3FYH - JenaLib

Asymmetric Unit (28, 28)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	PHE A:107 , GLY A:108 , SER A:109 , GLY A:110 , LYS A:111 , THR A:112 , GLN A:113 , ARG A:158 , GLN A:161 , TYR A:301 , ASP A:302 , SER A:303 , PRO A:304 , HIS A:305 , LEU A:306 , PRO A:307 , ASP A:308 , THR A:316 , GLU A:317 , MG A:501 , HOH A:602 , HOH A:603 , HOH A:616 , HOH A:633 , HOH A:641 , HOH A:685	BINDING SITE FOR RESIDUE ADP A 401
02	AC2	SOFTWARE	THR A:112 , ADP A:401 , HOH A:601 , HOH A:602 , HOH A:603 , HOH A:608	BINDING SITE FOR RESIDUE MG A 501
03	AC3	SOFTWARE	GLN A:98 , ASP A:246 , HOH A:604 , HOH A:605 , HOH A:606 , HOH A:607	BINDING SITE FOR RESIDUE MG A 502
04	AC4	SOFTWARE	THR A:6 , LEU A:8 , VAL A:11 , GLU A:164	BINDING SITE FOR RESIDUE NA A 509
05	AC5	SOFTWARE	ARG A:230 , W A:516 , W A:517 , W A:519 , W A:521 , HOH A:617	BINDING SITE FOR RESIDUE W A 511
06	AC6	SOFTWARE	W A:516 , W A:518 , W A:522	BINDING SITE FOR RESIDUE W A 512
07	AC7	SOFTWARE	ALA A:228 , W A:515 , W A:520 , W A:521 , W A:522 , HOH A:721	BINDING SITE FOR RESIDUE W A 513
08	AC8	SOFTWARE	W A:515 , W A:518 , W A:519	BINDING SITE FOR RESIDUE W A 514
09	AC9	SOFTWARE	W A:513 , W A:514 , W A:518 , W A:522	BINDING SITE FOR RESIDUE W A 515
10	BC1	SOFTWARE	W A:511 , W A:512 , W A:521 , W A:522 , HOH A:721	BINDING SITE FOR RESIDUE W A 516
11	BC2	SOFTWARE	ARG A:230 , W A:511 , W A:518 , W A:519	BINDING SITE FOR RESIDUE W A 517
12	BC3	SOFTWARE	W A:512 , W A:514 , W A:515 , W A:517	BINDING SITE FOR RESIDUE W A 518
13	BC4	SOFTWARE	ARG A:230 , W A:511 , W A:514 , W A:517 , W A:520 , HOH A:617 , HOH A:700	BINDING SITE FOR RESIDUE W A 519
14	BC5	SOFTWARE	W A:513 , W A:519 , W A:521	BINDING SITE FOR RESIDUE W A 520
15	BC6	SOFTWARE	W A:511 , W A:513 , W A:516 , W A:520 , HOH A:721	BINDING SITE FOR RESIDUE W A 521
16	BC7	SOFTWARE	W A:512 , W A:513 , W A:515 , W A:516 , HOH A:721	BINDING SITE FOR RESIDUE W A 522
17	BC8	SOFTWARE	W A:528 , W A:529 , W A:531 , W A:533	BINDING SITE FOR RESIDUE W A 523
18	BC9	SOFTWARE	W A:528 , W A:529 , W A:534	BINDING SITE FOR RESIDUE W A 524
19	CC1	SOFTWARE	W A:527 , W A:532 , W A:533 , W A:534	BINDING SITE FOR RESIDUE W A 525
20	CC2	SOFTWARE	W A:527 , W A:530 , W A:531 , W A:532	BINDING SITE FOR RESIDUE W A 526
21	CC3	SOFTWARE	W A:525 , W A:526 , W A:530 , W A:534	BINDING SITE FOR RESIDUE W A 527
22	CC4	SOFTWARE	W A:523 , W A:524 , W A:534	BINDING SITE FOR RESIDUE W A 528
23	CC5	SOFTWARE	W A:523 , W A:524 , W A:530 , W A:531	BINDING SITE FOR RESIDUE W A 529
24	CC6	SOFTWARE	W A:526 , W A:527 , W A:529	BINDING SITE FOR RESIDUE W A 530
25	CC7	SOFTWARE	W A:523 , W A:526 , W A:529	BINDING SITE FOR RESIDUE W A 531
26	CC8	SOFTWARE	W A:525 , W A:526 , W A:533	BINDING SITE FOR RESIDUE W A 532
27	CC9	SOFTWARE	W A:523 , W A:525 , W A:532	BINDING SITE FOR RESIDUE W A 533
28	DC1	SOFTWARE	W A:524 , W A:525 , W A:527 , W A:528	BINDING SITE FOR RESIDUE W A 534

