5HJ5 - JenaLib

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Biological Unit 6 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF TERTIARY COMPLEX OF GLUCOSAMINE-6-PHOSPHATE DEAMINASE FROM VIBRIO CHOLERAE WITH BETA-D-GLUCOSE-6-PHOSPHATE AND FRUCTOSE-6-PHOSPHATE

Authors :   C. Chang, N. Maltseva, Y. Kim, K. Kwon, W. F. Anderson, A. Joachimiak, Ce Structural Genomics Of Infectious Diseases (Csgid)

Date :   12 Jan 16 (Deposition) - 03 Feb 16 (Release) - 03 Feb 16 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.70

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A  (3x)
Biol. Unit 2: B  (3x)
Biol. Unit 3: C  (3x)
Biol. Unit 4: D  (3x)
Biol. Unit 5: A (3x),C (3x)
Biol. Unit 6: B (3x),D (3x)

Keywords :   Structural Genomics, Center For Structural Genomics Of Infectious Diseases, Csgid, Glucosamine-6-Phosphate Deaminase, Vibrio Cholerae, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. Chang, N. Maltseva, Y. Kim, K. Kwon, W. F. Anderson, A. Joachimiak, Center For Structural Genomics Of Infectious Diseases (Csgid)
Crystal Structure Of Tertiary Complex Of Glucosamine-6-Phosphate Deaminase From Vibrio Cholerae With Beta-D-Glucose-6-Phosphate And Fructose -6-Phosphate
To Be Published
PubMed: search

Molecule 1 - GLUCOSAMINE-6-PHOSPHATE DEAMINASE
	Chains	:	A, B, C, D
	EC Number	:	3.5.99.6
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PMCSG28
	Expression System Strain	:	BL21(DE3)MAGIC
	Expression System Taxid	:	562
	Gene	:	NAGB, VC_A1025
	Organism Scientific	:	VIBRIO CHOLERAE SEROTYPE O1 (STRAIN ATCC 39315 / EL TOR INABA N16961)
	Organism Taxid	:	243277
	Strain	:	ATCC 39315 / EL TOR INABA N16961
	Synonym	:	GLCN6P DEAMINASE,GNPDA,GLUCOSAMINE-6-PHOSPHATE ISOMERASE

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (3x)	:	A
Biological Unit 2 (3x)	:		B
Biological Unit 3 (3x)	:			C
Biological Unit 4 (3x)	:				D
Biological Unit 5 (3x)	:	A (3x)		C (3x)
Biological Unit 6 (3x)	:		B (3x)		D (3x)

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 15)

No.	Name	Count	Type	Full Name
1	ACY	1	Ligand/Ion	ACETIC ACID
2	BG6	4	Ligand/Ion	BETA-D-GLUCOSE-6-PHOSPHATE
3	F6R	4	Ligand/Ion	FRUCTOSE -6-PHOSPHATE
4	GOL	6	Ligand/Ion	GLYCEROL

Biological Unit 1 (3, 15)

No.	Name	Count	Type	Full Name
1	ACY	-1	Ligand/Ion	ACETIC ACID
2	BG6	3	Ligand/Ion	BETA-D-GLUCOSE-6-PHOSPHATE
3	F6R	3	Ligand/Ion	FRUCTOSE -6-PHOSPHATE
4	GOL	9	Ligand/Ion	GLYCEROL

Biological Unit 2 (4, 12)

No.	Name	Count	Type	Full Name
1	ACY	3	Ligand/Ion	ACETIC ACID
2	BG6	3	Ligand/Ion	BETA-D-GLUCOSE-6-PHOSPHATE
3	F6R	3	Ligand/Ion	FRUCTOSE -6-PHOSPHATE
4	GOL	3	Ligand/Ion	GLYCEROL

Biological Unit 3 (3, 9)

No.	Name	Count	Type	Full Name
1	ACY	-1	Ligand/Ion	ACETIC ACID
2	BG6	3	Ligand/Ion	BETA-D-GLUCOSE-6-PHOSPHATE
3	F6R	3	Ligand/Ion	FRUCTOSE -6-PHOSPHATE
4	GOL	3	Ligand/Ion	GLYCEROL

Biological Unit 4 (3, 9)

No.	Name	Count	Type	Full Name
1	ACY	-1	Ligand/Ion	ACETIC ACID
2	BG6	3	Ligand/Ion	BETA-D-GLUCOSE-6-PHOSPHATE
3	F6R	3	Ligand/Ion	FRUCTOSE -6-PHOSPHATE
4	GOL	3	Ligand/Ion	GLYCEROL

Biological Unit 5 (3, 15)

No.	Name	Count	Type	Full Name
1	ACY	-1	Ligand/Ion	ACETIC ACID
2	BG6	3	Ligand/Ion	BETA-D-GLUCOSE-6-PHOSPHATE
3	F6R	3	Ligand/Ion	FRUCTOSE -6-PHOSPHATE
4	GOL	9	Ligand/Ion	GLYCEROL

Biological Unit 6 (4, 12)

