4Q6Q - JenaLib

Title :   STRUCTURAL ANALYSIS OF THE ZN-FORM II OF HELICOBACTER PYLORI CSD4, A D,L-CARBOXYPEPTIDASE

Authors :   H. S. Kim, J. Kim, H. N. Im, D. R. An, M. Lee, D. Hesek, S. Mobashery, J. Y. Ki H. J. Yoon, B. W. Han, B. I. Lee, S. W. Suh

Date :   23 Apr 14 (Deposition) - 05 Nov 14 (Release) - 19 Nov 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.40

Chains :   Asym./Biol. Unit : A

Keywords :   M14 Metallopeptidase, D, L-Carboxypeptidase, Peptidoglycan, Csd5, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   H. S. Kim, J. Kim, H. N. Im, D. R. An, M. Lee, D. Hesek, S. Mobashery, J. Y. Kim, K. Cho, H. J. Yoon, B. W. Han, B. I. Lee, S. W. Suh
Structural Basis For The Recognition Of Muramyltripeptide B Helicobacter Pylori Csd4, A D, L-Carboxypeptidase Controllin The Helical Cell Shape
Acta Crystallogr. , Sect. D V. 70 2800 2014
PubMed-ID: 25372672 | Reference-DOI: 10.1107/S1399004714018732

Compounds

Molecule 1 - CONSERVED HYPOTHETICAL SECRETED PROTEIN
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Fragment	:	UNP RESIDUES 22-438
	Gene	:	HP_1075
	Organism Scientific	:	HELICOBACTER PYLORI
	Organism Taxid	:	85962
	Strain	:	ATCC 700392
	Synonym	:	CSD4

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 5)

Sites (4, 4)

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HOH A:796 , HOH A:797 , HOH A:798	BINDING SITE FOR RESIDUE ZN A 501
2	AC2	SOFTWARE	ASN A:382 , VAL A:383 , PHE A:386 , GLU A:396 , HOH A:636 , HOH A:665	BINDING SITE FOR RESIDUE ZN A 502
3	AC3	SOFTWARE	ASN A:173 , GLU A:176 , GLY A:398 , HOH A:674 , HOH A:773 , HOH A:787 , HOH A:813	BINDING SITE FOR RESIDUE CA A 504
4	AC4	SOFTWARE	ASN A:93 , ARG A:94 , HIS A:126 , HIS A:128 , MET A:203 , ALA A:206 , LEU A:207 , THR A:208 , ALA A:220 , GLU A:222 , HOH A:623 , HOH A:630	BINDING SITE FOR RESIDUE API A 505

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
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Chain A from PDB  Type:PROTEIN  Length:417
                                                                                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee...hhhhhhhh.eeeee......hhhhhhhhhhhhhheee...eeeee...hhhhhhh.......hhhhh.........hhhhhhhhhhhhhh....eeeeeeee..ee........ee......eeee...........hhhhhhhhhhhhhhh...hhhhh.eeee.hhhhh..hhhhhhhhhhhhh..eeeeeeee...hhhhhhhhhhhhhhhhhhhhh..eee....hhhhhhhhhh....eeee.....ee......eeeeeeee...hhhhh.eee....eeeeee..eeeeee..eeeeeeeeeeeee.....eeeeee..eeeeee...eeee..eeee......eeee................eee.hhhhhhhh......eeeeeeee..eeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4q6q A  22 MIEKAPTNVEDRDKAPHLLLLAGIQGDEPGGFNATNLFLMHYSVLKGLVEVVPVLNKPSMLRNHRGLYGDMNRKFAALDKNDPEYPTIQEIKSLIAKPSIDAVLHLHDGGGYYRPVYVDAMLNPKRWGNCFIIDQDEVKGAKFPNLLAFANNTIESINAHLLHPIEEYHLKNTRTAQGDTEMQKALTFYAINQKKSAFANEASKELPLASRVFYHLQAIEGLLNQLNIPFKRDFDLNPNSVHALINDKNLWAKISSLPKMPLFNLRPKLNHFPLPHNTKIPQIPIESNAYIVGLVKNKQEVFLKYGNKLMTRLSPFYIEFDPSLEEVKMQIDNKDQMVKIGSVVEVKESFYIHAMDNIRANVIGFSVSNENKPNEAGYTIKFKDFQKRFSLDKQERIYRIEFYKNNAFSGMILVKFV 438
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431

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	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 (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (1, 1)

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