1XG7 - JenaLib

Title :   CONSERVED HYPOTHETICAL PROTEIN PFU-877259-001 FROM PYROCOCCUS FURIOSUS

Authors :   J. Chang, M. Zhao, P. Horanyi, H. Xu, H. Yang, Z. -J. Liu, L. Chen, W. Zhou, W. Tempel, D. Lee, D. Lin, S. -H. Chang, J. C. Eneh, R. C. Hopkins, F. E. Je H. -S. Lee, T. Li, F. L. Poole Ii, C. Shah, F. J. Sugar, C. -Y. Chen, W. B. A Iii, J. S. Richardson, D. C. Richardson, J. P. Rose, M. W. W. Adams, B. -C Southeast Collaboratory For Structural Genomics (Secsg)

Date :   16 Sep 04 (Deposition) - 23 Nov 04 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.88

Chains :   Asym./Biol. Unit : A,B

Keywords :   Conserved Hypothetical Protein, Southeast Collaboratory For Structural Genomics, Secsg, Hyperthermophile, Pyrococcus Furiosus, Protein Structure Initiative, Psi, Structural Genomics, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. Chang, M. Zhao, P. Horanyi, H. Xu, H. Yang, Z. -J. Liu, L. Chen, W. Zhou J. Habel, W. Tempel, D. Lee, D. Lin, S. -H. Chang, J. C. Eneh, R. C. Hopkins, F. E. Jenney Jr. , H. -S. Lee, T. Li, F. L. Poole Ii, C. Shah, F. J. Sugar, C. -Y. Chen, W. B. Arendall Iii, J. S. Richardson, D. C. Richardson, J. P. Rose, M. W. W. Adams, B. -C. Wang, Southeast Collaboratory For Structural Genomics
Conserved Hypothetical Protein Pfu-877259-001 From Pyrococcus Furiosus
To Be Published
PubMed: search

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Asymmetric/Biological Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
	(details for a mapped element are shown in a popup box when the mouse pointer rests over it)

Chain A from PDB  Type:PROTEIN  Length:245
 aligned with AGOG_PYRFU | Q8U2D5 from UniProtKB/Swiss-Prot  Length:242

    Alignment length:245
                               1                                                                                                                                                                                                                                                 
                               |     7        17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237     
           AGOG_PYRFU     - ---MRELVEIIKGIGIEGAKEVEEKVDRQFYALQYLFRHQDPEMFIKLVIANSLVSYQLTGRGEDWWWEFARYFSGREVDSIWKAYGEFLPKSKNNRRLIEAKLNRIRKVEGFLSTLTLKDLEGYYKNMKMLWKALIKIMGSREDSKTIVFTVKMFGYASRIAFSRFIPYPMEIPIPEDLRIKSVTSKLTQEKPTKFWMKIGQESGVPPLHIDSLIWPLLGNADLTPLDIELRNKLMKLTELLGL 242
               SCOP domains d1xg7a_ A: Hypothetical protein PF0904                                                                                                                                                                                                                SCOP domains
               CATH domains 1xg7A01 A:-2-23,A:167-242 1xg7A02 A:24-166 Hypothetical protein; domain 2                                                                                                1xg7A01 A:-2-23,A:167-242                                                    CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh......hhhhhhhhhhhhhh.....hhhhhhhhhh........hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhh..............hhhhhhhhhh....hhhhhhhhhhhhhh.hhhhhhhhhhhhhh.......hhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1xg7 A  -2 HHGSRELVEIIKGIGIEGAKEVEEKVDRQFYALQYLFRHQDPEMFIKLVIANSLVSYQLTGRGEDWWWEFARYFSGREVDSIWKAYGEFLPKSKNNRRLIEAKLNRIRKVEGFLSTLTLKDLEGYYKNMKMLWKALIKIMGSREDSKTIVFTVKMFGYASRIAFSRFIPYPMEIPIPEDLRIKSVTSKLTQEKPTKFWMKIGQESGVPPLHIDSLIWPLLGNADLTPLDIELRNKLMKLTELLGL 242
                                     7        17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237