No.	Name	Count	Type	Full Name
1	ACY	3	Ligand/Ion	ACETIC ACID
2	BG6	3	Ligand/Ion	BETA-D-GLUCOSE-6-PHOSPHATE
3	F6R	3	Ligand/Ion	FRUCTOSE -6-PHOSPHATE
4	GOL	3	Ligand/Ion	GLYCEROL

Asymmetric Unit (15, 15)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	PRO A:40 , THR A:41 , GLY A:42 , GLY A:43 , THR A:44 , MET A:71 , ASP A:72 , GLY A:137 , VAL A:138 , HIS A:143 , ALA A:145 , ARG A:172 , LYS A:208 , HOH A:420 , HOH A:448 , HOH A:449 , HOH A:479 , HOH A:485 , HOH A:489 , HOH A:550	binding site for residue F6R A 301
02	AC2	SOFTWARE	MET A:1 , ARG A:2 , SER A:151 , SER A:152 , ARG A:158 , LYS A:160 , THR A:161 , HOH A:405 , HOH A:427 , HOH A:445 , HOH A:466 , HOH A:474 , HOH A:496 , HOH A:585	binding site for residue BG6 A 302
03	AC3	SOFTWARE	TYR A:90 , PHE A:94 , ASN A:95 , ILE A:97 , ILE A:99 , GLU A:101	binding site for residue GOL A 303
04	AC4	SOFTWARE	ARG A:86 , TYR A:90 , GLU A:101 , ILE A:104 , LEU A:106 , HOH A:439 , HOH A:475	binding site for residue GOL A 304
05	AC5	SOFTWARE	LYS A:130 , LEU A:194 , ASP A:195 , ALA A:196 , GLN A:197 , PRO A:233 , HOH A:609	binding site for residue GOL A 305
06	AC6	SOFTWARE	THR B:41 , GLY B:42 , GLY B:43 , THR B:44 , MET B:71 , ASP B:72 , GLY B:137 , VAL B:138 , HIS B:143 , ALA B:145 , ARG B:172 , LYS B:208 , HOH B:431 , HOH B:435 , HOH B:450 , HOH B:468 , HOH B:479 , HOH B:490 , HOH B:505	binding site for residue F6R B 301
07	AC7	SOFTWARE	MET B:1 , ARG B:2 , SER B:151 , SER B:152 , ARG B:158 , LYS B:160 , THR B:161 , HOH B:408 , HOH B:416 , HOH B:446 , HOH B:447 , HOH B:464 , HOH B:551 , HOH B:590	binding site for residue BG6 B 302
08	AC8	SOFTWARE	TRP B:15 , HIS B:19	binding site for residue ACY B 303
09	AC9	SOFTWARE	ARG B:86 , TYR B:90 , GLU B:101 , ILE B:104 , LEU B:106 , HOH B:429 , HOH B:480	binding site for residue GOL B 304
10	AD1	SOFTWARE	PRO C:40 , THR C:41 , GLY C:42 , GLY C:43 , THR C:44 , MET C:71 , ASP C:72 , GLY C:137 , VAL C:138 , HIS C:143 , ALA C:145 , ARG C:172 , LYS C:208 , HOH C:425 , HOH C:438 , HOH C:451 , HOH C:458 , HOH C:467 , HOH C:485 , HOH C:523	binding site for residue F6R C 301
11	AD2	SOFTWARE	MET C:1 , ARG C:2 , SER C:151 , SER C:152 , ARG C:158 , LYS C:160 , THR C:161 , ASN C:262 , HOH C:411 , HOH C:414 , HOH C:439 , HOH C:464 , HOH C:468 , HOH C:495	binding site for residue BG6 C 302
12	AD3	SOFTWARE	ASN C:25 , PRO C:29 , VAL C:61 , SER C:62 , HOH C:401 , HOH C:410	binding site for residue GOL C 303
13	AD4	SOFTWARE	PRO D:40 , THR D:41 , GLY D:42 , GLY D:43 , THR D:44 , MET D:71 , ASP D:72 , TYR D:85 , GLY D:137 , VAL D:138 , HIS D:143 , ALA D:145 , ARG D:172 , LYS D:208 , HOH D:415 , HOH D:429 , HOH D:447 , HOH D:469 , HOH D:486 , HOH D:496 , HOH D:512	binding site for residue F6R D 301
14	AD5	SOFTWARE	MET D:1 , ARG D:2 , SER D:151 , SER D:152 , ARG D:158 , LYS D:160 , THR D:161 , ASN D:262 , HOH D:417 , HOH D:421 , HOH D:444 , HOH D:454 , HOH D:459 , HOH D:571 , HOH D:577	binding site for residue BG6 D 302
15	AD6	SOFTWARE	ARG D:86 , TYR D:90 , GLU D:101 , ILE D:104 , LEU D:106 , HOH D:416 , HOH D:516	binding site for residue GOL D 303

(no "SS Bond" information available for 5HJ5)

(no "Cis Peptide Bond" information available for 5HJ5)

