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  
d1kzyc1  (1714 )                      aleeqrGplPlnktLFlgyAFLLtmatippFn
d1kzyc2  (1867 )                                   npFqnLkVLLVSdqq-qnF
d1t15a1  (1649 )                                       rmsMVvsgLt--pee
d1t15a2  (1758 )                                  rkiFrgleICCygpFtn-mp
d1wf6a1  (   8 )    sesicnslnskleptlenlenldvsaFqApedlldgcriylCg-Fsg-rk
d2ebua1  ( 392 )                      kalgskeipkgaenClegliFvitgvle-sie
d3pc7a-  ( 842 )                             stkvlldIFtgVrLyLppstp---d
d3pc8a-  ( 535 )                               plp-dfFegkhFfLygeFpg-de
                                                         bbbb         

                             60        70        80        90        100 
d1kzyc1  (1773 )    kqyTesQLraGaG-yILed---fneaqÇnt-ayqÇLLIAdq---hC-rtr
d1kzyc2  (1885 )    LelwseiLmtggAasVkqHhSsahnkdialgvFdVVVTdp-----sCpas
d1t15a1  (1662 )    fmlVykFArkhhI-tLtnl---ite------eTtHVVMkTdaefVCertl
d1t15a2  (1777 )    tdqLewmVqlcgA-svvke---LssFtlgtgvhpIVVVqp--dAw----t
d1wf6a1  (  56 )    ldklrrlinsGgG-vrfnq---lne------dvthvivGd---yd----d
d2ebua1  ( 423 )    rdeAkslierYgG-kvtgnvsk---------ktnylvmgr-----dsgqs
d3pc7a-  ( 865 )    fsrLrryFvafdG-dlVqe---fdt------sAthvlg------------
d3pc8a-  ( 557 )    rrrLiryVtaFnG-elEd----mne------rVqfVITaq---wd----p
                    aaaaaaaaaa    bb                  bbbb           a

                             110       120       130       140       150 
d1kzyc1  (1814 )    kYflClas---gipCVsHvWVHdSChanqlqnyrnylLpagysl------
d1kzyc2  (1930 )    VlkcAeal---qLpvVsqeWViqClivgerigfk--------------qh
d1t15a1  (1702 )    kYflGiag---GkwVVSyfWVtqSikerkmlnehdfeVrGDvvngrnhqg
d1t15a2  (1820 )    gfhaIgqmc--eApVVtreWVldSvalyqcqeldtylIpqip        
d1wf6a1  (  89 )    elkqFwnksahrPhvvgAkWlleCFskgymlseepyih            
d2ebua1  ( 458 )    ksdkAaal---gtkiidedgllnlirtmpgkksk----------yeiave
d3pc7a-  ( 894 )    ----srdknp-aAqqVspeWIwaCirkrrlvaps                
d3pc8a-  ( 591 )    nFeealmenp-sLaFVrprWIYsCnekqkllphqlygVv-pq        
                    aaaaaa        bb aaaaaaaaaa                       

                             160     
d1kzyc1  (1855 )    -----eeqrildwqpre
d1kzyc2  (1963 )    pkYkhdyvsh       
d1t15a1  (1749 )    Pkraresq--------d
d1t15a2                              
d1wf6a1                              
d2ebua1  ( 495 )    te               
d3pc7a-                              
d3pc8a-

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d1kzyc1 # 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 d1kzyc1 # 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	53BP1	53BP1	Human (Homo sapiens) [TaxId: 9606]	view
d1kzyc2 # 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 d1kzyc2 # 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	53BP1	53BP1	Human (Homo sapiens) [TaxId: 9606]	view
d1t15a1 # 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 d1t15a1 # 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	Breast cancer associated protein, BRCA1	BRCT domain	Human (Homo sapiens) [TaxId: 9606]	view
d1t15a2 # 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 d1t15a2 # 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	Breast cancer associated protein, BRCA1	BRCT domain	Human (Homo sapiens) [TaxId: 9606]	view
d1wf6a1 # 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 d1wf6a1 # 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 topoisomerase II binding protein 1, TopBP1	DNA topoisomerase II binding protein 1, TopBP1	Human (Homo sapiens) [TaxId: 9606]	view
d2ebua1 # 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 d2ebua1 # 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	Human (Homo sapiens) [TaxId: 9606]	view
d3pc7a- # 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 d3pc7a- # 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	DNA ligase	Human (Homo sapiens) [TaxId: 9606]	view
d3pc8a- # 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 d3pc8a- # 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	DNA-repair protein XRCC1	Mouse (Mus musculus) [TaxId: 10090]	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
d1t15a1	A	P38398	GO:0003677
d1t15a1	A	P38398	GO:0004842
d1t15a1	A	P38398	GO:0005634
d1t15a1	A	P38398	GO:0006281
d1t15a1	A	P38398	GO:0006974
d1t15a1	A	P38398	GO:0008270
d1t15a1	A	Q9BX63	GO:0003677
d1t15a1	A	Q9BX63	GO:0004842
d1t15a1	A	Q9BX63	GO:0005634
d1t15a1	A	Q9BX63	GO:0006281
d1t15a1	A	Q9BX63	GO:0006974
d1t15a1	A	Q9BX63	GO:0008270
d1t15a1	A	P38398	GO:0003677
d1t15a1	A	P38398	GO:0004842
d1t15a1	A	P38398	GO:0005634
d1t15a1	A	P38398	GO:0006281
d1t15a1	A	P38398	GO:0006974
d1t15a1	A	P38398	GO:0008270
d1t15a1	A	Q9BX63	GO:0003677
d1t15a1	A	Q9BX63	GO:0004842
d1t15a1	A	Q9BX63	GO:0005634
d1t15a1	A	Q9BX63	GO:0006281
d1t15a1	A	Q9BX63	GO:0006974
d1t15a1	A	Q9BX63	GO:0008270
d1t15a2	A	P38398	GO:0003677
d1t15a2	A	P38398	GO:0004842
d1t15a2	A	P38398	GO:0005634
d1t15a2	A	P38398	GO:0006281
d1t15a2	A	P38398	GO:0006974
d1t15a2	A	P38398	GO:0008270
d1t15a2	A	Q9BX63	GO:0003677
d1t15a2	A	Q9BX63	GO:0004842
d1t15a2	A	Q9BX63	GO:0005634
d1t15a2	A	Q9BX63	GO:0006281
d1t15a2	A	Q9BX63	GO:0006974
d1t15a2	A	Q9BX63	GO:0008270
d1t15a2	A	P38398	GO:0003677
d1t15a2	A	P38398	GO:0004842
d1t15a2	A	P38398	GO:0005634
d1t15a2	A	P38398	GO:0006281
d1t15a2	A	P38398	GO:0006974
d1t15a2	A	P38398	GO:0008270
d1t15a2	A	Q9BX63	GO:0003677
d1t15a2	A	Q9BX63	GO:0004842
d1t15a2	A	Q9BX63	GO:0005634
d1t15a2	A	Q9BX63	GO:0006281
d1t15a2	A	Q9BX63	GO:0006974
d1t15a2	A	Q9BX63	GO:0008270

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