1JX7 - JenaLib

Asym./Biol. Unit (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF YCHN PROTEIN FROM E.COLI

Authors :   D. H. Shin, H. Yokota, R. Kim, S. -H. Kim, Berkeley Structural Genomics Center (Bsgc)

Date :   05 Sep 01 (Deposition) - 07 Sep 02 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.80

Chains :   Asym./Biol. Unit : A,B,C,D,E,F

Keywords :   New Fold, Hexamer, Structural Genomics, Bsgc Structure Funded By Nih, Protein Structure Initiative, Psi, Berkeley Structural Genomics Center, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   D. H. Shin, H. Yokota, R. Kim, S. -H. Kim
Crystal Structure Of A Conserved Hypothetical Protein From Escherichia Coli
J. Struct. Funct. Genom. V. 2 53 2002
PubMed-ID: 12836674 | Reference-DOI: 10.1023/A:1014450817696
(for further references see the PDB file header)

Molecule 1 - HYPOTHETICAL PROTEIN YCHN
	Chains	:	A, B, C, D, E, F
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562

		1	2	3	4	5	6
Asymmetric/Biological Unit	:	A	B	C	D	E	F

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (1, 18)

No.	Name	Count	Type	Full Name
1	MSE	18	Mod. Amino Acid	SELENOMETHIONINE

(no "Site" information available for 1JX7)

(no "SS Bond" information available for 1JX7)

(no "Cis Peptide Bond" information available for 1JX7)

(no "SAP(SNP)/Variant" information available for 1JX7)

(no "PROSITE Motif" information available for 1JX7)

(no "Exon" information available for 1JX7)

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:117
 aligned with YCHN_ECOLI | P0AB52 from UniProtKB/Swiss-Prot  Length:117

    Alignment length:117
                                    10        20        30        40        50        60        70        80        90       100       110       
          YCHN_ECOLI      1 MQKIVIVANGAPYGSESLFNSLRLAIALREQESNLDLRLFLMSDAVTAGLRGQKPGEGYNIQQMLEILTAQNVPVKLCKTCTDGRGISTLPLIDGVEIGTLVELAQWTLSADKVLTF  117
               SCOP domains d1jx7a_ A: Hypothetical protein YchN                                                                                  SCOP domains
               CATH domains -1jx7A00 A:2-117  [code=3.40.1260.10, no name defined]                                                                CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee.......hhhhhhhhhhhhhhhhh...eeeeee.hhhhhhhh.........hhhhhhhhhhhh...eeeehhhhhhh..........eeeehhhhhhhhh....eeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                1jx7 A    1 mQKIVIVANGAPYGSESLFNSLRLAIALREQESNLDLRLFLmSDAVTAGLRGQKPGEGYNIQQmLEILTAQNVPVKLCKTCTDGRGISTLPLIDGVEIGTLVELAQWTLSADKVLTF  117
                            |       10        20        30        40 |      50        60   |    70        80        90       100       110       
                            |                                       42-MSE                64-MSE                                                 
                            1-MSE

Chain B from PDB  Type:PROTEIN  Length:117
 aligned with YCHN_ECOLI | P0AB52 from UniProtKB/Swiss-Prot  Length:117

    Alignment length:117
                                    10        20        30        40        50        60        70        80        90       100       110       
          YCHN_ECOLI      1 MQKIVIVANGAPYGSESLFNSLRLAIALREQESNLDLRLFLMSDAVTAGLRGQKPGEGYNIQQMLEILTAQNVPVKLCKTCTDGRGISTLPLIDGVEIGTLVELAQWTLSADKVLTF  117
               SCOP domains d1jx7b_ B: Hypothetical protein YchN                                                                                  SCOP domains
               CATH domains -1jx7B00 B:202-317  [code=3.40.1260.10, no name defined]                                                              CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee......hhhhhhhhhhhhhhhhhh...eeeeee.hhhhhhhh.........hhhhhhhhhh.....eeeehhhhhhh..........eeeehhhhhhhhhhhh.eeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                1jx7 B  201 mQKIVIVANGAPYGSESLFNSLRLAIALREQESNLDLRLFLmSDAVTAGLRGQKPGEGYNIQQmLEILTAQNVPVKLCKTCTDGRGISTLPLIDGVEIGTLVELAQWTLSADKVLTF  317
                            |      210       220       230       240 |     250       260   |   270       280       290       300       310       
                          201-MSE                                  242-MSE               264-MSE

Chain C from PDB  Type:PROTEIN  Length:117
 aligned with YCHN_ECOLI | P0AB52 from UniProtKB/Swiss-Prot  Length:117

    Alignment length:117
                                    10        20        30        40        50        60        70        80        90       100       110       
          YCHN_ECOLI      1 MQKIVIVANGAPYGSESLFNSLRLAIALREQESNLDLRLFLMSDAVTAGLRGQKPGEGYNIQQMLEILTAQNVPVKLCKTCTDGRGISTLPLIDGVEIGTLVELAQWTLSADKVLTF  117
               SCOP domains d1jx7c_ C: Hypothetical protein YchN                                                                                  SCOP domains
               CATH domains -1jx7C00 C:402-517  [code=3.40.1260.10, no name defined]                                                              CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee.......hhhhhhhhhhhhhhhhh...eeeeee.hhhhhhhh.........hhhhhhhhhhhh...eeeehhhhhhh..........eeeehhhhhhhhhhh..eeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                1jx7 C  401 mQKIVIVANGAPYGSESLFNSLRLAIALREQESNLDLRLFLmSDAVTAGLRGQKPGEGYNIQQmLEILTAQNVPVKLCKTCTDGRGISTLPLIDGVEIGTLVELAQWTLSADKVLTF  517
                            |      410       420       430       440 |     450       460   |   470       480       490       500       510       
                          401-MSE                                  442-MSE               464-MSE