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 2)

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
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Chain A from PDB  Type:PROTEIN  Length:296
 aligned with RADA_METVO | O73948 from UniProtKB/Swiss-Prot  Length:322

    Alignment length:318
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314        
           RADA_METVO     5 LTDLPGVGPSTAEKLVEAGYIDFMKIATATVGELTDIEGISEKAAAKMIMGARDLCDLGFKSGIDLLKQRSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQMAEHAGIDGQTVLDNTFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLTSTFRNEYTGRGKLAERQQKLGRHMATLNKLADLFNCVVLVTNQVSAKPDAFFGMAEQAIGGHIVGHAATFRFFVRKGKGDKRVAKLYDSPHLPDAEAIFRITEKGIQD 322
               SCOP domains d3fyha1 A:5-64 DNA repair protein Rad51, N-terminal domain  d3fyha2 A:65-322 DNA repair protein Rad51, catalytic domain                                                                                                                                                                                                        SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......hhhhhhhhhhh...hhhhhhh.hhhhhhh....hhhhhhhhhhhhhhhh......hhhhhhhhh...ee...hhhhhhhh...ee..eeeeeee....hhhhhhhhhhhhhhhhh.ee......hhhhhh.eeeeeee.....hhhhhhhhhhhh..hhhhhhhheeeee..hhhhhhhhhhhhhhhhhh..eeeeeeee..hhhhhhhh.---hhhhhhhhhhhhhhhhhhhhhhh..eeeeeee..-------------------.....eeeeeee....eeeeeeee......eeeeeeee..eee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------RECA_2  PDB: A:76-258 UniProt: 76-258                                                                                                                                                  ----RECA_3  PDB: A:279-322 UniProt: 263-322                      PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3fyh A   5 LTDLPGVGPSTAEKLVEAGYIDFMKIATATVGELTDIEGISEKAAAKMIMGARDLCDLGFKSGIDLLKQRSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQMAEHAGIDGQTVLDNTFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLTSTFRNEYT---KLAERQQKLGRHMATLNKLADLFNCVVLVTNQVS-------------------GHAATFRFFVRKGKGDKRVAKLYDSPHLPDAEAIFRITEKGIQD 322
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       | - |     234       244       254    |    -         -    |  284       294       304       314        
                                                                                                                                                                                                                                                   222 226                              259                 279

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 (2, 2)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (RADA_METVO | O73948)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0008094	DNA-dependent ATPase activity	Catalysis of the reaction: ATP + H2O = ADP + phosphate; this reaction requires the presence of single- or double-stranded DNA, and it drives another reaction.
	GO:0003684	damaged DNA binding	Interacting selectively and non-covalently with damaged DNA.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
biological process
	GO:0006259	DNA metabolic process	Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides.
	GO:0006310	DNA recombination	Any process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Intrachromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction.
	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: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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	Cis Peptide Bonds
		Asp A:211 - Ser A:212	[ RasMol ]

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	3fyh
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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 28)

Sites (28, 28)