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  
d1ydxa1  (   2 )              tpklklnnninw--tkrtIdsLF-dLkkge-Le-k--eli
d1ydxa2  ( 194 )                   lealqsq--heitLgeiF-nfksGkylk-s--eer
d1yf2a1  (   2 )    fykeenfkkteigeIpe---dw--eIveLkdVCkkIkaGGtP--tsveey
d1yf2a2  ( 221 )               igeipe---dw--evfeIkdiF-eVktgttPs-tkkseY
d2ih2a2  ( 244 )                rfeteeTrkleisgmpLgdLFhIrfAArspeFkkhpAV
                                              bbaaaab bbbb         33 

                             60        70        80        90        100 
d1ydxa1  (  36 )    tp---eGkyeyfnggv-----------kns--grTd--------kfntfk
d1ydxa2  ( 224 )    le---egkfPYyGagi-----------dnt--gfVa--------epnTek
d1yf2a1  (  46 )    yk---nGtipFVkiedItnsn--kyLtntk--ikIteeGlnnsnAwiVpk
d1yf2a2  ( 253 )    we---nGeiNwItplDLsrlnekIyIgsSe--rkVtkiAlekcnLnlIpk
d2ih2a2  ( 282 )    rkepgpglvpVLTgrN--LkpgwVdYeknhSgLwMpkerAkeLr-dfYat
                            bbbb                     bb               

                             110       120       130       140       150 
d1ydxa1  (  62 )    ntISVIVgg-sCGyVrladknFfCGqsNCTLnlldpleLdlkFAyyaLk-
d1ydxa2  ( 250 )    dTISIisngySlGnIryHeipWfNGtgSIALepn--neIyVPfFYcaLk-
d1yf2a1  (  89 )    nSVLFAMyg-siGeTAINkieVATnqaILGIipk-dniLeseFLyyiLa-
d1yf2a2  ( 298 )    gSIIISTra-pVGyVAVLtveSTFnqgCKGLfqknndsVnteFYAyyLk-
d2ih2a2  ( 329 )    pHLVVAhtkgTrVvAAwDerAYPW-reEFHLlpkegVrldpssLvqwLns
                      bbbb        bbbb    bb   bbbbbb       aaaaaaaaa 

                             160       170       180       190       200 
d1ydxa1  ( 110 )    sqqerIealAfgttiqnIrisdLkeleIp---FTsnknEQhaiAntlsvf
d1ydxa2  ( 298 )    ylqkdikerksdd-spflslklAgeikVp---yVksfqlQrkagkivFll
d1yf2a1  ( 136 )    knknyYsklgmqttqknLnaqiVksfkIp---lP-pleeQkqiAkiltki
d1yf2a2  ( 346 )    fkknlLenlSGgstfkeLsksmLenfkIP---lP-pleeQkqiAkilssv
d2ih2a2  ( 378 )    eaMqkHVrtLyrdfvphLtlrmLerLPVrreyGfht              
                    a aaaaa            aaaaa  bb        aaaaaaaaaaaaaa

                             210       220       230       
d1ydxa1  ( 157 )    derlenlaslieinrklrdeyahklfsld--eaflshwk
d1ydxa2  ( 345 )    dqkldqykkelssltvirdtllkklfpdt          
d1yf2a1  ( 182 )    degieiieksinklerikkglmhklltkgighsrfkkse
d1yf2a2  ( 392 )    dksielkkqkkeklqrmkkkimellltgkvrvkt     
d2ih2a2                                                    
                    aaaaaaaaaaaaaaaaaaaaaaaaa