Chain D from PDB  Type:PROTEIN  Length:117
 aligned with YCHN_ECOLI | P0AB52 from UniProtKB/Swiss-Prot  Length:117

    Alignment length:117
                                    10        20        30        40        50        60        70        80        90       100       110       
          YCHN_ECOLI      1 MQKIVIVANGAPYGSESLFNSLRLAIALREQESNLDLRLFLMSDAVTAGLRGQKPGEGYNIQQMLEILTAQNVPVKLCKTCTDGRGISTLPLIDGVEIGTLVELAQWTLSADKVLTF  117
               SCOP domains d1jx7d_ D: Hypothetical protein YchN                                                                                  SCOP domains
               CATH domains -1jx7D00 D:602-717  [code=3.40.1260.10, no name defined]                                                              CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee......hhhhhhhhhhhhhhhhhh...eeeeee.hhhhhhhh.........hhhhhhhhhhh....eeeehhhhhhh..........eeeehhhhhhhhhhhh.eeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                1jx7 D  601 mQKIVIVANGAPYGSESLFNSLRLAIALREQESNLDLRLFLmSDAVTAGLRGQKPGEGYNIQQmLEILTAQNVPVKLCKTCTDGRGISTLPLIDGVEIGTLVELAQWTLSADKVLTF  717
                            |      610       620       630       640 |     650       660   |   670       680       690       700       710       
                          601-MSE                                  642-MSE               664-MSE

Chain E from PDB  Type:PROTEIN  Length:117
 aligned with YCHN_ECOLI | P0AB52 from UniProtKB/Swiss-Prot  Length:117

    Alignment length:117
                                    10        20        30        40        50        60        70        80        90       100       110       
          YCHN_ECOLI      1 MQKIVIVANGAPYGSESLFNSLRLAIALREQESNLDLRLFLMSDAVTAGLRGQKPGEGYNIQQMLEILTAQNVPVKLCKTCTDGRGISTLPLIDGVEIGTLVELAQWTLSADKVLTF  117
               SCOP domains d1jx7e_ E: Hypothetical protein YchN                                                                                  SCOP domains
               CATH domains -1jx7E00 E:802-917  [code=3.40.1260.10, no name defined]                                                              CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee......hhhhhhhhhhhhhhhh.....eeeeee.hhhhhhhh.........hhhhhhhhhh.....eeeehhhhhhh..........eeeehhhhhhhhhhh..eeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                1jx7 E  801 mQKIVIVANGAPYGSESLFNSLRLAIALREQESNLDLRLFLmSDAVTAGLRGQKPGEGYNIQQmLEILTAQNVPVKLCKTCTDGRGISTLPLIDGVEIGTLVELAQWTLSADKVLTF  917
                            |      810       820       830       840 |     850       860   |   870       880       890       900       910       
                          801-MSE                                  842-MSE               864-MSE

Chain F from PDB  Type:PROTEIN  Length:117
 aligned with YCHN_ECOLI | P0AB52 from UniProtKB/Swiss-Prot  Length:117

    Alignment length:117
                                    10        20        30        40        50        60        70        80        90       100       110       
          YCHN_ECOLI      1 MQKIVIVANGAPYGSESLFNSLRLAIALREQESNLDLRLFLMSDAVTAGLRGQKPGEGYNIQQMLEILTAQNVPVKLCKTCTDGRGISTLPLIDGVEIGTLVELAQWTLSADKVLTF  117
               SCOP domains d1jx7f_ F: Hypothetical protein YchN                                                                                  SCOP domains
               CATH domains -1jx7F00 F:1002-1117  [code=3.40.1260.10, no name defined]                                                            CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee......hhhhhhhhhhhhhhhhhh...eeeeee.hhhhhhhh.........hhhhhhhhhhh....eeeehhhhhhhh.........eeeehhhhhhhhhhhh.eeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                1jx7 F 1001 mQKIVIVANGAPYGSESLFNSLRLAIALREQESNLDLRLFLmSDAVTAGLRGQKPGEGYNIQQmLEILTAQNVPVKLCKTCTDGRGISTLPLIDGVEIGTLVELAQWTLSADKVLTF 1117
                            |     1010      1020      1030      1040 |    1050      1060   |  1070      1080      1090      1100      1110       
                         1001-MSE                                 1042-MSE              1064-MSE

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 '\|'

Asymmetric/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a/b) (23833)

Fold: DsrEFH-like (14)

Superfamily: DsrEFH-like (14)

Family: DsrEF-like (8)

Protein domain: Hypothetical protein YchN (1)

Escherichia coli [TaxId: 562] (1)

1a	d1jx7a_	A:
1b	d1jx7b_	B:
1c	d1jx7c_	C:
1d	d1jx7d_	D:
1e	d1jx7e_	E:
1f	d1jx7f_	F:

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Hypothetical Protein Ychn; Chain: A, (8)

Homologous Superfamily: [code=3.40.1260.10, no name defined] (8)

Escherichia coli. Organism_taxid: 562. (1)

1a	1jx7A00	A:2-117
1b	1jx7B00	B:202-317
1c	1jx7C00	C:402-517
1d	1jx7D00	D:602-717
1e	1jx7E00	E:802-917
1f	1jx7F00	F:1002-1117

(no "Pfam Domain" information available for 1JX7)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B,C,D,E,F (YCHN_ECOLI | P0AB52)

cellular component
	GO:0005829		cytosol		The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

Asymmetric/Biological Unit
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Description

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Ligands, Modified Residues, Ions (1, 18)

Sites (0, 0)

SS Bonds (0, 0)

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