(no "SAP(SNP)/Variant" information available for 5HJ5)

(no "PROSITE Motif" information available for 5HJ5)

(no "Exon" information available for 5HJ5)

Asymmetric Unit

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Chain A from PDB  Type:PROTEIN  Length:266
                                                                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee..hhhhhhhhhhhhhhhhhhhhh......eeeee.....hhhhhhhhhhhhhh.......eeeee.eee.........hhhhhhhhhhhhhh..hhh.ee.......hhhhhhhhhhhhhhhh....eeee.....................eeee.hhhhhhhhhhhh..hhhhh..eeee.hhhhhhh...eeeee.hhhhhhhhhhhhh......hhhhhhhhh..eeeee.hhhhh..hhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5hj5 A   1 MRLIPLKAAAQVGKWAAAHIVKRINEFQPTAERPFVLGLPTGGTPLATYKALIEMHKAGEVSFKHVVTFNMDEYVGLAADHPESYRSFMYNNFFNHIDIQEENINLLNGNTDDHEAECKRYEDKIKSYGKINLFMGGVGNDGHIAFNEPASSLSSRTRIKTLTEDTRIANSRFFDGDINQVPKYALTIGVGTLLDAQEIMILVTGHNKALALQAAVEGSVNHLWTVSALQLHPKAVIVCDEPSTQELKVKTVKYFTELEAKNIVGF 266
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260

Chain B from PDB  Type:PROTEIN  Length:267
                                                                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee..hhhhhhhhhhhhhhhhhhhhh......eeeee.....hhhhhhhhhhhhhh.......eeeee.eee.........hhhhhhhhhhhhhh..hhh.ee.......hhhhhhhhhhhhhhhh....eeee.....................eeee.hhhhhhhhhhhh..hhhhh..eeee.hhhhhhh...eeeee.hhhhhhhhhhhhh......hhhhhhhhh..eeeee.hhhhh..hhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5hj5 B   1 MRLIPLKAAAQVGKWAAAHIVKRINEFQPTAERPFVLGLPTGGTPLATYKALIEMHKAGEVSFKHVVTFNMDEYVGLAADHPESYRSFMYNNFFNHIDIQEENINLLNGNTDDHEAECKRYEDKIKSYGKINLFMGGVGNDGHIAFNEPASSLSSRTRIKTLTEDTRIANSRFFDGDINQVPKYALTIGVGTLLDAQEIMILVTGHNKALALQAAVEGSVNHLWTVSALQLHPKAVIVCDEPSTQELKVKTVKYFTELEAKNIVGFR 267
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260

Chain C from PDB  Type:PROTEIN  Length:266
                                                                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee..hhhhhhhhhhhhhhhhhhhhh......eeeee.....hhhhhhhhhhhhhh.......eeeee.eee.........hhhhhhhhhhhhhh..hhh.ee.......hhhhhhhhhhhhhhhh....eeee.....................eeee.hhhhhhhhhhhh..hhhhh..eeee.hhhhhhh...eeeee.hhhhhhhhhhhhh......hhhhhhhhh..eeeee.hhhhh..hhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5hj5 C   1 MRLIPLKAAAQVGKWAAAHIVKRINEFQPTAERPFVLGLPTGGTPLATYKALIEMHKAGEVSFKHVVTFNMDEYVGLAADHPESYRSFMYNNFFNHIDIQEENINLLNGNTDDHEAECKRYEDKIKSYGKINLFMGGVGNDGHIAFNEPASSLSSRTRIKTLTEDTRIANSRFFDGDINQVPKYALTIGVGTLLDAQEIMILVTGHNKALALQAAVEGSVNHLWTVSALQLHPKAVIVCDEPSTQELKVKTVKYFTELEAKNIVGF 266
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260

Chain D from PDB  Type:PROTEIN  Length:266
                                                                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee..hhhhhhhhhhhhhhhhhhhhh......eeeee.....hhhhhhhhhhhhhh.......eeeee.eee.........hhhhhhhhhhhhhh..hhh.ee.......hhhhhhhhhhhhhhhh....eeee.....................eeee.hhhhhhhhhhhh..hhhhh..eeee.hhhhhhh...eeeee.hhhhhhhhhhhhh......hhhhhhhhh..eeeee.hhhhh..hhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5hj5 D   1 MRLIPLKAAAQVGKWAAAHIVKRINEFQPTAERPFVLGLPTGGTPLATYKALIEMHKAGEVSFKHVVTFNMDEYVGLAADHPESYRSFMYNNFFNHIDIQEENINLLNGNTDDHEAECKRYEDKIKSYGKINLFMGGVGNDGHIAFNEPASSLSSRTRIKTLTEDTRIANSRFFDGDINQVPKYALTIGVGTLLDAQEIMILVTGHNKALALQAAVEGSVNHLWTVSALQLHPKAVIVCDEPSTQELKVKTVKYFTELEAKNIVGF 266
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260

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Ligands, Modified Residues, Ions (4, 15)

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