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  
d1m65a-  (   2 )          ypVDLHMHtvaSthAyStlsdYiaqAkqkgIkLFAITDHGpdme
d2anua1  (   5 )       tewLlCDFHVHTnS--dGhlpLgeVVdlFgkhgVdVvSITDhIVDrt
d2czva-  (   2 )    vggggvkfIEMDIrd----------keAyelAkew-FdeVVVSikFne--
                            bb               aaaaaaaaa    bbbbbbb     

                             60        70        80        90        100 
d1m65a-  (  46 )    ---------dAphh----whFinMriwp--rvvdgVGILrGIEANIknvd
d2anua1  (  52 )    leqrrngplgAitedkFqdyLkrLwreqkraw-eygiLIPGVEITNnt--
d2czva-  (  39 )    ----------eVdk----ekLreark-------eygkVAILLsnPk----
                                      aaaa               bbbbbb       

                             110       120       130       140       150 
d1m65a-  (  81 )    GeIdCsgkMfdsL--dLIIAGFhepvfaphdkatNtqAMiaTIasgnVhI
d2anua1  ( 103 )    -------------dlYhIVAVdVk---eyVdPslpVe-IvkLkeqnALVI
d2czva-  (  64 )    --pslVrdTvqkfksylIYVeSnd-----------lrvIrySIekg-VdA
                                    bbbbb                            b

                             160       170       180       190       200 
d1m65a-  ( 129 )    IShPGnp-kYeIdVkaVAeaAakhqVALEINnss----------ncreVA
d2anua1  ( 138 )    AAhpdk-------swyLwanfkdtFDAWEiANrd--dlf-------nsVg
d2czva-  ( 100 )    IISPWvnrkdpGIdhvlAklMvkknVALGFSlrpllysnpyeranllrfM
                    b              aaaa       bbbbb               aaaa

                             210       220       230       240       250 
d1m65a-  ( 178 )    aaVrda----ggwVALGSdShtAftMGeFeeClkiLda--vdFpperILN
d2anua1  ( 183 )    vk--------kyryVANSdFhelwhVySw---------KTlVkSekn---
d2czva-  ( 150 )    mkAWklVekykVrrFLTSSAqekwDVryPrdLIslGvv--IgMeipqAka
                    a            bbbb     333                         

                             260       270  
d1m65a-  ( 222 )    vsPrrLLnFLesrgmapiaeFadl
d2anua1  ( 213 )    -ieaIKeaIrkNtdVaiylrk   
d2czva-  ( 198 )    SIsmyPeiIlkr            
                       aaaaaaaa

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d1m65a- # 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 d1m65a- # 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	Hypothetical protein YcdX	PHP domain	Escherichia coli [TaxId: 562]	view
d2anua1 # 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 d2anua1 # 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	Hypothetical protein TM0559	PHP domain	Thermotoga maritima [TaxId: 2336]	view
d2czva- # 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 d2czva- # 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	Ribonuclease P protein component 3, Rnp3	RNase P subunit p30	Pyrococcus horikoshii [TaxId: 53953]	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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V	G	G	G	G	V	K	F	I	E	M	D	I	R	D	-	-	-	-	-	-	-	-	-	-	K	E	A	Y	E	L	A	K	E	W	-	F	D	E	V	V	V	S	I	K	F	N	E	-	-	-	-	-	-	-	-	-	-	-	-	E	V	D	K	-	-	-	-	E	K	L	R	E	A	R	K	-	-	-	-	-	-	-	E	Y	G	K	V	A	I	L	L	S	N	P	K	-	-	-	-	-	-	P	S	L	V	R	D	T	V	Q	K	F	K	S	Y	L	I	Y	V	E	S	N	D	-	-	-	-	-	-	-	-	-	-	-	L	R	V	I	R	Y	S	I	E	K	G	-	V	D	A	I	I	S	P	W	V	N	R	K	D	P	G	I	D	H	V	L	A	K	L	M	V	K	K	N	V	A	L	G	F	S	L	R	P	L	L	Y	S	N	P	Y	E	R	A	N	L	L	R	F	M	M	K	A	W	K	L	V	E	K	Y	K	V	R	R	F	L	T	S	S	A	Q	E	K	W	D	V	R	Y	P	R	D	L	I	S	L	G	V	V	-	-	I	G	M	E	I	P	Q	A	K	A	S	I	S	M	Y	P	E	I	I	L	K	R	-	-	-	-	-	-	-	-	-	-	-	-

Member	Chain	UniProtKB	GO term
d1m65a_	A	P75914	GO:0003824
d1m65a_	A	P75914	GO:0005515
d1m65a_	A	P75914	GO:0005829
d1m65a_	A	P75914	GO:0008270
d1m65a_	A	P75914	GO:0016787
d1m65a_	A	P75914	GO:0016791
d1m65a_	A	P75914	GO:0042578
d1m65a_	A	P75914	GO:0042802
d1m65a_	A	P75914	GO:0046872
d1m65a_	A	P75914	GO:0071978
d2anua1	A	Q9WZ29	GO:0004534
d2anua1	A	Q9WZ29	GO:0006259
d2anua1	A	Q9WZ29	GO:0035312
d2anua1	A	Q9WZ29	GO:0046872

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

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

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