	-	-	-	-	-	-	-	-	-	F	N	V	K	Y	R	A	V	V	F	K
A	R	F	I	K	K	H	K	K	Q	V	T	N	P	I	D	E	K	N	G	T	S	N	C	I	V	R	V	P	I	A	L	Y	V	S	L	A	P	M	Y	L	-	E	N	P	L	Q	G	V	M	K	Q	H	L	N	P	L	V	M	K	Y	N	N	K	V	G	G	V	V	L	G	Y	E	G	L	K	I	L	D	A	D	P	L	S	K	E	D	T	S	E	K	L	I	K	I	T	P	D	T	P	F	G	F	T	W	C	H	V	N	L	Y	V	W	Q

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