Chain B from PDB  Type:PROTEIN  Length:239
 aligned with AGOG_PYRFU | Q8U2D5 from UniProtKB/Swiss-Prot  Length:242

    Alignment length:239
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232         
           AGOG_PYRFU     3 ELVEIIKGIGIEGAKEVEEKVDRQFYALQYLFRHQDPEMFIKLVIANSLVSYQLTGRGEDWWWEFARYFSGREVDSIWKAYGEFLPKSKNNRRLIEAKLNRIRKVEGFLSTLTLKDLEGYYKNMKMLWKALIKIMGSREDSKTIVFTVKMFGYASRIAFSRFIPYPMEIPIPEDLRIKSVTSKLTQEKPTKFWMKIGQESGVPPLHIDSLIWPLLGNADLTPLDIELRNKLMKLTELLG 241
               SCOP domains d1xg7b_ B: Hypothetical protein PF0904                                                                                                                                                                                                          SCOP domains
               CATH domains 1xg7B01              1xg7B02 B:24-166 Hypothetical protein; domain 2                                                                                                1xg7B01 B:3-23,B:167-241                                                    CATH domains
           Pfam domains (1) -DUF1886-1xg7B01 B:4-238                                                                                                                                                                                                                    --- Pfam domains (1)
           Pfam domains (2) -DUF1886-1xg7B02 B:4-238                                                                                                                                                                                                                    --- Pfam domains (2)
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh......hhhhhhhhhhhhhh.....hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh.............hhhhhhhhhh....hhhhhhhhhhhhhh.hhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1xg7 B   3 ELVEIIKGIGIEGAKEVEEKVDRQFYALQYLFRHQDPEMFIKLVIANSLVSYQLTGRGEDWWWEFARYFSGREVDSIWKAYGEFLPKSKNNRRLIEAKLNRIRKVEGFLSTLTLKDLEGYYKNMKMLWKALIKIMGSREDSKTIVFTVKMFGYASRIAFSRFIPYPMEIPIPEDLRIKSVTSKLTQEKPTKFWMKIGQESGVPPLHIDSLIWPLLGNADLTPLDIELRNKLMKLTELLG 241
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ Modified Residue	(blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Classification and Annotation

SCOP Domains (1, 2)

CATH Domains (2, 4)

Pfam Domains (1, 2)

Gene Ontology (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (AGOG_PYRFU | Q8U2D5)

molecular function
	GO:0003906	DNA-(apurinic or apyrimidinic site) lyase activity	Catalysis of the cleavage of the C-O-P bond 3' to the apurinic or apyrimidinic site in DNA by a beta-elimination reaction, leaving a 3'-terminal unsaturated sugar and a product with a terminal 5'-phosphate.
	GO:0003824	catalytic activity	Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
	GO:0016787	hydrolase activity	Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
	GO:0016799	hydrolase activity, hydrolyzing N-glycosyl compounds	Catalysis of the hydrolysis of any N-glycosyl bond.
	GO:0016829	lyase activity	Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
	GO:0000702	oxidized base lesion DNA N-glycosylase activity	Catalysis of the removal of oxidized bases by cleaving the N-C1' glycosidic bond between the target damaged DNA base and the deoxyribose sugar. The reaction releases a free base and leaves an apurinic/apyrimidinic (AP) site.
biological process
	GO:0006281	DNA repair	The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations, chemical mutagens, fungal and bacterial toxins, etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal, base excision repair, nucleotide excision repair, photoreactivation, bypass, double-strand break repair pathway, and mismatch repair pathway.
	GO:0006284	base-excision repair	In base excision repair, an altered base is removed by a DNA glycosylase enzyme, followed by excision of the resulting sugar phosphate. The small gap left in the DNA helix is filled in by the sequential action of DNA polymerase and DNA ligase.
	GO:0006974	cellular response to DNA damage stimulus	Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating damage to its DNA from environmental insults or errors during metabolism.

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	1xg7
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	AGOG_PYRFU \| Q8U2D5
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