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d1ydxa1 # 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 d1ydxa1 # 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	Bipartite methylase S protein MG438	Type I restriction modification DNA specificity domain	Mycoplasma genitalium [TaxId: 2097]	view
d1ydxa2 # 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 d1ydxa2 # 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	Bipartite methylase S protein MG438	Type I restriction modification DNA specificity domain	Mycoplasma genitalium [TaxId: 2097]	view
d1yf2a1 # 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 d1yf2a1 # 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	Bipartite methylase S protein MJ0130	Type I restriction modification DNA specificity domain	Methanocaldococcus jannaschii [TaxId: 2190]	view
d1yf2a2 # 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 d1yf2a2 # 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	Bipartite methylase S protein MJ0130	Type I restriction modification DNA specificity domain	Methanocaldococcus jannaschii [TaxId: 2190]	view
d2ih2a2 # 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 d2ih2a2 # 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	DNA methylase TaqI, C-terminal domain	TaqI C-terminal domain-like	Thermus aquaticus [TaxId: 271]	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
d1ydxa1	A	Q49434	GO:0003677
d1ydxa1	A	Q49434	GO:0009307
d1ydxa1	A	Q49434	GO:0003677
d1ydxa1	A	Q49434	GO:0009307
d1ydxa2	A	Q49434	GO:0003677
d1ydxa2	A	Q49434	GO:0009307
d1ydxa2	A	Q49434	GO:0003677
d1ydxa2	A	Q49434	GO:0009307
d1yf2a1	A	Q57594	GO:0003677
d1yf2a1	A	Q57594	GO:0009307
d1yf2a1	A	Q57594	GO:0003677
d1yf2a1	A	Q57594	GO:0009307
d1yf2a2	A	Q57594	GO:0003677
d1yf2a2	A	Q57594	GO:0009307
d1yf2a2	A	Q57594	GO:0003677
d1yf2a2	A	Q57594	GO:0009307
d2ih2a2	A	P14385	GO:0003676
d2ih2a2	A	P14385	GO:0003677
d2ih2a2	A	P14385	GO:0006304
d2ih2a2	A	P14385	GO:0008168
d2ih2a2	A	P14385	GO:0009007
d2ih2a2	A	P14385	GO:0009307
d2ih2a2	A	P14385	GO:0032259

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F	Y	K	E	E	N	F	K	K	T	E	I	G	E	I	P	E	-	-	-	D	W	-	-	E	I	V	E	L	K	D	V	C	K	K	I	K	A	G	G	T	P	-	-	T	S	V	E	E	Y	Y	K	-	-	-	N	G	T	I	P	F	V	K	I	E	D	I	T	N	S	N	-	-	K	Y	L	T	N	T	K	-	-	I	K	I	T	E	E	G	L	N	N	S	N	A	W	I	V	P	K	N	S	V	L	F	A	M	Y	G	-	S	I	G	E	T	A	I	N	K	I	E	V	A	T	N	Q	A	I	L	G	I	I	P	K	-	D	N	I	L	E	S	E	F	L	Y	Y	I	L	A	-	K	N	K	N	Y	Y	S	K	L	G	M	Q	T	T	Q	K	N	L	N	A	Q	I	V	K	S	F	K	I	P	-	-	-	L	P	-	P	L	E	E	Q	K	Q	I	A	K	I	L	T	K	I	D	E	G	I	E	I	I	E	K	S	I	N	K	L	E	R	I	K	K	G	L	M	H	K	L	L	T	K	G	I	G	H	S	R	F	K	K	S	E
-	-	-	-	-	-	-	-	-	-	-	I	G	E	I	P	E	-	-	-	D	W	-	-	E	V	F	E	I	K	D	I	F	-	E	V	K	T	G	T	T	P	S	-	T	K	K	S	E	Y	W	E	-	-	-	N	G	E	I	N	W	I	T	P	L	D	L	S	R	L	N	E	K	I	Y	I	G	S	S	E	-	-	R	K	V	T	K	I	A	L	E	K	C	N	L	N	L	I	P	K	G	S	I	I	I	S	T	R	A	-	P	V	G	Y	V	A	V	L	T	V	E	S	T	F	N	Q	G	C	K	G	L	F	Q	K	N	N	D	S	V	N	T	E	F	Y	A	Y	Y	L	K	-	F	K	K	N	L	L	E	N	L	S	G	G	S	T	F	K	E	L	S	K	S	M	L	E	N	F	K	I	P	-	-	-	L	P	-	P	L	E	E	Q	K	Q	I	A	K	I	L	S	S	V	D	K	S	I	E	L	K	K	Q	K	K	E	K	L	Q	R	M	K	K	K	I	M	E	L	L	L	T	G	K	V	R	V	K	T	-	-	-	-	-
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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										230
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